Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 18 of 203
Found at i:5856069 original size:3 final size:3
Alignment explanation
Indices: 5856061--5856099 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5856051 CTCATTTCCT
5856061 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
5856100 ATTGCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:5874226 original size:21 final size:21
Alignment explanation
Indices: 5874180--5874226 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5874170 TAATATTATT
**
5874180 AAATTTAAAATTTTAAAATTT
1 AAATTTAAAATTTTAAAATAA
*
5874201 TAATTTCAAAA-TTTAAAATAA
1 AAATTT-AAAATTTTAAAATAA
5874222 AAATT
1 AAATT
5874227 AACACAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTAAAATTTTAAAATAA
Found at i:5874395 original size:30 final size:31
Alignment explanation
Indices: 5874361--5874428 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
5874351 TTGATTTATG
**
5874361 AACTTTAATT-TAGTACACTTATATACATAA
1 AACTTTAATTGTAGTACAAATATATACATAA
* * * *
5874391 AACTTTTATTGTGGTTCAAATGTATACATAA
1 AACTTTAATTGTAGTACAAATATATACATAA
5874422 AACTTTA
1 AACTTTA
5874429 CTTTTGATTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTTTAATTGTAGTACAAATATATACATAA
Found at i:5883257 original size:14 final size:15
Alignment explanation
Indices: 5883240--5883311 Score: 91
Period size: 14 Copynumber: 5.1 Consensus size: 15
5883230 AAGAGAGAGA
*
5883240 AAGGACAAGAAG-AG
1 AAGGAGAAGAAGAAG
5883254 AAGGAGAAGAAGAAG
1 AAGGAGAAGAAGAAG
5883269 AA-GAGAAGAAGAAG
1 AAGGAGAAGAAGAAG
5883283 AA-GAGAAGAAGAAG
1 AAGGAGAAGAAGAAG
*
5883297 AA-GA-AAGAAAAAG
1 AAGGAGAAGAAGAAG
5883310 AA
1 AA
5883312 AACGTAATCT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
13 10 0.18
14 41 0.75
15 4 0.07
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGGAGAAGAAGAAG
Found at i:5883263 original size:11 final size:11
Alignment explanation
Indices: 5883246--5883297 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
5883236 GAGAAAGGAC
5883246 AAGAAGAGAAG
1 AAGAAGAGAAG
*
5883257 GAGAAGAAGAAG
1 AAGAAG-AGAAG
5883269 AAG-AGAAGAAG
1 AAGAAG-AGAAG
5883280 AAGAAGAGAAG
1 AAGAAGAGAAG
5883291 AAGAAGA
1 AAGAAGA
5883298 AGAAAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
AAGAAGAGAAG
Found at i:5883264 original size:3 final size:3
Alignment explanation
Indices: 5883246--5883311 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
5883236 GAGAAAGGAC
*
5883246 AAG AAG -AG AAG GAG AAG AAG AAG AAG -AG AAG AAG AAG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
5883291 AAG AAG AAG AAAG AAA AAG AA
1 AAG AAG AAG -AAG AAG AAG AA
5883312 AACGTAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.11
3 46 0.84
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5883266 original size:17 final size:17
Alignment explanation
Indices: 5883246--5883311 Score: 91
Period size: 17 Copynumber: 3.9 Consensus size: 17
5883236 GAGAAAGGAC
*
5883246 AAGAAGAGAAGGAGAAG
1 AAGAAGAGAAGAAGAAG
5883263 AAGAAGA-AGAGAAGAAG
1 AAGAAGAGA-AGAAGAAG
5883280 AAGAAGAGAAGAAGAAG
1 AAGAAGAGAAGAAGAAG
*
5883297 AAGAA-AGAAAAAGAA
1 AAGAAGAGAAGAAGAA
5883312 AACGTAATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
16 10 0.22
17 34 0.76
18 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGAAGAGAAGAAGAAG
Found at i:5883394 original size:12 final size:12
Alignment explanation
Indices: 5883373--5883403 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5883363 TAGTTTGTGA
*
5883373 ATATTTTAGAAG
1 ATATTGTAGAAG
5883385 ATATTGTAGAAG
1 ATATTGTAGAAG
5883397 ATATTGT
1 ATATTGT
5883404 GAATTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
ATATTGTAGAAG
Found at i:5883496 original size:22 final size:21
Alignment explanation
Indices: 5883470--5883797 Score: 133
Period size: 22 Copynumber: 15.0 Consensus size: 21
5883460 TAGATTAGAA
5883470 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
5883492 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
5883513 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* * *
5883531 TGTTGTATGACTATTGTAATT
1 TTTTGTATGAATATTCTAATT
* * *
5883552 GTTTTATAATTAA-ATT-TGTATT
1 -TTTTGT-ATGAATATTCT-AATT
* * * * **
5883574 TATAGTTTTGGAT-TAGTAA--
1 TTTTG-TATGAATATTCTAATT
*
5883593 -TTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
5883613 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
5883638 AGTTTTGTATGAATATTGC-AATT
1 --TTTTGTATGAATATT-CTAATT
*
5883661 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTCT-A-A-T-T
*
5883686 AATTTTGTATGAATATTGTAATTT
1 --TTTTGTATGAATATTCTAA-TT
*
5883710 TTTTGTATGAATATTGTGATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
5883735 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
5883759 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
*
5883778 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
5883798 GTCGGGATAT
Statistics
Matches: 246, Mismatches: 25, Indels: 72
0.72 0.07 0.21
Matches are distributed among these distances:
17 5 0.02
18 10 0.04
19 32 0.13
20 14 0.06
21 44 0.18
22 66 0.27
23 7 0.03
24 8 0.03
25 10 0.04
26 3 0.01
27 47 0.19
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:5883545 original size:19 final size:19
Alignment explanation
Indices: 5883494--5883799 Score: 80
Period size: 19 Copynumber: 16.1 Consensus size: 19
5883484 TCTAACTTTT
*
5883494 TTGTATGAATATTGTAATTT
1 TTGTATGAATATTGTAA-TG
*
5883514 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
*
5883533 TTGTATGACTATTGTAATTG
1 TTGTATGAATATTGTAA-TG
*
5883553 TTTTAT-AATTAAATTTGTATTTATAG
1 TTGTATGAA-T--A-TTGTA---AT-G
* *
5883579 TT-T-TGGAT-TAGTAAT-
1 TTGTATGAATATTGTAATG
*
5883594 TTGTATGAATATTGTAATTTT
1 TTGTATGAATATTGTAA--TG
5883615 TTGTATGAATATTGTAATATTATAG
1 TTGTATGAATATTG---TA--AT-G
*
5883640 TTTTGTATGAATATTGCAAT-
1 --TTGTATGAATATTGTAATG
* *
5883660 TT-TTTG--TA-TG-AATA
1 TTGTATGAATATTGTAATG
*
5883674 TTGTA---ATATTGTAATT
1 TTGTATGAATATTGTAATG
5883690 TTGTATGAATATTGTAAT-
1 TTGTATGAATATTGTAATG
* * *
5883708 TTTTTTG--TA-TG-AATA
1 TTGTATGAATATTGTAATG
* *
5883723 TTG--TG-ATATTATAATT
1 TTGTATGAATATTGTAATG
* *
5883739 TTGTATGAATATTGCAATTTTT
1 TTGTATGAATATTGTAA---TG
*
5883761 TTGTATGAATATTGTAATT
1 TTGTATGAATATTGTAATG
5883780 TTGTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
5883799 T
1 T
5883800 CGGGATATAT
Statistics
Matches: 220, Mismatches: 24, Indels: 85
0.67 0.07 0.26
Matches are distributed among these distances:
13 5 0.02
14 11 0.05
15 12 0.05
16 17 0.08
17 9 0.04
18 14 0.06
19 55 0.25
20 29 0.13
21 14 0.06
22 21 0.10
23 5 0.02
24 6 0.03
25 3 0.01
26 5 0.02
27 14 0.06
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:5883638 original size:61 final size:60
Alignment explanation
Indices: 5883451--5883644 Score: 195
Period size: 61 Copynumber: 3.2 Consensus size: 60
5883441 ATATTTAGTG
* *
5883451 TTTATAG-TTTAGATTAG-AATTTTGTATGAATATTCTAACTTTTTTGTATGAATATTGTAA
1 TTTATAGTTTTGGATTAGTAA-TTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAA
* * * * *
5883511 TTT-T--TTTATGAATATTGTAATGTTGTATGACTATTGTAATTGTTTTATAATTAA-ATTTGT-
1 TTTATAGTTT-TGGAT-TAGTAAT-TTGTATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTA
5883571 A
60 A
5883572 TTTATAGTTTTGGATTAGTAATTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
1 TTTATAGTTTTGGATTAGTAATTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
5883632 TATTATAGTTTTG
1 T-TTATAGTTTTG
5883645 TATGAATATT
Statistics
Matches: 108, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
58 2 0.02
59 12 0.11
60 16 0.15
61 56 0.52
62 15 0.14
63 4 0.04
64 3 0.03
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (60 bp):
TTTATAGTTTTGGATTAGTAATTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
Found at i:5883645 original size:48 final size:49
Alignment explanation
Indices: 5883585--5883778 Score: 313
Period size: 49 Copynumber: 4.0 Consensus size: 49
5883575 ATAGTTTTGG
*
5883585 ATTAGTAA-TTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAAT
1 ATTA-TAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
*
5883633 ATTATAGTTTTGTATGAATATTGCAA-TTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
* * *
5883681 ATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTGAT
1 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
5883730 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
5883779 TTTGTATGAA
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
47 2 0.01
48 66 0.49
49 67 0.50
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.53
Consensus pattern (49 bp):
ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
Found at i:5883649 original size:27 final size:24
Alignment explanation
Indices: 5883593--5883797 Score: 197
Period size: 27 Copynumber: 8.8 Consensus size: 24
5883583 GGATTAGTAA
5883593 TTTGTATGAATATTGT-A-A-TTT
1 TTTGTATGAATATTGTAATATTTT
5883614 TTTGTATGAATATTGTAATATTATAGT
1 TTTGTATGAATATTGTAATATT-T--T
*
5883641 TTTGTATGAATATTG-CA-A-TTT
1 TTTGTATGAATATTGTAATATTTT
5883662 TTTGTATGAATATTGTAATATTGTAAT
1 TTTGTATGAATATTGTAATATT-T--T
5883689 TTTGTATGAATATTGT-A-ATTTT
1 TTTGTATGAATATTGTAATATTTT
*
5883711 TTTGTATGAATATTGTGATATTATAAT
1 TTTGTATGAATATTGTAATATT-T--T
*
5883738 TTTGTATGAATATTG-CA-ATTTT
1 TTTGTATGAATATTGTAATATTTT
5883760 TTTGTATGAATATTGT-A-A---T
1 TTTGTATGAATATTGTAATATTTT
5883779 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
5883798 GTCGGGATAT
Statistics
Matches: 161, Mismatches: 3, Indels: 40
0.79 0.01 0.20
Matches are distributed among these distances:
19 17 0.11
20 1 0.01
21 32 0.20
22 37 0.23
23 4 0.02
24 8 0.05
25 10 0.06
26 3 0.02
27 49 0.30
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.54
Consensus pattern (24 bp):
TTTGTATGAATATTGTAATATTTT
Found at i:5883813 original size:97 final size:96
Alignment explanation
Indices: 5883589--5883797 Score: 326
Period size: 97 Copynumber: 2.2 Consensus size: 96
5883579 TTTTGGATTA
*
5883589 GTAA-TTTGTATGAATATTGTAATTTT-TTGTATGAATATTGTAATATTATAGTTTTGTATGAAT
1 GTAATTTTGTATGAATATTGTAATTTTATTGTATGAATATTGTAATATTATAATTTTGTATGAAT
5883652 ATTGCAATTTTTTGTATGAATATTGTAATATT
66 ATTGCAATTTTTTGTATG-ATATTGTAATATT
* *
5883684 GTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTGATATTATAATTTTGTATGAAT
1 GTAATTTTGTATGAATATTGTAATTTTATTGTATGAATATTGTAATATTATAATTTTGTATGAAT
5883749 ATTGCAA-TTTTT-T-TG-TA-TG-AATATT
66 ATTGCAATTTTTTGTATGATATTGTAATATT
5883774 GTAATTTTGTATGAATATTGTAAT
1 GTAATTTTGTATGAATATTGTAAT
5883798 GTCGGGATAT
Statistics
Matches: 110, Mismatches: 2, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
90 30 0.27
91 2 0.02
92 2 0.02
94 2 0.02
95 5 0.05
96 27 0.25
97 42 0.38
