Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 79 of 198
Found at i:24912647 original size:37 final size:37
Alignment explanation
Indices: 24912597--24912735 Score: 138
Period size: 37 Copynumber: 3.8 Consensus size: 37
24912587 NNNNNNNNNT
* *
24912597 AACTTACATAAATTAAGTAACTTACATAACTTACATA
1 AACTTACATAAATTAAATAACTTACATAACCTACATA
*
24912634 AACTTGCATAAATTAAATAACTTACATAACCTACATA
1 AACTTACATAAATTAAATAACTTACATAACCTACATA
* *** * * *
24912671 AA-TTTCAATGGGTTACATAACTTACATAGCCTATATA
1 AACTTAC-ATAAATTAAATAACTTACATAACCTACATA
* * *
24912708 AA-TTAAATAACTTACATAACTTACATAA
1 AACTTACATAAATTAAATAACTTACATAA
24912736 ATTAAGTAAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
36 21 0.25
37 64 0.75
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (37 bp):
AACTTACATAAATTAAATAACTTACATAACCTACATA
Found at i:24912710 original size:64 final size:64
Alignment explanation
Indices: 24912618--24912738 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 64
24912608 ATTAAGTAAC
24912618 TTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCTACATAAATTTCAATGGG
1 TTACATAACTTACATAAACTT-CATAAATTAAATAACTTACATAACCTACATAAATTTCAATGGG
** *
24912683 TTACATAACTTACATAGCCTAT-ATAAATTAAATAACTTACATAACTTACATAAATT
1 TTACATAACTTACATAAACT-TCATAAATTAAATAACTTACATAACCTACATAAATT
24912739 AAGTAACTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 33 0.63
65 18 0.35
66 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (64 bp):
TTACATAACTTACATAAACTTCATAAATTAAATAACTTACATAACCTACATAAATTTCAATGGG
Found at i:24918186 original size:66 final size:66
Alignment explanation
Indices: 24918116--24918251 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
24918106 GACCATAGTT
* * *
24918116 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
24918181 A
66 A
* *
24918182 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
24918247 A
66 A
24918248 GAGG
1 GAGG
24918252 CTACAGCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:24918662 original size:43 final size:43
Alignment explanation
Indices: 24918601--24918905 Score: 506
Period size: 43 Copynumber: 7.1 Consensus size: 43
24918591 AACAAAAAGT
*
24918601 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAT-TAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGT-TCTTTAGC
* *
24918644 GGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
24918687 GGCGTTTGTGTAAAAAGTGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
24918730 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATAG-TCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACAT-GTTCTTTAGC
* *
24918773 GGCGTTTGCGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGT
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
24918816 GGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
24918859 GGCGTTTGTGTAAAATGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
24918902 GGCG
1 GGCG
24918906 CTTTTAAAAA
Statistics
Matches: 245, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
42 1 0.00
43 242 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:24920286 original size:18 final size:19
Alignment explanation
Indices: 24920247--24920289 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
24920237 TTAATTGATT
* *
24920247 TTTAA-TTATTTTAGAGTG
1 TTTAAGTTATTTTAAAGTA
24920265 TTTAAGTTATTTTAAAG-A
1 TTTAAGTTATTTTAAAGTA
24920283 TTTAAGT
1 TTTAAGT
24920290 AAACAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTTAAGTTATTTTAAAGTA
Found at i:24920399 original size:19 final size:19
Alignment explanation
Indices: 24920373--24920434 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
24920363 AAAAATTAAT
24920373 AAAA-TGATAAAAAGTATA
1 AAAATTGATAAAAAGTATA
*
24920391 AAAATTGATAAAAATTATA
1 AAAATTGATAAAAAGTATA
*
24920410 AAAATT-ATTAGAAAGTTATA
1 AAAATTGA-TAAAAAG-TATA
24920430 AAAAT
1 AAAAT
24920435 AAAAGTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 5 0.13
19 24 0.63
20 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
AAAATTGATAAAAAGTATA
Found at i:24920401 original size:10 final size:9
Alignment explanation
Indices: 24920330--24920434 Score: 85
Period size: 9 Copynumber: 11.8 Consensus size: 9
24920320 ATGTAAAACT
24920330 TAAAAATTA
1 TAAAAATTA
24920339 T-AAAATTA
1 TAAAAATTA
* *
24920347 TTAATATTA
1 TAAAAATTA
24920356 T--AAA-TA
1 TAAAAATTA
*
24920362 GAAAAATTA
1 TAAAAATTA
*
24920371 -ATAAAATGA
1 TA-AAAATTA
*
24920380 TAAAAAGTA
1 TAAAAATTA
24920389 TAAAAATTGA
1 TAAAAATT-A
24920399 TAAAAATTA
1 TAAAAATTA
24920408 TAAAAATTA
1 TAAAAATTA
*
24920417 TTAGAAAGTTA
1 -TA-AAAATTA
24920428 TAAAAAT
1 TAAAAAT
24920435 AAAAGTTTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 12 0.15
9 42 0.54
10 14 0.18
11 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:24925055 original size:50 final size:50
Alignment explanation
Indices: 24924977--24925217 Score: 275
Period size: 50 Copynumber: 4.7 Consensus size: 50
24924967 TTCTGTACTA
* * * * **
24924977 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * ** *
24925027 CCCATGGCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
24925077 CCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
24925127 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATTCTCAATGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA---TC---GGTG
*
24925183 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA
24925218 TCTCATTCCC
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 126 0.77
53 2 0.01
56 36 0.22
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:24929779 original size:69 final size:69
Alignment explanation
Indices: 24929668--24929806 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
24929658 GCTGATGGAT
24929668 AGTGTGATATAGCTCCGACAAGATTCCAACCTGAACGAGCTTTTGAATCACTATAAAACACAAAA
1 AGTGTGATATAGCTCCGACAAGATTCCAACCTGAACGAGCTTTTGAATCACTATAAAACACAAAA
24929733 AATA
66 AATA
* *
24929737 AGTGTGATATAGCTCCGACAAGCTTCCAACCTGAACGAGCTTTTGAATCACTATAAAACACAGAA
1 AGTGTGATATAGCTCCGACAAGATTCCAACCTGAACGAGCTTTTGAATCACTATAAAACACAAAA
24929802 AATA
66 AATA
24929806 A
1 A
24929807 CACAAAGTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (69 bp):
AGTGTGATATAGCTCCGACAAGATTCCAACCTGAACGAGCTTTTGAATCACTATAAAACACAAAA
AATA
Found at i:24930242 original size:24 final size:25
Alignment explanation
Indices: 24930215--24930274 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
24930205 GTACATGAAT
* **
24930215 GCTCATATGAGCTGTA-AACGGTAA
1 GCTCATATGAGCTGAATAACAATAA
* *
24930239 GCTCCTCTGAGCTGAATAACAATAA
1 GCTCATATGAGCTGAATAACAATAA
24930264 GCTCATATGAG
1 GCTCATATGAG
24930275 TTGAGTATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACAATAA
Found at i:24952195 original size:51 final size:49
Alignment explanation
Indices: 24952062--24952203 Score: 185
Period size: 49 Copynumber: 2.9 Consensus size: 49
24952052 AGGTGGAAGT
*
24952062 AGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACCAAATTTATC
1 AGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATC
* * *
24952111 AGTGGTAGTATATCTGCATATCAGTAGTGGCTTGTCCACAAAAGTGTTATC
1 AGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTATC
* * * * *
24952162 AGTTGCATTTTATCTGCAAATCAATGGTTGCTTGTCCACAAA
1 AGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
24952204 TGGTGTTACA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 39 0.49
50 1 0.01
51 39 0.49
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (49 bp):
AGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATC
Found at i:24958012 original size:6 final size:6
Alignment explanation
Indices: 24958001--24958031 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
24957991 TTATTGAACA
*
24958001 TAAAAT TAAAAT TAAAAT TAAAAC TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
24958032 CCTTTTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:24961957 original size:50 final size:50
Alignment explanation
Indices: 24961902--24962189 Score: 425
Period size: 50 Copynumber: 5.8 Consensus size: 50
24961892 CATTGAGATT
24961902 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
24961952 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
24962002 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
24962052 ATGAGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * *
24962102 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGC-ATGGACACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAG
** * * * *
24962152 ATGAGAACTCTCATATAAGACCATATCTGGGATATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
24962190 ATTGTCAGTA
Statistics
Matches: 218, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 3 0.01
50 215 0.99
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:24962024 original size:100 final size:100
Alignment explanation
Indices: 24961849--24962245 Score: 440
Period size: 100 Copynumber: 3.9 Consensus size: 100
24961839 ATTTGGGTAA
* * * * *
24961849 AGAGATCCCCTGTAAGACCATGTCTGGGACATGTCATTGGAATCATTGAGATTATGAGAGGTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCCC
24961914 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
60 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
24961955 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAA
24962020 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* **
24962055 AGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCCGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAA
* * * *
24962120 GACCATGTTTGGGACATGGC-ATGGACACCTATATG
66 GACCATGTCTGGGACATGGCGTTGG-CACCGAGATG
** * * * * * ** * **
24962155 AGAACTCTCATATAAGACCATATCTGGGATATGGCATTGTCAGTACAGA--AAACATCCCATGTA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAGGTCCCATGTA
* * *
24962218 AGACTATGTCTGGGACATAGCTTTGGCA
65 AGACCATGTCTGGGACATGGCGTTGGCA
24962246 TGTTATATTC
Statistics
Matches: 253, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
99 32 0.13
100 178 0.70
101 3 0.01
103 2 0.01
106 38 0.15
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:24964859 original size:21 final size:21
Alignment explanation
Indices: 24964845--24964888 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24964835 ACATATTTTA
24964845 TTGCATGAATAACATGATGAT
1 TTGCATGAATAACATGATGAT
24964866 TTGCATGAATAACATGATGAT
1 TTGCATGAATAACATGATGAT
24964887 TT
1 TT
24964889 TAATTGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGCATGAATAACATGATGAT
Found at i:24968528 original size:16 final size:17
Alignment explanation
Indices: 24968507--24968540 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24968497 AATAATAGGG
24968507 GCAAAAGCAT-AATTTT
1 GCAAAAGCATGAATTTT
*
24968523 GCAAAAGTATGAATTTT
1 GCAAAAGCATGAATTTT
24968540 G
1 G
24968541 GCTTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (17 bp):
GCAAAAGCATGAATTTT
Found at i:24970455 original size:29 final size:29
Alignment explanation
Indices: 24970418--24970719 Score: 245
Period size: 29 Copynumber: 10.4 Consensus size: 29
24970408 TCATCGACCA
24970418 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
24970447 ATGGAAAGGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
* * * *
24970476 ATGAAAAGGGATAGTTTTGGCTATCAATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * *
24970505 ATGAAAAGGGATAGATTCGGCTATCGGTT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* ** *
24970534 CTGAAAAGGGATAGCTTCGGTTATTGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * * *
24970563 ATGAAAAGGGAT-GGTGACAACCATCAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* * * *
24970592 ATGAAAAGGGAT-GGTGAT-GACCATCAACT
1 ATGAAAAGGGATAGCT--TCGACTATCGATT
* * * * *
24970621 ATGAAAAGGGAT-GGTGACGACCATTGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* *
24970650 ATCAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
24970679 ATGAAAAGGGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
24970708 ATGGAAAGGGAT
1 ATGAAAAGGGAT
24970720 GGTGATGACC
Statistics
Matches: 223, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
28 3 0.01
29 218 0.98
30 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:24970624 original size:116 final size:115
Alignment explanation
Indices: 24970418--24970811 Score: 385
Period size: 116 Copynumber: 3.4 Consensus size: 115
24970408 TCATCGACCA
* * * *
24970418 ATGAAAAGGGATAGCTTCGACTATCGATTATGGAAAGGGATAGCTTCAGCTATCGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGAT-GGTTCAACTATCGATTATGAAAA
* ** * * * * * * **
24970483 GGGATAGTTTTGGCTATCAATTATGAAAAGGGATAGAT-TCGGCTATCGGTT
65 GGGATGGTGATGACCATCAACTATGAAAAGGGAT-GATGACGACCATCGAAT
* * * * * * *
24970534 CTGAAAAGGGATAGCTTCGGTTATTGATTATGAAAAGGGATGGTGACAACCATCAACTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGT-TCAACTATCGATTATGAAAA
* *
24970599 GGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACCATTGAAT
65 GGGATGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCGAAT
* * * *
24970650 ATCAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCGACTATCGATTATGGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGAT-GGTTCAACTATCGATTATGAAAA
* * * *
24970715 GGGATGGTGATGACCATCAACTATGAAAAAGGATGGTGACCACCATCGATT
65 GGGATGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCGAAT
* * * * * * *
24970766 AATGAAAAGGGATGGTTTCGACCATTGAATATGAAAAGGGACGGTT
1 -ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTT
24970812 ATGACCATCG
Statistics
Matches: 226, Mismatches: 48, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
115 4 0.02
116 187 0.83
117 35 0.15
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (115 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTTCAACTATCGATTATGAAAAG
GGATGGTGATGACCATCAACTATGAAAAGGGATGATGACGACCATCGAAT
Found at i:24970739 original size:29 final size:29
Alignment explanation
Indices: 24970562--24970820 Score: 188
Period size: 29 Copynumber: 8.9 Consensus size: 29
24970552 GGTTATTGAT
**
24970562 TATGAAAAGGGATGGTGACAACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAC
24970591 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAC
* *
24970620 TATGAAAAGGGATGGTGACGACCATTGAA-
1 TATGAAAAGGGATGGTGATGACCA-TCAAC
* * * * * *
24970649 TATCAAAAGGGATAGCT--TCGGCTATCGAT
1 TATGAAAAGGGAT-GGTGAT-GACCATCAAC
* * * * *
24970678 TATGAAAAGGGATAGT-TTCGACTATCGAT
1 TATGAAAAGGGATGGTGAT-GACCATCAAC
*
24970707 TATGGAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAC
* ** * *
24970736 TATGAAAAAGGATGGTGACCACCATCGAT
1 TATGAAAAGGGATGGTGATGACCATCAAC
* *
24970765 TAATGAAAAGGGATGGT-TTCGACCATTGAA-
1 T-ATGAAAAGGGATGGTGAT-GACCA-TCAAC
* *
24970795 TATGAAAAGGGACGGTTATGACCATC
1 TATGAAAAGGGATGGTGATGACCATC
24970821 GTTCAACATC
Statistics
Matches: 184, Mismatches: 36, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
28 4 0.02
29 152 0.83
30 26 0.14
31 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGATGACCATCAAC
Found at i:24970740 original size:58 final size:58
Alignment explanation
Indices: 24970562--24970821 Score: 240
Period size: 58 Copynumber: 4.5 Consensus size: 58
24970552 GGTTATTGAT
* * *
24970562 TATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGAT-GACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-ATCGACCATCAAC
* * * * * * * *
24970620 TATGAAAAGGGATGGTGACGACCATTGAATATCAAAAGGGATAGCT-TCGGCTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GGTATCGACCATCAAC
* ** * *
24970678 TATGAAAAGGGATAGTTTCGACTATCGATTATGGAAAGGGATGGTGAT-GACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-ATCGACCATCAAC
* * * *
24970736 TATGAAAAAGGATGGTGACCACCATCGATTAATGAAAAGGGATGGTTTCGACCATTGAA-
1 TATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGATGGTATCGACCA-TCAAC
* * *
24970795 TATGAAAAGGGACGGTTATGACCATCG
1 TATGAAAAGGGATGGTGACGACCATCG
24970822 TTCAACATCC
Statistics
Matches: 158, Mismatches: 37, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
57 3 0.02
58 108 0.68
59 44 0.28
60 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTATCGACCATCAAC
Found at i:24998317 original size:17 final size:17
Alignment explanation
Indices: 24998295--24998328 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24998285 GCACTAACAT
*
24998295 AAAATGTAATGAAAATA
1 AAAATGCAATGAAAATA
*
24998312 AAAATGCAATGACAATA
1 AAAATGCAATGAAAATA
24998329 TATATTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:25001368 original size:27 final size:27
Alignment explanation
Indices: 25001334--25001698 Score: 246
Period size: 27 Copynumber: 13.6 Consensus size: 27
25001324 CTAATATTTA
* *
25001334 TAAAATGACTGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * *
25001361 TAGAATGACCGAAAAACCCCCATAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * * *
25001388 TAAAATGACCGTAATGCCCTCGTAAGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * * ***
25001415 TAAAATGATCGTAATGCTCTTGTAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * *
25001442 TAAAATGATCG-AAAACCCCCATAGGT
1 TAAAATGACCGTAATACCCCCATAGGG
* * * * * * *
