Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015065.1 Kokia drynarioides strain JFW-HI SEQ_130109, 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: 941295
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 356 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:638652 original size:16 final size:16
Alignment explanation
Indices: 638631--638661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
638621 AGTTTATTTT
638631 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
*
638647 AATAATAATTTTTAA
1 AATAATAAATTTTAA
638662 ATTTAAATAA
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:641437 original size:40 final size:40
Alignment explanation
Indices: 641386--641467 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
641376 GGATGTAGTG
*
641386 ATTATTTGTTTACTTTTATGCTATAGTTATGTCAGCATGT
1 ATTATTTGTTTAATTTTATGCTATAGTTATGTCAGCATGT
641426 ATTATTTGTTTAATTTTATGCTATAGTTATGTCAGCATGT
1 ATTATTTGTTTAATTTTATGCTATAGTTATGTCAGCATGT
641466 AT
1 AT
641468 CTGATAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (40 bp):
ATTATTTGTTTAATTTTATGCTATAGTTATGTCAGCATGT
Found at i:643952 original size:6 final size:6
Alignment explanation
Indices: 643941--643986 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
643931 AAAGAGATAT
*
643941 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATA GTGATG GTGA
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGA
643987 GATGTGTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
GTGATG
Found at i:655464 original size:24 final size:26
Alignment explanation
Indices: 655409--655464 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
655399 TACAAATAAT
*
655409 TAAT-AATAAATATTATATAATTTAG
1 TAATAAATAAATATTAAATAATTTAG
*
655434 TTA-AAATAAATA-TAAATAATTTA-
1 TAATAAATAAATATTAAATAATTTAG
655457 TAATAAAT
1 TAATAAAT
655465 GATAGATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.08
24 14 0.54
25 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TAATAAATAAATATTAAATAATTTAG
Found at i:659011 original size:15 final size:15
Alignment explanation
Indices: 658988--659022 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
658978 TAAATAAAAT
658988 TAAATA-AAAATTTA
1 TAAATATAAAATTTA
659002 -AAATATAAAATTTA
1 TAAATATAAAATTTA
659016 TAAATAT
1 TAAATAT
659023 TTCAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 8 0.42
15 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATAAAATTTA
Found at i:659505 original size:19 final size:20
Alignment explanation
Indices: 659449--659548 Score: 89
Period size: 20 Copynumber: 5.2 Consensus size: 20
659439 TTTTTATAAC
*
659449 GCAATACC-ATATTTTTAAT
1 GCAATACCAAAATTTTTAAT
* * *
659468 -TAATACCAAAAATTCTAAT
1 GCAATACCAAAATTTTTAAT
* *
659487 G-GATACCAATATTTTTAAT
1 GCAATACCAAAATTTTTAAT
* *
659506 GCAATATCAAAATTTTTATT
1 GCAATACCAAAATTTTTAAT
**
659526 GTGATACCAAAATTTTTAAT
1 GCAATACCAAAATTTTTAAT
659546 GCA
1 GCA
659549 TATCAAATTT
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
18 6 0.10
19 23 0.38
20 31 0.52
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (20 bp):
GCAATACCAAAATTTTTAAT
Found at i:660314 original size:20 final size:19
Alignment explanation
Indices: 660267--660316 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
660257 TGAGATACTT
*
660267 TTAAAAACTTTGGTATTATG
1 TTAAAAA-TTTGATATTATG
* *
660287 ATAGAAATATTGATATTATG
1 TTAAAAAT-TTGATATTATG
660307 TTAAAAATTT
1 TTAAAAATTT
660317 TAGTATTCCG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (19 bp):
TTAAAAATTTGATATTATG
Found at i:660323 original size:20 final size:19
Alignment explanation
Indices: 660267--660323 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
660257 TGAGATACTT
*
660267 TTAAAAACTTTGGTATTATG
1 TTAAAAA-TTTTGTATTATG
* * *
660287 ATAGAAATATTGATATTATG
1 TTAAAAATTTTG-TATTATG
660307 TTAAAAATTTTAGTATT
1 TTAAAAATTTT-GTATT
660324 CCGTCAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TTAAAAATTTTGTATTATG
Found at i:665543 original size:29 final size:28
Alignment explanation
Indices: 665511--665568 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
665501 TTCCACACCT
*
665511 TGTGTGATATTATTCTGTGTTGTGTTATC
1 TGTGTGATATTATTCTGTGCTGTG-TATC
*
665540 TGTGTGATTTTATTCTGTGCTGTGTATC
1 TGTGTGATATTATTCTGTGCTGTGTATC
665568 T
1 T
665569 TATGTTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.12, C:0.09, G:0.24, T:0.55
Consensus pattern (28 bp):
TGTGTGATATTATTCTGTGCTGTGTATC
Found at i:668297 original size:18 final size:17
Alignment explanation
Indices: 668264--668297 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
668254 CATAACTATT
*
668264 AAACTTACTAAGTTATA
1 AAACTTACCAAGTTATA
668281 AAACTTACCACAGTTAT
1 AAACTTACCA-AGTTAT
668298 TGTTGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (17 bp):
AAACTTACCAAGTTATA
Found at i:671628 original size:28 final size:28
Alignment explanation
Indices: 671595--671650 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
671585 CGCAGCATTT
671595 ATGGATCTAATGAACAGAATATTTCAAC
1 ATGGATCTAATGAACAGAATATTTCAAC
*
671623 ATGGATCTAATGAACATAATATTTCAAC
1 ATGGATCTAATGAACAGAATATTTCAAC
671651 CTCAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (28 bp):
ATGGATCTAATGAACAGAATATTTCAAC
Found at i:691964 original size:58 final size:57
Alignment explanation
Indices: 691845--692311 Score: 453
Period size: 59 Copynumber: 7.9 Consensus size: 57
691835 TATTTTTAAA
* * * ** *
691845 AAAAATCAAGGTC-AAAATGTAATTTTTAGAGGTTCAAGGGTAAAATGATAATTTTTGG
1 AAAAAT-AAGGTCAAAAATGGAA-TTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTGG
* ** * *
691903 GAAAATCGGGATCAAAAATTGAATTTTAGGAAGTTTG-GGGATAAAATTGTAATTTTTGG
1 AAAAATAAGG-TCAAAAATGGAATTTT-GGAAGTTTGAGGG-TAAAATGGTAATTTTTGG
*
691962 AAAAACTAAGGTCAAAAATGGAATTTTTGGAAATTTGAGGGTAAAATGGTAA-TTTTGG
1 AAAAA-TAAGGTCAAAAATGGAA-TTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTGG
** * *
692020 AAAAACATTGGGGTCAAAAATGAAATTTTTGAAAGTTTG-GAGGTAAAATGGTAATTTTTGG
1 -AAAA-A-TAAGGTCAAAAATGGAA-TTTTGGAAGTTTGAG-GGTAAAATGGTAATTTTTGG
* *
692081 -AAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
1 AAAAAT-AAGGTCAAAAATGGAATTTTGG-AAGTTTGAGGGTAAAATGGTAATTTTTGG
* * * **
692139 AAAAATCAATGTCAAAAATGGAATTTTGGAAAGTTTGAGGGAAAAATTGTAATTTTCAG
1 AAAAAT-AAGGTCAAAAATGGAATTTTGG-AAGTTTGAGGGTAAAATGGTAATTTTTGG
* *
692198 AAAAATTAAGGTCAAAAATAGAATTTTGGAAGTTCGAGGGGTAAAATGGTAATTTTTGG
1 AAAAA-TAAGGTCAAAAATGGAATTTTGGAAGTTTGA-GGGTAAAATGGTAATTTTTGG
* *
692257 AAAAATTAGGGT-TAAAATGGAATTTTTGGAAGTTT-AGGGGTAAAATGGTAATTTT
1 AAAAA-TAAGGTCAAAAATGGAA-TTTTGGAAGTTTGA-GGGTAAAATGGTAATTTT
692312 GGATAGTTTA
Statistics
Matches: 344, Mismatches: 47, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
57 8 0.02
58 94 0.27
59 185 0.54
60 51 0.15
61 6 0.02
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.32
Consensus pattern (57 bp):
AAAAATAAGGTCAAAAATGGAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTGG
Found at i:691988 original size:118 final size:115
Alignment explanation
Indices: 691819--692311 Score: 503
Period size: 118 Copynumber: 4.2 Consensus size: 115
691809 TTAAGAAAGT
* ** * * * *
691819 TTTGGGGTAAAGATGCT-ATTTTTAAAAAAAATCAAGGTC-AAAATGTAATTTTTAGAGGTTCAA
1 TTTGGGGTAAA-ATGGTAATTTTTGGAAAAACT-AAGGTCAAAAATGGAA-TTTTGGAAGTTCAA
* * * *
691882 GGGTAAAATGATAATTTTTGGGAAAATCGGGATCAAAAATTGAATTTTAGGAAG
63 GGGTAAAATGGTAATTTTTGGAAAAATCGGG-TCAAAAATGGAATTTTTGGAAG
* * **
691936 TTTGGGGATAAAATTGTAATTTTTGGAAAAACTAAGGTCAAAAATGGAATTTTTGGAAATTTGAG
1 TTTGGGG-TAAAATGGTAATTTTTGGAAAAACTAAGGTCAAAAATGGAA-TTTTGGAAGTTCAAG
* * *
692001 GGTAAAATGGTAA-TTTTGGAAAAACATTGGGGTCAAAAATGAAATTTTTGAAAG
64 GGTAAAATGGTAATTTTTGG-AAAA-A-TCGGGTCAAAAATGGAATTTTTGGAAG
* * *
692055 TTTGGAGGTAAAATGGTAATTTTTGGAAAATC-AAGGTTAAAAATGGAATTTTGGAAAGTTCGAG
1 TTTGG-GGTAAAATGGTAATTTTTGGAAAAACTAAGGTCAAAAATGGAATTTTGG-AAGTTCAAG
**
692119 GGTAAAATGGTAATTTTTGGAAAAATCAATGTCAAAAATGGAA-TTTTGGAAAG
64 GGTAAAATGGTAATTTTTGGAAAAATC-GGGTCAAAAATGGAATTTTTGG-AAG
* * ** * * *
692172 TTTGAGGGAAAAATTGTAATTTTCAGAAAAATTAAGGTCAAAAATAGAATTTTGGAAGTTCGAGG
1 TTTG-GGGTAAAATGGTAATTTTTGGAAAAACTAAGGTCAAAAATGGAATTTTGGAAGTTC-AAG
* *
692237 GGTAAAATGGTAATTTTTGGAAAAATTAGGGT-TAAAATGGAATTTTTGGAAG
64 GGTAAAATGGTAATTTTTGGAAAAA-TCGGGTCAAAAATGGAATTTTTGGAAG
692289 TTTAGGGGTAAAATGGTAATTTT
1 TTT-GGGGTAAAATGGTAATTTT
692312 GGATAGTTTA
Statistics
Matches: 315, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
116 6 0.02
117 105 0.33
118 145 0.46
119 53 0.17
120 6 0.02
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (115 bp):
TTTGGGGTAAAATGGTAATTTTTGGAAAAACTAAGGTCAAAAATGGAATTTTGGAAGTTCAAGGG
TAAAATGGTAATTTTTGGAAAAATCGGGTCAAAAATGGAATTTTTGGAAG
Found at i:692253 original size:29 final size:28
Alignment explanation
Indices: 692221--692324 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 28
692211 AAAAATAGAA
692221 TTTTGGAAGTTCGAGGGGTAAAATGGTAAT
1 TTTTGGAAGTT--AGGGGTAAAATGGTAAT
* *
692251 TTTTGGAAAAATTAGGGTTAAAATGG-AAT
1 TTTTGG--AAGTTAGGGGTAAAATGGTAAT
692280 TTTTGGAAGTTTAGGGGTAAAATGGTAA-
1 TTTTGGAAG-TTAGGGGTAAAATGGTAAT
692308 TTTTGGATAGTTTAGGG
1 TTTTGGA-AG-TTAGGG
