Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 95 of 135
Found at i:35602382 original size:31 final size:29
Alignment explanation
Indices: 35602312--35602385 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
35602302 ACCTTAGACC
* * *
35602312 ACATTTTAGTCACTTATGTTTGAAATATT
1 ACATTTTAGTCACTTACGTTAGAAATATA
* *
35602341 ACGTTTTAGTCACTTACGTTAGCACATTATA
1 ACATTTTAGTCACTTACGTTAG-A-AATATA
35602372 ACATTTTAGTCACT
1 ACATTTTAGTCACT
35602386 GAGTCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 1 0.03
31 17 0.46
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTAGAAATATA
Found at i:35602414 original size:12 final size:12
Alignment explanation
Indices: 35602397--35602423 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35602387 AGTCGTTAAT
35602397 TGTCATTAACGG
1 TGTCATTAACGG
35602409 TGTCATTAACGG
1 TGTCATTAACGG
35602421 TGT
1 TGT
35602424 AACGGTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (12 bp):
TGTCATTAACGG
Found at i:35603530 original size:19 final size:20
Alignment explanation
Indices: 35603494--35603531 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
35603484 GGGAAATAAG
*
35603494 AAAAGAAAAATAAATAAATA
1 AAAAGAAAAACAAATAAATA
*
35603514 AAAAG-AAAACAATTAAAT
1 AAAAGAAAAACAAATAAAT
35603532 TGTTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAGAAAAACAAATAAATA
Found at i:35604684 original size:15 final size:15
Alignment explanation
Indices: 35604654--35604702 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
35604644 AAATGACTAT
*
35604654 ATAAAAAAT-TT-TA
1 ATAAAAAATATTAAA
35604667 ATAAAAAATATTAAA
1 ATAAAAAATATTAAA
**
35604682 ATACTAAATATTAAA
1 ATAAAAAATATTAAA
35604697 ATAAAA
1 ATAAAA
35604703 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 18 0.62
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAAATATTAAA
Found at i:35606893 original size:6 final size:6
Alignment explanation
Indices: 35606882--35606920 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
35606872 CCCAAACTGG
35606882 ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACT
1 ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACTGAT ACT
35606921 AAAAAGGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (6 bp):
ACTGAT
Found at i:35608193 original size:18 final size:18
Alignment explanation
Indices: 35608172--35608208 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35608162 TGAGTTTTCG
35608172 AATTCGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
35608190 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
35608208 A
1 A
35608209 TAAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:35608605 original size:18 final size:16
Alignment explanation
Indices: 35608557--35608605 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
35608547 TATTTACTTT
35608557 CCCTCAAACTTTTATTC
1 CCCT-AAACTTTTATTC
*
35608574 CCCAAAACTTTTTATTTCC
1 CCCTAAAC-TTTTA-TT-C
35608593 CCCTAAACTTTTA
1 CCCTAAACTTTTA
35608606 CTTCTCACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 7 0.26
19 8 0.30
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.41
Consensus pattern (16 bp):
CCCTAAACTTTTATTC
Found at i:35611554 original size:106 final size:107
Alignment explanation
Indices: 35611306--35611612 Score: 431
Period size: 111 Copynumber: 2.8 Consensus size: 107
35611296 AAAAAATTTT
* * * * *
35611306 TTTGAGTGCTGGCCTGTCAATAGA-CAGCACCACCTTTACGGAAATTTTTTTTTTATATTTTGGG
1 TTTG-GTGGTGGCCTGCCAAT-GACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGG
* *
35611370 GTGTCATTGGCCGGCACCAGTATACGAAAAATTTTTTTAAAAAAAAAT
64 GTGTCATTGGCCGGCACCAGTATACGAAAAA----TATAAAAAAAAAA
* *
35611418 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
1 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
*
35611483 GTCATTGGCGGGCACCAGTATACGAAAAA-ATAAAAAAAAAA
66 GTCATTGGCCGGCACCAGTATACGAAAAATATAAAAAAAAAA
* *
35611524 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGT-AAGTTTTCTTTTACATTTTGGGGT
1 TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
35611588 GTCATTGGCCGGCACCAGTATACGA
66 GTCATTGGCCGGCACCAGTATACGA
35611613 TTTTTTTTAT
Statistics
Matches: 179, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
105 46 0.26
106 48 0.27
110 1 0.01
111 80 0.45
112 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (107 bp):
TTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGGGT
GTCATTGGCCGGCACCAGTATACGAAAAATATAAAAAAAAAA
Found at i:35611699 original size:105 final size:103
Alignment explanation
Indices: 35611613--35612113 Score: 382
Period size: 107 Copynumber: 4.9 Consensus size: 103
35611603 CAGTATACGA
* *
35611613 TTTTTTTT-ATTTTTTCGTATACTGATGCCGGCCAATGACACC-CAAAAATGTAAAAAAAATTTT
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACCTC-AAAATGTAAAAAAAAATTT
* * *
35611676 ACATAAAGGTGGTGTCGGCCATTGGCAGGTCACCACCAAT
65 ACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-TAAT
* * ** *
35611716 TTTTTTTTAATTTTTTTGTATACTGGTGTCGGTGAATGACACCTCAAAATGTAAAAAAAAAAATT
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACCTCAAAATGT-AAAAAAAAATTT
* * ** *
35611781 ACTTAAAGATAATGCCAGCCATTGGCAGGCCACCATAATT
65 ACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCATAA-T
* **
35611821 TTTTTTTTACATTTTTTTCATATACTGGTGCTAGCCAATGACACCTCAAAATGTTAAAAAAAAAT
1 TTTTTTTTA-A-TTTTTTCGTATACTGGTGCCGGCCAATGACACCTCAAAATG-TAAAAAAAAAT
* * *
35611886 TTACATAAAGGTGGTGGCGGCAATT---------TCA-AA-
63 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCATAAT
* * * * *****
35611916 -TTTTTTT--TT-----GTATACAGGTGTTC-GCCAATGACACCCCAAAGTGT-AAATTTTTTTT
1 TTTTTTTTAATTTTTTCGTATACTGGTG-CCGGCCAATGACACCTCAAAATGTAAAAAAAAATTT
*
35611971 ACACAAAGGTGGTGCCGGCCATTGGCAGGCCACCACTAAAAATTTT
65 ACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-T---AA---T
*
35612017 TTTTTTTTAAATTTTTTCGTATACTGGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAATTT
1 TTTTTTTT-AATTTTTTCGTATACTGGTGCCGGCCAATGACACCTCAAAATGTAAAAAAAAATTT
* * *
35612082 TCGTAAAGGTGGTGCCGGCCATTGACAGGCCA
65 ACATAAAGGTGGTGCCGGCCATTGGCAGGCCA
35612114 GCACCAAATT
Statistics
Matches: 303, Mismatches: 58, Indels: 66
0.71 0.14 0.15
Matches are distributed among these distances:
83 26 0.09
84 1 0.00
85 27 0.09
90 2 0.01
92 2 0.01
94 7 0.02
97 4 0.01
98 2 0.01
102 7 0.02
103 8 0.03
104 38 0.13
105 51 0.17
106 1 0.00
107 61 0.20
108 1 0.00
109 1 0.00
110 30 0.10
111 34 0.11
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (103 bp):
TTTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACCTCAAAATGTAAAAAAAAATTTA
CATAAAGGTGGTGCCGGCCATTGGCAGGCCACCATAAT
Found at i:35611865 original size:107 final size:105
Alignment explanation
Indices: 35611613--35611895 Score: 326
Period size: 105 Copynumber: 2.7 Consensus size: 105
35611603 CAGTATACGA
* * *
35611613 TTTTTTTT-A-TTTTTTCGTATACTGATGCCGGCCAATGACACC-CAAAAATGTAAAAAAAATTT
1 TTTTTTTTAATTTTTTTCGTATACTGGTGCTGGCCAATGACACCTC-AAAATGTAAAAAAAAATT
* ** * * *
35611675 TACATAAAGGTGGTGTCGGCCATTGGCAGGTCACCACCAAT
65 TACATAAAGATAATGCCAGCCATTGGCAGGCCACCACCAAT
** *
35611716 TTTTTTTTAATTTTTTT-GTATACTGGTG-TCGGTGAATGACACCTCAAAATGTAAAAAAAAAAA
1 TTTTTTTTAATTTTTTTCGTATACTGGTGCT-GGCCAATGACACCTCAAAATGT-AAAAAAAAAT
* *
35611779 TTACTTAAAGATAATGCCAGCCATTGGCAGGCCACCA-TAATT
64 TTACATAAAGATAATGCCAGCCATTGGCAGGCCACCACCAA-T
* *
35611821 TTTTTTTTACATTTTTTTCATATACTGGTGCTAGCCAATGACACCTCAAAATGTTAAAAAAAAAT
1 TTTTTTTTA-ATTTTTTTCGTATACTGGTGCTGGCCAATGACACCTCAAAATG-TAAAAAAAAAT
35611886 TTACATAAAG
64 TTACATAAAG
35611896 GTGGTGGCGG
Statistics
Matches: 150, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
103 8 0.05
104 31 0.21
105 55 0.37
106 8 0.05
107 46 0.31
108 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (105 bp):
TTTTTTTTAATTTTTTTCGTATACTGGTGCTGGCCAATGACACCTCAAAATGTAAAAAAAAATTT
ACATAAAGATAATGCCAGCCATTGGCAGGCCACCACCAAT
Found at i:35612334 original size:19 final size:19
Alignment explanation
Indices: 35612312--35612348 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35612302 TTCAGGTTAT
*
35612312 TTTAGTGATTTTTTTAAAC
1 TTTAGTGATTTTTATAAAC
*
35612331 TTTAGTTATTTTTATAAA
1 TTTAGTGATTTTTATAAA
35612349 TATAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTAGTGATTTTTATAAAC
Found at i:35613960 original size:106 final size:105
Alignment explanation
Indices: 35613699--35614097 Score: 469
Period size: 106 Copynumber: 3.7 Consensus size: 105
35613689 AAAAAAAAGA
* * * * * *
35613699 AAAAAAAATTTTGGGTGCTGGTTTGTCAATGGCCGGCACCACCTTTACGAAATTTTTTTTTTTTT
1 AAAAAAAATTTT-GATGGTGGCTTGCCAATGGCCGGCACCACCTTTATG----TATTTTTTTTTT
* * *
35613764 ACATTTTGGGGTGTCATTGGGCGGCACCAGTATACAAAAAAATTTAAA
61 ACATTTTGGGGTGTCATTGGCCGGCACTAGTATAC-AAAAAATTT--T
* *
35613812 AAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCAGCACCACCTTTATGTATTTTTTTTTTACATT
1 AAAAAAAATTTTGATGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTACATT
* *
35613877 TTGGAGTGTCATTGGCCGGCACTAGCATACGAAAAAATTTT
66 TTGGGGTGTCATTGGCCGGCACTAGTATAC-AAAAAATTTT
* * *
35613918 AAAAAAAATTTTGATGGTGACTTGCCAATGGCCGGCATCACCTTTATGTA-ATTTTTTTTACATT
1 AAAAAAAATTTTGATGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTACATT
* *
35613982 TTGGGGTGTCATTGGCCGACACTAGTATACAAAAAA-ATT
66 TTGGGGTGTCATTGGCCGGCACTAGTATACAAAAAATTTT
** * *
35614021 AAAAAAAATCTTTTTTGTTGTGGCCTGCCAATGGCCGACACCACCTTTATGTAATTTTTTTTTTA
1 AAAAAAAAT-TTTGATG--GTGGCTTGCCAATGGCCGGCACCACCTTTATGT-ATTTTTTTTTTA
35614086 CATTTTGGGGTG
62 CATTTTGGGGTG
35614098 AAATTGTATA
Statistics
Matches: 253, Mismatches: 28, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
103 11 0.04
104 11 0.04
105 40 0.16
106 75 0.30
107 1 0.00
108 72 0.28
112 31 0.12
113 12 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (105 bp):
AAAAAAAATTTTGATGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTATTTTTTTTTTACATT
TTGGGGTGTCATTGGCCGGCACTAGTATACAAAAAATTTT
Found at i:35614400 original size:108 final size:107
Alignment explanation
Indices: 35614103--35614520 Score: 479
Period size: 107 Copynumber: 3.9 Consensus size: 107
35614093 GGGTGAAATT
* *
35614103 GTATACTGGTG-CTGGCCAATGACACTCCAAAATGTAAAAAAAAAA-TTACATAAAGGTGGTGTC
1 GTATACTGGTGAC-GGCCAATGACACCCCAAAATGTAAAAAAAAAATTTACATAAAGGTGGTGCC
