Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 16 of 133
Found at i:4073771 original size:54 final size:52
Alignment explanation
Indices: 4073695--4073803 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 52
4073685 AATTTCAAAA
*
4073695 ATTCACAAAAGATTCAAGATTCGTAAAAAG-TCAAAGATTTGCAAAAGATTCAAG
1 ATTCACAAAAGATTCAAAATTCGT-AAAAGTTCAAAGATTTG-AAAA-ATTCAAG
* *
4073749 ATTCACAAAA-ATTCAAAAATTCGTAAAAGTTCAAATATTTGAAAATTTCAAG
1 ATTCACAAAAGATTC-AAAATTCGTAAAAGTTCAAAGATTTGAAAAATTCAAG
4073801 ATT
1 ATT
4073804 TGCAAGTGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
52 9 0.18
53 13 0.26
54 28 0.56
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (52 bp):
ATTCACAAAAGATTCAAAATTCGTAAAAGTTCAAAGATTTGAAAAATTCAAG
Found at i:4073776 original size:18 final size:18
Alignment explanation
Indices: 4073682--4073864 Score: 97
Period size: 18 Copynumber: 10.1 Consensus size: 18
4073672 AAGACTCACA
* *
4073682 AAAAATTTCAAAAATTCAC
1 AAAAA-TTCAAAGATTCGC
*
4073701 AAAAGATTC-AAGATTCGT
1 AAAA-ATTCAAAGATTCGC
* *
4073719 AAAAAGTCAAAGATTTGC
1 AAAAATTCAAAGATTCGC
*
4073737 AAAAGATTC-AAGATTCAC
1 AAAA-ATTCAAAGATTCGC
* *
4073755 AAAAATTCAAAAATTCGT
1 AAAAATTCAAAGATTCGC
* * *
4073773 AAAAGTTCAAATATTTG-
1 AAAAATTCAAAGATTCGC
* *
4073790 AAAATTTC-AAGATTTGC
1 AAAAATTCAAAGATTCGC
** * *
4073807 AAGTGATT-TAAGATTCAC
1 AA-AAATTCAAAGATTCGC
*
4073825 AAAAAATTTCAAAGATTCGT
1 -AAAAA-TTCAAAGATTCGC
* *
4073845 AAAAGTTCAAAGATTTGC
1 AAAAATTCAAAGATTCGC
4073863 AA
1 AA
4073865 GTTATTCAAG
Statistics
Matches: 124, Mismatches: 30, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
16 7 0.06
17 16 0.13
18 75 0.60
19 18 0.15
20 8 0.06
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
AAAAATTCAAAGATTCGC
Found at i:4073861 original size:72 final size:71
Alignment explanation
Indices: 4073608--4073859 Score: 260
Period size: 72 Copynumber: 3.5 Consensus size: 71
4073598 TCAATATTTT
* * * *
4073608 AAAAAATTC-AAGATTCGTACAAGTTCAAAGATTCACAAAAGATTTTCAA-ATTTGCTAGTGATT
1 AAAAAATTCAAAAATTCGTAAAAGTTCAAAGATT--CGAAA-A-TTTCAAGATTTGCAAGTGATT
*
4073671 CAAGACTCAC
62 CAAGATTCAC
** ** **
4073681 AAAAAATTTCAAAAATTCACAAAAGATTC-AAGATTCGTAAAAAGTCAAAGATTTGCAAAAGATT
1 AAAAAA-TTCAAAAATTCGTAAAAG-TTCAAAGATTCG-AAAATTTC-AAGATTTGCAAGTGATT
4073745 CAAGATTCAC
62 CAAGATTCAC
* * *
4073755 -AAAAATTCAAAAATTCGTAAAAGTTCAAATATTTGAAAATTTCAAGATTTGCAAGTGATTTAAG
1 AAAAAATTCAAAAATTCGTAAAAGTTCAAAGATTCGAAAATTTCAAGATTTGCAAGTGATTCAAG
4073819 ATTCAC
66 ATTCAC
*
4073825 AAAAAATTTCAAAGATTCGTAAAAGTTCAAAGATT
1 AAAAAA-TTCAAAAATTCGTAAAAGTTCAAAGATT
4073860 TGCAAGTTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
70 24 0.16
71 14 0.09
72 50 0.34
73 15 0.10
74 26 0.18
75 16 0.11
76 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.29
Consensus pattern (71 bp):
AAAAAATTCAAAAATTCGTAAAAGTTCAAAGATTCGAAAATTTCAAGATTTGCAAGTGATTCAAG
ATTCAC
Found at i:4073973 original size:18 final size:19
Alignment explanation
Indices: 4073950--4074007 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
4073940 TCACATTTAA
* *
4073950 AAAATTTTAGAGATTCG-T
1 AAAATTTCAAAGATTCGCT
4073968 AAAATTTCAAAGATTCGCT
1 AAAATTTCAAAGATTCGCT
* * *
4073987 AAAGTTT-AAATATTCACT
1 AAAATTTCAAAGATTCGCT
4074005 AAA
1 AAA
4074008 GTTAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 27 0.79
19 7 0.21
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (19 bp):
AAAATTTCAAAGATTCGCT
Found at i:4074008 original size:18 final size:18
Alignment explanation
Indices: 4073980--4074021 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4073970 AATTTCAAAG
* * *
4073980 ATTCGCTAAAGTTTAAAT
1 ATTCACTAAAGTTAAAAA
4073998 ATTCACTAAAGTTAAAAA
1 ATTCACTAAAGTTAAAAA
4074016 ATTCAC
1 ATTCAC
4074022 AAGAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (18 bp):
ATTCACTAAAGTTAAAAA
Found at i:4074601 original size:15 final size:15
Alignment explanation
Indices: 4074564--4074640 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 15
4074554 TGTAACATTT
*
4074564 ATGAATGCAATG--C
1 ATGAATGCAATGTTA
*
4074577 ATGAAAGCAATGTTA
1 ATGAATGCAATGTTA
4074592 ATGAATGCAATGTTA
1 ATGAATGCAATGTTA
* *
4074607 ATGAATGTAATG--C
1 ATGAATGCAATGTTA
4074620 ATGAATGCAATGTTA
1 ATGAATGCAATGTTA
4074635 ATGAAT
1 ATGAAT
4074641 ACAACTCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 22 0.42
15 31 0.58
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (15 bp):
ATGAATGCAATGTTA
Found at i:4075500 original size:39 final size:39
Alignment explanation
Indices: 4075457--4075538 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
4075447 TTTTCACATC
* *
4075457 TTTCTCA-TTTCACATTTTTCTTTTTCCTTTTCATTTCTT
1 TTTCTCATTTTCACATTATTCTTTTTCCTTTTAATTT-TT
** *
4075496 TTTCTCATTTTTTCATTATTCTTTTTTCTTTTAATTTTT
1 TTTCTCATTTTCACATTATTCTTTTTCCTTTTAATTTTT
4075535 TTTC
1 TTTC
4075539 ACTTCATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.35
40 24 0.65
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (39 bp):
TTTCTCATTTTCACATTATTCTTTTTCCTTTTAATTTTT
Found at i:4075861 original size:16 final size:16
Alignment explanation
Indices: 4075835--4075867 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4075825 GTCCTTTACC
4075835 TTTTCAATTTTTTCATA
1 TTTTCAA-TTTTTCATA
4075852 TTTT-AATTTTTCATA
1 TTTTCAATTTTTCATA
4075867 T
1 T
4075868 CCTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.62
16 2 0.12
17 4 0.25
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTTTCATA
Found at i:4077336 original size:3 final size:3
Alignment explanation
Indices: 4077328--4077567 Score: 64
Period size: 3 Copynumber: 88.3 Consensus size: 3
4077318 TCTATTTTAC
* *
4077328 TAT TAT TAT T-T TTT TAT TAT CA- TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4077373 TAT CA- TAT TGT TAT CA- TAC TAT AAT ATAT TA- TAT T-G TAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * *
4077414 TAT TAT CA- TAT TA- TAT TAT TAT TAC TAT T-G TAT TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4077457 TAG TA- TAT TA- TAT TAT TAC TA- TAC TA- TAT TA- CAT TAC TAC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
4077500 TAC TAT TAT TAT TA- TAT CA- TAT TA- TAT TA- TGT TA- TAC TA- TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4077542 TA- TAC TA- TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4077568 TATGTTATTT
Statistics
Matches: 179, Mismatches: 31, Indels: 54
0.68 0.12 0.20
Matches are distributed among these distances:
2 42 0.23
3 135 0.75
4 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:4077339 original size:14 final size:14
Alignment explanation
Indices: 4077320--4077375 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
4077310 AATCGAAGTC
*
4077320 TATTTTACTATTAT
1 TATTTTATTATTAT
*
4077334 TATTTTTTTATTAT
1 TATTTTATTATTAT
* *
4077348 CATATTATTATTAT
1 TATTTTATTATTAT
4077362 TATTATTA-TATTAT
1 TATT-TTATTATTAT
4077376 CATATTGTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 31 0.91
15 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTATTATTAT
Found at i:4077344 original size:11 final size:11
Alignment explanation
Indices: 4077328--4077375 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4077318 TCTATTTTAC
4077328 TATTATTATTT
1 TATTATTATTT
* **
4077339 TTTTATTATCA
1 TATTATTATTT
4077350 TATTATTATTAT
1 TATTATTATT-T
*
4077362 TATTATTATAT
1 TATTATTATTT
4077373 TAT
1 TAT
4077376 CATATTGTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTATTT
Found at i:4077353 original size:8 final size:8
Alignment explanation
Indices: 4077342--4077427 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
4077332 ATTATTTTTT
4077342 TATTATCA
1 TATTATCA
4077350 TATTAT--
1 TATTATCA
4077356 TATTAT--
1 TATTATCA
*
4077362 TATTATTA
1 TATTATCA
4077370 TATTATCA
1 TATTATCA
4077378 TATTGTTATCA
1 TA---TTATCA
* *
4077389 TACTATAA
1 TATTATCA
*
4077397 TA-TATTA
1 TATTATCA
4077404 TATTGTATCA
1 TA-T-TATCA
4077414 TATTATCA
1 TATTATCA
4077422 TATTAT
1 TATTAT
4077428 ATTATTATTA
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
6 12 0.18
7 6 0.09
8 32 0.49
9 1 0.02
10 6 0.09
11 8 0.12
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (8 bp):
TATTATCA
Found at i:4077365 original size:28 final size:28
Alignment explanation
Indices: 4077328--4077567 Score: 119
Period size: 28 Copynumber: 8.5 Consensus size: 28
4077318 TCTATTTTAC
* *
4077328 TATTATTATTTTTTTATTATCATATTAT
1 TATTATTATTATTATATTATCATATTAT
*
4077356 TATTATTATTATTATATTATCATATTGT
1 TATTATTATTATTATATTATCATATTAT
4077384 TATCATACTATAATATATTATATTGTATCATATTAT
1 TAT--TA-T-T-AT-TATTATA-T-TATCATATTAT
* *
4077420 CA-TATTA-TATTATTATTA-C-TATT-G
1 TATTATTATTATTA-TATTATCATATTAT
*
4077444 TATTATTA-TATTATAGTAT-AT-TATAT
1 TATTATTATTATTATATTATCATAT-TAT
* * * *
4077470 TATTACTA-TACTATATTA-CATTACTAC
1 TATTATTATTATTATATTATCA-TATTAT
* *
4077497 TACTACTATTATTAT-TATATCATATTA-
1 TATTATTATTATTATAT-TATCATATTAT
* *
4077524 TATTATGT-TATACTATACTATACTATATTAT
1 TATTAT-TAT-TATTATATTAT-C-ATATTAT
4077555 TATTATTATTATT
1 TATTATTATTATT
4077568 TATGTTATTT
Statistics
Matches: 163, Mismatches: 22, Indels: 52
0.69 0.09 0.22
Matches are distributed among these distances:
24 6 0.04
25 16 0.10
26 17 0.10
27 18 0.11
28 54 0.33
29 5 0.03
30 13 0.08
31 9 0.06
32 2 0.01
33 4 0.02
34 7 0.04
35 1 0.01
36 11 0.07
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (28 bp):
TATTATTATTATTATATTATCATATTAT
Found at i:4077375 original size:5 final size:5
Alignment explanation