692325 ACCTTCAAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.03
28 21 0.32
29 20 0.31
30 18 0.28
32 4 0.06
ACGTcount: A:0.32, C:0.01, G:0.31, T:0.37
Consensus pattern (28 bp):
TTTTGGAAGTTAGGGGTAAAATGGTAAT
Found at i:693369 original size:3 final size:3
Alignment explanation
Indices: 693361--693430 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
693351 AAATATTTAT
* * * *
693361 TTA TTA TTA TTA TTA -AA TTCA TTA TTA CTG TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
693406 TTA TTA TTA TTA TTTA TTA -TA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA T
693431 AAGTAATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 3 0.05
3 46 0.84
4 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:693374 original size:24 final size:23
Alignment explanation
Indices: 693347--693419 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
693337 TTATTTTAAA
693347 TATTAAATATTTATTTATTATTAT
1 TATTAAATATTTA-TTATTATTAT
* *
693371 TATTAAAT-TCATTATTACTGTTAT
1 TATTAAATAT--TTATTATTATTAT
693395 TATT-AATA-TTATTATTATTAT
1 TATTAAATATTTATTATTATTAT
693416 TATT
1 TATT
693420 TATTATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 15 0.36
23 4 0.10
24 20 0.48
25 3 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (23 bp):
TATTAAATATTTATTATTATTAT
Found at i:693396 original size:12 final size:12
Alignment explanation
Indices: 693365--693453 Score: 76
Period size: 12 Copynumber: 7.4 Consensus size: 12
693355 ATTTATTTAT
693365 TATTATTATTAA
1 TATTATTATTAA
*
693377 -ATTCATTATTAC
1 TATT-ATTATTAA
*
693389 TGTTATTATTAA
1 TATTATTATTAA
*
693401 TATTATTATTAT
1 TATTATTATTAA
693413 TATTATTTATT-A
1 TATTA-TTATTAA
* *
693425 TATTATAAGTAA
1 TATTATTATTAA
*
693437 TA-TATTAATTAC
1 TATTATT-ATTAA
693449 TATTA
1 TATTA
693454 ATGGCTTTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
11 9 0.15
12 42 0.70
13 9 0.15
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:694186 original size:12 final size:12
Alignment explanation
Indices: 694169--694225 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
694159 ATAATAGTTT
694169 TAAATTTAAATA
1 TAAATTTAAATA
694181 TAAATTTAAACT-
1 TAAATTTAAA-TA
*
694193 TAAA-TTAAATT
1 TAAATTTAAATA
*
694204 TAAATTTTAGA-A
1 TAAA-TTTAAATA
694216 TAAATTTAAA
1 TAAATTTAAA
694226 ATGGGTTGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 1 0.03
11 14 0.37
12 18 0.47
13 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:694190 original size:18 final size:18
Alignment explanation
Indices: 694167--694225 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
694157 TTATAATAGT
694167 TTTAAATTTAAATATAAA
1 TTTAAATTTAAATATAAA
*
694185 TTTAAACTTAAAT-TAAA
1 TTTAAATTTAAATATAAA
*
694202 TTTAAATTTTAGA-ATAAA
1 TTTAAA-TTTAAATATAAA
694220 TTTAAA
1 TTTAAA
694226 ATGGGTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 10 0.28
18 26 0.72
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTAAATTTAAATATAAA
Found at i:694225 original size:6 final size:6
Alignment explanation
Indices: 694167--694210 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
694157 TTATAATAGT
* *
694167 TTTAAA TTTAAA TATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
694211 TAGAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:694405 original size:28 final size:24
Alignment explanation
Indices: 694348--694398 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
694338 AGAAATAATC
*
694348 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
*
694372 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
694396 TTT
1 TTT
694399 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:694407 original size:24 final size:24
Alignment explanation
Indices: 694356--694410 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
694346 TCTTTCAGTT
*
694356 AAACTCTATTTATTTGTTTCAATT
1 AAACTCTATTTATTTGTTTCAATC
* * *
694380 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTATTTATTTGTTTCAATC
694404 AAACTCT
1 AAACTCT
694411 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTCAATC
Found at i:709357 original size:21 final size:21
Alignment explanation
Indices: 709333--709390 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
709323 TAGAGGTGAA
*
709333 ACTTGTATCGGTAAAAGTGTC
1 ACTTGTATCGGTAAAACTGTC
*
709354 ACTTGTATCGGTAGAACTGTC
1 ACTTGTATCGGTAAAACTGTC
709375 ACTTGTATCGGTAAAA
1 ACTTGTATCGGTAAAA
709391 ATCTACACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAAAACTGTC
Found at i:720996 original size:2 final size:2
Alignment explanation
Indices: 720989--721013 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
720979 AATAATAAAA
720989 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
721014 TTAAAACGTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:721458 original size:29 final size:29
Alignment explanation
Indices: 721420--721499 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
721410 AATTTTGATT
721420 AAAATAATAAATTAGA-CATTAAATTTTAA
1 AAAATAATAAATTA-ATCATTAAATTTTAA
* * * *
721449 AAAATTATAATTTAATTATGAAATTTTAA
1 AAAATAATAAATTAATCATTAAATTTTAA
721478 AAAATAATAAATTAATCATTAA
1 AAAATAATAAATTAATCATTAA
721500 TGTAATCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATAATAAATTAATCATTAAATTTTAA
Found at i:722857 original size:30 final size:28
Alignment explanation
Indices: 722823--722905 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
722813 AAAATGTTTA
*
722823 TTAGTGACTGATTTATTATTTTTTTAAAGT
1 TTAGTGACTGA-TT-TTATTTTTTTAAAAT
* * *
722853 TTAGTGACAGAGTTGTAATTTTTTAAAAT
1 TTAGTGACTGA-TTTTATTTTTTTAAAAT
722882 TTAGTGACT-ATTTTATTTTTTTAA
1 TTAGTGACTGATTTTATTTTTTTAA
722906 TTAAAACTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
27 12 0.27
28 1 0.02
29 20 0.44
30 12 0.27
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (28 bp):
TTAGTGACTGATTTTATTTTTTTAAAAT
Found at i:722903 original size:29 final size:29
Alignment explanation
Indices: 722823--722924 Score: 75
Period size: 29 Copynumber: 3.4 Consensus size: 29
722813 AAAATGTTTA
*
722823 TTAGTGACTGA-TTTATTATTTTTTTAAAGT
1 TTAGTGACT-ATTTTATT-TTTTTTTAAAAT
* * *
722853 TTAGTGACAGAGTTGTA--ATTTTTTAAAAT
1 TTAGTGAC-TA-TTTTATTTTTTTTTAAAAT
*
722882 TTAGTGACTATTTTATTTTTTTAATTAAAAC
1 TTAGTGACTATTTTATTTTTTT--TTAAAAT
*
722913 TGAGTGACTATT
1 TTAGTGACTATT
722925 GATGTACTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 22 0.39
30 9 0.16
31 17 0.30
32 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (29 bp):
TTAGTGACTATTTTATTTTTTTTTAAAAT
Found at i:731676 original size:168 final size:168
Alignment explanation
Indices: 731398--731730 Score: 621
Period size: 168 Copynumber: 2.0 Consensus size: 168
731388 TAAAATAAGT
731398 TTGGGTTTATTTTTTGCAAATATGAATGAGTTTGGATAAAATTTTAAATTCATATTTTGAACTGG
1 TTGGGTTTATTTTTTGCAAATATGAATGAGTTTGGATAAAATTTTAAATTCATATTTTGAACTGG
731463 ATCAAATTTGAATAAACATAAAATATGTTCATAACATACTTAGACTTTATCAGTCTAACCCAACA
66 ATCAAATTTGAATAAACATAAAATATGTTCATAACATACTTAGACTTTATCAGTCTAACCCAACA
731528 CAACTCATGAACACCTGTACATAATATATATATATATA
131 CAACTCATGAACACCTGTACATAATATATATATATATA
* *
731566 TTGGGTTTATTTTTTGCAAATATGAATGAGTTTGGATAAAATTTTATATTCATATTTTGAGCTGG
1 TTGGGTTTATTTTTTGCAAATATGAATGAGTTTGGATAAAATTTTAAATTCATATTTTGAACTGG
* * *
731631 ATCAAATTTGAATGAACATAAAATATGTTGATAACATACTTAGACTTTATCAGTCTAACCCAACC
66 ATCAAATTTGAATAAACATAAAATATGTTCATAACATACTTAGACTTTATCAGTCTAACCCAACA
731696 CAACTCATGAACACCTGTACATAATATATATATAT
131 CAACTCATGAACACCTGTACATAATATATATATAT
731731 TATCCATGTA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 160 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (168 bp):
TTGGGTTTATTTTTTGCAAATATGAATGAGTTTGGATAAAATTTTAAATTCATATTTTGAACTGG
ATCAAATTTGAATAAACATAAAATATGTTCATAACATACTTAGACTTTATCAGTCTAACCCAACA
CAACTCATGAACACCTGTACATAATATATATATATATA
Found at i:733515 original size:18 final size:18
Alignment explanation
Indices: 733485--733528 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
733475 TTATTCGAAT
733485 AATTCGAATTCGAAAATTA
1 AATTCG-ATTCGAAAATTA
*
733504 AATTCGATTCGAACATTA
1 AATTCGATTCGAAAATTA
733522 AATTCGA
1 AATTCGA
733529 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGATTCGAAAATTA
Found at i:733583 original size:23 final size:23
Alignment explanation
Indices: 733539--733584 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
733529 AAAAAAAATT
**
733539 TAACTCGATTCGTTTAACTCGAA
1 TAACTCGATTCGAATAACTCGAA
*
733562 TAACTCGATTCGAATAATTCGAA
1 TAACTCGATTCGAATAACTCGAA
733585 ATTCGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (23 bp):
TAACTCGATTCGAATAACTCGAA
Found at i:734613 original size:59 final size:58
Alignment explanation
Indices: 734533--734656 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 58
734523 ATACATGGAA
*
734533 ATTAACTAGTCAAAATCCTAAGTTATAGCCTAATTTGCATGCTAAAATACAAATTTAC
1 ATTAACTAGTCAAAATACTAAGTTATAGCCTAATTTGCATGCTAAAATACAAATTTAC
* *
734591 ATTAACATAGTCAAAATACTAAGTTATATCCTAATTTGCATGCTAAAATACATATTTAC
1 ATTAAC-TAGTCAAAATACTAAGTTATAGCCTAATTTGCATGCTAAAATACAAATTTAC
734650 ATTAACT
1 ATTAACT
734657 CCTCCCTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 7 0.11
59 55 0.89
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (58 bp):
