Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 55 of 100
Found at i:13114505 original size:21 final size:21
Alignment explanation
Indices: 13114481--13114527 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
13114471 ATTTTCTAAC
*
13114481 AAATTTTTAAAAACATCAAAA
1 AAATTTTTAAAAACATAAAAA
*
13114502 AAA-TTTTAAAAACCTAAAAA
1 AAATTTTTAAAAACATAAAAA
13114522 AAATTT
1 AAATTT
13114528 AAAACAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATTTTTAAAAACATAAAAA
Found at i:13114520 original size:19 final size:20
Alignment explanation
Indices: 13114485--13114531 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
13114475 TCTAACAAAT
13114485 TTTTAAAAACATCAAAAAAA
1 TTTTAAAAACATCAAAAAAA
*
13114505 TTTTAAAAACCT-AAAAAAA
1 TTTTAAAAACATCAAAAAAA
*
13114524 ATTTAAAA
1 TTTTAAAA
13114532 CAATACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
TTTTAAAAACATCAAAAAAA
Found at i:13114755 original size:12 final size:11
Alignment explanation
Indices: 13114729--13114774 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
13114719 AAAAAATTCG
*
13114729 AAAAATTTTCT
1 AAAAATTTTAT
13114740 AAAAATTTTAT
1 AAAAATTTTAT
13114751 AAAAA--TTAT
1 AAAAATTTTAT
*
13114760 ACAAATTTT-T
1 AAAAATTTTAT
13114770 AAAAA
1 AAAAA
13114775 ATGTGTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 5 0.17
11 17 0.57
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATTTTAT
Found at i:13115302 original size:10 final size:10
Alignment explanation
Indices: 13115285--13115386 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 10
13115275 TAAAATTGTC
13115285 AATTTTTTT-
1 AATTTTTTTA
*
13115294 AATTTTTTTG
1 AATTTTTTTA
13115304 AATTTTTTTAA
1 AATTTTTTT-A
* *
13115315 AAATTTTCT-
1 AATTTTTTTA
13115324 AATTTTTTTA
1 AATTTTTTTA
*
13115334 AATTTTTATA
1 AATTTTTTTA
*
13115344 TA-TTTTTTA
1 AATTTTTTTA
*
13115353 AA-ATTTTTA
1 AATTTTTTTA
*
13115362 AA-GTTTTTA
1 AATTTTTTTA
13115371 GAA-TTTTTTA
1 -AATTTTTTTA
13115381 AATTTT
1 AATTTT
13115387 CACAGAATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
9 39 0.51
10 30 0.39
11 7 0.09
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:13115307 original size:19 final size:19
Alignment explanation
Indices: 13115285--13115386 Score: 84
Period size: 19 Copynumber: 5.3 Consensus size: 19
13115275 TAAAATTGTC
13115285 AATTTTTTT-AATTTTTTT
1 AATTTTTTTAAATTTTTTT
* *
13115303 GAATTTTTTTAAAAATTTTCT
1 -AATTTTTTT-AAATTTTTTT
*
13115324 AATTTTTTTAAATTTTTAT
1 AATTTTTTTAAATTTTTTT
*
13115343 -ATATTTTTTAAA-ATTTTT
1 AAT-TTTTTTAAATTTTTTT
** *
13115361 AAAGTTTTTAGAATTTTTTA
1 AATTTTTTTA-AATTTTTTT
13115381 AATTTT
1 AATTTT
13115387 CACAGAATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
18 12 0.18
19 29 0.45
20 17 0.26
21 7 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (19 bp):
AATTTTTTTAAATTTTTTT
Found at i:13115361 original size:20 final size:19
Alignment explanation
Indices: 13115285--13115772 Score: 103
Period size: 20 Copynumber: 25.2 Consensus size: 19
13115275 TAAAATTGTC
* *
13115285 AATTTTTT-TAATTTTTTT
1 AATTTTTTAAAATTTTTAT
* *
13115303 GAATTTTTTTAAAAATTTTCT
1 -AA-TTTTTTAAAATTTTTAT
*
13115324 AATTTTTTTAAATTTTTAT
1 AATTTTTTAAAATTTTTAT
13115343 ATATTTTTTAAAATTTTTA-
1 A-ATTTTTTAAAATTTTTAT
* *
13115362 AAGTTTTTAGAATTTTT-T
1 AATTTTTTAAAATTTTTAT
* *
13115380 AAATTTTCACAGAATTTTCTA-
1 AATTTTTTA-A-AATTTT-TAT
* *
13115401 AAGTTTCT--AATTTTT-T
1 AATTTTTTAAAATTTTTAT
**
13115417 TGTTTATTCTAAAATTTTT-T
1 AATTT-TT-TAAAATTTTTAT
* *
13115437 -ATTATTTTAGAATTTTTAG
1 AATT-TTTTAAAATTTTTAT
* * *
13115456 AATTTTTGAAAAATTATTAG
1 AATTTTT-TAAAATTTTTAT
* * *
13115476 AATTTTTAAAAAAATTTCA-
1 AATTTTT-TAAAATTTTTAT
* * *
13115495 AATGTTTTTTAGATTTTTTTT
1 AA--TTTTTTAAAATTTTTAT
* *
13115516 AA-TTTTTATAATTTTTAA
1 AATTTTTTAAAATTTTTAT
* * *
13115534 AAATTTTT-GAATGTTTTTT
1 AATTTTTTAAAAT-TTTTAT
*
13115553 CGAA-TTTTTAAATGTTTTTAT
1 --AATTTTTTAAA-ATTTTTAT
** * * *
13115574 TTTTTTTTCAAATTTCCTAA
1 AATTTTTTAAAATTT-TTAT
* *** *
13115594 AATTTGTTTTACCGTTTTAG
1 AATTT-TTTAAAATTTTTAT
*
13115614 AA--TTTTAAACATTTTTTAG
1 AATTTTTTAAA-A-TTTTTAT
* *
13115633 AATTTTTTAGAATTTCTTAA
1 AATTTTTTAAAATTT-TTAT
* *
13115653 AATTTTTTATAATTTTTCAG
1 AATTTTTTAAAATTTTT-AT
* *
13115673 ATTTTTTTTAAATTTTTA-
1 AATTTTTTAAAATTTTTAT
*
13115691 AATATTTTT-GAATTTTTCAT
1 AAT-TTTTTAAAATTTTT-AT
* **
13115711 AA-TTTTTATAATTTTTGG
1 AATTTTTTAAAATTTTTAT
* * *
13115729 AATTTTGTAAGATTTTTTAA
1 AATTTTTTAA-AATTTTTAT
*
13115749 AATTTTTTCCAAAATTTTTTT
1 AATTTTTT--AAAATTTTTAT
13115770 AAT
1 AAT
13115773 GATAACATGG
Statistics
Matches: 342, Mismatches: 84, Indels: 84
0.67 0.16 0.16
Matches are distributed among these distances:
16 3 0.01
17 11 0.03
18 65 0.19
19 71 0.21
20 140 0.41
21 49 0.14
22 3 0.01
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (19 bp):
AATTTTTTAAAATTTTTAT
Found at i:13115376 original size:28 final size:27
Alignment explanation
Indices: 13115328--13115386 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
13115318 TTTTCTAATT
*
13115328 TTTTTAAATTTTTATATATTTTTTAAAA
1 TTTTTAAATTTTTAGATATTTTTT-AAA
13115356 TTTTTAAAGTTTTTAGA-ATTTTTTAAA
1 TTTTTAAA-TTTTTAGATATTTTTTAAA
13115383 TTTT
1 TTTT
13115387 CACAGAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 7 0.24
28 15 0.52
29 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTAAATTTTTAGATATTTTTTAAA
Found at i:13115453 original size:9 final size:9
Alignment explanation
Indices: 13115441--13115483 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
13115431 TTTTTTATTA
13115441 TTTTAGAAT
1 TTTTAGAAT
13115450 TTTTAGAAT
1 TTTTAGAAT
*
13115459 TTTTGAAAAAT
1 TTTT--AGAAT
*
13115470 TATTAGAAT
1 TTTTAGAAT
13115479 TTTTA
1 TTTTA
13115484 AAAAAATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 21 0.75
11 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:13115637 original size:10 final size:10
Alignment explanation
Indices: 13115624--13115756 Score: 91
Period size: 10 Copynumber: 13.7 Consensus size: 10
13115614 AATTTTAAAC
13115624 ATTTTTTAGA
1 ATTTTTTAGA
13115634 ATTTTTTAGA
1 ATTTTTTAGA
* *
13115644 ATTTCTTAAA
1 ATTTTTTAGA
*
13115654 ATTTTTTATA
1 ATTTTTTAGA
*
13115664 ATTTTTCAGA
1 ATTTTTTAGA
*
13115674 TTTTTTTTA-A
1 -ATTTTTTAGA
13115684 A-TTTTTA-A
1 ATTTTTTAGA
13115692 ATATTTTT-GA
1 AT-TTTTTAGA
* *
13115702 ATTTTTCATA
1 ATTTTTTAGA
*
13115712 A-TTTTTATA
1 ATTTTTTAGA
*
13115721 A-TTTTTGGA
1 ATTTTTTAGA
*
13115730 ATTTTGTA-A
1 ATTTTTTAGA
*
13115739 GATTTTTTAAA
1 -ATTTTTTAGA
13115750 ATTTTTT
1 ATTTTTT
13115757 CCAAAATTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
8 8 0.08
9 20 0.20
10 63 0.64
11 7 0.07
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:13116954 original size:24 final size:23
Alignment explanation
Indices: 13116905--13116958 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
13116895 AATCAAATCA
13116905 TATTAAATTATTTTTTTATGTATT
1 TATT-AATTATTTTTTTATGTATT
13116929 TAATTAATTATTTGATTTTAT-T-TT
1 T-ATTAATTATTT--TTTTATGTATT
13116953 TATTAA
1 TATTAA
13116959 CTTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 5 0.19
24 12 0.44
25 4 0.15
26 6 0.22
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTAATTATTTTTTTATGTATT
Found at i:13122041 original size:15 final size:15
Alignment explanation
Indices: 13122023--13122066 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13122013 AAAAAACTTT
*
13122023 TTTTCCATTCTTTTC
1 TTTTCCTTTCTTTTC
*
13122038 TTTTCCTTTCCTTTC
1 TTTTCCTTTCTTTTC
**
13122053 ACTTCCTTTCTTTT
1 TTTTCCTTTCTTTT
13122067 ATTAATATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTCCTTTCTTTTC
Found at i:13122966 original size:110 final size:108
Alignment explanation
Indices: 13122770--13122976 Score: 269
Period size: 110 Copynumber: 1.9 Consensus size: 108
13122760 TTAATAGACA
* *
13122770 CATGGCATCAAATTAGGCAATAATATGTCAAAAAACAAAAACCATCCACATTGAATTTTTTTTTG
1 CATGACATCAAATTAGGCAATAATATGTCAAAAAACAAAAACCATCCACATTGAATTTTTTTTTA
13122835 TCAAAAGTTTTAACTTTTATATATTTATATAAGTTTTAAGATT
66 TCAAAAGTTTTAACTTTTATATATTTATATAAGTTTTAAGATT
* ** *
13122878 CATGACATCAAATTAGGCAAT-TTATGT-GTAAAA-AAAAACCATTCACATTGAATTTTTTCCTT
1 CATGACATCAAATTAGGCAATAATATGTCAAAAAACAAAAACCATCCACATTGAA--TTTT--TT
*
13122940 TTTAATCAAAAGTTTTTA-TCTTTATATATTTATATAA
62 TTT-ATCAAAAGTTTTAACT-TTTATATATTTATATAA
13122977 AGACCCTTCT
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
105 18 0.21
106 4 0.05
107 9 0.10
108 20 0.23
109 6 0.07
110 29 0.34
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (108 bp):
CATGACATCAAATTAGGCAATAATATGTCAAAAAACAAAAACCATCCACATTGAATTTTTTTTTA
TCAAAAGTTTTAACTTTTATATATTTATATAAGTTTTAAGATT
Found at i:13124671 original size:14 final size:13
Alignment explanation
Indices: 13124653--13124687 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13124643 AAAATTTAGC
13124653 TAAAAAATAAATT
1 TAAAAAATAAATT
*
13124666 TAAAAAATATATT
1 TAAAAAATAAATT
13124679 TAAAAAATA
1 TAAAAAATA
13124688 CGGAAAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAAATAAATT
Found at i:13125147 original size:20 final size:20
Alignment explanation
Indices: 13125119--13125171 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
13125109 ACGATTCCAA
*
13125119 AAAAATTTTTAAAAAATTTC
1 AAAATTTTTTAAAAAATTTC
13125139 AAAATTTTTT-AAAAATTTC
1 AAAATTTTTTAAAAAATTTC
13125158 AAAATTTTTTAAAA
1 AAAATTTTTTAAAA
13125172 TGATTCCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTTTTTAAAAAATTTC
Found at i:13125647 original size:40 final size:41
Alignment explanation
Indices: 13125565--13125648 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
13125555 AGATCATAAA
*
13125565 CTGGCAAGTTTGAATCCGGTTCAAAATATGCACAAAGCCAT
1 CTGGCAAGTTTGAATCCGGTGCAAAATATGCACAAAGCCAT
* ** *
13125606 CTGGCATGTTTGAATTTGGTGCAAAA-ATGCACAAAGTCAT
1 CTGGCAAGTTTGAATCCGGTGCAAAATATGCACAAAGCCAT
13125646 CTG
1 CTG
13125649 ATAAGCCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 16 0.42
41 22 0.58
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (41 bp):
CTGGCAAGTTTGAATCCGGTGCAAAATATGCACAAAGCCAT
Found at i:13137872 original size:11 final size:11
Alignment explanation
Indices: 13137859--13137902 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
13137849 ACACAATAAT
*
13137859 ATAATATAAAT
1 ATAATATAAAA
13137870 ATAATATGAAAA
1 ATAATAT-AAAA
13137882 ATAAATATAAAA
1 AT-AATATAAAA
13137894 ATAATATAA
1 ATAATATAA
13137903 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 14 0.47
12 11 0.37
13 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:13141489 original size:23 final size:22
