Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 153 of 204
Found at i:46553049 original size:17 final size:18
Alignment explanation
Indices: 46553013--46553055 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
46553003 TTTATTTTCA
**
46553013 TTTCATTTCCATTTCCAT
1 TTTCATTTCCATTTAAAT
46553031 TTTCATTT-CATTTAAAT
1 TTTCATTTCCATTTAAAT
46553048 TTTCATTT
1 TTTCATTT
46553056 AAATTTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCATTTCCATTTAAAT
Found at i:46553049 original size:23 final size:23
Alignment explanation
Indices: 46553006--46553055 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
46552996 AATTTTTTTT
**
46553006 ATTTTCATTTCATTTCCATTTCC
1 ATTTTCATTTCATTTAAATTTCC
*
46553029 ATTTTCATTTCATTTAAATTTTC
1 ATTTTCATTTCATTTAAATTTCC
46553052 ATTT
1 ATTT
46553056 AAATTTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTCATTTCATTTAAATTTCC
Found at i:46553051 original size:12 final size:12
Alignment explanation
Indices: 46553036--46553063 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46553026 TCCATTTTCA
46553036 TTTCATTTAAAT
1 TTTCATTTAAAT
46553048 TTTCATTTAAAT
1 TTTCATTTAAAT
46553060 TTTC
1 TTTC
46553064 CTTTTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTCATTTAAAT
Found at i:46553061 original size:23 final size:23
Alignment explanation
Indices: 46553012--46553061 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
46553002 TTTTATTTTC
** **
46553012 ATTTCATTTCCATTTCCATTTTC
1 ATTTCATTTAAATTTCCATTTAA
*
46553035 ATTTCATTTAAATTTTCATTTAA
1 ATTTCATTTAAATTTCCATTTAA
46553058 ATTT
1 ATTT
46553062 TCCTTTTTCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTCATTTAAATTTCCATTTAA
Found at i:46553187 original size:17 final size:17
Alignment explanation
Indices: 46553157--46553210 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
46553147 CAATTTTTGT
46553157 TTTCATTTCAATTTATAA
1 TTTCATTTC-ATTTATAA
46553175 TTT-ATTTTCATTTA-AA
1 TTTCA-TTTCATTTATAA
46553191 CTTTCATTTCATTTCATAA
1 -TTTCATTTCATTT-ATAA
46553210 T
1 T
46553211 CATTACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 17 0.55
18 10 0.32
19 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCATTTCATTTATAA
Found at i:46553202 original size:5 final size:5
Alignment explanation
Indices: 46553192--46553294 Score: 62
Period size: 5 Copynumber: 18.6 Consensus size: 5
46553182 TCATTTAAAC
* * * *
46553192 TTTCA TTTCA TTTCA TAATCA TTACAA ATTCA TTTAACA TTTCA TTTTA
1 TTTCA TTTCA TTTCA T-TTCA TTTC-A TTTCA TTT--CA TTTCA TTTCA
* *
46553241 TTTCA TATTCA TTACAAA TTACA TTTCA TTTCA TATTCA TTTAACA TTTCA
1 TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA
46553292 TTT
1 TTT
46553295 TATTAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
5 46 0.59
6 17 0.22
7 15 0.19
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:46553235 original size:39 final size:39
Alignment explanation
Indices: 46553181--46553282 Score: 138
Period size: 39 Copynumber: 2.6 Consensus size: 39
46553171 ATAATTTATT
46553181 TTCATTTAA-ACTTTCATTTCATTTCATAATCATTACAAA
1 TTCATTTAACA-TTTCATTTCATTTCATAATCATTACAAA
* *
46553220 TTCATTTAACATTTCATTTTATTTCATATTCATTACAAA
1 TTCATTTAACATTTCATTTCATTTCATAATCATTACAAA
46553259 TTACATTT--CATTTCATATTCATTT
1 TT-CATTTAACATTTCAT-TTCATTT
46553283 AACATTTCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 8 0.14
39 43 0.75
40 6 0.11
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (39 bp):
TTCATTTAACATTTCATTTCATTTCATAATCATTACAAA
Found at i:46553265 original size:28 final size:28
Alignment explanation
Indices: 46553219--46553298 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
46553209 ATCATTACAA
* *
46553219 ATTCATTTAACATTTCATTTTATTTCAT
1 ATTCATTTAAAATTACATTTTATTTCAT
*
46553247 ATTCA-TTACAAATTACATTTCATTTCAT
1 ATTCATTTA-AAATTACATTTTATTTCAT
* *
46553275 ATTCATTTAACATTTCATTTTATT
1 ATTCATTTAAAATTACATTTTATT
46553299 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.07
28 38 0.86
29 3 0.07
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTCATTTAAAATTACATTTTATTTCAT
Found at i:46553432 original size:23 final size:21
Alignment explanation
Indices: 46553370--46553442 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
46553360 ACAAGTAGTC
46553370 TCATTTC-AATTTTTTT--TT
1 TCATTTCAAATTTTTTTCATT
*
46553388 TCAATTCAAATTTTTTTCATT
1 TCATTTCAAATTTTTTTCATT
*
46553409 TCATTTCATATTTTTTCTCAATT
1 TCATTTCAAATTTTTT-TC-ATT
46553432 TCATTT-AAATT
1 TCATTTCAAATT
46553443 CAAAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.13
19 9 0.20
21 16 0.35
22 6 0.13
23 9 0.20
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTCAAATTTTTTTCATT
Found at i:46553696 original size:12 final size:11
Alignment explanation
Indices: 46553621--46553702 Score: 58
Period size: 12 Copynumber: 6.9 Consensus size: 11
46553611 ATTTTTCTTT
46553621 TTTCATTTCAA
1 TTTCATTTCAA
46553632 TTTCAATTTCCAAA
1 TTTC-ATTT-C-AA
*
46553646 TTACATTTCTAA
1 TTTCATTTC-AA
* *
46553658 ATTCATTTCAT
1 TTTCATTTCAA
*
46553669 TTTTATTACTC-A
1 TTTCATT--TCAA
46553681 TTTCATTTCACA
1 TTTCATTTCA-A
46553693 TTTCATTTCA
1 TTTCATTTCA
46553703 TCTAAATTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
10 2 0.04
11 10 0.18
12 31 0.56
13 7 0.13
14 5 0.09
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:46553841 original size:23 final size:23
Alignment explanation
Indices: 46553790--46553873 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 23
46553780 CATTGTAATT
46553790 TATTTCATTTCA-ATTTATACTTT-A
1 TATTTCATTTCATA-TTA-A-TTTAA
46553814 T-TTTCATTTCATATTAATTTAA
1 TATTTCATTTCATATTAATTTAA
* *
46553836 TATTTCATTTCCTATTCATTTAAA
1 TATTTCATTTCATATTAATTT-AA
*
46553860 TATTTTAGTTTCAT
1 TATTTCA-TTTCAT
46553874 TTCAAATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 30 0.59
24 10 0.20
25 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.58
Consensus pattern (23 bp):
TATTTCATTTCATATTAATTTAA
Found at i:46553846 original size:28 final size:27
Alignment explanation
Indices: 46553787--46553923 Score: 66
Period size: 29 Copynumber: 4.8 Consensus size: 27
46553777 TCTCATTGTA
46553787 ATTT-ATTTCATTTCAATTTATACTTT
1 ATTTCATTTCATTTCAATTTATACTTT
46553813 ATTTTCATTTCATATT-AATTTAATA-TTT
1 A-TTTCATTTCAT-TTCAATTT-ATACTTT
* * * *
46553841 CATTTCCTATTCATTTAAATATTTTAGTTT
1 -ATTTCAT-TTCATTTCAAT-TTATACTTT
* ** *
46553871 CATTTCAAATTCAGCTCATATTT-TATTTT
1 -ATTTC-ATTTCATTTCA-ATTTATACTTT
*
46553900 CATTTCATATTCATTTCACTTTAT
1 -ATTTCAT-TTCATTTCAATTTAT
46553924 TCACTTTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 26 0.30
29 35 0.41
30 19 0.22
31 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.57
Consensus pattern (27 bp):
ATTTCATTTCATTTCAATTTATACTTT
Found at i:46554377 original size:22 final size:22
Alignment explanation
Indices: 46554305--46554377 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
46554295 TTTTCAATTG
46554305 AATTAATATATTTAATGTGTTTTA
1 AATT-ATA-ATTTAATGTGTTTTA
* * *
46554329 AATTA-AATATGT-ATGTATATTG
1 AATTATAAT-T-TAATGTGTTTTA
*
46554351 TATTATAATTTAATGTGTTTTA
1 AATTATAATTTAATGTGTTTTA
46554373 AATTA
1 AATTA
46554378 GGAATAAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 3 0.08
22 25 0.68
23 5 0.14
24 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
AATTATAATTTAATGTGTTTTA
Found at i:46557670 original size:106 final size:107
Alignment explanation
Indices: 46557479--46557675 Score: 281
Period size: 106 Copynumber: 1.9 Consensus size: 107
46557469 AGGTGGTACT
* * * * *
46557479 GGCCATCAGTGTCCCAAAGTAAAAAAAATGTCTTAGGACCCAAAAAATGTACTTGGTTCCGATCA
1 GGCCATCAGTGTCCCAAAGTAAAAAAAATGCCTTAAGACCCAAAAAATATACTTGGTGCCGACCA
* *
46557544 TCTATTGGCCAGTACACAATTTTTTTAAATAACTCTTGTGCC
66 TCTACTGGCCAGCACACAATTTTTTTAAATAACTCTTGTGCC
* *
46557586 GGCCATCAGTGTCCCAAAGT-AAAAAAATGCCTTAAGACCCGAAAAATATACTTTGTGCC-AGCC
1 GGCCATCAGTGTCCCAAAGTAAAAAAAATGCCTTAAGACCCAAAAAATATACTTGGTGCCGA-CC
*
46557649 ATCTACTGGCCAGCACCCAATTTTTTT
65 ATCTACTGGCCAGCACACAATTTTTTT
46557676 TTAAAATGAC
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 1 0.01
106 58 0.73
107 20 0.25
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (107 bp):
GGCCATCAGTGTCCCAAAGTAAAAAAAATGCCTTAAGACCCAAAAAATATACTTGGTGCCGACCA
TCTACTGGCCAGCACACAATTTTTTTAAATAACTCTTGTGCC
Found at i:46564438 original size:23 final size:23
Alignment explanation
Indices: 46564412--46564477 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
46564402 TAAGCGCGCA
*
46564412 AGTGATAGTGGCACTACGGTACT
1 AGTGAAAGTGGCACTACGGTACT
** *
46564435 AGTGAAAGCAGCACTACAGTACT
1 AGTGAAAGTGGCACTACGGTACT
*
46564458 AGTGAAAGTGACACTACGGT
1 AGTGAAAGTGGCACTACGGT
46564478 CCAAGTGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.21
Consensus pattern (23 bp):
AGTGAAAGTGGCACTACGGTACT
Found at i:46564484 original size:23 final size:23
Alignment explanation
Indices: 46564410--46564484 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
46564400 ATTAAGCGCG
* *
46564410 CAAGTGATAGTGGCACTACGGTA
1 CAAGTGAAAGTGACACTACGGTA
* * *
46564433 CTAGTGAAAG-CAGCACTACAGTA
1 CAAGTGAAAGTGA-CACTACGGTA
* *
46564456 CTAGTGAAAGTGACACTACGGTC
1 CAAGTGAAAGTGACACTACGGTA
46564479 CAAGTG
1 CAAGTG
46564485 TATTGGCACT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
CAAGTGAAAGTGACACTACGGTA
Found at i:46575488 original size:26 final size:26
Alignment explanation
Indices: 46575458--46575508 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46575448 ACCAATGAAC
*
46575458 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
46575484 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
46575509 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:46575509 original size:102 final size:104
Alignment explanation
Indices: 46575221--46575584 Score: 600
Period size: 102 Copynumber: 3.6 Consensus size: 104
46575211 TAACCGTTAT
* **
46575221 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46575286 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46575323 TGGTGGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
46575386 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
46575426 TGGTGGAT-ACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46575489 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