ATTAACTAGTCAAAATACTAAGTTATAGCCTAATTTGCATGCTAAAATACAAATTTAC
Found at i:739648 original size:10 final size:9
Alignment explanation
Indices: 739627--739687 Score: 59
Period size: 10 Copynumber: 6.2 Consensus size: 9
739617 TTCTTTTTTG
739627 TTTTTCCTTC
1 TTTTT-CTTC
739637 TTTATTCTTC
1 TTT-TTCTTC
*
739647 TTTTTCTAC
1 TTTTTCTTC
*
739656 TTCTTCTTC
1 TTTTTCTTC
739665 TTTCTTCTTTC
1 TTT-TTC-TTC
739676 TTCTTTCTTC
1 TT-TTTCTTC
739686 TT
1 TT
739688 CCTCCCTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 14 0.33
10 18 0.42
11 10 0.23
12 1 0.02
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:739661 original size:3 final size:3
Alignment explanation
Indices: 739641--739688 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
739631 TCCTTCTTTA
* *
739641 TTC TTC TTT TTC TAC TTC TTC TTC TTTC TTC TTTC TTC TTTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC -TTC TTC -TTC TTC TTC
739689 CTCCCTCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 29 0.76
4 9 0.24
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:739671 original size:7 final size:7
Alignment explanation
Indices: 739641--739687 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
739631 TCCTTCTTTA
739641 TTCTTCT
1 TTCTTCT
739648 TT-TTC-
1 TTCTTCT
*
739653 TACTTC-
1 TTCTTCT
739659 TTCTTCT
1 TTCTTCT
739666 TTCTTCT
1 TTCTTCT
739673 TTCTTCT
1 TTCTTCT
739680 TTCTTCT
1 TTCTTCT
739687 T
1 T
739688 CCTCCCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 11 0.31
7 24 0.67
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (7 bp):
TTCTTCT
Found at i:745056 original size:20 final size:20
Alignment explanation
Indices: 745033--745077 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
745023 CCCATTAAAT
*
745033 TTTTATCTATAAGATTATTA
1 TTTTATCTATAAAATTATTA
* *
745053 TTTTATTTATAAAATTGTTA
1 TTTTATCTATAAAATTATTA
745073 TTTTA
1 TTTTA
745078 ATAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATCTATAAAATTATTA
Found at i:746164 original size:7 final size:7
Alignment explanation
Indices: 746152--746190 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
746142 TTGATGGTGG
746152 AAGTAGC
1 AAGTAGC
746159 AAGTAGC
1 AAGTAGC
746166 AAGTAGC
1 AAGTAGC
746173 AAGTAGC
1 AAGTAGC
746180 AAGTAGC
1 AAGTAGC
746187 AAGT
1 AAGT
746191 GGACCAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.28, T:0.15
Consensus pattern (7 bp):
AAGTAGC
Found at i:749048 original size:22 final size:24
Alignment explanation
Indices: 748997--749054 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
748987 ATTGTTGTAG
748997 TATTTTAATTATAAAAAATTAATA
1 TATTTTAATTATAAAAAATTAATA
* *
749021 TA-TTTAGTT-TAATAAA-TAATA
1 TATTTTAATTATAAAAAATTAATA
*
749042 TATTTTAACTATA
1 TATTTTAATTATA
749055 TTCAAGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 8 0.29
24 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTTTAATTATAAAAAATTAATA
Found at i:749823 original size:16 final size:17
Alignment explanation
Indices: 749790--749832 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
749780 ATAAATTGAC
749790 ATATTAT-TTTGAAAAT
1 ATATTATATTTGAAAAT
*
749806 ATATTATATTT-AATAT
1 ATATTATATTTGAAAAT
749822 ATACTTATATT
1 ATA-TTATATT
749833 AGAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
ATATTATATTTGAAAAT
Found at i:750982 original size:18 final size:18
Alignment explanation
Indices: 750959--751015 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 18
750949 CTTTACACCG
750959 CGTTGTGGATGAACCACT
1 CGTTGTGGATGAACCACT
*
750977 CGTTGTTGTGGTTGAACCACT
1 C---GTTGTGGATGAACCACT
* *
750998 CGTTTTGGATAAACCACT
1 CGTTGTGGATGAACCACT
751016 AGTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 15 0.47
21 17 0.53
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (18 bp):
CGTTGTGGATGAACCACT
Found at i:750986 original size:21 final size:21
Alignment explanation
Indices: 750960--751001 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
750950 TTTACACCGC
750960 GTTGTGGATGAACCACTCGTT
1 GTTGTGGATGAACCACTCGTT
*
750981 GTTGTGGTTGAACCACTCGTT
1 GTTGTGGATGAACCACTCGTT
751002 TTGGATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.36
Consensus pattern (21 bp):
GTTGTGGATGAACCACTCGTT
Found at i:751249 original size:21 final size:22
Alignment explanation
Indices: 751179--751252 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
751169 ATACATTATG
* * * *
751179 GATAAACCACTCAAACGGTGCA
1 GATAAACCGCTCAAATGATGTA
* * *
751201 GATAAAAGCTGCTCAAATGGTGTG
1 GAT-AAA-CCGCTCAAATGATGTA
751225 GATAAACCGCTC-AATGATGTA
1 GATAAACCGCTCAAATGATGTA
751246 GATAAAC
1 GATAAAC
751253 TGTTCAACTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 14 0.33
22 8 0.19
23 6 0.14
24 14 0.33
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (22 bp):
GATAAACCGCTCAAATGATGTA
Found at i:758214 original size:20 final size:20
Alignment explanation
Indices: 758189--758228 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
758179 ATTTCACAAT
758189 TCAAACATACATAGTTTTAG
1 TCAAACATACATAGTTTTAG
758209 TCAAACATACATAGTTTTAG
1 TCAAACATACATAGTTTTAG
758229 CATTATAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TCAAACATACATAGTTTTAG
Found at i:775104 original size:21 final size:22
Alignment explanation
Indices: 775074--775131 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
775064 CTAGGGGTAT
*
775074 TGAAGTAGAAAAAGAAAGA-AA
1 TGAAGAAGAAAAAGAAAGAGAA
775095 TGAAGAAGAAAAAG-AAGAGAA
1 TGAAGAAGAAAAAGAAAGAGAA
*
775116 GGAAGAA-AAAGAAGAA
1 TGAAGAAGAAA-AAGAA
775132 GACGTTGCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 24 0.75
22 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (22 bp):
TGAAGAAGAAAAAGAAAGAGAA
Found at i:775111 original size:9 final size:9
Alignment explanation
Indices: 775080--775131 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
775070 GTATTGAAGT
775080 AGAAAAAGAA
1 AGAAAAAG-A
775090 AGAAATGAAGA
1 AGAAA--AAGA
775101 AGAAAAAGA
1 AGAAAAAGA
* *
775110 AGAGAAGGA
1 AGAAAAAGA
775119 AGAAAAAGA
1 AGAAAAAGA
775128 AGAA
1 AGAA
775132 GACGTTGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 22 0.61
10 5 0.14
11 6 0.17
12 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:775560 original size:17 final size:17
Alignment explanation
Indices: 775538--775575 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
775528 TTTTCTCTAG
*
775538 TTGTCATTACATTTTAA
1 TTGTCACTACATTTTAA
*
775555 TTGTCACTGCATTTTAA
1 TTGTCACTACATTTTAA
775572 TTGT
1 TTGT
775576 TTTCACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (17 bp):
TTGTCACTACATTTTAA
Found at i:781105 original size:23 final size:21
Alignment explanation
Indices: 781064--781120 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
781054 ATATACTAAG
*
781064 ATTAAA-TTTAATTAAGCTTA
1 ATTAAACTTTAATCAAGCTTA
*
781084 ATTAAATACTTTAATCATGCTTA
1 ATT-AA-ACTTTAATCAAGCTTA
781107 ATTAAACTTTAATC
1 ATTAAACTTTAATC
781121 CTTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 3 0.09
23 15 0.47
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTAAACTTTAATCAAGCTTA
Found at i:781126 original size:18 final size:20
Alignment explanation
Indices: 781080--781130 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
781070 TTTAATTAAG
781080 CTTAATTAAATACTTTAATCA
1 CTTAATT-AATACTTTAATCA
781101 TGCTTAATTAA-ACTTTAATC-
1 --CTTAATTAATACTTTAATCA
781121 CTTAATTAAT
1 CTTAATTAAT
781131 TAAATCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
21 9 0.33
22 2 0.07
23 7 0.26
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (20 bp):
CTTAATTAATACTTTAATCA
Found at i:781739 original size:23 final size:23
Alignment explanation
Indices: 781713--781758 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
781703 TGTCTGTTTT
*
781713 TTTAATGTTCA-CGAACATGTTCA
1 TTTAAT-TTCATCAAACATGTTCA
*
781736 TTTAATTTTATCAAACATGTTCA
1 TTTAATTTCATCAAACATGTTCA
781759 CGAACAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTAATTTCATCAAACATGTTCA
Found at i:781787 original size:36 final size:35
Alignment explanation
Indices: 781717--781788 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
781707 TGTTTTTTTA
* * * *
781717 ATGTTCACGAACATGTTCATTTAATTTTATCAAAC
1 ATGTTCACGAACATGTTCAATTAATATAAACAAAC
781752 ATGTTCACGAACAATGTT-AATTAATAATAAACAAAC
1 ATGTTCACGAAC-ATGTTCAATTAAT-ATAAACAAAC
781788 A
1 A
781789 AATTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (35 bp):
ATGTTCACGAACATGTTCAATTAATATAAACAAAC
Found at i:784554 original size:21 final size:20
Alignment explanation
Indices: 784524--784573 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
784514 ATCTCTCTCG
*
784524 AAAAACAATTACAAAAGTTTC
1 AAAAAAAATTAC-AAAGTTTC
* * *
784545 AAAATAAATTTCAAATTTTC
1 AAAAAAAATTACAAAGTTTC
784565 AAAAAAAAT
1 AAAAAAAAT
784574 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAAAATTACAAAGTTTC
Found at i:786437 original size:16 final size:17
Alignment explanation
Indices: 786399--786438 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
786389 CCTAAACTTG
786399 AAAAAACTCGAACCTCA
1 AAAAAACTCGAACCTCA
*
786416 AAAAAACTTGAACC-CA
1 AAAAAACTCGAACCTCA
786432 ATAAAAA
1 A-AAAAA