Alignment explanation
Indices: 13141463--13141541 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 22
13141453 GTTGACCAGG
*
13141463 TTTTTAATTTTAATTTAATTTGT
1 TTTTTAATTTTAATTT-ATTTAT
*
13141486 TTTTTATTTTTAATGGCTT-TTTAT
1 TTTTTAATTTTAAT---TTATTTAT
*
13141510 TTTTTAATTTTTATTTATTCTAT
1 TTTTTAATTTTAATTTATT-TAT
13141533 TTTTTAATT
1 TTTTTAATT
13141542 ATTTTGTTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 2 0.04
23 25 0.53
24 16 0.34
26 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTAATTTTAATTTATTTAT
Found at i:13141499 original size:18 final size:18
Alignment explanation
Indices: 13141476--13141528 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
13141466 TTAATTTTAA
13141476 TTTAATTTGTTTTTTATT
1 TTTAATTTGTTTTTTATT
* *
13141494 TTTAA-TGGCTTTTTATTT
1 TTTAATTTGTTTTTTA-TT
*
13141512 TTTAATTT-TTATTTATT
1 TTTAATTTGTTTTTTATT
13141529 CTATTTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 10 0.36
18 17 0.61
19 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTAATTTGTTTTTTATT
Found at i:13141538 original size:16 final size:15
Alignment explanation
Indices: 13141503--13141545 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
13141493 TTTTAATGGC
13141503 TTTTTATTT-TTTAA
1 TTTTTATTTATTTAA
*
13141517 TTTTTATTTATTCTAT
1 TTTTTATTTATT-TAA
*
13141533 TTTTTAATTATTT
1 TTTTTATTTATTT
13141546 TGTTAGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 13 0.52
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTATTTAA
Found at i:13141555 original size:24 final size:23
Alignment explanation
Indices: 13141507--13141555 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
13141497 AATGGCTTTT
*
13141507 TATTTTTTAATTTTTATTTATTC
1 TATTTTTTAATTTTTATTTAGTC
13141530 TATTTTTTAATTATTT-TGTTAGTC
1 TATTTTTTAATT-TTTAT-TTAGTC
13141554 TA
1 TA
13141556 GAATATAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (23 bp):
TATTTTTTAATTTTTATTTAGTC
Found at i:13145066 original size:24 final size:24
Alignment explanation
Indices: 13145038--13145097 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
13145028 TATATTTATT
*
13145038 TATTTTTAATTATAAATATATTAAA
1 TATTTTTAATTATAAATATA-GAAA
* *
13145063 -ATTTATTAAAATATTAATATAGAAA
1 TATTT-TT-AATTATAAATATAGAAA
13145088 TATTTTTAAT
1 TATTTTTAAT
13145098 CTCGTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
24 6 0.21
25 7 0.25
26 15 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTTTTAATTATAAATATAGAAA
Found at i:13146769 original size:4 final size:4
Alignment explanation
Indices: 13146760--13146825 Score: 60
Period size: 4 Copynumber: 16.5 Consensus size: 4
13146750 ATGTTGAAAT
* * * * * *
13146760 TATA TATA TATA TATA TATG TATG TATG TATG TATA TTTG TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
13146808 TGTA TGTA TATA TATA TA
1 TATA TATA TATA TATA TA
13146826 GTTTCAATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (4 bp):
TATA
Found at i:13149178 original size:11 final size:10
Alignment explanation
Indices: 13149157--13149216 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
13149147 CCGCTCCAGG
13149157 TTTTTT-TTT
1 TTTTTTATTT
*
13149166 TTTTTAATTT
1 TTTTTTATTT
13149176 TTTTTTATTT
1 TTTTTTATTT
**
13149186 TCATTTATTT
1 TTTTTTATTT
*
13149196 GTTTATTT-GTT
1 -TTT-TTTATTT
13149207 TTTTTTATTT
1 TTTTTTATTT
13149217 ATTAGATTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
9 8 0.21
10 25 0.64
11 3 0.08
12 3 0.08
ACGTcount: A:0.12, C:0.02, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:13149178 original size:16 final size:16
Alignment explanation
Indices: 13149157--13149203 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
13149147 CCGCTCCAGG
*
13149157 TTTTTTTTTTTTTTAA
1 TTTTTTTTTATTTTAA
*
13149173 TTTTTTTTTATTTTCA
1 TTTTTTTTTATTTTAA
13149189 TTTATTTGTTTATTT
1 TTT-TTT-TTTATTT
13149204 GTTTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 3 0.11
18 7 0.26
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTATTTTAA
Found at i:13149268 original size:23 final size:22
Alignment explanation
Indices: 13149157--13149311 Score: 72
Period size: 22 Copynumber: 7.1 Consensus size: 22
13149147 CCGCTCCAGG
* *
13149157 TTTTT-TTTTTTTTTAATTTT-
1 TTTTTATTTTTATTTATTTTTA
*
13149177 TTTTTATTTTCATTTATTTGTT-
1 TTTTTATTTTTATTTATTT-TTA
* *
13149199 TATTTGTTTTT-TTTATTTATTA
1 TTTTTATTTTTATTTATTT-TTA
** ** * * *
13149221 -GATTAGGTTTATTTAATATTC
1 TTTTTATTTTTATTTATTTTTA
*
13149242 TTTTTATCTTTATTTTATTTTTA
1 TTTTTATTTTTA-TTTATTTTTA
*
13149265 TTTTT-TGTTTTACTTT-TCTTTA
1 TTTTTAT-TTTTA-TTTATTTTTA
*
13149287 TTTTTTATTTTTATTTATTATTA
1 -TTTTTATTTTTATTTATTTTTA
13149310 TT
1 TT
13149312 CTATTTTCTT
Statistics
Matches: 98, Mismatches: 27, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
20 5 0.05
21 26 0.27
22 33 0.34
23 33 0.34
24 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTTATTTATTTTTA
Found at i:13149320 original size:7 final size:6
Alignment explanation
Indices: 13149242--13149318 Score: 61
Period size: 6 Copynumber: 12.7 Consensus size: 6
13149232 TTTAATATTC
* * * *
13149242 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- TGTTTTA CTTTTC TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
13149288 TTTTTA TTTTTA TTTATTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-TTA TT-TT-TA TTTT
13149319 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
5 9 0.16
6 35 0.61
7 8 0.14
8 5 0.09
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13149405 original size:58 final size:58
Alignment explanation
Indices: 13149342--13149621 Score: 366
Period size: 58 Copynumber: 4.7 Consensus size: 58
13149332 TCAAAATCTC
*
13149342 CAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTT
1 CAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
*** * * *
13149400 CAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTCTTGGAAATCAAAGTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAGAAAT-AAATTTT
*
13149460 CAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 C--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* * *
13149520 CAAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCTA-AGAATAAATTTC
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTT
* *
13149579 CAAAAAAATATTTTCGAAGAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
13149622 CTACACAAGA
Statistics
Matches: 197, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
58 72 0.37
59 67 0.34
60 14 0.07
61 11 0.06
62 33 0.17
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
Found at i:13149667 original size:6 final size:6
Alignment explanation
Indices: 13149656--13149684 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13149646 CTTACTTTCT
13149656 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
13149685 TCTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:13154809 original size:41 final size:41
Alignment explanation
Indices: 13154755--13154962 Score: 326
Period size: 41 Copynumber: 5.0 Consensus size: 41
13154745 ATGATCGTCA
* *
13154755 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
13154796 AGGAGAAACTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
13154837 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
13154879 AGGAGCAATTTACTTTTCAAAGTGGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
13154920 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCCGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
13154961 AG
1 AG
13154963 AAGCTTTGGT
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 115 0.74
42 40 0.26
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13154870 original size:83 final size:82
Alignment explanation
Indices: 13154755--13154945 Score: 319
Period size: 83 Copynumber: 2.3 Consensus size: 82
13154745 ATGATCGTCA
*
13154755 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGAAACTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGAAACTTACTTTCCAAAGTC
13154820 GTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAG
* * * *
13154837 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGAAACTTACTTTCCAAAGT
*
13154902 GGTGGTGCCTCTGTTTAG
65 CGTGGTGCCTCTGTTTAG
13154920 AGGAGCAATTTACTTTTCAAAGTCGT
1 AGGAGCAATTTACTTTTCAAAGTCGT
13154946 TGAGCCTCCG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 26 0.25
83 76 0.75
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGAAACTTACTTTCCAAAGTC
GTGGTGCCTCTGTTTAG
Found at i:13154986 original size:8 final size:8
Alignment explanation
Indices: 13154973--13155021 Score: 62
Period size: 9 Copynumber: 5.8 Consensus size: 8
13154963 AAGCTTTGGT
13154973 AAAAAACA
1 AAAAAACA
13154981 AAAAAACA
1 AAAAAACA
*
13154989 AAAAAATAA
1 AAAAAA-CA
13154998 AAAAATACA
1 AAAAA-ACA
13155007 AAAAAACA
1 AAAAAACA
13155015 TAAAAAA
1 -AAAAAA
13155022 ATACAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 17 0.47
9 18 0.50
10 1 0.03
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAAAACA
Found at i:13155017 original size:20 final size:19
Alignment explanation
Indices: 13154980--13155045 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 19
13154970 GGTAAAAAAC
13154980 AAAAAA-AC-AAAAAAATA
1 AAAAAATACAAAAAAAATA
13154997 AAAAAATACAAAAAAACATA
1 AAAAAATACAAAAAAA-ATA
13155017 AAAAAATAC--AAAAAATA
1 AAAAAATACAAAAAAAATA
13155034 AAAAAATGACAA
1 AAAAAAT-ACAA
13155046 TGTTGAGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
17 16 0.37
18 9 0.21
19 6 0.14
20 12 0.28
ACGTcount: A:0.82, C:0.08, G:0.02, T:0.09
Consensus pattern (19 bp):
AAAAAATACAAAAAAAATA
Found at i:13155029 original size:8 final size:8
Alignment explanation
Indices: 13154973--13155040 Score: 73
Period size: 8 Copynumber: 7.9 Consensus size: 8
13154963 AAGCTTTGGT
*
13154973 AAAAAACA
1 AAAAAATA
*
13154981 AAAAAACA
1 AAAAAATA
13154989 AAAAAATA
1 AAAAAATA
13154997 AAAAAATACAA
1 AAAAAAT---A
13155008 AAAAACATA
1 AAAAA-ATA
13155017 AAAAAATA
1 AAAAAATA
13155025 CAAAAAATA
1 -AAAAAATA
13155034 AAAAAAT
1 AAAAAAT
13155041 GACAATGTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
8 32 0.59
9 14 0.26
11 6 0.11
12 2 0.04
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.09
Consensus pattern (8 bp):
AAAAAATA
Found at i:13155287 original size:3 final size:3
Alignment explanation
Indices: 13155279--13155309 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13155269 AGTTATATAT
13155279 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13155310 TGTAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13155288 original size:14 final size:13