46575528 TGGTGGATCACGCACATAGCACCACC-AT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46575585 TTATATACAA
Statistics
Matches: 250, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
101 82 0.33
102 103 0.41
103 65 0.26
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46575941 original size:29 final size:29
Alignment explanation
Indices: 46575908--46575971 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46575898 TAATCCACCA
46575908 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46575937 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46575967 CCCAA
1 CCCAA
46575972 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46575945 original size:30 final size:30
Alignment explanation
Indices: 46575915--46575971 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46575905 CCACCCAACT
46575915 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46575944 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46575972 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46583088 original size:104 final size:104
Alignment explanation
Indices: 46582796--46583163 Score: 627
Period size: 103 Copynumber: 3.6 Consensus size: 104
46582786 TAACCGTTAT
* * *
46582796 TGGTGGATCTCGCACTTAGCACCACCACTGAATTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
46582861 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46582899 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46582963 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
46583002 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46583067 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
46583106 TGGTGGATCA-CGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46583164 TTTATATACA
Statistics
Matches: 254, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
102 55 0.22
103 104 0.41
104 94 0.37
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46583524 original size:29 final size:29
Alignment explanation
Indices: 46583491--46583554 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46583481 TAATCCACCA
46583491 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46583520 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46583550 CCCAA
1 CCCAA
46583555 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46583528 original size:30 final size:30
Alignment explanation
Indices: 46583498--46583554 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46583488 CCACCCAACT
46583498 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46583527 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46583555 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46585826 original size:28 final size:28
Alignment explanation
Indices: 46585795--46585854 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
46585785 TAACAGATCT
* *
46585795 AGAAACAGTAAAAGAAC-ATAAAAGAAGA
1 AGAAAAAGAAAAAGAACGA-AAAAGAAGA
* *
46585823 AGAAAAAGAAAAAGATCGAGAAAGAAGA
1 AGAAAAAGAAAAAGAACGAAAAAGAAGA
46585851 AGAA
1 AGAA
46585855 GAGAGTACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.22, T:0.05
Consensus pattern (28 bp):
AGAAAAAGAAAAAGAACGAAAAAGAAGA
Found at i:46598799 original size:16 final size:16
Alignment explanation
Indices: 46598780--46598816 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46598770 CATTTAATTA
46598780 AATTTAAATT-TTTTAT
1 AATTTAAATTATTTT-T
46598796 AATTTAAATTATTTTT
1 AATTTAAATTATTTTT
46598812 AATTT
1 AATTT
46598817 TTAAAAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTAAATTATTTTT
Found at i:46598809 original size:19 final size:20
Alignment explanation
Indices: 46598787--46598838 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
46598777 TTAAATTTAA
*
46598787 ATTTTTTATAATTT-AAATT
1 ATTTTTTATAATTTAAAAGT
* *
46598806 ATTTTTAAT-TTTTAAAAGT
1 ATTTTTTATAATTTAAAAGT
*
46598825 AGTTTTTATAATTT
1 ATTTTTTATAATTT
46598839 TTTGAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTTTATAATTTAAAAGT
Found at i:46599325 original size:31 final size:31
Alignment explanation
Indices: 46599266--46599325 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
46599256 TCTTAATAGC
* *
46599266 TCAATGACTTAAATAAAAACTTTTAAATAAT
1 TCAATAACTTAAATAAAAACTTTCAAATAAT
46599297 TCAATAACTTAAATAAAAA-TATTCAAATA
1 TCAATAACTTAAATAAAAACT-TTCAAATA
46599326 GTTTAGCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (31 bp):
TCAATAACTTAAATAAAAACTTTCAAATAAT
Found at i:46603405 original size:29 final size:30
Alignment explanation
Indices: 46603346--46603405 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 30
46603336 AATCTCAAAA
* * *
46603346 TTATATATGAACTTTGATTTAATGTGTAATT
1 TTATATATGAACTTTAATTT-AGGTGCAATT
*
46603377 TTATATATGAATTTTAATTT-GGTGCAATT
1 TTATATATGAACTTTAATTTAGGTGCAATT
46603406 ATTTACAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (30 bp):
TTATATATGAACTTTAATTTAGGTGCAATT
Found at i:46603760 original size:21 final size:21
Alignment explanation
Indices: 46603731--46603808 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
46603721 ATCTTCAAGA
*
46603731 ATATACAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
46603752 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
46603771 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
46603795 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
46603809 GATTTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 12 0.26
20 3 0.06
21 17 0.36
22 6 0.13
23 9 0.19
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46603776 original size:19 final size:20
Alignment explanation
Indices: 46603729--46603785 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
46603719 TAATCTTCAA
* *
46603729 GAATATACAATCTTAGATAT
1 GAATATGCAATCTTGGATAT
46603749 GATATATGCAATCTTGGATAT
1 GA-ATATGCAATCTTGGATAT
46603770 G-ATATGCAATCTTGGA
1 GAATATGCAATCTTGGA
46603786 AGATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
GAATATGCAATCTTGGATAT
Found at i:46610838 original size:88 final size:88
Alignment explanation
Indices: 46610676--46611241 Score: 796
Period size: 88 Copynumber: 6.4 Consensus size: 88
46610666 GAAATCACAA
* * ** * * *
46610676 AGCCTTGCATTCCTGGTTTACAGTGGAGCAGGTTGAAAATAACAGATATTTCCTTCCT--ATACT
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAT-C-
* *
46610739 GACGGTGAAGCAGATCGAAGATACC
64 GACAGCGAAGCAGATCGAAGATACC
*
46610764 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTCGCCTTCCTGCATCGA
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGA
* *
46610829 CAGCAAAGCAGATTGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
46610852 AGCCTTGCCTTCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGA
46610917 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * *
46610940 AGCTTTGCCTCCCTAGGTTGTAGTGGAGTAGGTTGAATATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGA
46611005 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * * *
46611028 AGCCTTGCCTCCCTGGGTTGTAGTGGAACAGGTTGAAGATAGCAGATCTTACATCCCTGCATCGA
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGA
46611093 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * *
46611116 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTGCCTTCCTGTATCT
1 AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGCATCG
46611181 ACAGCGAAGCAGATCGAAGATACC
65 ACAGCGAAGCAGATCGAAGATACC
* **
46611205 AACCTTGCC-TCCTTGATTTGTAGTGGAGCAGGTTGAA
1 AGCCTTGCCTTCC-TGGGTTGTAGTGGAGCAGGTTGAA
46611242 GATACCAACC
Statistics
Matches: 434, Mismatches: 40, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
88 356 0.82
89 76 0.18
90 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTTCCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCATCGA
CAGCGAAGCAGATCGAAGATACC
Found at i:46611439 original size:88 final size:88
Alignment explanation
Indices: 46611239--46611744 Score: 714
Period size: 88 Copynumber: 5.8 Consensus size: 88
46611229 GGAGCAGGTT
*
46611239 GAAGATACCAACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCC-T-
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
*
46611302 -T-TACCGACAGTGAAGTAGATC
66 CTGTACCGACAGTGAAGCAGATC
* * *
46611323 GAAGATATCAGCCTTGCCTCCTTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
*
46611388 CTGTACCGATAGTGAAGCAGATC
66 CTGTACCGACAGTGAAGCAGATC
*
46611411 GAAGATATCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
** * *
46611476 CTACATCGACAGCGAAGCAGATC
66 CTGTACCGACAGTGAAGCAGATC
* * *
46611499 GAAGATACCAGCCTTGCCTCCCTAGGTTGTGGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
* * *
46611564 CTGTACCAACAGTTAAACAGATC
66 CTGTACCGACAGTGAAGCAGATC
* *
46611587 GAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
46611652 CTGTACCGACAGTGAAGCAGATC
66 CTGTACCGACAGTGAAGCAGATC
* * * * * * * * * *
46611675 AAAGATACCAGCATTGCCTCTCTGGGTTGTCGTGAAGCAGATCGAAGAAAGTAGATCTTGTCTTC
1 GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
*
46611740 ATGTA
66 CTGTA
46611745 TTGGCATGAA
Statistics
Matches: 373, Mismatches: 45, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
84 58 0.16
85 1 0.00
87 1 0.00
88 313 0.84
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
GAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
CTGTACCGACAGTGAAGCAGATC
Found at i:46611692 original size:44 final size:44
Alignment explanation
Indices: 46611303--46611693 Score: 131
Period size: 45 Copynumber: 8.9 Consensus size: 44
46611293 ATCTTGCCTT
* * *
46611303 TACCGACAGTGAAGTAGATCGAAGATATCAGCCTTGCC-TCCT-
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCTTCCTG
* ** * * * *
46611345 TA-GGTTGTAGTGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTG
1 TACCG--ACAGTGAAGCAGATCGAAGATACCAGCA--TTGCCTTCCTG
* * * *
46611391 TACCGATAGTGAAGCAGATCGAAGATATCAGCCTTGCCTCCCTG
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCTTCCTG
**** * * * * * *
46611435 GGTTG-TAGTGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTA
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCA--TTGCCTTCCTG
* * * * *
46611479 CATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGG
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCTTCCT--G
*** * * * *
46611525 TTGTGGC-G-G-AGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTG
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCA--TTGCCTTCCTG
* * * * *
46611567 TACCAACAGTTAAACAGATCGAAGATACCAGCCTTGCCTCCCTG
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCTTCCTG
*** * * * * * *
46611611 GGTCG-TAGTGGAGCAGGTTGAAGATAGCA-TATCTTGCCTTCCTG
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCA--TTGCCTTCCTG
*
46611655 TACCGACAGTGAAGCAGATCAAAGATACCAGCATTGCCT
1 TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCT
46611694 CTCTGGGTTG
Statistics
Matches: 239, Mismatches: 86, Indels: 46
0.64 0.23 0.12
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 74 0.31
44 75 0.31
45 78 0.33
46 5 0.02
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (44 bp):
TACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCTTCCTG
Found at i:46611769 original size:480 final size:480
Alignment explanation
Indices: 46610743--46611778 Score: 1337
Period size: 480 Copynumber: 2.1 Consensus size: 480
46610733 TATACTGACG
* * * * * * *
46610743 GTGAAGCAGATCGAAGATACCAGCCTTGCCTTCC-TGGGTTGTAGTGGAGCAGGTTGAAA-ATAG
1 GTGAAGCAGATCGAAGAAACCAACCTTGCC-TCCATGGATTGCAGTGAAGCA-GATCAAAGATAG
* * ** * *
46610806 CAGATCTCGCCTTCCTGCATCGACAGCAAAGCAGATTGAAGATACCAGCCTTGCCTTCCTAGGTT
64 CAGATCTTGCCTT--T--ACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCTTCCTAGGTT
*
46610871 GTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGA
125 GTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
* * * *
46610936 TACCAGCTTTGCCTCCCTAGGTTGTAGTGGAGTAGGTTGAATATAGCAGATCTTGCCTTCCTGCA
190 TACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACA
* *
46611001 TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAACAGGTTGAAG
255 TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGCGGAACAGGTTGAAG
* * *
46611066 ATAGCAGATCTTACATCCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
320 ATAGCAGATCTTACATCCCTGCACCAACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCCCTG
* * *
46611131 GGTTGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTGCCTTCCTGTATCTACAGCGAAGCAGATC
385 GGTCGTAGTGGAGCAGGTTGAAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC
* * *
46611196 GAAGATACCAACCTTGCCTCCTTGATTTGTA
450 AAAGATACCAACATTGCCTCCTTGAGTTGTA
* * * * * * * * * **
46611227 GTGGAGCAGGTTGAAGATACCAACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCA
1 GTGAAGCAGATCGAAGAAACCAACCTTGCCTCCATGGATTGCAGTGAAGCAGATCAAAGATAGCA
*
46611292 GATCTTGCCTTTACCGACAGTGAAGTAGATCGAAGATATCAGCCTTGCC-TCCTTAGGTTGTAGT
66 GATCTTGCCTTTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCTTCC-TAGGTTGTAGT
* * * *
46611356 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATATCA
130 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCA
*
46611421 GCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGAC
195 GCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGAC
* *
46611486 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTGGCGGAGCAGGTTGAAGATAGC
260 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGCGGAACAGGTTGAAGATAGC
* * * * **
46611551 AGATCTTGCCTTCCTGTACCAACAGTTAAACAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCG
325 AGATCTTACATCCCTGCACCAACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCG
* *
46611616 TAGTGGAGCAGGTTG-AAGATAGCATATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGA
390 TAGTGGAGCAGGTTGAAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGA
* * *
46611680 TACCAGCATTGCCT-CTCTGGGTTGTC
455 TACCAACATTGCCTCCT-TGAGTTGTA
** * * * * * *
46611706 GTGAAGCAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCA-TGAAGTATATCAAAGATAG
1 GTGAAGCAGATCGAAGAAACCA-ACCTTGCCTCCATGGATT-GCAGTGAAGCAGATCAAAGATAG
46611770 CAGATCTTG
64 CAGATCTTG
46611779 TCTTCATGTA
Statistics
Matches: 479, Mismatches: 67, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
478 2 0.00
479 81 0.17
480 327 0.68
481 2 0.00
482 1 0.00
483 7 0.01
484 59 0.12
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (480 bp):
GTGAAGCAGATCGAAGAAACCAACCTTGCCTCCATGGATTGCAGTGAAGCAGATCAAAGATAGCA
GATCTTGCCTTTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCTTCCTAGGTTGTAGTG
GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
CCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACA
GCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGCGGAACAGGTTGAAGATAGCA
GATCTTACATCCCTGCACCAACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGT
AGTGGAGCAGGTTGAAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGAT
ACCAACATTGCCTCCTTGAGTTGTA
Found at i:46611777 original size:44 final size:44
Alignment explanation
Indices: 46611705--46612209 Score: 577
Period size: 44 Copynumber: 11.5 Consensus size: 44
46611695 TCTGGGTTGT
* * *
46611705 CGTGAAGCAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *
46611749 CATGAAGTATATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*** *
46611793 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *
46611837 TGGCGAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *
46611882 CGTGAAGTAGATCAAATATAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*
46611926 CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
** **
46611970 CGTGAAGTAGATCTTAGATAATAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
46612014 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTAGTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTT--CAT-GTATTGG
* *
46612061 C--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *
46612103 C--GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATCGA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * ** *
46612145 CATGAAATAGATCAAAGGTAGCAGATCATGTCTTCCCGTACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
46612189 TGGCGAAGTAGATCGAAGATA
1 -CGTGAAGTAGATCGAAGATA
46612210 CAAGTCTTAT
Statistics
Matches: 390, Mismatches: 64, Indels: 13
0.84 0.14 0.03
Matches are distributed among these distances:
42 44 0.11
43 3 0.01
44 255 0.65
45 79 0.20
46 3 0.01
47 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:46611870 original size:133 final size:131
Alignment explanation
Indices: 46611708--46612209 Score: 584
Period size: 133 Copynumber: 3.8 Consensus size: 131
46611698 GGGTTGTCGT
* *
46611708 GAAGCAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTATATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAA-TAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAG
*
46611773 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
65 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTT-CCATACTGGT
46611838 GGC
129 GGC
* * *
46611841 GAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATATAGTAG
1 GAAGTAGATCGAAGAAAT-AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAG
*
46611906 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTT-CATGTATTGG
65 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCA--TACTGG
* *
46611970 -CGT
128 TGGC
** * *
46611973 GAAGTAGATCTTAGATAATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGA-AATAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAG
* * * * *
46612038 ATCTTGTCTTCCCATACTAGTGGC--GAAGTAGATCGAAGAAAGTAGATCTTGTCTT-CAT-GTA
65 ATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCATACTG
*
46612099 TTGGC
127 GTGGC
* * * * * *
46612104 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATCGACATGAAATAGATCAAAGGTAGCAG
1 GAAGTAGATCGAAGAAA-TAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAG
* ** * * *
46612169 ATCATGTCTTCCCGTACTGGTGGCGAAGTAGATCGAAGATA
65 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
46612210 CAAGTCTTAT
Statistics
Matches: 318, Mismatches: 39, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
128 5 0.02
129 1 0.00
130 3 0.01
131 81 0.25
132 68 0.21
133 151 0.47
134 3 0.01
135 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (131 bp):
GAAGTAGATCGAAGAAATAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGA
TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCATACTGGTGG
C
Found at i:46611957 original size:221 final size:219
Alignment explanation
Indices: 46611705--46612179 Score: 718
Period size: 221 Copynumber: 2.2 Consensus size: 219
46611695 TCTGGGTTGT
* * * *
46611705 CGTGAAGCAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTATATCAAAGATAG
1 CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAA
46611770 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
66 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
* *
46611835 GGTGGCGAAGTAGATCGAAGAAA-TCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAT
131 AGTGGCGAAGTAGATCGAAGAAAGT-AGATCTTGTCTTCATGTATTGGC--GAAGTAGATCAAAG
* * * * *
46611899 ATAGTAGATCTTGTCTTCATGTATTGG
193 AAAGCAGATCTTATCTTCATGTATCGA
* **
46611926 CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCTTAGATAA
1 CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAA
*
46611991 TAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
66 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
*
46612056 AGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATCGAAGAAA
131 AGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATCAAAGAAA
46612121 GCAGATCTTATCTTCATGTATCGA
196 GCAGATCTTATCTTCATGTATCGA
* * * * * *
46612145 CATGAAATAGATCAAAGGTAGCAGATCATGTCTTC
1 CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTC
46612180 CCGTACTGGT
Statistics
Matches: 231, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
219 63 0.27
221 167 0.72
222 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (219 bp):
CGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAA
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
AGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATCAAAGAAA
GCAGATCTTATCTTCATGTATCGA
Found at i:46612598 original size:19 final size:19
Alignment explanation
Indices: 46612552--46612604 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
46612542 AATCTTCAAG
*
46612552 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
46612571 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
46612592 GATATGCAATCTT
1 GATATGCAATCTT
46612605 GGAATATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46616000 original size:14 final size:13