786439 TAAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.60, C:0.23, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAACTCGAACCTCA
Found at i:787964 original size:45 final size:45
Alignment explanation
Indices: 787915--788064 Score: 142
Period size: 45 Copynumber: 3.3 Consensus size: 45
787905 ACAAAGACAC
787915 ATGATATGAATGATAAGATGATTATTATTTGATTGAGCATGTTAT
1 ATGATATGAATGATAAGATGATTATTATTTGATTGAGCATGTTAT
** * * ** * * *
787960 ATGATATGAACAACAAGATTG-TTAGTATCCGAAT-ATCTATGCTAT
1 ATGATATGAATGATAAGA-TGATTATTATTTGATTGAGC-ATGTTAT
* * * *
788005 AAGATATGAATGGTAAGATGATTATTATTTGGTTGAGCCTGTTAT
1 ATGATATGAATGATAAGATGATTATTATTTGATTGAGCATGTTAT
*
788050 ATGATATAAATGATA
1 ATGATATGAATGATA
788065 CGTTAGCTAG
Statistics
Matches: 76, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
44 4 0.05
45 68 0.89
46 4 0.05
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (45 bp):
ATGATATGAATGATAAGATGATTATTATTTGATTGAGCATGTTAT
Found at i:792515 original size:14 final size:14
Alignment explanation
Indices: 792496--792525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
792486 AAATCTTTCT
792496 TTATTTCTATTTTA
1 TTATTTCTATTTTA
*
792510 TTATTTCTCTTTTA
1 TTATTTCTATTTTA
792524 TT
1 TT
792526 TTATGCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTCTATTTTA
Found at i:796362 original size:35 final size:35
Alignment explanation
Indices: 796294--796375 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
796284 GATCCCAAAA
* *
796294 TTTATTATTTTGAAAAAAATTAAAATTTTAATTTTT
1 TTTATAATTTTTAAAAAAATT-AAATTTTAATTTTT
*
796330 TTTATAATTTTTAAAAAAATT-TATTTTGAATTTTT
1 TTTATAATTTTTAAAAAAATTAAATTTT-AATTTTT
*
796365 TTT-GAATTTTT
1 TTTATAATTTTT
796376 TGTTGAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.29
35 10 0.24
36 19 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (35 bp):
TTTATAATTTTTAAAAAAATTAAATTTTAATTTTT
Found at i:796381 original size:12 final size:11
Alignment explanation
Indices: 796347--796381 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
796337 TTTTTAAAAA
*
796347 AATTTATTTTG
1 AATTTTTTTTG
796358 AATTTTTTTTG
1 AATTTTTTTTG
796369 AATTTTTTGTTG
1 AATTTTTT-TTG
796381 A
1 A
796382 GAGAGACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:801686 original size:15 final size:15
Alignment explanation
Indices: 801662--801692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
801652 GGTTTTAAGT
801662 TTATAATATTTTATA
1 TTATAATATTTTATA
*
801677 TTATATTATTTTATA
1 TTATAATATTTTATA
801692 T
1 T
801693 ATTATGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATAATATTTTATA
Found at i:801811 original size:23 final size:20
Alignment explanation
Indices: 801785--801837 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
801775 CAATATAACT
801785 ATATAAAAAATTAAAATAATATA
1 ATATAAAAAATTAAAA-AA-A-A
* *
801808 ATATAAATATTTAAAAAAAA
1 ATATAAAAAATTAAAAAAAA
801828 ATA-AAAAAAT
1 ATATAAAAAAT
801838 ATAATCGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 1 0.04
22 2 0.08
23 14 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
ATATAAAAAATTAAAAAAAA
Found at i:809980 original size:18 final size:18
Alignment explanation
Indices: 809957--809998 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
809947 TGATATCAAA
809957 ATTGATTATAGTGACGAT
1 ATTGATTATAGTGACGAT
* *
809975 ATTGATTCTAGTGACGCT
1 ATTGATTATAGTGACGAT
809993 ATTGAT
1 ATTGAT
809999 CGTGACCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (18 bp):
ATTGATTATAGTGACGAT
Found at i:820684 original size:28 final size:29
Alignment explanation
Indices: 820625--820685 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
820615 GAATTAAATT
* *
820625 AAAAAAAAGGGATAAAAACGATTCATTTA
1 AAAAAAAAGGCATAAAAACGATTCATTAA
* *
820654 AAAAAAAAGGCATAAAACCTATTCA-TAA
1 AAAAAAAAGGCATAAAAACGATTCATTAA
820682 AAAA
1 AAAA
820686 GATTTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (29 bp):
AAAAAAAAGGCATAAAAACGATTCATTAA
Found at i:821083 original size:26 final size:26
Alignment explanation
Indices: 821054--821109 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
821044 TGGATTGAAT
* *
821054 TAAAAT-GAAAAGAAATAAAAAGGATC
1 TAAAATAGAAAACAAA-AAAAAGGACC
* *
821080 TAAAGTAGAAAACAAAGAAAAGGACC
1 TAAAATAGAAAACAAAAAAAAGGACC
821106 TAAA
1 TAAA
821110 TTTGGATTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.64, C:0.07, G:0.16, T:0.12
Consensus pattern (26 bp):
TAAAATAGAAAACAAAAAAAAGGACC
Found at i:826512 original size:43 final size:43
Alignment explanation
Indices: 826409--826719 Score: 333
Period size: 43 Copynumber: 7.3 Consensus size: 43
826399 TTATGAGGAA
* * * * *
826409 AAACGCCACTATAAAACATGATTTTTAGCGACGCTT-TCCCAA
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
* * * * *
826451 AAACGCCGTTAAAGAACATGGCCTTTAACGACGCTTATCTCAC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
* * *
826494 AAATGCCGCTAAAGAACATGGTCTTTAGC-AGCGCTT-TTCCAC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGA-CGCTTATCCCAC
* * * * * *
826536 AAACACCGCTATAAACCATGGTCTTTAACGACGCTTATCTCAT
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
* *
826579 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCAC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
* ** *
826622 AAACGCCGCTAAAAAACATGATCTTTAATGACGCTTATTCCAC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
* *
826665 AAACGTCGCTAAAAAACATTGTCTTTAGCGACGCTCT-TCCCAC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCT-TATCCCAC
826708 AAACGCCGCTAA
1 AAACGCCGCTAA
826720 CATTAACAAA
Statistics
Matches: 218, Mismatches: 46, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
42 61 0.28
43 156 0.72
44 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAAAACATGGTCTTTAGCGACGCTTATCCCAC
Found at i:826669 original size:86 final size:86
Alignment explanation
Indices: 826409--826719 Score: 394
Period size: 85 Copynumber: 3.6 Consensus size: 86
826399 TTATGAGGAA
* * * * * * * * *
826409 AAACGCCACTATAAAACATGATTTTTAGCGACGC-TTTCCCAAAAACGCCGTTAAAGAACATGGC
1 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAAAAAACATGGT
826473 CTTTAACGACGCTTATCTCAC
66 CTTTAACGACGCTTATCTCAC
* * * * * *
826494 AAATGCCGCTAAAGAACATGGTCTTTAGCAGCGCTTTT-CCACAAACACCGCTATAAACCATGGT
1 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAAAAAACATGGT
*
826558 CTTTAACGACGCTTATCTCAT
66 CTTTAACGACGCTTATCTCAC
*
826579 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAAAAAACATGAT
1 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAAAAAACATGGT
*
826644 CTTTAATGACGCTTAT-TCCAC
66 CTTTAACGACGCTTATCT-CAC
* * * *
826665 AAACGTCGCTAAAAAACATTGTCTTTAGCGACGCTCTTCCCACAAACGCCGCTAA
1 AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAA
826720 CATTAACAAA
Statistics
Matches: 194, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
85 101 0.52
86 93 0.48
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAAAACATGGTCTTTAGCAACGCTTTTCCCACAAACGCCGCTAAAAAACATGGT
CTTTAACGACGCTTATCTCAC
Found at i:831066 original size:41 final size:41
Alignment explanation
Indices: 831009--831534 Score: 508
Period size: 41 Copynumber: 12.7 Consensus size: 41
830999 ATATTATTTT
* *
831009 TATTGCTTTGACCTTTAGCGGCGCTTTTCCATAAGCGTCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
* *
831050 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGTCGG
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
* *
831091 TATTGCTCTGACCTTTAGCGTCGCTTTCCCATAAGCGCCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
831132 TATTGCTCTGACCTTTAGCGAG-GC-TTTCACATAAGCGCCGC
1 TATTGCTCTGACCTTTAGCG-GCGCTTTTC-CATAAGCGCCGC
* ** * *
831173 TATTGCTCTGACCTTTAGCGACGCTTCCCCATAAGTGTCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
* * * ** * *
831214 TATTGCTCTGACCTTTAACAGCACTTGGCCATAAGCGTCGT
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
*
831255 TATTGCTCTGACCTTTAGCGGCG-TTTGGCCATAAGCGCCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTT-TCCATAAGCGCCGC
* * **
831296 TATTGCTCTAACCTTTAGTGGCGCTTGGCCATAAGCGCCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
* * * * *
831337 TATTACTCTGACTTTTAGCGGCGCTTGACCATAAGCCATAAACACCGC
1 TATTGCTCTGACCTTTAGCGGCGCTT-----T--TCCATAAGCGCCGC
* * * * * *
831385 TATTGCTCTGACCTTTAGCGGCACTTTCCCGTATGTGTCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
* * ** * *
831426 TATTGCCCTGACCTTTAGCGGTGCTTGACCCTAAGTGCCGC
1 TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
** *
831467 TATTGCTCTGACCTTTAGC-GCTGCTTGACCATAAGCGCCAC
1 TATTGCTCTGACCTTTAGCGGC-GCTTTTCCATAAGCGCCGC
831508 TATTGCTCT-ACCTTTTA-CGGCG-TTTTC
1 TATTGCTCTGACC-TTTAGCGGCGCTTTTC
831535 TATCCAAACG
Statistics
Matches: 407, Mismatches: 62, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.01
40 11 0.03
41 353 0.87
42 4 0.01
43 1 0.00
48 35 0.09
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.32
Consensus pattern (41 bp):
TATTGCTCTGACCTTTAGCGGCGCTTTTCCATAAGCGCCGC
Found at i:831437 original size:89 final size:89
Alignment explanation
Indices: 831282--831460 Score: 214
Period size: 89 Copynumber: 2.0 Consensus size: 89
831272 GCGGCGTTTG
* * * * * *
831282 GCCATAAGCGCCGCTATTGCTCTAACCTTTAGTGGCGCTTGGCCATAAGCGCCGCTATTACTCTG