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (96 bp):
GTAATTTTGTATGAATATTGTAATTTTATTGTATGAATATTGTAATATTATAATTTTGTATGAAT
ATTGCAATTTTTTGTATGATATTGTAATATT
Found at i:5883919 original size:60 final size:60
Alignment explanation
Indices: 5883838--5883959 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
5883828 TGTATGAATA
* * * * *
5883838 TTGTAAATATTTTATAATTAATTTTTTAGTAATTTTGGATTATGTTATAAATTGTTGTGT
1 TTGTAAATATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
* *
5883898 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAAATATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
5883958 TT
1 TT
5883960 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAAATATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:5884038 original size:38 final size:38
Alignment explanation
Indices: 5883993--5884073 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 38
5883983 CATATAAAGT
5883993 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
5884031 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
5884068 TTATAA
1 TTATAA
5884074 CTGACTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:5884151 original size:15 final size:15
Alignment explanation
Indices: 5884110--5884151 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
5884100 GTTAACTCAT
*
5884110 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
5884125 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
5884141 TTAAATTTTAT
1 TTAAATTTTAT
5884152 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:5885335 original size:24 final size:22
Alignment explanation
Indices: 5885303--5885363 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
5885293 AACCAAAATA
*
5885303 CCTTATTTTCTTCTTCTTTTCCTT
1 CCTTCTTTTCTTCTTC--TTCCTT
*
5885327 CCTTCTTTTCTTCTGCTTCCTT
1 CCTTCTTTTCTTCTTCTTCCTT
*
5885349 CCTTCTTAT-TTCTTC
1 CCTTCTTTTCTTCTTC
5885364 CGTTTTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.15
22 14 0.42
24 14 0.42
ACGTcount: A:0.03, C:0.33, G:0.02, T:0.62
Consensus pattern (22 bp):
CCTTCTTTTCTTCTTCTTCCTT
Found at i:5885345 original size:18 final size:19
Alignment explanation
Indices: 5885310--5885355 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
5885300 ATACCTTATT
*
5885310 TTCTTCTTCTTTTCCTTCC
1 TTCTTCTTCTTCTCCTTCC
*
5885329 TTCTT-TTCTTCTGCTTCC
1 TTCTTCTTCTTCTCCTTCC
5885347 TTCCTTCTT
1 TT-CTTCTT
5885356 ATTTCTTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.57
19 8 0.35
20 2 0.09
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (19 bp):
TTCTTCTTCTTCTCCTTCC
Found at i:5885564 original size:24 final size:24
Alignment explanation
Indices: 5885537--5885585 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
5885527 CTGACCCGAG
5885537 AAAATAAAA-AATTA-TATTTTATTC
1 AAAA-AAAATAATTATTA-TTTATTC
*
5885561 AAAAAAAATTATTATTATTTATTC
1 AAAAAAAATAATTATTATTTATTC
5885585 A
1 A
5885586 TTGGCGCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 16 0.73
25 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAAAATAATTATTATTTATTC
Found at i:5886651 original size:38 final size:38
Alignment explanation
Indices: 5886606--5886686 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 38
5886596 CATATAAAGT
5886606 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
5886644 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
5886681 TTATAA
1 TTATAA
5886687 CCGACTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:5887672 original size:14 final size:13
Alignment explanation
Indices: 5887632--5887682 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
5887622 TTAAGTATAT
*
5887632 TATTATTTTATTA
1 TATTATTATATTA
* *
5887645 TATT-GTAAATTA
1 TATTATTATATTA
5887657 TATTAATTATATTA
1 TATT-ATTATATTA
5887671 TATTATTATATT
1 TATTATTATATT
5887683 TCAAATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:5887935 original size:23 final size:22
Alignment explanation
Indices: 5887904--5887947 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
5887894 AGAAGGAAAG
5887904 AAGGAAAGGAAAGAAAAGAAAAA
1 AAGGAAAGGAAAG-AAAGAAAAA
* *
5887927 AAGGGAAGGAAAGGAAGAAAA
1 AAGGAAAGGAAAGAAAGAAAA
5887948 TTTGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AAGGAAAGGAAAGAAAGAAAAA
Found at i:5887939 original size:18 final size:18
Alignment explanation
Indices: 5887895--5887939 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
5887885 AAGAAACAGA
**
5887895 GAAGGAAAGAAGGAAAGG
1 GAAGGAAAGAAAAAAAGG
* *
5887913 AAAGAAAAGAAAAAAAGG
1 GAAGGAAAGAAAAAAAGG
5887931 GAAGGAAAG
1 GAAGGAAAG
5887940 GAAGAAAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAGGAAAGAAAAAAAGG
Found at i:5891427 original size:6 final size:6
Alignment explanation
Indices: 5891408--5891454 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
5891398 GCATCATGCA
* * * *
5891408 CCAGAG CCAAAG CCAGAG CCAGAG CCAGTG CCAGTG CCAGAG ACAGA
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGA
5891455 ACTACATTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.34, C:0.32, G:0.30, T:0.04
Consensus pattern (6 bp):
CCAGAG
Found at i:5894898 original size:27 final size:27
Alignment explanation
Indices: 5894868--5894944 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
5894858 AGACCATTGG
*
5894868 CGCCTCTCA-ATATGGCACCAATAATGC
1 CGCCTCCCAGATA-GGCACCAATAATGC
5894895 CGCCTCCCAGATAGGCACCAATAATGC
1 CGCCTCCCAGATAGGCACCAATAATGC
* *
5894922 CACCTCCCAGATAGGCGCCAATA
1 CGCCTCCCAGATAGGCACCAATA
5894945 CTATGTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 43 0.93
28 3 0.07
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (27 bp):
CGCCTCCCAGATAGGCACCAATAATGC
Found at i:5901451 original size:6 final size:6
Alignment explanation
Indices: 5901440--5901475 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
5901430 TAAAGTAAAG
5901440 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
5901476 TAAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:5901487 original size:6 final size:6
Alignment explanation
Indices: 5901474--5901518 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
5901464 AAAGAAAAAG
* *
5901474 AATAAA AATCAA AATCAA AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT
5901519 TGGGTTACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:5908396 original size:13 final size:13
Alignment explanation
Indices: 5908378--5908403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5908368 TTTGTTTCAG
5908378 ATTTTTTAGAGAT
1 ATTTTTTAGAGAT
5908391 ATTTTTTAGAGAT
1 ATTTTTTAGAGAT
5908404 TATGATTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTTTAGAGAT
Found at i:5914173 original size:131 final size:131
Alignment explanation
Indices: 5913939--5914200 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 131
5913929 CCTATTCTTT
* *
5913939 CGTACTCTTCCTGATGTGGGATTTTTTAATAAATCAGCTAGAAAAGAGCTGCCTACCGGTGCTCC
1 CGTACTCTTCCTAATGTGGGATTTTTTAATAAATCAGCTAGAAAAGAGCTGCCTACCGGTGCACC
5914004 TATAAAGACTGAACCCTTCCTGAATAGACTGATTCTGGGCTACATACGATTTGATTCAACAACCA
66 TATAAAGACTGAACCCTTCCTGAATAGACTGATTCTGGGCTACATACGATTTGATTCAACAACCA
5914069 A
131 A
5914070 CGTACTCTTCCTAATGTGGGATTTTTTAATAAATCAGCTAGAAAAGAGCTGCCTACCGGTGCACC
1 CGTACTCTTCCTAATGTGGGATTTTTTAATAAATCAGCTAGAAAAGAGCTGCCTACCGGTGCACC
5914135 TATAAAGACTGAACCCTTCCTGAATAGACTGATTCTGGGCTACATACGATTTGATTCAACAACCA
66 TATAAAGACTGAACCCTTCCTGAATAGACTGATTCTGGGCTACATACGATTTGATTCAACAACCA
5914200 A
131 A
5914201 GGCACCATAC
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (131 bp):
CGTACTCTTCCTAATGTGGGATTTTTTAATAAATCAGCTAGAAAAGAGCTGCCTACCGGTGCACC
TATAAAGACTGAACCCTTCCTGAATAGACTGATTCTGGGCTACATACGATTTGATTCAACAACCA
A
Found at i:5919006 original size:21 final size:21
Alignment explanation
Indices: 5918974--5919014 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5918964 GAACATTTAG
5918974 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
5918995 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
5919015 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:5924610 original size:11 final size:11
Alignment explanation
Indices: 5924594--5924635 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
5924584 CTATCGTGAA
5924594 TTTATTTTTAT
1 TTTATTTTTAT
5924605 TTTATTTTT-T
1 TTTATTTTTAT
*
5924615 TTATATTGTTAT
1 TT-TATTTTTAT
5924627 TTTAATTTT
1 TTT-ATTTT
5924636 GTTTAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.12
11 16 0.62
12 7 0.27
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:5924621 original size:22 final size:23
Alignment explanation
Indices: 5924596--5924640 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
5924586 ATCGTGAATT
* *
5924596 TATTTTTATTTT-ATTTTTTTTA
1 TATTGTTATTTTAATTTTGTTTA
5924618 TATTGTTATTTTAATTTTGTTTA
1 TATTGTTATTTTAATTTTGTTTA
5924641 AGATTGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (23 bp):
TATTGTTATTTTAATTTTGTTTA
Found at i:5924637 original size:14 final size:14
Alignment explanation
Indices: 5924595--5924638 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
5924585 TATCGTGAAT
*
5924595 TTATTTTTATTTTA
1 TTATTTTTATTTTG
* *
5924609 TTTTTTTTATATTG
1 TTATTTTTATTTTG
*
5924623 TTATTTTAATTTTG
1 TTATTTTTATTTTG
5924637 TT
1 TT
5924639 TAAGATTGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (14 bp):
TTATTTTTATTTTG
Found at i:5924760 original size:11 final size:11
Alignment explanation
Indices: 5924746--5924770 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5924736 TTATTAATTC
5924746 ATTATTTTAAT
1 ATTATTTTAAT
5924757 ATTATTTTAAT
1 ATTATTTTAAT
5924768 ATT
1 ATT
5924771 GGCTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:5926130 original size:44 final size:44
Alignment explanation
Indices: 5926077--5926172 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
5926067 CTGCCATTTT
5926077 GGCTTGCACCCACTCAAACTTGCATTTAGA-TCGTCCGCCACTTC
1 GGCTTGCACCCACTCAAACTTGCATTTAGACT-GTCCGCCACTTC
* * ** *
5926121 GGTTTGCACCCATTCAAGTTTGCATTTAGACTGTCCGCCACTTT
1 GGCTTGCACCCACTCAAACTTGCATTTAGACTGTCCGCCACTTC
5926165 GGCTTGCA
1 GGCTTGCA
5926173 ATTTTATAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (44 bp):
GGCTTGCACCCACTCAAACTTGCATTTAGACTGTCCGCCACTTC
Found at i:5926384 original size:18 final size:18
Alignment explanation
Indices: 5926348--5926387 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5926338 AATATACAGG
**
5926348 GCTCGCACCTTTTGATGA
1 GCTCGCACCACTTGATGA
*
5926366 GCTCGCACCACTTGCTGA
1 GCTCGCACCACTTGATGA
5926384 GCTC
1 GCTC
5926388 ATAGCTCGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTCGCACCACTTGATGA
Found at i:5926411 original size:25 final size:25
Alignment explanation
Indices: 5926365--5926412 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