Indices: 4077353--4077583 Score: 104
Period size: 5 Copynumber: 45.2 Consensus size: 5
4077343 ATTATCATAT
* * *
4077353 TATTA TTATTA TTATTA TATTA TCA-TA T-TGT- TATCA TACTA TAATA
1 TATTA -TATTA -TATTA TATTA T-ATTA TAT-TA TATTA TATTA TATTA
* * * *
4077399 TATTA TATTG TATCA TA-T- TATCA TATTA TATTA TTATTA CTATTG TA-T-
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA TATTA
* * * *
4077447 TATTA TATTA TAGTA TATTA TATTA TTACTA TACTA TATTA CATTA CTACTACTA
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA -TA-T--TA
* * * * *
4077502 CTATTA TTATTA TATCA TATTA TATTA TGTTA TACTA TACTA TACTA TATTA
1 -TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
4077554 TTATTA TTATTA T-TTA TGTTA T-TTA T-TTA T
1 -TATTA -TATTA TATTA TATTA TATTA TATTA T
4077584 GTTTTTATTT
Statistics
Matches: 182, Mismatches: 26, Indels: 36
0.75 0.11 0.15
Matches are distributed among these distances:
3 4 0.02
4 15 0.08
5 112 0.62
6 44 0.24
7 1 0.01
8 1 0.01
9 5 0.03
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:4077415 original size:25 final size:24
Alignment explanation
Indices: 4077342--4077435 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 24
4077332 ATTATTTTTT
*
4077342 TATTATCATATTATTATTATTAT--
1 TATTATCATATTA-TATTGTTATCA
*
4077365 TATTAT-ATTATCATATTGTTATCA
1 TATTATCA-TATTATATTGTTATCA
4077389 TACTATAAT-ATATTATATTG-TATCA
1 TA-T-T-ATCATATTATATTGTTATCA
*
4077414 TATTATCATATTATATTATTAT
1 TATTATCATATTATATTGTTAT
4077436 TACTATTGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
22 11 0.19
23 21 0.36
24 6 0.10
25 8 0.14
26 10 0.17
27 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTATCATATTATATTGTTATCA
Found at i:4077433 original size:8 final size:8
Alignment explanation
Indices: 4077353--4077570 Score: 83
Period size: 8 Copynumber: 25.8 Consensus size: 8
4077343 ATTATCATAT
4077353 TATTATTA
1 TATTATTA
4077361 TTATTATTA
1 -TATTATTA
*
4077370 TATTATCA
1 TATTATTA
*
4077378 TATTGTTA
1 TATTATTA
*
4077386 TCA-TACTA
1 T-ATTATTA
4077394 TAATATATTA
1 T-AT-TATTA
*
4077404 TATT-GTA
1 TATTATTA
4077411 TCA-TATTA
1 T-ATTATTA
4077419 TCA-TATTA
1 T-ATTATTA
4077427 TATTATTA
1 TATTATTA
* *
4077435 TTACTATTG
1 -TATTATTA
4077444 TATTATTA
1 TATTATTA
4077452 TATTATAGTA
1 TATTAT--TA
4077462 TATTA-TA
1 TATTATTA
*
4077469 TTATTACTA
1 -TATTATTA
4077478 TACTATATTA
1 TA-T-TATTA
* *
4077488 CATTACTA
1 TATTATTA
* *
4077496 CTACTACTA
1 -TATTATTA
4077505 TTATTATTA
1 -TATTATTA
4077514 TATCATATTA
1 TAT--TATTA
4077524 TATTATGT-
1 TATTAT-TA
*
4077532 TA-TACTA
1 TATTATTA
*
4077539 TACTATACTA
1 TA-T-TATTA
4077549 TATTATTA
1 TATTATTA
4077557 TTATTATTA
1 -TATTATTA
4077566 T-TTAT
1 TATTAT
4077571 GTTATTTATT
Statistics
Matches: 164, Mismatches: 23, Indels: 46
0.70 0.10 0.20
Matches are distributed among these distances:
6 1 0.01
7 15 0.09
8 73 0.45
9 43 0.26
10 32 0.20
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (8 bp):
TATTATTA
Found at i:4077579 original size:13 final size:12
Alignment explanation
Indices: 4077563--4077593 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
4077553 ATTATTATTA
4077563 TTATTTATGTTAT
1 TTATTTATGTT-T
4077576 TTATTTATGTTT
1 TTATTTATGTTT
4077588 TTATTT
1 TTATTT
4077594 TTCTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTATTTATGTTT
Found at i:4078040 original size:8 final size:9
Alignment explanation
Indices: 4078020--4078050 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4078010 TATGAAAAAA
4078020 TTTTGAGAT
1 TTTTGAGAT
4078029 TTTTGAGAT
1 TTTTGAGAT
4078038 TTTTGAGAT
1 TTTTGAGAT
4078047 TTTT
1 TTTT
4078051 TTGGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (9 bp):
TTTTGAGAT
Found at i:4078409 original size:18 final size:19
Alignment explanation
Indices: 4078383--4078418 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4078373 ATCGTAGGTT
*
4078383 TTTC-TTTTTTTATTTTAA
1 TTTCATTTTTTGATTTTAA
4078401 TTTCATTTTTTGATTTTA
1 TTTCATTTTTTGATTTTA
4078419 TTTTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTCATTTTTTGATTTTAA
Found at i:4078411 original size:13 final size:12
Alignment explanation
Indices: 4078395--4078447 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
4078385 TCTTTTTTTA
*
4078395 TTTTAATTTCATT
1 TTTTGATTT-ATT
4078408 TTTTGATTTTATT
1 TTTTGA-TTTATT
4078421 TTTTGATTTATT
1 TTTTGATTTATT
*
4078433 TTAT-ATTTATAT
1 TTTTGATTTAT-T
4078445 TTT
1 TTT
4078448 CAATTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 6 0.17
12 12 0.34
13 14 0.40
14 3 0.09
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTGATTTATT
Found at i:4083173 original size:10 final size:10
Alignment explanation
Indices: 4083160--4083195 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
4083150 CCAAAAAAAG
4083160 AAAAAATTAA
1 AAAAAATTAA
4083170 AAAAAATTAA
1 AAAAAATTAA
**
4083180 AAAAAAAGAA
1 AAAAAATTAA
4083190 AAAAAA
1 AAAAAA
4083196 AACTTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:4083182 original size:11 final size:11
Alignment explanation
Indices: 4083160--4083203 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
4083150 CCAAAAAAAG
4083160 AAAAAATT-AA
1 AAAAAATTAAA
4083170 AAAAAATTAAA
1 AAAAAATTAAA
**
4083181 AAAAAAGAAAA
1 AAAAAATTAAA
4083192 AAAAAACTTAAA
1 AAAAAA-TTAAA
4083204 CTGAAAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.29
11 17 0.61
12 3 0.11
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:4084384 original size:121 final size:121
Alignment explanation
Indices: 4084048--4084384 Score: 353
Period size: 119 Copynumber: 2.8 Consensus size: 121
4084038 GTTTCATCTC
* * * * * * *
4084048 GATCATCTAATCTTGACTTA-TTCCAGATCATTTTCTTGACTCATTATTTCATCCCAGTTATTCA
1 GATCGTCTAATCTTGACTTAGTT-CAAATCATTTTTTTGACTCATGATTTTATCCCAATCATTCA
* * * *
4084112 TCTTCGACTTCGACTCGA-CCTTGGTCACTTCATCTCTTAAACTCATAATTTTATCCC
65 TCTTCGACTTCGACTCGATCC-TGATCGCTTTATCTCTTAAACTCATAATTTTATCCA
* * * *
4084169 GATCGT-TGAATTTTGACTTAGTCCAAATCA--TTTCTGACTCATGATTTTATCCTAATCATTCA
1 GATCGTCT-AATCTTGACTTAGTTCAAATCATTTTTTTGACTCATGATTTTATCCCAATCATTCA
* * * * **
4084231 TCTTCGATTTCAACTTGGTCCTGATCGCTTTATCTCTTAAACTTGTAATTTTATCTCA
65 TCTTCGACTTCGACTCGATCCTGATCGCTTTATCTCTTAAACTCATAATTTTATC-CA
* **
4084289 G-TCGTCTAATCTTGACTTAGTTTAAATCATTTTTTTGACTCGCGATTTTATCCCAATCATTCAT
1 GATCGTCTAATCTTGACTTAGTTCAAATCATTTTTTTGACTCATGATTTTATCCCAATCATTCAT
* * *
4084353 CTTTGACCTCGACTCGATCCTGATCGTTTTAT
66 CTTCGACTTCGACTCGATCCTGATCGCTTTAT
4084385 ATTTTGGGCT
Statistics
Matches: 174, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
119 91 0.52
120 6 0.03
121 76 0.44
122 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (121 bp):
GATCGTCTAATCTTGACTTAGTTCAAATCATTTTTTTGACTCATGATTTTATCCCAATCATTCAT
CTTCGACTTCGACTCGATCCTGATCGCTTTATCTCTTAAACTCATAATTTTATCCA
Found at i:4084400 original size:121 final size:121
Alignment explanation
Indices: 4084039--4084487 Score: 297
Period size: 121 Copynumber: 3.7 Consensus size: 121
4084029 GGGCTTATGG
* * * * * *
4084039 TTTCATC-TCGATCA-TCTAATCTTGACTTA-TTCCAGATCATTTTCTTGACTCATTATTTCATC
1 TTTCATCATC-ATCATTC-AATCTTGACTTAGTT-TAAATCATTTTTTTGACTCGTGATTTTATC
* * * * * * * * *
4084101 CCAGTTATTCATCTTCGACTTCGACTCGA-CCTTGGTCACTTCATCTCTTAAACTCATAA
63 CCAATCATTCATCTTCGACCTCAACTCGATCC-TGATCGCTTTATATCTTAAACTCGTAA
* * * * * ** * * *
4084160 TTTTATC-CCGATCGTTGAATTTTGACTTAGTCCAAATCA--TTTCTGACTCATGATTTTATCCT
1 TTTCATCATC-ATCATTCAATCTTGACTTAGTTTAAATCATTTTTTTGACTCGTGATTTTATCCC
** * * * *
4084222 AATCATTCATCTTCGATTTCAACTTGGTCCTGATCGCTTTATCTCTTAAACTTGTAA
65 AATCATTCATCTTCGACCTCAACTCGATCCTGATCGCTTTATATCTTAAACTCGTAA
* * *
4084279 TTTTATC-TCAGTC-GTCTAATCTTGACTTAGTTTAAATCATTTTTTTGACTCGCGATTTTATCC
1 TTTCATCATCA-TCATTC-AATCTTGACTTAGTTTAAATCATTTTTTTGACTCGTGATTTTATCC
* * * * ***
4084342 CAATCATTCATCTTTGACCTCGACTCGATCCTGATCGTTTTATATTTTGGGCTCGTAA
64 CAATCATTCATCTTCGACCTCAACTCGATCCTGATCGCTTTATATCTTAAACTCGTAA
* * * * * * * *
4084400 TTTCATCATCATCATTCGATCTCGGCTCA-TTCTAGATTATTTTTTTGACTCGTAATTTTATCTC
1 TTTCATCATCATCATTCAATCTTGACTTAGTT-TAAATCATTTTTTTGACTCGTGATTTTATCCC
* *
4084464 AATCATTCATCTTCTACCTTAACT
65 AATCATTCATCTTCGACCTCAACT
4084488 AGGTCCTAGT
Statistics
Matches: 257, Mismatches: 61, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
118 2 0.01
119 90 0.35
120 4 0.02
121 154 0.60
122 7 0.03
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (121 bp):
TTTCATCATCATCATTCAATCTTGACTTAGTTTAAATCATTTTTTTGACTCGTGATTTTATCCCA
ATCATTCATCTTCGACCTCAACTCGATCCTGATCGCTTTATATCTTAAACTCGTAA
Found at i:4085127 original size:3 final size:3
Alignment explanation
Indices: 4085110--4085359 Score: 97
Period size: 3 Copynumber: 92.7 Consensus size: 3
4085100 TGTTTTACTG
* * *
4085110 TTA TTA TT- TTG TTA TTA TCA -TA TTA TTA TTA TTA -TA TTA TCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
4085154 TTG TTA TCA -TA TTA -TA CTA -TA TTA -TA TT- GTA TCA -TA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
4085196 -TA GTA -TA TTA TTA TTA CTA TT- GTA TTA TTA -TA TTA -TA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
4085238 TTA -TA TTA TTA CTA -TA GTA -TA TTA -CA TTA CTA CTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
4085282 TTA -TA TCA -TA TCA -TA TTA -TA TTA -TA TTA -TA CTA -TA CTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4085322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4085360 TATGTTATTT
Statistics
Matches: 191, Mismatches: 28, Indels: 56
0.69 0.10 0.20
Matches are distributed among these distances:
2 46 0.24
3 145 0.76
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:4085127 original size:14 final size:14
Alignment explanation
Indices: 4085110--4085362 Score: 129
Period size: 15 Copynumber: 17.9 Consensus size: 14
4085100 TGTTTTACTG
* *
4085110 TTATTATTTTGTTA
1 TTATTATATTATTA
*
4085124 TTATCATATTATTA
1 TTATTATATTATTA
4085138 TTATTATATTATCATA
1 TTATTATATTAT--TA
*
4085154 TTGTTATCA-TATTA
1 TTATTAT-ATTATTA
*
4085168 -TACTATATTA-TA
1 TTATTATATTATTA
*
4085180 TT-GTATCA-TATTA
1 TTATTAT-ATTATTA
*
4085193 TCA-TAGTA-TATTA
1 TTATTA-TATTATTA
*
4085206 TTATTACTATT-GTA
1 TTATTA-TATTATTA
4085220 TTATTATATTA-TA
1 TTATTATATTATTA
4085233 GTATATTATATTATTA
1 -T-TATTATATTATTA
* *
4085249 CTATAGTATATTA-CA
1 -T-TATTATATTATTA
* *
4085264 TTACTACTACTATTA
1 TTATTA-TATTATTA
*
4085279 TTATTATATCA-TA
1 TTATTATATTATTA
4085292 TCATATTATATTA-TA
1 T--TATTATATTATTA
*
4085307 TTATACTATACTA-TA
1 TTAT--TATATTATTA
4085322 TTATTATTATTATTA
1 TTATTA-TATTATTA
4085337 TTATTATTATTATTA
1 TTATTA-TATTATTA
4085352 TTATTAT-TTAT
1 TTATTATATTAT
4085363 GTTATTTATT
Statistics
Matches: 192, Mismatches: 24, Indels: 47
0.73 0.09 0.18
Matches are distributed among these distances:
12 8 0.04
13 43 0.22
14 51 0.27
15 65 0.34
16 24 0.12
17 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:4085133 original size:8 final size:8
Alignment explanation
Indices: 4085122--4085197 Score: 61
Period size: 8 Copynumber: 9.2 Consensus size: 8
4085112 ATTATTTTGT
4085122 TATTATCA
1 TATTATCA
4085130 TATTAT--
1 TATTATCA
*
4085136 TATTATTA
1 TATTATCA
4085144 TATTATCA
1 TATTATCA
4085152 TATTGTTATCA
1 TA---TTATCA
4085163 TATTATACTA
1 TATTAT-C-A
4085173 TATTAT-A
1 TATTATCA
4085180 T-TGTATCA
1 TAT-TATCA
4085188 TATTATCA
1 TATTATCA
4085196 TA
1 TA
4085198 GTATATTATT
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
6 7 0.12
7 5 0.09
8 28 0.49
9 2 0.04
10 7 0.12
11 8 0.14
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (8 bp):
TATTATCA
Found at i:4085135 original size:11 final size:11
Alignment explanation
Indices: 4085121--4085168 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
4085111 TATTATTTTG
4085121 TTATTATCATA
1 TTATTATCATA
*
4085132 TTATTATTAT-
1 TTATTATCATA
4085142 TATATTATCATA
1 T-TATTATCATA
*
4085154 TTGTTATCATA
1 TTATTATCATA
4085165 TTAT
1 TTAT
4085169 ACTATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 1 0.03
11 29 0.94
12 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (11 bp):
TTATTATCATA
Found at i:4085138 original size:22 final size:22
Alignment explanation
Indices: 4085122--4085358 Score: 116
Period size: 22 Copynumber: 10.3 Consensus size: 22
4085112 ATTATTTTGT
4085122 TATTATCATATTATTATTATTA
1 TATTATCATATTATTATTATTA
*
4085144 TATTATCATATTGTTATCATATTA
1 TATTATCATATTATTAT--TATTA
* * *
4085168 TACTAT-AT-TATATT-GTATCA
1 TATTATCATAT-TATTATTATTA
*
4085188 TATTATCATAGTA-TATTATTA
1 TATTATCATATTATTATTATTA
* **
4085209 TTACTATTGTATTATTA-TATTA
1 -TATTATCATATTATTATTATTA
* *
4085231 TAGTATATTATATTATTACTATAGTA
1 TA-T-TATCATATTATTA-T-TATTA
*
4085257 TATTA-CATTACTACTACTATTATTA
1 TATTATCA-TA-T--TATTATTATTA
4085282 T-TATATCATATCATATTA-TATTA
1 TAT-TATCATAT--TATTATTATTA
4085305 TATTATACTATACTATATTATTATTA
1 TATTAT-C-ATA-T-TATTATTATTA
4085331 TTATTAT--TATTATTATTATTA
1 -TATTATCATATTATTATTATTA
4085352 TTATTAT
1 -TATTAT
4085359 TTATGTTATT
Statistics
Matches: 168, Mismatches: 22, Indels: 51
0.70 0.09 0.21
Matches are distributed among these distances:
20 10 0.06
21 28 0.17
22 32 0.19
23 31 0.18
24 22 0.13
25 20 0.12
26 15 0.09
27 10 0.06
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (22 bp):
TATTATCATATTATTATTATTA
Found at i:4085149 original size:5 final size:5
Alignment explanation
Indices: 4085133--4085355 Score: 132
Period size: 5 Copynumber: 42.2 Consensus size: 5
4085123 ATTATCATAT
* *
4085133 TATTA TTATTA TATTA TCA-TA T-TGT- TATCA TATTA TACTA TATTA
1 TATTA -TATTA TATTA T-ATTA TAT-TA TATTA TATTA TATTA TATTA
* * *
4085178 TATTG TATCA TATTA TCATAGTA TATTA TTATTA CTATTG TA-T- TATTA
1 TATTA TATTA TATTA T-AT--TA TATTA -TATTA -TATTA TATTA TATTA
* * * * *
4085226 TATTA TAGTA TATTA TATTA TTACTA TAGTA TATTA CATTA CTACTA CTATTA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA -TATTA -TATTA
* * * *
4085279 TTATTA TATCA TATCA TATTA TATTA TATTA TACTA TACTA TATTA TTATTA
1 -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
4085331 TTATTA TTATTA TTATTA TTATTA T
1 -TATTA -TATTA -TATTA -TATTA T
4085356 TATTTATGTT
Statistics
Matches: 179, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
3 2 0.01
4 3 0.02
5 106 0.59
6 63 0.35
7 2 0.01
8 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:4085241 original size:18 final size:19
Alignment explanation
Indices: 4085129--4085355 Score: 107
Period size: 21 Copynumber: 11.8 Consensus size: 19
4085119 TGTTATTATC
*
4085129 ATATTATTATTATTATATT
1 ATATTATTATTATTATAGT
* *
4085148 ATCA-TATTGTTATCATA-T
1 AT-ATTATTATTATTATAGT
* *
4085166 -TA-TACTA-TATTATATT
1 ATATTATTATTATTATAGT
* * *
4085182 GTATCA-TATTATCATAGT
1 ATATTATTATTATTATAGT
*
4085200 ATATTATTATTACTAT--T
1 ATATTATTATTATTATAGT
*
4085217 GTATTATTA-TATTATAGT
1 ATATTATTATTATTATAGT
*
4085235 ATATTATATTATTACTATAGT
1 ATA-T-TATTATTATTATAGT
* * *
4085256 ATATTA-CATTACTACTACT
1 ATATTATTATTATTA-TAGT
*
4085275 ATTATTATTATATCATATCATATT
1 A-TATTATTAT-T-AT-T-ATAGT
*
4085299 ATATTA-TATTATACTATACT
1 ATATTATTATTAT--TATAGT
*
4085319 ATATTATTATTATTATTATT
1 ATATTATTATTATTA-TAGT
4085339 ATTATTATTATTATTAT
1 A-TATTATTATTATTAT
4085356 TATTTATGTT
Statistics
Matches: 162, Mismatches: 24, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
15 6 0.04
16 10 0.06
17 14 0.09
18 23 0.14
19 29 0.18
20 29 0.18
21 35 0.22
22 4 0.02
23 6 0.04
24 5 0.03
25 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATTATTATTATTATAGT
Found at i:4085381 original size:6 final size:6
Alignment explanation
Indices: 4085110--4085359 Score: 97
Period size: 5 Copynumber: 46.3 Consensus size: 6
4085100 TGTTTTACTG
* * *
4085110 TTATTA TT-TTG TTATTA TCA-TA TTATTA TTATTA -TATTA TCA-TA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * *
4085154 TTGTTA TCA-TA TTA-TA CTA-TA TTA-TA TT-GTA TCA-TA TTATCA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
4085196 -TAGTA -TATTA TTATTA CTATT- GTATTA TTA-TA TTA-TA GTA-TA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * *
4085238 TTA-TA TTATTA CTA-TA GTA-TA TTA-CA TTACTA CTACTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
4085282 TTA-TA TCA-TA TCA-TA TTA-TA TTA-TA TTA-TA CTA-TA CTA-TA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
4085322 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TT
4085360 TATGTTATTT
Statistics
Matches: 197, Mismatches: 35, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
5 116 0.59
6 81 0.41
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (6 bp):
TTATTA
Found at i:4086215 original size:18 final size:17
Alignment explanation
Indices: 4086194--4086229 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4086184 TCTATTTTAA
*
4086194 TTTCATTTTTATTTATTT
1 TTTCAATTTTATTT-TTT
4086212 TTTCAATTTTATTTTTT
1 TTTCAATTTTATTTTTT
4086229 T
1 T
4086230 CATTTTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCAATTTTATTTTTT
Found at i:4086219 original size:24 final size:23
Alignment explanation
Indices: 4086188--4086262 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
4086178 TCTTTTTCTA
*
4086188 TTTT-AATTTCATTTTTATTTATT
1 TTTTCAATTTTATTTTT-TTTATT
*
4086211 TTTTCAATTTTATTTTTTTCATT
1 TTTTCAATTTTATTTTTTTTATT
* *
4086234 TTATCGATTTTTATTTATTGTTTATT
1 TTTTC-AATTTTATTT-TT-TTTATT
4086260 TTT
1 TTT
4086263 ATTGAATGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 13 0.31
24 20 0.48
25 2 0.05
26 7 0.17
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTCAATTTTATTTTTTTTATT
Found at i:4086227 original size:15 final size:14
Alignment explanation
Indices: 4086205--4086237 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4086195 TTCATTTTTA
4086205 TTTA-TTTTTTCAAT
1 TTTATTTTTTTC-AT
4086219 TTTATTTTTTTCAT
1 TTTATTTTTTTCAT
4086233 TTTAT
1 TTTAT
4086238 CGATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTTCAT
Found at i:4086234 original size:23 final size:23
Alignment explanation
Indices: 4086180--4086249 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
4086170 TAGGTTTTTC
* *
4086180 TTTTTC-TATTTT-AATTTCATT
1 TTTTTCATTTTTTCAATTTTATT
*
4086201 TTTATTTATTTTTTCAATTTTATT
1 TTT-TTCATTTTTTCAATTTTATT
* *
4086225 TTTTTCATTTTATCGATTTTTATT
1 TTTTTCATTTTTTC-AATTTTATT
4086249 T
1 T
4086250 ATTGTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 14 0.36
24 20 0.51
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTTCATTTTTTCAATTTTATT
Found at i:4087461 original size:12 final size:12
Alignment explanation
Indices: 4087444--4087469 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4087434 CCAAAAGCCT
4087444 AAAAACTTACTA
1 AAAAACTTACTA
4087456 AAAAACTTACTA
1 AAAAACTTACTA
4087468 AA
1 AA
4087470 TAATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAACTTACTA
Found at i:4090570 original size:13 final size:14
Alignment explanation
Indices: 4090547--4090579 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4090537 GCATACCACC
4090547 TACAA-TAATTAA-
1 TACAATTAATTAAT
4090559 TACAATTAATTAAT
1 TACAATTAATTAAT
4090573 TACAATT
1 TACAATT