Alignment explanation
Indices: 46615971--46616010 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
46615961 AATTTAACCC
*
46615971 AATTTTTTAAAAT
1 AATTTATTAAAAT
46615984 AATTTATTAATAAT
1 AATTTATTAA-AAT
46615998 AATTTATTAAAAT
1 AATTTATTAAAAT
46616011 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:46619278 original size:18 final size:19
Alignment explanation
Indices: 46619257--46619292 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46619247 TATCTTTCTT
46619257 TATTTTTAATG-AATTTTC
1 TATTTTTAATGAAATTTTC
*
46619275 TATTTTTTATGAAATTTT
1 TATTTTTAATGAAATTTT
46619293 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (19 bp):
TATTTTTAATGAAATTTTC
Found at i:46619283 original size:19 final size:21
Alignment explanation
Indices: 46619259--46619308 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
46619249 TCTTTCTTTA
46619259 TTTTTAATGAA-TTTTCT-AT
1 TTTTTAATGAATTTTTCTAAT
*
46619278 TTTTT-ATGAAATTTTTTTAAT
1 TTTTTAATG-AATTTTTCTAAT
46619299 TTTTTAATGA
1 TTTTTAATGA
46619309 TTAAACCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 5 0.19
21 8 0.31
22 3 0.12
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTAATGAATTTTTCTAAT
Found at i:46635450 original size:30 final size:30
Alignment explanation
Indices: 46635345--46635440 Score: 156
Period size: 30 Copynumber: 3.2 Consensus size: 30
46635335 CTAGGACCAC
*
46635345 CACCAGCTTTTGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
* *
46635375 CGCCAGCTTTAGAAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
*
46635405 CACCAGCTTTCGGAGGAGGTGGTGGAGGAG
1 CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
46635435 CACCAG
1 CACCAG
46635441 GAGGTGGAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.22, C:0.17, G:0.45, T:0.17
Consensus pattern (30 bp):
CACCAGCTTTAGGAGGAGGTGGTGGAGGAG
Found at i:46641909 original size:10 final size:10
Alignment explanation
Indices: 46641896--46641920 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46641886 TTTTTTAATT
46641896 TTTTAAAATA
1 TTTTAAAATA
46641906 TTTTAAAATA
1 TTTTAAAATA
46641916 TTTTA
1 TTTTA
46641921 TTTTGTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:46648485 original size:447 final size:447
Alignment explanation
Indices: 46647651--46648548 Score: 1688
Period size: 447 Copynumber: 2.0 Consensus size: 447
46647641 ACAAAATAAC
*
46647651 GTAAGGAACAAATTTAAATTGAAATCAAATTTGTCAATCCTTGTTTCCTTATTCAAAAACCAAGT
1 GTAAGGAACAAATTTAAATTGAAATCAAATTTGTCAATCCTCGTTTCCTTATTCAAAAACCAAGT
* *
46647716 ATCAAACAAATAGAAATTATTCGTACAAACTTTAAAATGCTGGTTTTTCCCGTAAAATGAATCAA
66 ATCAAACAAATAGAAATTATTCGCACAAACTTTAAAATGCTGGTTTTTCCCGCAAAATGAATCAA
46647781 AACATATTCCGGGTTTAAAAACATGAGTTTGATTACTTATGCTAAAGTGTAGCAAAGGGTTCAGT
131 AACATATTCCGGGTTTAAAAACATGAGTTTGATTACTTATGCTAAAGTGTAGCAAAGGGTTCAGT
* *
46647846 AAATCAAACATGTCAAACTGGAAGGATTTTTGCATACACAAGAAAAAACAATCAAAACTCTTTCC
196 AAATCAAACATGTCAAACCGGAAGGATTTTTGCATACACAAGAAAAAACAACCAAAACTCTTTCC
46647911 CATCATCAAAATAGATTTGCACAAATTCAAAAATTTCACAAAAAACTTTAGTGGGTACACGTTAA
261 CATCATCAAAATAGATTTGCACAAATTCAAAAATTTCACAAAAAACTTTAGTGGGTACACGTTAA
*
46647976 TATCATATTCAAACAAATTATGTGTTTTTCGTGAAAAATCATTATCACGCAAGATTAAATTCATG
326 TATCATATTCAAACAAATTATGTGGTTTTCGTGAAAAATCATTATCACGCAAGATTAAATTCATG
46648041 GTTTGTCGATCAGACCGAACAACATCAATAAAGTTTACTTCACAAGGCCAATTAAGA
391 GTTTGTCGATCAGACCGAACAACATCAATAAAGTTTACTTCACAAGGCCAATTAAGA
*
46648098 GTAAGGAACAAATTTAAATTGGAATCAAATTTGTCAATCCTCGTTTCCTTATTCAAAAACCAAGT
1 GTAAGGAACAAATTTAAATTGAAATCAAATTTGTCAATCCTCGTTTCCTTATTCAAAAACCAAGT
*
46648163 ATCAAACAAATAGAAATTATTCGCACAAACTTTAAGATGCTGGTTTTTCCCGCAAAATGAATCAA
66 ATCAAACAAATAGAAATTATTCGCACAAACTTTAAAATGCTGGTTTTTCCCGCAAAATGAATCAA
*
46648228 AACATATTCCGGGTTTAAAAACATGAGTTTGATTACTTATGCTAAAGTGTAGCAAAGGGTTTAGT
131 AACATATTCCGGGTTTAAAAACATGAGTTTGATTACTTATGCTAAAGTGTAGCAAAGGGTTCAGT
* *
46648293 AAATCAAATATGTCAAACCGGAAGGATTTTTGCATACACAAGAACAAACAACCAAAACTCTTTCC
196 AAATCAAACATGTCAAACCGGAAGGATTTTTGCATACACAAGAAAAAACAACCAAAACTCTTTCC
*
46648358 CATCATCGAAATAGATTTGCACAAATTCAAAAATTTCACAAAAAACTTTAGTGGGTACACGTTAA
261 CATCATCAAAATAGATTTGCACAAATTCAAAAATTTCACAAAAAACTTTAGTGGGTACACGTTAA
46648423 TATCATATTCAAACAAATTATGTGGTTTTCGTGAAAAATCATTATCACGCAAGATTAAATTCATG
326 TATCATATTCAAACAAATTATGTGGTTTTCGTGAAAAATCATTATCACGCAAGATTAAATTCATG
46648488 GTTTGTCGATCAGACCGAACAACATCAATAAAGTTTACTTCACAAGGCCAATTAAGA
391 GTTTGTCGATCAGACCGAACAACATCAATAAAGTTTACTTCACAAGGCCAATTAAGA
46648545 GTAA
1 GTAA
46648549 AACTCATTGT
Statistics
Matches: 439, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
447 439 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (447 bp):
GTAAGGAACAAATTTAAATTGAAATCAAATTTGTCAATCCTCGTTTCCTTATTCAAAAACCAAGT
ATCAAACAAATAGAAATTATTCGCACAAACTTTAAAATGCTGGTTTTTCCCGCAAAATGAATCAA
AACATATTCCGGGTTTAAAAACATGAGTTTGATTACTTATGCTAAAGTGTAGCAAAGGGTTCAGT
AAATCAAACATGTCAAACCGGAAGGATTTTTGCATACACAAGAAAAAACAACCAAAACTCTTTCC
CATCATCAAAATAGATTTGCACAAATTCAAAAATTTCACAAAAAACTTTAGTGGGTACACGTTAA
TATCATATTCAAACAAATTATGTGGTTTTCGTGAAAAATCATTATCACGCAAGATTAAATTCATG
GTTTGTCGATCAGACCGAACAACATCAATAAAGTTTACTTCACAAGGCCAATTAAGA
Found at i:46649096 original size:18 final size:18
Alignment explanation
Indices: 46649037--46649101 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
46649027 TTTTTCACAA
*
46649037 TCTTTTTCGATTCTTTTC
1 TCTTTTTCAATTCTTTTC
* *
46649055 TCTCTTTCAATTTTTTTTCC
1 TCTTTTTCAA-TTCTTTT-C
46649075 TCTTTTTCAATCTCTTTT-
1 TCTTTTTCAAT-TCTTTTC
46649093 TCTTTTTCA
1 TCTTTTTCA
46649102 TTACAACATG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 17 0.44
19 7 0.18
20 15 0.38
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (18 bp):
TCTTTTTCAATTCTTTTC
Found at i:46653554 original size:18 final size:18
Alignment explanation
Indices: 46653522--46653556 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46653512 TCTATTGCCC
**
46653522 CTTCTTCCTTGACTGCAT
1 CTTCTTCCTCAACTGCAT
46653540 CTTCTTCCTCAACTGCA
1 CTTCTTCCTCAACTGCA
46653557 CATTCATTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.37, G:0.09, T:0.40
Consensus pattern (18 bp):
CTTCTTCCTCAACTGCAT
Found at i:46665413 original size:52 final size:52
Alignment explanation
Indices: 46665341--46665444 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
46665331 TGAAGATACC
* * * *
46665341 TGAACTTGTTAACTTATACTTACTTACACTTGGGAGATTTTGTGTGGAAGAT
1 TGAACTTGTTAACTTATACTTACTTACACTTAGGAGATATTGTCTGAAAGAT
46665393 TGAACTTGTTAACTTATACTTACTTACACTTAGGAGATATTGTCTGAAAGAT
1 TGAACTTGTTAACTTATACTTACTTACACTTAGGAGATATTGTCTGAAAGAT
46665445 GTGGTGTGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (52 bp):
TGAACTTGTTAACTTATACTTACTTACACTTAGGAGATATTGTCTGAAAGAT
Found at i:46675590 original size:49 final size:49
Alignment explanation
Indices: 46675518--46675616 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
46675508 TGATCTAGGC
* *
46675518 TATACAATGCTAAACTTGGTCTTCTACTGTCTACACTCTTATCACTATT
1 TATACAATGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
* *
46675567 TATACATTGCTAAACTTAGTCTTCCACTGTCTACATTCTTATCACTATT
1 TATACAATGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
46675616 T
1 T
46675617 TATCCCTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.42
Consensus pattern (49 bp):
TATACAATGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
Found at i:46679652 original size:15 final size:16
Alignment explanation
Indices: 46679623--46679652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46679613 CATCTCATAA
46679623 TCATTTCACATATTTG
1 TCATTTCACATATTTG
46679639 TCATTTCA-ATATTT
1 TCATTTCACATATTT
46679653 TCTCATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (16 bp):
TCATTTCACATATTTG
Found at i:46679658 original size:43 final size:43
Alignment explanation
Indices: 46679608--46679693 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
46679598 TCATATCTCA
46679608 TTTCTCATCTCATAATCATTTCACATATTTGT-CATTTCAATAT
1 TTTCTCATCTCATAATCATTTCACATATTT-TCCATTTCAATAT
* * *
46679651 TTTCTCATCTCATAGTCATTTCTCATCTTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCACATATTTTCCATTTCAATAT
46679694 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCACATATTTTCCATTTCAATAT
Found at i:46684501 original size:23 final size:23
Alignment explanation
Indices: 46684475--46684520 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
46684465 GCTAACAAGC
* *
46684475 AAAAAGCGTGTTAAAAGACAGAG
1 AAAAAACGTGTCAAAAGACAGAG
46684498 AAAAAACGTGTCAAAAGACAGAG
1 AAAAAACGTGTCAAAAGACAGAG
46684521 TTACTCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.11, G:0.24, T:0.11
Consensus pattern (23 bp):
AAAAAACGTGTCAAAAGACAGAG
Found at i:46685199 original size:86 final size:85
Alignment explanation
Indices: 46685085--46685274 Score: 226
Period size: 87 Copynumber: 2.2 Consensus size: 85
46685075 ACCCTTTAAA
** *
46685085 TTAAAAAAA-AAATTAAGTCCCTAATTTTTTTGT-A-TTTATTTGAGTACTTAAAATTTTAAAAT
1 TTAAAAAAATAAATTAAGTCCCTAA-TTTTTTGTAACTCAATTAG-GTACTTAAAATTTTAAAAT
*
46685147 ACATCAAAA-GGCCCTCAAATCTT
64 ACATCAAAATGACCCTCAAA-C-T
* * *
46685170 TTAAAAAAATCAATTAAGTCCCTACTTTTTTGTACACTCAATTAGGTACTTAAACTTTTAAAATA
1 TTAAAAAAATAAATTAAGTCCCTAATTTTTTGTA-ACTCAATTAGGTACTTAAAATTTTAAAATA
46685235 CATCAAAATGACCCTCAAACT
65 CATCAAAATGACCCTCAAACT
*
46685256 TAAAAAAAATAAAATTAAG
1 TTAAAAAAAT-AAATTAAG
46685275 CCACATATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
85 17 0.19
86 23 0.26
87 36 0.40
88 14 0.16
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (85 bp):
TTAAAAAAATAAATTAAGTCCCTAATTTTTTGTAACTCAATTAGGTACTTAAAATTTTAAAATAC
ATCAAAATGACCCTCAAACT
Found at i:46685366 original size:19 final size:20
Alignment explanation
Indices: 46685342--46685451 Score: 70
Period size: 19 Copynumber: 5.8 Consensus size: 20
46685332 TTAAATTTTA
*
46685342 ATAAAAAATTAT-TAAAAAT
1 ATAAAAAATTATAAAAAAAT
*
46685361 AT-AAAAATTGTAAAAAAAT
1 ATAAAAAATTATAAAAAAAT
* ***
46685380 ATAAAAAATTGTAAAATTTT
1 ATAAAAAATTATAAAAAAAT
** *
46685400 AT-AAAAATCGTAAAAATAT
1 ATAAAAAATTATAAAAAAAT
* * *
46685419 -TATAAAA-TATATAGAAAT
1 ATAAAAAATTATAAAAAAAT
46685437 AT-AAAAATTATAAAA
1 ATAAAAAATTATAAAA
46685452 TTTTATTAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