* *
35614166 GGCCATTGGCAAGCCACCACC--AATTTTTTTTTAATTTTTTC
65 GGCCATTGGCAGGCCACCACCAAAATTTTTTTTAAATTTTTTC
* * * ******* *
35614207 GTATACTGGTGCCGGCCAATGACATCCGAAAATGT-AATTTTTTTTTTACATAAAGGTGGTGCTG
1 GTATACTGGTGACGGCCAATGACACCCCAAAATGTAAAAAAAAAATTTACATAAAGGTGGTGCCG
*
35614271 GCTATTGGCAGGCCACCACCAAAATTTTTTTTAAAATTTTTTC
66 GCCATTGGCAGGCCACCACCAAAATTTTTTTT-AAATTTTTTC
* *
35614314 GTATACTGGTGATGGCTAATGACACCCCAAAATGTAAAAAAAAAATTTACATAAAGGTGGTGCCG
1 GTATACTGGTGACGGCCAATGACACCCCAAAATGTAAAAAAAAAATTTACATAAAGGTGGTGCCG
* *
35614379 GCCATTGGCAGGTCACTACCAAAATTTTTTTTAAATTTTTTC
66 GCCATTGGCAGGCCACCACCAAAATTTTTTTTAAATTTTTTC
** *
35614421 GTATACTGGT-ACCGGCCAATGACACCCCAAAATGTAAAAAAAAAAAATTCCCGTAAAGGTGGTG
1 GTATACTGGTGA-CGGCCAATGACACCCCAAAATGT--AAAAAAAAAATTTACATAAAGGTGGTG
** * * * *
35614485 CTAGCTATTGACAGACCAGCACCCAAAATTTTTTTT
63 CCGGCCATTGGCAGGCCACCA-CCAAAATTTTTTTT
35614521 CTTTTTTTTT
Statistics
Matches: 260, Mismatches: 44, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
103 2 0.01
104 65 0.25
105 1 0.00
106 11 0.04
107 80 0.31
108 50 0.19
109 37 0.14
110 14 0.05
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
GTATACTGGTGACGGCCAATGACACCCCAAAATGTAAAAAAAAAATTTACATAAAGGTGGTGCCG
GCCATTGGCAGGCCACCACCAAAATTTTTTTTAAATTTTTTC
Found at i:35615180 original size:17 final size:17
Alignment explanation
Indices: 35615156--35615202 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
35615146 TACAAAATAA
35615156 ATAAAAATGATAAAATT
1 ATAAAAATGATAAAATT
* *
35615173 -TCAAAAATAATATAATT
1 AT-AAAAATGATAAAATT
35615190 AATAAAAATGATA
1 -ATAAAAATGATA
35615203 GAAAACTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 13 0.54
18 9 0.38
19 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
ATAAAAATGATAAAATT
Found at i:35615555 original size:14 final size:14
Alignment explanation
Indices: 35615536--35615573 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35615526 ATTGACAAAA
35615536 TATAATTTTTATTT
1 TATAATTTTTATTT
*
35615550 TATAATTTAT-TTT
1 TATAATTTTTATTT
35615563 TA-AATTTTTAT
1 TATAATTTTTAT
35615574 AGTTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 6 0.29
14 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATAATTTTTATTT
Found at i:35615606 original size:18 final size:18
Alignment explanation
Indices: 35615534--35615610 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
35615524 ATATTGACAA
35615534 AATATAATTTTT-ATTTTAT
1 AATAT-ATTTTTAATTTT-T
*
35615553 AATTTATTTTTAAATTTTT
1 AATATATTTTT-AATTTTT
*
35615572 -ATAGT-TTTTAGAATTTTT
1 AATA-TATTTT-TAATTTTT
35615590 AATATATTTTT-ATTTTT
1 AATATATTTTTAATTTTT
35615607 AATA
1 AATA
35615611 CATATGGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
17 10 0.21
18 20 0.42
19 13 0.27
20 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
AATATATTTTTAATTTTT
Found at i:35634725 original size:17 final size:17
Alignment explanation
Indices: 35634701--35634747 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
35634691 TACAAAATAA
35634701 ATAAAAATGATAAAATT
1 ATAAAAATGATAAAATT
* *
35634718 -TCAAAAATAATATAATT
1 AT-AAAAATGATAAAATT
35634735 AATAAAAATGATA
1 -ATAAAAATGATA
35634748 GAAAACTACC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 13 0.54
18 9 0.38
19 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
ATAAAAATGATAAAATT
Found at i:35635100 original size:14 final size:14
Alignment explanation
Indices: 35635081--35635118 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35635071 ATTGACAAAA
35635081 TATAATTTTTATTT
1 TATAATTTTTATTT
*
35635095 TATAATTTAT-TTT
1 TATAATTTTTATTT
35635108 TA-AATTTTTAT
1 TATAATTTTTAT
35635119 AGTTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 6 0.29
14 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATAATTTTTATTT
Found at i:35635151 original size:18 final size:18
Alignment explanation
Indices: 35635079--35635155 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
35635069 ATATTGACAA
35635079 AATATAATTTTT-ATTTTAT
1 AATAT-ATTTTTAATTTT-T
*
35635098 AATTTATTTTTAAATTTTT
1 AATATATTTTT-AATTTTT
*
35635117 -ATAGT-TTTTAGAATTTTT
1 AATA-TATTTT-TAATTTTT
35635135 AATATATTTTT-ATTTTT
1 AATATATTTTTAATTTTT
35635152 AATA
1 AATA
35635156 CATATGGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
17 10 0.21
18 20 0.42
19 13 0.27
20 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
AATATATTTTTAATTTTT
Found at i:35635825 original size:18 final size:18
Alignment explanation
Indices: 35635802--35635836 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35635792 AAAATTTTAA
35635802 TTAAATATTTA-TATACAT
1 TTAAAT-TTTATTATACAT
35635820 TTAAATTTTATTATACA
1 TTAAATTTTATTATACA
35635837 CACTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTTATTATACAT
Found at i:35638515 original size:12 final size:12
Alignment explanation
Indices: 35638500--35638524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35638490 TTAAAAATTG
35638500 AAAAAAAAGAAA
1 AAAAAAAAGAAA
35638512 AAAAAAAAGAAA
1 AAAAAAAAGAAA
35638524 A
1 A
35638525 GAAATTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:35639505 original size:3 final size:3
Alignment explanation
Indices: 35639499--35639543 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
35639489 AGGAGGGTGC
* *
35639499 TTA TTA TTT TTT TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35639544 GCCCTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:35647450 original size:45 final size:46
Alignment explanation
Indices: 35647334--35647512 Score: 299
Period size: 46 Copynumber: 3.9 Consensus size: 46
35647324 NNNNNNNNNN
35647334 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTTACC
1 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTTACC
35647380 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTT-TTTACC
1 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTTACC
* * * *
35647425 GAAACAACCATACCTA-TTTTAACAACTCAGTATGGTTTTCTTCACG
1 GAAA-TACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTTACC
35647471 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
35647513 CACTGAAAAC
Statistics
Matches: 124, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
45 42 0.34
46 82 0.66
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
GAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTTACC
Found at i:35650114 original size:22 final size:22
Alignment explanation
Indices: 35650088--35650136 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
35650078 ACAACTCTGA
*
35650088 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* * *
35650110 GCTCGCATGAAAATATAATAGG
1 GCTCGCATCAAAATACAACAGG
35650132 GCTCG
1 GCTCG
35650137 TATGCACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Found at i:35659669 original size:33 final size:33
Alignment explanation
Indices: 35659628--35659836 Score: 294
Period size: 33 Copynumber: 6.3 Consensus size: 33
35659618 GTGTATATAT
35659628 GTAAGACCATAGCTGGGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
35659661 GTAAGACCATAGCTGGGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
35659694 GTAAGACCATAGCTGCGCTATAGCATACTGATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
* * * *
35659727 GTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
35659760 ATAAGACCATAGCTGGGCTAT-GTCATACTGATG
1 GTAAGACCATAGCTGGGCTATAG-CATACTGATG
* * * * *
35659793 ATAAGACCATAGTTGGGCTATGGCATTCTAATG
1 GTAAGACCATAGCTGGGCTATAGCATACTGATG
*
35659826 ATAAGACCATA
1 GTAAGACCATA
35659837 ACCGGGTTAT
Statistics
Matches: 160, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
32 1 0.01
33 158 0.99
34 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (33 bp):
GTAAGACCATAGCTGGGCTATAGCATACTGATG
Found at i:35659714 original size:66 final size:66
Alignment explanation
Indices: 35659629--35659836 Score: 328
Period size: 66 Copynumber: 3.2 Consensus size: 66
35659619 TGTATATATG
* * *
35659629 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGCTGGGCTATAGCATACTGATG
1 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
*
35659694 G
66 A
* *
35659695 TAAGACCATAGCTGCGCTATAGCATACTGATGGTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
35659760 A
66 A
* *
35659761 TAAGACCATAGCTGGGCTAT-GTCATACTGATGATAAGACCATAGTTGGGCTATGGCATTCTAAT
1 TAAGACCATAGCTGGGCTATAG-CATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAAT
35659825 GA
65 GA
35659827 TAAGACCATA
1 TAAGACCATA
35659837 ACCGGGTTAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
65 1 0.01
66 130 0.99
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (66 bp):
TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGTTGGGCTATAGCATTCTAATG
A
Found at i:35659848 original size:33 final size:33
Alignment explanation
Indices: 35659629--35659867 Score: 237
Period size: 33 Copynumber: 7.2 Consensus size: 33
35659619 TGTATATATG
* * * *
35659629 TAAGACCATAGCTGGGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * *
35659662 TAAGACCATAGCTGGGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * * *
35659695 TAAGACCATAGCTGCGCTATAGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * *
35659728 TAAGACCATAGTTGGCCTATAGCATTCTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * *
35659761 TAAGACCATAGCTGGGCTATGTCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
*
35659794 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTAATGA
* * * * *
35659827 TAAGACCATAACCGGGTTATGGCACTATGAATG-
1 TAAGACCATAGCTGGGCTATGGCATTCT-AATGA
35659860 TAAGACCA
1 TAAGACCA
35659868 CGGTAGAGCC
Statistics
Matches: 182, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
33 178 0.98
34 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTAATGA
Found at i:35659864 original size:66 final size:65
Alignment explanation
Indices: 35659629--35659867 Score: 309
Period size: 66 Copynumber: 3.6 Consensus size: 65
35659619 TGTATATATG
* * * *
35659629 TAAGACCATAGCTGGGCTATAGCATACTGATGGTAAGACCATAGCTGGGCTATAGCATACTGATG
1 TAAGACCATAGCTGGGCTATGGCATACTGAT-GTAAGACCATAGTTGGGCTATAGCATTCTAATG
*
35659694 G
65 A
* * *
35659695 TAAGACCATAGCTGCGCTATAGCATACTGATGGTAAGACCATAGTTGGCCTATAGCATTCTAATG
1 TAAGACCATAGCTGGGCTATGGCATACTGAT-GTAAGACCATAGTTGGGCTATAGCATTCTAATG