4090580 TAAAATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 7 0.37
14 7 0.37
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (14 bp):
TACAATTAATTAAT
Found at i:4090784 original size:30 final size:30
Alignment explanation
Indices: 4090748--4090808 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
4090738 AGTCATTATC
*
4090748 TTTAATTTGTA-TCCAAATAAATTTTTAATA
1 TTTAATTTATACT-CAAATAAATTTTTAATA
*
4090778 TTTAATTTATACTTAAATAAATTTTTAATA
1 TTTAATTTATACTCAAATAAATTTTTAATA
4090808 T
1 T
4090809 AAAATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTAATTTATACTCAAATAAATTTTTAATA
Found at i:4090804 original size:18 final size:17
Alignment explanation
Indices: 4090792--4090843 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
4090782 ATTTATACTT
4090792 AAATAAATTTTTAATATA
1 AAATAAATTTTT-ATATA
* * *
4090810 AAATAATTTTTTATTTG
1 AAATAAATTTTTATATA
**
4090827 AAATAAAAATTTATATA
1 AAATAAATTTTTATATA
4090844 GATAAAAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATAAATTTTTATATA
Found at i:4094012 original size:2 final size:2
Alignment explanation
Indices: 4094005--4094037 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4093995 GGGTTTTTAG
4094005 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4094038 AGAATTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4100175 original size:1 final size:1
Alignment explanation
Indices: 4100171--4100195 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4100161 TTTCACTTTG
4100171 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
4100196 GACAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4103135 original size:146 final size:145
Alignment explanation
Indices: 4102966--4103258 Score: 577
Period size: 146 Copynumber: 2.0 Consensus size: 145
4102956 GGTATTTTTT
4102966 ATCCAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGG
1 ATCCAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGG
4103031 TATTTTTTGATAAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAA
66 TATTTTTTGAT-AAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAA
4103096 ATATTTTTAGATAAAA
130 ATATTTTTAGATAAAA
4103112 ATCCAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGG
1 ATCCAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGG
4103177 TATTTTTTGATAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAA
66 TATTTTTTGATAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAA
4103242 TATTTTTAGATAAAA
131 TATTTTTAGATAAAA
4103257 AT
1 AT
4103259 ACATTAAATA
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 71 0.48
146 76 0.52
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (145 bp):
ATCCAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGG
TATTTTTTGATAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAA
TATTTTTAGATAAAA
Found at i:4103268 original size:146 final size:146
Alignment explanation
Indices: 4102969--4103261 Score: 570
Period size: 145 Copynumber: 2.0 Consensus size: 146
4102959 ATTTTTTATC
4102969 CAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGGTAT
1 CAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGGTAT
4103034 TTTTTGATAAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAATA
66 TTTTTGATAAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAATA
*
4103099 TTTTTAGATAAAAATC
131 TTTTTAGATAAAAATA
4103115 CAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGGTAT
1 CAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGGTAT
4103180 TTTTTGAT-AAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAATA
66 TTTTTGATAAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAATA
4103244 TTTTTAGATAAAAATA
131 TTTTTAGATAAAAATA
4103260 CA
1 CA
4103262 TTAAATAATC
Statistics
Matches: 146, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
145 73 0.50
146 73 0.50
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (146 bp):
CAAAAATATCTCAAATAATCCCTTATATTTTTTAAATGGCCTTATTTAGGGTATTTTTAAGGTAT
TTTTTGATAAAAAAAAATAACTTAAATAATCTCTTAATATATTTTAAATGAGATTATTTAAAATA
TTTTTAGATAAAAATA
Found at i:4105187 original size:19 final size:20
Alignment explanation
Indices: 4105163--4105202 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4105153 ATTTTTTTTA
*
4105163 ATTTTTATGTTTTAA-AATT
1 ATTTTTATCTTTTAATAATT
*
4105182 ATTTTTTTCTTTTAATAATT
1 ATTTTTATCTTTTAATAATT
4105202 A
1 A
4105203 AAACTCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTTTATCTTTTAATAATT
Found at i:4105951 original size:2 final size:2
Alignment explanation
Indices: 4105944--4105972 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4105934 TGACATAAGA
4105944 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4105973 TTGTTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4126226 original size:13 final size:13
Alignment explanation
Indices: 4126208--4126232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4126198 TAAAGGGAAA
4126208 ATGAAAAAAGATC
1 ATGAAAAAAGATC
4126221 ATGAAAAAAGAT
1 ATGAAAAAAGAT
4126233 TATCTATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
ATGAAAAAAGATC
Found at i:4127067 original size:2 final size:2
Alignment explanation
Indices: 4127060--4127097 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4127050 CCACCTGTTT
4127060 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4127098 TTACAAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4129603 original size:13 final size:13
Alignment explanation
Indices: 4129585--4129609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4129575 CTTCTATAAA
4129585 CTTTTGTAAATTG
1 CTTTTGTAAATTG
4129598 CTTTTGTAAATT
1 CTTTTGTAAATT
4129610 ACTAAATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (13 bp):
CTTTTGTAAATTG
Found at i:4130104 original size:22 final size:19
Alignment explanation
Indices: 4130079--4130125 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
4130069 TTATGAAATT
4130079 TTTTATTTTTTTAATATTATAA
1 TTTTATTTTTTTAA-A-TAT-A
*
4130101 TTTTACTTTTTTAAATATA
1 TTTTATTTTTTTAAATATA
4130120 TTTTAT
1 TTTTAT
4130126 GAATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 1 0.04
22 13 0.57
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATTTTTTTAAATATA
Found at i:4130411 original size:17 final size:17
Alignment explanation
Indices: 4130368--4130402 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4130358 TTTGATATTG
4130368 TTTCA-ATTTTTTAAGT
1 TTTCATATTTTTTAAGT
4130384 TTTCATATTTTTTAA-T
1 TTTCATATTTTTTAAGT
4130400 TTT
1 TTT
4130403 TATGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCATATTTTTTAAGT
Found at i:4130429 original size:18 final size:16
Alignment explanation
Indices: 4130408--4130467 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
4130398 ATTTTTATGA
4130408 TTTTAAAATAATTTATAG
1 TTTTAAAAT-ATTT-TAG
* *
4130426 TTTTTAAATTTTTTAG
1 TTTTAAAATATTTTAG
4130442 ATTTTAAAACTATTTTAG
1 -TTTTAAAA-TATTTTAG
*
4130460 ATTTAAAA
1 TTTTAAAA
4130468 AAAATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.09
17 17 0.49
18 15 0.43
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (16 bp):
TTTTAAAATATTTTAG
Found at i:4130487 original size:31 final size:33
Alignment explanation
Indices: 4130443--4130508 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
4130433 ATTTTTTAGA
4130443 TTTTAAAACTATTTTAG-A-TTTAAAAAAAATAT
1 TTTTAAAACTATTTTAGAATTTTAAAAAAAA-AT
*
4130475 TTTTAAAA-TATTTTTGAATTTTAAAAAAAAAT
1 TTTTAAAACTATTTTAGAATTTTAAAAAAAAAT
4130507 TT
1 TT
4130509 GGACTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 13 0.42
33 11 0.35
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (33 bp):
TTTTAAAACTATTTTAGAATTTTAAAAAAAAAT
Found at i:4134909 original size:12 final size:12
Alignment explanation
Indices: 4134892--4134925 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
4134882 TTCAAAAATA
4134892 TTTTAAAGAATG
1 TTTTAAAGAATG
4134904 TTTTAAAGAATG
1 TTTTAAAGAATG
4134916 TTTTAAAGAA
1 TTTTAAAGAA
4134926 AATTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTTAAAGAATG
Found at i:4142305 original size:15 final size:16
Alignment explanation
Indices: 4142285--4142318 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4142275 TTAGTTTGAA
*
4142285 AATATAAAA-ACTTAT
1 AATATAAAATAATTAT
4142300 AATATAAAATAATTAT
1 AATATAAAATAATTAT
4142316 AAT
1 AAT
4142319 TTTGAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:4148534 original size:37 final size:38
Alignment explanation
Indices: 4148479--4148552 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 38
4148469 GAGTAATTAA
4148479 TATAATAAAAGAGATAATGTCA-TAATT-AATTTTAAAT
1 TATAATAAAAGAGATAATGT-AGTAATTAAATTTTAAAT
* ** *
4148516 TATAATAAAATATTTAATGTAGTATTTAAATTTTAAA
1 TATAATAAAAGAGATAATGTAGTAATTAAATTTTAAA
4148553 AAATTTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 1 0.03
37 21 0.68
38 9 0.29
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (38 bp):
TATAATAAAAGAGATAATGTAGTAATTAAATTTTAAAT
Found at i:4148558 original size:28 final size:28
Alignment explanation
Indices: 4148521--4148574 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4148511 TAAATTATAA
* *
4148521 TAAAATATTTAATGTAG-TATTTAAATTT
1 TAAAAAATTTAATAT-GTTATTTAAATTT
4148549 TAAAAAATTTAATATGTTATTTAAAT
1 TAAAAAATTTAATATGTTATTTAAAT
4148575 ATAAATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (28 bp):
TAAAAAATTTAATATGTTATTTAAATTT
Found at i:4148703 original size:33 final size:29
Alignment explanation