1 GCCATAAACACCGCTATTGCTCTAACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTACCCTG
*
831347 ACTTTTAGCGGCGCTTGACCATAA
66 ACCTTTAGCGGCGCTTGACCATAA
* * * * * * *
831371 GCCATAAACACCGCTATTGCTCTGACCTTTAGCGGCACTTTCCCGTATGTGTCGCTATTGCCCTG
1 GCCATAAACACCGCTATTGCTCTAACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTACCCTG
* *
831436 ACCTTTAGCGGTGCTTGACCCTAA
66 ACCTTTAGCGGCGCTTGACCATAA
831460 G
1 G
831461 TGCCGCTATT
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (89 bp):
GCCATAAACACCGCTATTGCTCTAACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTACCCTG
ACCTTTAGCGGCGCTTGACCATAA
Found at i:857434 original size:63 final size:63
Alignment explanation
Indices: 857335--857461 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
857325 GATATTACTG
*
857335 AGGAGTCTGAGGAGACTGTCAGATTGATTCGAGAGAGACTTAAGGTCACTTTTGATGGAAAAA
1 AGGAGTCTAAGGAGACTGTCAGATTGATTCGAGAGAGACTTAAGGTCACTTTTGATGGAAAAA
*
857398 AGGAGTCTAAGGAGACTGTCAGATTTATTCGAGAGAGACTTAAGGTCACTTTTGATGGAAAAA
1 AGGAGTCTAAGGAGACTGTCAGATTGATTCGAGAGAGACTTAAGGTCACTTTTGATGGAAAAA
857461 A
1 A
857462 ATCTTATGCT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (63 bp):
AGGAGTCTAAGGAGACTGTCAGATTGATTCGAGAGAGACTTAAGGTCACTTTTGATGGAAAAA
Found at i:859308 original size:22 final size:22
Alignment explanation
Indices: 859280--859328 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
859270 ATATTTATTG
859280 TGTGACGGTGTGCCACACCTTC
1 TGTGACGGTGTGCCACACCTTC
* *
859302 TGTGACGGTGTTCCACACCTTG
1 TGTGACGGTGTGCCACACCTTC
859324 TGTGA
1 TGTGA
859329 TAACATGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.31
Consensus pattern (22 bp):
TGTGACGGTGTGCCACACCTTC
Found at i:861040 original size:463 final size:463
Alignment explanation
Indices: 860175--861106 Score: 1580
Period size: 463 Copynumber: 2.0 Consensus size: 463
860165 TACAGATCCG
* *
860175 ATTGTTTCCCTCTAGTTTGAACCGACCACCTCGATCCTTAATGGTTTTATTATGGTTTCTTCCTC
1 ATTGTTTCCCTCTAGTTTGAACCGACCACCTCGATCCTTAATAGTTTTATTAAGGTTTCTTCCTC
* * * *
860240 TTCGGAGATATCCTCCTTTTGCCCCAAGATTCTACCCTTTCGGAACTAGAATGCTTTTACTAGAA
66 TTCGAAGATATCCCCCTTTTGCCCCAAGATTCTACCCTTTAGAAACTAGAATGCTTTTACTAGAA
* *
860305 TCACCAAGTCTAACTCCATCTAATTGCTTATTAATAACTGGGTAAGAATTTTCTTTGTAGGTAAC
131 TCACCAAATCTAACTCCATCTAATTGCTTATTAATAACTGGGTAAGAATTTTCTTTGAAGGTAAC
* *
860370 AATAGAATGCTTTCCAGAATCCAAAATTCCAGCACTAAGTGATACTGTGGTTTGAATCGATCCCT
196 AATAGAATGCTTTCCAGAATCCAAAATTCCAGCACTAAGTGATACCGTGGTTTCAATCGATCCCT
** *
860435 TAAAGGTAGGATTAAAATGCGACATCGTAGCCAAATAGGGACTAAATGAGATTTTCAATCCATTA
261 TAAAGGTAACATTAAAATGCGACATCGTAGCCAAATAGGGACTAAATGAGATTTTCAACCCATTA
*
860500 TTAATATCAACCTTCTTCATTAAAAGATCATTACTGGGAGAGTTTGCAGAATCATCATCCATTGT
326 TTAATATCAACCTTCTTCATTAAAAGATCATTACTGGGAGAGTTTGCAGAATCATCATCCACTGT
*
860565 AGCACAATTATTTTTTGAATTATTAAAATTATGCAAAGAGAGGACATTTTCTAATTTACGCCCAA
391 AGCACAATTATTTTTTGAATTATTAAAAATATGCAAAGAGAGGACATTTTCTAATTTACGCCCAA
860630 CCTTGTAA
456 CCTTGTAA
* ** *
860638 ATTGTTTCCCTTTAGTTTGAATGGACCACCTCGATCCTTAATAGTTTTATTAAGGTTTTTTCCTC
1 ATTGTTTCCCTCTAGTTTGAACCGACCACCTCGATCCTTAATAGTTTTATTAAGGTTTCTTCCTC
* *
860703 TTCGAATATATCCCCCTTTTGCCCCAAGATTCTACCTTTTAGAAACTAGAATGCTTTTACTAGAA
66 TTCGAAGATATCCCCCTTTTGCCCCAAGATTCTACCCTTTAGAAACTAGAATGCTTTTACTAGAA
860768 TCACCAAATCTAACTCCATCTAATTGCTTATTAATAA-TCGGGTAAGAATTTTCTTTGAAGGTAA
131 TCACCAAATCTAACTCCATCTAATTGCTTATTAATAACT-GGGTAAGAATTTTCTTTGAAGGTAA
* * *
860832 CAGTAGAATGCTTTCCAGGATCCAAAATTCCAGTACTAAGTGATACCGTGGTTTCAATCGATCCC
195 CAATAGAATGCTTTCCAGAATCCAAAATTCCAGCACTAAGTGATACCGTGGTTTCAATCGATCCC
**
860897 TTAAAGGTAACATTAAAATGCGATGTCGTAGCCAAATAGGGACTAAATGAGATTCTT-AACCCAT
260 TTAAAGGTAACATTAAAATGCGACATCGTAGCCAAATAGGGACTAAATGAGATT-TTCAACCCAT
860961 TATTAATATCAACCTTCTTCATTAAAAGATCATTACTGGGAGAGTTTGCAGAATCATCATCCACT
324 TATTAATATCAACCTTCTTCATTAAAAGATCATTACTGGGAGAGTTTGCAGAATCATCATCCACT
* *
861026 GTAGCACAATTATTTTTTGAATTTTTAAAAATATGCAAAGAGAGGATATTTTCTAATTTACGCCC
389 GTAGCACAATTATTTTTTGAATTATTAAAAATATGCAAAGAGAGGACATTTTCTAATTTACGCCC
861091 AACCTTGTAA
454 AACCTTGTAA
861101 ATTGTT
1 ATTGTT
861107 AATTTAGCCT
Statistics
Matches: 439, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
462 1 0.00
463 436 0.99
464 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (463 bp):
ATTGTTTCCCTCTAGTTTGAACCGACCACCTCGATCCTTAATAGTTTTATTAAGGTTTCTTCCTC
TTCGAAGATATCCCCCTTTTGCCCCAAGATTCTACCCTTTAGAAACTAGAATGCTTTTACTAGAA
TCACCAAATCTAACTCCATCTAATTGCTTATTAATAACTGGGTAAGAATTTTCTTTGAAGGTAAC
AATAGAATGCTTTCCAGAATCCAAAATTCCAGCACTAAGTGATACCGTGGTTTCAATCGATCCCT
TAAAGGTAACATTAAAATGCGACATCGTAGCCAAATAGGGACTAAATGAGATTTTCAACCCATTA
TTAATATCAACCTTCTTCATTAAAAGATCATTACTGGGAGAGTTTGCAGAATCATCATCCACTGT
AGCACAATTATTTTTTGAATTATTAAAAATATGCAAAGAGAGGACATTTTCTAATTTACGCCCAA
CCTTGTAA
Found at i:868192 original size:12 final size:13
Alignment explanation
Indices: 868170--868198 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
868160 TCTTGGCAGG
868170 TTCTGCTTCTTCT
1 TTCTGCTTCTTCT
868183 TTCT-CTTCTTCT
1 TTCTGCTTCTTCT
868195 TTCT
1 TTCT
868199 TTTTCTCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (13 bp):
TTCTGCTTCTTCT
Found at i:879967 original size:98 final size:98
Alignment explanation
Indices: 879787--880149 Score: 435
Period size: 98 Copynumber: 3.7 Consensus size: 98
879777 GTCTCAGCAC
* * * * *
879787 CATGAAAGG-AAAGATCTAAGCCACAACGGCGGATCAAGTACCA-AGAAGATATGAAGGGAAATG
1 CATG-AAGGAAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACA-AAGACATAAAGGGAAAGG
* * *
879850 TTTAAGTTGCAACGGCGAACCTTGCACCTCAAAGA
64 TTTAAGTTGCAATGGCGAACCTTGAACCTCAGAGA
* * * * * *
879885 CACGAAGGGAAAGATCTAAGCTGCAACGGCGGATCTAGTACCGCAAAGACACAAAGGGAAGGGTT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACAAAGACATAAAGGGAAAGGTT
* *
879950 TAAGTCGCAATGACGAACCTTGAACCTCAGAGA
66 TAAGTTGCAATGGCGAACCTTGAACCTCAGAGA
* * * *
879983 CATGAAGGAAAAAATCTAAGCTGCAACGGCGGAT-TCAGTACCACAAAGACATACAGGGAAGGGT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCT-AGTACCACAAAGACATAAAGGGAAAGGT
*
880047 TTAAGTTGCAATGGCGAACCTTGTACCTCAGAGA
65 TTAAGTTGCAATGGCGAACCTTGAACCTCAGAGA
* * * * * *
880081 CATGAAGGAAAAGATCTAAGCCGTAACGGTGGATCCAGTACCACGAAGACATGAAGGGAAAGATT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACAAAGACATAAAGGGAAAGGTT
880146 TAAG
66 TAAG
880150 CCACAACGAC
Statistics
Matches: 227, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
97 5 0.02
98 221 0.97
99 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (98 bp):
CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACAAAGACATAAAGGGAAAGGTT
TAAGTTGCAATGGCGAACCTTGAACCTCAGAGA
Found at i:880171 original size:98 final size:97
Alignment explanation
Indices: 879787--880257 Score: 403
Period size: 98 Copynumber: 4.8 Consensus size: 97
879777 GTCTCAGCAC
* * * *
879787 CATGAAAGG-AAAGATCTAAGCCACAACGGCGGATCAAGTACCA-AGAAGATATGAAGGGAAATG
1 CATG-AAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACA-AAGACATGAAGGGAAAGG
* * * *
879850 TTTAAGTTGCAACGGCGAACCTTGCACCTCAAAGA
64 TTTAAGTCGCAACGACGAA-CTTGTACCTCAGAGA
* * * * * ** *
879885 CACGAAGGGAAAGATCTAAGCTGCAACGGCGGATCTAGTACCGCAAAGACACAAAGGGAAGGGTT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACATGAAGGGAAAGGTT
* *
879950 TAAGTCGCAATGACGAACCTTGAACCTCAGAGA
66 TAAGTCGCAACGACGAA-CTTGTACCTCAGAGA
* * * *
879983 CATGAAGGAAAAAATCTAAGCTGCAACGGCGGATTCAGTACCACAAAGACAT-ACAGGGAAGGGT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACATGA-AGGGAAAGGT
* * *
880047 TTAAGTTGCAATGGCGAACCTTGTACCTCAGAGA
65 TTAAGTCGCAACGACGAA-CTTGTACCTCAGAGA
* * * *
880081 CATGAAGGAAAAGATCTAAGCCGTAACGGTGGATCCAGTACCACGAAGACATGAAGGGAAAGATT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACATGAAGGGAAAGGTT
* * * *
880146 TAAGCCACAACGACGAA-TTCAGTACCACGAAGATA
66 TAAGTCGCAACGACGAACTT--GTACCTC--AGAGA
** * * * * * * * * *
880181 CAAAAAGGAAAAGGTTTAAGTCACAACGGC-GAACCTTGTACCTCAGAGACATGAAGGGAAAGAT
1 CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCACAAAGACATGAAGGGAAAGGT
*
880245 CTAAGTCGCAACG
65 TTAAGTCGCAACG
880258 GCGGATCCAG
Statistics
Matches: 308, Mismatches: 56, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
96 2 0.01
97 5 0.02
98 235 0.76
99 6 0.02
100 60 0.19
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (97 bp):
CATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACATGAAGGGAAAGGTT
TAAGTCGCAACGACGAACTTGTACCTCAGAGA
Found at i:880248 original size:149 final size:147
Alignment explanation
Indices: 879980--880298 Score: 404
Period size: 149 Copynumber: 2.2 Consensus size: 147
879970 TGAACCTCAG
* * * ** * * * * * *
879980 AGACATGAAGGAAAAAATCTAAGCTGCAACGGCGGATTCAGTACCACAAAGACATACAGGGAAGG
1 AGACATGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACAAAGACAAAAAGGAAAAG
** * *
880045 GTTTAAGTTGCAATGGCGAACCTTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGTAACGG
66 GTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAACGG
* *
880110 TGGATCCAGTACCACGA
131 CGGATCCAGTACCACAA
*
880127 AGACATGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACGAAGATACAAAAAGGAAA
1 AGACATGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCAC-AA-AGACAAAAAGGAAA
* *