35659760 A
65 A
* *
35659761 TAAGACCATAGCTGGGCTATGTCATACTGATGATAAGACCATAGTTGGGCTATGGCATTCTAATG
1 TAAGACCATAGCTGGGCTATGGCATACTGATG-TAAGACCATAGTTGGGCTATAGCATTCTAATG
35659826 A
65 A
* * *
35659827 TAAGACCATAACCGGGTTATGGCACTA-TGAATGTAAGACCA
1 TAAGACCATAGCTGGGCTATGGCA-TACTG-ATGTAAGACCA
35659868 CGGTAGAGCC
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.01
66 149 0.96
67 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (65 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGTAAGACCATAGTTGGGCTATAGCATTCTAATGA
Found at i:35670390 original size:17 final size:17
Alignment explanation
Indices: 35670372--35670404 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35670362 TTATAATGAT
35670372 TTTTA-ATATAAAAATA
1 TTTTATATATAAAAATA
*
35670388 TTTTATATATTAAAATA
1 TTTTATATATAAAAATA
35670405 ATAAAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATATATAAAAATA
Found at i:35670872 original size:118 final size:118
Alignment explanation
Indices: 35670701--35671416 Score: 1362
Period size: 118 Copynumber: 6.1 Consensus size: 118
35670691 CGTTAAGATA
* * * * *
35670701 ACTAAAATTTTTATCATTCAACTAAATTAATTCTAACTAGGCGCAAACCTTATTTATTATTA-TT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
*
35670765 ATTTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 A-TTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35670819 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
35670884 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35670937 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
35671002 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35671055 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
35671120 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35671173 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
35671238 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35671291 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
35671356 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
35671409 ACTAACAT
1 ACTAACAT
35671417 ATAATTATGT
Statistics
Matches: 591, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
118 588 0.99
119 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.41
Consensus pattern (118 bp):
ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
ATTACCCAAACTCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
Found at i:35672857 original size:154 final size:151
Alignment explanation
Indices: 35672479--35673299 Score: 1115
Period size: 150 Copynumber: 5.4 Consensus size: 151
35672469 TAATTGTTCG
* * *
35672479 TATTTCGGCCATTTGTTCGTATTTTTTCTT--AGATTTTAGTACTTTTAAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTT-TTCCAGATTTTATTACTTTTAAAAAATATACTATTTT
* * *
35672542 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGTT
65 CTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
*
35672607 TTAAATAAATTAAAAAAACTCT
130 TTAAATAAATTTAAAAAACTCT
* *
35672629 TATTTCAGCCCTTTGTTCATATTTTTTTTCCTCAGATTTTATTACTTTTAAAAAATATACTA-TT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTT-C-CAGATTTTATTACTTTTAAAAAATATACTATTT
* *
35672693 TCATAATTTTATAATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTATT
64 TC-TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-GT
**
35672758 TTTTTATTTAAATTTAAAAAACTCT
127 TTTTTAAATAAATTTAAAAAACTCT
* * * *
35672783 TATTTCGGTCCTTTGTTCGTATTTTTTTTCCAGATATTATTCCTTTTAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTT-A-AAAAATATACTATTT
* *
35672848 TCGT-ATTTTATTATTTTACT-TTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGT
64 TC-TAATTTTATTATTTTA-TATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGT
*
35672911 TTTTTAAAGAAA-TTAAAAAAC-CAT
127 TTTTTAAATAAATTTAAAAAACTC-T
* *
35672935 TATTTCGGCCCTTTGTTCTTATTTTTTTCCCAGATTTTATTAC-TTTAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTTAAAAAATATACTATTTTC
35672999 TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTT
66 TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
*
35673063 TAAATAAATTTAAAAAAATCCT
131 TAAATAAATTTAAAAAACT-CT
* * ** * *
35673085 TATTTCGACCATTTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAATAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTTAAAAAATATACTATTTTC
*
35673150 TAA-TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
66 TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
*
35673214 TAAATAAATTTAAAAAAACCCCT
131 TAAATAAATTT-AAAAAA-CTCT
* *
35673237 TATTTCGGCCCTTTGTTCGTATTTTTTTACC-GTATTTTTTTACTTTCAATAAAAAATATACTA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTTCCAG-ATTTTATTACTTT---TAAAAAATATACTA
35673300 AATGAATACA
Statistics
Matches: 594, Mismatches: 53, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
148 13 0.02
149 80 0.13
150 120 0.20
151 43 0.07
152 114 0.19
153 95 0.16
154 111 0.19
155 18 0.03
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTTAAAAAATATACTATTTTC
TAATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
TAAATAAATTTAAAAAACTCT
Found at i:35673272 original size:13 final size:13
Alignment explanation
Indices: 35673254--35673279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35673244 GCCCTTTGTT
35673254 CGTATTTTTTTAC
1 CGTATTTTTTTAC
35673267 CGTATTTTTTTAC
1 CGTATTTTTTTAC
35673280 TTTCAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CGTATTTTTTTAC
Found at i:35675717 original size:21 final size:21
Alignment explanation
Indices: 35675674--35675717 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35675664 CCAATTAATT
* * *
35675674 AACCTATTCAAAATATGATAA
1 AACCTACTCAAAACATGACAA
*
35675695 AACCTACTCAAAACATGCCAA
1 AACCTACTCAAAACATGACAA
35675716 AA
1 AA
35675718 TAATCATCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
AACCTACTCAAAACATGACAA
Found at i:35676990 original size:17 final size:17
Alignment explanation
Indices: 35676959--35676991 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35676949 TACCAAATCA
35676959 ATAACATTCAATCAACT
1 ATAACATTCAATCAACT
35676976 ATAA-ATTCAATTCAAC
1 ATAACATTCAA-TCAAC
35676992 CTCAAAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAACATTCAATCAACT
Found at i:35689090 original size:23 final size:23
Alignment explanation
Indices: 35689063--35689115 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
35689053 ATATCCATCG
35689063 GTTTATTCGATCTATCTTCTATTT
1 GTTTATTCGATC-ATCTTCTATTT
* * *
35689087 -TTTATTCTATCATTTTTTATTT
1 GTTTATTCGATCATCTTCTATTT
35689109 GTTTATT
1 GTTTATT
35689116 ATTTTGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (23 bp):
GTTTATTCGATCATCTTCTATTT
Found at i:35691590 original size:24 final size:23
Alignment explanation
Indices: 35691539--35691591 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
35691529 TTCCTATTAT
35691539 CATTTTATTTTCTTTTCTTTTCA
1 CATTTTATTTTCTTTTCTTTTCA
*
35691562 AATTTTAATTTT-TCTTTCTCTTTC-
1 CATTTT-ATTTTCT-TTTCT-TTTCA
35691586 CATTTT
1 CATTTT
35691592 CCCAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (23 bp):
CATTTTATTTTCTTTTCTTTTCA
Found at i:35692201 original size:14 final size:14
Alignment explanation
Indices: 35692182--35692208 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35692172 AGACACAGTG
35692182 GTGTGGTCGTGTGA
1 GTGTGGTCGTGTGA
35692196 GTGTGGTCGTGTG
1 GTGTGGTCGTGTG
35692209 GGCCCACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.07, G:0.52, T:0.37
Consensus pattern (14 bp):
GTGTGGTCGTGTGA
Found at i:35693860 original size:20 final size:20
Alignment explanation
Indices: 35693835--35693878 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
35693825 AACATTAAAT
*
35693835 TAAATTTGATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
35693855 TAAATTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
35693875 TAAA
1 TAAA
35693879 ATACTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:35704142 original size:21 final size:21
Alignment explanation
Indices: 35704116--35704190 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
35704106 GGGGGATTAG
35704116 TCTTACGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
35704137 TCTTACGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
* *
35704158 TTTTATGAGCTTCTGTTCAGC
1 TCTTACGAGCTTCTGTTCAGC
35704179 T-TT-CGAGCTTCT
1 TCTTACGAGCTTCT
35704191 ATTGACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 8 0.16
20 2 0.04
21 41 0.80
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (21 bp):
TCTTACGAGCTTCTGTTCAGC
Found at i:35707301 original size:13 final size:13
Alignment explanation
Indices: 35707268--35707311 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
35707258 TTTAATTGAC
*
35707268 AAATTAATGTAGTT
1 AAATTAAT-TAATT
*
35707282 AAGTTAATTAATT
1 AAATTAATTAATT
*
35707295 AAATTAATTATTT
1 AAATTAATTAATT
35707308 AAAT
1 AAAT
35707312 AAATAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:35714283 original size:21 final size:21
Alignment explanation
Indices: 35714249--35714289 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35714239 GGGGGAAAGT
*
35714249 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
35714270 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
35714290 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:35714284 original size:29 final size:30
Alignment explanation
Indices: 35714225--35714284 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35714215 GAGGGGAGGG
* * **
35714225 GAGTAAAAGTTTTGGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
35714255 GAGTAAAAGTTTTGAGGGAAAAGT-AAAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
35714284 G
1 G
35714285 GTTTGGGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTGAGGGAAAAGTGAAAAA
Found at i:35714793 original size:4 final size:4
Alignment explanation
Indices: 35714777--35714845 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
35714767 TCAAAATTGA
* * * **
35714777 AAAT AAGT AAAT AAAT AAAT -ATT AAAT GAAAT -ATT AAAT AAA- ATTT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
*
35714823 TAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
35714846 AACAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
3 5 0.10
4 40 0.82