Alignment explanation
Indices: 13155271--13155306 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
13155261 ATGTATATAG
13155271 TTATATATTTATTA
1 TTAT-TATTTATTA
13155285 TTATTATATTATTA
1 TTATTAT-TTATTA
13155299 TTATTATT
1 TTATTATT
13155307 ATTTGTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:13156238 original size:16 final size:15
Alignment explanation
Indices: 13156217--13156372 Score: 65
Period size: 16 Copynumber: 10.1 Consensus size: 15
13156207 TTTATTTTCA
13156217 TTTATTTGTTTATTT
1 TTTATTTGTTTATTT
13156232 GTTTATTTG-TT-TTT
1 -TTTATTTGTTTATTT
13156246 TTTATTT-TTTATTT
1 TTTATTTGTTTATTT
* *
13156260 ATTAGATTAGGTTTATTT
1 -TT-TATT-TGTTTATTT
** *
13156278 AATATTCTTTTTATCTT
1 TTTATT-TGTTTAT-TT
*
13156295 TATT-TTATTTTTATTT
1 T-TTATT-TGTTTATTT
*
13156311 TTTATTT-TACTTTTTT
1 TTTATTTGT--TTATTT
13156327 TTTATTT-TTTATTT
1 TTTATTTGTTTATTT
* *
13156341 TTATTTTTATTTATTT
1 TT-TATTTGTTTATTT
*
13156357 ATTATTAT-TTTATTT
1 TTTATT-TGTTTATTT
13156372 T
1 T
13156373 CTTTAAATAA
Statistics
Matches: 109, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
13 9 0.08
14 14 0.13
15 21 0.19
16 46 0.42
17 11 0.10
18 8 0.07
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (15 bp):
TTTATTTGTTTATTT
Found at i:13156306 original size:6 final size:6
Alignment explanation
Indices: 13156285--13156372 Score: 85
Period size: 6 Copynumber: 14.7 Consensus size: 6
13156275 TTTAATATTC
* *
13156285 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- TATTTTA CTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
*
13156331 TTTTTTA TTTTTA TTTTTA TTTATTTA TTATTA -TTTTA TTTT
1 -TTTTTA TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA TTTT
13156373 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 13 0.19
6 41 0.60
7 10 0.15
8 4 0.06
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:13156338 original size:30 final size:31
Alignment explanation
Indices: 13156297--13156372 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
13156287 TTTATCTTTA
13156297 TTTTA-TTTTTATTTTTTA-TTTTACTTT-TT
1 TTTTATTTTTTATTTTTTATTTTTA-TTTATT
13156326 TTTTATTTTTTA-TTTTTATTTTTATTTATT
1 TTTTATTTTTTATTTTTTATTTTTATTTATT
*
13156356 TATTATTATTTTATTTT
1 TTTTATT-TTTTATTTT
13156373 CTTTAAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 14 0.34
30 19 0.46
31 5 0.12
32 3 0.07
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.82
Consensus pattern (31 bp):
TTTTATTTTTTATTTTTTATTTTTATTTATT
Found at i:13156353 original size:23 final size:23
Alignment explanation
Indices: 13156285--13156372 Score: 106
Period size: 23 Copynumber: 3.7 Consensus size: 23
13156275 TTTAATATTC
*
13156285 TTTTTATCTTTATTTTATTTTTAT
1 TTTTTATTTTTATTTT-TTTTTAT
13156309 TTTTTA-TTTTACTTTTTTTTTAT
1 TTTTTATTTTTA-TTTTTTTTTAT
*
13156332 TTTTTATTTTTATTTTTATTTAT
1 TTTTTATTTTTATTTTTTTTTAT
*
13156355 TTATTATTATTTTATTTT
1 TTTTTA-T-TTTTATTTT
13156373 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
23 32 0.56
24 16 0.28
25 9 0.16
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTTTTTAT
Found at i:13156467 original size:58 final size:58
Alignment explanation
Indices: 13156396--13156731 Score: 428
Period size: 59 Copynumber: 5.7 Consensus size: 58
13156386 TCAAAATCTC
*
13156396 CAAAAAA-ATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 CAAAAAAGA-ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * ** *
13156454 CAAAAAGGAATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGGAAATCAAAGTTT
1 CAAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTT
* * * *
13156513 CAAAAAAAAATATTTTTGAGGAAAAGTTGAAAATGTCAATTTTCCTAAAAAATAAATTTT
1 C-AAAAAAGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*
13156573 CAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 C-AAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * *
13156632 CAAAAAAGAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTC
1 CAAAAAAGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*
13156691 CAAAAAA-ATATTTTCG-GAGAAAAGTTGAAAGTATCAATTTT
1 CAAAAAAGA-ATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
13156732 TCCTACACAA
Statistics
Matches: 246, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
57 1 0.00
58 80 0.33
59 109 0.44
60 20 0.08
61 36 0.15
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.34
Consensus pattern (58 bp):
CAAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:13156536 original size:119 final size:116
Alignment explanation
Indices: 13156397--13156731 Score: 437
Period size: 119 Copynumber: 2.8 Consensus size: 116
13156387 CAAAATCTCC
13156397 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAG
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTTCAAAAAG
* **
13156461 GAATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGGAAATCAAAGTTTCAA
64 GAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTC-A
* * *
13156516 AAAAAAATATTTTTGAGGAAAAGTTGAAAATGTCAATTTTCCTAAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAATTTTC--AAAAA
*
13156581 GG-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
63 GGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCA
* * * *
13156634 AAAAAGAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAA--
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTCAAAAAGG
13156697 AATATTTTCG-GAGAAAAGTTGAAAGTATCAATTTT
65 AAT-TTTT-GAG-GAAAAGTTGAAAGTATCAATTTT
13156732 TCCTACACAA
Statistics
Matches: 193, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
115 2 0.01
116 10 0.05
117 26 0.13
118 49 0.25
119 58 0.30
120 41 0.21
121 7 0.04
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.34
Consensus pattern (116 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTCAAAAAGGA
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCA
Found at i:13156779 original size:6 final size:6
Alignment explanation
Indices: 13156768--13156796 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13156758 CTTACTTTCT
13156768 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
13156797 TTTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:13163163 original size:19 final size:19
Alignment explanation
Indices: 13163118--13163163 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13163108 TACTATTAAG
*
13163118 TATTTTTATATTAATATAA
1 TATTTTAATATTAATATAA
*
13163137 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAATATAA
13163155 TATTATTAA
1 TATT-TTAA
13163164 AAAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTAATATTAATATAA
Found at i:13163404 original size:15 final size:14
Alignment explanation
Indices: 13163363--13163398 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13163353 AAAATATAAA
13163363 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
13163377 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
*
13163391 TGTTTTTT
1 TATTTTTT
13163399 GCAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TATTTTTTAAAAAT
Found at i:13164833 original size:7 final size:7
Alignment explanation
Indices: 13164821--13164942 Score: 63
Period size: 7 Copynumber: 17.0 Consensus size: 7
13164811 GATGAGCTCA
13164821 TTTTATT
1 TTTTATT
13164828 TTTTATT
1 TTTTATT
*
13164835 TTGTATT
1 TTTTATT
*
13164842 TTATA-T
1 TTTTATT
13164848 TTTTATT
1 TTTTATT
13164855 TTATTA-T
1 TT-TTATT
*
13164862 TATTA-T
1 TTTTATT
*
13164868 TATTATT
1 TTTTATT
13164875 TTTTATT
1 TTTTATT
*
13164882 TCTTATAT
1 TTTTAT-T
* *
13164890 ATATATT
1 TTTTATT
13164897 TCTTT-TAT
1 T-TTTAT-T
*
13164905 GTTTATT
1 TTTTATT
13164912 TTATGTATT
1 TT-T-TATT
*
13164921 TATTATT
1 TTTTATT
13164928 TATTTATT
1 T-TTTATT
*
13164936 TATTATT
1 TTTTATT
13164943 ACTATTTATT
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
6 14 0.16
7 51 0.57
8 19 0.21
9 5 0.06
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTATT
Found at i:13164843 original size:14 final size:13
Alignment explanation
Indices: 13164821--13164942 Score: 75
Period size: 15 Copynumber: 8.5 Consensus size: 13
13164811 GATGAGCTCA
13164821 TTTTATTTTTTAT
1 TTTTATTTTTTAT
*
13164834 TTTGTATTTTATAT
1 TTT-TATTTTTTAT
13164848 TTTTATTTTATTAT
1 TTTTATTTT-TTAT
* *
13164862 TATTA-TTATTATT
1 TTTTATTTTTTA-T
13164875 TTTTATTTCTTATAT
1 TTTTATTT-TT-TAT
* *
13164890 ATATATTTCTTTTAT
1 TTTTA-TT-TTTTAT
*
13164905 GTTTATTTTATGTAT
1 TTTTATTTT-T-TAT
13164920 TTATTATTTATTTAT
1 TT-TTATTT-TTTAT
13164935 TTATTATT
1 TT-TTATT
13164943 ACTATTTATT
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
12 3 0.03
13 18 0.21
14 24 0.28
15 26 0.30
16 13 0.15
17 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:13164873 original size:28 final size:27
Alignment explanation
Indices: 13164821--13164993 Score: 112
Period size: 28 Copynumber: 6.3 Consensus size: 27
13164811 GATGAGCTCA
*
13164821 TTTTATTTT-TTATTTTGTATT-TTATAT
1 TTTTATTTTATTATTAT-TATTATTAT-T
13164848 TTTTATTTTATTATTATTATTATTATT
1 TTTTATTTTATTATTATTATTATTATT
* *
13164875 TTTTA-TTTCTTA-TA-TATATATT-TC
1 TTTTATTTTATTATTATTAT-TATTATT
13164899 TTTTATGTTTATT-TTATGTATTTATTATT
1 TTTTAT-TTTATTATTAT-TA-TTATTATT
*
13164928 TATTTA-TTTATTATTACTATTTATTAATAT
1 T-TTTATTTTATTATTATTA-TTATT-AT-T
* * *
13164958 ATATATCTTTATTATTATTACTATT-TT
1 TTTTAT-TTTATTATTATTATTATTATT
*
13164985 TTTTCTTTT
1 TTTTATTTT
13164994 CTTTTTCTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
24 9 0.08
25 6 0.05
26 16 0.14
27 23 0.20
28 31 0.26
29 11 0.09
30 9 0.08
31 12 0.10
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTATTTTATTATTATTATTATTATT
Found at i:13164887 original size:20 final size:19
Alignment explanation
Indices: 13164830--13164986 Score: 73
Period size: 20 Copynumber: 7.5 Consensus size: 19
13164820 ATTTTATTTT
* *
13164830 TTATTTTGTATTTTATATTT
1 TTATTTTTTATTTT-TATTA
*
13164850 TTATTTTATTATTATTATTA
1 TTATTTT-TTATTTTTATTA
13164870 TTATTTTTTATTTCTTATATA
1 TTATTTTTTATTT-TTAT-TA
*
13164891 TATATTTCTTTTATGTTTATT-
1 T-TA-TT-TTTTATTTTTATTA
*
13164912 TTATGTATTTATTATTTATTTA
1 TTAT-TTTTTATT-TTTA-TTA
* *
13164934 TTTATTATTACTATTTATTAATA
1 -TTATT-TT-TTATTT-TTATTA
* *
13164957 TATATATCTTTATTATTATTA
1 T-TAT-TTTTTATTTTTATTA
*
13164978 CTATTTTTT
1 TTATTTTTT
13164987 TTCTTTTCTT
Statistics
Matches: 105, Mismatches: 16, Indels: 33
0.68 0.10 0.21
Matches are distributed among these distances:
19 15 0.14
20 32 0.30
21 16 0.15
22 9 0.09
23 18 0.17
24 15 0.14
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTATTTTTTATTTTTATTA
Found at i:13164902 original size:26 final size:23
Alignment explanation
Indices: 13164826--13164911 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