5926355 CCTTTTGATG
* *
5926365 AGCTCGCACCACTTGCTGAGCTCAT
1 AGCTCGCACCACTCGCTAAGCTCAT
**
5926390 AGCTCGCACTTCTCGCTAAGCTC
1 AGCTCGCACCACTCGCTAAGCTC
5926413 GCAGCTTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.25
Consensus pattern (25 bp):
AGCTCGCACCACTCGCTAAGCTCAT
Found at i:5926450 original size:25 final size:25
Alignment explanation
Indices: 5926376--5926476 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 25
5926366 GCTCGCACCA
* ** * *
5926376 CTTGCTGAGCTCATAGCTCGCACTT
1 CTTGCTAAGCTCGCAGCTTGCACAT
*
5926401 CTCGCTAAGCTCGCAGCTTTG-ACAT
1 CTTGCTAAGCTCGCAGC-TTGCACAT
* * *
5926426 CTTGCTGAGCTTGTAGCTTGCACATT
1 CTTGCTAAGCTCGCAGCTTGCACA-T
* * *
5926452 TTTGCTAAGGTTGCAGCTTGCACAT
1 CTTGCTAAGCTCGCAGCTTGCACAT
5926477 TGGAAAGCTT
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
24 3 0.05
25 33 0.56
26 23 0.39
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.34
Consensus pattern (25 bp):
CTTGCTAAGCTCGCAGCTTGCACAT
Found at i:5929237 original size:31 final size:31
Alignment explanation
Indices: 5929158--5929242 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
5929148 TTGATATATG
* *
5929158 AACTTTAA-TTTGATGCAATTATACACATGA
1 AACTTTAATTTTGATTCAAATATACACATGA
* * * * *
5929188 AACTTTGATTGTGGTTCAAATGTATACATGA
1 AACTTTAATTTTGATTCAAATATACACATGA
*
5929219 AACTTTAATTTTGATTCAATTATA
1 AACTTTAATTTTGATTCAAATATA
5929243 TGCACATTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (31 bp):
AACTTTAATTTTGATTCAAATATACACATGA
Found at i:5937319 original size:12 final size:12
Alignment explanation
Indices: 5937284--5937326 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
5937274 TTAACAAACC
5937284 AAATAATTTTTAAA
1 AAATAA-TTTT-AA
*
5937298 AAAGTAATTTTGA
1 AAA-TAATTTTAA
5937311 AAATAATTTTAA
1 AAATAATTTTAA
5937323 AAAT
1 AAAT
5937327 TTTGTTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 12 0.46
13 4 0.15
14 7 0.27
15 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:5937597 original size:21 final size:21
Alignment explanation
Indices: 5937560--5937600 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5937550 GCCTGGCCCG
*
5937560 AATATATATTATGTTATAAAA
1 AATATATATTATATTATAAAA
5937581 AATATTATATTA-ATTATAAA
1 AATA-TATATTATATTATAAA
5937601 TGTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATATATTATATTATAAAA
Found at i:5937812 original size:39 final size:39
Alignment explanation
Indices: 5937732--5937819 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
5937722 AAAAATTATA
* * *
5937732 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTAGTGTTT
5937771 TTTAATATAATAAAACA-TTATTATATTTATGGTAGTG-TT
1 TTTAATATAATAAAACATTTATTATATTTAT--TAGTGTTT
5937810 TTTAATATAA
1 TTTAATATAA
5937820 ATACTTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 13 0.30
39 27 0.61
40 4 0.09
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTAGTGTTT
Found at i:5938201 original size:53 final size:53
Alignment explanation
Indices: 5938111--5938215 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
5938101 TCGTGGAAAC
* *
5938111 AATTTTTATTACCATCTTCCAATTGCCAAACCGTATTAAATGTGGCTATTAAA
1 AATTATTATTACCATCTTCCAATTGCCAAACCGTATTAAATGTAGCTATTAAA
* * **
5938164 AATTATTATTACCATCTTCCAATTGTCAAGCTTTATTAAATGTAGCTATTAA
1 AATTATTATTACCATCTTCCAATTGCCAAACCGTATTAAATGTAGCTATTAA
5938216 CTTGAAGCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (53 bp):
AATTATTATTACCATCTTCCAATTGCCAAACCGTATTAAATGTAGCTATTAAA
Found at i:5945419 original size:19 final size:20
Alignment explanation
Indices: 5945397--5945446 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
5945387 TTCTTTAGAT
* *
5945397 TTTTTAAATTTTTGT-AATA
1 TTTTGAAATTTTTATAAATA
5945416 TTTTGAAATTTTTATAAATA
1 TTTTGAAATTTTTATAAATA
5945436 TTTTG-AATTTT
1 TTTTGAAATTTT
5945447 AAAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTGAAATTTTTATAAATA
Found at i:5947236 original size:24 final size:24
Alignment explanation
Indices: 5947186--5947237 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5947176 GTAGTTTAAG
* *
5947186 TACAAAACCGAATGCATATTTAGA
1 TACAAAACCAAATGCATATTCAGA
* *
5947210 TACAAAATCAAATGCATATTCATA
1 TACAAAACCAAATGCATATTCAGA
5947234 TACA
1 TACA
5947238 TAATTAGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (24 bp):
TACAAAACCAAATGCATATTCAGA
Found at i:5948988 original size:20 final size:20
Alignment explanation
Indices: 5948963--5949000 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5948953 AATATTAAAT
5948963 TAAAAAATTACATAAAATTC
1 TAAAAAATTACATAAAATTC
*
5948983 TAAAAAATTATATAAAAT
1 TAAAAAATTACATAAAAT
5949001 GTTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAATTACATAAAATTC
Found at i:5949006 original size:20 final size:19
Alignment explanation
Indices: 5948962--5949006 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5948952 AAATATTAAA
5948962 TTAAAAAATTACATAAAAT
1 TTAAAAAATTACATAAAAT
*
5948981 TCTAAAAAATTATATAAAAT
1 T-TAAAAAATTACATAAAAT
5949001 GTTAAA
1 -TTAAA
5949007 TAATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAAAATTACATAAAAT
Found at i:5951149 original size:19 final size:22
Alignment explanation
Indices: 5951107--5951155 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
5951097 AAATTTTAAC
5951107 TTTTTTTATATATGATTTAGAA
1 TTTTTTTATATATGATTTAGAA
*
5951129 TTTTTTT-TA-ATGA-TTATAA
1 TTTTTTTATATATGATTTAGAA
5951148 TTTTTTTA
1 TTTTTTTA
5951156 AAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 12 0.48
20 4 0.16
21 2 0.08
22 7 0.28
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTTTTATATATGATTTAGAA
Found at i:5952621 original size:114 final size:114
Alignment explanation
Indices: 5952196--5953136 Score: 1296
Period size: 114 Copynumber: 8.3 Consensus size: 114
5952186 AAAATAAGCA
* * * * * *
5952196 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA-AAACTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
* ** * *
5952260 TTGTTGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* ** * * * * *
5952309 TTAGCGGCG-TTTTGGAGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTT-TGAGTT
1 TTAGCGGCGTTTTTGG-GAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
* *
5952372 TTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGCCT
65 TTCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* * * * * * **
5952422 TTAGCGGTGTTTTTGGGGAAGCGCCGCAAAA-AACCTAAGCCCAACGACGTCGTTTCCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
* * * *
5952486 TCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGAGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* * *
5952535 TTAGCGGCATTTTTGGGAAAGTGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
* * *
5952600 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGAGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* * *
5952649 TTAGCGGCATTTTTGGGAAAGTGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
*
5952714 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTTAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* * *
5952763 TTAGCGGCGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAATGACACCGTTTTATGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
* *
5952828 TTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTTAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* * *
5952877 TTAGCGGCGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAATGACACCGTTTTATGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
*
5952942 TTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* *
5952991 TTAGCGACATTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
* * * *
5953056 TCGGGGATTTAGCGGCATTTTTATGAAGGCGCCGCTAATGCGCAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
* *
5953105 TTAGCGGCGTTTTTCGGAAAGTGCCGCTAAAA
1 TTAGCGGCGTTTTTGGGAAAGCGCCGC-AAAA
5953137 ATATTTTATC
Statistics
Matches: 765, Mismatches: 57, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
112 28 0.04
113 172 0.22
114 561 0.73
115 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTT
TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:5953402 original size:22 final size:22
Alignment explanation
Indices: 5953377--5953422 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
5953367 GAGTTTATAT
* *
5953377 TTTAAGGTTTATGGAGTATGGG
1 TTTAAGGATTATGGAGTAGGGG
* *
5953399 TTTAGGGATTATGGATTAGGGG
1 TTTAAGGATTATGGAGTAGGGG
5953421 TT
1 TT
5953423 GGTATTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (22 bp):
TTTAAGGATTATGGAGTAGGGG
Found at i:5953900 original size:128 final size:126
Alignment explanation
Indices: 5953674--5953915 Score: 403
Period size: 128 Copynumber: 1.9 Consensus size: 126
5953664 CGCCGCTAAA
*
5953674 GGTAGGCAATAGAGGCGGTTGTTATAAAAACGCCGCAAAAAAAATCAAATTATAAAAAATAAATT
1 GGTAGGCAATAGAGGCGGTTGTTATAAAAACGCCGAAAAAAAAATCAAATTATAAAAAATAAATT
* *
5953739 AATTTTTAGAATAGCAAAACGGCGTCTTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTT
66 AATTTTTAGAATAACAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTT
* * * *
5953800 GGTAGGCAATAGCGGCGTTTGTTATAAAAACGCCGAAAAAAATAAATTAATTTATAAAAAATAAA
1 GGTAGGCAATAGAGGCGGTTGTTATAAAAACGCCG-AAAAAA-AAATCAAATTATAAAAAATAAA
5953865 TTAATTTTTAGAATAACAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
64 TTAATTTTTAGAATAACAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
5953916 AAAGCGCCGC
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
126 33 0.31
127 5 0.05
128 69 0.64
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (126 bp):
GGTAGGCAATAGAGGCGGTTGTTATAAAAACGCCGAAAAAAAAATCAAATTATAAAAAATAAATT
AATTTTTAGAATAACAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTT
Found at i:5955141 original size:13 final size:13
Alignment explanation
Indices: 5955123--5955148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5955113 ACCTCGCAGG
5955123 TAATTTAACCAAA
1 TAATTTAACCAAA
5955136 TAATTTAACCAAA
1 TAATTTAACCAAA
5955149 AAGCAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTTAACCAAA
Found at i:5957389 original size:43 final size:43
Alignment explanation
Indices: 5957328--5957412 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
5957318 CAATGATGTA
* * *
5957328 CAAGATTTTCTTGATTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
* *
5957371 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTA
5957413 TCTTGCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
Found at i:5957760 original size:43 final size:43
Alignment explanation
Indices: 5957699--5957865 Score: 237
Period size: 43 Copynumber: 3.9 Consensus size: 43
5957689 GAAAAGCGCC
*
5957699 GATCTATAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTATT
1 GATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTATT
* *
5957742 GATCTATAACGGCGTTTGTGTG-AAAAGCGCCGCTAAAGATATT
1 GATCTATAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTATT
* * **
5957785 GATTTATAGCGGCGTTTGTGGAAAAATCGCCGCTAAAGGTCCT
1 GATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTATT
* *
5957828 GATCTATAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAG
1 GATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAG
5957866 ATCAAACATT
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 107 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
GATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTATT
Found at i:5961399 original size:14 final size:14
Alignment explanation
Indices: 5961380--5961407 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5961370 TCAACATTTT
5961380 TAATGATTTTAACA
1 TAATGATTTTAACA
5961394 TAATGATTTTAACA
1 TAATGATTTTAACA
5961408 ACAATTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATGATTTTAACA
Found at i:5965847 original size:21 final size:22
Alignment explanation
Indices: 5965800--5965847 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
5965790 TTTAATTTCA
*
5965800 TTTTTATTCTAATTTAGTCCTT
1 TTTTTATTCTAATTTAGACCTT
*
5965822 GTTTTATT-TAATTTTA-ACCTT
1 TTTTTATTCTAA-TTTAGACCTT
5965843 TTTTT
1 TTTTT
5965848 GAATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTTATTCTAATTTAGACCTT
Found at i:5965967 original size:3 final size:3
Alignment explanation
Indices: 5965959--5965999 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
5965949 TTTTTCATCC
5965959 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5966000 GTCATGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5968103 original size:25 final size:26
Alignment explanation
Indices: 5968069--5968119 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
5968059 TAATTATAGA
*
5968069 TATATATTGCCGAATTTG-ATTGTTT
1 TATATATTGCCAAATTTGAATTGTTT
*
5968094 TATATATTGCTAAATTTGAATTGTTT
1 TATATATTGCCAAATTTGAATTGTTT
5968120 ATAGTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (26 bp):
TATATATTGCCAAATTTGAATTGTTT
Found at i:5968189 original size:61 final size:62
Alignment explanation
Indices: 5968123--5968306 Score: 239
Period size: 61 Copynumber: 3.0 Consensus size: 62
5968113 ATTGTTTATA
** *
5968123 GTTATACATTGTCAAAATTGATTTGTATATGAAGATA-AGTTGCCGAA-TTAATTCGTATATG
1 GTTATACATTGTCAAAATTGATTTGTATATGATTATACA-TTGCCGAACTTGATTCGTATATG
* * * * * *
5968184 GTTATACAATGTCGAATTTGATTTGTATATGATTATACATTTCCAAACTTGATTCATATATG
1 GTTATACATTGTCAAAATTGATTTGTATATGATTATACATTGCCGAACTTGATTCGTATATG
* *
5968246 GTTATACATTG-CCAAATTGATTTGTATATGATTATACATTGCCGAATTTGATTCGTATATG
1 GTTATACATTGTCAAAATTGATTTGTATATGATTATACATTGCCGAACTTGATTCGTATATG
5968307 AATATATATA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
61 82 0.78
62 23 0.22
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (62 bp):
GTTATACATTGTCAAAATTGATTTGTATATGATTATACATTGCCGAACTTGATTCGTATATG
Found at i:5968213 original size:31 final size:31
Alignment explanation
Indices: 5968106--5968332 Score: 169
Period size: 31 Copynumber: 7.4 Consensus size: 31
5968096 TATATTGCTA
* * *
5968106 AATTTGAATTGTTTAT-AGTTATACATTGTCA
1 AATTTGATTTGTATATGA-TTATACATTGTCG
* ** *
5968137 AAATTGATTTGTATATGAAGATA-AGTTGCCG
1 AATTTGATTTGTATATGATTATACA-TTGTCG
* * * *
5968168 AA-TTAATTCGTATATGGTTATACAATGTCG
1 AATTTGATTTGTATATGATTATACATTGTCG
*
5968198 AATTTGATTTGTATATGATTATACATT-TCCA
1 AATTTGATTTGTATATGATTATACATTGT-CG
* ** * *
5968229 AACTTGATTCATATATGGTTATACATTG-CC
1 AATTTGATTTGTATATGATTATACATTGTCG
* *
5968259 AAATTGATTTGTATATGATTATACATTGCCG
1 AATTTGATTTGTATATGATTATACATTGTCG
* * *
5968290 AATTTGATTCGTATATGAATATATATATTGTTG
1 AATTTGATTTGTATATG-AT-TATACATTGTCG
5968323 AA-TTGATTTG
1 AATTTGATTTG
5968333 AGCATTGGAT
Statistics
Matches: 152, Mismatches: 35, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
30 48 0.32
31 83 0.55
32 10 0.07
33 11 0.07
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (31 bp):
AATTTGATTTGTATATGATTATACATTGTCG
Found at i:5968220 original size:92 final size:92
Alignment explanation
Indices: 5968106--5968312 Score: 222
Period size: 92 Copynumber: 2.2 Consensus size: 92
5968096 TATATTGCTA
* * ** *
5968106 AATTTGAATTGTTTAT-AGTTATACATTGT-CAAAATTGATTTGTATATGAAGATA-AGTTGCCG
1 AATTTGATTTGTATATGA-TTATACATT-TCCAAAATTGATTCATATATGAAGATACA-TTGCCA
* *
5968168 AATTAATTCGTATATGGTTATACAATGTCG
63 AATTAATTCGTATATGATTATACAATGCCG
* ***
5968198 AATTTGATTTGTATATGATTATACATTTCCAAACTTGATTCATATATGGTTATACATTGCCAAAT
1 AATTTGATTTGTATATGATTATACATTTCCAAAATTGATTCATATATGAAGATACATTGCCAAAT
* * *
5968263 TGATTTGTATATGATTATACATTGCCG
66 TAATTCGTATATGATTATACAATGCCG
* *
5968290 AATTTGATTCGTATATGAATATA
1 AATTTGATTTGTATATGATTATA
5968313 TATATTGTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
91 1 0.01
92 93 0.97
93 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (92 bp):
AATTTGATTTGTATATGATTATACATTTCCAAAATTGATTCATATATGAAGATACATTGCCAAAT
TAATTCGTATATGATTATACAATGCCG
Found at i:5968568 original size:41 final size:42
Alignment explanation
Indices: 5968501--5968614 Score: 117
Period size: 41 Copynumber: 2.7 Consensus size: 42
5968491 AGAAAACGTG
* * *
5968501 TAAGACCATGTCTGGGACATCCGCATCGTATATG-ATT-CGTA
1 TAAGACCATGTCTGGGATAT-GGCATCGTATATGCATTACATA
* *
5968542 TAAGACCCTGTCTGGGATAGTGGCATCG-ATATGCATTAACATG
1 TAAGACCATGTCTGGGATA-TGGCATCGTATATGCATT-ACATA
* *
5968585 TAAGACCATATCTGGGATATGGCATTGTAT
1 TAAGACCATGTCTGGGATATGGCATCGTAT
5968615 GAGCTTTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
40 5 0.08
41 26 0.43
42 8 0.13
43 21 0.35
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTGGGATATGGCATCGTATATGCATTACATA
Found at i:5969645 original size:23 final size:23
Alignment explanation
Indices: 5969619--5969674 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
5969609 GGCATTACTG
* * * *
5969619 AATATGCCACATAGGCGTTACAA
1 AATATGCCACACAAGCCTCACAA
**
5969642 AATACACCACACAAGCCTCACAA
1 AATATGCCACACAAGCCTCACAA
5969665 AATATGCCAC
1 AATATGCCAC
5969675 TGAGGCTTTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (23 bp):
AATATGCCACACAAGCCTCACAA
Found at i:5971112 original size:29 final size:28
Alignment explanation
Indices: 5971058--5971117 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
5971048 TACATGCTGT
* * *
5971058 ATGCACTCAACAAAATCATCATAGCAAC
1 ATGCACTCAACAAAAACATAACAGCAAC
* *
5971086 ATGCACTTTAACAAAAACATAACAGCAGC
1 ATGCAC-TCAACAAAAACATAACAGCAAC
5971115 ATG
1 ATG
5971118 GTTGGCCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.47, C:0.25, G:0.10, T:0.18
Consensus pattern (28 bp):
ATGCACTCAACAAAAACATAACAGCAAC
Found at i:5984772 original size:114 final size:114
Alignment explanation
Indices: 5984597--5985214 Score: 896
Period size: 114 Copynumber: 5.4 Consensus size: 114
5984587 AAAATAAGCA
*** *
5984597 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGCCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
5984661 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
5984710 TTAGCGGTGTTTTTGAGAAAGCGGCACAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * * *
5984775 TCGGGGATTTAATGGCATTTTTAGGTAAGCGACGCTAATGCTCAGGTCG
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
** * * *
5984824 TTAGCATCATTTTTGGGAAAGCGCTGCAAAAATACCTAAGCCCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
5984889 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGACGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
5984938 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCTAACAACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
5985003 TCGAGGATTTAATGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * *
5985052 TTAGCGACGTTTTTGCGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
5985117 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCACCGCTAATGCTCATGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
5985166 TTAGCGGCGTTTTTGGGAAAGTGCCGCAAAAATACCTAAGCCCAACGAC
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGAC
5985215 ACCGCAAAAA
Statistics
Matches: 445, Mismatches: 59, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
113 22 0.05
114 423 0.95
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:5986201 original size:46 final size:46
Alignment explanation
Indices: 5986148--5986504 Score: 249
Period size: 46 Copynumber: 7.3 Consensus size: 46
5986138 AAAAAATGTC
*
5986148 CAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
* * * * *
5986194 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATA-TGTCACA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATA-ACT-T-A-A
*
5986242 CCATATAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 -C----AACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
* * * * *
5986293 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATA-TGTCACA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATA-ACT-T-A-A
*
5986341 CCATATAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 -C----AACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
* * * * *
5986392 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATA-TGTCACA
1 CAACTTAACAACTTATATAATTCACATAATAACTTACATA-ACT-T-A-A
*
5986440 CCATATAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 -C----AACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
*
5986491 TAACTTAACAACTT
1 CAACTTAACAACTT
5986505 GCATAACTTA
Statistics
Matches: 240, Mismatches: 38, Indels: 66
0.70 0.11 0.19
Matches are distributed among these distances:
45 24 0.10
46 94 0.39
47 3 0.01
48 3 0.01
49 3 0.01
50 2 0.01
51 3 0.01
52 3 0.01
53 81 0.34
54 24 0.10
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (46 bp):
CAACTTAACAACTTATATAATTCACATAATAACTTACATAACTTAA
Found at i:5986457 original size:8 final size:8
Alignment explanation
Indices: 5986444--5986572 Score: 63
Period size: 8 Copynumber: 16.0 Consensus size: 8
5986434 GTCACACCAT
5986444 ATAACTTA
1 ATAACTTA
5986452 ATAACTTA
1 ATAACTTA
*
5986460 TATAA-TTC
1 -ATAACTTA
*
5986468 A-CA-T-A
1 ATAACTTA
5986473 ATAACTTA
1 ATAACTTA
5986481 CATAACTTA
1 -ATAACTTA
5986490 ATAACTTA
1 ATAACTTA
* *
5986498 ACAACTTGC
1 ATAACTT-A
5986507 ATAACTTA
1 ATAACTTA
*
5986515 ATAAGTT-
1 ATAACTTA
*
5986522 AT-ACATGTT
1 ATAAC-T-TA
* *
5986531 ATATCATA
1 ATAACTTA
* *
5986539 ACTCACATA
1 A-TAACTTA
5986548 ATAACTTA
1 ATAACTTA
5986556 CATAACTTA
1 -ATAACTTA
5986565 ATAACTTA
1 ATAACTTA
5986573 TATATATATG
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 5 0.05
8 47 0.51
9 34 0.37
10 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (8 bp):
ATAACTTA
Found at i:5986464 original size:17 final size:17