5 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:35714808 original size:12 final size:11
Alignment explanation
Indices: 35714788--35714843 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
35714778 AATAAGTAAA
35714788 TAAATAAATAT
1 TAAATAAATAT
35714799 TAAATGAAATAT
1 TAAAT-AAATAT
35714811 TAAATAAA-ATT
1 TAAATAAATA-T
* *
35714822 TTAATAAATAAA
1 TAAATAAAT-AT
35714834 TAAATAAATA
1 TAAATAAATA
35714844 AAAACAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 17 0.45
12 19 0.50
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:35716949 original size:5 final size:5
Alignment explanation
Indices: 35716939--35716973 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
35716929 AAGCCGAAAA
35716939 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG -GAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
35716974 ACAAGAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:35716979 original size:15 final size:15
Alignment explanation
Indices: 35716939--35716981 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35716929 AAGCCGAAAA
*
35716939 AGAAGAGAAGAGAAG
1 AGAAGACAAGAGAAG
*
35716954 AGAAGAGAAGAGAAG
1 AGAAGACAAGAGAAG
35716969 -GAAGAACAAGAGA
1 AGAAG-ACAAGAGA
35716982 TGATAGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.00
Consensus pattern (15 bp):
AGAAGACAAGAGAAG
Found at i:35719904 original size:15 final size:16
Alignment explanation
Indices: 35719870--35719909 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
35719860 TATATATTCT
35719870 TTTTATTTTAAATTAG
1 TTTTATTTTAAATTAG
*
35719886 TTTTATTTTAATTTA-
1 TTTTATTTTAAATTAG
*
35719901 TTTTCTTTT
1 TTTTATTTT
35719910 CCCAAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAAATTAG
Found at i:35720367 original size:51 final size:51
Alignment explanation
Indices: 35720307--35720459 Score: 297
Period size: 51 Copynumber: 3.0 Consensus size: 51
35720297 CTCTGAGTAA
35720307 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
35720358 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
*
35720409 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTATTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
35720460 TTTCACTATG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (51 bp):
GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
Found at i:35720846 original size:21 final size:21
Alignment explanation
Indices: 35720798--35720839 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35720788 AACAATCCAT
* *
35720798 TAACAAAATTACAGGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
35720819 TAACAAAAGTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
35720840 ATACAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.24, G:0.10, T:0.12
Consensus pattern (21 bp):
TAACAAAAGTACAAGCCCAAA
Found at i:35731067 original size:40 final size:40
Alignment explanation
Indices: 35731016--35731428 Score: 682
Period size: 40 Copynumber: 10.3 Consensus size: 40
35731006 TTATACTCTT
* * * **
35731016 TGTCTAGTGTGTTTTGGTTGGATTAGCTCCGATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
* * * *
35731056 GGCCTGTTGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
35731096 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
35731136 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
35731176 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
35731216 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
35731256 TGACTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
35731296 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
35731336 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
* *
35731376 TGTTTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTT
1 TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
*
35731416 TGTTTGGTGTGTT
1 TGTCTGGTGTGTT
35731429 CGGTTGATCT
Statistics
Matches: 356, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 356 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.46
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTC
Found at i:35733245 original size:28 final size:28
Alignment explanation
Indices: 35733214--35733269 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35733204 TGAGAGATGG
35733214 GCATGTGTCTTAGACATGTGAGTCACAC
1 GCATGTGTCTTAGACATGTGAGTCACAC
35733242 GCATGTGTCTTAGACATGTGAGTCACAC
1 GCATGTGTCTTAGACATGTGAGTCACAC
35733270 AATCTGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (28 bp):
GCATGTGTCTTAGACATGTGAGTCACAC
Found at i:35737569 original size:6 final size:6
Alignment explanation
Indices: 35737558--35737587 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
35737548 ACAAATGAAT
*
35737558 CATTTC CATTTC CATTTC CATTTC TATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC
35737588 AAAAACTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:35739656 original size:27 final size:27
Alignment explanation
Indices: 35739625--35739786 Score: 143
Period size: 27 Copynumber: 6.0 Consensus size: 27
35739615 GAGACCCTCA
*
35739625 ATTTGTAAAATTACTGAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCCTG
* * *
35739652 ATTTGCAAAATTATTGAAATACCCCT-
1 ATTTGTAAAATTACTAAAATACCCCTG
* *
35739678 AGTGTGTAAAATTACTAAAATATCCCC-A
1 A-TTTGTAAAATTACTAAAATA-CCCCTG
* *
35739706 ATTTGTAAAATTA-TCAAAACACCCCAG
1 ATTTGTAAAATTACT-AAAATACCCCTG
* * * *
35739733 ACTTGTGAAATTACCAAAATACCTCT-
1 ATTTGTAAAATTACTAAAATACCCCTG
*
35739759 AGTTTGTGAAATTACTAAAATACCCCTG
1 A-TTTGTAAAATTACTAAAATACCCCTG
35739787 TAGAGTAGGA
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
26 7 0.06
27 97 0.89
28 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCCTG
Found at i:35740295 original size:28 final size:28
Alignment explanation
Indices: 35740243--35740306 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
35740233 TACTGCATAA
* *
35740243 TGTTTCTGTATTGGGCGAAGGCCCACCT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
* *
35740271 TGTTTCTGTATTGGGCTAAATCCCACAT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
35740299 TG-TTCTGT
1 TGTTTCTGT
35740307 TCTGTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCGAAAGCCCACAT
Found at i:35743415 original size:55 final size:55
Alignment explanation
Indices: 35743366--35743502 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
35743356 CACACGATAG
* **
35743366 TGTCGCAGATCATGTGCCAAACCATGTGTGCATTTTATGTTGGGTCACACAACCA
1 TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
* * * *
35743421 TGTCGTAGGCCGTGTGCCAAACCGTGTGTGCATTCGATGTTGGGTCACACAACCA
1 TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
* * *
35743476 TGTCGTAGGCCGTGTGCCAAACCATGT
1 TGTCGCAGACCATGTGCCAAACCATGT
35743503 TACATACTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (55 bp):
TGTCGCAGACCATGTGCCAAACCATGTGTGCATTCGATGTTGGGTCACACAACCA
Found at i:35745016 original size:16 final size:17
Alignment explanation
Indices: 35744980--35745016 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
35744970 TATTATCATT
35744980 ACATAAATATTTATGTA
1 ACATAAATATTTATGTA
35744997 ACATAAATATTTAT-TA
1 ACATAAATATTTATGTA
35745013 ACAT
1 ACAT
35745017 TACATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
ACATAAATATTTATGTA
Found at i:35745021 original size:21 final size:20
Alignment explanation
Indices: 35744970--35745022 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 20
35744960 TTTTGATACA
35744970 TATTATCATTACATAAATATT
1 TATTA-CATTACATAAATATT
35744991 TATGT--A--ACATAAATATT
1 TAT-TACATTACATAAATATT
35745008 TATTAACATTACATA
1 TATT-ACATTACATA
35745023 CAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
16 1 0.04
17 14 0.54
19 2 0.08
21 8 0.31
22 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTACATTACATAAATATT
Found at i:35746641 original size:29 final size:29
Alignment explanation
Indices: 35746586--35746641 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
35746576 TAACAAAGCA
* *
35746586 AACGTGAGTAACGTGAAGGGGATGAGGAG
1 AACGTGAGTAACGTGAAGGAGAGGAGGAG
35746615 AACGTGAGTAACGTG-AGAGAGAGGAGG
1 AACGTGAGTAACGTGAAG-GAGAGGAGG
35746642 GGGACTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.07, G:0.45, T:0.12
Consensus pattern (29 bp):
AACGTGAGTAACGTGAAGGAGAGGAGGAG
Found at i:35753239 original size:26 final size:26
Alignment explanation
Indices: 35753201--35753250 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35753191 TGGAATAAAA
*
35753201 AGGGGTCGGTAAGTGTAGATTCCCTG
1 AGGGGTCGCTAAGTGTAGATTCCCTG
* *
35753227 AGGGGTTGCTAAGTGTTGATTCCC
1 AGGGGTCGCTAAGTGTAGATTCCC
35753251 CAAATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGTAGATTCCCTG
Found at i:35753357 original size:42 final size:41
Alignment explanation
Indices: 35753277--35753537 Score: 251
Period size: 42 Copynumber: 6.2 Consensus size: 41
35753267 GAGGTGGTAA
* *
35753277 GTGCTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* *
35753320 GTGTTGATTCCCCGTATTATTGAATATAAAGGTGGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
* *
35753362 GTGCTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* *
35753405 GTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
* * *
35753447 GTGTTGATTCCACCGTATCT-TTGATTGTGAAAGGGGTTGCTAT
1 GTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGGGTTGCTAT
* * * *
35753490 GTGCTGATTCCCCGTATCATTGAAT-TTAAGGTAGTTGCTAA
1 GTGCTGATTCCCCGTATTATTGAATATAAAGG-GGTTGCTAT
35753531 GTGCTGA
1 GTGCTGA
35753538 ATCCACCGAG
Statistics
Matches: 183, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
40 4 0.02
41 27 0.15
42 70 0.38
43 70 0.38
44 12 0.07
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (41 bp):
GTGCTGATTCCCCGTATTATTGAATATAAAGGGGTTGCTAT
Found at i:35753396 original size:85 final size:85
Alignment explanation
Indices: 35753227--35753545 Score: 468
Period size: 85 Copynumber: 3.8 Consensus size: 85
35753217 AGATTCCCTG
* * * ** * *
35753227 AGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGGCTCTAGAGGT-G--G-TAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
35753288 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
35753308 AGGGGTTGCTATGTGTTGATTCCCCGTATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