25001468 TAAATTAATCATAATGCCCTCGTAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * * *
25001495 TAAAATGACTGTAATGCCCCCGTAAGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * *
25001522 TAAAATGACCATAATGCCCCTATAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
** * *
25001549 TAAAATGACCAAAAAACCCCCATAGGA
1 TAAAATGACCGTAATACCCCCATAGGG
* ** * *
25001576 TAAAATGAACGTAATGTCACCGTAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
* * ** *
25001603 TAAAATGATCGTAATGCCCCTTTAAGG
1 TAAAATGACCGTAATACCCCCATAGGG
***
25001630 TAAAATGACCGTAATACCCTTGTAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
** *
25001657 TAAAATGACCAAAAAACCCCCATAGGG
1 TAAAATGACCGTAATACCCCCATAGGG
*
25001684 TAAAATGATCGTAAT
1 TAAAATGACCGTAAT
25001699 GCTCCTAGAG
Statistics
Matches: 259, Mismatches: 78, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
26 16 0.06
27 243 0.94
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCCATAGGG
Found at i:25001441 original size:54 final size:54
Alignment explanation
Indices: 25001383--25001714 Score: 289
Period size: 54 Copynumber: 6.2 Consensus size: 54
25001373 AAAACCCCCA
** * * *
25001383 TAGGGTAAAATGACCGTAATGCCCTCGTAAGGTAAAATGATCGTAATGCTCTTG
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGGTAAAATGATCGTAATGCCCTTG
* * * * *
25001437 TAGGGTAAAATGATCG-AAAACCCCCAT-AGGTTAAATTAATCATAATGCCCTCG
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGG-TAAAATGATCGTAATGCCCTTG
* ** * * * * *
25001490 TAGGGTAAAATGACTGTAATGCCCCCGTAAGGTAAAATGACCATAATGCCCCTA
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGGTAAAATGATCGTAATGCCCTTG
** *
25001544 TAGGGTAAAATGACCAAAAAACCCCCAT-AGGATAAAATGAACGTAATGTCACC--G
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGG-TAAAATGATCGTAATG-C-CCTTG
* ** ** * *
25001598 TAGGGTAAAATGATCGTAATGCCCCTTTAAGGTAAAATGACCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGGTAAAATGATCGTAATGCCCTTG
** * *
25001652 TAGGGTAAAATGACCAAAAAACCCCCATAGGGTAAAATGATCGTAATGCTCCTAG
1 TAGGGTAAAATGACCGTAAAACCCCCATAAGGTAAAATGATCGTAATGC-CCTTG
25001707 -AGGGTAAA
1 TAGGGTAAA
25001715 TGATTATTTT
Statistics
Matches: 218, Mismatches: 50, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
52 5 0.02
53 42 0.19
54 158 0.72
55 11 0.05
56 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (54 bp):
TAGGGTAAAATGACCGTAAAACCCCCATAAGGTAAAATGATCGTAATGCCCTTG
Found at i:25001711 original size:108 final size:109
Alignment explanation
Indices: 25001383--25001718 Score: 427
Period size: 108 Copynumber: 3.1 Consensus size: 109
25001373 AAAACCCCCA
* * *
25001383 TAGGGTAAAATGACCGTAATG-CCCTCGTAAGGTAAAATGATCGTAATGCTCTTGTAGGGTAAAA
1 TAGGGTAAAATGATCGTAATGCCCCT-GTAAGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAA
* * * * * *
25001447 TGATC-GAAAACCCCCATAGGTTAAATTAATCATAATGC-CCTCG
65 TGACCAAAAAACCCCCATAGGATAAAATGATCGTAATGCTCCTCG
* * * *
25001490 TAGGGTAAAATGA-CTGTAATGCCCCCGTAAGGTAAAATGACCATAATGCCCCTATAGGGTAAAA
1 TAGGGTAAAATGATC-GTAATGCCCCTGTAAGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAA
*
25001554 TGACCAAAAAACCCCCATAGGATAAAATGAACGTAATG-TCAC-CG
65 TGACCAAAAAACCCCCATAGGATAAAATGATCGTAATGCTC-CTCG
* *
25001598 TAGGGTAAAATGATCGTAATGCCCCTTTAAGGTAAAATGACCGTAATACCCTTGTAGGGTAAAAT
1 TAGGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAAT
* *
25001663 GACCAAAAAACCCCCATAGGGTAAAATGATCGTAATGCTCCTAG
66 GACCAAAAAACCCCCATAGGATAAAATGATCGTAATGCTCCTCG
25001707 -AGGGT-AAATGAT
1 TAGGGTAAAATGAT
25001719 TATTTTTCCC
Statistics
Matches: 199, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
106 1 0.01
107 63 0.32
108 130 0.65
109 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (109 bp):
TAGGGTAAAATGATCGTAATGCCCCTGTAAGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAAT
GACCAAAAAACCCCCATAGGATAAAATGATCGTAATGCTCCTCG
Found at i:25001767 original size:24 final size:24
Alignment explanation
Indices: 25001735--25001831 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
25001725 TCCCCTCGAG
* *
25001735 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTAATTTGTCTGTGA
* *
25001759 TGTAAATGACTAATTTTTCTATGA
1 TGTAAATGACTAATTTGTCTGTGA
* *
25001783 TTTAAATGACTAATTTGTCCGTGA
1 TGTAAATGACTAATTTGTCTGTGA
* *
25001807 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTAATTTGTCTGTGA
25001831 T
1 T
25001832 TGGTATGACT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (24 bp):
TGTAAATGACTAATTTGTCTGTGA
Found at i:25001839 original size:24 final size:24
Alignment explanation
Indices: 25001812--25001869 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
25001802 CGTGATGTAA
*
25001812 ATGATTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGTCTGTGATTGGT
* *
25001836 ATGACTGGTTTGTCTGTGATTTGT
1 ATGACTGATTTGTCTGTGATTGGT
25001860 ATGACTGATT
1 ATGACTGATT
25001870 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTGGT
Found at i:25001840 original size:48 final size:48
Alignment explanation
Indices: 25001738--25001855 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 48
25001728 CCTCGAGTGT
* * * *
25001738 AAATGATTGATTTGTCTGTGATGTAAATGACTAATTTTTCTATGATTT
1 AAATGACTAATTTGTCTGTGATGTAAATGACTAATTTGTCTATGATTG
* * * *
25001786 AAATGACTAATTTGTCCGTGATGTAAATGATTGATTTGTCTGTGATTG
1 AAATGACTAATTTGTCTGTGATGTAAATGACTAATTTGTCTATGATTG
** **
25001834 GTATGACTGGTTTGTCTGTGAT
1 AAATGACTAATTTGTCTGTGAT
25001856 TTGTATGACT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (48 bp):
AAATGACTAATTTGTCTGTGATGTAAATGACTAATTTGTCTATGATTG
Found at i:25001994 original size:27 final size:27
Alignment explanation
Indices: 25001938--25001994 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
25001928 GGAAGTACTG
*
25001938 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCTCTGCCACAATCACTAT
25001965 TACTGGTGGCT-TGGCCACATAT-ACTAT
1 TACTGGTGGCTCT-GCCACA-ATCACTAT
25001992 TAC
1 TAC
25001995 GAGCAGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATCACTAT
Found at i:25002050 original size:26 final size:26
Alignment explanation
Indices: 25001997--25002050 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
25001987 ACTATTACGA
** *
25001997 GCAGCTTTGCTGCGATACTGTTGCTG
1 GCAGCTTTGCTGCGATACTACTGATG
* *
25002023 GCAGCTTTGCTGTGATGCTACTGATG
1 GCAGCTTTGCTGCGATACTACTGATG
25002049 GC
1 GC
25002051 TTTGTGCCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.31, T:0.33
Consensus pattern (26 bp):
GCAGCTTTGCTGCGATACTACTGATG
Found at i:25002082 original size:32 final size:31
Alignment explanation
Indices: 25002041--25002165 Score: 178
Period size: 32 Copynumber: 3.9 Consensus size: 31
25002031 GCTGTGATGC
25002041 TACTGATGGCTTTGTGCCGATCATATTATCGT
1 TACTGATGGCTTTGTGCCGATCATATTA-CGT
25002073 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTA-CGT
* * * *
25002105 TACTGATGGCTATGTACCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTAC-GT
*
25002137 TACTGATGGCTTTGTGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
25002166 TGTATTTATG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 1 0.01
32 82 0.99
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (31 bp):
TACTGATGGCTTTGTGCCGATCATATTACGT
Found at i:25012888 original size:57 final size:57
Alignment explanation
Indices: 25012800--25012918 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 57
25012790 AATGTCCGAC
*
25012800 CTCAACCCTTAGTAGGACATTTAATACTAGCACCCGAAACACAGTAACTTGGGTCTG
1 CTCAACCCTTAGTAGGACATTTAATACTAGCACCCGAAACACAGTAACTTGGGTATG
**
25012857 CTCAACCCTTAGTAGGACATTTAATACTAGCACCCGAAACATGGTAACTTGGGTATG
1 CTCAACCCTTAGTAGGACATTTAATACTAGCACCCGAAACACAGTAACTTGGGTATG
25012914 CTCAA
1 CTCAA
25012919 ACAAGCTGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (57 bp):
CTCAACCCTTAGTAGGACATTTAATACTAGCACCCGAAACACAGTAACTTGGGTATG
Found at i:25014428 original size:28 final size:27
Alignment explanation
Indices: 25014369--25014429 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
25014359 TATTTACTTT
* * * **
25014369 ATTAACCTTTTTATTTATTCATACTTT
1 ATTAACCTTTTTATTAATTAATAATAA
25014396 ATTAACCTTTTTACTTAATTAATAATAA
1 ATTAACCTTTTTA-TTAATTAATAATAA
25014424 ATTAAC
1 ATTAAC
25014430 TTATAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAACCTTTTTATTAATTAATAATAA
Found at i:25016368 original size:7 final size:7
Alignment explanation
Indices: 25016358--25016384 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25016348 ATAAATCATA
25016358 AATAAAG
1 AATAAAG
25016365 AATAAAG
1 AATAAAG
25016372 AATAAAG
1 AATAAAG
25016379 AATAAA
1 AATAAA