Alignment explanation
Indices: 5986442--5986576 Score: 70
Period size: 17 Copynumber: 8.3 Consensus size: 17
5986432 ATGTCACACC
5986442 ATATAACTTAATAACTT
1 ATATAACTTAATAACTT
* *
5986459 ATATAA--T--TCACAT
1 ATATAACTTAATAACTT
5986472 A-ATAACTTACATAACTT
1 ATATAACTTA-ATAACTT
*
5986489 A-ATAACTTAACAACTT
1 ATATAACTTAATAACTT
** *
5986505 GCATAACTTAATAAGTT
1 ATATAACTTAATAACTT
* ** * *
5986522 ATACATGTT-ATATCAT
1 ATATAACTTAATAACTT
* *
5986538 A-ACTCACATAATAACTT
1 ATA-TAACTTAATAACTT
*
5986555 ACATAACTTAATAACTT
1 ATATAACTTAATAACTT
5986572 ATATA
1 ATATA
5986577 TATATGCATA
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
12 4 0.05
13 5 0.06
14 1 0.01
15 2 0.02
16 12 0.14
17 58 0.70
18 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAACTTAATAACTT
Found at i:5986510 original size:99 final size:99
Alignment explanation
Indices: 5986149--5986503 Score: 701
Period size: 99 Copynumber: 3.6 Consensus size: 99
5986139 AAAAATGTCC
5986149 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
1 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
5986214 TTTACATAATACATATATATATGTCACACCATAT
66 TTTACATAATACATATATATATGTCACACCATAT
5986248 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
1 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
5986313 TTTACATAATACATATATATATGTCACACCATAT
66 TTTACATAATACATATATATATGTCACACCATAT
5986347 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
1 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
5986412 TTTACATAATACATATATATATGTCACACCATAT
66 TTTACATAATACATATATATATGTCACACCATAT
*
5986446 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAATAACTTAACAACT
1 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACT
5986504 TGCATAACTT
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 255 1.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.34
Consensus pattern (99 bp):
AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAACAACTTAACAACTCACATAA
TTTACATAATACATATATATATGTCACACCATAT
Found at i:5986588 original size:27 final size:26
Alignment explanation
Indices: 5986554--5986619 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
5986544 CATAATAACT
*
5986554 TACATAACTTAATAACTTATATATATA
1 TACATAACTTAATAACTCATAT-TATA
* *
5986581 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
*
5986607 TACATAAATTAAT
1 TACATAACTTAAT
5986620 CATTGTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:5987184 original size:43 final size:43
Alignment explanation
Indices: 5987128--5987299 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
5987118 CAAACAATAG
* *
5987128 CGGCGTTTGTGGGAAAAGCACCGCTAAAGTACATGACCTTTAA
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAA
* *
5987171 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAA
* * * * * *
5987214 CAGCGTTTGCGGGAAAAGTGCCACTAAAGAACATGGCCTTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAA
*
5987257 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATTACCTTTAA
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAA
5987300 GGGTGTTTAT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (43 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAA
Found at i:5990364 original size:21 final size:21
Alignment explanation
Indices: 5990340--5990383 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5990330 AAACAACAAC
*
5990340 AACT-AAGTACATTTTCAACTA
1 AACTAAAGTACA-TTGCAACTA
*
5990361 AACTAAATTACATTGCAACTA
1 AACTAAAGTACATTGCAACTA
5990382 AA
1 AA
5990384 ACAGAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (21 bp):
AACTAAAGTACATTGCAACTA
Found at i:5996879 original size:8 final size:8
Alignment explanation
Indices: 5996868--5996972 Score: 60
Period size: 8 Copynumber: 13.8 Consensus size: 8
5996858 TTTATTCATC
5996868 TATTTACT
1 TATTTACT
5996876 TATTTACT
1 TATTTACT
* *
5996884 TATATATT
1 TATTTACT
*
5996892 TATTCAC-
1 TATTTACT
*
5996899 TA-TT-CC
1 TATTTACT
5996905 T-TTTACTT
1 TATTTAC-T
* *
5996913 TATTCATT
1 TATTTACT
*
5996921 TATTTACC
1 TATTTACT
*
5996929 CATTTACT
1 TATTTACT
*
5996937 TATTTATT
1 TATTTACT
*
5996945 TATATA-T
1 TATTTACT
*
5996952 TATTCACT
1 TATTTACT
5996960 TATTTACT
1 TATTTACT
5996968 T-TTTA
1 TATTTA
5996973 TTTTAATTCT
Statistics
Matches: 71, Mismatches: 20, Indels: 13
0.68 0.19 0.12
Matches are distributed among these distances:
5 1 0.01
6 4 0.06
7 12 0.17
8 51 0.72
9 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTACT
Found at i:5997112 original size:14 final size:15
Alignment explanation
Indices: 5997093--5997122 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5997083 TGTGCATTTA
5997093 TTATTATTA-CTATT
1 TTATTATTATCTATT
5997107 TTATTATTATCTATT
1 TTATTATTATCTATT
5997122 T
1 T
5997123 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:5997381 original size:6 final size:6
Alignment explanation
Indices: 5997370--5997416 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
5997360 TATTATTACT
* * *
5997370 AATATG AATATG AATATG AATATG AATATT AATATT AATATT AATAT
1 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATAT
5997417 TATAATTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (6 bp):
AATATG
Found at i:6008413 original size:88 final size:88
Alignment explanation
Indices: 6008293--6008601 Score: 388
Period size: 88 Copynumber: 3.5 Consensus size: 88
6008283 ATAGCTAATA
* * * * *
6008293 TTATATCTCTAAAGTTGTAGTGGAGCATATTGAAGCTACAAATCTTATCTCCTTAAAGTTGTAGT
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGTAGT
6008358 -GTAGCAGATTGAAGATAGCGATC
66 AG-AGCAGATTGAAGATAGCGATC
*
6008381 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAACCTTATCTCCCTGAAGTTGTAGT
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGTAGT
6008446 AGAGCAGATTGAAGATAGCGAATC
66 AGAGCAGATTGAAGATAGCG-ATC
** * * *
6008470 TTATCTCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGTAGT
* ***
6008535 AGAGCAGATTGAAGCTATAAATC
66 AGAGCAGATTGAAGATAGCGATC
** * * * *
6008558 CAATTTC-CCAGAAGTTGTAGTGGAGCAGATTGAAGCGACAAATC
1 TTATCTCTCTA-AAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
6008602 CAATATCTTT
Statistics
Matches: 192, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
87 2 0.01
88 111 0.58
89 79 0.41
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (88 bp):
TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGTAGT
AGAGCAGATTGAAGATAGCGATC
Found at i:6008502 original size:133 final size:132
Alignment explanation
Indices: 6008304--6008601 Score: 359
Period size: 133 Copynumber: 2.2 Consensus size: 132
6008294 TATATCTCTA
* * ** *
6008304 AAGTTGTAGTGGAGCATATTGAAGCTACAAATCTTATCTCCTTAAAGTTGTAGTGTAGCAGATTG
1 AAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCTTAAAGTTACAGTGTAGCAAATTG
*** * * *
6008369 AAGATAGCGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAA-CCTTATCTCC
66 AAGATAAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCC-AATCTCC
*
6008433 CTG
130 CAG
* *
6008436 AAGTTGTAGTAGAGCAGATTGAAGATAGCGAATCTTATCT-CTCTAAAGTTACAGTAG-AGCAAA
1 AAGTTGTAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCT-TAAAGTTACAGT-GTAGCAAA
* * * *
6008499 TTGAAGCTAAAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTATAAATCCAATTT
63 TTGAAGATAAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCCAATCT
6008564 CCCAG
128 CCCAG
**
6008569 AAGTTGTAGTGGAGCAGATTGAAGCGACAAATC
1 AAGTTGTAGTGGAGCAGATTGAAGATACAAATC
6008602 CAATATCTTT
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
132 31 0.22
133 106 0.76
134 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (132 bp):
AAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCTTAAAGTTACAGTGTAGCAAATTG
AAGATAAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCCAATCTCCC
AG
Found at i:6008517 original size:89 final size:89
Alignment explanation
Indices: 6008283--6008548 Score: 392
Period size: 89 Copynumber: 3.0 Consensus size: 89
6008273 TGAAGTCATC
* * * * * * *
6008283 ATAGCTAATATTATATCTCTAAAGTTGTAGTGGAGCATATTGAAGCTACAAATCTTATCTCCTTA
1 ATAGCGAATCTTATCTCTCTAAAGTTGTAGTAGAGCAAATTGAAGCTACAAATCTTATCTCCCTG
6008348 AAGTTGTAGT-GTAGCAGATTGAAG
66 AAGTTGTAGTAG-AGCAGATTGAAG
* *
6008372 ATAGCG-ATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAACCTTATCTCCCTG
1 ATAGCGAATCTTATCTCTCTAAAGTTGTAGTAGAGCAAATTGAAGCTACAAATCTTATCTCCCTG
6008436 AAGTTGTAGTAGAGCAGATTGAAG
66 AAGTTGTAGTAGAGCAGATTGAAG
** *
6008460 ATAGCGAATCTTATCTCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTG
1 ATAGCGAATCTTATCTCTCTAAAGTTGTAGTAGAGCAAATTGAAGCTACAAATCTTATCTCCCTG
*
6008525 AAGTTGCAGTAGAGCAGATTGAAG
66 AAGTTGTAGTAGAGCAGATTGAAG
6008549 CTATAAATCC
Statistics
Matches: 161, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
88 79 0.49
89 82 0.51
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (89 bp):
ATAGCGAATCTTATCTCTCTAAAGTTGTAGTAGAGCAAATTGAAGCTACAAATCTTATCTCCCTG
AAGTTGTAGTAGAGCAGATTGAAG
Found at i:6008617 original size:177 final size:176
Alignment explanation
Indices: 6008283--6008620 Score: 403
Period size: 177 Copynumber: 1.9 Consensus size: 176
6008273 TGAAGTCATC
* ** * * * *
6008283 ATAGCTAATATTATATCTCTAAAGTTGTAGTGGAGCATATTGAAGCTACAAATCTTATCTCCTTA
1 ATAGCGAATATTATATCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTA
* ** ** *
6008348 AAGTTGTAGTGTAGCAGATTGAAGATAGCGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTG
66 AAGTTGCAGTGTAGCAGATTGAAGATAGAAATCCAATCTCTCCAAAGTTGTAGTAGAGCAGATTG
* *
6008413 AAGCTACAAACCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAG
131 AAGCGACAAACCATATCT-CCTGAAGTTGTAGTAGAGCAGATTGAAG
* * *
6008460 ATAGCGAATCTTATCTCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTG
1 ATAGCGAATATTATATCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTA
* * * *
6008525 AAGTTGCAGTAG-AGCAGATTGAAGCTATAAATCCAATTTC-CCAGAAGTTGTAGTGGAGCAGAT
66 AAGTTGCAGT-GTAGCAGATTGAAGATAGAAATCCAATCTCTCCA-AAGTTGTAGTAGAGCAGAT
*
6008588 TGAAGCGACAAATCCAATATCT-TTGAAGTTGTA
129 TGAAGCGACAAA-CC-ATATCTCCTGAAGTTGTA
6008621 AGAGGTCAAA
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
176 2 0.01
177 124 0.93
178 3 0.02
179 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (176 bp):
ATAGCGAATATTATATCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATCTTATCTCCCTA
AAGTTGCAGTGTAGCAGATTGAAGATAGAAATCCAATCTCTCCAAAGTTGTAGTAGAGCAGATTG
AAGCGACAAACCATATCTCCTGAAGTTGTAGTAGAGCAGATTGAAG
Found at i:6008620 original size:44 final size:44
Alignment explanation
Indices: 6008293--6008601 Score: 329
Period size: 44 Copynumber: 7.0 Consensus size: 44
6008283 ATAGCTAATA
* * *
6008293 TTATATCTCTAAAGTTGTAGTGGAGCATATTGAAGCTACAAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
* *
6008337 TTATCTC-CTTAAAGTTGTAGT-GTAGCAGATTGAAGATAGC-GATC