13164816 GCTCATTTTA
*
13164826 TTTTTTATTTTGTATTTTATATTT
1 TTTTTTATTTT-TATTATATATTT
* *
13164850 TTATTTTATTATTATTAT-TATTA
1 TT-TTTTATTTTTATTATATATTT
13164873 TTTTTTATTTCTTA-TATATATATT
1 TTTTTTATTT-TTATTATATAT-TT
* *
13164897 TCTTTTATGTTTATT
1 TTTTTTATTTTTATT
13164912 TTATGTATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
22 10 0.20
23 15 0.30
24 17 0.34
25 8 0.16
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTATTTTTATTATATATTT
Found at i:13164903 original size:46 final size:46
Alignment explanation
Indices: 13164823--13164928 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
13164813 TGAGCTCATT
* *
13164823 TTATTTTTTATTTTGTATTTTATATTTTTATTTTAT-TATTATTATTA
1 TTATTTTTTATTTTGTATTATATATATTTATTTTATGT-TTATT-TTA
*
13164870 TTATTTTTTATTTCT-TA-TATATATATTTCTTTTATGTTTATTTTA
1 TTATTTTTTATTT-TGTATTATATATATTTATTTTATGTTTATTTTA
*
13164915 TGTATTTATTATTT
1 T-TATTTTTTATTT
13164929 ATTTATTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
45 4 0.08
46 31 0.60
47 16 0.31
48 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (46 bp):
TTATTTTTTATTTTGTATTATATATATTTATTTTATGTTTATTTTA
Found at i:13165032 original size:12 final size:12
Alignment explanation
Indices: 13165015--13165067 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
13165005 TTTTTTGTTA
*
13165015 ATATTTATATAT
1 ATATTTATCTAT
13165027 ATATTTATCTGAT
1 ATATTTATCT-AT
13165040 -TATTTAT-TAT
1 ATATTTATCTAT
13165050 A-ATTTATCTAT
1 ATATTTATCTAT
13165061 -TATTTAT
1 ATATTTAT
13165068 TTTTAGTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 8 0.22
11 10 0.28
12 16 0.44
13 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
ATATTTATCTAT
Found at i:13165978 original size:27 final size:23
Alignment explanation
Indices: 13165950--13166066 Score: 76
Period size: 24 Copynumber: 4.8 Consensus size: 23
13165940 TTTTTTTCAT
13165950 TTTTTTATATATTTATATATTTATTA
1 TTTTTTAT-TA-TTAT-TATTTATTA
13165976 TTTTTTATTATTATTATTTATTTA
1 TTTTTTATTATTATTATTTA-TTA
* * *
13166000 TTGATTATATTA-TATTTGTTTAATA
1 TT--TTTTATTATTA-TTATTTATTA
* *
13166025 TTTTTTCTCTATTTTTATTTATT-
1 TTTTTTAT-TATTATTATTTATTA
* *
13166048 TTCCTTTATTTTTATTATT
1 TT-TTTTATTATTATTATT
13166067 ATTTTGTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
23 20 0.28
24 22 0.31
25 9 0.12
26 21 0.29
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTATTATTATTATTTATTA
Found at i:13165988 original size:13 final size:13
Alignment explanation
Indices: 13165970--13166012 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
13165960 ATTTATATAT
*
13165970 TTATTATTTTTTA
1 TTATTATTATTTA
13165983 TTATTATTATTTA
1 TTATTATTATTTA
13165996 TTTATTGATTATATTA
1 -TTATT-ATTAT-TTA
13166012 T
1 T
13166013 ATTTGTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 12 0.46
14 5 0.19
15 6 0.23
16 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:13166248 original size:61 final size:59
Alignment explanation
Indices: 13166081--13166433 Score: 437
Period size: 60 Copynumber: 5.9 Consensus size: 59
13166071 TGTTTTCTTT
* * *
13166081 AAATAAAATTT-AAAAAATATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAA-A-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
13166141 AATTAAAGTTTTC--AAAAAATATTTTTG-GAGAAAAATTGAGAGTATCAATTTTCCTTAA
1 AAATAAA-TTTTCAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAA
*
13166199 AAATAAATTTTCAAAAAAAAACTATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAA
1 AAATAAATTTTC-AAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
13166260 AAATAAATTTCCAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTTCAAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * **
13166320 AAATAAATTTTCAAAAAAAATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGA
1 AAATAAATTTTCAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
13166380 AATTAAAGTTTCAAAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
13166434 CTTGTACAAA
Statistics
Matches: 257, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.02
58 70 0.27
59 2 0.01
60 129 0.50
61 49 0.19
62 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (59 bp):
AAATAAATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:13173546 original size:21 final size:21
Alignment explanation
Indices: 13173521--13173570 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
13173511 CTAATGGATT
*
13173521 GATTGAACAAGAAAATAAGCC
1 GATTGAACAAAAAAATAAGCC
*
13173542 GATTGAACAAAAAAATAAGTC
1 GATTGAACAAAAAAATAAGCC
*
13173563 AATTGAAC
1 GATTGAAC
13173571 CTTATTAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.18
Consensus pattern (21 bp):
GATTGAACAAAAAAATAAGCC
Found at i:13175546 original size:11 final size:10
Alignment explanation
Indices: 13175490--13175550 Score: 88
Period size: 10 Copynumber: 6.1 Consensus size: 10
13175480 TGCTTGAAAT
*
13175490 AAAAAAATA-
1 AAAAAAAAAG
13175499 AAAAAAAAAG
1 AAAAAAAAAG
13175509 AAAAAAAAAG
1 AAAAAAAAAG
13175519 AAAAAAAAAG
1 AAAAAAAAAG
13175529 AAAAAAAAAG
1 AAAAAAAAAG
*
13175539 AATGAAAAAAG
1 AA-AAAAAAAG
13175550 A
1 A
13175551 GGACTCAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.17
10 32 0.67
11 8 0.17
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:13175548 original size:1 final size:1
Alignment explanation
Indices: 13175490--13175537 Score: 60
Period size: 1 Copynumber: 48.0 Consensus size: 1
13175480 TGCTTGAAAT
* * * *
13175490 AAAAAAATAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13175538 GAATGAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.92, C:0.00, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:13176638 original size:43 final size:43
Alignment explanation
Indices: 13176519--13176772 Score: 284
Period size: 42 Copynumber: 6.0 Consensus size: 43
13176509 CAAGGAGCAT
* *
13176519 TTTATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
1 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
* * * * *
13176562 --CATTTACTTTTCAAAAGTTGTTGAGCCTTTGATTAGAAGAGC
1 TTTATTTATTTTTCAAAA-TCGTTGAGCCTCTGATTAGAGGAGC
13176604 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
1 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
* * * *
13176647 TTTATTCA-TCTCCAAAATCGTTGAGCCTCTAATTAGAGGAGC
1 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
* * * * *
13176689 TTTATTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGT
1 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
* * *
13176732 TTTATTCA-TCTTCAAAGTCGTTGAGCCTCT-ACTTAGAGGAG
1 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGA-TTAGAGGAG
13176773 TTTTGATCAA
Statistics
Matches: 178, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
41 14 0.08
42 88 0.49
43 62 0.35
44 14 0.08
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (43 bp):
TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGC
Found at i:13176670 original size:85 final size:84
Alignment explanation
Indices: 13176519--13176768 Score: 317
Period size: 85 Copynumber: 2.9 Consensus size: 84
13176509 CAAGGAGCAT
* *
13176519 TTTATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTT--T-TCAAAAGTT
1 TTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-C-TTTA-TTCATCTCAAAA-TC
* *
13176581 GTTGAGCCTTTGATTAGAAGAGC
62 GTTGAGCCTCTAATTAGAAGAGC
*
13176604 TTTATTTATTTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGCTTTATTCATCTCCAAAATCGTT
1 TTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCATCT-CAAAATCGTT
*
13176669 GAGCCTCTAATTAGAGGAGC
65 GAGCCTCTAATTAGAAGAGC
* * * * *
13176689 TTTATTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGTTTTATTCATCTTCAAAGTCGTT
1 TTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCATC-TCAAAATCGTT
*
13176754 GAGCCTCTACTTAGA
65 GAGCCTCTAATTAGA
13176769 GGAGTTTTGA
Statistics
Matches: 147, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
82 2 0.01
83 4 0.03
84 2 0.01
85 133 0.90
86 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (84 bp):
TTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCATCTCAAAATCGTTG
AGCCTCTAATTAGAAGAGC
Found at i:13176960 original size:7 final size:7
Alignment explanation
Indices: 13176948--13177072 Score: 64
Period size: 7 Copynumber: 18.0 Consensus size: 7
13176938 GGTAAGCCCA
13176948 TTTTATT
1 TTTTATT
13176955 TTTTATT
1 TTTTATT
**
13176962 TTGCATT
1 TTTTATT
*
13176969 TTATA-T
1 TTTTATT
13176975 TTTTA--
1 TTTTATT
13176980 TTTTATT
1 TTTTATT
*
13176987 TTGTAATT
1 TT-TTATT
13176995 TTATTATT
1 TT-TTATT
13177003 TTTTATT
1 TTTTATT
*
13177010 TCTTA-T
1 TTTTATT
* *
13177016 ATATATT
1 TTTTATT
*
13177023 TTTT-TC
1 TTTTATT
13177029 TTTTA-T
1 TTTTATT
*
13177035 GTTTATT
1 TTTTATT
13177042 TTATGTATT
1 TT-T-TATT
*
13177051 TATTATT
1 TTTTATT
13177058 TATTTATT
1 T-TTTATT
*
13177066 TATTATT
1 TTTTATT
13177073 ACTATTTATT
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 5 0.06
6 17 0.19
7 41 0.47
8 20 0.23
9 5 0.06
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:13176970 original size:19 final size:20
Alignment explanation
Indices: 13176946--13176983 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13176936 TGGGTAAGCC
13176946 CATTTTAT-TTTTTATTTTG
1 CATTTTATATTTTTATTTTG
13176965 CATTTTATATTTTTATTTT
1 CATTTTATATTTTTATTTT
13176984 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
CATTTTATATTTTTATTTTG
Found at i:13176977 original size:21 final size:19
Alignment explanation
Indices: 13176951--13177045 Score: 58
Period size: 20 Copynumber: 5.1 Consensus size: 19
13176941 AAGCCCATTT
13176951 TATTTTTTATTTTGCATTTTA
1 TATTTTTTATTTT--ATTTTA
*
13176972 TA-TTTTTATTTTATTTTG
1 TATTTTTTATTTTATTTTA
* *
13176990 TA-ATTTTA--TTATTTTT
1 TATTTTTTATTTTATTTTA
* *
13177006 TATTTCTTATATATATTTT-
1 TATTTTTTAT-TTTATTTTA
13177025 T-TTCTTTTATGTTTATTTTA
1 TATT-TTTTAT-TTTATTTTA
13177045 T
1 T
13177046 GTATTTATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
16 9 0.15
17 4 0.07
18 14 0.24
19 13 0.22
20 17 0.29
21 2 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TATTTTTTATTTTATTTTA
Found at i:13176996 original size:18 final size:19
Alignment explanation
Indices: 13176946--13176999 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
13176936 TGGGTAAGCC
*
13176946 CATTTTAT-TTTTTATTTT
1 CATTTTATAATTTTATTTT
*
13176964 GCATTTTATATTTTTATTTT
1 -CATTTTATAATTTTATTTT
*
13176984 -ATTTTGTAATTTTATT
1 CATTTTATAATTTTATT
13177000 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 14 0.44
19 8 0.25
20 10 0.31
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (19 bp):
CATTTTATAATTTTATTTT