18 19 0.28
19 34 0.49
20 16 0.23
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (20 bp):
ATAAAAAATTATAAAAAAAT
Found at i:46685367 original size:9 final size:9
Alignment explanation
Indices: 46685342--46685451 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 9
46685332 TTAAATTTTA
46685342 ATAAAAAATT
1 ATAAAAAA-T
*
46685352 ATTAAAAAT
1 ATAAAAAAT
*
46685361 ATAAAAATT
1 ATAAAAAAT
*
46685370 GTAAAAAAAT
1 AT-AAAAAAT
46685380 ATAAAAAAT
1 ATAAAAAAT
* *
46685389 -TGTAAAATT
1 AT-AAAAAAT
*
46685398 TTATAAAAAT
1 ATA-AAAAAT
*
46685408 CGT-AAAAAT
1 -ATAAAAAAT
*
46685417 ATTATAAAAT
1 A-TAAAAAAT
*
46685427 ATATAGAAAT
1 ATA-AAAAAT
*
46685437 ATAAAAATT
1 ATAAAAAAT
46685446 ATAAAA
1 ATAAAA
46685452 TTTTATTAAG
Statistics
Matches: 75, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
8 1 0.01
9 40 0.53
10 33 0.44
11 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:46685426 original size:10 final size:10
Alignment explanation
Indices: 46685324--46685457 Score: 70
Period size: 10 Copynumber: 13.9 Consensus size: 10
46685314 TAAAAACTAT
*
46685324 AAATATTATT
1 AAATATTATA
*
46685334 AAATTTTAATA
1 AAATATT-ATA
*
46685345 AAAAATTATTA
1 AAATATTA-TA
46685356 AAA-A-TATA
1 AAATATTATA
*
46685364 AAA-ATTGTA
1 AAATATTATA
* *
46685373 AAAAAATATA
1 AAATATTATA
* *
46685383 AAAAATTGTA
1 AAATATTATA
*
46685393 AAATTTTATA
1 AAATATTATA
46685403 AAA-ATCGTA-A
1 AAATAT--TATA
46685413 AAATATTATA
1 AAATATTATA
46685423 AAATA-TATA
1 AAATATTATA
*
46685432 GAA-A-TATA
1 AAATATTATA
46685440 AAA-ATTATA
1 AAATATTATA
*
46685449 AAATTTTAT
1 AAATATTAT
46685458 TAAGTCCTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
8 14 0.14
9 24 0.24
10 44 0.45
11 16 0.16
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (10 bp):
AAATATTATA
Found at i:46685702 original size:19 final size:19
Alignment explanation
Indices: 46685642--46685704 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
46685632 GTCATTAAAT
*
46685642 TTTTTTATGATTTTTATAA
1 TTTTTTACGATTTTTATAA
** * * *
46685661 AATTTTACAATTTTTTTAT
1 TTTTTTACGATTTTTATAA
46685680 TTTTTTACGATTTTTATAA
1 TTTTTTACGATTTTTATAA
46685699 TTTTTT
1 TTTTTT
46685705 TCTTCTAATT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTTACGATTTTTATAA
Found at i:46685775 original size:78 final size:76
Alignment explanation
Indices: 46685640--46685794 Score: 179
Period size: 78 Copynumber: 2.0 Consensus size: 76
46685630 GGGTCATTAA
* * *** *
46685640 ATTTTTTTATGATTTTTATAAAATTTTACAATTTTTTTATTTTTTTACGATTTTTATAATTTTTT
1 ATTTTTTTATGATTTTTATAAAATTTAACAATTTTTCTATAAATTTACGATTTTTATAA-ATTTT
46685705 TCTTCTAATTTTT
65 T-TTCTAATTTTT
* **
46685718 ATTTTTTTAT-ATTTTTATTAAAATTTAATAATTTTTCTA-AAATTTATTATTTGTTATAAATTT
1 ATTTTTTTATGATTTTTA-TAAAATTTAACAATTTTTCTATAAATTTACGATTT-TTATAAATTT
46685781 TTTTCTAATTTTT
64 TTTTCTAATTTTT
46685794 A
1 A
46685795 ATAAGAGCAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
76 12 0.18
77 20 0.30
78 34 0.52
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (76 bp):
ATTTTTTTATGATTTTTATAAAATTTAACAATTTTTCTATAAATTTACGATTTTTATAAATTTTT
TTCTAATTTTT
Found at i:46685777 original size:19 final size:18
Alignment explanation
Indices: 46685723--46685777 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
46685713 TTTTTATTTT
46685723 TTTA-TATTTTTATTAAAA
1 TTTATTATTTTTA-TAAAA
* *
46685741 TTTAATAATTTTTCTAAAA
1 TTT-ATTATTTTTATAAAA
46685760 TTTATTATTTGTTATAAA
1 TTTATTATTT-TTATAAA
46685778 TTTTTTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.30
19 15 0.50
20 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTATTATTTTTATAAAA
Found at i:46686577 original size:5 final size:5
Alignment explanation
Indices: 46686567--46686597 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
46686557 TGGGCGATTA
46686567 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
1 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
46686598 TTTAGCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.61, T:0.19
Consensus pattern (5 bp):
GGTGC
Found at i:46687882 original size:4 final size:4
Alignment explanation
Indices: 46687873--46687909 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
46687863 AAGCTTCTAC
46687873 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
46687910 TTTCTATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:46699622 original size:22 final size:22
Alignment explanation
Indices: 46699597--46699639 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
46699587 TGTAATTTTG
46699597 AAAGTTGAGGGGTATAAATTGT
1 AAAGTTGAGGGGTATAAATTGT
46699619 AAAGTTGAGGGGTATAAATTG
1 AAAGTTGAGGGGTATAAATTG
46699640 AAAAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (22 bp):
AAAGTTGAGGGGTATAAATTGT
Found at i:46700095 original size:42 final size:41
Alignment explanation
Indices: 46700035--46700170 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
46700025 AGTTAACTTA
* *
46700035 TATGAGTTTCAATTTAACCCTTCTGGGTTTCAGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTCTGGGTTTCA-TTCAGCTCT
* * *
46700077 TTTGAGCTTCAGTTTAACCCTTATAGGTTTCCATTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTCTGGGTTT-CATTCAGCTCT
* * * *
46700119 TATGAGCTTCCGTTCAACCCTTAC-GGGTTTCCATTTAGCACT
1 TATGAGCTTCAGTTTAACCCTT-CTGGGTTT-CATTCAGCTCT
*
46700161 TATGTGCTTC
1 TATGAGCTTC
46700171 TGTGCAGCCT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 77 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.41
Consensus pattern (41 bp):
TATGAGCTTCAGTTTAACCCTTCTGGGTTTCATTCAGCTCT
Found at i:46700129 original size:21 final size:21
Alignment explanation
Indices: 46700105--46700170 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
46700095 CCTTATAGGT
*
46700105 TTCCATTCAGCTCTTATGAGC
1 TTCCATTCAGCACTTATGAGC
* * * * * *
46700126 TTCCGTTCAACCCTTACGGGT
1 TTCCATTCAGCACTTATGAGC
* *
46700147 TTCCATTTAGCACTTATGTGC
1 TTCCATTCAGCACTTATGAGC
46700168 TTC
1 TTC
46700171 TGTGCAGCCT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (21 bp):
TTCCATTCAGCACTTATGAGC
Found at i:46701132 original size:45 final size:45
Alignment explanation
Indices: 46701063--46701190 Score: 238
Period size: 45 Copynumber: 2.8 Consensus size: 45
46701053 AGAGGCTCTT
46701063 GACACTACTAATGTGAGCCTCACCCTTCTATAACCTTAAAGAGAG
1 GACACTACTAATGTGAGCCTCACCCTTCTATAACCTTAAAGAGAG
*
46701108 GACATTACTAATGTGAGCCTCACCCTTCTATAACCTTAAAGAGAG
1 GACACTACTAATGTGAGCCTCACCCTTCTATAACCTTAAAGAGAG
*
46701153 GACACTACTAATGTGAGCCTCACCCTTCTATGACCTTA
1 GACACTACTAATGTGAGCCTCACCCTTCTATAACCTTA
46701191 CCTTCTTGTT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (45 bp):
GACACTACTAATGTGAGCCTCACCCTTCTATAACCTTAAAGAGAG
Found at i:46701288 original size:56 final size:56
Alignment explanation
Indices: 46701219--46701375 Score: 242
Period size: 56 Copynumber: 2.8 Consensus size: 56
46701209 GCTTATCTGT
** * *
46701219 TAGGATATTATTATGCAATATTATTTTTTAGCAATTTGATTCCTAATGGAATGTTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGAATATTA
* * * *
46701275 TAGGATATTATTATGGGATATTCTCTCTTAGCAATTTGATTCCTAATGGGATATTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGAATATTA
46701331 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTA
46701376 CATAACTATT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATGGAATATTA
Found at i:46704760 original size:56 final size:55
Alignment explanation
Indices: 46704669--46704822 Score: 202
Period size: 56 Copynumber: 2.8 Consensus size: 55
46704659 GGGGAATGTT
* *
46704669 AGGATATTATTATGAGATATTATCTTTTAGGAATTTGATTCCTAATAAGATGTTAC
1 AGGATATTATTATG-GATATTATCTTTTAGCAATTTGATTCCTAATAAGATATTAC
* ** * *
46704725 AGGATATTATTATTGGATATTCTCTCCTAGCAATTTGATTCCTAATTAGATATTAG
1 AGGATATTATTA-TGGATATTATCTTTTAGCAATTTGATTCCTAATAAGATATTAC
* *
46704781 AAGATATTATTAT-GATGTTATCTTTTAGCAATTTGATTCCTA
1 AGGATATTATTATGGATATTATCTTTTAGCAATTTGATTCCTA
46704823 CGTATCTACT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 25 0.29
55 1 0.01
56 57 0.67
57 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (55 bp):
AGGATATTATTATGGATATTATCTTTTAGCAATTTGATTCCTAATAAGATATTAC
Found at i:46705438 original size:15 final size:16
Alignment explanation
Indices: 46705410--46705443 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46705400 TGAATTTTTC
*
46705410 TTTAAAAAATCCAATA
1 TTTAAAAAATCCAAAA
46705426 TTTAAAAAA-CCAAAA
1 TTTAAAAAATCCAAAA
46705441 TTT
1 TTT
46705444 TCATATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
TTTAAAAAATCCAAAA
Found at i:46706423 original size:25 final size:25
Alignment explanation
Indices: 46706395--46706444 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
46706385 CGTCATTGTG
46706395 AAAGACAAAGTGTGTCTAGCCTCGT
1 AAAGACAAAGTGTGTCTAGCCTCGT
46706420 AAAGACAAAGTGTGTCTAGCCTCGT
1 AAAGACAAAGTGTGTCTAGCCTCGT
46706445 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAGACAAAGTGTGTCTAGCCTCGT
Found at i:46713480 original size:26 final size:25
Alignment explanation
Indices: 46713451--46713499 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
46713441 TTACAATAGA
46713451 GGTCACTCAATTATTATTATTTTAAT
1 GGTCACTCAATTA-TATTATTTTAAT
* * *
46713477 GGTCATTTAATTATATTTTTTTA
1 GGTCACTCAATTATATTATTTTA
46713500 GTTACTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (25 bp):
GGTCACTCAATTATATTATTTTAAT
Found at i:46714168 original size:29 final size:31
Alignment explanation
Indices: 46714134--46714200 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
46714124 AATTTATAGA
*
46714134 TTTAGTCCCTATA-CTTTT-ATTTGATCAAT
1 TTTAGTCCCTATATCTTTTGAATTGATCAAT
* * *
46714163 TTTAGTCCTTATATTTTTTGAATTGGTCAAT
1 TTTAGTCCCTATATCTTTTGAATTGATCAAT
46714194 TTTAGTC
1 TTTAGTC
46714201 ATTGTACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 12 0.38
30 4 0.12
31 16 0.50
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTAGTCCCTATATCTTTTGAATTGATCAAT
Found at i:46721803 original size:37 final size:36
Alignment explanation
Indices: 46721709--46721803 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
46721699 TTTATAATAC
* *
46721709 ATATATACATGTACATATT-TTTCTATAATTTATAT
1 ATATATATATGTACATATTCTTACTATAATTTATAT
*
46721744 ATATATACTCATATACAT-TTCTTACTAT-ATCTTATAAT