25016385 TTAGTAGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AATAAAG
Found at i:25018101 original size:25 final size:25
Alignment explanation
Indices: 25018073--25018131 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
25018063 CTGTAAACGA
*
25018073 TAAGCTCCTCCGA-TCTAAATAAAAG
1 TAAGCTCATCCGAGT-TAAATAAAAG
* *
25018098 TAAGCTAATCCGAGTTGAATAAAAG
1 TAAGCTCATCCGAGTTAAATAAAAG
25018123 TAAGCTCAT
1 TAAGCTCAT
25018132 ATGAGCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (25 bp):
TAAGCTCATCCGAGTTAAATAAAAG
Found at i:25018143 original size:25 final size:25
Alignment explanation
Indices: 25018087--25018168 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
25018077 CTCCTCCGAT
* **
25018087 CTAAATAAAAGTAAGCTAATCCGAG
1 CTAAATAAAAGTAAGCTCATAAGAG
* * *
25018112 TTGAATAAAAGTAAGCTCATATGAG
1 CTAAATAAAAGTAAGCTCATAAGAG
** *
25018137 CTAAATAACGGTAAGATCATAAGAG
1 CTAAATAAAAGTAAGCTCATAAGAG
25018162 CTGAAAT
1 CT-AAAT
25018169 CGGTAACCCT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 41 0.91
26 4 0.09
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (25 bp):
CTAAATAAAAGTAAGCTCATAAGAG
Found at i:25020934 original size:26 final size:26
Alignment explanation
Indices: 25020899--25020950 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25020889 AAATGAAAAG
*
25020899 GGGGTTGCTATGTGCTGATCCCCCGA
1 GGGGTTGCTAAGTGCTGATCCCCCGA
*
25020925 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATCCCCCGA
25020951 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.35, T:0.27
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATCCCCCGA
Found at i:25020951 original size:103 final size:104
Alignment explanation
Indices: 25020717--25020982 Score: 412
Period size: 104 Copynumber: 2.6 Consensus size: 104
25020707 TGTATATAAA
** * *
25020717 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
25020782 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
25020821 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATTCACCATATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATC
25020885 TTTGAAATG-AAAAGGGGGTTGCTATGTGCTGA-TCCCCCG
64 TTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
25020924 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
25020983 ATAACGGTTA
Statistics
Matches: 149, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
102 28 0.19
103 34 0.23
104 47 0.32
105 39 0.26
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:25027922 original size:104 final size:103
Alignment explanation
Indices: 25027732--25027998 Score: 419
Period size: 104 Copynumber: 2.6 Consensus size: 103
25027722 TGTATATAAA
** * *
25027732 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
*
25027797 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
25027836 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCT
25027901 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
25027940 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-GTATCCACCA
25027999 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
103 28 0.18
104 83 0.55
105 40 0.26
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:25029320 original size:22 final size:20
Alignment explanation
Indices: 25029281--25029320 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25029271 ATTGCAGCCA
25029281 ATCATGTATGAATGAAATGT
1 ATCATGTATGAATGAAATGT
*
25029301 ATCATGATATTAATTGAAAT
1 ATCATG-TATGAA-TGAAAT
25029321 CATGATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCATGTATGAATGAAATGT
Found at i:25035337 original size:75 final size:74
Alignment explanation
Indices: 25035225--25035371 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 74
25035215 GAAAATCCAA
*
25035225 GATTATTCCCTTACTAATAAAGAAGACAAACGGAAAGTTAGAAAAATAAATTATATCCTTTCGAA
1 GATTATTCCCTTACTAATAAAGAAGACAAACGGAAAGTTAGAAAAAGAAATTATATCCTTTC-AA
25035290 AAGAATATAG
65 AAGAATATAG
* * ** * * * * *
25035300 GATTATTCGCTTATTAATTGAGAAGGCAAATGTAAAGTTAGAAAAAGAAATTATTTTCTTTCAAA
1 GATTATTCCCTTACTAATAAAGAAGACAAACGGAAAGTTAGAAAAAGAAATTATATCCTTTCAAA
25035365 AGAATAT
66 AGAATAT
25035372 TAATTTTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 10 0.16
75 52 0.84
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (74 bp):
GATTATTCCCTTACTAATAAAGAAGACAAACGGAAAGTTAGAAAAAGAAATTATATCCTTTCAAA
AGAATATAG
Found at i:25035609 original size:138 final size:137
Alignment explanation
Indices: 25035348--25035630 Score: 442
Period size: 138 Copynumber: 2.1 Consensus size: 137
25035338 TAGAAAAAGA
* * * *
25035348 AATTATTTTCTTTCAAAAGAATATTAATTTTTATGTCTGTTATATTTTGATCGAAATTAATTAAT
1 AATTATATTATTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGATCGAAATTAATTAAT
* * *
25035413 ATAACTGTTTATATTAATAAATTCGATAAAATATATCCAAGTAATATTTTGTATGAATCAAATTC
66 ATAACTATTTATATTAATAAATTCGATAAAATATATACAAGTAATATTTTGTATGAATCAAATTA
25035478 ATATATT
131 ATATATT
*
25035485 AATTATATTATTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGA-CTGAAATTAATTA
1 AATTATATTATTT-CAAAAGAATATTAATTTTCATATCTGTTATATTTTGATC-GAAATTAATTA
* *
25035549 ATATAACTATTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
64 ATATAACTATTTATATTAATAAATTCGATAAAATATATACAAGTAATATTTTGTATGAATCAAAT
25035614 TAATATATT
129 TAATATATT
*
25035623 AATGATAT
1 AATTATAT
25035631 CTATGTTCTC
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
137 12 0.09
138 121 0.91
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTATTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGATCGAAATTAATTAAT
ATAACTATTTATATTAATAAATTCGATAAAATATATACAAGTAATATTTTGTATGAATCAAATTA
ATATATT
Found at i:25035615 original size:67 final size:67
Alignment explanation
Indices: 25035406--25035620 Score: 165
Period size: 67 Copynumber: 3.1 Consensus size: 67
25035396 GATCGAAATT
* * * *
25035406 AATTAATATAACTGTTTATATTAATAAATTCGATAAAATATATCCAAGTAATATTTTGTATGAAT
1 AATTAATATAACTATTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAT
25035471 CA
66 CA
* * * * * * * *
25035473 AATTCATATATTAATTATATTATT-TCCAA-AAGAAT--ATTAATTTTCATATC-TTTTATATTT
1 AATT-A-ATA-TAACTAT-TT-TTAT-TAATAA-ATTCGATAAAATAT-ATA-CAATTAATATTT
*
25035533 TG-ACTGAAAT-T
57 TGTA-TG-AATCA
25035544 AATTAATATAACTATTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAT
1 AATTAATATAACTATTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAT
25035609 CA
66 CA
25035611 AATTAATATA
1 AATTAATATA
25035621 TTAATGATAT
Statistics
Matches: 108, Mismatches: 22, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
66 10 0.09
67 34 0.31
68 14 0.13
69 6 0.06
70 13 0.12
71 22 0.20
72 9 0.08
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (67 bp):
AATTAATATAACTATTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAT
CA
Found at i:25038553 original size:10 final size:10
Alignment explanation
Indices: 25038526--25038582 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
25038516 GTGCGAATCT
*
25038526 ATCAAAAATA
1 ATCAAAATTA
*
25038536 GTCAAAATTA
1 ATCAAAATTA
25038546 ATCAAAATTA
1 ATCAAAATTA
*
25038556 ACTATAAAATTA
1 A-T-CAAAATTA
* *
25038568 ATTAAAATTC
1 ATCAAAATTA
25038578 ATCAA
1 ATCAA
25038583 GTTCATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 29 0.74
11 2 0.05
12 8 0.21
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.30
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:25039766 original size:15 final size:16
Alignment explanation
Indices: 25039740--25039769 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25039730 ATAATCAAAC
25039740 TTTAGTCATACTTAAA
1 TTTAGTCATACTTAAA
25039756 TTTAG-CATACTTAA
1 TTTAGTCATACTTAA
25039770 CAAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (16 bp):
TTTAGTCATACTTAAA
Found at i:25043867 original size:19 final size:20
Alignment explanation
Indices: 25043823--25043867 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
25043813 ATCATGTTCA
25043823 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
25043843 TA-TTTT-ACA-ATATTTAAT
1 TATTTTTAACATA-ATTTAAT
25043861 TATTTTT
1 TATTTTT
25043868 CGACAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 12 0.52
19 8 0.35
20 2 0.09
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:25048315 original size:21 final size:21
Alignment explanation
Indices: 25048290--25048335 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
25048280 TGGCAGATCA
* *
25048290 CACACGCCTGTTTGGATATCC
1 CACACGCCTGTGTGAATATCC
*
25048311 CACACGCCTGTGTGAATGTCC
1 CACACGCCTGTGTGAATATCC
25048332 CACA
1 CACA