880192 AGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATCTAAGTCGCAAC
64 AGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAAC
*
880257 GGCGGATCCAGTACCGCAA
129 GGCGGATCCAGTACCACAA
* * *
880276 AGACATGCAGGGAAGGGTTTAAG
1 AGACATGAAGGGAAAGATTTAAG
880299 TCGCAATGAC
Statistics
Matches: 146, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
147 40 0.27
148 2 0.01
149 104 0.71
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (147 bp):
AGACATGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACAAAGACAAAAAGGAAAAG
GTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAACGG
CGGATCCAGTACCACAA
Found at i:880353 original size:49 final size:49
Alignment explanation
Indices: 879787--880358 Score: 318
Period size: 49 Copynumber: 11.6 Consensus size: 49
879777 GTCTCAGCAC
* * * * ** *
879787 CATGAAAGGAAAGATCTAAGCCACAACGGCGGATCAAGTACC-AAGAAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAG-AGA
* * ** * *
879836 TATGAAGGGAAATG-TTTAAGTTGCAACGGCGAACCTTGCACCTCAAAGA
1 CATGAAGGGAAA-GATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
* * * * * * *
879885 CACGAAGGGAAAGATCTAAGCTGCAACGGCGGATCTAGTACCGCAAAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
** * * * * * * *
879934 CACAAAGGGAAGGGTTTAAGTCGCAATGACGAACCTTGAACCTCAGAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
* * * * * *
879983 CATGAAGGAAAAAATCTAAGCTGCAACGGCGGA--TTCAGTACCACAAAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTT--GTACCTCAGAGA
* * * ** *
880032 CAT-ACAGGGAAGGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAGAGA
1 CATGA-AGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
* * * * * *
880081 CATGAAGGAAAAGATCTAAGCCGTAACGGTGGATCC-AGTACCAC-GAAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGG-CGAACCTTGTACCTCAG-AGA
* * * * *
880130 CATGAAGGGAAAGATTTAAGCCACAACGACGAA--TTCAGTACCACGAAGATA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTT--GTACCTC--AGAGA
** * * * * *
880181 CAAAAAGGAAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
* * * * *
880230 CATGAAGGGAAAGATCTAAGTCGCAACGGCGGATCC-AGTACCGCAAAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGC-GAACCTTGTACCTCAGAGA
* * * * * * *
880279 CATGCAGGGAAGGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGAGA
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
*
880328 CATGAAGGGAAAGATCTAAGCCGCAATGGCG
1 CATGAAGGGAAAGATCTAAGCCGCAACGGCG
880359 GATCCAGTAC
Statistics
Matches: 386, Mismatches: 116, Indels: 42
0.71 0.21 0.08
Matches are distributed among these distances:
47 2 0.01
48 9 0.02
49 324 0.84
50 11 0.03
51 37 0.10
52 1 0.00
53 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (49 bp):
CATGAAGGGAAAGATCTAAGCCGCAACGGCGAACCTTGTACCTCAGAGA
Found at i:880387 original size:98 final size:97
Alignment explanation
Indices: 880127--880423 Score: 346
Period size: 98 Copynumber: 3.0 Consensus size: 97
880117 AGTACCACGA
* * * * * * * *
880127 AGACATGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACGAAGATACAAAAAGGAAA
1 AGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAG--AC-ACAAGGGAA
* *
880192 AGGTTTAAGTCACAACGGCGAACCTTGTACCTCAG
63 AGGTTTAAGTCACAATGACGAACCTTGTACCTCAG
* * *
880227 AGACATGAAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCGCAAAGACATGC-AGGGAAG
1 AGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACA--CAAGGGAAA
*
880291 GGTTTAAGTCGCAATGACGAACCTTGTACCTCAG
64 GGTTTAAGTCACAATGACGAACCTTGTACCTCAG
* *
880325 AGACATGAAGGGAAAGATCTAAGCCGCAATGGCGGATCCAGTACTGCGAAGACACAAGGGGAAAG
1 AGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAA-GGGAAAG
* * *
880390 ATTTAAGTCACAATGGA-AAACCTTATACCTCAG
65 GTTTAAGTCACAAT-GACGAACCTTGTACCTCAG
880423 A
1 A
880424 AGCGTTAAAA
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
96 1 0.01
97 2 0.01
98 121 0.72
99 2 0.01
100 43 0.25
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.16
Consensus pattern (97 bp):
AGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGG
TTTAAGTCACAATGACGAACCTTGTACCTCAG
Found at i:880389 original size:247 final size:247
Alignment explanation
Indices: 879937--880402 Score: 711
Period size: 247 Copynumber: 1.9 Consensus size: 247
879927 GCAAAGACAC
* * * *
879937 AAAGGGAAGGGTTTAAGTCGCAATGACGAACCTTGAACCTCAGAGACATGAAGGAAAAAATCTAA
1 AAAGGAAAAGGTTTAAGTCACAACGACGAACCTTGAACCTCAGAGACATGAAGGAAAAAATCTAA
* * *
880002 GCTGCAACGGCGGATTCAGTACCACAAAGACATACAGGGAAGGGTTTAAGTTGCAATGGCGAACC
66 GCTGCAACGGCGGATCCAGTACCACAAAGACATACAGGGAAGGGTTTAAGTCGCAATGACGAACC
* *
880067 TTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGTAACGGTGGATCCAGTACCACGAAGACA
131 TTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA
*
880132 TGAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACGAAGATACAA
196 TCAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACGAAGATACAA
* * * *
880184 AAAGGAAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAGACATGAAGGGAAAGATCTAA
1 AAAGGAAAAGGTTTAAGTCACAACGACGAACCTTGAACCTCAGAGACATGAAGGAAAAAATCTAA
* *
880249 G-TCGCAACGGCGGATCCAGTACCGCAAAGACATGCAGGGAAGGGTTTAAGTCGCAATGACGAAC
66 GCT-GCAACGGCGGATCCAGTACCACAAAGACATACAGGGAAGGGTTTAAGTCGCAATGACGAAC
* * **
880313 CTTGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAATGGCGGATCCAGTACTGCGAAGAC
130 CTTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGAC
*
880378 A-CAAGGGGAAAGATTTAAGTCACAA
195 ATCAA-GGGAAAGATTTAAGCCACAA
880403 TGGAAAACCT
Statistics
Matches: 196, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
246 3 0.02
247 193 0.98
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (247 bp):
AAAGGAAAAGGTTTAAGTCACAACGACGAACCTTGAACCTCAGAGACATGAAGGAAAAAATCTAA
GCTGCAACGGCGGATCCAGTACCACAAAGACATACAGGGAAGGGTTTAAGTCGCAATGACGAACC
TTGTACCTCAGAGACATGAAGGAAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA
TCAAGGGAAAGATTTAAGCCACAACGACGAATTCAGTACCACGAAGATACAA
Found at i:880890 original size:17 final size:18
Alignment explanation
Indices: 880868--880956 Score: 105
Period size: 17 Copynumber: 5.1 Consensus size: 18
880858 ACCCATTTTC
880868 AATTTATTTTAAGA-TTA
1 AATTTATTTTAAGATTTA
880885 AATTTATTTTAA-ATTTA
1 AATTTATTTTAAGATTTA
* *
880902 AATTTATTCTAAAATTTA
1 AATTTATTTTAAGATTTA
*
880920 AATTTAATTTAAG-TTTA
1 AATTTATTTTAAGATTTA
*
880937 AAATTATATTTAA-ATTTA
1 AATTTAT-TTTAAGATTTA
880955 AA
1 AA
880957 ACTATTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
16 1 0.02
17 35 0.56
18 26 0.42
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTATTTTAAGATTTA
Found at i:880901 original size:6 final size:6
Alignment explanation
Indices: 880882--880956 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
880872 TATTTTAAGA
*
880882 TTAAAT TT-ATT TTAAAT TTAAAT TT--AT TCTAAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-T-AAAT TTAAAT TTAAAT
* * *
880928 TTAAGT TTAAAA TTATAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
880957 ACTATTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 3 0.05
5 10 0.18
6 38 0.69
7 1 0.02
8 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:880918 original size:18 final size:17
Alignment explanation
Indices: 880868--880956 Score: 85
Period size: 18 Copynumber: 5.1 Consensus size: 17
880858 ACCCATTTTC
*
880868 AATTTATTTTAAGA-TTA
1 AATTTA-TTTAAAATTTA
*
880885 AATTTATTTTAAATTTA
1 AATTTATTTAAAATTTA
880902 AATTTATTCTAAAATTTA
1 AATTTATT-TAAAATTTA
*
880920 AATTTAATTT-AAGTTTAA
1 AATTT-ATTTAAAATTT-A
880938 AATTATATTT-AAATTTA
1 AATT-TATTTAAAATTTA
880955 AA
1 AA
880957 ACTATTATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.08
17 25 0.40
18 28 0.45
19 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTATTTAAAATTTA
Found at i:880919 original size:24 final size:24
Alignment explanation
Indices: 880892--880954 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
880882 TTAAATTTAT
880892 TTTAAATTTAAATTTA-TTCTAAAA
1 TTTAAATTTAAATTTAGTT-TAAAA
880916 TTTAAATTT-AATTTAAGTTTAAAA
1 TTTAAATTTAAATTT-AGTTTAAAA
*
880940 -TTATATTTAAATTTA
1 TTTAAATTTAAATTTA
880955 AAACTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 13 0.37
24 20 0.57
25 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAATTTAAATTTAGTTTAAAA
Found at i:880924 original size:35 final size:35
Alignment explanation
Indices: 880868--880970 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 35
880858 ACCCATTTTC
*
880868 AATTTATTTTAAGA-TTAAATTTATTTTAAATTT-A
1 AATTTA-TTTAAAATTTAAATTTATTTTAAATTTAA
* *
880902 AATTTATTCTAAAATTTAAATTTAATTTAAGTTTAA
1 AATTTATT-TAAAATTTAAATTTATTTTAAATTTAA
** *
880938 AATTATATTT-AAATTTAAAACTATTATAAATTT
1 AATT-TATTTAAAATTTAAATTTATTTTAAATTT
880971 GAATAAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
33 2 0.04
34 10 0.18
35 35 0.61
36 6 0.11
37 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (35 bp):
AATTTATTTAAAATTTAAATTTATTTTAAATTTAA
Found at i:880957 original size:18 final size:18
Alignment explanation
Indices: 880882--880970 Score: 80
Period size: 18 Copynumber: 5.1 Consensus size: 18
880872 TATTTTAAGA
*
880882 TTAAATTTAT-TTTAAAT
1 TTAAAATTATATTTAAAT
880899 TT-AAATT-TATTCTAAAAT
1 TTAAAATTATATT-T-AAAT
* *
880917 TTAAATTTA-ATTTAAGT
1 TTAAAATTATATTTAAAT
880934 TTAAAATTATATTTAAAT