1 TTATCTCTC-TAAAGTTGTAGTAG-AGCAGATTGAAGCTA-CAAATC
*
6008381 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAACC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
* * * *
6008425 TTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGATAGCGAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTA-CAAATC
** * *
6008470 TTATCTCTCTAAAGTTACAGTAGAGCAAATTGAAGCTAAAAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
* * * *
6008514 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTATAAATC
1 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
** * * * *
6008558 CAATTTC-CCAGAAGTTGTAGTGGAGCAGATTGAAGCGACAAATC
1 TTATCTCTCTA-AAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
6008602 CAATATCTTT
Statistics
Matches: 223, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
43 4 0.02
44 180 0.81
45 39 0.17
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGCTACAAATC
Found at i:6012759 original size:46 final size:46
Alignment explanation
Indices: 6012706--6012864 Score: 246
Period size: 46 Copynumber: 3.5 Consensus size: 46
6012696 AATAAAATAT
* * *
6012706 AAACAAATCCTTAAAATTGTGGAAGACAAATGCCCACAATTTAACC
1 AAACAAATCCATAAAATTGTGGAAGACAAATGCCTACAATTTAGCC
* *
6012752 AAACAAATCCCTAAAATTATGGAAGACAAATGCCTACAATTTAGCC
1 AAACAAATCCATAAAATTGTGGAAGACAAATGCCTACAATTTAGCC
* * *
6012798 AATCAAATCCATAAAATTGTGAAAGACAAATGCCTAAAATTTAGCC
1 AAACAAATCCATAAAATTGTGGAAGACAAATGCCTACAATTTAGCC
6012844 AAACAAATCCATAAAATTGTG
1 AAACAAATCCATAAAATTGTG
6012865 AAAGGTAACT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (46 bp):
AAACAAATCCATAAAATTGTGGAAGACAAATGCCTACAATTTAGCC
Found at i:6012769 original size:23 final size:23
Alignment explanation
Indices: 6012743--6012861 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 23
6012733 AAATGCCCAC
6012743 AATTTAACCAAACAAATCCCTAA
1 AATTTAACCAAACAAATCCCTAA
*** * *
6012766 AA-TTATGGAAGACAAATGCCTAC
1 AATTTAACCAA-ACAAATCCCTAA
* * *
6012789 AATTTAGCCAATCAAATCCATAA
1 AATTTAACCAAACAAATCCCTAA
* *
6012812 AATTGTGAA--AGACAAATGCCTAA
1 AATT-T-AACCAAACAAATCCCTAA
* *
6012835 AATTTAGCCAAACAAATCCATAA
1 AATTTAACCAAACAAATCCCTAA
6012858 AATT
1 AATT
6012862 GTGAAAGGTA
Statistics
Matches: 69, Mismatches: 21, Indels: 12
0.68 0.21 0.12
Matches are distributed among these distances:
21 1 0.01
22 6 0.09
23 55 0.80
24 6 0.09
25 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (23 bp):
AATTTAACCAAACAAATCCCTAA
Found at i:6017244 original size:38 final size:38
Alignment explanation
Indices: 6017193--6017265 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
6017183 TCCATCACAG
* *
6017193 TAGCTAGCTACTGGGGCTCTTGAGCGTCGCCCAGGCGT
1 TAGCTAGCTACTGGGACTCTCGAGCGTCGCCCAGGCGT
* * *
6017231 TAGCTTGCTACTGGGATTCTCGAGCGTCGTCCAGG
1 TAGCTAGCTACTGGGACTCTCGAGCGTCGCCCAGG
6017266 TTTTGCGCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.14, C:0.27, G:0.33, T:0.26
Consensus pattern (38 bp):
TAGCTAGCTACTGGGACTCTCGAGCGTCGCCCAGGCGT
Found at i:6019214 original size:84 final size:84
Alignment explanation
Indices: 6019071--6019239 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
6019061 TTATGCAGGC
* *
6019071 CAGTTTCAAGGGCAGTCTGCTAGGCAGCGTTTTGGGCCGAATGCAGGCCAGTCTATTGGACCTGT
1 CAGTTTCAAGGGCAGTCTGCTAGGCAGCGTTTTGGGCCGAATGCAAGCCAGTCTATTGGACATGT
*
6019136 TTTTGGACAAAATAGTGGG
66 TTTTGGACAAAATAATGGG
* * * * *
6019155 CAGTTTCAAGTGCAGTTTGCTGGGGAGCGTTTTGGGCCGAATGCAAGCCAGTCTGTTGGACATGT
1 CAGTTTCAAGGGCAGTCTGCTAGGCAGCGTTTTGGGCCGAATGCAAGCCAGTCTATTGGACATGT
6019220 TTTTGGACAAAATAATGGG
66 TTTTGGACAAAATAATGGG
6019239 C
1 C
6019240 TGACTGTAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (84 bp):
CAGTTTCAAGGGCAGTCTGCTAGGCAGCGTTTTGGGCCGAATGCAAGCCAGTCTATTGGACATGT
TTTTGGACAAAATAATGGG
Found at i:6020992 original size:18 final size:18
Alignment explanation
Indices: 6020969--6021008 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
6020959 TACCTTTACC
*
6020969 TTCTGATCTAGGTTGCAA
1 TTCTGATCCAGGTTGCAA
6020987 TTCTGATCCAGGTTGCAA
1 TTCTGATCCAGGTTGCAA
6021005 TTCT
1 TTCT
6021009 CGTCGATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (18 bp):
TTCTGATCCAGGTTGCAA
Found at i:6023712 original size:3 final size:3
Alignment explanation
Indices: 6023706--6023731 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6023696 TAAATAATAA
6023706 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6023732 GAAATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6024968 original size:37 final size:35
Alignment explanation
Indices: 6024927--6025020 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
6024917 TATATGTGTG
*
6024927 GAATTGAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
6024964 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
* *
6025001 GAAATTGAACTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
6025021 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 14 0.29
37 15 0.31
38 6 0.12
39 14 0.29
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:6026534 original size:113 final size:114
Alignment explanation
Indices: 6026260--6026552 Score: 340
Period size: 113 Copynumber: 2.6 Consensus size: 114
6026250 ACAACCACAT
* * * * * * * * * *
6026260 GCCGCAAAATCTCCTATCCAAAACACAAC-ATTTTCGTCTTCATGTATGCAAGAATTAGTGGCGC
1 GCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGC
* *
6026324 TTCAAAAAACACGCCGCTAAAGTGTCTTAGCGGCGTTTTACAACAGCGC
66 TTCAAAAAACACGCCGCAAAAGCGTCTTAGCGGCGTTTTACAACAGCGC
* ** *
6026373 GCCGTAATTTCTCCTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGC
1 GCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGC
* * * * *
6026438 TTCTCAAAAA-ACGCCGCAAAAGCGTCTTAGCGGCGTTTTGCGATA-TGC
66 TTC-AAAAAACACGCCGCAAAAGCGTCTTAGCGGCGTTTTACAACAGCGC
* * *
6026486 GCCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTGATGTATCCTAGATTTAGTGGCGC
1 GCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGC
6026551 TT
66 TT
6026553 TGTGATATGC
Statistics
Matches: 152, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
113 85 0.56
114 62 0.41
115 5 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (114 bp):
GCCGCAAAATATCCTAACCAAAACGCATCGTTTTTAGTGTTGATGTATCCTAGAATTAGTGGCGC
TTCAAAAAACACGCCGCAAAAGCGTCTTAGCGGCGTTTTACAACAGCGC
Found at i:6027108 original size:258 final size:262
Alignment explanation
Indices: 6026607--6027399 Score: 1179
Period size: 258 Copynumber: 3.0 Consensus size: 262
6026597 AAAGCGCCAC
* *
6026607 AAAATATCTTTACTAAAACGCGTAGTTTTAATATTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAAT-TTTATG--TACTTATATTAGTGGCGCTTACTA
* * * *
6026672 GAAAACGACGTTAAAGAATAGATTTAGCGGCGGTTGAGCCAAAGCGCCGCAACATAACTTAACAA
63 GAAAACGCCGTTAAAGAATACA-TTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATCTTAACAA
* *
6026737 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGTAAAAAA
127 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATA
* *
6026802 TCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGTGCCGACGTTAAAAC
192 TCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAAC
6026867 GCCGCA
257 GCCGCA
* *
6026873 AAAATATCTTAACT-AAATGCGTAGTTTTAA-TTT-TG-A-TTATATTAGTGGCGCTTTCTAGAA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
* *
6026933 AACGCCGTTAAAGAATATCATTAGCGGCGCTTGAGCCAAAGCGTCGCAAAATATCTTAACAAAAC
66 AACGCCGTTAAAGAATA-CATTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATCTTAACAAAAC
* *
6026998 GCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCGTATAGGAAAACACCGCAAAATATCT
130 GCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCT
* * * *
6027063 GAAGCAAAACGCACCATTTTGGTCTCGATGTATACTTTAATTAGTGGCGCTGACGTTGAAACGCC
195 GAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCC
6027128 GC-
260 GCA
6027130 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTT-ATG--TACTTATATTAGTGGCGCTTACTA
* * * *
6027195 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTTG-GATC-AAGCGCCGCAACGTTTCTTAAC
63 GAAAACGCCGTTAAAGAATA-CATTAGCGGCGC-TTGAG-CCAAAGCGCCGCAACATATCTTAAC
* *
6027258 AAAATGCAGTGTTTTGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAA
125 AAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAA
*
6027323 TATCTGAACCAAAACGAACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAA
190 TATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAA
*
6027388 ATGCCGCA
255 ACGCCGCA
6027396 AAAA
1 AAAA
6027400 AGCAAAATAC
Statistics
Matches: 476, Mismatches: 39, Indels: 24
0.88 0.07 0.04
Matches are distributed among these distances:
257 14 0.03
258 217 0.46
259 5 0.01
261 2 0.00
262 2 0.00
263 2 0.00
264 1 0.00
265 212 0.45
266 21 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (262 bp):
AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTATGTACTTATATTAGTGGCGCTTACTAGAA
AACGCCGTTAAAGAATACATTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATCTTAACAAAACG
CAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAATATCTG
AACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAACGCCG
CA
Found at i:6027294 original size:265 final size:265
Alignment explanation
Indices: 6026601--6027398 Score: 1229
Period size: 265 Copynumber: 3.0 Consensus size: 265
6026591 TCGTAGAAAG
* * *
6026601 CGCCACAAAATATCTTTACTAAAACGCGTAGTTTTAATATTGATGTATACTTATATTAGTGGCGC
1 CGCCGCAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGC
* * * *
6026666 TTACTAGAAAACGACGTTAAAGAATAGATTTAGCGGCGGTTGAGCCAAAGCGCCGCAACATAACT
66 TTACTAGAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATCT
*
6026731 TAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGT
131 TAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGC
* * *
6026796 AAAAAATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGTGCCGACGT
196 AAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGT
6026861 TAAAA
261 TAAAA
*
6026866 CGCCGCAAAAATATCTTAACT-AAATGCGTAGTTTTAA-TTT--TG---A-TTATATTAGTGGCG
1 CGCCGC-AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCG
* * * * *
6026923 CTTTCTAGAAAACGCCGTTAAAGAATATCATTAGCGGCGCTTGAGCCAAAGCGTCGCAAAATATC
65 CTTACTAGAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATC
* *
6026988 TTAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCGTATAGGAAAACACCG
130 TTAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCG
* * *
6027053 CAAAATATCTGAAGCAAAACGCACCATTTTGGTCTCGATGTATACTTTAATTAGTGGCGCTGACG
195 CAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACG
*
6027118 TTGAAA
260 TTAAAA
6027124 CGCCGCAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGC
1 CGCCGCAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGC
* * *
6027189 TTACTAGAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTTG-GATC-AAGCGCCGCAACGTTT