25048336 AGCTCGTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
CACACGCCTGTGTGAATATCC
Found at i:25048752 original size:15 final size:15
Alignment explanation
Indices: 25048732--25048775 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
25048722 ATGCTTCATA
25048732 CACCATGTTATCAAT
1 CACCATGTTATCAAT
25048747 CACCATGTTATCAAT
1 CACCATGTTATCAAT
*
25048762 GACCATGTTATCAA
1 CACCATGTTATCAA
25048776 GCAATAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (15 bp):
CACCATGTTATCAAT
Found at i:25058425 original size:40 final size:40
Alignment explanation
Indices: 25058361--25058626 Score: 309
Period size: 40 Copynumber: 6.7 Consensus size: 40
25058351 GAGTTACGAC
* * * *
25058361 AGTATAAATAGGGGCACGCATGTGCATTTAGGGGTACCGA
1 AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
* *** *
25058401 AGTACAAACAGGGGCACGTATGTGCAGTCAACAGTATCGA
1 AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
* *
25058441 AGTACAAATAGGGGCACGTATGTGCAGTCAAGGGTATCGA
1 AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
* * * *
25058481 AGTACAAATAGAGACACGTATGTGCACTCAGGGGTATCGA
1 AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
* * * *
25058521 AGTGA-AAACAGGGGCATGTATGTGCAATCAGTGGTACCGA
1 AGT-ACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
* * *
25058561 AGTACAAACAGGGGCACGTATGTGGATTCAGGGGTACCGA
1 AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
*
25058601 AGTACAAATTGGGGCACGTATGTGCA
1 AGTACAAATAGGGGCACGTATGTGCA
25058627 CTCATAATTT
Statistics
Matches: 194, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (40 bp):
AGTACAAATAGGGGCACGTATGTGCAGTCAGGGGTACCGA
Found at i:25058579 original size:120 final size:120
Alignment explanation
Indices: 25058361--25058630 Score: 353
Period size: 120 Copynumber: 2.2 Consensus size: 120
25058351 GAGTTACGAC
* * * *
25058361 AGTATAAATAGGGGCACGCATGTGCATTTAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
1 AGTACAAATAGGGGCACGTATGTGCACTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * *
25058426 AGTCAACAGTATCGAAGTACAAATAGGGGCACGTATGTGCAGTCAAGGGTATCGA
66 AATCAACAGTACCGAAGTACAAACAGGGGCACGTATGTGCAGTCAAGGGTACCGA
* * * *
25058481 AGTACAAATAGAGACACGTATGTGCACTCAGGGGTATCGAAGTGA-AAACAGGGGCATGTATGTG
1 AGTACAAATAGGGGCACGTATGTGCACTCAGGGGTACCGAAGT-ACAAACAGGGGCACGTATGTG
*** * * *
25058545 CAATCAGTGGTACCGAAGTACAAACAGGGGCACGTATGTGGATTCAGGGGTACCGA
65 CAATCAACAGTACCGAAGTACAAACAGGGGCACGTATGTGCAGTCAAGGGTACCGA
*
25058601 AGTACAAATTGGGGCACGTATGTGCACTCA
1 AGTACAAATAGGGGCACGTATGTGCACTCA
25058631 TAATTTTCTA
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
120 127 0.99
121 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (120 bp):
AGTACAAATAGGGGCACGTATGTGCACTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
AATCAACAGTACCGAAGTACAAACAGGGGCACGTATGTGCAGTCAAGGGTACCGA
Found at i:25066949 original size:25 final size:24
Alignment explanation
Indices: 25066902--25066949 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25066892 TTCTAACTAG
**
25066902 GAAATAAAAACAAACACTTGAAAA
1 GAAATAAAAACAAACACAAGAAAA
*
25066926 GAAATAAAAACTAAATACAAGAAA
1 GAAATAAAAAC-AAACACAAGAAA
25066950 TTCCCCCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (24 bp):
GAAATAAAAACAAACACAAGAAAA
Found at i:25073139 original size:10 final size:10
Alignment explanation
Indices: 25073121--25073162 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
25073111 TTAATTGCAA
25073121 CTAAAATGAG
1 CTAAAATGAG
*
25073131 CTAAGATGAG
1 CTAAAATGAG
*
25073141 CT-GAATGAG
1 CTAAAATGAG
25073150 CTAGAAATGAG
1 CTA-AAATGAG
25073161 CT
1 CT
25073163 CGTTGAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.27
10 11 0.42
11 8 0.31
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (10 bp):
CTAAAATGAG
Found at i:25073150 original size:9 final size:10
Alignment explanation
Indices: 25073125--25073191 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 10
25073115 TTGCAACTAA
25073125 AATGAGCTA-
1 AATGAGCTAG
25073134 AGATGAGCT-G
1 A-ATGAGCTAG
25073144 AATGAGCTAG
1 AATGAGCTAG
*
25073154 AAATGAGCTCG
1 -AATGAGCTAG
* *
25073165 -TTGAGCTAA
1 AATGAGCTAG
25073174 AATTGAGCT-G
1 AA-TGAGCTAG
25073184 AATGAGCT
1 AATGAGCT
25073192 TGAAGGCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
9 20 0.43
10 11 0.24
11 15 0.33
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (10 bp):
AATGAGCTAG
Found at i:25073161 original size:20 final size:19
Alignment explanation
Indices: 25073125--25073191 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
25073115 TTGCAACTAA
*
25073125 AATGAGCTAAGATGAGCTG
1 AATGAGCTAAAATGAGCTG
25073144 AATGAGCTAGAAATGAGCTCG
1 AATGAGCTA-AAATGAGCT-G
*
25073165 -TTGAGCTAAAATTGAGCTG
1 AATGAGCTAAAA-TGAGCTG
25073184 AATGAGCT
1 AATGAGCT
25073192 TGAAGGCAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 13 0.32
20 27 0.66
21 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (19 bp):
AATGAGCTAAAATGAGCTG
Found at i:25079178 original size:9 final size:10
Alignment explanation
Indices: 25079151--25079179 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25079141 TTAATTGCAA
25079151 CTAAAATGAG
1 CTAAAATGAG
25079161 CTAAAATGAG
1 CTAAAATGAG
25079171 CT-AAATGAG
1 CTAAAATGAG
25079180 GAAGAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (10 bp):
CTAAAATGAG
Found at i:25081410 original size:9 final size:10
Alignment explanation
Indices: 25081386--25081452 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 10
25081376 TTGCAACTAA
*
25081386 AATGAGCTAA
1 AATGAGCTAG
25081396 AATGAGCT-G
1 AATGAGCTAG
25081405 AATGAGCTAG
1 AATGAGCTAG
*
25081415 AAATGAGCTCG
1 -AATGAGCTAG
* *
25081426 -TTGAGCTAA
1 AATGAGCTAG
25081435 AATTGAGCT-G
1 AA-TGAGCTAG
25081445 AATGAGCT
1 AATGAGCT
25081453 TGAAGGCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
9 20 0.43
10 11 0.24
11 15 0.33
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (10 bp):
AATGAGCTAG
Found at i:25081420 original size:20 final size:19
Alignment explanation
Indices: 25081386--25081452 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
25081376 TTGCAACTAA
25081386 AATGAGCTAAAATGAGCTG
1 AATGAGCTAAAATGAGCTG
25081405 AATGAGCTAGAAATGAGCTCG
1 AATGAGCTA-AAATGAGCT-G
*
25081426 -TTGAGCTAAAATTGAGCTG
1 AATGAGCTAAAA-TGAGCTG
25081445 AATGAGCT
1 AATGAGCT
25081453 TGAAGGCAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.31
20 28 0.67
21 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (19 bp):
AATGAGCTAAAATGAGCTG
Found at i:25081443 original size:11 final size:10
Alignment explanation
Indices: 25081382--25081423 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
25081372 TTAATTGCAA
25081382 CTAAAATGAG
1 CTAAAATGAG
25081392 CTAAAATGAG
1 CTAAAATGAG
*
25081402 CT-GAATGAG
1 CTAAAATGAG
25081411 CTAGAAATGAG
1 CTA-AAATGAG
25081422 CT
1 CT
25081424 CGTTGAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 8 0.29
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (10 bp):
CTAAAATGAG
Found at i:25089318 original size:50 final size:52
Alignment explanation
Indices: 25089216--25089351 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 52
25089206 GAGATTCCAT
**
25089216 GTAAGACCATGTCTGGGACATGGCATT-GCATTATTGAGTGTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG-GTATGAGAGGTCCCAC
*
25089271 GTAAGACCATGTCTGGGACATGGCATTGGCACCGA-G-ATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGGTATGAGAGGTCCCAC
*
25089321 GTAAGACCATGTCTGGGACATGGCATGGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
25089352 TTGATATGGG
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
50 43 0.57
51 1 0.01
53 3 0.04
55 27 0.36
56 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (52 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGGTATGAGAGGTCCCAC
Found at i:25089375 original size:50 final size:50
Alignment explanation
Indices: 25089265--25089443 Score: 148
Period size: 50 Copynumber: 3.6 Consensus size: 50
25089255 GTATGAGAGG
* **
25089265 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* ** * *
25089315 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATTGATATGGGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
** * * * * * * *
25089365 TCTTATGTAAGACCATATCTGGGATATGGCATTGGTA--GTACAGGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
* *
25089413 ATCCCATGTAAGACCATGTCTAGGACATGGC
1 -TCCCACGTAAGACCATGTCTGGGACATGGC
25089444 TTTGGCATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 4 0.04
49 28 0.27