1 ATATATA-T-ATGTACATATTCTTACTATAAT-TTAT-AT
*
46721782 TTATATATATGTACATATTCTT
1 ATATATATATGTACATATTCTT
46721804 TATTTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
35 7 0.14
36 11 0.22
37 23 0.47
38 8 0.16
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.51
Consensus pattern (36 bp):
ATATATATATGTACATATTCTTACTATAATTTATAT
Found at i:46724989 original size:20 final size:20
Alignment explanation
Indices: 46724964--46725029 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
46724954 GACTGTGGAG
46724964 GTAAAAAAAGCAAGCAAAAA
1 GTAAAAAAAGCAAGCAAAAA
46724984 GTAAAAAAAAGCAAGCAAAAAA
1 GT-AAAAAAAGCAAGC-AAAAA
46725006 G-AAAAAAAGCAA--AAAAA
1 GTAAAAAAAGCAAGCAAAAA
46725023 -TAAAAAA
1 GTAAAAAA
46725030 CCTCTACTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.26
20 13 0.30
21 13 0.30
22 6 0.14
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.05
Consensus pattern (20 bp):
GTAAAAAAAGCAAGCAAAAA
Found at i:46724992 original size:21 final size:20
Alignment explanation
Indices: 46724966--46725029 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 20
46724956 CTGTGGAGGT
46724966 AAAAAAAGCAAGCAAAAAGTA
1 AAAAAAAGCAAGCAAAAA-TA
46724987 AAAAAAAGCAAGCAAAAA-A
1 AAAAAAAGCAAGCAAAAATA
46725006 GAAAAAAAGCAA--AAAAATA
1 -AAAAAAAGCAAGCAAAAATA
46725025 AAAAA
1 AAAAA
46725030 CCTCTACTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.24
19 2 0.05
20 11 0.27
21 18 0.44
ACGTcount: A:0.78, C:0.08, G:0.11, T:0.03
Consensus pattern (20 bp):
AAAAAAAGCAAGCAAAAATA
Found at i:46725479 original size:11 final size:11
Alignment explanation
Indices: 46725463--46725500 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46725453 TACTTCACTT
46725463 AAAAAAAAGAG
1 AAAAAAAAGAG
46725474 AAAAAAAAGAG
1 AAAAAAAAGAG
46725485 AAAAGAAAAGA-
1 AAAA-AAAAGAG
46725496 AAAAA
1 AAAAA
46725501 GAACAGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 1 0.04
11 19 0.73
12 6 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:46725501 original size:12 final size:12
Alignment explanation
Indices: 46725463--46725524 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
46725453 TACTTCACTT
*
46725463 AAAA-AAAAGAG
1 AAAAGAAAAGAA
*
46725474 AAAA-AAAAGAG
1 AAAAGAAAAGAA
46725485 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
46725497 AAAAGAACAGAA
1 AAAAGAAAAGAA
* *
46725509 GAACGAAAAAGAA
1 AAAAG-AAAAGAA
46725522 AAA
1 AAA
46725525 GGAGAGGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 15 0.35
12 20 0.47
13 8 0.19
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:46725516 original size:19 final size:18
Alignment explanation
Indices: 46725467--46725525 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
46725457 TCACTTAAAA
46725467 AAAAGAGAAA-AAAAAGAG
1 AAAAGA-AAAGAAAAAGAG
46725485 AAAAGAAAAGAAAAA-AG
1 AAAAGAAAAGAAAAAGAG
*
46725502 AACAGAAGAACGAAAAAGA-
1 AAAAGAA-AA-GAAAAAGAG
46725521 AAAAG
1 AAAAG
46725526 GAGAGGCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 11 0.31
18 13 0.37
19 10 0.29
20 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAGAG
Found at i:46726852 original size:45 final size:45
Alignment explanation
Indices: 46726788--46727477 Score: 934
Period size: 45 Copynumber: 15.3 Consensus size: 45
46726778 TCACATCAAG
* *
46726788 TCTTGTCTTCCTATATTGGCAGCAAAGTAGACTGAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* *
46726833 TCTTGTCTTCCTATATTGGCAGCGAAGTAGA-TCAAAGATAGCA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGA
46726877 GTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* * *
46726923 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAGTAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* *
46726968 TCTTGTCTTCCTGTATCGGCAGCGAAGTAGACTGAAGATAGTAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
*
46727013 TCTTGTCTTCCTGTATTGACAGCGAAGTAGA-TCGAAGATAGCA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGA
* * * *
46727057 GTCTTATCTTTCTGTATTGGCAGCGAAGTAAACTGAAGATAACAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* *
46727103 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAGCA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
*
46727147 GTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAGATAGCAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* *
46727193 TCTTGTCTCCCTGTATTGGTAGCGAAGTAGA-TCGAAGATAGCA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGA
* *
46727237 GTCTTATCTTCCTGTATTGGCAGTGAAGTAGACTGAAGATAGCAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
*
46727283 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCGAAGATAG-AAA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGA
* *
46727327 GTCTTGTCTTCTTGTATTGGCAACGAAGTAGACTGAAGATAGCAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
* * * *
46727373 CCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-TCGAATATAACA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGA
* *
46727417 GTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTAAAGATAGCAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
46727463 TCTTGTCTTCCTGTA
1 TCTTGTCTTCCTGTA
46727478 CTGCCAGTGA
Statistics
Matches: 572, Mismatches: 51, Indels: 44
0.86 0.08 0.07
Matches are distributed among these distances:
44 12 0.02
45 548 0.96
46 12 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGA
Found at i:46726940 original size:90 final size:90
Alignment explanation
Indices: 46726784--46727496 Score: 1104
Period size: 90 Copynumber: 7.9 Consensus size: 90
46726774 GTCATCACAT
* * *
46726784 CAAGTCTTGTCTTCCTATATTGGCAGCAAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTATAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
*
46726849 TGGCAGCGAAGTAGATCAAAGATAG
66 TGGCAGCGAAGTAGATCGAAGATAG
46726874 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
* *
46726939 TGGCAGCAAAGTAGATTGAAGATAG
66 TGGCAGCGAAGTAGATCGAAGATAG
* * *
46726964 -TAGATCTTGTCTTCCTGTATCGGCAGCGAAGTAGACTGAAGATAGTAGATCTTGTCTTCCTGTA
1 CAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA
*
46727028 TTGACAGCGAAGTAGATCGAAGATAG
65 TTGGCAGCGAAGTAGATCGAAGATAG
* * * *
46727054 CAAGTCTTATCTTTCTGTATTGGCAGCGAAGTAAACTGAAGATAACAGATCTTGTCTTCCTGTAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
* *
46727119 TGGCAGCAAAGTAGATTGAAGATAG
66 TGGCAGCGAAGTAGATCGAAGATAG
* *
46727144 CAAGTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTCCCTGTAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
*
46727209 TGGTAGCGAAGTAGATCGAAGATAG
66 TGGCAGCGAAGTAGATCGAAGATAG
* *
46727234 CAAGTCTTATCTTCCTGTATTGGCAGTGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
46727299 TGGCAGCGAAGTAGATCGAAGATAG
66 TGGCAGCGAAGTAGATCGAAGATAG
* * * * *
46727324 AAAGTCTTGTCTTCTTGTATTGGCAACGAAGTAGACTGAAGATAGCAGACCTTGTCTTCTTGTAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
* *
46727389 TGGCAGCGAAGTAGATCGAATATAA
66 TGGCAGCGAAGTAGATCGAAGATAG
* * *
46727414 CAAGTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTAAAGATAGCAGATCTTGTCTTCCTGTAC
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
* * *
46727479 TGCCAGTGAAGCAGATCG
66 TGGCAGCGAAGTAGATCG
46727497 GGAGCACCAG
Statistics
Matches: 565, Mismatches: 56, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
89 2 0.00
90 561 0.99
91 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (90 bp):
CAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTAT
TGGCAGCGAAGTAGATCGAAGATAG
Found at i:46727646 original size:50 final size:50
Alignment explanation
Indices: 46727587--46727698 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
46727577 CAAATCGAAG
* * *
46727587 ATAGCGAATCTTACTTTCCAAG-CTGTCCGGTGGAAAAGATTGAAGCTGCA
1 ATAGCGAATCTTAC-TTCCAAGACGGTCCAGTGGAAAAGATTGAAGCTACA
** * *
46727637 ATAGCGAATCTTACTTCCCTGACGGTGCAGTGGAATAGATTGAAGCTACA
1 ATAGCGAATCTTACTTCCAAGACGGTCCAGTGGAAAAGATTGAAGCTACA
*
46727687 ATGGCGAATCTT
1 ATAGCGAATCTT
46727699 GTTTCCCCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 5 0.09
50 48 0.91
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
ATAGCGAATCTTACTTCCAAGACGGTCCAGTGGAAAAGATTGAAGCTACA
Found at i:46727716 original size:50 final size:50
Alignment explanation
Indices: 46727587--46727717 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
46727577 CAAATCGAAG
* * * * *
46727587 ATAGCGAATCTTACTT-TCCAAGCTGTCCGGTGGAAAAGATTGAAGCTGCA
1 ATAGCGAATCTTACTTCCCCAA-CAGTGCAGTGGAAAAGATTGAAGCTACA
** * *
46727637 ATAGCGAATCTTACTTCCCTGACGGTGCAGTGGAATAGATTGAAGCTACA
1 ATAGCGAATCTTACTTCCCCAACAGTGCAGTGGAAAAGATTGAAGCTACA
* ** *
46727687 ATGGCGAATCTTGTTTCCCCAACATTGCAGT
1 ATAGCGAATCTTACTTCCCCAACAGTGCAGT
46727718 TAATTTGACA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
50 63 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
ATAGCGAATCTTACTTCCCCAACAGTGCAGTGGAAAAGATTGAAGCTACA
Found at i:46730603 original size:22 final size:22
Alignment explanation
Indices: 46730560--46730604 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46730550 TCGTGGACCA
* *
46730560 AAATCGTTGTTTTAATAAAACC
1 AAATCGTTGTATTAAAAAAACC
46730582 AAATCGTT-TATTAAAAATAACC
1 AAATCGTTGTATTAAAAA-AACC
46730604 A
1 A
46730605 CTTTTCGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATCGTTGTATTAAAAAAACC
Found at i:46732736 original size:29 final size:29
Alignment explanation
Indices: 46732697--46732758 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
46732687 ACCCAGACAG
*
46732697 TGTGTCTTACATGG-TCTAGCACATGGCCA
1 TGTGTCATACATGGCT-TAGCACATGGCCA
* *
46732726 TGTGTCATACATGGCTTGGCACATGGCTA
1 TGTGTCATACATGGCTTAGCACATGGCCA
46732755 TGTG
1 TGTG
46732759 GCGTCAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (29 bp):
TGTGTCATACATGGCTTAGCACATGGCCA
Found at i:46734195 original size:31 final size:31
Alignment explanation
Indices: 46734128--46734196 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
46734118 GTTATAAATG
* * *
46734128 TAAATATGACATAAAATATAATTAGATGTAT
1 TAAATATAAAATAAAATATAATTACATGTAT
* *
46734159 AAAATATAAAATAATAATATAA-TACATGTCT
1 TAAATATAAAATAA-AATATAATTACATGTAT
46734190 TAAATAT
1 TAAATAT
46734197 GTCATATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (31 bp):
TAAATATAAAATAAAATATAATTACATGTAT