Indices: 4148663--4148733 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 29
4148653 GATAAGTATA
*
4148663 ATATTAAATTAATAGATTTATAATTTAAATATT
1 ATATTAAA-TAA-A-ATTTA-AATTTAAATATC
*
4148696 ATATTAAA-AAATTTTAAATTTAAATATC
1 ATATTAAATAAAATTTAAATTTAAATATC
4148724 ATATTAAATA
1 ATATTAAATA
4148734 TTTTATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 19 0.54
29 5 0.14
30 1 0.03
31 2 0.06
33 8 0.23
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
ATATTAAATAAAATTTAAATTTAAATATC
Found at i:4148750 original size:20 final size:20
Alignment explanation
Indices: 4148680--4148752 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
4148670 ATTAATAGAT
*
4148680 TTATAA-TTTAAATATTATA
1 TTATAATTTTAAATATTTTA
* *
4148699 TTAAAAAATTTT-AA-ATTTAA
1 TT--ATAATTTTAAATATTTTA
* * *
4148719 ATATCATATTAAATATTTTA
1 TTATAATTTTAAATATTTTA
4148739 TTATAATTTTAAAT
1 TTATAATTTTAAAT
4148753 TTATTTATGA
Statistics
Matches: 38, Mismatches: 11, Indels: 9
0.66 0.19 0.16
Matches are distributed among these distances:
18 5 0.13
19 4 0.11
20 21 0.55
21 5 0.13
22 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAATTTTAAATATTTTA
Found at i:4152692 original size:5 final size:6
Alignment explanation
Indices: 4152681--4152705 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4152671 AAAAATATGA
4152681 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
4152706 CGTTCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:4160506 original size:29 final size:30
Alignment explanation
Indices: 4160445--4160517 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 30
4160435 ATAATTAATT
*
4160445 TTTAAATTATAATAAAATATTTAATGTAGTA
1 TTTAAATTATAA-AAAATATTTAATATAGTA
*
4160476 TTTAAATTTTAAAAAA-ATTTAATAT-GTTA
1 TTTAAATTATAAAAAATATTTAATATAG-TA
4160505 TTTAAATTATAAA
1 TTTAAATTATAAA
4160518 TCTATTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 22 0.58
30 4 0.11
31 11 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTAAATTATAAAAAATATTTAATATAGTA
Found at i:4164173 original size:2 final size:2
Alignment explanation
Indices: 4164161--4164190 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4164151 AATTCAATAA
*
4164161 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4164191 TGCTTTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4165405 original size:18 final size:20
Alignment explanation
Indices: 4165379--4165417 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
4165369 AAATAAAAAC
*
4165379 TTTTTATAA-AAGT-GTTAA
1 TTTTAATAATAAGTAGTTAA
4165397 TTTTAATAATAAGTAGTTAA
1 TTTTAATAATAAGTAGTTAA
4165417 T
1 T
4165418 GAAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTTAATAATAAGTAGTTAA
Found at i:4166934 original size:14 final size:15
Alignment explanation
Indices: 4166912--4166945 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4166902 AGTTTAGAGA
*
4166912 TTTTAGGGTTT-GGG
1 TTTTGGGGTTTGGGG
4166926 TTTTGGGGTTTGGGG
1 TTTTGGGGTTTGGGG
4166941 TTTTG
1 TTTTG
4166946 ATTTAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (15 bp):
TTTTGGGGTTTGGGG
Found at i:4166976 original size:16 final size:16
Alignment explanation
Indices: 4166955--4167044 Score: 71
Period size: 15 Copynumber: 5.7 Consensus size: 16
4166945 GATTTAAAGG
4166955 TTTGAATTTTAGGAAT
1 TTTGAATTTTAGGAAT
4166971 TTTGAATTTTAAGG-A-
1 TTTGAATTTT-AGGAAT
**
4166986 TTTGAATTTT-GGGGT
1 TTTGAATTTTAGGAAT
*
4167001 TTAG-ATTTTAGGAAT
1 TTTGAATTTTAGGAAT
* *
4167016 TTTGGATTTTTATGAGAT
1 TTT-GAATTTTAGGA-AT
*
4167034 TTTGGATTTTA
1 TTTGAATTTTA
4167045 TGGGTTTTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.03
14 5 0.09
15 18 0.31
16 12 0.21
17 16 0.28
18 5 0.09
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (16 bp):
TTTGAATTTTAGGAAT
Found at i:4166991 original size:15 final size:15
Alignment explanation
Indices: 4166942--4166995 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
4166932 GGTTTGGGGT
*
4166942 TTTG-ATTTAAAGG-
1 TTTGAATTTTAAGGA
4166955 TTTGAATTTT-AGGAA
1 TTTGAATTTTAAGG-A
4166970 TTTTGAATTTTAAGGA
1 -TTTGAATTTTAAGGA
4166986 TTTGAATTTT
1 TTTGAATTTT
4166996 GGGGTTTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 7 0.20
14 4 0.11
15 10 0.29
16 11 0.31
17 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (15 bp):
TTTGAATTTTAAGGA
Found at i:4167043 original size:17 final size:16
Alignment explanation
Indices: 4167004--4167046 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
4166994 TTGGGGTTTA
*
4167004 GATTTTAGGAATTTTG
1 GATTTTATGAATTTTG
4167020 GATTTTTATGAGATTTTG
1 GA-TTTTATGA-ATTTTG
4167038 GATTTTATG
1 GATTTTATG
4167047 GGTTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 14 0.58
18 8 0.33
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (16 bp):
GATTTTATGAATTTTG
Found at i:4168102 original size:16 final size:15
Alignment explanation
Indices: 4168081--4168112 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4168071 CTGATCTCTC
4168081 TTCTTTTTCTTTTTTT
1 TTCTTTTT-TTTTTTT
4168097 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
4168112 T
1 T
4168113 AGACGGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTCTTTTTTTTTTTT
Found at i:4168104 original size:11 final size:10
Alignment explanation
Indices: 4168084--4168112 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4168074 ATCTCTCTTC
4168084 TTTTTCTTTT
1 TTTTTCTTTT
4168094 TTTTTCTTTT
1 TTTTTCTTTT
4168104 TTTTT-TTTT
1 TTTTTCTTTT
4168113 AGACGGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:4170107 original size:26 final size:26
Alignment explanation
Indices: 4170056--4170107 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4170046 ATAGATAGAT
* *
4170056 TTATCAATGAAAAATTTCATAGGTAA
1 TTATCAACGAAAAATTTCATAAGTAA
4170082 TTATCAACGAAAAATTCTC-TAAGTAA
1 TTATCAACGAAAAATT-TCATAAGTAA
4170108 AACTGTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (26 bp):
TTATCAACGAAAAATTTCATAAGTAA
Found at i:4172018 original size:30 final size:32
Alignment explanation
Indices: 4171970--4172029 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
4171960 AATAAAAGAA
*
4171970 ATATTTATATATAAAATT-AGTAAAAAAATCT
1 ATATTTATATAGAAAATTAAGTAAAAAAATCT
*
4172001 ATATTTATAT-GAAAATTAATTAAAAAAAT
1 ATATTTATATAGAAAATTAAGTAAAAAAAT
4172030 TAAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (32 bp):
ATATTTATATAGAAAATTAAGTAAAAAAATCT
Found at i:4175528 original size:30 final size:31
Alignment explanation
Indices: 4175494--4175566 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 31
4175484 AATTTTTATG
4175494 TAATAAAAAAGAA-A-TATTTATATAT-AAAAT
1 TAATAAAAAA-AACATTATTT-TATATGAAAAT
4175524 TAATAAAAGAAAACATTTATTTTATATGAAAAT
1 TAATAAAA-AAAACA-TTATTTTATATGAAAAT
4175557 TAATAAAAAA
1 TAATAAAAAA
4175567 TTAAAATCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
30 10 0.26
31 3 0.08
32 7 0.18
33 18 0.47
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (31 bp):
TAATAAAAAAAACATTATTTTATATGAAAAT
Found at i:4175531 original size:29 final size:32
Alignment explanation
Indices: 4175494--4175565 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 32
4175484 AATTTTTATG
*
4175494 TAATAAAAA-AGAAATATTTA-TATAT-AAAAT
1 TAATAAAAAGA-AAACATTTATTATATGAAAAT
4175524 TAAT-AAAAGAAAACATTTATTTTATATGAAAAT
1 TAATAAAAAGAAAACATTTA--TTATATGAAAAT
4175557 TAATAAAAA
1 TAATAAAAA
4175566 ATTAAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 12 0.34
30 5 0.14
32 5 0.14
33 9 0.26
34 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (32 bp):
TAATAAAAAGAAAACATTTATTATATGAAAAT
Found at i:4175726 original size:14 final size:15
Alignment explanation
Indices: 4175695--4175734 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
4175685 TTTCATTTTC
4175695 TTATTAATTT-ATATA
1 TTATT-ATTTAATATA
4175710 TTATTATTTAATA-A
1 TTATTATTTAATATA
4175724 TTATT-TTTAAT
1 TTATTATTTAAT
4175735 TATGGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTTAATATA
Found at i:4177809 original size:13 final size:13
Alignment explanation
Indices: 4177791--4177815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4177781 TAATTTATCG
4177791 ATTTTAATTTTTT
1 ATTTTAATTTTTT
4177804 ATTTTAATTTTT
1 ATTTTAATTTTT
4177816 GTTTAATCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:4179001 original size:4 final size:4
Alignment explanation
Indices: 4178985--4179130 Score: 57
Period size: 4 Copynumber: 35.5 Consensus size: 4
4178975 ATCTTATGTA
* * * * *
4178985 TTAT TTAT ATAT TTAT TT-T TTAT TACTAT TTAT TAAC ATAT ATAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT
* * * * * *
4179033 TTATT TTTT TTAT TTTT TTAT CTAT TTAT ATA- TTAT TATAT ATAT GTAT
1 TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT
* * * *
4179082 TTAT TAGTAT TTAT CTAT TTAT ATAT TACAAT TTAT CTA- TTAT TTAT
1 TTAT T--TAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT
4179129 TT
1 TT
4179131 TCATTTATCT
Statistics
Matches: 103, Mismatches: 27, Indels: 24
0.67 0.18 0.16
Matches are distributed among these distances:
3 10 0.10
4 77 0.75
5 5 0.05
6 11 0.11
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:4179109 original size:22 final size:21
Alignment explanation
Indices: 4179049--4179140 Score: 80
Period size: 22 Copynumber: 4.3 Consensus size: 21
4179039 TTTTTATTTT
4179049 TTTATCTATTTATATATTAT-
1 TTTATCTATTTATATATTATA
* * * *
4179069 TATATATATGTATTTATTAGTA
1 TTTATCTATTTATATATTA-TA
*
4179091 TTTATCTATTTATATATTACAA
1 TTTATCTATTTATATATTA-TA
* *
4179113 TTTATCTA-TTATTTATTTTCA