Found at i:13177023 original size:28 final size:27
Alignment explanation
Indices: 13176994--13177083 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
13176984 ATTTTGTAAT
*
13176994 TTTATTATTTTTTATTTCTTATATATA
1 TTTATTATTTTTTATTTATTATATATA
* *
13177021 TTT-TT-TTCTTTTATGTTTATTTTATGTA
1 TTTATTATT-TTTTA--TTTATTATATATA
13177049 TTTATTATTTATTTATTTATTAT-TACTA
1 TTTATTATTT-TTTATTTATTATATA-TA
13177077 TTTATTA
1 TTTATTA
13177084 ATATATATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
25 2 0.04
26 7 0.14
27 4 0.08
28 29 0.57
29 3 0.06
30 6 0.12
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTATTATTTTTTATTTATTATATATA
Found at i:13177040 original size:55 final size:55
Alignment explanation
Indices: 13176975--13177079 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 55
13176965 CATTTTATAT
*
13176975 TTTTATTTTA-TTT-TGTAATTTTATTATTT-TTTATTTCTTATATA-TATTTTTTTC
1 TTTTATTTTATTTTATGT-A-TTTATTATTTATTTATTTATTAT-TACTATTTTTTTC
13177029 TTTTATGTTTATTTTATGTATTTATTATTTATTTATTTATTATTACTATTT
1 TTTTAT-TTTATTTTATGTATTTATTATTTATTTATTTATTATTACTATTT
13177080 ATTAATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
54 6 0.13
55 16 0.36
56 20 0.44
57 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (55 bp):
TTTTATTTTATTTTATGTATTTATTATTTATTTATTTATTATTACTATTTTTTTC
Found at i:13177199 original size:21 final size:23
Alignment explanation
Indices: 13177147--13177199 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
13177137 TTTCTGTTAA
13177147 TATTTATATATATATTTATCTGAT
1 TATTTAT-TATATATTTATCTGAT
**
13177171 TACATATTATA-ATTTATCT-AT
1 TATTTATTATATATTTATCTGAT
13177192 TATTTATT
1 TATTTATT
13177200 TTTAGTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 8 0.32
23 4 0.16
24 5 0.20
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTATTATATATTTATCTGAT
Found at i:13178186 original size:20 final size:20
Alignment explanation
Indices: 13178160--13178200 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13178150 ATTTGTTTAA
13178160 ATTT-TTTT-CTCTATTTTT
1 ATTTATTTTCCTCTATTTTT
*
13178178 ATTTATTTTCCTTTATTTTT
1 ATTTATTTTCCTCTATTTTT
13178198 ATT
1 ATT
13178201 CTTATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTATTTTCCTCTATTTTT
Found at i:13178198 original size:6 final size:6
Alignment explanation
Indices: 13178171--13178231 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
13178161 TTTTTTTCTC
* * *
13178171 TATTTT TATTTAT T-TTCCTT TATTTT TATTCT TATTTT CATTTT TATTAT
1 TATTTT TATTT-T TATT--TT TATTTT TATTTT TATTTT TATTTT TATTTT
13178221 TATTTT T-TTTT
1 TATTTT TATTTT
13178232 CTTTAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.09
6 34 0.76
7 4 0.09
8 3 0.07
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:13178215 original size:18 final size:18
Alignment explanation
Indices: 13178192--13178226 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13178182 ATTTTCCTTT
*
13178192 ATTTTTATTCTTATTTTC
1 ATTTTTATTATTATTTTC
13178210 ATTTTTATTATTATTTT
1 ATTTTTATTATTATTTT
13178227 TTTTTCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTATTATTATTTTC
Found at i:13178463 original size:60 final size:59
Alignment explanation
Indices: 13178236--13178647 Score: 395
Period size: 58 Copynumber: 6.9 Consensus size: 59
13178226 TTTTTTCTTT
* * * * * *
13178236 AAATAAAATTT-AAAAATATATATTTTTGAGAAAAAGTTGAAAGTATCAATTGTCCTTGA
1 AAATAAAGTTTCAAAAAAAT-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* ** * * * *
13178295 AAAT-AAGCTTCCTAAAAAGGTTTTTTTTTTTAGAAAAAGTTGAAAGTATCAAATTTCCTTGA
1 AAATAAAG-TTTC-AAAAA--AATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * * *
13178357 AATTAAAGTTTCCAAAAAA-TATTTTTG-GGAAAAAGTTGAAACTATCAATTTTTCTTAA
1 AAATAAAGTTTCAAAAAAATTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAA
* *
13178415 AAATAAATTTTCAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAA
1 AAATAAAGTTTCAAAAAA-ATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
13178475 AATTAAAGTTTCAAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAAGTTTCAAAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * * * **
13178533 AAATAAATTTTCAAAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTGCTCGA
1 AAATAAAGTTTCAAAAAAA-TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* **** *
13178593 AATTAAAGTTTCAAAAAAAAACATTTTG-GGAAAATGTTAAAAGTATCAATTTTCC
1 AAATAAAGTTTCAAAAAAATTTTTTTTGAGGAAAA-GTTGAAAGTATCAATTTTCC
13178648 CTTGTACAAA
Statistics
Matches: 293, Mismatches: 47, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
57 1 0.00
58 97 0.33
59 48 0.16
60 90 0.31
61 11 0.04
62 41 0.14
63 5 0.02
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (59 bp):
AAATAAAGTTTCAAAAAAATTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:13178493 original size:118 final size:118
Alignment explanation
Indices: 13178255--13178647 Score: 520
Period size: 118 Copynumber: 3.3 Consensus size: 118
13178245 TTAAAAATAT
* * * ** * * *
13178255 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTGTCCTTGAAAATAAGCTTCCTAAAAAGGTTTTT
1 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAG-ATTT
* * * *
13178320 TTTTTTAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAATTAAAGTTTCCAAAAA
64 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAA
* *
13178375 ATATTTTTGGGAAAAAGTTGAAACTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTT
1 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGATTTTT
* *
13178440 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCAAAAAA
66 TTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAA
* *
13178493 ATATTTTT-TGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-AGGTT
1 ATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA-TTT
*
13178556 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTGCTCGAAATTAAAGTTTCAAAAAA
64 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAA
* * * *
13178611 AAACATTTTGGGAAAATGTTAAAAGTATCAATTTTCC
1 ATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
13178648 CTTGTACAAA
Statistics
Matches: 241, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
117 3 0.01
118 160 0.66
119 32 0.13
120 46 0.19
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (118 bp):
ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGATTTTT
TTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAA
Found at i:13182095 original size:11 final size:11
Alignment explanation
Indices: 13182063--13182104 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13182053 ATAAGAGAAA
13182063 AAATTTT-ATT
1 AAATTTTAATT
*
13182073 AAAATTTAAATT
1 -AAATTTTAATT
*
13182085 AATTTTTAATT
1 AAATTTTAATT
13182096 AAATTTTAA
1 AAATTTTAA
13182105 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 23 0.88
12 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAATTTTAATT
Found at i:13182557 original size:2 final size:2
Alignment explanation
Indices: 13182544--13182576 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13182534 CGAAAAGAAA
*
13182544 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13182577 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13188281 original size:20 final size:19
Alignment explanation
Indices: 13188247--13188286 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
13188237 CCAACCCAAC
13188247 AAAAGAAAAAAAGGAAAGG
1 AAAAGAAAAAAAGGAAAGG
13188266 AAAAGAAAAGAAAGGAAAGG
1 AAAAGAAAA-AAAGGAAAGG
13188286 A
1 A
13188287 TGAATCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAGGAAAGG
Found at i:13192045 original size:62 final size:63
Alignment explanation
Indices: 13191945--13192073 Score: 188
Period size: 62 Copynumber: 2.1 Consensus size: 63
13191935 AAATTTTTAT
* * * * *
13191945 GTGATTAGTATTGTTTATGATTTCTTGCTTTATGGGTGGAAGCAGATGATGCCTGTTTGACCA
1 GTGATTAATATTGTTTATGATTTCTTGCTTGATAGGTGGAAGCAAATGATGCCTGTTTAACCA
* *
13192008 GTGATTAATATT-TTTATGGTTTCTTGCTTGATAGGTGGAAGCAAATGATGCTTGTTTAACCA
1 GTGATTAATATTGTTTATGATTTCTTGCTTGATAGGTGGAAGCAAATGATGCCTGTTTAACCA
13192070 GTGA
1 GTGA
13192074 GGCCACATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
62 48 0.81
63 11 0.19
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (63 bp):
GTGATTAATATTGTTTATGATTTCTTGCTTGATAGGTGGAAGCAAATGATGCCTGTTTAACCA
Found at i:13195168 original size:15 final size:16
Alignment explanation
Indices: 13195142--13195172 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13195132 TGGAAAAACA
13195142 TTTCACCTACAATTCT
1 TTTCACCTACAATTCT
13195158 TTTCA-CTACAATTCT
1 TTTCACCTACAATTCT
13195173 ACAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTCACCTACAATTCT
Found at i:13200798 original size:1 final size:1
Alignment explanation
Indices: 13200754--13200778 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13200744 TGCCAATCAG
13200754 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
13200779 ATGATTGGGT
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13202717 original size:10 final size:10
Alignment explanation
Indices: 13202704--13202739 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13202694 TTCTTTTTTT
13202704 AATTTTTTAA
1 AATTTTTTAA
* *
13202714 AATTTTCTAG
1 AATTTTTTAA
13202724 AATTTTTTAA
1 AATTTTTTAA
13202734 AATTTT
1 AATTTT
13202740 CCATCTATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:13202933 original size:5 final size:5
Alignment explanation
Indices: 13202923--13202975 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
13202913 AATAATATTT
13202923 AACAA AACAA AACAA AA-AA GAA-AA AA-AA AACAA AACAGA AA-AA AACAA
1 AACAA AACAA AACAA AACAA -AACAA AACAA AACAA AACA-A AACAA AACAA
13202971 AACAA
1 AACAA
13202976 GTAAACAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 11 0.25
5 30 0.68
6 3 0.07
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:13202953 original size:23 final size:22
Alignment explanation
Indices: 13202926--13202995 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 22
13202916 AATATTTAAC
13202926 AAAACAAAACAAAAAAGAAAAAA
1 AAAACAAAACAAAAAA-AAAAAA
*
13202949 AAAACAAAACAGAAAAAAACAAA
1 AAAACAAAACA-AAAAAAAAAAA
* ** *
13202972 ACAAGTAAACAAACAAAAAAAA
1 AAAACAAAACAAAAAAAAAAAA
13202994 AA
1 AA
13202996 GAAAAGAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.26
23 24 0.62
24 5 0.13
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.01
Consensus pattern (22 bp):
AAAACAAAACAAAAAAAAAAAA
Found at i:13202964 original size:15 final size:17
Alignment explanation
Indices: 13202946--13202989 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
13202936 AAAAAAGAAA