Found at i:46743502 original size:51 final size:49
Alignment explanation
Indices: 46743377--46743562 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 49
46743367 GTGAAAGTGA
* *
46743377 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-T
* * * * *
46743427 GGGCCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * *
46743477 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTTTATCAGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
*
46743527 GATGGTCACATGTGTAGTACTATGTGCATGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
46743563 TGTGAACCGG
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 41 0.37
51 70 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:46743507 original size:101 final size:102
Alignment explanation
Indices: 46743380--46743564 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
46743370 AAAGTGATGG
* *
46743380 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATGGGCCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGCCACATGTGTAGT
46743443 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* * *
46743481 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTTTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGCCACATGTGTAGTA
*
46743546 CTATGTGCATGCTACTATG
66 CTATGTGCAGGCTACTATG
46743565 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGCCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:46743601 original size:101 final size:101
Alignment explanation
Indices: 46743386--46743570 Score: 246
Period size: 102 Copynumber: 1.8 Consensus size: 101
46743376 ATGGTCACGT
* *
46743386 GTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATGGGCCGCATGTGTAGTACTATGTG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATGGGCCACATGTGTAGTACTATGTG
* * **
46743451 CAGGCTACTATGCGTACCAGATAGCTTCGATCACGT
66 CAGGCTACTATGCGAACCAGATAGCTTCAATCACAA
* * *
46743487 GTGTAGTACTATGTGCAGGCTACTACGTTTATCAGATAGTGAT-GGTCACATGTGTAGTACTATG
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATGGGCCACATGTGTAGTACTATG
* *
46743551 TGCATGCTACTATGTGAACC
64 TGCAGGCTACTATGCGAACC
46743571 GGTATCTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 33 0.45
102 37 0.50
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATGGGCCACATGTGTAGTACTATGTG
CAGGCTACTATGCGAACCAGATAGCTTCAATCACAA
Found at i:46747081 original size:22 final size:22
Alignment explanation
Indices: 46747041--46747106 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
46747031 GTTTGTACAG
* *
46747041 GATTTGCACTACGAG-GCCTATT
1 GATTTGCACTATG-GTGCCTACT
46747063 GATTTGCACTATGGTGCCTACT
1 GATTTGCACTATGGTGCCTACT
*
46747085 GATTCGCACT-TCGGTGCCTACT
1 GATTTGCACTAT-GGTGCCTACT
46747107 ACTCAGCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 37 0.95
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (22 bp):
GATTTGCACTATGGTGCCTACT
Found at i:46747115 original size:22 final size:22
Alignment explanation
Indices: 46747075--46747152 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
46747065 TTTGCACTAT
46747075 GGTGCCTACTGATTC-GCACTTC
1 GGTGCCTACT-ATTCAGCACTTC
*
46747097 GGTGCCTACTACTCAGCACTTC
1 GGTGCCTACTATTCAGCACTTC
* * *
46747119 GGTGTCTACTATTAAAGCACTTT
1 GGTGCCTACTATT-CAGCACTTC
46747142 GGTGCCTACTA
1 GGTGCCTACTA
46747153 GTGTGGTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 3 0.06
22 28 0.58
23 17 0.35
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (22 bp):
GGTGCCTACTATTCAGCACTTC
Found at i:46754182 original size:3 final size:3
Alignment explanation
Indices: 46754174--46754235 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
46754164 GATGCCATTG
*
46754174 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
*
46754220 TAA TCA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA
46754236 TTTAATTCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:46758347 original size:10 final size:10
Alignment explanation
Indices: 46758315--46758363 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
46758305 AAAACGTAAT
46758315 TATTAAATTA
1 TATTAAATTA
*
46758325 TA-T--ATTT
1 TATTAAATTA
46758332 TATTAAATTA
1 TATTAAATTA
*
46758342 TATTAAAATA
1 TATTAAATTA
46758352 TGATTAAATTA
1 T-ATTAAATTA
46758363 T
1 T
46758364 TTATTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
7 5 0.16
8 1 0.03
9 1 0.03
10 15 0.48
11 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TATTAAATTA
Found at i:46758616 original size:27 final size:27
Alignment explanation
Indices: 46758578--46758637 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
46758568 TGAATTATTG
**
46758578 ATTACAGCTCTATTCCATTACTTCTCT
1 ATTACAGCTCTATTCCATTACAGCTCT
46758605 ATTACAGCTCTATTCCATTACAGCTCT
1 ATTACAGCTCTATTCCATTACAGCTCT
46758632 ATTACA
1 ATTACA
46758638 TTAAAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.28, G:0.05, T:0.40
Consensus pattern (27 bp):
ATTACAGCTCTATTCCATTACAGCTCT
Found at i:46758624 original size:16 final size:16
Alignment explanation
Indices: 46758578--46758640 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
46758568 TGAATTATTG
46758578 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
46758594 ATT--A-CT-T-CTCT
1 ATTACAGCTCTATTCC
46758605 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
46758621 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTCC
46758637 ATTA
1 ATTA
46758641 AAATCATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 5 0.14
12 1 0.03
13 3 0.08
14 3 0.08
15 1 0.03
16 24 0.65
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46769521 original size:31 final size:31
Alignment explanation
Indices: 46769480--46769554 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
46769470 TAGATTTAAA
* *
46769480 TATGACATATTTAAGACATGT-ATTATATTAT
1 TATGTCATATTTAAGACATCTAATTATATT-T
* * * *
46769511 TATTTTATATTTTATACATCTAATTATATTT
1 TATGTCATATTTAAGACATCTAATTATATTT
46769542 TATGTCATATTTA
1 TATGTCATATTTA
46769555 CATTTATAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (31 bp):
TATGTCATATTTAAGACATCTAATTATATTT
Found at i:46770957 original size:29 final size:29
Alignment explanation
Indices: 46770924--46770985 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
46770914 TTCTTGACGC
*
46770924 CACATAGCCATGTGCCAAG-CCATGTATGA
1 CACATAGCCATGTG-CAAGACCATGTAAGA
* *
46770953 CACATGGCCATGTGCTAGACCATGTAAGA
1 CACATAGCCATGTGCAAGACCATGTAAGA
46770982 CACA
1 CACA
46770986 CTGTCTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (29 bp):
CACATAGCCATGTGCAAGACCATGTAAGA
Found at i:46772372 original size:12 final size:12
Alignment explanation
Indices: 46772355--46772381 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46772345 ATCGTAAGCG
46772355 AATGGCATCATT
1 AATGGCATCATT
46772367 AATGGCATCATT
1 AATGGCATCATT
46772379 AAT
1 AAT
46772382 CTTGAAAGTG
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (12 bp):
AATGGCATCATT
Found at i:46772862 original size:5 final size:5
Alignment explanation
Indices: 46772827--46772869 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
46772817 TAAAATGTAC
* *
46772827 AAAAT AAATT AAAAT ATATAT AAATAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT A-AAAT AAA-AT AAAAT AAAAT AAAAT A
46772870 TGTTTATGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (5 bp):
AAAAT
Found at i:46781072 original size:42 final size:41
Alignment explanation
Indices: 46781004--46781165 Score: 157
Period size: 42 Copynumber: 3.9 Consensus size: 41
46780994 TTTTTATATA
*
46781004 TGTTATCGTGTAAAACCATGTCTGGGACGTTGGCATCGACTTG
1 TGTTA-CGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TTG
* * *
46781047 TGTTACGTGTAAGACAATGTTTGGGACATTGGCATCGTATT-
1 TGTTACGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTG
* * * *
46781088 TCTTTCGTGTAAGACCCTGTCTGAGACAG-TGGCATCGATATG
1 TGTTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TG
* * *
46781130 TGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TG-TTACGTGTAAGACCATGTCTGGGACGTTGGCAT
46781166 TGTACGAGTT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.02
41 30 0.32
42 32 0.34
43 31 0.33
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
TGTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATTG
Found at i:46781121 original size:41 final size:42
Alignment explanation
Indices: 46781009--46781156 Score: 124
Period size: 41 Copynumber: 3.5 Consensus size: 42
46780999 ATATATGTTA
* *
46781009 TCGTGTAAAACCATGTCTGGGAC-GTTGGCATCGACTTGTGTT
1 TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGACTTGTCTT
* * * *
46781051 ACGTGTAAGACAATGTTTGGGACATTGGCATCGTA-TT-TCTT
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCG-ACTTGTCTT
* * *
46781092 TCGTGTAAGACCCTGTCTGAGACAGTGGCATCGA-TATGTGATT
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACT-TGT-CTT
* * *
46781135 ACATGTAAGACCACGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGA
46781157 TGTTGGCATT
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
40 2 0.02
41 31 0.37
42 30 0.36
43 20 0.24
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACAGTGGCATCGACTTGTCTT
Found at i:46783387 original size:40 final size:41
Alignment explanation
Indices: 46783301--46783387 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 41
46783291 GGTCAGGCCA
*
46783301 TGTGGCTCACACGGTCAAGAGGCACGCCCATGTCTCAGGCCG
1 TGTGGCTCACACGGTCAAGAGGCACGCCCA-GTCTCAAGCCG
* *
46783343 TGTGGCTCACATGGTCAAGAGGCACGCCC-GTCTCAAGTCG
1 TGTGGCTCACACGGTCAAGAGGCACGCCCAGTCTCAAGCCG
46783383 TGTGG
1 TGTGG
46783388 GCATTCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 14 0.33
42 28 0.67
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (41 bp):
TGTGGCTCACACGGTCAAGAGGCACGCCCAGTCTCAAGCCG
Found at i:46784212 original size:23 final size:23
Alignment explanation
Indices: 46784186--46784231 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46784176 GATGCTTAGT
*
46784186 AAGTTCGTATAATGGGAAACTAA
1 AAGTTCGTATAACGGGAAACTAA
46784209 AAGTTCGTATAACGGGAAACTAA
1 AAGTTCGTATAACGGGAAACTAA
46784232 CATACCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (23 bp):
AAGTTCGTATAACGGGAAACTAA
Found at i:46784619 original size:27 final size:25
Alignment explanation
Indices: 46784583--46784664 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