50 71 0.69
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:25097246 original size:2 final size:2
Alignment explanation
Indices: 25097239--25097269 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25097229 AACATTGTTT
25097239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25097270 TAAACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25104164 original size:2 final size:2
Alignment explanation
Indices: 25104157--25104194 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
25104147 GAAACTTGAT
* *
25104157 TC TC TC TC TC TC TC TC TG TC GC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25104195 ACACACACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.05, T:0.47
Consensus pattern (2 bp):
TC
Found at i:25109360 original size:6 final size:6
Alignment explanation
Indices: 25109351--25109410 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
25109341 TAAAAAGAAC
** * * *
25109351 TAAAAA TAAAAA TAAACT TAAAAA T-AAAA TACAAA TACAAA TACAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
25109398 TACAAA TACAAA T
1 TAAAAA TAAAAA T
25109411 TCAAATTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:25109374 original size:18 final size:16
Alignment explanation
Indices: 25109339--25109379 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
25109329 AGAAAATAAC
*
25109339 AATAAAAAGAACTAAA
1 AATAAAAAAAACTAAA
25109355 AATAAAAATAAACTTAAA
1 AATAAAAA-AAAC-TAAA
25109373 AATAAAA
1 AATAAAA
25109380 TACAAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 3 0.14
18 11 0.50
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (16 bp):
AATAAAAAAAACTAAA
Found at i:25109380 original size:17 final size:17
Alignment explanation
Indices: 25109339--25109381 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
25109329 AGAAAATAAC
25109339 AATAAAA-AGAACTAAA
1 AATAAAATAGAACTAAA
25109355 AATAAAAATA-AACTTAAA
1 AAT-AAAATAGAAC-TAAA
25109373 AATAAAATA
1 AATAAAATA
25109382 CAAATACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AATAAAATAGAACTAAA
Found at i:25109415 original size:6 final size:6
Alignment explanation
Indices: 25109372--25109429 Score: 91
Period size: 6 Copynumber: 9.8 Consensus size: 6
25109362 ATAAACTTAA
* *
25109372 AAATA- AAATAC AAATAC AAATAC AAATAC AAATAC AAATTC AAATTC
1 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC
25109419 AAATAC AAATA
1 AAATAC AAATA
25109430 AAAGGAAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 5 0.10
6 45 0.90
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAC
Found at i:25128366 original size:22 final size:22
Alignment explanation
Indices: 25128341--25128399 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
25128331 AAAGTTCTGA
25128341 TCCAATTAGAACAAAATTATGG
1 TCCAATTAGAACAAAATTATGG
*
25128363 TCCAATTAGAACAAAATTATGT
1 TCCAATTAGAACAAAATTATGG
25128385 TCCAATTAGAACAAA
1 TCCAATTAGAACAAA
25128400 GGAAAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.27
Consensus pattern (22 bp):
TCCAATTAGAACAAAATTATGG
Found at i:25134521 original size:50 final size:50
Alignment explanation
Indices: 25134445--25134726 Score: 375
Period size: 50 Copynumber: 5.6 Consensus size: 50
25134435 TTTCCTGTAC
* * * * ** *
25134445 TGCCAATGCCATATCACAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** * **
25134495 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCCCCA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
25134545 TGCTAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
25134595 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25134645 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25134695 TGCCAACGCCATGTCCCAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
25134727 CTAGCTCACA
Statistics
Matches: 201, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 201 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25134525 original size:168 final size:168
Alignment explanation
Indices: 25134241--25134577 Score: 568
Period size: 168 Copynumber: 2.0 Consensus size: 168
25134231 CAAAGCCATG
* *
25134241 TCCCAAACATGGTCTTACATGAGATTTTTCCCGTACTACCAATGCCATATCATAGATATGGTCTT
1 TCCCAAACATGGTCTTACATGAGATGTTTCCCGTACTACCAATGCCATATCACAGATATGGTCTT
25134306 ACATGGGAGTTCTCATATCGAAGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCA
66 ACATGGGAGTTCTCATATCGAAGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCA
*
25134371 T-CCCAGTGCCAACGCCATGTCCTAGACATGGTCTTACA
131 TCCCCA-TGCCAACGCCATGTCCCAGACATGGTCTTACA
* * *
25134409 TCCCAGACATGGTCTTACATGAGATGTTTCCTGTACTGCCAATGCCATATCACAGATATGGTCTT
1 TCCCAAACATGGTCTTACATGAGATGTTTCCCGTACTACCAATGCCATATCACAGATATGGTCTT
** *
25134474 ACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCA
66 ACATGGGAGTTCTCATATCGAAGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCA
*
25134539 TCCCCATGCTAACGCCATGTCCCAGACATGGTCTTACA
131 TCCCCATGCCAACGCCATGTCCCAGACATGGTCTTACA
25134577 T
1 T
25134578 GAGACCTCTC
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
168 154 0.97
169 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (168 bp):
TCCCAAACATGGTCTTACATGAGATGTTTCCCGTACTACCAATGCCATATCACAGATATGGTCTT
ACATGGGAGTTCTCATATCGAAGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCA
TCCCCATGCCAACGCCATGTCCCAGACATGGTCTTACA
Found at i:25139618 original size:16 final size:16
Alignment explanation
Indices: 25139597--25139628 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25139587 GTATTGTTGC
*
25139597 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25139613 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25139629 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25141622 original size:17 final size:16
Alignment explanation
Indices: 25141570--25141626 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
25141560 TAATCAGTTT
25141570 AATATTAAATTAAA-A
1 AATATTAAATTAAATA
*
25141585 AATACT--ATTAAGATA
1 AATATTAAATTAA-ATA
*
25141600 AGTATTAAATTAAATTA
1 AATATTAAATTAAA-TA
25141617 AATATTAAAT
1 AATATTAAAT
25141627 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 10 0.30
16 1 0.03
17 16 0.48
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:25147258 original size:17 final size:18
Alignment explanation
Indices: 25147236--25147282 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
25147226 ACAACGGGTT
* *
25147236 TGTGACGGTGATA-GGTG
1 TGTGACGATAATATGGTG
25147253 TGTGACGATAATATGGTG
1 TGTGACGATAATATGGTG
25147271 TGGTGACGATAA
1 T-GTGACGATAA
25147283 GCGTGCAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (18 bp):
TGTGACGATAATATGGTG
Found at i:25147822 original size:6 final size:6
Alignment explanation
Indices: 25147787--25147826 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
25147777 GAGACAAAGG
*
25147787 TAAAAA TGAAAAA TGAAAAA TAAAAA TAAAAG TAAAAA TA
1 TAAAAA T-AAAAA T-AAAAA TAAAAA TAAAAA TAAAAA TA
25147827 TTAAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:25151774 original size:44 final size:44
Alignment explanation
Indices: 25151628--25151786 Score: 168
Period size: 44 Copynumber: 3.7 Consensus size: 44
25151618 AGCTCGTAAA
* * *
25151628 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATC-AAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
* * * *
25151671 ATGCC-ACTGTCCTAGACAGGGTTTTACACG-AAA--TCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
*
25151713 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
*
25151757 ATGCCAACGTCCTAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
25151787 AGATCACATA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 28 0.30
44 30 0.32
45 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
Found at i:25151785 original size:86 final size:85
Alignment explanation
Indices: 25151628--25151792 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
25151618 AGCTCGTAAA
* *
25151628 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
*
25151693 TTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * *
25151713 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCTAGACAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCTAGACAG
*
25151776 GGTCTTACACGAGATCA
63 GGTCTTACACGAAATCA
25151793 CATATCAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 28 0.40
86 38 0.54
87 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
CTTACACGAAATCATATACG
Found at i:25156218 original size:7 final size:7
Alignment explanation
Indices: 25156200--25156233 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