66 TTACTAGAAAACGCCGTTAAAGAATAGCTTTAGCGGCGC-TTGAG-CCAAAGCGCCGCAACATAT
* *
6027252 CTTAACAAAATGCAGTGTTTTGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCC
129 CTTAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCC
*
6027317 GCAAAATATCTGAACCAAAACGAACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGAC
194 GCAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGAC
6027382 GTTAAAA
259 GTTAAAA
*
6027389 TGCCGCAAAA
1 CGCCGCAAAA
6027399 AAGCAAAATA
Statistics
Matches: 480, Mismatches: 42, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
257 14 0.03
258 217 0.45
259 4 0.01
261 2 0.00
262 2 0.00
264 3 0.01
265 221 0.46
266 17 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (265 bp):
CGCCGCAAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGC
TTACTAGAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCCGCAACATATCT
TAACAAAACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGC
AAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGT
TAAAA
Found at i:6028617 original size:39 final size:40
Alignment explanation
Indices: 6028563--6028641 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
6028553 TCCCTAATTT
* * *
6028563 CCCATTTCGTATTCCCCCA-ATTCCCCGATTTCATTTCCC
1 CCCAATTCCTATTCCCCCAGATTCCCCGATTTAATTTCCC
*
6028602 CCCAATTCCTATTCCCCCAGTTTCCCCGATTTAATTTCCC
1 CCCAATTCCTATTCCCCCAGATTCCCCGATTTAATTTCCC
6028642 TAAATCCCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 17 0.49
40 18 0.51
ACGTcount: A:0.16, C:0.43, G:0.05, T:0.35
Consensus pattern (40 bp):
CCCAATTCCTATTCCCCCAGATTCCCCGATTTAATTTCCC
Found at i:6030625 original size:15 final size:15
Alignment explanation
Indices: 6030601--6030633 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6030591 AAGGTTTCTA
*
6030601 TATTAGTATTAAATT
1 TATTACTATTAAATT
6030616 TATTACTATTAAATT
1 TATTACTATTAAATT
6030631 TAT
1 TAT
6030634 AAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:6030834 original size:24 final size:26
Alignment explanation
Indices: 6030807--6030861 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
6030797 TATATATCTT
* *
6030807 ACATAATACATAAC-TACATAACAA-
1 ACATAATAAAGAACTTACATAACAAC
*
6030831 ACATAATAAAGAACTTACATAATAAC
1 ACATAATAAAGAACTTACATAACAAC
6030857 ACATA
1 ACATA
6030862 CCGTACATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 12 0.46
25 9 0.35
26 5 0.19
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (26 bp):
ACATAATAAAGAACTTACATAACAAC
Found at i:6030983 original size:9 final size:9
Alignment explanation
Indices: 6030951--6031201 Score: 167
Period size: 9 Copynumber: 29.8 Consensus size: 9
6030941 TACATAATAA
6030951 TACAT-ACT
1 TACATAACT
*
6030959 TACATAAAT
1 TACATAACT
* *
6030968 TAAATAAGT
1 TACATAACT
6030977 TACATAA--
1 TACATAACT
* *
6030984 TACACAAAT
1 TACATAACT
6030993 TACATAACT
1 TACATAACT
6031002 TACATAA--
1 TACATAACT
*
6031009 TACATAATT
1 TACATAACT
6031018 TACATAA--
1 TACATAACT
*
6031025 TACACAACT
1 TACATAACT
*
6031034 GACATAACT
1 TACATAACT
6031043 TACATAA--
1 TACATAACT
**
6031050 TACATATTT
1 TACATAACT
*
6031059 TACATCACT
1 TACATAACT
6031068 TACATAA--
1 TACATAACT
*
6031075 GACATAACT
1 TACATAACT
*
6031084 TACATAAGT
1 TACATAACT
*
6031093 TTCATAA--
1 TACATAACT
*
6031100 TACACAACT
1 TACATAACT
*
6031109 GACATAACT
1 TACATAACT
6031118 TACATAA--
1 TACATAACT
*
6031125 TACACAACT
1 TACATAACT
*
6031134 TACATAAGT
1 TACATAACT
*
6031143 TTCATAA--
1 TACATAACT
*
6031150 TACACAACT
1 TACATAACT
* *
6031159 TACACAGCT
1 TACATAACT
6031168 TACATAACT
1 TACATAACT
* *
6031177 TACACAAGT
1 TACATAACT
6031186 TACATAACT
1 TACATAACT
6031195 TACATAA
1 TACATAA
6031202 TAAATAACTT
Statistics
Matches: 188, Mismatches: 38, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
7 47 0.25
8 5 0.03
9 136 0.72
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (9 bp):
TACATAACT
Found at i:6031026 original size:41 final size:41
Alignment explanation
Indices: 6030951--6031140 Score: 177
Period size: 41 Copynumber: 4.8 Consensus size: 41
6030941 TACATAATAA
* * *
6030951 TACAT-ACTTACATAAATTAAATAAGTTACATAATACACAAAT
1 TACATAACTTACAT-AA-TACATAATTTACATAATACACAACT
6030993 TACATAACTTACATAATACATAATTTACATAATACACAACT
1 TACATAACTTACATAATACATAATTTACATAATACACAACT
* *
6031034 GACATAACTTACATAATACATATTTTAC---AT---C-ACT
1 TACATAACTTACATAATACATAATTTACATAATACACAACT
*
6031068 TACATAA--GACATAACTTACATAAGTTT-CATAATACACAACT
1 TACATAACTTACATAA--TACATAA-TTTACATAATACACAACT
* * *
6031109 GACATAACTTACATAATACACAACTTACATAA
1 TACATAACTTACATAATACATAATTTACATAA
6031141 GTTTCATAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
32 6 0.05
34 16 0.13
35 4 0.03
37 2 0.02
38 2 0.02
40 3 0.02
41 68 0.56
42 7 0.06
43 14 0.11
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.31
Consensus pattern (41 bp):
TACATAACTTACATAATACATAATTTACATAATACACAACT
Found at i:6031126 original size:25 final size:25
Alignment explanation
Indices: 6030904--6031212 Score: 234
Period size: 25 Copynumber: 12.2 Consensus size: 25
6030894 CCAAAAAAAA
*
6030904 AACTTACATAACTTAGATAATATC-C
1 AACTTACATAACTTACATAATA-CAC
* * * *
6030929 TACATA-ATAAATTACATAATAATAC
1 AACTTACATAACTTACATAAT-ACAC
* * *
6030954 ATACTTACATAAATTAAATAAGTTACAT
1 A-ACTTACATAACTTACATAA--TACAC
* * *
6030982 AA--TACACAAATTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAC
*
6031007 AA--TACATAATTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
* *
6031030 AACTGACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
** * * *
6031055 ATTTTACATCACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAC
* *
6031080 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
*
6031105 AACTGACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
* *
6031130 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
* *
6031155 AACTTACACAGCTTACATAACTTACAC
1 AACTTACATAACTTACATAA--TACAC
* * *
6031182 AAGTTACATAACTTACATAATAAAT
1 AACTTACATAACTTACATAATACAC
6031207 AACTTA
1 AACTTA
6031213 TTCCTAAATC
Statistics
Matches: 227, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
23 6 0.03
24 12 0.05
25 166 0.73
26 4 0.02
27 35 0.15
28 3 0.01
29 1 0.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:6031176 original size:18 final size:18
Alignment explanation
Indices: 6030958--6031198 Score: 89
Period size: 16 Copynumber: 13.8 Consensus size: 18
6030948 TAATACATAC
* * *
6030958 TTACATAAATTAAATAAG
1 TTACATAACTTACACAAG
*
6030976 TTACATAA--TACACAAA
1 TTACATAACTTACACAAG
*
6030992 TTACATAACTTACATAA-
1 TTACATAACTTACACAAG
* *
6031009 -TACATAATTTACATAA-
1 TTACATAACTTACACAAG
* * * *
6031025 -TACACAACTGACATAAC
1 TTACATAACTTACACAAG
* **
6031042 TTACATAA--TACATATT
1 TTACATAACTTACACAAG
* *
6031058 TTACATCACTTACATAAG
1 TTACATAACTTACACAAG
*
6031076 --ACATAACTTACATAAG
1 TTACATAACTTACACAAG
* *
6031092 TTTCATAA--TACACAAC
1 TTACATAACTTACACAAG
* *
6031108 TGACATAACTTACATAA-
1 TTACATAACTTACACAAG
* *
6031125 -TACACAACTTACATAAG
1 TTACATAACTTACACAAG
*
6031142 TTTCATAATACACAACTTACAC-AG
1 -----T--TACATAACTTACACAAG
6031166 CTTACATAACTTACACAAG
1 -TTACATAACTTACACAAG
6031185 TTACATAACTTACA
1 TTACATAACTTACA
6031199 TAATAAATAA
Statistics
Matches: 176, Mismatches: 27, Indels: 40
0.72 0.11 0.16
Matches are distributed among these distances:
16 94 0.53
18 64 0.36
19 2 0.01
20 1 0.01
24 2 0.01
25 13 0.07
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.30
Consensus pattern (18 bp):
TTACATAACTTACACAAG
Found at i:6036693 original size:21 final size:21
Alignment explanation
Indices: 6036668--6036715 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6036658 CAGCAACTTA
* *
6036668 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGATGCGACAGCGAGAG
*
6036689 AAGCAGATGCTACAGCGAGAG
1 AAGCAGATGCGACAGCGAGAG
6036710 AAGCAG
1 AAGCAG
6036716 CGAGAGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.40, T:0.06
Consensus pattern (21 bp):
AAGCAGATGCGACAGCGAGAG
Found at i:6036718 original size:12 final size:12
Alignment explanation
Indices: 6036701--6036739 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
6036691 GCAGATGCTA
6036701 CAGCGAGAGAAG
1 CAGCGAGAGAAG
6036713 CAGCGAGAGAAG
1 CAGCGAGAGAAG
* *
6036725 CAGCCATAGAAG
1 CAGCGAGAGAAG
6036737 CAG
1 CAG
6036740 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.21, G:0.36, T:0.03
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:6037218 original size:42 final size:43
Alignment explanation
Indices: 6037146--6037238 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
6037136 TCAAAACAGT
* * *
6037146 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
* *
6037189 GGCGTTTTTG-AACAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
6037231 GGCGTTTT
1 GGCGTTTT
6037239 CCTCCGAAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 36 0.80
43 9 0.20
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:6037326 original size:43 final size:43
Alignment explanation
Indices: 6037159--6037345 Score: 166
Period size: 43 Copynumber: 4.3 Consensus size: 43
6037149 GTTTGTGAAA
***
6037159 TAAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTTTTCC
* * * **
6037202 -AAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCCTCC
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCC
* * **
6037244 GAAGCGCTGCTAAAGAACATGA-TATTTAGCATCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTTCC
* **
6037287 TAAGCGCCGCTAAAGAACATGA-TCTTTAGTGGCGTTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTT-CC
*
6037331 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
6037346 TTAGCGACGT
Statistics
Matches: 117, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 35 0.30
43 67 0.57
44 14 0.12
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCC
Found at i:6038324 original size:53 final size:53
Alignment explanation
Indices: 6038240--6038344 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
6038230 GAGATTCAAG
* * *
6038240 TTAATAGCTACATTTAATAAAGCTTGACAATTGGAAGATGGTAATAATAATTT
1 TTAATAGCCACATTTAATAAAGCTTGACAATTCGAAGATGGTAATAAAAATTT
* * *
6038293 TTAATAGCCACATTTAAT-ACGGTTGGGCAATTCGAAGATGGTAATAAAAATT
1 TTAATAGCCACATTTAATAAAGCTT-GACAATTCGAAGATGGTAATAAAAATT
6038345 GTTGCCACGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.09
53 41 0.91
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (53 bp):
TTAATAGCCACATTTAATAAAGCTTGACAATTCGAAGATGGTAATAAAAATTT
Found at i:6038549 original size:12 final size:12
Alignment explanation
Indices: 6038534--6038576 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
6038524 CCTTAACATA
6038534 ATTTTTAAAATT
1 ATTTTTAAAATT
*
6038546 ATTTTCAAAATT
1 ATTTTTAAAATT
6038558 ACTTTTTTAAAATTT
1 A--TTTTTAAAA-TT
6038573 ATTT