1 TTTATCTATTTATATATTAT-A
4179134 TTTATCT
1 TTTATCT
4179141 GTTATCTTAT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
20 15 0.27
21 17 0.30
22 24 0.43
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATCTATTTATATATTATA
Found at i:4179170 original size:30 final size:28
Alignment explanation
Indices: 4179114--4179192 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
4179104 ATATTACAAT
*
4179114 TTATCTATTATTTATTTTCATTTATCTG
1 TTATCTATTATTTATTTTCAATTATCTG
* * *
4179142 TTATCTTATTATTTTCTTTTTAATTATCTA
1 TTATC-TATTA-TTTATTTTCAATTATCTG
*
4179172 TTAATATATATATTTATTTTC
1 TT-ATCTAT-TATTTATTTTC
4179193 TTTTTCGGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
28 5 0.12
29 5 0.12
30 26 0.65
31 4 0.10
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.65
Consensus pattern (28 bp):
TTATCTATTATTTATTTTCAATTATCTG
Found at i:4179942 original size:17 final size:19
Alignment explanation
Indices: 4179914--4179954 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4179904 ACGTTCAACC
*
4179914 CGAGTACGAGCCGT-TTTT
1 CGAGTACGAGCCGTATCTT
4179932 CGAGT-CGAGCCGTATCTT
1 CGAGTACGAGCCGTATCTT
4179950 CGAGT
1 CGAGT
4179955 TGTTTTTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (19 bp):
CGAGTACGAGCCGTATCTT
Found at i:4180086 original size:17 final size:17
Alignment explanation
Indices: 4180066--4180147 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
4180056 TTTAATATTC
4180066 TTTTATTTTTATTTTTAT
1 TTTTA-TTTTATTTTTAT
4180084 TTTTATTTTATTTTTAT
1 TTTTATTTTATTTTTAT
* *
4180101 TTTTATTTTACTTTTCT
1 TTTTATTTTATTTTTAT
* * *
4180118 TTAT-TTTTATTTTCAC
1 TTTTATTTTATTTTTAT
4180134 TTTTATTTTATTTT
1 TTTTATTTTATTTT
4180148 ATTATTTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
16 11 0.20
17 39 0.71
18 5 0.09
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTTTAT
Found at i:4180092 original size:23 final size:23
Alignment explanation
Indices: 4180066--4180147 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
4180056 TTTAATATTC
4180066 TTTTATTTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTATTTTTA
4180089 TTTTATTTTTATTTTTA-TTTTA
1 TTTTATTTTTATTTTTATTTTTA
* * *
4180111 CTTT-TCTTTATTTTTATTTTCA
1 TTTTATTTTTATTTTTATTTTTA
4180133 CTTTTA-TTTTATTTT
1 -TTTTATTTTTATTTT
4180148 ATTATTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
21 11 0.22
22 12 0.24
23 28 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTATTTTTATTTTTATTTTTA
Found at i:4180150 original size:5 final size:6
Alignment explanation
Indices: 4180066--4180147 Score: 96
Period size: 6 Copynumber: 13.5 Consensus size: 6
4180056 TTTAATATTC
*
4180066 TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTTAT TTTTAT TTTACTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT
* *
4180115 TCTTTAT TTTTAT TTTCAC TTTTA- TTTTAT TTT
1 T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
4180148 ATTATTTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
5 10 0.15
6 48 0.73
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:4180229 original size:58 final size:57
Alignment explanation
Indices: 4180181--4180510 Score: 389
Period size: 58 Copynumber: 5.7 Consensus size: 57
4180171 AATCCAAAAT
4180181 AAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCCAAA
1 AAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAC-TTCCAAA
* * * * *
4180239 AAATATTTTT-AGGAAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAATTTTCAAA
1 AAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTCCAAA
* * *
4180296 AAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAC-TTCCAAA
* *
4180354 AAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCCAAA
1 AAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAC-TTCCAAA
* * * * * ***
4180412 AAATATTTTTGTGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTGAA
1 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTCCAAA
*
4180468 AAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4180511 CACAAAAGCA
Statistics
Matches: 236, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
56 8 0.03
57 55 0.23
58 172 0.73
59 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTCCAAA
Found at i:4180443 original size:116 final size:115
Alignment explanation
Indices: 4180181--4180510 Score: 438
Period size: 115 Copynumber: 2.9 Consensus size: 115
4180171 AATCCAAAAT
*
4180181 AAATATTTTT-TGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCCAAAAAATAT
1 AAATATTTTTGT-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAATAT
* * *
4180245 TTTTAGGA-AAAAGTTGAAAATATCAA-TTTTCTTTAAAAATAAATTTTCAAA
65 TTTT-GGAGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAATTTCCAAA
* * *
4180296 AAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAATATT
1 AAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAATATT
*
4180361 TTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCCAAA
66 TTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAA-ATTTCCAAA
* * * * *
4180412 AAATATTTTTGTGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTT-TGAAAAATGAA
1 AAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAAT--A
4180475 TTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTG
64 TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTG
4180511 CACAAAAGCA
Statistics
Matches: 192, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
114 10 0.05
115 96 0.50
116 86 0.45
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (115 bp):
AAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAAAAATATT
TTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTCCAAA
Found at i:4180448 original size:27 final size:27
Alignment explanation
Indices: 4180416--4180506 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
4180406 TCCAAAAAAT
4180416 ATTTTTGTGAAAAAGTTGAAAGTATCA
1 ATTTTTGTGAAAAAGTTGAAAGTATCA
* * * *
4180443 ATTTTTCTTAAAAATAAGTTTTGAAA-AATGA
1 ATTTTT-GT-GAAA-AAG--TTGAAAGTATCA
* *
4180474 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGTGAAAAAGTTGAAAGTATCA
4180501 ATTTTT
1 ATTTTT
4180507 CTTGCACAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
26 6 0.12
27 15 0.31
28 4 0.08
29 5 0.10
30 3 0.06
31 9 0.19
32 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (27 bp):
ATTTTTGTGAAAAAGTTGAAAGTATCA
Found at i:4184185 original size:15 final size:17
Alignment explanation
Indices: 4184165--4184196 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4184155 TATCTTCTTA
4184165 AAAATT-ATTT-TAATT
1 AAAATTGATTTATAATT
4184180 AAAATTGATTTATAATT
1 AAAATTGATTTATAATT
4184197 TGTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAAATTGATTTATAATT
Found at i:4189302 original size:22 final size:23
Alignment explanation
Indices: 4189274--4189320 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4189264 CTCAGTTAAC
*
4189274 TTTTTTTGATGG-AAAATAAGCT
1 TTTTTTTAATGGAAAAATAAGCT
*
4189296 TTTTTTTAATGGAAAAATATGCT
1 TTTTTTTAATGGAAAAATAAGCT
4189319 TT
1 TT
4189321 GTTAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (23 bp):
TTTTTTTAATGGAAAAATAAGCT
Found at i:4205544 original size:254 final size:253
Alignment explanation
Indices: 4205034--4205534 Score: 887
Period size: 256 Copynumber: 2.0 Consensus size: 253
4205024 TTCGTACCAT
4205034 AATCTTTTCTTGTCATGAAAGAACCAATAACAGACAGTGTAAAAATTATGGCAACAAAGTAAAGA
1 AATCTTTTCTTGTCATGAAAGAACCAATAACAGACAGTGTAAAAATTATGGCAACAAAGTAAAGA
* *
4205099 ACCTCCTCCAGGTATTAGGATTACTCATAACTTCTGACTGTTGCTATTGAGCTTGATAACTGTAG
66 ACCTCCTCCAGGTATTAGGATTACTCATAACTTCCGACTGTTGCTATTGAACTTGATAACTGTAG
*
4205164 CACAACTGATGCCCGCAATTCTTTGTTGCATAGAGACGAATGTTGCACTTAGAAATGGCATTAAT
131 CACAACTGATGCCAGCAATTCTTTGTTGCATAGAGACGAATGTTGCACTTAGAAATGGCATTAAT
4205229 AAGACCCTGGCACTAGTTTCACTTTATATATGCTTTGACTTCGATATTATTCTTACTAA
196 AAGACCCTGGCACTAGTTTCACTTTATATATGCTTTGACTTCGATATTA-TCTTACTAA
4205288 AATCTTTTCTTGTCATGAAAGAACCAATAACAGACAGTGTAAAAATTATGGCAACAAAGTAAAGA
1 AATCTTTTCTTGTCATGAAAGAACCAATAACAGACAGTGTAAAAATTATGGCAACAAAGTAAAGA
* *
4205353 ACCTCCTCCAGGTATTAGGATTACTCTTAACTTCCGACTGTTCTGCTGTTGAACTTGATAACTGT
66 ACCTCCTCCAGGTATTAGGATTACTCATAACTTCCGACTG-T-TGCTATTGAACTTGATAACTGT
* *
4205418 AGCACAACTGCTGCCAGCAATTCTTTGTTGCATAGAGACGAATGTTGCTCTTAGAAATGGCATTA
129 AGCACAACTGATGCCAGCAATTCTTTGTTGCATAGAGACGAATGTTGCACTTAGAAATGGCATTA
4205483 ATAAGACCCTGGCACTAGTTTCA-TATTAATATATGCTTTGACTTCGATATTA
194 ATAAGACCCTGGCACTAGTTTCACT-TT-ATATATGCTTTGACTTCGATATTA
4205535 CTCCTAAAAT
Statistics
Matches: 236, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
254 103 0.44
255 2 0.01
256 107 0.45
257 24 0.10
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (253 bp):
AATCTTTTCTTGTCATGAAAGAACCAATAACAGACAGTGTAAAAATTATGGCAACAAAGTAAAGA
ACCTCCTCCAGGTATTAGGATTACTCATAACTTCCGACTGTTGCTATTGAACTTGATAACTGTAG
CACAACTGATGCCAGCAATTCTTTGTTGCATAGAGACGAATGTTGCACTTAGAAATGGCATTAAT
AAGACCCTGGCACTAGTTTCACTTTATATATGCTTTGACTTCGATATTATCTTACTAA
Found at i:4212103 original size:30 final size:29
Alignment explanation
Indices: 4212032--4212110 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
4212022 ATAATTTAAT
* *
4212032 AATCATTTAAATT-TATAATATTTTATTAC
1 AATCAATTAAATTCT-TAATTTTTTATTAC
* *
4212061 AATCAATCAAATTCTTAATTTTTTATTTC
1 AATCAATTAAATTCTTAATTTTTTATTAC
4212090 AACTCAATTAAATTCTTAATT
1 AA-TCAATTAAATTCTTAATT
4212111 GGATGAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.58
30 18 0.42
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (29 bp):