35753373 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
*
35753393 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
35753458 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * * * *
35753478 AGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TTAAGGTAGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
35753542 ACCG
66 ACCG
35753546 AGTAACGGTT
Statistics
Matches: 218, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
81 38 0.17
82 1 0.00
84 28 0.13
85 151 0.69
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:35753400 original size:43 final size:43
Alignment explanation
Indices: 35753274--35753545 Score: 303
Period size: 43 Copynumber: 6.4 Consensus size: 43
35753264 CTAGAGGTGG
35753274 TAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * * *
35753317 TATGTGTTGATTCC-CCGTAT-TATTGAATATAAAGGTGGTTGC
1 TAAGTGCTGATTCCACCGTATCT-TTGATTGTAAAGGTGGTTGC
35753359 TAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * * *
35753402 TATGTGCTGATTCC-CCATAT-TATTGAATATAAAGGTGGTTGC
1 TAAGTGCTGATTCCACCGTATCT-TTGATTGTAAAGGTGGTTGC
*
35753444 TAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTGATTGT-AAAGGTGGTTGC
* * *
35753487 TATGTGCTGATTCC-CCGTATCATTGAATT-T-AAGGTAGTTGC
1 TAAGTGCTGATTCCACCGTATCTTTG-ATTGTAAAGGTGGTTGC
*
35753528 TAAGTGCTGAATCCACCG
1 TAAGTGCTGATTCCACCG
35753546 AGTAACGGTT
Statistics
Matches: 193, Mismatches: 23, Indels: 27
0.79 0.09 0.11
Matches are distributed among these distances:
40 4 0.02
41 29 0.15
42 73 0.38
43 75 0.39
44 12 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
TAAGTGCTGATTCCACCGTATCTTTGATTGTAAAGGTGGTTGC
Found at i:35762509 original size:28 final size:28
Alignment explanation
Indices: 35762426--35762509 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
35762416 CAGTAACAGC
*
35762426 ATAGTGTGGGCCTTAGCCCAATACAATA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
* *
35762454 AAAGTGTGAGCCTTAGCCCAATACAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
*
35762482 ATAGTGTGGGCCTTAGCCCAATATAGTA
1 ATAGTGTGGGCCTTAGCCCAATACAGTA
35762510 TCAATATAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
ATAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:35762664 original size:26 final size:26
Alignment explanation
Indices: 35762617--35762670 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
35762607 AATACACCAA
* *
35762617 TATCGCAGCAAAGCTACTAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* *
35762643 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
35762669 TA
1 TA
35762671 AATGTGGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:35762880 original size:27 final size:27
Alignment explanation
Indices: 35762850--35762959 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
35762840 TCATCTCTTA
*
35762850 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
** *
35762877 GGGGTAT-TTTGATCATTTTACCATATG
1 GGGGTATATCAG-TCATTTTACCCTATG
* *
35762904 GGGGTATTTCAGTCATTTTATCCTATG
1 GGGGTATATCAGTCATTTTACCCTATG
*
35762931 GGGGTA-ATTCAGTTATTTTACCCTATG
1 GGGGTATA-TCAGTCATTTTACCCTATG
35762958 GG
1 GG
35762960 TATTTATGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 66 0.96
28 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (27 bp):
GGGGTATATCAGTCATTTTACCCTATG
Found at i:35762949 original size:54 final size:54
Alignment explanation
Indices: 35762850--35762959 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
35762840 TCATCTCTTA
**
35762850 GGGGTATAACAGTCATTTTACCCTATGGGGGTATTTTGATCATTTTACCATATG
1 GGGGTATAACAGTCATTTTACCCTATGGGGGTATTCAGATCATTTTACCATATG
** * * *
35762904 GGGGTATTTCAGTCATTTTATCCTATGGGGGTAATTCAG-TTATTTTACCCTATG
1 GGGGTATAACAGTCATTTTACCCTATGGGGGT-ATTCAGATCATTTTACCATATG
35762958 GG
1 GG
35762960 TATTTATGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 44 0.92
55 4 0.08
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (54 bp):
GGGGTATAACAGTCATTTTACCCTATGGGGGTATTCAGATCATTTTACCATATG
Found at i:35773650 original size:19 final size:19
Alignment explanation
Indices: 35773605--35773655 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
35773595 GTATTTTATA
35773605 ATATTATAAATTTAATTCT
1 ATATTATAAATTTAATTCT
*
35773624 GTGA-TATAAA-TTATATTCT
1 AT-ATTATAAATTTA-ATTCT
35773643 ATATTATAAATTT
1 ATATTATAAATTT
35773656 GACATTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 4 0.15
19 19 0.73
20 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATTATAAATTTAATTCT
Found at i:35781627 original size:15 final size:15
Alignment explanation
Indices: 35781607--35781635 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35781597 TTAATAGAGA
35781607 GTACTTCTATTAGAT
1 GTACTTCTATTAGAT
35781622 GTACTTCTATTAGA
1 GTACTTCTATTAGA
35781636 ATAGTACGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (15 bp):
GTACTTCTATTAGAT
Found at i:35787468 original size:19 final size:19
Alignment explanation
Indices: 35787444--35787596 Score: 252
Period size: 19 Copynumber: 7.9 Consensus size: 19
35787434 AATTTTTGAG
35787444 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
35787463 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
35787482 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35787501 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
35787522 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
35787541 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
35787560 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35787579 GATATGCAATCTTAGATA
1 GATATGCAATCTTAGATA
35787597 ATATGATTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
19 105 0.85
21 19 0.15
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:35787511 original size:59 final size:59
Alignment explanation
Indices: 35787445--35787596 Score: 281
Period size: 59 Copynumber: 2.6 Consensus size: 59
35787435 ATTTTTGAGG
35787445 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
35787504 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
*
35787563 ATAT--AATCTTAGATATGATATGCAATCTTAGATA
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATA
35787597 ATATGATTTT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
57 29 0.32
59 63 0.68
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:35788374 original size:22 final size:22
Alignment explanation
Indices: 35788335--35788391 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
35788325 CTTATTTTTT
*
35788335 ATTATTTTATATATGTATGTATA
1 ATTATTTT-TTTATGTATGTATA
35788358 ATTATTTTTTTATGTATGTATA
1 ATTATTTTTTTATGTATGTATA
35788380 ATTATTATTTTT
1 ATTATT-TTTTT
35788392 CTTTATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTATTTTTTTATGTATGTATA
Found at i:35792578 original size:18 final size:15
Alignment explanation
Indices: 35792541--35792597 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
35792531 CAGATTCAAT
35792541 CAAAAAAAAGAAGAA
1 CAAAAAAAAGAAGAA
35792556 CAAAAAAAAGAAGAA
1 CAAAAAAAAGAAGAA
*
35792571 C-AAAAAAAGAACAA
1 CAAAAAAAAGAAGAA
*
35792585 AAAACAAAAAGAA
1 CAAA-AAAAAGAA
35792598 ACAAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 12 0.32
15 18 0.47
16 8 0.21
ACGTcount: A:0.81, C:0.09, G:0.11, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAGAAGAA
Found at i:35792582 original size:26 final size:29
Alignment explanation
Indices: 35792545--35792604 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 29
35792535 TTCAATCAAA
*
35792545 AAAAAGAAGAACAAAAAA-AAGAAG-AAC
1 AAAAAGAAGAACAAAAAACAAAAAGAAAC
35792572 AAAAA-AAGAACAAAAAACAAAAAGAAAC
1 AAAAAGAAGAACAAAAAACAAAAAGAAAC
35792600 AAAAA
1 AAAAA
35792605 CTTCTACCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.40
27 10 0.33
28 8 0.27
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (29 bp):
AAAAAGAAGAACAAAAAACAAAAAGAAAC
Found at i:35794505 original size:132 final size:132
Alignment explanation
Indices: 35794266--35794736 Score: 685
Period size: 132 Copynumber: 3.6 Consensus size: 132
35794256 NNNNNNNNNA
*
35794266 AGTACATTGAAGCCAGTAATTCTACTTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCAGATC
1 AGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATC
*
35794331 TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGT
66 TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGT
35794396 GG
131 GG
* * *
35794398 AGTACATTGAAGCCAATAATTTTACTTCCCTGGGCAACAGTGGAATAGATTGAATATTTCAGATC
1 AGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATC
* * * ** *
35794463 TTTTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACGGATTTTACCTCCATGTGGTTACAGT
66 TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGT
35794528 GG
131 GG
* * *
35794530 AGTACATTGAAGCTAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATC
1 AGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATC
* * * *
35794595 TTATCTCCCTAAGTAGTAGTGGAGTATATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGT
66 TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGT
35794660 GG
131 GG
* * * * * * *
35794662 AGTACATTGAAGTCAGTAATCCTA-TCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-
1 AGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGA
35794725 TCTTATCTCCCT
64 TCTTATCTCCCT
35794737 GCAGTTGCAG
Statistics
Matches: 301, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 297 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (132 bp):
AGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGT
GG
Found at i:35794616 original size:44 final size:44
Alignment explanation
Indices: 35794304--35794617 Score: 110
Period size: 44 Copynumber: 7.1 Consensus size: 44
35794294 CTTGGGCAAC
35794304 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
** * * ** * * * ** *
35794348 AGTGGAGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAG-CAGT
* * * * ** **
35794393 AGTGGAGTACATTGAAGCCA-AT-A-ATTTTA-CTTCCCTGGGCAAC
1 AGTGGAATAGATTGAAG--ATTTCAGATCTTATC-TCCCTAAGCAGT
* *
35794436 AGTGGAATAGATTGAATATTTCAGATCTTTTCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
** * * * * * **
35794480 AGTGGAGCAGATTGAAGATTACGGATTTTACCT-CC-ATGTGGTT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG-T
* * * * * *