13202946 AAAAAAACAAAAC-AG-
1 AAAAAAACAAAACAAGT
13202961 AAAAAAACAAAACAAGT
1 AAAAAAACAAAACAAGT
*
13202978 AAACAAACAAAA
1 AAAAAAACAAAA
13202990 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 13 0.50
16 2 0.08
17 11 0.42
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAAAAACAAAACAAGT
Found at i:13202967 original size:28 final size:27
Alignment explanation
Indices: 13202923--13203000 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
13202913 AATAATATTT
13202923 AACAAAACAAAACAAAAAAGAAAAAAAA
1 AACAAAACAAAA-AAAAAAGAAAAAAAA
* **
13202951 AACAAAACAGAAAAAAACAA-AACAAGTA
1 AACAAAACA-AAAAAAA-AAGAAAAAAAA
13202979 AAC-AAACAAAAAAAAAAGAAAA
1 AACAAAACAAAAAAAAAAGAAAA
13203001 GAAGTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 2 0.05
26 10 0.23
27 5 0.12
28 21 0.49
29 5 0.12
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (27 bp):
AACAAAACAAAAAAAAAAGAAAAAAAA
Found at i:13204500 original size:16 final size:15
Alignment explanation
Indices: 13204479--13204536 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
13204469 AAACCCTTAA
13204479 AAATCCAAAATCCATT
1 AAATCCAAAATCC-TT
* *
13204495 AAATCCAAAACCGCTCG
1 AAATCCAAAATC-CT-T
13204512 AAATCCAAAATCCTT
1 AAATCCAAAATCCTT
13204527 GAAATCCAAA
1 -AAATCCAAA
13204537 GTCCGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.48, C:0.28, G:0.05, T:0.19
Consensus pattern (15 bp):
AAATCCAAAATCCTT
Found at i:13204505 original size:33 final size:33
Alignment explanation
Indices: 13204468--13204536 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
13204458 CTAGGTTTCT
13204468 AAAACC-CTTAAAAATCCAAAATCCATT-AAATCC
1 AAAACCGC-TAAAAATCCAAAATCC-TTGAAATCC
**
13204501 AAAACCGCTCGAAATCCAAAATCCTTGAAATCC
1 AAAACCGCTAAAAATCCAAAATCCTTGAAATCC
13204534 AAA
1 AAA
13204537 GTCCGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 2 0.06
33 29 0.91
34 1 0.03
ACGTcount: A:0.49, C:0.28, G:0.04, T:0.19
Consensus pattern (33 bp):
AAAACCGCTAAAAATCCAAAATCCTTGAAATCC
Found at i:13204824 original size:141 final size:142
Alignment explanation
Indices: 13204665--13204941 Score: 511
Period size: 142 Copynumber: 2.0 Consensus size: 142
13204655 TCATAATTCA
* *
13204665 TATTAATAATAAGATTAATAAAT-AAAAAGTATAATAAAATTGGGATTTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTGAGATCTTAAATATAAACAGTCG
13204729 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
13204794 TAAATTACATTT
131 TAAATTACATTT
*
13204806 TATTAATAATAAGATTAATAAATAAAAAATTATAATAAAATTGAGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTGAGATCTTAAATATAAACAGTCG
*
13204871 CATCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
13204936 TAAATT
131 TAAATT
13204942 GTATTTCATT
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 23 0.18
142 108 0.82
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (142 bp):
TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTGAGATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
TAAATTACATTT
Found at i:13216809 original size:15 final size:15
Alignment explanation
Indices: 13216791--13216842 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13216781 TGAGAGGAGC
13216791 TTTTTCAAGAAAGAA
1 TTTTTCAAGAAAGAA
* * * *
13216806 TTTTTAAACAGAGGAGC
1 TTTTTCAAGA-AAGA-A
13216823 TTTTTCAAGAAAGAA
1 TTTTTCAAGAAAGAA
13216838 TTTTT
1 TTTTT
13216843 AAAGTTGTGG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 13 0.48
16 6 0.22
17 8 0.30
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (15 bp):
TTTTTCAAGAAAGAA
Found at i:13216824 original size:32 final size:32
Alignment explanation
Indices: 13216783--13216845 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
13216773 GCCTTTGTTG
13216783 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAC
1 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAC
13216815 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAA
1 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAA
13216846 GTTGTGGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (32 bp):
AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAC
Found at i:13216872 original size:49 final size:48
Alignment explanation
Indices: 13216815--13217890 Score: 1283
Period size: 48 Copynumber: 22.2 Consensus size: 48
13216805 ATTTTTAAAC
13216815 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAA-TTTTAAAGTTGTGGAGCCTCTGTTG
*
13216864 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13216912 AGAGGACCTTTTTCAA-AATGAAATTTTAAAGTTATGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAG-AATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13216960 AGAGGAGCTTTTTC-AGATGAGATTTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
13217008 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAA-TTTTAAAGTTGTGGAGCCTCTGTTG
*
13217057 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217105 AGAGGAGCTTTTTCAA-AATGAAATTTTAAAGTTATAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAG-AATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217153 AGAGGAGCTTTTTCAAG-ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAG
1 AGAGGAGCTTTTTCAAGAAAGA-ATTTTAAAGTTGTGGAGCCTCTG-T-TG
* *
13217203 AGCAGGGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTG
1 AG-A--GGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * *
13217255 AGATGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
*
13217304 AGAGGAGCTTTTTCGAA-ATGAGAATTTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTC-AAGA-AAGAA-TTTTAAAGTTGTGGAGCCTCTGTTG
*
13217354 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217402 AGATGAGCTTTTTCAA-AATGAAATTTTAAAGTTATGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAG-AATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217450 AGAGGAGCTTTTTCAAG-ATGAGATTTTAAAGTTGTTGAGCCTCTGCTG
1 AGAGGAGCTTTTTCAAGAAAGA-ATTTTAAAGTTGTGGAGCCTCTGTTG
*
13217498 AGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217547 AGAGGAGCTTTTTCAAG-ATGAAATTTAAAGTTGTTAGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTG-TGGAGCCTCTGTTG
* * *
13217595 AGAGGAGCTTTTCCAAATGAGAA-ATTTTTAAAGTT-TGGAACCTCTGTTG
1 AGAGGAGCTTTTTC-AA-GA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13217644 AGAGGAGCTTTTTC-CGAAATAAATTTTAAA-TT-T-GAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGAAA-GAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * * *
13217689 AGA-GAGCTTTTCCGAA-ATAA-AATTTTAAAATTATGAAACCTCTGTTG
1 AGAGGAGCTTTTTC-AAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13217736 AGAGGAGCTTTTCCGAGATGAA-AATTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGAGCTTTTTCAAGA--AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217785 AGATGAGCTTTTTTCAAGATAAG-ATTTTAAAGTTGTTGAGCCTCTGCTG
1 AGAGGAGC-TTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13217834 AGA-GAGGATTTTTCCAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTG
1 AGAGGA-GCTTTTTCAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
13217883 AGAGGAGC
1 AGAGGAGC
13217891 CTCTGTTGAG
Statistics
Matches: 905, Mismatches: 78, Indels: 88
0.85 0.07 0.08
Matches are distributed among these distances:
44 18 0.02
45 19 0.02
46 8 0.01
47 47 0.05
48 399 0.44
49 303 0.33
50 57 0.06
51 12 0.01
52 4 0.00
53 14 0.02
54 22 0.02
55 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (48 bp):
AGAGGAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
Found at i:13216874 original size:81 final size:80
Alignment explanation
Indices: 13216735--13216890 Score: 276
Period size: 81 Copynumber: 1.9 Consensus size: 80
13216725 GCCTCTGTTG
* *
13216735 AGAGAAGCTTTTTCAAGAAAGAATTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGCTTTTTCAAG
1 AGAGAAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
13216800 AAAGAATTTTTAAAC
66 AAAGAATTTTTAAAC
*
13216815 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
1 AGAGAAGCTTTTTCAAGAAAGAA-TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
13216880 GAAAGAATTTT
65 GAAAGAATTTT
13216891 AAAGTTGTAG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 22 0.31
81 50 0.69
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (80 bp):
AGAGAAGCTTTTTCAAGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
AAAGAATTTTTAAAC
Found at i:13216956 original size:96 final size:96
Alignment explanation
Indices: 13216815--13218348 Score: 1648
Period size: 96 Copynumber: 15.6 Consensus size: 96
13216805 ATTTTTAAAC
* *
13216815 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
1 AGAGGAGCTTTTTCAA-AATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
*
13216880 GAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
65 GAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13216912 AGAGGACCTTTTTCAAAATGAAATTTTAAAGTTATGGAGCCTCTGTTGAGAGGAGCTTTTTC-AG
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
* *
13216976 ATGAGATTTTTAAAGTTGTGGAGCCTCTGTTG
66 A-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13217008 AGAGGAGCTTTTTCAAGAAAGAATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
1 AGAGGAGCTTTTTCAA-AATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
*
13217073 GAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
65 GAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13217105 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTATAGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
* * *
13217170 -ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAG
66 AAAGA-ATTTTAAAGTTGTGGAGCCTCTG-T-TG
* * * *
13217203 AGCAGGGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGATGAGCTTTTC
1 AG-A--GGAGCTTTTTCAAAATGA-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTT
* *
13217268 CAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGTTG
62 CAAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
*
13217304 AGAGGAGCTTTTTCGAAATGAGAATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCA
1 AGAGGAGCTTTTTCAAAATGA-AA-TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCA
*
13217369 AGAAAGAATTTTAAAGTTGTAGAGCCTCTGTTG
64 AGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* *
13217402 AGATGAGCTTTTTCAAAATGAAATTTTAAAGTTATGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
* * *
13217467 -ATGAGATTTTAAAGTTGTTGAGCCTCTGCTG
66 AAAGA-ATTTTAAAGTTGTGGAGCCTCTGTTG
*
13217498 AGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
1 AGAGGAGCTTTTTCAAAATGA-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAA
* * *
13217563 G-ATGAAATTTAAAGTTGTTAGAGCCTCTGTTG
65 GAAAGAATTTTAAAGTTG-TGGAGCCTCTGTTG
* *
13217595 AGAGGAGC-TTTTCCAAATGAGAAATTTTTAAAGTT-TGGAACCTCTGTTGAGAGGAGCTTTTTC