AATCAATTAAATTCTTAATTTTTTATTAC
Found at i:4214650 original size:8 final size:8
Alignment explanation
Indices: 4214639--4214805 Score: 57
Period size: 8 Copynumber: 21.5 Consensus size: 8
4214629 AGGTTTCAAT
4214639 GTTTTAGG
1 GTTTTAGG
*
4214647 GTTTTA-T
1 GTTTTAGG
*
4214654 GCTTTAGG
1 GTTTTAGG
*
4214662 ATTTT--G
1 GTTTTAGG
*
4214668 GTTTTAGA
1 GTTTTAGG
*
4214676 ATTTT-GAG
1 GTTTTAG-G
4214684 GTTTTAGG
1 GTTTTAGG
4214692 G-TTTAGG
1 GTTTTAGG
*
4214699 GTTTTA-A
1 GTTTTAGG
*
4214706 ATGTTTAGG
1 GT-TTTAGG
* *
4214715 GCTTTA-A
1 GTTTTAGG
4214722 GTATTTAGG
1 GT-TTTAGG
4214731 G-TTTAGG
1 GTTTTAGG
*
4214738 GTTTTAAAG
1 GTTTT-AGG
*
4214747 GTCTTAGG
1 GTTTTAGG
*
4214755 ATTTTA-G
1 GTTTTAGG
*
4214762 ATTTTAGG
1 GTTTTAGG
* *
4214770 GTTTCA-A
1 GTTTTAGG
* *
4214777 ATTTTAAG
1 GTTTTAGG
4214785 GTTTTGAGG
1 GTTTT-AGG
*
4214794 GTTTTAGA
1 GTTTTAGG
4214802 GTTT
1 GTTT
4214806 CGAGTTTTAA
Statistics
Matches: 112, Mismatches: 32, Indels: 30
0.64 0.18 0.17
Matches are distributed among these distances:
6 5 0.04
7 33 0.29
8 59 0.53
9 15 0.13
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (8 bp):
GTTTTAGG
Found at i:4214768 original size:39 final size:38
Alignment explanation
Indices: 4214670--4214773 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 38
4214660 GGATTTTGGT
* * *
4214670 TTTAGAATTTTGAGGTTTTAGGGTTTAGGGTTTTAAATG
1 TTTAGGATTTT-AGATTTTAGGGTTTAGGGTTTTAAAGG
**
4214709 TTTAGGGCTTTA-AGTATTTAGGGTTTAGGGTTTTAAAGG
1 TTTAGGATTTTAGA-T-TTTAGGGTTTAGGGTTTTAAAGG
4214748 TCTTAGGATTTTAGATTTTAGGGTTT
1 T-TTAGGATTTTAGATTTTAGGGTTT
4214774 CAAATTTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.04
39 41 0.76
40 10 0.19
41 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (38 bp):
TTTAGGATTTTAGATTTTAGGGTTTAGGGTTTTAAAGG
Found at i:4214782 original size:39 final size:40
Alignment explanation
Indices: 4214739--4214821 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
4214729 GGGTTTAGGG
* *
4214739 TTTTAAAGGTCTT-AGGATTTTAGATTTTAGGGTTTCAAA
1 TTTTAAAGGTCTTGAGGATTTTAGAGTTTAGAGTTTCAAA
* * * *
4214778 TTTT-AAGGTTTTGAGGGTTTTAGAGTTTCGAGTTTTAAA
1 TTTTAAAGGTCTTGAGGATTTTAGAGTTTAGAGTTTCAAA
4214817 TTTTA
1 TTTTA
4214822 GATTTTGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 7 0.19
39 29 0.81
ACGTcount: A:0.25, C:0.04, G:0.22, T:0.49
Consensus pattern (40 bp):
TTTTAAAGGTCTTGAGGATTTTAGAGTTTAGAGTTTCAAA
Found at i:4214848 original size:15 final size:15
Alignment explanation
Indices: 4214732--4214859 Score: 63
Period size: 15 Copynumber: 8.9 Consensus size: 15
4214722 GTATTTAGGG
4214732 TTTAGGGTTTTAAAGGT
1 TTTAGGGTTTTAAA--T
* * *
4214749 CTTAGGATTTTAGAT
1 TTTAGGGTTTTAAAT
*
4214764 TTTAGGGTTTCAAAT
1 TTTAGGGTTTTAAAT
*
4214779 TTTAAGG---T---T
1 TTTAGGGTTTTAAAT
* * *
4214788 TTGAGGGTTTTAGAG
1 TTTAGGGTTTTAAAT
* *
4214803 TTTCGAGTTTTAAAT
1 TTTAGGGTTTTAAAT
* **
4214818 TTTA-GATTTTGGAT
1 TTTAGGGTTTTAAAT
4214832 TTTAGGGTTTTAAAT
1 TTTAGGGTTTTAAAT
*
4214847 TTTAAGGTTTTAA
1 TTTAGGGTTTTAA
4214860 GGGTTTCAAA
Statistics
Matches: 78, Mismatches: 26, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
9 6 0.08
12 1 0.01
14 10 0.13
15 50 0.64
17 11 0.14
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTTAAAT
Found at i:4214857 original size:8 final size:8
Alignment explanation
Indices: 4214831--4214887 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 8
4214821 AGATTTTGGA
*
4214831 TTTTAGGG
1 TTTTAAGG
*
4214839 TTTTAA-A
1 TTTTAAGG
4214846 TTTTAAGG
1 TTTTAAGG
4214854 TTTTAAGGG
1 TTTTAA-GG
*
4214863 TTTCAAAGG
1 TTT-TAAGG
4214872 TTTTAAGGG
1 TTTTAA-GG
4214881 TTTTAAG
1 TTTTAAG
4214888 ATTTCGGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
8 14 0.35
9 18 0.45
10 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (8 bp):
TTTTAAGG
Found at i:4214882 original size:9 final size:9
Alignment explanation
Indices: 4214846--4214887 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
4214836 GGGTTTTAAA
4214846 TTTTAA-GG
1 TTTTAAGGG
4214854 TTTTAAGGG
1 TTTTAAGGG
* *
4214863 TTTCAAAGG
1 TTTTAAGGG
4214872 TTTTAAGGG
1 TTTTAAGGG
4214881 TTTTAAG
1 TTTTAAG
4214888 ATTTCGGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.45
Consensus pattern (9 bp):
TTTTAAGGG
Found at i:4214963 original size:16 final size:15
Alignment explanation
Indices: 4214944--4215017 Score: 64
Period size: 17 Copynumber: 4.8 Consensus size: 15
4214934 TTTAGGGTCA
4214944 TGAGGTTTTGAGGTTT
1 TGAGGTTTT-AGGTTT
4214960 TGAGGGTTTTAGGATTT
1 TGA-GGTTTTAGG-TTT
*
4214977 TGA-ATTTTAGGTTT
1 TGAGGTTTTAGGTTT
*
4214991 TCAAGGTTTTAGGGTTT
1 T-GAGGTTTTA-GGTTT
4215008 T-A-GTTTTAGG
1 TGAGGTTTTAGG
4215018 GTTGGTGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
13 2 0.04
14 10 0.20
15 9 0.18
16 11 0.22
17 18 0.36
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (15 bp):
TGAGGTTTTAGGTTT
Found at i:4214991 original size:31 final size:30
Alignment explanation
Indices: 4214949--4215017 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
4214939 GGTCATGAGG
* *
4214949 TTTTGAGGTTTTGAGGGTTTTAGGATTTTGAA
1 TTTT-AGGTTTTCAAGGTTTTAGGATTTT-AA
* *
4214981 TTTTAGGTTTTCAAGGTTTTAGGGTTTTAG
1 TTTTAGGTTTTCAAGGTTTTAGGATTTTAA
4215011 TTTTAGG
1 TTTTAGG
4215018 GTTGGTGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 8 0.24
31 21 0.64
32 4 0.12
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.52
Consensus pattern (30 bp):
TTTTAGGTTTTCAAGGTTTTAGGATTTTAA
Found at i:4215008 original size:8 final size:8
Alignment explanation
Indices: 4214955--4215020 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
4214945 GAGGTTTTGA
4214955 GGTTTTGAG
1 GGTTTT-AG
4214964 GGTTTTAG
1 GGTTTTAG
*
4214972 GATTTT-G
1 GGTTTTAG
**
4214979 AATTTTA-
1 GGTTTTAG
*
4214986 GGTTTTCAA
1 GGTTTT-AG
4214995 GGTTTTAG
1 GGTTTTAG
4215003 GGTTTTA-
1 GGTTTTAG
4215010 -GTTTTAG
1 GGTTTTAG
4215017 GGTT
1 GGTT
4215021 GGTGTTGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
6 6 0.13
7 10 0.21
8 19 0.40
9 12 0.26
ACGTcount: A:0.17, C:0.02, G:0.30, T:0.52
Consensus pattern (8 bp):
GGTTTTAG
Found at i:4215015 original size:14 final size:15
Alignment explanation
Indices: 4214965--4215020 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 15
4214955 GGTTTTGAGG
*
4214965 GTTTTAGGATTTTGAA
1 GTTTTAGGGTTTT-AA
4214981 -TTTTA-GGTTTTCAA
1 GTTTTAGGGTTTT-AA
4214995 GGTTTTAGGGTTTT-A
1 -GTTTTAGGGTTTTAA
4215010 GTTTTAGGGTT
1 GTTTTAGGGTT
4215021 GGTGTTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
15 6 0.17
16 5 0.14
17 6 0.17
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.54
Consensus pattern (15 bp):
GTTTTAGGGTTTTAA
Found at i:4215074 original size:31 final size:30
Alignment explanation
Indices: 4214995--4215099 Score: 81
Period size: 31 Copynumber: 3.5 Consensus size: 30
4214985 AGGTTTTCAA
* *
4214995 GGTTTTAGGGTTTTAG-TTTT-AGGGTTGG
1 GGTTTTAGGGTTTTAGATTTTAAGGCTAGG
* ** * *
4215023 TGTTGCAAGGTTTTAGATTTTAGGGCTAGG
1 GGTTTTAGGGTTTTAGATTTTAAGGCTAGG
* *
4215053 GAGTTTTAGGGTTTT-GAATTTTAAGGCTTGT
1 G-GTTTTAGGGTTTTAG-ATTTTAAGGCTAGG
*
4215084 GGTTTTAGAGTTTTAG
1 GGTTTTAGGGTTTTAG
4215100 GGTTTCGAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
28 12 0.21
29 4 0.07
30 18 0.32
31 23 0.40
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (30 bp):
GGTTTTAGGGTTTTAGATTTTAAGGCTAGG
Found at i:4215491 original size:16 final size:17
Alignment explanation
Indices: 4215465--4215497 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4215455 TTAACTTGAC
4215465 TTAATTTTTTTTAATTT
1 TTAATTTTTTTTAATTT
4215482 TTAA-TTTTTTTAATTT
1 TTAATTTTTTTTAATTT
4215498 CTCAACATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTAATTTTTTTTAATTT
Found at i:4218237 original size:35 final size:35
Alignment explanation
Indices: 4218170--4218252 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
4218160 GTGAATTGAG
* * *
4218170 AAATAAGAATAATCGAGATTGGACTACAAGTCAAA
1 AAATAAAAATGATCGAGATTGGACCACAAGTCAAA
* **
4218205 AAATAAAAATGATCGAGATTGTG-CCACGAGTCAGG
1 AAATAAAAATGATCGAGATTG-GACCACAAGTCAAA
*
4218240 AAATGAAAATGAT
1 AAATAAAAATGAT
4218253 TATGATTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (35 bp):
AAATAAAAATGATCGAGATTGGACCACAAGTCAAA
Found at i:4218420 original size:35 final size:35
Alignment explanation
Indices: 4218346--4218420 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
4218336 TTAGTCCAAG
* * * ** *
4218346 AATAAAGATGACCATGATTGAACCGTTAGTTGAAG
1 AATAAAGATGACCATGATTGAACAGTAAATCAAAA
4218381 AATAAAGATGACCGA-GATTGAACAGTAAATCAAAA
1 AATAAAGATGACC-ATGATTGAACAGTAAATCAAAA
4218416 AATAA
1 AATAA
4218421 GAATAATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (35 bp):
AATAAAGATGACCATGATTGAACAGTAAATCAAAA
Found at i:4218583 original size:70 final size:70
Alignment explanation
Indices: 4218509--4218667 Score: 183
Period size: 70 Copynumber: 2.3 Consensus size: 70
4218499 CCCAATTGAA
* * * **
4218509 CCGCAAGTCAAAAAATAAAAAAGACCAAGACTGAATTGTAAGTCGAAGAATAAAAATAACCGGGA
1 CCGCAAGTTAGAAAATAAAAAAGACCAAGACTGAACTACAAGTCGAAGAATAAAAATAACCGGGA
*
4218574 CTGAG
66 CTAAG
** * * * * *
4218579 CCGCAAGTTAGAAAATAAAAGTGATCGAGATTGAACTACAAGTTGAAGAATAAAAATAACTGGGA
1 CCGCAAGTTAGAAAATAAAAAAGACCAAGACTGAACTACAAGTCGAAGAATAAAAATAACCGGGA
*
4218644 TTAAG
66 CTAAG
*
4218649 CTGCAAGTTAGAAAATAAA
1 CCGCAAGTTAGAAAATAAA
4218668 GATGATTGGG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (70 bp):
CCGCAAGTTAGAAAATAAAAAAGACCAAGACTGAACTACAAGTCGAAGAATAAAAATAACCGGGA