1 TTAAAATTATATTTAAAT
* *
880952 TTAAAACTAT-TATAAAT
1 TTAAAATTATATTTAAAT
880969 TT
1 TT
880971 GAATAAATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.02
16 6 0.10
17 22 0.37
18 23 0.39
19 7 0.12
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (18 bp):
TTAAAATTATATTTAAAT
Found at i:881523 original size:30 final size:30
Alignment explanation
Indices: 881487--881561 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
881477 TGGAGGTTCC
881487 TAAACTGTCTAAAAATGAACATTTTACCCT
1 TAAACTGTCTAAAAATGAACATTTTACCCT
881517 TAAACTGTCTAAAAATGAACATTTTACCCT
1 TAAACTGTCTAAAAATGAACATTTTACCCT
*
881547 TAAACT-TCCAAAAAT
1 TAAACTGTCTAAAAAT
881562 TCCATTTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 8 0.18
30 36 0.82
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (30 bp):
TAAACTGTCTAAAAATGAACATTTTACCCT
Found at i:881598 original size:58 final size:57
Alignment explanation
Indices: 881527--881896 Score: 363
Period size: 59 Copynumber: 6.3 Consensus size: 57
881517 TAAACTGTCT
* * *
881527 AAAAATGAACATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACATCGATTTTTCC
1 AAAAATTACCATTTTACCCTTGAACTTCC-AAAATTCCATTTTTGAC-TCGATTTTTCC
* * * *
881586 AAAAATTA-CATTTTACCCCTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTC
1 AAAAATTACCATTTTACCCTTGAAC-TTCCAAAATTCCATTTTTGACTC-GATTTTTCC
* * *
881644 AAAAATTA-CATTTTTACCCTCGAACTTTCTAAAATTCCATTTTTGACATTGATTTTTCC
1 AAAAATTACCA-TTTTACCCTTGAAC-TTCCAAAATTCCATTTTTGAC-TCGATTTTTCC
* *
881703 TAAAATTACCATTTTACCCCTGAACTTCCAAAATTCCATTTTTGACCTCGA-TTTTCC
1 AAAAATTACCATTTTACCCTTGAACTTCCAAAATTCCATTTTTGA-CTCGATTTTTCC
* * * * *
881760 AAGAATTACCATTTTACCCTTGAACTTCCAAAAAATCTATTTTTGACCCTGGTTTTTCC
1 AAAAATTACCATTTTACCCTTGAACTTCC-AAAATTCCATTTTTGACTC-GATTTTTCC
* ** * * *
881819 TAAAATTACCATTTTACCCTCAAACTTCCCAAAATTTCATTTTTTA-TCCCATTTTTTTCC
1 AAAAATTACCATTTTACCCTTGAACTT-CCAAAATTCCATTTTTGACT-CGA--TTTTTCC
*
881879 AAAAA-TACCTTTTTACCC
1 AAAAATTACCATTTTACCC
881897 CCAAACCTCT
Statistics
Matches: 260, Mismatches: 38, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
57 35 0.13
58 85 0.33
59 125 0.48
60 15 0.06
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (57 bp):
AAAAATTACCATTTTACCCTTGAACTTCCAAAATTCCATTTTTGACTCGATTTTTCC
Found at i:881708 original size:117 final size:118
Alignment explanation
Indices: 881538--881971 Score: 442
Period size: 117 Copynumber: 3.7 Consensus size: 118
881528 AAAATGAACA
*
881538 TTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACA-TCGATTTTTCCAAAAATTA-CATTTTA
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACACT-GATTTTTCCAAAAATTACCATTTTA
881601 CCCCTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACAT
65 CCCCTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACAT
* * * * *
881655 TTTTACCCTCGAACTTTCTAAAATTCCATTTTTGACATTGATTTTTCCTAAAATTACCATTTTAC
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAAAAATTACCATTTTAC
* * *
881720 CCCTGAAC-TTCCAAAATTCCATTTTTGA-CCTCGA-TTTTCCAAGAATTACCA-
66 CCCTGAACTTTCCAAAATTCCATTTTTGACCCT-AATTTTTTCAAAAATTA-CAT
** * * * * *
881771 TTTTACCCTTGAACTTCCAAAAAATCTATTTTTGACCCTGGTTTTTCCTAAAATTACCATTTTA-
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAAAAATTACCATTTTAC
* * * * * *
881835 CCCTCAAACTTCCCAAAATTTCATTTTTTATCCC-ATTTTTTTCCAAAAA-TACCT
66 CCCT-GAACTTTCCAAAATTCCATTTTTGA-CCCTAATTTTTT-CAAAAATTACAT
* * * * * * * *
881889 TTTTACCCCCAAACCTCTATAAATTCCA-TTTTAACCCTAATTTTTCAAAAAATTA-CATATTTA
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAAAAATTACCAT-TTTA
881952 CCCC-GAACTTTCCCAAAATT
65 CCCCTGAACTTT-CCAAAATT
881972 AACATTTTGC
Statistics
Matches: 263, Mismatches: 40, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
115 4 0.02
116 82 0.31
117 124 0.47
118 46 0.17
119 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (118 bp):
TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACACTGATTTTTCCAAAAATTACCATTTTAC
CCCTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACAT
Found at i:881875 original size:59 final size:56
Alignment explanation
Indices: 881536--881971 Score: 322
Period size: 59 Copynumber: 7.5 Consensus size: 56
881526 TAAAAATGAA
** *
881536 CATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACATCGA-TTTTTCCAAAAATTA-
1 CATTTTACCCTCGAACTTCC-AAAATTCCATTTTTGAC--CCATTTTTTCC-AAAATTAC
*
881594 CATTTTACCC-CTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTA-
1 CATTTTACCCTC-GAAC-TTCCAAAATTCCATTTTTGACCC--ATTTTTTCCAAAATTAC
*
881652 CATTTTTACCCTCGAACTTTCTAAAATTCCATTTTTGA--CATTGATTTTTCCTAAAATTAC
1 CA-TTTTACCCTCGAAC-TTCCAAAATTCCATTTTTGACCCA-T--TTTTTCC-AAAATTAC
881712 CATTTTACCC-CTGAACTTCCAAAATTCCATTTTTGACCTCGA--TTTTCCAAGAATTAC
1 CATTTTACCCTC-GAACTTCCAAAATTCCATTTTTGACC-C-ATTTTTTCCAA-AATTAC
* * *
881769 CATTTTACCCTTGAACTTCCAAAAAATCTATTTTTGACCC-TGGTTTTTCCTAAAATTAC
1 CATTTTACCCTCGAACTTCC-AAAATTCCATTTTTGACCCAT--TTTTTCC-AAAATTAC
* * * *
881828 CATTTTACCCTCAAACTTCCCAAAATTTCATTTTTTATCCCATTTTTTTCCAAAAATAC
1 CATTTTACCCTCGAACTT-CCAAAATTCCATTTTTGA-CCCA-TTTTTTCCAAAATTAC
* * * * * * * *
881887 CTTTTTACCCCCAAACCTCTATAAATTCCA-TTTTAACCCTAATTTTTCAAAAAATTA-
1 CATTTTACCCTCGAACTTCCA-AAATTCCATTTTTGACCC-ATTTTTTC-CAAAATTAC
881944 CATATTTACCC-CGAACTTTCCCAAAATT
1 CAT-TTTACCCTCGAAC-TT-CCAAAATT
881972 AACATTTTGC
Statistics
Matches: 313, Mismatches: 30, Indels: 70
0.76 0.07 0.17
Matches are distributed among these distances:
55 1 0.00
56 4 0.01
57 47 0.15
58 109 0.35
59 132 0.42
60 17 0.05
61 1 0.00
62 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (56 bp):
CATTTTACCCTCGAACTTCCAAAATTCCATTTTTGACCCATTTTTTCCAAAATTAC
Found at i:881895 original size:175 final size:174
Alignment explanation
Indices: 881525--881970 Score: 485
Period size: 175 Copynumber: 2.5 Consensus size: 174
881515 CTTAAACTGT
* *
881525 CTAAAAATGAACATTTTACCCTTAAACTTCCAAAAATTCCATTTTTGACATCGATTTTTCCAAAA
1 CTAAAAAT-ACCATTTTACCCCTAAACTTCC-AAAATTCCATTTTTGACATCGATTTTTCCAAAA
* *
881590 ATTACATTTTACCCCTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACAT
64 ATTACATTTTACCCCTGAACTTTCCAAAAATCCATTTTTGACCCTAATTTTTCCAAAAATTACAT
* * *
881655 TTTTACCCTCGAACTTTCTAAAATTCCATTTTTGACATTGATTTTTC
129 TTTTACCCTCAAACTTCCCAAAATTCCATTTTTGACATT-ATTTTTC
* * * *
881702 CTAAAATTACCATTTTACCCCTGAACTTCCAAAATTCCATTTTTGACCTCGA-TTTTCCAAGAAT
1 CTAAAAATACCATTTTACCCCTAAACTTCCAAAATTCCATTTTTGACATCGATTTTTCCAAAAAT
* * ** *
881766 TACCATTTTACCCTTGAAC-TTCCAAAAAATCTATTTTTGACCCTGGTTTTTCCTAAAATTACCA
66 TA-CATTTTACCCCTGAACTTTCC-AAAAATCCATTTTTGACCCTAATTTTTCCAAAAATTA-CA
* *
881830 -TTTTACCCTCAAACTTCCCAAAATTTCATTTTTTATCCCATT-TTTTTC
128 TTTTTACCCTCAAACTTCCCAAAATTCCATTTTTGA---CATTATTTTTC
* * * * * * * *
881878 C-AAAAATACCTTTTTACCCCCAAACCTCTATAAATTCCA-TTTTAAC-CCTAATTTTTCAAAAA
1 CTAAAAATACCATTTTACCCCTAAACTTCCA-AAATTCCATTTTTGACATC-GATTTTTCCAAAA
*
881940 ATTACATATTTACCCC-GAACTTTCCCAAAAT
64 ATTACAT-TTTACCCCTGAACTTTCCAAAAAT
881971 TAACATTTTG
Statistics
Matches: 227, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
174 18 0.08
175 139 0.61
176 59 0.26
177 7 0.03
178 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (174 bp):
CTAAAAATACCATTTTACCCCTAAACTTCCAAAATTCCATTTTTGACATCGATTTTTCCAAAAAT
TACATTTTACCCCTGAACTTTCCAAAAATCCATTTTTGACCCTAATTTTTCCAAAAATTACATTT
TTACCCTCAAACTTCCCAAAATTCCATTTTTGACATTATTTTTC
Found at i:882027 original size:29 final size:27
Alignment explanation
Indices: 881937--882036 Score: 67
Period size: 29 Copynumber: 3.5 Consensus size: 27
881927 AATTTTTCAA
* *
881937 AAAATTACATATTTACCC-CGAACTTTCCC
1 AAAATTACAT-TTTCCCCTCG-ACTAT-CC
* *
881966 AAAATTAACATTTTGCCCTCGACTGTCC
1 AAAATT-ACATTTTCCCCTCGACTATCC
* **
881994 GAAATTACCATTTTACCCCTCGGGTATCC
1 AAAATTA-CATTTT-CCCCTCGACTATCC
*
882023 AAAATCACATTTTC
1 AAAATTACATTTTC
882037 AAACCCCGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.03
28 19 0.33
29 31 0.53
30 6 0.10
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACATTTTCCCCTCGACTATCC
Found at i:887993 original size:16 final size:15
Alignment explanation
Indices: 887972--888005 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
887962 TGATTTAATA
887972 TTATTAAAATTAATTT
1 TTATTAAAATT-ATTT
*
887988 TTATTATAATTATTT
1 TTATTAAAATTATTT
888003 TTA
1 TTA
888006 AACCCGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTAAAATTATTT
Found at i:888815 original size:22 final size:20
Alignment explanation
Indices: 888784--888832 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
888774 TAATGATTAT
*
888784 ATTTAAATATTTAAATATAATA
1 ATTTATATATTTAAAT-TAA-A
*
888806 ATTTATATATTTTAATTAAA
1 ATTTATATATTTAAATTAAA
888826 ATTTATA
1 ATTTATA
888833 AATAACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 3 0.12
22 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTATATATTTAAATTAAA
Found at i:888917 original size:22 final size:23
Alignment explanation
Indices: 888892--888942 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
888882 ATTAAAATAT
*
888892 CTTAATAAATTATAATAA-ATTA
1 CTTAATAAAATATAATAATATTA
* *
888914 CTTACTAAAATATCATAATATTA
1 CTTAATAAAATATAATAATATTA
*
888937 ATTAAT
1 CTTAAT
888943 TTTAATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