35794523 ACAGTGGAGTACATTGAAGCTAGT-A-AT-TCTA-CTTCCCTAGGCAAT
1 --AGTGGAATAGATTGAAGAT-TTCAGATCT-TATC-TCCCTAAGCAGT
*
35794568 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
35794612 AGTGGA
1 AGTGGA
35794618 GTATATCGAA
Statistics
Matches: 189, Mismatches: 59, Indels: 44
0.65 0.20 0.15
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 40 0.21
44 100 0.53
45 38 0.20
46 3 0.02
47 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
Found at i:35814816 original size:10 final size:10
Alignment explanation
Indices: 35814799--35814829 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
35814789 CAAATTATTA
35814799 TATTTTTTTC
1 TATTTTTTTC
*
35814809 TTTTTTTTTC
1 TATTTTTTTC
35814819 TATTTTTTTC
1 TATTTTTTTC
35814829 T
1 T
35814830 GCTTTAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (10 bp):
TATTTTTTTC
Found at i:35815869 original size:9 final size:10
Alignment explanation
Indices: 35815855--35815897 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
35815845 ATTAATATCC
35815855 AAAT-AAGTA
1 AAATAAAGTA
*
35815864 AAATAAAATA
1 AAATAAAGTA
35815874 AAATAAAGTAA
1 AAATAAAGT-A
35815885 TAAATAAAGTA
1 -AAATAAAGTA
35815896 AA
1 AA
35815898 GAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:35815886 original size:27 final size:28
Alignment explanation
Indices: 35815856--35815908 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
35815846 TTAATATCCA
* *
35815856 AATAAGTAAAATAAA-ATAAAATAAAGT
1 AATAAATAAAATAAAGAAAAAATAAAGT
*
35815883 AATAAATAAAGTAAAGAAAAAATAAA
1 AATAAATAAAATAAAGAAAAAATAAA
35815909 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.19
Consensus pattern (28 bp):
AATAAATAAAATAAAGAAAAAATAAAGT
Found at i:35815888 original size:13 final size:12
Alignment explanation
Indices: 35815855--35815923 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 12
35815845 ATTAATATCC
35815855 AAATAAGTAAAAT
1 AAATAA-TAAAAT
35815868 -AA-AATAAAAT
1 AAATAATAAAAT
35815878 AAAGTAAT-AAAT
1 AAA-TAATAAAAT
35815890 AAAGTAA-AGAAA-
1 AAA-TAATA-AAAT
35815902 AAATAA-AAAAT
1 AAATAATAAAAT
35815913 AAA-AATAAAAT
1 AAATAATAAAAT
35815924 TGGGTTGCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
10 11 0.22
11 16 0.33
12 16 0.33
13 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:35815891 original size:17 final size:16
Alignment explanation
Indices: 35815868--35815909 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
35815858 TAAGTAAAAT
35815868 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAG-AA
* *
35815885 TAAATAAAGTAAAGAA
1 AAAATAAAATAAAGAA
35815901 AAAATAAAA
1 AAAATAAAA
35815910 AATAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAGAA
Found at i:35815913 original size:27 final size:27
Alignment explanation
Indices: 35815855--35815915 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
35815845 ATTAATATCC
* *
35815855 AAATAAGTAAAATAAAATAAAATAAAG
1 AAATAAATAAAATAAAAAAAAATAAAG
* *
35815882 TAATAAATAAAGTAAAGAAAAAATAAA-
1 AAATAAATAAAATAAA-AAAAAATAAAG
35815909 AAATAAA
1 AAATAAA
35815916 AATAAAATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (27 bp):
AAATAAATAAAATAAAAAAAAATAAAG
Found at i:35815922 original size:12 final size:11
Alignment explanation
Indices: 35815863--35815922 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
35815853 CCAAATAAGT
35815863 AAAATAAAAT-
1 AAAATAAAATA
*
35815873 AAAATAAAGTA
1 AAAATAAAATA
*
35815884 ATAAATAAAGTA
1 A-AAATAAAATA
35815896 AAGAA-AAAATAA
1 AA-AATAAAAT-A
35815908 AAAATAAAAATA
1 AAAAT-AAAATA
35815920 AAA
1 AAA
35815923 TTGGGTTGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
10 9 0.21
11 8 0.19
12 20 0.48
13 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:35825180 original size:23 final size:22
Alignment explanation
Indices: 35825150--35825192 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
35825140 CTTAGTTAAC
35825150 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
35825173 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
35825193 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:35826778 original size:25 final size:26
Alignment explanation
Indices: 35826740--35826788 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
35826730 GAATTAGTAG
35826740 AAAACAAATAATATTTATTTAATAGA
1 AAAACAAATAATATTTATTTAATAGA
*
35826766 AAAACTAAT-ATATTTATTTAATA
1 AAAACAAATAATATTTATTTAATA
35826789 AAATTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAACAAATAATATTTATTTAATAGA
Found at i:35836595 original size:142 final size:143
Alignment explanation
Indices: 35836325--35836610 Score: 538
Period size: 142 Copynumber: 2.0 Consensus size: 143
35836315 GTCTATTAAG
35836325 CAAGCAACCCTATGCTTCAACAACACTTTGCATCAACAGCCTATGCTTCCACCCCTAGATTAAAA
1 CAAGCAACCCTA-GCTTCAACAACACTTTGCATCAACAGCCTATGCTTCCACCCCTAGATTAAAA
**
35836390 ACCAAGTCTCCTAGATCCTTTAATAAGAATCTCAGTTAAAGTTTTTGTTACTATTAATGTAAAAG
65 ACCAAGTCTCCTAGATCCTTTAATAAGAAAATCAGTTAAAGTTTTTGTTACTATTAATGTAAAAG
35836455 TCATATATATATAT
130 TCATATATATATAT
35836469 CAAGCAACCCTA-CTTCAACAACACTTTGCATCAACAGCCTATGCTTCCACCCCTAGATTAAAAA
1 CAAGCAACCCTAGCTTCAACAACACTTTGCATCAACAGCCTATGCTTCCACCCCTAGATTAAAAA
35836533 CCAAGTCTCCTAGATCCTTTAATAAGAAAATCAGTTAAAGTTTTTGTTACTATTAATGTAAAAGT
66 CCAAGTCTCCTAGATCCTTTAATAAGAAAATCAGTTAAAGTTTTTGTTACTATTAATGTAAAAGT
35836598 CATATATATATAT
131 CATATATATATAT
35836611 ATATATATAT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
142 128 0.91
144 12 0.09
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (143 bp):
CAAGCAACCCTAGCTTCAACAACACTTTGCATCAACAGCCTATGCTTCCACCCCTAGATTAAAAA
CCAAGTCTCCTAGATCCTTTAATAAGAAAATCAGTTAAAGTTTTTGTTACTATTAATGTAAAAGT
CATATATATATAT
Found at i:35836606 original size:2 final size:2
Alignment explanation
Indices: 35836599--35836635 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
35836589 TGTAAAAGTC
*
35836599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35836636 TTTGTAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:35850100 original size:18 final size:19
Alignment explanation
Indices: 35850077--35850125 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
35850067 GCAAATATAT
*
35850077 AATAAAAAG-AAATCAACA
1 AATAAAAAGTAAATAAACA
35850095 AAT-AAAAGTAAATAAACA
1 AATAAAAAGTAAATAAACA
*
35850113 AATAAAAATTAAA
1 AATAAAAAGTAAA
35850126 GCACTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 8 0.30
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAAGTAAATAAACA
Found at i:35852294 original size:46 final size:46
Alignment explanation
Indices: 35852238--35853034 Score: 1120
Period size: 46 Copynumber: 17.4 Consensus size: 46
35852228 CTGCTTAGGG
* * * **
35852238 AGACAGGATCTGCAATCTTCGATCTACTTCATTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
35852284 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
35852330 TGACAAGATCTTCTATCTTCGATCTACTCCACTGCCCAAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTG-CCAAATACAGGA
* *
35852377 AGACAAGATCTTCTATCTTCGATCTACTCCACTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
35852423 AGACAAGATCTTCTATCTTCGATCTACTTCACTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
35852469 AGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
35852515 AGACAAGATCTACTATCTTTGATCTCCTCTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * **
35852561 AGAAAAGATCTGCTATCTACGATCTCCTCCATTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* *
35852607 AGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * **
35852653 AGACAAGATCTTCTATCTTCGATTTACTTTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
35852699 AGACAAGATCTGCTATCTTCGATAC-ACTCTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGAT-CTACTCCGCTGCCAAATACAGGA
35852745 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
35852791 AGACAAGATCTGCTATATTCGATCTCCTCTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * **
35852837 AGACAAGATCTGCTATCTACGATCTCCTCCATTGCCAAATACA-G-
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
35852881 -G-CAAGATCTTCTTTCTTTGATCTACTCCGCTGCCAAATACAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
35852925 AGACAAGATCTGCTATCTTCGATCTACTCCGCTACCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* *
35852971 AGACAAGATCTGCTTTCTTTGATCTACTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
35853017 AGACTAGATCTGCT-TCTT
1 AGACAAGATCTGCTATCTT
35853035 TTAGTCCATT
Statistics
Matches: 681, Mismatches: 63, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
42 33 0.05
43 2 0.00
45 7 0.01
46 595 0.87
47 44 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
Found at i:35854109 original size:108 final size:106
Alignment explanation
Indices: 35853923--35854238 Score: 416
Period size: 97 Copynumber: 3.0 Consensus size: 106
35853913 AAATGCTTGA
* * * * *
35853923 AAAAGATTATCAAAATGGACAAGATGAAATTTTATTGAGAATAAGGCTCAAAATGAATAAATTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAAAACAAAGCTCGAAATGAATAAATTAA
* *
35853988 TCAAAATAACAAATTTTGCTAAGATATGAACTGAATAAGATG
66 TCAAGATAGCAAATTTTGCTAAGATATGAA-TGAATAAGATG
*
35854030 AAAAGGGTTATCACAATGGACAAGATGAAATTTTATTGAAAACAAAGCTCGAAATGAATAAATTA
1 AAAA-GATTATCACAATGGACAAGATGAAATTTTATTGAAAACAAAGCTCGAAATGAATAAATTA
35854095 ATCAAGATAGCAAATTTTGCTAAG--AT-AA-G-AT--GA--
65 ATCAAGATAGCAAATTTTGCTAAGATATGAATGAATAAGATG
* * * *
35854128 AAAAGATTATCACAATGGATAAGATGAAATTTTATTGAAAGCACAGCTTGAAATGAATAAATTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAAAACAAAGCTCGAAATGAATAAATTAA
* *
35854193 TTAAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGATG
66 TCAAGATAGCAAATTTTGCTAAGATATG-AATGAATAAGATG
35854235 AAAA
1 AAAA
35854239 CAGGTGCCCC
Statistics
Matches: 183, Mismatches: 15, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
97 78 0.43
98 4 0.02
99 1 0.01
100 2 0.01
101 2 0.01
102 3 0.02
103 3 0.02
105 4 0.02
106 2 0.01
107 8 0.04
108 76 0.42
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (106 bp):
AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAAAACAAAGCTCGAAATGAATAAATTAA
TCAAGATAGCAAATTTTGCTAAGATATGAATGAATAAGATG
Found at i:35854520 original size:5 final size:5
Alignment explanation
Indices: 35854504--35854584 Score: 57
Period size: 5 Copynumber: 16.8 Consensus size: 5