CTAAG
Found at i:4218596 original size:35 final size:35
Alignment explanation
Indices: 4218557--4218667 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 35
4218547 TAAGTCGAAG
* *
4218557 AATAAAAATAACCGGGACTGAGCCGCAAGTTAGAA
1 AATAAAAATAACCGGGATTGAGCTGCAAGTTAGAA
* * * * * *
4218592 AATAAAAGTGATCGAGATTGAACTACAAGTT-GAA
1 AATAAAAATAACCGGGATTGAGCTGCAAGTTAGAA
* *
4218626 GAATAAAAATAACTGGGATTAAGCTGCAAGTTAGAA
1 -AATAAAAATAACCGGGATTGAGCTGCAAGTTAGAA
4218662 AATAAA
1 AATAAA
4218668 GATGATTGGG
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
34 3 0.05
35 52 0.90
36 3 0.05
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.20
Consensus pattern (35 bp):
AATAAAAATAACCGGGATTGAGCTGCAAGTTAGAA
Found at i:4219798 original size:28 final size:28
Alignment explanation
Indices: 4219754--4219830 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
4219744 AATCTATATA
* *
4219754 CCAACTAATCTGAGCTTAAATATAAGTG
1 CCAACTAAACTAAGCTTAAATATAAGTG
* * * * * *
4219782 TCAGCTAAATTAGGCTTAAATTTATGTG
1 CCAACTAAACTAAGCTTAAATATAAGTG
4219810 CCAACTAAACTAAGCTTAAAT
1 CCAACTAAACTAAGCTTAAAT
4219831 CTATCTTGTA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (28 bp):
CCAACTAAACTAAGCTTAAATATAAGTG
Found at i:4224666 original size:27 final size:28
Alignment explanation
Indices: 4224627--4224681 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4224617 AGATGAAATA
*
4224627 CATGTATTATCT-ATTAAGATGTGCATG
1 CATGTATTATCTAATTAAAATGTGCATG
4224654 CATGTACTT-TCTAATTAAAATGTGCATG
1 CATGTA-TTATCTAATTAAAATGTGCATG
4224682 AGATGAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (28 bp):
CATGTATTATCTAATTAAAATGTGCATG
Found at i:4224717 original size:40 final size:42
Alignment explanation
Indices: 4224648--4224729 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 42
4224638 TATTAAGATG
* * *
4224648 TGCATGCATGTACTTTCTAATTAAAATGTGCATGAGATGAAA
1 TGCATACATGTACTATCTAATTAAAATGTGCATGAAATGAAA
* *
4224690 TGCATACAT-TACTATCT-ATTAATATGTGTATGAAATGAAA
1 TGCATACATGTACTATCTAATTAAAATGTGCATGAAATGAAA
4224730 CATATGTCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 20 0.57
41 7 0.20
42 8 0.23
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (42 bp):
TGCATACATGTACTATCTAATTAAAATGTGCATGAAATGAAA
Found at i:4226592 original size:16 final size:15
Alignment explanation
Indices: 4226554--4226588 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4226544 TTTTGTTTTA
*
4226554 TTTTATAATTTCACAT
1 TTTTA-AATTACACAT
4226570 TTTTAAATTACACAT
1 TTTTAAATTACACAT
4226585 TTTT
1 TTTT
4226589 TAAAGCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAATTACACAT
Found at i:4226665 original size:28 final size:28
Alignment explanation
Indices: 4226611--4226666 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
4226601 ACGGAAAAGC
* *
4226611 CAATGAGGGTACAATTATTTAGTAATGA
1 CAATGAGGGTACAAATATTTAGAAATGA
*
4226639 CAATGAAGGGTATAAATATTT-GAAATGA
1 CAATG-AGGGTACAAATATTTAGAAATGA
4226667 GGACAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.30
Consensus pattern (28 bp):
CAATGAGGGTACAAATATTTAGAAATGA
Found at i:4227221 original size:8 final size:8
Alignment explanation
Indices: 4227123--4227221 Score: 53
Period size: 8 Copynumber: 12.8 Consensus size: 8
4227113 TATGGTCTCA
4227123 TTTTAGGG
1 TTTTAGGG
***
4227131 TTTTAATA
1 TTTTAGGG
*
4227139 TTTTAAGG
1 TTTTAGGG
4227147 TTTT-GGG
1 TTTTAGGG
*
4227154 TTTTAGAG
1 TTTTAGGG
4227162 TTTTA--G
1 TTTTAGGG
*
4227168 TTTT-GGAA
1 TTTTAGG-G
*
4227176 TTTTGGGG
1 TTTTAGGG
*
4227184 TTTCAGGG
1 TTTTAGGG
* *
4227192 TTTAAGGT
1 TTTTAGGG
*
4227200 TTTTAGGC
1 TTTTAGGG
*
4227208 TCTTAGGG
1 TTTTAGGG
4227216 TTTTAG
1 TTTTAG
4227222 ATTTTGGGAT
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
6 5 0.07
7 6 0.09
8 55 0.81
9 2 0.03
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.52
Consensus pattern (8 bp):
TTTTAGGG
Found at i:4227311 original size:15 final size:14
Alignment explanation
Indices: 4227292--4227449 Score: 55
Period size: 15 Copynumber: 10.1 Consensus size: 14
4227282 AGAGTTTTGA
4227292 GTTTTAAATTTTAG
1 GTTTTAAATTTTAG
**
4227306 GCTTTTGGATTTTAAG
1 G-TTTTAAATTTT-AG
*
4227322 GTTTTGAATTTTAGG
1 GTTTTAAATTTTA-G
*
4227337 GTTTTAAGGGTTTTAG
1 GTTTTAA--ATTTTAG
* *
4227353 GATTTCATTATTTTAAG
1 G-TTTTA-AATTTT-AG
*
4227370 GTTTTGATATTTTAGG
1 GTTTT-AAATTTTA-G
* **
4227386 GTATTGAGGGTTTTAGG
1 GT-TTTA-AATTTTA-G
*
4227403 GTTTTGAATTTTAAG
1 GTTTTAAATTTT-AG
*
4227418 GTTTCAAAGTTTTAG
1 GTTTTAAA-TTTTAG
4227433 GTTTTCATAATTTTAG
1 GTTTT-A-AATTTTAG
4227449 G
1 G
4227450 GTTTCGATTT
Statistics
Matches: 109, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
14 2 0.02
15 44 0.40
16 37 0.34
17 26 0.24
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (14 bp):
GTTTTAAATTTTAG
Found at i:4227311 original size:22 final size:22
Alignment explanation
Indices: 4227278--4227320 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4227268 GTTTCGAAAG
4227278 TTTTAGAGTTTT-GAGTTTTAAA
1 TTTTAGAGTTTTGGA-TTTTAAA
4227300 TTTTAG-GCTTTTGGATTTTAA
1 TTTTAGAG-TTTTGGATTTTAA
4227321 GGTTTTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.05
22 16 0.84
23 2 0.11
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (22 bp):
TTTTAGAGTTTTGGATTTTAAA
Found at i:4227380 original size:16 final size:16
Alignment explanation
Indices: 4227362--4227421 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
4227352 GGATTTCATT
*
4227362 ATTTTAAGGTTTTGAT
1 ATTTTAAGGTTTTGAG
* *
4227378 ATTTTAGGGTATTGAGG
1 ATTTTAAGGTTTTGA-G
* *
4227395 GTTTTAGGGTTTTGA-
1 ATTTTAAGGTTTTGAG
4227410 ATTTTAAGGTTT
1 ATTTTAAGGTTT
4227422 CAAAGTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 10 0.28
16 13 0.36
17 13 0.36
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.52
Consensus pattern (16 bp):
ATTTTAAGGTTTTGAG
Found at i:4227381 original size:24 final size:23
Alignment explanation
Indices: 4227312--4227381 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
4227302 TTAGGCTTTT
*
4227312 GGATTTTAAGGTTTTGAATTTTA
1 GGATTTTAAGGTTTTGAATTTCA
* *
4227335 GGGTTTTAAGGGTTTTAGGATTTCA
1 GGATTTTAA-GGTTTT-GAATTTCA
**
4227360 TTATTTTAAGGTTTTGATATTT
1 GGATTTTAAGGTTTTGA-ATTT
4227382 TAGGGTATTG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 9 0.24
24 16 0.43
25 12 0.32
ACGTcount: A:0.23, C:0.01, G:0.23, T:0.53
Consensus pattern (23 bp):
GGATTTTAAGGTTTTGAATTTCA
Found at i:4227414 original size:48 final size:47
Alignment explanation
Indices: 4227300--4227421 Score: 156
Period size: 48 Copynumber: 2.6 Consensus size: 47
4227290 GAGTTTTAAA
* * *
4227300 TTTTAGGCTTTTGGATTTTAAGGTTTTGAATTTTAGGGTTTTAAGGG
1 TTTTAGGATTTTGAATTTTAAGGTTTTGAATTTTAGGGTATTAAGGG
* *
4227347 TTTTAGGATTTCAT-TATTTTAAGGTTTTGATATTTTAGGGTATTGAGGG
1 TTTTAGGATTT--TGAATTTTAAGGTTTTGA-ATTTTAGGGTATTAAGGG
*
4227396 TTTTAGGGTTTTGAATTTTAAGGTTT
1 TTTTAGGATTTTGAATTTTAAGGTTT
4227422 CAAAGTTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
47 11 0.17
48 27 0.42
49 27 0.42
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.52
Consensus pattern (47 bp):
TTTTAGGATTTTGAATTTTAAGGTTTTGAATTTTAGGGTATTAAGGG
Found at i:4227433 original size:48 final size:47
Alignment explanation
Indices: 4227300--4227433 Score: 135
Period size: 49 Copynumber: 2.8 Consensus size: 47
4227290 GAGTTTTAAA
* * ** *
4227300 TTTTAGGCTTTTGGATTTTAAGGTTTTGAATTTTAGGGTTTTAAGGG
1 TTTTAGGATTTTGAATTTTAAGGTTTCAAATTTTAGGGTATTAAGGG
* * * *
4227347 TTTTAGGATTTCAT-TATTTTAAGGTTTTGATATTTTAGGGTATTGAGGG
1 TTTTAGGATTT--TGAATTTTAAGG-TTTCAAATTTTAGGGTATTAAGGG
*
4227396 TTTTAGGGTTTTGAATTTTAAGGTTTCAAAGTTTTAGG
1 TTTTAGGATTTTGAATTTTAAGGTTTCAAA-TTTTAGG
4227434 TTTTCATAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
47 16 0.23
48 25 0.35
49 30 0.42
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.51
Consensus pattern (47 bp):
TTTTAGGATTTTGAATTTTAAGGTTTCAAATTTTAGGGTATTAAGGG
Found at i:4227438 original size:16 final size:16
Alignment explanation
Indices: 4227396--4227454 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
4227386 GTATTGAGGG
4227396 TTTTAGGGTTT--TGAA
1 TTTTAGGGTTTCAT-AA
*
4227411 TTTTAAGGTTTCA-AA
1 TTTTAGGGTTTCATAA
*
4227426 GTTTTAGGTTTTCATAA
1 -TTTTAGGGTTTCATAA
4227443 TTTTAGGGTTTC
1 TTTTAGGGTTTC
4227455 GATTTTATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 12 0.33
16 22 0.61
17 2 0.06
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.53
Consensus pattern (16 bp):
TTTTAGGGTTTCATAA
Found at i:4227519 original size:31 final size:31
Alignment explanation
Indices: 4227477--4227553 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
4227467 GATGTTGTAA
*
4227477 GGTTTTAGATTTTAAGGC-TAGGGAGTTTTAT
1 GGTTTTAGATTTTAAGGCTTAGGG-GTTTTAG
* *
4227508 GGTTTTGGATTTTAAGGCTTCGGGGTTTTAG
1 GGTTTTAGATTTTAAGGCTTAGGGGTTTTAG
*
4227539 GGTTTTTAGGTTTTA
1 GG-TTTTAGATTTTA
4227554 GGGTCTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.17, C:0.04, G:0.31, T:0.48
Consensus pattern (31 bp):
GGTTTTAGATTTTAAGGCTTAGGGGTTTTAG
Found at i:4228445 original size:25 final size:24
Alignment explanation
Indices: 4228412--4228474 Score: 99
Period size: 25 Copynumber: 2.6 Consensus size: 24
4228402 TATTCTCTTT
4228412 TTTTTTTTTTTTTACATATAAAAG
1 TTTTTTTTTTTTTACATATAAAAG
*
4228436 CTTTTTTTTTTTTTACTTATAAAAG
1 -TTTTTTTTTTTTTACATATAAAAG
*
4228461 TTTCTTTTTTTTTA
1 TTTTTTTTTTTTTA
4228475 TAACATCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTTTTTTTTTTTACATATAAAAG
Done.