25156190 AAAACACCTG
25156200 ATAAATAA
1 ATAAA-AA
25156208 ATAAAAA
1 ATAAAAA
*
25156215 ATAAAGA
1 ATAAAAA
25156222 ATAAAAA
1 ATAAAAA
25156229 ATAAA
1 ATAAA
25156234 TTAGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (7 bp):
ATAAAAA
Found at i:25165166 original size:21 final size:21
Alignment explanation
Indices: 25165136--25165202 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
25165126 CACAAAGAAA
* * *
25165136 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
25165156 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
25165177 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
25165198 AAAAA
1 AAAAA
25165203 TAAACGAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 6 0.15
21 35 0.85
ACGTcount: A:0.55, C:0.09, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:25165217 original size:24 final size:22
Alignment explanation
Indices: 25165133--25165224 Score: 71
Period size: 21 Copynumber: 4.1 Consensus size: 22
25165123 ACTCACAAAG
* * *
25165133 AAAAAAAAGGAAGTGAGTTAGAC
1 AAAAAAAA-GAAGTAACTTGGAC
* *
25165156 -AAAAAGAGAAGCAACTTGGAC
1 AAAAAAAAGAAGTAACTTGGAC
*
25165177 -AAAAAGAGAAGTAACTTGGAC
1 AAAAAAAAGAAGTAACTTGGAC
* *
25165198 AAAAATAAACGAAGTGACTTAGAC
1 AAAAA-AAA-GAAGTAACTTGGAC
25165222 AAA
1 AAA
25165225 TATTTTTGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 30 0.53
22 10 0.18
23 2 0.04
24 15 0.26
ACGTcount: A:0.55, C:0.10, G:0.22, T:0.13
Consensus pattern (22 bp):
AAAAAAAAGAAGTAACTTGGAC
Found at i:25176269 original size:15 final size:15
Alignment explanation
Indices: 25176251--25176285 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25176241 CAATGGGATC
25176251 ATCATCAAGACAAGG
1 ATCATCAAGACAAGG
* *
25176266 ATCATCAAGGCCAGG
1 ATCATCAAGACAAGG
25176281 ATCAT
1 ATCAT
25176286 TTCCTTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (15 bp):
ATCATCAAGACAAGG
Found at i:25179416 original size:12 final size:12
Alignment explanation
Indices: 25179399--25179430 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
25179389 AAATTGTAAA
25179399 GGGAACTCCTGT
1 GGGAACTCCTGT
25179411 GGGAACTCCTGT
1 GGGAACTCCTGT
25179423 GGGAACTC
1 GGGAACTC
25179431 ACATTCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.22
Consensus pattern (12 bp):
GGGAACTCCTGT
Found at i:25181158 original size:30 final size:30
Alignment explanation
Indices: 25181123--25181187 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
25181113 ACCAACGGGG
* **
25181123 ACACACAGTTGTGTCGCCAAGCCGTGTGTC
1 ACACACAGCTGTGTCGCCAAGCAATGTGTC
* *
25181153 ACACACGGCTGTGTCGTCAAGCAATGTGTC
1 ACACACAGCTGTGTCGCCAAGCAATGTGTC
25181183 ACACA
1 ACACA
25181188 TGGATGAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (30 bp):
ACACACAGCTGTGTCGCCAAGCAATGTGTC
Found at i:25182908 original size:13 final size:13
Alignment explanation
Indices: 25182890--25182916 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25182880 AACATCAAGA
25182890 ATCAAGTAATAGC
1 ATCAAGTAATAGC
25182903 ATCAAGTAATAGC
1 ATCAAGTAATAGC
25182916 A
1 A
25182917 CTCTTAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
ATCAAGTAATAGC
Found at i:25193385 original size:50 final size:50
Alignment explanation
Indices: 25193278--25193524 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 50
25193268 ATTTGGGTAC
* * *
25193278 AGAGATCCCATGTAAGACCATGACTGGGACATGGCATTGACATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G--ATG
* * *
25193334 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
25193384 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGTACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * * * *
25193434 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTAGT-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** *
25193483 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25193525 TGTTATTATC
Statistics
Matches: 158, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
49 37 0.23
50 80 0.51
52 1 0.01
53 2 0.01
55 1 0.01
56 37 0.23
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:25204315 original size:22 final size:21
Alignment explanation
Indices: 25204289--25204329 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
25204279 AACAACATTG
25204289 TTGAAATAA-AAAAGAAGAAAAT
1 TTGAAA-AACAAAAG-AGAAAAT
25204311 TTGAAAAACAAAAGAGAAA
1 TTGAAAAACAAAAGAGAAA
25204330 GAGGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (21 bp):
TTGAAAAACAAAAGAGAAAAT
Found at i:25210857 original size:21 final size:21
Alignment explanation
Indices: 25210827--25210866 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25210817 GATTTTTTAG
*
25210827 CGTTGCTGCTTGGCTTTGGAT
1 CGTTGCTGCTTGACTTTGGAT
*
25210848 CGTTGTTGCTTGACTTTGG
1 CGTTGCTGCTTGACTTTGG
25210867 TTCAACGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.17, G:0.33, T:0.45
Consensus pattern (21 bp):
CGTTGCTGCTTGACTTTGGAT
Found at i:25214049 original size:9 final size:9
Alignment explanation
Indices: 25214037--25214062 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25214027 AATTAAGTAA
25214037 ATTTCAATT
1 ATTTCAATT
25214046 ATTTCAATT
1 ATTTCAATT
25214055 ATTTCAAT
1 ATTTCAAT
25214063 AATAATTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTCAATT
Found at i:25217367 original size:20 final size:20
Alignment explanation
Indices: 25217339--25217392 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
25217329 GGGTGAAGAA
* *
25217339 AAATCAATTAAAGGCTTATC
1 AAATTAATTAAAAGCTTATC
25217359 AAATTAATTAAAAGCTTATC
1 AAATTAATTAAAAGCTTATC
25217379 AAATTAATTAAAAG
1 AAATTAATTAAAAG
25217393 TAGTATTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (20 bp):
AAATTAATTAAAAGCTTATC
Found at i:25217910 original size:26 final size:26
Alignment explanation
Indices: 25217881--25217931 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
25217871 AAAAGGAAAC
*
25217881 GGTTATATGAAATAGA-TATATGGAAT
1 GGTTATATG-AATAAATTATATGGAAT
*
25217907 GGTTATGTGAATAAATTATATGGAA
1 GGTTATATGAATAAATTATATGGAA
25217932 ACAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (26 bp):
GGTTATATGAATAAATTATATGGAAT
Found at i:25217958 original size:40 final size:40
Alignment explanation
Indices: 25217883--25217968 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 40
25217873 AAGGAAACGG
* * * * *
25217883 TTATAT-GAAATAGATATATGGAATGGTTATGTGAATAAA
1 TTATATGGAAACAAATATATGAAATGATTATATGAATAAA
* **
25217922 TTATATGGAAACAAATATATGAAATGATTTTATGAATCGA
1 TTATATGGAAACAAATATATGAAATGATTATATGAATAAA
25217962 TTATATG
1 TTATATG
25217969 AAAATAGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 6 0.16
40 32 0.84
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.37
Consensus pattern (40 bp):
TTATATGGAAACAAATATATGAAATGATTATATGAATAAA
Found at i:25219204 original size:44 final size:44
Alignment explanation
Indices: 25218597--25219601 Score: 169
Period size: 44 Copynumber: 22.8 Consensus size: 44
25218587 CCTGGGCAAC
* ** * *
25218597 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * * * ** *
25218641 AGTGGAGCAGATCGAAGCTGGCGGATTTCACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* * * * ** * **
25218686 AGTGGAGTACATTGAAGCCA-GG-A-ATTCTACTTCACTGGGAAAC
1 AGTGGAGTAGATTGAAG--ATGGCAGATTTTACCTCCCTAAGCAGT
* ** * *
25218729 AGTGGAATAGATTGAAGATTCCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * **
25218773 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAG-T
* * * * * **
25218816 ACAATGGAGTACATT-AA-A-GCCAGTAATTCTACTTCCCTGAA-CAAC
1 --AGTGGAGTAGATTGAAGATGGCAG--ATTTTACCTCCCT-AAGCAGT
* ** * **
25218861 AGTGGAATAGATTGAAGATTTCAGATCTTATATCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * **
25218905 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAG-T
* * * * * * **
25218948 ACAGTGGAGTACATTGAAGCTAGTA-ATTCTACTTCCCTAGAG-AAC
1 --AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTA-AGCAGT
* * ** * * *
25218993 AGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* ** * ** *
25219037 AGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* *** * * * **
25219082 AGTGGAGTACATTGAAGCCAGTA-ATTTTACTTCCCTGGAG-AAC
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAGCAGT
** ** * * *
25219125 AGTGGAACAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* **
25219169 AGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAG-T
* *** * * * * **
25219212 ACAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCT-GGACAAC