35854494 CCTCTCCTTT
* * *
35854504 TTTTC ATTTTC TTTTC TTTT- TCTTC TTTTC TTTT- TTATTT TTTTC ATTT-
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC
*
35854553 TTTTC -ATT- TTTTC TTTTC -TTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTT
35854585 TCTTCTCCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
4 16 0.27
5 33 0.55
6 11 0.18
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:35854524 original size:6 final size:6
Alignment explanation
Indices: 35854503--35854588 Score: 51
Period size: 6 Copynumber: 14.3 Consensus size: 6
35854493 GCCTCTCCTT
*
35854503 TTTTTC ATTTTC -TTTTC TTTTTC TTCTTTTC TTTTT- TATTTT- TTTCATT-
1 TTTTTC TTTTTC TTTTTC TTTTTC -T-TTTTC TTTTTC T-TTTTC TTT--TTC
35854552 TTTTTC ATTTTT- TCTTTTC --TTTC TTTTTC TTTTTC TT
1 TTTTTC -TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TT
35854589 CTCCTTTTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
4 4 0.06
5 11 0.16
6 35 0.52
7 12 0.18
8 5 0.07
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:35854547 original size:15 final size:14
Alignment explanation
Indices: 35854510--35854585 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
35854500 CTTTTTTTCA
*
35854510 TTTTCTTTTCTTTT
1 TTTTTTTTTCTTTT
* *
35854524 TCTTCTTTTCTTTT
1 TTTTTTTTTCTTTT
35854538 TTATTTTTTTCATTTT
1 TT-TTTTTTTC-TTTT
35854554 TTTCATTTTTTCTTTT
1 TTT--TTTTTTCTTTT
*
35854570 CTTTCTTTTTCTTTT
1 -TTTTTTTTTCTTTT
35854585 T
1 T
35854586 CTTCTCCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 15 0.28
15 18 0.34
16 10 0.19
17 10 0.19
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:35854556 original size:32 final size:31
Alignment explanation
Indices: 35854520--35854596 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
35854510 TTTTCTTTTC
*
35854520 TTTTTCTTCTTTTCTTTT-TTATTTTTTTCATT
1 TTTTTCTTCTTTTCTTTTCTT-TCTTTTTC-TT
35854552 TTTTTCATT-TTTTCTTTTCTTTCTTTTTCTT
1 TTTTTC-TTCTTTTCTTTTCTTTCTTTTTCTT
*
35854583 TTTCTTCTCCTTTT
1 TTT-TTCTTCTTTT
35854597 TTTGAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 6 0.15
32 29 0.74
33 4 0.10
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (31 bp):
TTTTTCTTCTTTTCTTTTCTTTCTTTTTCTT
Found at i:35854590 original size:15 final size:15
Alignment explanation
Indices: 35854515--35854590 Score: 70
Period size: 16 Copynumber: 5.0 Consensus size: 15
35854505 TTTCATTTTC
35854515 TTTTCTTTTTCTTC-
1 TTTTCTTTTTCTTCT
*
35854529 TTTTCTTTTT-TATTT
1 TTTTCTTTTTCT-TCT
35854544 TTTTCATTTTT-TTCAT
1 TTTTC-TTTTTCTTC-T
35854560 TTTT-TCTTTTCTTTCT
1 TTTTCT-TTTTC-TTCT
35854576 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCT
35854591 CCTTTTTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 12 0.23
15 14 0.27
16 21 0.40
17 4 0.08
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:35854659 original size:33 final size:33
Alignment explanation
Indices: 35854617--35854679 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
35854607 CTTTGATTGA
35854617 ATTCGAACTCGTAGGATCAGGTAAATCCTTGTT
1 ATTCGAACTCGTAGGATCAGGTAAATCCTTGTT
*
35854650 ATTCGAACTCGTAGGATCATGTAAATCCTT
1 ATTCGAACTCGTAGGATCAGGTAAATCCTT
35854680 ACTATCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (33 bp):
ATTCGAACTCGTAGGATCAGGTAAATCCTTGTT
Found at i:35859029 original size:18 final size:19
Alignment explanation
Indices: 35859006--35859054 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
35858996 GCAAATATAT
*
35859006 AATAAAAAG-AAATCAACA
1 AATAAAAAGTAAATAAACA
35859024 AAT-AAAAGTAAATAAACA
1 AATAAAAAGTAAATAAACA
*
35859042 AATAAAAATTAAA
1 AATAAAAAGTAAA
35859055 GCACTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 8 0.30
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAAGTAAATAAACA
Found at i:35861808 original size:23 final size:22
Alignment explanation
Indices: 35861778--35861820 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
35861768 CTTAGTTAAC
35861778 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
35861801 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
35861821 TTTTGAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:35879190 original size:19 final size:20
Alignment explanation
Indices: 35879151--35879190 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35879141 TTTATTTTAA
35879151 TTTTAAAGACAACATATTTT
1 TTTTAAAGACAACATATTTT
*
35879171 TTTTAAAGCCAACATATTTT
1 TTTTAAAGACAACATATTTT
35879191 AATGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTAAAGACAACATATTTT
Found at i:35887685 original size:23 final size:22
Alignment explanation
Indices: 35887655--35887697 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
35887645 CTTAGTTAAC
35887655 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
35887678 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
35887698 TTTTGACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:35899813 original size:29 final size:29
Alignment explanation
Indices: 35899771--35899837 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
35899761 CTTCAAGCAA
* *
35899771 TAGGTAAAAGAGTATATGCAGACTGCATT
1 TAGGTAAAAGAGTATATGCAAACTCCATT
*
35899800 TAGGTAAAAGAGTATCTGCAAACTCCATT
1 TAGGTAAAAGAGTATATGCAAACTCCATT
35899829 TAGGTAAAA
1 TAGGTAAAA
35899838 CACTCGACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (29 bp):
TAGGTAAAAGAGTATATGCAAACTCCATT
Found at i:35900253 original size:9 final size:9
Alignment explanation
Indices: 35900236--35900325 Score: 83
Period size: 9 Copynumber: 10.0 Consensus size: 9
35900226 CACCCCACCC
*
35900236 ATCGATTAA
1 ATCGGTTAA
35900245 ATCGGTTAA
1 ATCGGTTAA
*
35900254 GTCGGTTAA
1 ATCGGTTAA
*
35900263 GTCGGTTAA
1 ATCGGTTAA
* *
35900272 TTTGGTTAA
1 ATCGGTTAA
*
35900281 ATTGGTTAA
1 ATCGGTTAA
*
35900290 ATTGAG-TAA
1 ATCG-GTTAA
*
35900299 ATCAGTTAA
1 ATCGGTTAA
*
35900308 ATAGGTTAA
1 ATCGGTTAA
35900317 ATCGGTTAA
1 ATCGGTTAA
35900326 TTATTAACCA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
8 1 0.01
9 67 0.97
10 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (9 bp):
ATCGGTTAA
Found at i:35900886 original size:75 final size:75
Alignment explanation
Indices: 35900763--35900915 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
35900753 GAGAGATTTT
35900763 AGGAGAAAATCAAGGAGTTTGAGAGTGAGGGGGAAGTGTGTCGTTTGGGGGTAATTCAACTTGGA
1 AGGAGAAAATCAAGGAGTTTGAGAGTGAGGGGGAAGTGTGTCGTTTGGGGGTAATTCAACTTGGA
35900828 AAAATGGTCA
66 AAAATGGTCA
35900838 AGGAGAAAATCAAGGAGTTTGAGAGTGAGGGGGAAGTGTGTCGTTTGGGGGTAATTCAACTTGGA
1 AGGAGAAAATCAAGGAGTTTGAGAGTGAGGGGGAAGTGTGTCGTTTGGGGGTAATTCAACTTGGA
35900903 AAAATGGTCA
66 AAAATGGTCA
35900913 AGG
1 AGG
35900916 GAAGGGTTTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.38, T:0.24
Consensus pattern (75 bp):
AGGAGAAAATCAAGGAGTTTGAGAGTGAGGGGGAAGTGTGTCGTTTGGGGGTAATTCAACTTGGA
AAAATGGTCA
Found at i:35901976 original size:27 final size:27
Alignment explanation
Indices: 35901932--35902314 Score: 355
Period size: 27 Copynumber: 14.2 Consensus size: 27
35901922 CTTGGGCCAA
* *
35901932 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* * * * *
35901959 AAAATTACCAAAAAACCCTTAAAGAGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* *
35901986 AAAATTATCGAAATACCCCCGAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* * *
35902013 TAAATTATCAAAATACCCTAAAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* *
35902040 AAAATTATTGAAATA-CCTTAAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* *
35902066 AAAATTACCAAAAT-CCCTCCCAAAGGGT
1 AAAATTATCGAAATACCCT--CAAAGGGT
* **
35902094 AAAATTATCGAAATACCTTTGAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* *
35902121 AAAATTACCGAAATACCTTCGAAA-GGT
1 AAAATTATCGAAATACCCTC-AAAGGGT
* * *
35902148 AAAAATATTGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* * *
35902175 AAAATTATCGAAATACCCTCGAGGGGA
1 AAAATTATCGAAATACCCTCAAAGGGT
*
35902202 AAAATTATC-AATATCCCCTCAAAGGGT
1 AAAATTATCGAA-ATACCCTCAAAGGGT
* *
35902229 AAAACTATCGAAATACCCTCTAAGGGT
1 AAAATTATCGAAATACCCTCAAAGGGT
* *
35902256 GAAATTA-CTAAAATACCCTCAAAGGGT
1 AAAATTATC-GAAATACCCTCAAAGGGT
* * *
35902283 AAAATGACCGAAATACCGCT-ATAGGGT
1 AAAATTATCGAAATACC-CTCAAAGGGT
35902310 AAAAT
1 AAAAT
35902315 GACTGTTATG
Statistics
Matches: 288, Mismatches: 57, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
26 29 0.10
27 230 0.80
28 26 0.09
29 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCAAAGGGT
Found at i:35902504 original size:27 final size:25
Alignment explanation
Indices: 35902467--35902531 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
35902457 AGGGGAAGTG
*
35902467 TACTATACTGGTGGCTATGCCACATA
1 TACTATACTGGCGGCTATGCCACA-A
**
35902493 TACTGATACTGGCGGCTATGCTGCAA
1 TACT-ATACTGGCGGCTATGCCACAA
35902519 TACTAATACTGGC
1 TACT-ATACTGGC
35902532 AGTTATGCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
TACTATACTGGCGGCTATGCCACAA
Found at i:35902521 original size:26 final size:26
Alignment explanation
Indices: 35902492--35902569 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
35902482 TATGCCACAT
*
35902492 ATACTGATACTGGCGGCTATGCTGCA
1 ATACTGATACTGGCAGCTATGCTGCA
* * **
35902518 ATACTAATACTGGCAGTTATGCTGTG
1 ATACTGATACTGGCAGCTATGCTGCA
* * *
35902544 ATACTGTTACTGACAGCTCTGCTGCA
1 ATACTGATACTGGCAGCTATGCTGCA
35902570 TTATTATTAC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTATGCTGCA
Found at i:35902593 original size:52 final size:52
Alignment explanation
Indices: 35902492--35902598 Score: 117
Period size: 52 Copynumber: 2.1 Consensus size: 52
35902482 TATGCCACAT
* * *
35902492 ATACTGATACTGGCGGCTATGCTGCAATACTAATACTGGCAGTTATGCTGTG
1 ATACTGATACTGACAGCTATGCTGCAATACTAATACTGGCAGTTATGCTGCG
* * * * * *
35902544 ATACTGTTACTGACAGCTCTGCTGCATTATTATTACTGGTAGCTT-TGCTGCG
1 ATACTGATACTGACAGCTATGCTGCAATACTAATACTGGCAG-TTATGCTGCG
35902596 ATA
1 ATA
35902599 TTGGTGTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
52 43 0.96
53 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (52 bp):
ATACTGATACTGACAGCTATGCTGCAATACTAATACTGGCAGTTATGCTGCG
Found at i:35902776 original size:30 final size:29
Alignment explanation
Indices: 35902707--35902817 Score: 109