1 ATTT
6038577 GGTTTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 12 0.46
13 3 0.12
14 8 0.31
15 3 0.12
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTTAAAATT
Found at i:6038823 original size:10 final size:11
Alignment explanation
Indices: 6038797--6038822 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6038787 TTAAAAATAA
6038797 AAAAATATTTT
1 AAAAATATTTT
6038808 AAAAATATTTT
1 AAAAATATTTT
6038819 AAAA
1 AAAA
6038823 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6044750 original size:17 final size:18
Alignment explanation
Indices: 6044728--6044762 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6044718 AATATATTAA
6044728 TTAGTTAA-TTGATGTTT
1 TTAGTTAAGTTGATGTTT
*
6044745 TTAGTTAAGTTTATGTTT
1 TTAGTTAAGTTGATGTTT
6044763 AGTAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (18 bp):
TTAGTTAAGTTGATGTTT
Found at i:6045426 original size:14 final size:15
Alignment explanation
Indices: 6045407--6045435 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6045397 GTCTTGAATA
6045407 GAACAAA-TTTATTT
1 GAACAAAGTTTATTT
6045421 GAACAAAGTTTATTT
1 GAACAAAGTTTATTT
6045436 AAGCTACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (15 bp):
GAACAAAGTTTATTT
Found at i:6047703 original size:16 final size:18
Alignment explanation
Indices: 6047671--6047703 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6047661 TTCATCCTAA
6047671 AATTATATATGAAATTAT
1 AATTATATATGAAATTAT
6047689 AATTAT-TAT-AAATTA
1 AATTATATATGAAATTA
6047704 ACTTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AATTATATATGAAATTAT
Found at i:6053721 original size:49 final size:50
Alignment explanation
Indices: 6053661--6053896 Score: 232
Period size: 49 Copynumber: 4.8 Consensus size: 50
6053651 GATAATAACA
* *
6053661 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC-
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTACG
* * **
6053710 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-G-TTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTA-C-G
* * * ** * * *
6053760 TGCCCATGTCATATCCCAGACATGGTCTTAC-GGGAGACCTCTCATCT-CGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGG-GATGTTTCTTGTAC-G
* * *
6053810 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC-
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTACG
*
6053859 TGCAAATGCCATATCCCAGACATGGTCTTACATGGGAT
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAT
6053897 CTCATTCCCT
Statistics
Matches: 148, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 68 0.46
50 66 0.45
51 3 0.02
52 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATGTTTCTTGTACG
Found at i:6053785 original size:50 final size:49
Alignment explanation
Indices: 6053661--6053892 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 49
6053651 GATAATAACA
* * * *
6053661 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTAC
* *
6053710 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATAT-C
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGAGATGTT-TCATGTAC
* * ** ** * *
6053758 GGTGCCCATGTCATATCCCAGACATGGTCTTACGGGAGACCTCTCATCT-C
1 --TGCCAATGCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTAC
* * * * *
6053808 GGTGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC
1 --TGCCAATGCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTAC
*
6053859 TGCAAATGCCATATCCCAGACATGGTCTTACATG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATG
6053893 GGATCTCATT
Statistics
Matches: 147, Mismatches: 31, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
48 4 0.03
49 67 0.46
50 74 0.50
51 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTAC
Found at i:6055520 original size:16 final size:16
Alignment explanation
Indices: 6055499--6055534 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6055489 AGATAGTAAG
*
6055499 CAAAGTGCGAGCCTGT
1 CAAAGTGCGAGCCTAT
*
6055515 CAAAGTGTGAGCCTAT
1 CAAAGTGCGAGCCTAT
6055531 CAAA
1 CAAA
6055535 TTGCAAGCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (16 bp):
CAAAGTGCGAGCCTAT
Found at i:6055605 original size:44 final size:44
Alignment explanation
Indices: 6055536--6055631 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
6055526 CCTATCAAAT
6055536 TGCAAGCCGAAGCGGCGGACAGTCTAAATGCAAACCT-GAATGGG
1 TGCAAGCCGAAGCGGCGGACAGTCTAAATGC-AACCTCGAATGGG
* * * * * *
6055580 TGCAAGCTGAAGTGGCGGCCGGTCTAAATGCAAGCTCGAGTGGG
1 TGCAAGCCGAAGCGGCGGACAGTCTAAATGCAACCTCGAATGGG
6055624 TGCAAGCC
1 TGCAAGCC
6055632 AAAATAACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 4 0.09
44 40 0.91
ACGTcount: A:0.27, C:0.23, G:0.34, T:0.16
Consensus pattern (44 bp):
TGCAAGCCGAAGCGGCGGACAGTCTAAATGCAACCTCGAATGGG
Found at i:6058126 original size:9 final size:9
Alignment explanation
Indices: 6058112--6058167 Score: 94
Period size: 9 Copynumber: 6.2 Consensus size: 9
6058102 TCGGGTATTT
6058112 TTCGGTTAA
1 TTCGGTTAA
6058121 TTCGGTTAA
1 TTCGGTTAA
6058130 TTCGGTTAA
1 TTCGGTTAA
6058139 TTCGGTTAA
1 TTCGGTTAA
*
6058148 TTCGGGTAA
1 TTCGGTTAA
*
6058157 TTCGGGTAA
1 TTCGGTTAA
6058166 TT
1 TT
6058168 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:6058344 original size:12 final size:12
Alignment explanation
Indices: 6058327--6058351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6058317 AGTAATTTCG
6058327 GGTCGGTTAACC
1 GGTCGGTTAACC
6058339 GGTCGGTTAACC
1 GGTCGGTTAACC
6058351 G
1 G
6058352 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6062252 original size:18 final size:18
Alignment explanation
Indices: 6062240--6062292 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
6062230 GAGCTCATCT
6062240 AAAGCTGCAAGCTCAACCA
1 AAAG-TGCAAGCTCAACCA
6062259 AAAGTGCAAGCTCAACCA
1 AAAGTGCAAGCTCAACCA
6062277 AAAGTGCAAGCTCAAC
1 AAAGTGCAAGCTCAAC
6062293 TCAAGTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 30 0.88
19 4 0.12
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.11
Consensus pattern (18 bp):
AAAGTGCAAGCTCAACCA
Found at i:6066261 original size:29 final size:30
Alignment explanation
Indices: 6066202--6066261 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
6066192 TAACGCAAGG
*
6066202 GATGAATTTATCGTTGAAAGATAATTGGTT
1 GATGAATTTATCGTTGAAAGATAATTAGTT
*
6066232 GATGAATTTGTCGTTG-AAGATAATTAGTT
1 GATGAATTTATCGTTGAAAGATAATTAGTT
6066261 G
1 G
6066262 TGGCAACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (30 bp):
GATGAATTTATCGTTGAAAGATAATTAGTT
Found at i:6068220 original size:42 final size:42
Alignment explanation
Indices: 6068156--6068292 Score: 213
Period size: 42 Copynumber: 3.2 Consensus size: 42
6068146 CGTTTACAGA
* *
6068156 AAAAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAT
6068198 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA-
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAT
* *
6068239 AAAAAGACACCGCTAAAGATCATGTTCTTTAGCGGCGCTCTTAT
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TAAT
6068283 AAAAAACGCC
1 AAAAAACGCC
6068293 ATTAATTTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
41 5 0.06
42 71 0.82
43 6 0.07
44 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAT
Found at i:6068680 original size:21 final size:21
Alignment explanation
Indices: 6068656--6068704 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6068646 GCTTCTCTCG
* *
6068656 CTGCTTTTCGCGCTGCAGCCT
1 CTGCTTCTCGCGCTACAGCCT
*
6068677 CTGCTTCTCTCGCTACAGCCT
1 CTGCTTCTCGCGCTACAGCCT
6068698 CTGCTTC
1 CTGCTTC
6068705 CCTCGTGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.41, G:0.18, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCGCGCTACAGCCT
Found at i:6068709 original size:21 final size:21
Alignment explanation
Indices: 6068666--6068709 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6068656 CTGCTTTTCG
* *
6068666 CGCTGCAGCCTCTGCTTCTCT
1 CGCTACAGCCTCTGCTTCCCT
6068687 CGCTACAGCCTCTGCTTCCCT
1 CGCTACAGCCTCTGCTTCCCT
6068708 CG
1 CG
6068710 TGCTGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.45, G:0.18, T:0.30
Consensus pattern (21 bp):
CGCTACAGCCTCTGCTTCCCT
Found at i:6074254 original size:9 final size:9
Alignment explanation
Indices: 6074216--6074767 Score: 128
Period size: 9 Copynumber: 64.8 Consensus size: 9
6074206 TATGTATTAG
*
6074216 GTAAATTAT
1 GTAAGTTAT
* *
6074225 GAAAGTTCT
1 GTAAGTTAT
6074234 GT-A-TTAT
1 GTAAGTTAT
*
6074241 ATAAGTTAT
1 GTAAGTTAT
6074250 GTAAGTTAT
1 GTAAGTTAT
*
6074259 GT-A-TTCT
1 GTAAGTTAT
*
6074266 GTAAGCTAT
1 GTAAGTTAT
* *
6074275 GTAAATTGT
1 GTAAGTTAT
6074284 GT-A-TTAT
1 GTAAGTTAT
* *
6074291 GTTAGTTGT
1 GTAAGTTAT
*
6074300 GT-A-CTAT
1 GTAAGTTAT
6074307 GTAAGTTAT
1 GTAAGTTAT
6074316 GT-A-TTAT
1 GTAAGTTAT
*
6074323 GTATGTTAT
1 GTAAGTTAT
*
6074332 GTATAATATTAAT
1 G--TAA-GTT-AT
*
6074345 -TAAGTTGT
1 GTAAGTTAT
6074353 GT-A-TTAT
1 GTAAGTTAT
*
6074360 GTAAGTTGT
1 GTAAGTTAT
6074369 GT-A-TTAT
1 GTAAGTTAT
*
6074376 GTAATTTAT
1 GTAAGTTAT
*
6074385 GTAAGCTAT
1 GTAAGTTAT
6074394 GT-A-TTAT
1 GTAAGTTAT
6074401 GT-A-TTAT
1 GTAAGTTAT
6074408 GT-A-TTAT
1 GTAAGTTAT
*
6074415 GTATAATTTTAAT
1 G--TAA-GTT-AT
*
6074428 -TAAGTTGT
1 GTAAGTTAT
6074436 GT-A-TTAT
1 GTAAGTTAT
6074443 GT-A-TTAT
1 GTAAGTTAT
*
6074450 GTATGTTAT
1 GTAAGTTAT
*
6074459 GT-A-CTAT
1 GTAAGTTAT
*
6074466 GTTAGTTAT
1 GTAAGTTAT
*
6074475 GT-A-CTAT
1 GTAAGTTAT
6074482 GTAAGTTAT
1 GTAAGTTAT
*
6074491 GTATAATATTAAT
1 G--TAA-GTT-AT
*
6074504 -TAAGTTGT
1 GTAAGTTAT
6074512 GT-A-TTAT
1 GTAAGTTAT
6074519 GT-A-TTAT
1 GTAAGTTAT
*
6074526 GTATGTTAT
1 GTAAGTTAT
*
6074535 GTATAATATTAAT
1 G--TAA-GTT-AT
*
6074548 -TAAGTTGT
1 GTAAGTTAT
*
6074556 GT-A-TAAT
1 GTAAGTTAT
6074563 GTAAGTTAT
1 GTAAGTTAT
* **
6074572 GCAAGAAAT
1 GTAAGTTAT
6074581 GT-A-TTAT
1 GTAAGTTAT
*
6074588 GTAAGTTGT
1 GTAAGTTAT
*
6074597 GT-A-TAAT
1 GTAAGTTAT
*
6074604 GTTAGTTAT
1 GTAAGTTAT
6074613 CG-AAGTTAT
1 -GTAAGTTAT
6074622 GT-A-TTAT
1 GTAAGTTAT
6074629 GTAAGTTAT
1 GTAAGTTAT
*
6074638 TTAAGTTAT
1 GTAAGTTAT
6074647 GTAAGTTAT
1 GTAAGTTAT
*
6074656 GTAAGTTGT
1 GTAAGTTAT
*
6074665 GT-A-TAAT
1 GTAAGTTAT
*
6074672 GTTAGTTAT
1 GTAAGTTAT
**
6074681 CAAAGTTAT
1 GTAAGTTAT
* *
6074690 G-CA-CTAT
1 GTAAGTTAT
6074697 GTAAGTTAT
1 GTAAGTTAT
*
6074706 TTAAGTTAT
1 GTAAGTTAT
6074715 GTAAGTT-T
1 GTAAGTTAT
*
6074723 GT-GGATTAT
1 GTAAG-TTAT
6074732 GTAAGTTAT
1 GTAAGTTAT
*
6074741 -TATGTTATTAT
1 GTAAG---TTAT
6074752 GTAAGTTAT
1 GTAAGTTAT
*
6074761 GCAAGTT
1 GTAAGTT
6074768 TTATTTATTA
Statistics
Matches: 396, Mismatches: 82, Indels: 130
0.65 0.13 0.21
Matches are distributed among these distances:
7 113 0.29
8 44 0.11
9 194 0.49
10 15 0.04
11 11 0.03
12 11 0.03
13 8 0.02
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Done.