1 AGAGGAGCTTTTTCAAAAT--GAAA-TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC
* *
13217658 -CGAAATAAATTTTAAA-TT-T-GAGCCTCTGTTG
63 AAGAAA-GAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * * * * * * *
13217689 AGA-GAGCTTTTCCGAAATAAAATTTTAAAATTATGAAACCTCTGTTGAGAGGAGCTTTTCCGAG
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
13217753 ATGAA-AATTTTAAAGTTGTGGAGCCTCTGTTG
66 A--AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * * *
13217785 AGATGAGCTTTTTTCAAGAT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGGATTTTTC
1 AGAGGAGC-TTTTTCAAAATGAA-ATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGA-GCTTTTTC
* *
13217848 CAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTG
63 AAGA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * * **
13217883 AGAGGAGCCTCTGTT-GAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGTGGAGCCTCTGTT
1 AGAGGAG-CT-TTTTCAAAATGAAATTTT---A-A--AG---TT----G-T--GGAGCCTCTGTT
* * * *
13217947 GAGATGAGCTTTTTCAAG-ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAG
48 GAGAGGAGCTTTTTCAAGAAAGA-ATTTTAAAGTTGTGGAGCCTCTG-T-TG
* * * * * *
13217998 AGCAAGGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGTTAAGAGGAACTTTTC
1 AG--A-GGAGCTTTTTCAAAATGA-AATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTT
13218063 CAAGATGAA-AATTTTAAAGTTGTGGAGCCTCTGTTG
62 CAAGA--AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * *
13218099 AGAGGAGCTTTTTCGAAATGAGAAATTTTAAAATTGTGGAACCTCTGTTGAGAGGAGCTTTTTCA
1 AGAGGAGCTTTTTCAAAAT--GAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCA
* *
13218164 AGAAAGAATTTTAAAGTTGTGGAACCTCTGCTG
64 AGAAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * * * * *
13218197 AGAGGAGCTTTTCCAAAATGAAATTTTAAAGTTATAGAACCTCTGCTGAGAGAAGCTTTTCCGAA
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC-AA
* *
13218262 -ATAA-AATTTTAAAATTGTGGAACCTCTGTTG
65 GA-AAGAATTTTAAAGTTGTGGAGCCTCTGTTG
* * * *
13218293 AGAGGAGCTTTTTCAAAAAGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
1 AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC
13218349 CCTTTTCTGT
Statistics
Matches: 1234, Mismatches: 133, Indels: 141
0.82 0.09 0.09
Matches are distributed among these distances:
91 9 0.01
92 29 0.02
93 15 0.01
94 25 0.02
95 13 0.01
96 383 0.31
97 218 0.18
98 228 0.18
99 87 0.07
100 3 0.00
101 23 0.02
102 68 0.06
103 44 0.04
104 6 0.00
105 2 0.00
107 2 0.00
109 2 0.00
111 1 0.00
112 5 0.00
113 22 0.02
114 25 0.02
115 6 0.00
116 2 0.00
117 8 0.01
118 8 0.01
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (96 bp):
AGAGGAGCTTTTTCAAAATGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG
AAAGAATTTTAAAGTTGTGGAGCCTCTGTTG
Found at i:13217891 original size:16 final size:16
Alignment explanation
Indices: 13217870--13217906 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
13217860 TTAAAGTTGT
13217870 GGAGCCTCTGTTGAGA
1 GGAGCCTCTGTTGAGA
13217886 GGAGCCTCTGTTGAGA
1 GGAGCCTCTGTTGAGA
13217902 GGAGC
1 GGAGC
13217907 TTTTCCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (16 bp):
GGAGCCTCTGTTGAGA
Found at i:13217894 original size:65 final size:65
Alignment explanation
Indices: 13217822--13217955 Score: 200
Period size: 65 Copynumber: 2.1 Consensus size: 65
13217812 TAAAGTTGTT
* *
13217822 GAGCCTCTGCTGAGAGAGGA-TTTTTCC-AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAG
1 GAGCCTCTG-T-AGAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGTGGAGCCTCTGTTGAG
13217885 AG
64 AG
* *
13217887 GAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGTGGAGCCTCTGTTGAGAT
1 GAGCCTCTGTAGAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGTGGAGCCTCTGTTGAGAG
13217952 GAGC
1 GAGC
13217956 TTTTTCAAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
63 7 0.11
64 7 0.11
65 49 0.78
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (65 bp):
GAGCCTCTGTAGAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGTGGAGCCTCTGTTGAGAG
Found at i:13217943 original size:49 final size:49
Alignment explanation
Indices: 13217886--13218348 Score: 526
Period size: 48 Copynumber: 9.4 Consensus size: 49
13217876 TCTGTTGAGA
*
13217886 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTCAAAGTTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* *
13217935 GGAGCCTCTGTTGAGATGAGCTTTTTCAAGATGAG-ATTTTAAAGTTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* *
13217983 TGAGCCTCTGCTGAGAGCAAGGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
1 GGAGCCTCTG-T-TGAG--A-GGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* * * *
13218037 AGAGCCTCTGTTAAGAGGAACTTTTCCAAGATGAAAATTTTAAAGTTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* *
13218086 GGAGCCTCTGTTGAGAGGAGCTTTTTCGAA-ATGAGAAATTTTAAAATTGT
1 GGAGCCTCTGTTGAGAGGAGC-TTTTCCAAGATGAG-AATTTTAAAGTTGT
* * *
13218136 GGAACCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* * * *
13218184 GGAACCTCTGCTGAGAGGAGCTTTTCCAAAATGA-AATTTTAAAGTTAT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* * * * * *
13218232 AGAACCTCTGCTGAGAGAAGCTTTTCCGAA-AT-AAAATTTTAAAATTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCC-AAGATGAGAATTTTAAAGTTGT
* * * *
13218280 GGAACCTCTGTTGAGAGGAGCTTTTTCAAAAAGA-AATTTTAAAGTTGT
1 GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
* * *
13218328 TGAGCCTCTGCTAAGAGGAGC
1 GGAGCCTCTGTTGAGAGGAGC
13218349 CCTTTTCTGT
Statistics
Matches: 358, Mismatches: 42, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
47 3 0.01
48 168 0.47
49 99 0.28
50 45 0.13
52 3 0.01
53 18 0.05
54 22 0.06
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (49 bp):
GGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTGT
Found at i:13218522 original size:5 final size:5
Alignment explanation
Indices: 13218512--13218563 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
13218502 AATAATATTT
* *
13218512 AACAA AACAA AACAA AA-AA GA-AA AA-AA AACAA AACAA AAAAA AACAA
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA
13218559 AACAA
1 AACAA
13218564 GTAAACAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
4 10 0.24
5 32 0.76
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:13218540 original size:22 final size:21
Alignment explanation
Indices: 13218515--13218582 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
13218505 AATATTTAAC
13218515 AAAACAAAACAAAAAAGAAAAA
1 AAAACAAAACAAAAAA-AAAAA
13218537 AAAACAAAACAAAAAAAAACAA
1 AAAACAAAACAAAAAAAAA-AA
** *
13218559 AACAAGTAAACAAACAAAAAAA
1 AA-AACAAAACAAAAAAAAAAA
13218581 AA
1 AA
13218583 GAAAGAAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 3 0.07
22 24 0.59
23 14 0.34
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (21 bp):
AAAACAAAACAAAAAAAAAAA
Found at i:13218545 original size:15 final size:15
Alignment explanation
Indices: 13218512--13218582 Score: 72
Period size: 15 Copynumber: 4.5 Consensus size: 15
13218502 AATAATATTT
*
13218512 AACAAAACAAAACAAAA
1 AACAAAA-AAAA-ACAA
*
13218529 AAGAAAAAAAAACAA
1 AACAAAAAAAAACAA
13218544 AACAAAAAAAAACAA
1 AACAAAAAAAAACAA
*
13218559 AACAAGTAAACAAACAA
1 AACAA--AAAAAAACAA
13218576 AA-AAAAA
1 AACAAAAA
13218583 GAAAGAAGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
14 3 0.06
15 22 0.46
16 6 0.12
17 17 0.35
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (15 bp):
AACAAAAAAAAACAA
Found at i:13218556 original size:32 final size:32
Alignment explanation
Indices: 13218512--13218582 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
13218502 AATAATATTT
*
13218512 AACAAAACAAAACAAAA-AAGAAAAAAAAACAA
1 AACAAAAAAAAACAAAACAAG-AAAAAAAACAA
* *
13218544 AACAAAAAAAAACAAAACAAGTAAACAAACAA
1 AACAAAAAAAAACAAAACAAGAAAAAAAACAA
13218576 AA-AAAAA
1 AACAAAAA
13218583 GAAAGAAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 5 0.14
32 27 0.77
33 3 0.09
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (32 bp):
AACAAAAAAAAACAAAACAAGAAAAAAAACAA
Found at i:13220081 original size:33 final size:32
Alignment explanation
Indices: 13220043--13220104 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
13220033 TTAGGTTTCT
13220043 AAAACC-CTTAAAAATCCAAAATCCATTAAATCC
1 AAAACCGC-TAAAAATCCAAAATCC-TTAAATCC
**
13220076 AAAACCGCTCGAAATCCAAAATCCTTAAA
1 AAAACCGCTAAAAATCCAAAATCCTTAAA
13220105 GTTCAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.19
33 20 0.77
34 1 0.04
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.19
Consensus pattern (32 bp):
AAAACCGCTAAAAATCCAAAATCCTTAAATCC
Found at i:13220433 original size:142 final size:141
Alignment explanation
Indices: 13220240--13220522 Score: 496
Period size: 142 Copynumber: 2.0 Consensus size: 141
13220230 TCATAATTCA
*
13220240 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTAGGATTTTAAATATAAACAGTCGC
1 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCGC
*
13220305 ACCTAAGCTCTGCTTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
66 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
13220370 AAATTACATTT
131 AAATTACATTT
13220381 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATT-GAGATCTTAAATATAAACAGTC
1 TATTAATAATAAGATTAATAAAT-AAAAAGTATAATAAAATTAG-GATCTTAAATATAAACAGTC
* *
13220445 GCATCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCTAACTC
64 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
*
13220510 TTAAATTGCATTT
129 TTAAATTACATTT
13220523 CATTTTACAT
Statistics
Matches: 135, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
141 24 0.18
142 111 0.82
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (141 bp):
TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTAGGATCTTAAATATAAACAGTCGC
ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
AAATTACATTT
Found at i:13224077 original size:23 final size:23
Alignment explanation
Indices: 13224042--13224102 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
13224032 GATCCGACCC
13224042 AAAAT-TAATAAATATTATTTTTT
1 AAAATATAA-AAATATTATTTTTT
13224065 AAAATATAAAAATATTATTTTTT
1 AAAATATAAAAATATTATTTTTT
*
13224088 AAAATATAAATATAT
1 AAAATATAAAAATAT
13224103 AAATATATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 33 0.92
24 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATAAAAATATTATTTTTT
Found at i:13224536 original size:2 final size:2
Alignment explanation
Indices: 13224529--13224553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13224519 TAAAAGAATT
13224529 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13224554 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13225204 original size:25 final size:25