Period size: 30 Copynumber: 3.8 Consensus size: 29
35902697 TTTGTACTGA
* *
35902707 TTACTGTTTTGGGCTAAGGCCCACA-CTG
1 TTACTGTATTGGGCTAAGGCCCACACCTC
*
35902735 TTACTGAATTGGGCTAAGGCCCACACTCTC
1 TTACTGTATTGGGCTAAGGCCCACAC-CTC
* *
35902765 TTACTGTATTGGGCTATGACCCACACACTGC
1 TTACTGTATTGGGCTAAGGCCCACAC-CT-C
** *
35902796 -TACTGTATAAGGCTCAGGCCCA
1 TTACTGTATTGGGCTAAGGCCCA
35902818 GACTGATTCT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 23 0.34
30 44 0.65
31 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (29 bp):
TTACTGTATTGGGCTAAGGCCCACACCTC
Found at i:35909119 original size:27 final size:27
Alignment explanation
Indices: 35909088--35909446 Score: 357
Period size: 27 Copynumber: 13.1 Consensus size: 27
35909078 TGGCCGAATA
* *
35909088 CTCGAAGGGTAAAATTATCGAAGTACA
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
35909115 TTCGAAGGGTAAAATTA-CTAAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
* *
35909142 CTCAAAGGATAAAATTATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
35909169 CTAGAAGGGTAAAATTATCGATATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
35909196 CTCGAAGGGTAAAATTATCGATATATC
1 CTCGAAGGGTAAAATTATCGAAATACC
* * * *
35909223 CTCAAAGGGTAAAATGACCAAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
*
35909250 CTCGAAGGGTAAAATAATCGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* * *
35909277 C-CTATAGGGTAAAATGATTGAAATACC
1 CTCGA-AGGGTAAAATTATCGAAATACC
*
35909304 CTCGAAGGGTAAAA-TAACTGAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
*
35909331 CTCGAAGGGTAAGGGTAAAATTATCGATATACC
1 CTC-----G-AAGGGTAAAATTATCGAAATACC
* *
35909364 CTTGAAGGGTAAAATTATAGAAATACC
1 CTCGAAGGGTAAAATTATCGAAATACC
* *
35909391 CCCAAAGGGTAAAATTA-CTGAAATACC
1 CTCGAAGGGTAAAATTATC-GAAATACC
* * *
35909418 TTCGAAGGGTAAAATGATCGAAACACC
1 CTCGAAGGGTAAAATTATCGAAATACC
35909445 CT
1 CT
35909447 TATAAGGTAA
Statistics
Matches: 272, Mismatches: 46, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.01
27 240 0.88
28 5 0.02
32 1 0.00
33 19 0.07
34 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (27 bp):
CTCGAAGGGTAAAATTATCGAAATACC
Found at i:35909350 original size:33 final size:33
Alignment explanation
Indices: 35909308--35909375 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
35909298 AATACCCTCG
35909308 AAGGGTAAAATAA-CTGAAATACCCTCGAAGGGT
1 AAGGGTAAAATAATC-GAAATACCCTCGAAGGGT
* * *
35909341 AAGGGTAAAATTATCGATATACCCTTGAAGGGT
1 AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
35909374 AA
1 AA
35909376 AATTATAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (33 bp):
AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
Found at i:35909472 original size:27 final size:27
Alignment explanation
Indices: 35909442--35909494 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
35909432 TGATCGAAAC
* *
35909442 ACCCTTATAAGGTAAAATGACTGTTAG
1 ACCCTTAGAAGATAAAATGACTGTTAG
* *
35909469 ACCCTTAGGAGATGAAATGACTGTTA
1 ACCCTTAGAAGATAAAATGACTGTTA
35909495 TGGCCTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (27 bp):
ACCCTTAGAAGATAAAATGACTGTTAG
Found at i:35909762 original size:26 final size:26
Alignment explanation
Indices: 35909661--35909762 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 26
35909651 CATATACTAA
*
35909661 TACTGGC-GTCTATGCTGCGATACTGA-
1 TACTGGCAG-CTATGCTGCGATA-TTAT
* * *
35909687 TACTGGCAGCTATACTGTGATACTAT
1 TACTGGCAGCTATGCTGCGATATTAT
* *
35909713 TACTGGCAACTCTGCTGC-ATTATTAT
1 TACTGGCAGCTATGCTGCGA-TATTAT
*
35909739 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTATGCTGCGATATT
35909763 GATGTGTTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
25 2 0.03
26 57 0.93
27 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCGATATTAT
Found at i:35909963 original size:30 final size:30
Alignment explanation
Indices: 35909869--35909965 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
35909859 TTTGTATTGA
*
35909869 TTACTGTTTTGGGCTAAGG-CC-CACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
* *
35909897 TTACTGAATTGGGCTAAGGCCCACACTCTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
*
35909927 TTACTGTATTGGGCTATGGCCCACACACTG
1 TTACTGTATTGGGCTAAGGCCCACACACTG
*
35909957 CTACTGTAT
1 TTACTGTAT
35909966 AAGGCTCAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 17 0.28
29 2 0.03
30 41 0.68
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (30 bp):
TTACTGTATTGGGCTAAGGCCCACACACTG
Found at i:35912488 original size:23 final size:24
Alignment explanation
Indices: 35912452--35912497 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
35912442 TTGAGATTTG
35912452 TATATTTTGATTGAC-ATCTTTTGAC
1 TATATTTT-ATTGACTAT-TTTTGAC
35912477 TATATTTT-TTGACTATTTTTG
1 TATATTTTATTGACTATTTTTG
35912498 TCCAACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.59
Consensus pattern (24 bp):
TATATTTTATTGACTATTTTTGAC
Found at i:35918493 original size:10 final size:10
Alignment explanation
Indices: 35918478--35918520 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
35918468 TAACATGTTG
35918478 AATTTTAATT
1 AATTTTAATT
*
35918488 AATTTTATATCA
1 AATTTTA-AT-T
35918500 AATTTTAATT
1 AATTTTAATT
*
35918510 AATTTTTATT
1 AATTTTAATT
35918520 A
1 A
35918521 TATTCGACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 17 0.61
11 4 0.14
12 7 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTTAATT
Found at i:35926994 original size:183 final size:183
Alignment explanation
Indices: 35926686--35927050 Score: 685
Period size: 183 Copynumber: 2.0 Consensus size: 183
35926676 GTAAAAAGTG
35926686 AAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAGGTCTTTA
1 AAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAGGTCTTTA
*
35926751 TATGGTAATTATACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAATAGGAAA
66 TATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAATAGGAAA
*
35926816 TTTTTAAGTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATTAAAAGGA
131 TTTTAAAGTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATTAAAAGGA
35926869 AAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAGGTCTTTA
1 AAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAGGTCTTTA
* *
35926934 TATGGTAATTAGACCATTGGTTAAGTTATTGACAAAAGTGGACATGAGATAAGTGAAATAGGAAA
66 TATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAATAGGAAA
*
35926999 TTTTAAATTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATTAAAAGG
131 TTTTAAAGTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATTAAAAGG
35927051 GATAAAGATG
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 177 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.34
Consensus pattern (183 bp):
AAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAGGTCTTTA
TATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAATAGGAAA
TTTTAAAGTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATTAAAAGGA
Found at i:35930230 original size:25 final size:29
Alignment explanation
Indices: 35930174--35930236 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
35930164 TGACATTCAC
35930174 TCTCTCAAATATTTCACATACAAAAAATA
1 TCTCTCAAATATTTCACATACAAAAAATA
35930203 TCTCTCAAATATTTCA-A-A-AAAAAA-A
1 TCTCTCAAATATTTCACATACAAAAAATA
35930228 TCTCTCAAA
1 TCTCTCAAA
35930237 AAAAATTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.29
26 6 0.18
27 1 0.03
28 1 0.03
29 16 0.47
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (29 bp):
TCTCTCAAATATTTCACATACAAAAAATA
Found at i:35941678 original size:67 final size:72
Alignment explanation
Indices: 35941605--35941745 Score: 211
Period size: 74 Copynumber: 2.0 Consensus size: 72
35941595 CTAACCTAAA
35941605 ACCTCACATACAC-AAGCA-T-AA-AA-TAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
1 ACCTCACATACACTAAGCACTAAACAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
35941665 AAAATTT
66 AAAATTT
* *
35941672 ACCTCACATACACTTAATCACTAAACCAAGTCAATTTACTTGACAATTTTTAACAATTCAAAAAG
1 ACCTCACATACAC-TAAGCACTAAA-CAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAG
35941737 TTAAAATTT
64 TTAAAATTT
35941746 TAGGGCGTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
67 13 0.20
69 4 0.06
70 1 0.02
71 2 0.03
73 2 0.03
74 43 0.66
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.32
Consensus pattern (72 bp):
ACCTCACATACACTAAGCACTAAACAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
AAAATTT
Found at i:35941745 original size:37 final size:37
Alignment explanation
Indices: 35941629--35941745 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 37
35941619 AGCATAAAAT
35941629 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
1 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
* * *** *
35941666 AAATTTACCTCACATACACTTAATC-ACT-AAACCAAG-T-
1 AAATTTACTTGACA-ATTTTTAA-CAATTCAAA--AAGTTA
*
35941703 CAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
1 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
35941740 AAATTT
1 AAATTT
35941746 TAGGGCGTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
35 4 0.07
36 8 0.14
37 34 0.59
38 8 0.14
39 4 0.07
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35
Consensus pattern (37 bp):
AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
Found at i:35941966 original size:13 final size:13
Alignment explanation
Indices: 35941936--35941968 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
35941926 TAAATAAAAT
35941936 AAAAATATAATAA
1 AAAAATATAATAA
35941949 AAAAATATTAATAA
1 AAAAATA-TAATAA
35941963 AAAAAT
1 AAAAAT
35941969 TTATCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:35952000 original size:14 final size:14
Alignment explanation
Indices: 35951970--35952035 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
35951960 CACACATGTA
*
35951970 GTTCACACCT-AGAG
1 GTTCACACATAAG-G
35951984 GTTCACACATAAGG
1 GTTCACACATAAGG
*
35951998 GTTCACTCAAGTAA-G
1 GTTCACAC-A-TAAGG
35952013 G-TCACACAT-AGG
1 GTTCACACATAAGG
35952025 GTTCACACATA
1 GTTCACACATA
35952036 TAGATTTTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 1 0.02
12 3 0.07
13 9 0.21
14 22 0.51
15 5 0.12
16 3 0.07
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (14 bp):
GTTCACACATAAGG
Done.