CTTAATAAAATATAATAATATTA
Found at i:898970 original size:17 final size:17
Alignment explanation
Indices: 898948--899011 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
898938 TCCTTGACTT
898948 TTAACCTTTCATCTTCC
1 TTAACCTTTCATCTTCC
*
898965 TTAACCTCTC--CTTGACC
1 TTAACCTTTCATCTT--CC
*
898982 TTTAACCTTACATCTTCC
1 -TTAACCTTTCATCTTCC
*
899000 TCAACCTTTCAT
1 TTAACCTTTCAT
899012 ATTCTTGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
15 3 0.08
17 21 0.57
18 10 0.27
20 3 0.08
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAACCTTTCATCTTCC
Found at i:898986 original size:35 final size:35
Alignment explanation
Indices: 898938--899006 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
898928 CCTTTCATTT
* * *
898938 TCCTTGACTTTTAACCTTTCATCTTCCTTAACCTC
1 TCCTTGACCTTTAACCTTACATCTTCCTCAACCTC
898973 TCCTTGACCTTTAACCTTACATCTTCCTCAACCT
1 TCCTTGACCTTTAACCTTACATCTTCCTCAACCT
899007 TTCATATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.36, G:0.03, T:0.42
Consensus pattern (35 bp):
TCCTTGACCTTTAACCTTACATCTTCCTCAACCTC
Found at i:906932 original size:18 final size:17
Alignment explanation
Indices: 906889--906937 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
906879 TGCCATCAGC
*
906889 AAAAAATTAAAGTTAAA
1 AAAAAATTAAAATTAAA
*
906906 AACATAATTAAAATTAAA
1 AA-AAAATTAAAATTAAA
906924 AAAACAATTTAAAA
1 AAAA-AA-TTAAAA
906938 CACCCTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 17 0.65
19 6 0.23
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAAATTAAAATTAAA
Found at i:907746 original size:36 final size:36
Alignment explanation
Indices: 907699--907777 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
907689 GAGTATTGAC
907699 TGTATATGAACTCAGTTGTGGAATGAGATTGTAAAG
1 TGTATATGAACTCAGTTGTGGAATGAGATTGTAAAG
*
907735 TGTATATGAACTCAGTTGTGGAATGAGATTGTAGAG
1 TGTATATGAACTCAGTTGTGGAATGAGATTGTAAAG
*
907771 TTTATAT
1 TGTATAT
907778 AATAAAGACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (36 bp):
TGTATATGAACTCAGTTGTGGAATGAGATTGTAAAG
Found at i:917185 original size:161 final size:157
Alignment explanation
Indices: 916899--917189 Score: 431
Period size: 161 Copynumber: 1.8 Consensus size: 157
916889 AAATGCCATC
* * *
916899 CTTTTTTGGCTTCTAGTTCTCATACTCGTCCAGACTGAGAACAAAAATCAAAACCCAAATTAGAT
1 CTTTTTTGGCTTCTAGTTCTCATACTCGTCCAGACTAAGAAAAAAAATCAAAACCCAAACTAGAT
916964 TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACTTGTGATCCAGTTGTGTTAGG
66 TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACTTGTGATCCAGTTGTGTTAGG
917029 CTGAATGCATGGTGGTGTTTTGTCATT
131 CTGAATGCATGGTGGTGTTTTGTCATT
* * * *
917056 CTTTTTCTGGGTTGTAGTTCTCATACTCGTATCAGACTAAGACCAAAAAAATCAAAACCGAAACT
1 CTTTTT-TGGCTTCTAGTTCTCATACTCGT-CCAGACTAAGA--AAAAAAATCAAAACCCAAACT
* * * *
917121 AGA-TTATTATATTTTGGAATTGACAATGAGAAAGTGTTTACGATATACTTGTGTTCCCGTTGTG
62 AGATTTA-AATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACTTGTGATCCAGTTGTG
917185 TTAGG
126 TTAGG
917190 ATCTTGTTTG
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
157 6 0.05
158 21 0.18
159 9 0.08
160 3 0.03
161 79 0.67
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (157 bp):
CTTTTTTGGCTTCTAGTTCTCATACTCGTCCAGACTAAGAAAAAAAATCAAAACCCAAACTAGAT
TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACGATATACTTGTGATCCAGTTGTGTTAGG
CTGAATGCATGGTGGTGTTTTGTCATT
Found at i:919158 original size:45 final size:45
Alignment explanation
Indices: 919090--919207 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
919080 TTGTCTAGCT
* * *
919090 TCTTGAAGCTCTTCATCAGCATCACCATCTGATAAGTAAATATCA
1 TCTTGAAGCTCATCATCATCATCACCATCTAATAAGTAAATATCA
* *
919135 TCTTGAAGCTCCTCATCATCATCACCATCTAATAAGTTAATATCA
1 TCTTGAAGCTCATCATCATCATCACCATCTAATAAGTAAATATCA
* *
919180 TCTTAAAAACTCATCATCATCATCACCA
1 TCTT-GAAGCTCATCATCATCATCACCA
919208 CCTCCATCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 45 0.69
46 20 0.31
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (45 bp):
TCTTGAAGCTCATCATCATCATCACCATCTAATAAGTAAATATCA
Found at i:919378 original size:93 final size:93
Alignment explanation
Indices: 919251--919451 Score: 278
Period size: 93 Copynumber: 2.2 Consensus size: 93
919241 TGACCTTCAG
* * * *
919251 CACCCTTAACACCTTTACTAACAAGAACATCAACACCCTCCACACCTAAACTCCCAGCAACCTAA
1 CACCCTCACCACCTTCAATAACAAGAACATCAACACCCTCCACACCTAAACTCCCAGCAACCTAA
*
919316 CCCTTACTCGAACCCTCACCACCT-CTCT
66 CCCTTACCCGAACCCTCACCACCTGC-CT
* * * * *
919344 TACCCTCACCACCTTCAATAACAGGAACATCAACACCCTCCACACCTAAATTGCCAGCAACCTCA
1 CACCCTCACCACCTTCAATAACAAGAACATCAACACCCTCCACACCTAAACTCCCAGCAACCTAA
* *
919409 CCGTTACCCGAACCCTCACCACTTGCCT
66 CCCTTACCCGAACCCTCACCACCTGCCT
919437 CACCCTCACCACCTT
1 CACCCTCACCACCTT
919452 TACTACCAGC
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 93 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.46, G:0.05, T:0.19
Consensus pattern (93 bp):
CACCCTCACCACCTTCAATAACAAGAACATCAACACCCTCCACACCTAAACTCCCAGCAACCTAA
CCCTTACCCGAACCCTCACCACCTGCCT
Found at i:919468 original size:30 final size:30
Alignment explanation
Indices: 919434--919540 Score: 142
Period size: 30 Copynumber: 3.6 Consensus size: 30
919424 TCACCACTTG
*
919434 CCTCACCCTCACCACCTTTACTACCAGCAT
1 CCTCACCCTCACCACCTTTACTGCCAGCAT
* * * *
919464 CCTCACCCTCACCACCCTTATTGCTAGCAG
1 CCTCACCCTCACCACCTTTACTGCCAGCAT
**
919494 CCAAACCCTCACCACCTTTACTGCCAGCAT
1 CCTCACCCTCACCACCTTTACTGCCAGCAT
*
919524 CCTCACCCTCAACACCT
1 CCTCACCCTCACCACCT
919541 CCCTCACCCT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.23, C:0.50, G:0.06, T:0.21
Consensus pattern (30 bp):
CCTCACCCTCACCACCTTTACTGCCAGCAT
Found at i:919549 original size:78 final size:78
Alignment explanation
Indices: 919464--919608 Score: 218
Period size: 78 Copynumber: 1.9 Consensus size: 78
919454 CTACCAGCAT
* * * * *
919464 CCTCACCCTCACCACCCTTATTGCTAGCAGCCAAACCCTCACCACCTTTACTGCCAGCATCCTCA
1 CCTCACCCTCACCACCCTTACTGCCAGCAGCCAAACCCTCACCACATTTACTGCCAACAACCTCA
919529 CCCTCAACACCTC
66 CCCTCAACACCTC
* * *
919542 CCTCACCCTCACCACCCTTACTGCCAGCATCCAAACCCTTACCACATTTACTGTCAACAACCTCA
1 CCTCACCCTCACCACCCTTACTGCCAGCAGCCAAACCCTCACCACATTTACTGCCAACAACCTCA
919607 CC
66 CC
919609 ACCTTTACCC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.25, C:0.49, G:0.06, T:0.21
Consensus pattern (78 bp):
CCTCACCCTCACCACCCTTACTGCCAGCAGCCAAACCCTCACCACATTTACTGCCAACAACCTCA
CCCTCAACACCTC
Found at i:920277 original size:20 final size:21
Alignment explanation
Indices: 920254--920305 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
920244 CAACCAGCAG
*
920254 ACATATTTAACATA-AAAGAA
1 ACATATTAAACATATAAAGAA
*
920274 ACATATTAAACATATTAAAGTA
1 ACATATTAAACATA-TAAAGAA
920296 ACATATTAAA
1 ACATATTAAA
920306 TAATTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.46
22 15 0.54
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.29
Consensus pattern (21 bp):
ACATATTAAACATATAAAGAA
Found at i:920313 original size:22 final size:22
Alignment explanation
Indices: 920268--920314 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
920258 ATTTAACATA
*
920268 AAAGAAACATATTAAACATATT
1 AAAGAAACATATTAAAAATATT
*
920290 AAAGTAACATATTAAATAAT-TT
1 AAAGAAACATATTAAA-AATATT
920312 AAA
1 AAA
920315 TAAAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (22 bp):
AAAGAAACATATTAAAAATATT
Found at i:923947 original size:31 final size:30
Alignment explanation
Indices: 923883--923955 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
923873 ATTGATGTCA
* **
923883 AGTGACTAATATGATAAAATTATGTAATGAT
1 AGTGACTAA-ATGATAAAAATATGTAACAAT
923914 AGTGACTAAAGTGATAAAAATATGTAACAAT
1 AGTGACTAAA-TGATAAAAATATGTAACAAT
*
923945 AGTGCCTAAAT
1 AGTGACTAAAT
923956 TGTAAACCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (30 bp):
AGTGACTAAATGATAAAAATATGTAACAAT
Found at i:925593 original size:36 final size:36
Alignment explanation
Indices: 925553--925638 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
925543 GCACTATGAT
*
925553 GTGTGTAGGATTGGGTGGGTATCATATACCTATACG
1 GTGTGTAGGGTTGGGTGGGTATCATATACCTATACG
925589 GTGTGTAGGGTTGGGTGGGTATCATATACCTATACG
1 GTGTGTAGGGTTGGGTGGGTATCATATACCTATACG
*
925625 ATGTGTAGGGTTGG
1 GTGTGTAGGGTTGG
925639 ATGGAGATGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.20, C:0.09, G:0.37, T:0.34
Consensus pattern (36 bp):
GTGTGTAGGGTTGGGTGGGTATCATATACCTATACG
Found at i:927382 original size:6 final size:6
Alignment explanation
Indices: 927373--927397 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
927363 ATATCTACCC
927373 ATATTT ATATTT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT A
927398 GGAAGTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:933491 original size:23 final size:22
Alignment explanation
Indices: 933452--933504 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
933442 ATAAACAAAA
*
933452 TAATTAAATCTAATTAATTAGT
1 TAATTAAATATAATTAATTAGT
* *
933474 TAATCTAAATATAGTTAATTAAGG
1 TAAT-TAAATATAATTAATT-AGT
933498 TAATTAA
1 TAATTAA
933505 GCTTTTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 16 0.62
24 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (22 bp):
TAATTAAATATAATTAATTAGT
Done.