Alignment explanation
Indices: 13225176--13225254 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
13225166 CATAAAAAAT
13225176 AATTTAAAAATATAAAAAAAATAAA
1 AATTTAAAAATATAAAAAAAATAAA
* * *
13225201 AATTT-TAAATATTCAAAAAAATATA
1 AATTTAAAAATA-TAAAAAAAATAAA
* * *
13225226 ATTTTAAAACATTTCAAAAAAAAAAAA
1 AATTTAAAA-ATAT-AAAAAAAATAAA
13225253 AA
1 AA
13225255 AGAGAGAGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
24 5 0.12
25 20 0.50
26 3 0.08
27 12 0.30
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (25 bp):
AATTTAAAAATATAAAAAAAATAAA
Found at i:13228269 original size:2 final size:2
Alignment explanation
Indices: 13228262--13228317 Score: 96
Period size: 2 Copynumber: 28.0 Consensus size: 2
13228252 TTTCTGCTTA
13228262 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T-
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13228303 TAC TC TC TC TC TC TC
1 T-C TC TC TC TC TC TC
13228318 ACACACACAC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.96
3 1 0.02
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13231717 original size:2 final size:2
Alignment explanation
Indices: 13231710--13231736 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13231700 AATGAAACAA
13231710 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13231737 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13236116 original size:21 final size:21
Alignment explanation
Indices: 13236090--13236150 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
13236080 CCAAATCTTT
13236090 CTAGAAACCTAAAACTAAACC
1 CTAGAAACCTAAAACTAAACC
13236111 CTAGAAACCTAAAACTAAACC
1 CTAGAAACCTAAAACTAAACC
*
13236132 CTAGAAACCTAAATCTAAA
1 CTAGAAACCTAAAACTAAA
13236151 TCTAGAATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.52, C:0.26, G:0.05, T:0.16
Consensus pattern (21 bp):
CTAGAAACCTAAAACTAAACC
Found at i:13236551 original size:3 final size:3
Alignment explanation
Indices: 13236543--13236647 Score: 80
Period size: 3 Copynumber: 36.7 Consensus size: 3
13236533 GAAAGAAAGA
* * * *
13236543 AAT AAT AAT AAT AAT AAT AAT -AT GAT AAT -AT GAT -AT AAT ACT ATAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
13236589 AAT AATT AAT AAT AAT AAT AAT AAT -AT GAT AAT AAT AGT -AT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13236633 -AT AA- AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AA
13236648 AACACGATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
2 13 0.15
3 67 0.80
4 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13236593 original size:23 final size:23
Alignment explanation
Indices: 13236553--13236630 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
13236543 AATAATAATA
**
13236553 ATAATAATAATATGATAATATGAT
1 ATAATAAT-ATACAATAATATGAT
*
13236577 ATAATACTATACAATAAT-T-A-
1 ATAATAATATACAATAATATGAT
*
13236597 ATAATAATA-ATAATAATATGAT
1 ATAATAATATACAATAATATGAT
*
13236619 AATAATAGTATA
1 -ATAATAATATA
13236631 ATATAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.16
20 9 0.21
21 2 0.05
22 1 0.02
23 16 0.37
24 8 0.19
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAATAATATACAATAATATGAT
Found at i:13237459 original size:76 final size:76
Alignment explanation
Indices: 13237327--13237476 Score: 176
Period size: 76 Copynumber: 2.0 Consensus size: 76
13237317 CTCAAGTTCG
* * * * * *
13237327 TAAGGACTTTCAGATTCGCAGAAAAAAAATATTCGTAAGATTTTAAATTTCGCAAAGGTTTTAGG
1 TAAGGACTTTCAGATTCGAAGAAAAAAAATATTCGCAAGATTTCAAATTTCACAAAGGTTCTAGA
*
13237392 TTCGTAAAGGT
66 CTCGTAAAGGT
* * * * *
13237403 TAAGGACTTTTAGATTTGTAAG-AAAGAAATATTTGCAAGATTTCAAGTTTCACAAAGGTTCTAG
1 TAAGGACTTTCAGATTCG-AAGAAAAAAAATATTCGCAAGATTTCAAATTTCACAAAGGTTCTAG
13237467 ACTCGTAAAG
65 ACTCGTAAAG
13237477 ATTTTAGGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
76 59 0.97
77 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (76 bp):
TAAGGACTTTCAGATTCGAAGAAAAAAAATATTCGCAAGATTTCAAATTTCACAAAGGTTCTAGA
CTCGTAAAGGT
Found at i:13237841 original size:59 final size:60
Alignment explanation
Indices: 13237771--13237942 Score: 179
Period size: 60 Copynumber: 2.9 Consensus size: 60
13237761 TGATTGGAAC
* * ** * **
13237771 GATGCCTCGAGTCTGAAAGTGATCAAGACCAAGTTGAGATCGAA-ATGAATGA-TTGTGAT
1 GATGCCACGAGTCTGAAAGCGATCAAGACCAAGTCAAGATCAAAGATGAATGACCAG-GAT
* *
13237830 GATGCCACGAGTCTGAAAGCGATCAAGATCGAGTCAAGATCAAAGATGAATGACCAGGAT
1 GATGCCACGAGTCTGAAAGCGATCAAGACCAAGTCAAGATCAAAGATGAATGACCAGGAT
* ** * *
13237890 GATGCCACGAGTTTGAAAATGA-CATAGATCAAGTCAAGGTCAAAGATGAATGA
1 GATGCCACGAGTCTGAAAGCGATCA-AGACCAAGTCAAGATCAAAGATGAATGA
13237943 TCAAAATGAT
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
59 39 0.41
60 56 0.58
61 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (60 bp):
GATGCCACGAGTCTGAAAGCGATCAAGACCAAGTCAAGATCAAAGATGAATGACCAGGAT
Found at i:13237952 original size:60 final size:60
Alignment explanation
Indices: 13237828--13237962 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
13237818 AATGATTGTG
* * * **
13237828 ATGATGCCACGAGTCTGAAAGCGATCAAGATCGAGTCAAGATCAAAGATGAATGACCAGG
1 ATGATGCCACGAGTTTGAAAACGATCAAGATCAAGTCAAGATCAAAGATGAATGACCAAA
* * *
13237888 ATGATGCCACGAGTTTGAAAATGA-CATAGATCAAGTCAAGGTCAAAGATGAATGATCAAA
1 ATGATGCCACGAGTTTGAAAACGATCA-AGATCAAGTCAAGATCAAAGATGAATGACCAAA
* *
13237948 ATGATGTCACAAGTT
1 ATGATGCCACGAGTT
13237963 AAAAGAATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 2 0.03
60 62 0.97
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (60 bp):
ATGATGCCACGAGTTTGAAAACGATCAAGATCAAGTCAAGATCAAAGATGAATGACCAAA
Found at i:13238965 original size:15 final size:16
Alignment explanation
Indices: 13238932--13238972 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
13238922 TTCTTCATTT
13238932 TTTTTTTGTTTTTACC
1 TTTTTTTGTTTTTACC
* *
13238948 TTTTTTTGTTTTTGCT
1 TTTTTTTGTTTTTACC
13238964 TTTTTTTGT
1 TTTTTTTGT
13238973 ACACCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.02, C:0.07, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTTTTGTTTTTACC
Found at i:13242135 original size:45 final size:42
Alignment explanation
Indices: 13242071--13242197 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 42
13242061 GCATATATAC
13242071 AATAAATAAATAATT---AAGTATAAGCAATGAAAAGAAGTAAA
1 AATAAATAAATAATTAGCAAGTATAAGCAATGAAAAGAA--AAA
*
13242112 AATAAATAAATAATTACGCAAGTATAAGCAATG-AAA-AAACA
1 AATAAATAAATAATTA-GCAAGTATAAGCAATGAAAAGAAAAA
13242153 AATAAATAAATAATTAAGCAAGTATAAGCAATGAAAAGAAAAA
1 AATAAATAAATAATT-AGCAAGTATAAGCAATGAAAAGAAAAA
13242196 AA
1 AA
13242198 ATCTCAAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
41 48 0.62
42 4 0.05
43 8 0.10
44 3 0.04
45 14 0.18
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.20
Consensus pattern (42 bp):
AATAAATAAATAATTAGCAAGTATAAGCAATGAAAAGAAAAA
Found at i:13243111 original size:19 final size:19
Alignment explanation
Indices: 13243049--13243112 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
13243039 CAGTAAAATT
13243049 AAAT-AAATAAAAAAACTGA
1 AAATAAAATAAAAAAA-TGA
* *
13243068 AAATAAAAACTTAAGAAAATAA
1 AAAT-AAAA--TAAAAAAATGA
*
13243090 AAATAAAATAATAAAATGA
1 AAATAAAATAAAAAAATGA
13243109 AAAT
1 AAAT
13243113 GGAAAAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 17 0.46
21 7 0.19
22 6 0.16
23 7 0.19
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAAAAATGA
Found at i:13243533 original size:21 final size:21
Alignment explanation
Indices: 13243509--13243548 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13243499 AATCCCACCT
13243509 CTAGAAACCTAAAACTAAACC
1 CTAGAAACCTAAAACTAAACC
*
13243530 CTAGAAACCTAAATCTAAA
1 CTAGAAACCTAAAACTAAA
13243549 TCCAAAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (21 bp):
CTAGAAACCTAAAACTAAACC
Found at i:13243957 original size:3 final size:3
Alignment explanation
Indices: 13243944--13244038 Score: 60
Period size: 3 Copynumber: 33.7 Consensus size: 3
13243934 AAGAAAGAAA
* *
13243944 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT -AT GAT AAT -AT GAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
13243988 AAT ACT ATAC AAT -AT ACT AAT AAT AAT ACT -AT AAT -AT AAC AAA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13244031 AAT AAT AA
1 AAT AAT AA
13244039 AACACAGTCT
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
2 13 0.18
3 58 0.81
4 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13244034 original size:22 final size:24
Alignment explanation
Indices: 13243986--13244037 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
13243976 ATAATATGAT
*
13243986 ATAATACTATACAATATACTAATA
1 ATAATACTATACAATATACTAAAA
13244010 ATAATACTAT--AATATAAC-AAAA
1 ATAATACTATACAATAT-ACTAAAA
13244032 ATAATA
1 ATAATA
13244038 AAACACAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 14 0.54
23 2 0.08
24 10 0.38
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAATACTATACAATATACTAAAA
Found at i:13244464 original size:13 final size:13
Alignment explanation
Indices: 13244446--13244470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13244436 AGATTGGCAA
13244446 TACTTAGATATTT
1 TACTTAGATATTT
13244459 TACTTAGATATT
1 TACTTAGATATT
13244471 GTGGAGACCT
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TACTTAGATATTT
Found at i:13246446 original size:18 final size:18
Alignment explanation
Indices: 13246423--13246457 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13246413 AAAAAATTAA
13246423 TTTTAATTATGGTTTTAG
1 TTTTAATTATGGTTTTAG
*
13246441 TTTTAATTTTGGTTTTA
1 TTTTAATTATGGTTTTA
13246458 ATTTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTTAATTATGGTTTTAG
Found at i:13246471 original size:29 final size:30
Alignment explanation
Indices: 13246422--13246485 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
13246412 AAAAAAATTA
* *
13246422 ATTTTAATTATGGTTTTAGTTTTAATTTTG
1 ATTTTAATTATGATTTTAGTTCTAATTTTG
*
13246452 GTTTTAATT-TGATTTTAGTTCTAATTTTG
1 ATTTTAATTATGATTTTAGTTCTAATTTTG
13246481 ATTTT
1 ATTTT
13246486 TGGTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (30 bp):
ATTTTAATTATGATTTTAGTTCTAATTTTG
Found at i:13246476 original size:17 final size:18
Alignment explanation
Indices: 13246441--13246485 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
13246431 ATGGTTTTAG
* * *
13246441 TTTTAATTTTGGTTTTAA
1 TTTTGATTTTAGTTCTAA
13246459 -TTTGATTTTAGTTCTAA
1 TTTTGATTTTAGTTCTAA
13246476 TTTTGATTTT
1 TTTTGATTTT
13246486 TGGTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (18 bp):
TTTTGATTTTAGTTCTAA
Done.