46784573 ATTAGAGCAC
*
46784583 ATAATCGGGAAGCACACTCTTGAGCCAT
1 ATAAT-GGGAAGCACA-T-GTGAGCCAT
*
46784611 ATAATGGGAAGCTCATGTGAGCCAT
1 ATAATGGGAAGCACATGTGAGCCAT
* * *
46784636 CTAACGGGAAGCTCATGTGAGCCAT
1 ATAATGGGAAGCACATGTGAGCCAT
46784661 -TAAT
1 ATAAT
46784665 AGGTAGCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 3 0.06
25 31 0.63
26 1 0.02
27 9 0.18
28 5 0.10
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
ATAATGGGAAGCACATGTGAGCCAT
Found at i:46784634 original size:25 final size:24
Alignment explanation
Indices: 46784603--46784664 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 24
46784593 AGCACACTCT
46784603 TGAGCCATATAATGGGAAGCTCATG
1 TGAGCCAT-TAATGGGAAGCTCATG
*
46784628 TGAGCCATCTAACGGGAAGCTCATG
1 TGAGCCAT-TAATGGGAAGCTCATG
46784653 TGAGCCATTAAT
1 TGAGCCATTAAT
46784665 AGGTAGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (24 bp):
TGAGCCATTAATGGGAAGCTCATG
Found at i:46784813 original size:26 final size:26
Alignment explanation
Indices: 46784762--46784816 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
46784752 CCATTAATTA
* *
46784762 GGAAGTTCACAAAGAACCTTTAATCG
1 GGAAGCTCACAAAGAACCTATAATCG
*
46784788 GGAAGCTCACAAAGAGCC-ATATATCG
1 GGAAGCTCACAAAGAACCTATA-ATCG
46784814 GGA
1 GGA
46784817 TTTGCATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAACCTATAATCG
Found at i:46785494 original size:20 final size:20
Alignment explanation
Indices: 46785453--46785494 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46785443 CATGTAATTC
*
46785453 ATAAATTTTAGCATTTTTCA
1 ATAAATTTTAGCATTTTACA
46785473 ATAAATTTTA-CATCTTTACA
1 ATAAATTTTAGCAT-TTTACA
46785493 AT
1 AT
46785495 TTAGTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAAATTTTAGCATTTTACA
Found at i:46789278 original size:50 final size:50
Alignment explanation
Indices: 46789197--46789440 Score: 215
Period size: 50 Copynumber: 4.9 Consensus size: 50
46789187 GACATTTGGG
* *
46789197 TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGA
1 TAAA-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* **
46789248 TAAAAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCACCGAGA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* * *** * * * *
46789298 TGAGAGGTCCCCCATAAGATCATGTTTGGGACATGGCATGGGCACCGATA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
* * * * * *
46789348 TGAGAA-CTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATA
1 T-AAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGA
* ** * *
46789397 TGAAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46789441 TGTTATTATC
Statistics
Matches: 156, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.02
49 36 0.23
50 112 0.72
51 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
Found at i:46789416 original size:49 final size:49
Alignment explanation
Indices: 46789326--46789440 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 49
46789316 ATCATGTTTG
* * *
46789326 GGACATGGCATGGGCACCG-ATATGAGAACTCTCATGTAAGACCATATCTG
1 GGACATGGCATTGGCA--GTATATGAGAACTCCCATGTAAGACCATATCTA
* *
46789376 GGATATGGCATTGGCAGTATATGA-AACATCCCATGTAAGACCATGTCTA
1 GGACATGGCATTGGCAGTATATGAGAAC-TCCCATGTAAGACCATATCTA
*
46789425 GGACATGGCTTTGGCA
1 GGACATGGCATTGGCA
46789441 TGTTATTATC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
48 4 0.07
49 38 0.68
50 14 0.25
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
GGACATGGCATTGGCAGTATATGAGAACTCCCATGTAAGACCATATCTA
Found at i:46796875 original size:50 final size:50
Alignment explanation
Indices: 46796781--46797018 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 50
46796771 TTGGGTAAAA
* **
46796781 AGGTCCCATGTAAGACCATGT-TTGGACATGGTGTTGGCACCGAGATAAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAG
*
46796830 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAG
* * *
46796880 AGGTCCC-TCGTAAGATCATGTCTGGGACATGGCATTGGCACCGATATGAG
1 AGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAG
** * * * * * * *
46796930 AACTCTCATGTAAGACCATATCTGGGATATGGCATTGGTAGTACGTGA-AAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGATAAG
*
46796981 A--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46797019 TGTTATTATC
Statistics
Matches: 161, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 54 0.34
50 101 0.63
51 3 0.02
52 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAG
Found at i:46802426 original size:26 final size:26
Alignment explanation
Indices: 46802346--46802415 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
46802336 CCATTAAGCA
*
46802346 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGTTCACAAAGAGCCTTTAATCG
*
46802372 GGAAGTTCACAAAGAGCCTTTGATCG
1 GGAAGTTCACAAAGAGCCTTTAATCG
46802398 GGAAGTTCACAAAGAGCC
1 GGAAGTTCACAAAGAGCC
46802416 ATATATCGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
GGAAGTTCACAAAGAGCCTTTAATCG
Found at i:46806812 original size:33 final size:33
Alignment explanation
Indices: 46806775--46806841 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
46806765 TAAATTGCAT
* *
46806775 CCAAATTTTTATATATTTTATATTCCCTTAGAA
1 CCAAATCTATATATATTTTATATTCCCTTAGAA
46806808 CCAAATCTATATATATTTTATATTCCCTTAGAA
1 CCAAATCTATATATATTTTATATTCCCTTAGAA
46806841 C
1 C
46806842 ATTGTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (33 bp):
CCAAATCTATATATATTTTATATTCCCTTAGAA
Found at i:46810145 original size:18 final size:17
Alignment explanation
Indices: 46810103--46810150 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
46810093 TGTCATTTGT
46810103 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
46810120 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
46810139 TTTCAAAACATT
1 TTTCAAAACATT
46810151 TTTTTATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:46811100 original size:17 final size:18
Alignment explanation
Indices: 46811068--46811102 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46811058 CCATGATGTT
*
46811068 CGCCCGTGTGGGCCCACA
1 CGCCCCTGTGGGCCCACA
46811086 CGCCCCTGT-GGCCCACA
1 CGCCCCTGTGGGCCCACA
46811103 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.49, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCCTGTGGGCCCACA
Found at i:46822570 original size:35 final size:36
Alignment explanation
Indices: 46822530--46822599 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
46822520 TAAGCTCGGT
* *
46822530 TTATTAAAAATTATATTATTAATGTAAA-AAATTAG
1 TTATTAAAAATTATATTATCAATATAAAGAAATTAG
** *
46822565 TTATTAAATTTTGTATTATCAATATAAAGAAATTA
1 TTATTAAAAATTATATTATCAATATAAAGAAATTA
46822600 ACTTTTGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (36 bp):
TTATTAAAAATTATATTATCAATATAAAGAAATTAG
Found at i:46824845 original size:23 final size:22
Alignment explanation
Indices: 46824802--46824850 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
46824792 TTAATCGCTA
*
46824802 TTAAATTTTATTGATTAAATGGG
1 TTAAATTCTATTGATTAAAT-GG
*
46824825 TTAAATTCTATT-ATTGCAATGG
1 TTAAATTCTATTGATT-AAATGG
46824847 TTAA
1 TTAA
46824851 CATGGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (22 bp):
TTAAATTCTATTGATTAAATGG
Found at i:46831448 original size:2 final size:2
Alignment explanation
Indices: 46831441--46831470 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
46831431 CTTTAAATTT
*
46831441 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46831471 ATGCTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:46832580 original size:18 final size:18
Alignment explanation
Indices: 46832537--46832580 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
46832527 ACCCAATCCA
* *
46832537 AACCCAAGTATTCAACCC
1 AACCCAATTATCCAACCC
46832555 AACCCAATTATCCAACCC
1 AACCCAATTATCCAACCC
46832573 AACCCAAT
1 AACCCAAT
46832581 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:46832697 original size:9 final size:9
Alignment explanation
Indices: 46832683--46832758 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
46832673 GTAGTGATTC
46832683 AATTCGGGT
1 AATTCGGGT
46832692 AATTCGGGT
1 AATTCGGGT
*
46832701 AATTCGGTT
1 AATTCGGGT
46832710 AATTCGGGT
1 AATTCGGGT
* *
46832719 AATTCAGTT
1 AATTCGGGT
46832728 AATTCGGGT
1 AATTCGGGT
* *
46832737 AATTTGGTT
1 AATTCGGGT
*
46832746 AATTCGGTT
1 AATTCGGGT
46832755 AATT
1 AATT
46832759 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:46832759 original size:18 final size:18
Alignment explanation
Indices: 46832683--46832758 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
46832673 GTAGTGATTC
*
46832683 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGT
46832701 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
46832719 AATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
46832737 AATTTGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
46832755 AATT
1 AATT
46832759 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:46833967 original size:5 final size:5
Alignment explanation
Indices: 46833959--46833988 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
46833949 TAAAATAGTT
46833959 GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA GTTTA
46833989 TGGTTACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GTTTA
Found at i:46840838 original size:22 final size:21
Alignment explanation
Indices: 46840795--46840871 Score: 109
Period size: 22 Copynumber: 3.6 Consensus size: 21
46840785 TTTCACAAAC
* *
46840795 AAATTCGCTCAATTTCTTCAA
1 AAATTCTCTCAATTCCTTCAA
46840816 AAATTCTCTCAATTCCCTTCAA
1 AAATTCTCTCAATT-CCTTCAA
*
46840838 AAATTCTCTCAATTTCCTTCCA
1 AAATTCTCTCAA-TTCCTTCAA
46840860 AAATTCTCTCAA
1 AAATTCTCTCAA
46840872 ACTCTCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
21 13 0.25
22 36 0.71
23 2 0.04
ACGTcount: A:0.32, C:0.29, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATTCTCTCAATTCCTTCAA
Found at i:46840877 original size:30 final size:30
Alignment explanation
Indices: 46840843--46840901 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
46840833 TTCAAAAATT
* *
46840843 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
46840873 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
46840902 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Done.