1 --AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAG-CAGT
* ** * * * *
25219257 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGTAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * ** * **
25219301 AGTGGAGCAGATCGAAGATGGTGGATTTTACGTCCCTCTG--GTT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAG-T
* *** * * * * **
25219344 ACAGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCT-GGACAAC
1 --AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAG-CAGT
* ** * *
25219389 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * ** *
25219433 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* ***** * * **
25219478 AGTGGAGTACATTGAAGCCAATA-ATTCTT-CTTCCCT-GGACAAC
1 AGTGGAGTAGATTGAAGATGGCAGATT-TTACCTCCCTAAG-CAGT
* ** * *
25219521 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* *
25219565 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT
25219602 GTGGTTACAG
Statistics
Matches: 638, Mismatches: 268, Indels: 110
0.63 0.26 0.11
Matches are distributed among these distances:
41 1 0.00
42 15 0.02
43 121 0.19
44 378 0.59
45 113 0.18
46 9 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
Found at i:25219686 original size:132 final size:132
Alignment explanation
Indices: 25218527--25219672 Score: 1875
Period size: 132 Copynumber: 8.7 Consensus size: 132
25218517 GTTTCTTATT
* * *
25218527 TGGCGGATTTTACCTCCCTGTGGTTATAGTGCACTACATTGAAGCCAGTAATTCTACTTCCCTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
*
25218592 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
*
25218657 GC
131 GA
* * * *
25218659 TGGCGGATTTCACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGGAATTCTACTTCACTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-G
*
25218724 GA-AACAGTGGAATAGATTGAAGATTCCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
65 GACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
25218788 AGA
130 AGA
* * *
25218791 TGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTAAAGCCAGTAATTCTACTTCCCTGA
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
*
25218856 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25218921 GA
131 GA
* *
25218923 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTAG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
* * * *
25218988 AGAACAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25219053 GA
131 GA
* * * *
25219055 TGACAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
* * * *
25219120 AGAACAGTGGAACAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25219185 GA
131 GA
*
25219187 TGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
* *
25219252 ACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25219317 GA
131 GA
* * *
25219319 TGGTGGATTTTACGTCCCTCTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
25219384 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25219449 GA
131 GA
* * *
25219451 TGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTTCTTCCCTGG
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
25219516 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
66 ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
25219581 GA
131 GA
*
25219583 TGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCATA-TCTCCCT
1 TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC-TACT-TCCCT
* * *
25219646 GGTCAGCAGTGGAATAGGTTGAAGATT
64 GGACAACAGTGGAATAGATTGAAGATT
25219673 GTAAGTCCTA
Statistics
Matches: 945, Mismatches: 65, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 5 0.01
132 938 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
TGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
ACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
GA
Found at i:25220028 original size:19 final size:19
Alignment explanation
Indices: 25220006--25220090 Score: 125
Period size: 19 Copynumber: 4.5 Consensus size: 19
25219996 AGGGATATGC
*
25220006 AATCTTAGATATAATATAT
1 AATCTTAGATATGATATAT
**
25220025 AATCTTAGATATGATATGG
1 AATCTTAGATATGATATAT
25220044 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
**
25220063 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
25220082 AATCTTAGA
1 AATCTTAGA
25220091 AGATATGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 59 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (19 bp):
AATCTTAGATATGATATAT
Found at i:25220048 original size:38 final size:38
Alignment explanation
Indices: 25219999--25220090 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
25219989 AATCTTCAGG
25219999 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
* *
25220037 GATATGGAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
25220075 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
25220091 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAT
Found at i:25220116 original size:22 final size:21
Alignment explanation
Indices: 25219999--25220116 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 21
25219989 AATCTTCAGG
*
25219999 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
25220018 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25220037 GATATGGAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25220056 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25220075 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
25220097 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
25220117 TTAATTTGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
19 60 0.72
22 12 0.14
23 11 0.13
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:25221237 original size:245 final size:245
Alignment explanation
Indices: 25220807--25221268 Score: 870
Period size: 245 Copynumber: 1.9 Consensus size: 245
25220797 TATTAGCTAA
25220807 GCCTTAGATGCGTACACGAAGGAAAAAGAAAATCAAGATGCACTTTCTTATTTTCAAGAAAATCA
1 GCCTTAGATGCGTACACGAAGGAAAAAGAAAATCAAGATGCACTTTCTTATTTTCAAGAAAATCA
25220872 AGAAACCGAATCTTGGTCCAATTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAGAATCAAGATT
66 AGAAACCGAATCTTGGTCCAATTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAGAATCAAGATT
*
25220937 TCAAATCTTTGAAATCTTGGTCCAATAAACCGAATCTTGCAGCTAAGGCACATTGGATCTCCGTT
131 TCAAATCTTTGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCACATTGGATCTCCGTT
25221002 ACGAGCATCAACTAACCAATTTTGGAAGGAAACTGATATGAGTCACAAAG
196 ACGAGCATCAACTAACCAATTTTGGAAGGAAACTGATATGAGTCACAAAG
* * * * *
25221052 GCCTTAGATGTGTATACGAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTGAAGAAAATCA
1 GCCTTAGATGCGTACACGAAGGAAAAAGAAAATCAAGATGCACTTTCTTATTTTCAAGAAAATCA
25221117 AGAAACCGAATCTTGGTCCAATTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAGAATCAAGATT
66 AGAAACCGAATCTTGGTCCAATTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAGAATCAAGATT
25221182 TCAAATCTTTGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCACATTGGATCTCCGTT
131 TCAAATCTTTGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCACATTGGATCTCCGTT
25221247 ACGAGCATCAACTAACCAATTT
196 ACGAGCATCAACTAACCAATTT
25221269 CGGGAGAGAA
Statistics
Matches: 211, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
245 211 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (245 bp):
GCCTTAGATGCGTACACGAAGGAAAAAGAAAATCAAGATGCACTTTCTTATTTTCAAGAAAATCA
AGAAACCGAATCTTGGTCCAATTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAGAATCAAGATT
TCAAATCTTTGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCACATTGGATCTCCGTT
ACGAGCATCAACTAACCAATTTTGGAAGGAAACTGATATGAGTCACAAAG
Found at i:25221742 original size:10 final size:10
Alignment explanation
Indices: 25221727--25221756 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25221717 TGATTGTGGG
25221727 AGCCATCTTC
1 AGCCATCTTC
25221737 AGCCATCTTC
1 AGCCATCTTC
*
25221747 AGCCTTCTTC
1 AGCCATCTTC
25221757 TTCCCGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.40, G:0.10, T:0.33
Consensus pattern (10 bp):
AGCCATCTTC
Found at i:25223099 original size:22 final size:24
Alignment explanation
Indices: 25223065--25223108 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
25223055 CTTGGGCCAA
25223065 GATTTCCAAGA-T-TTGAAATCAT
1 GATTTCCAAGATTCTTGAAATCAT
**
25223087 GATTTCCTTGATTCTTGAAATC
1 GATTTCCAAGATTCTTGAAATC
25223109 GCTCAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 1 0.06
24 8 0.44
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (24 bp):
GATTTCCAAGATTCTTGAAATCAT
Found at i:25226083 original size:10 final size:10
Alignment explanation
Indices: 25226068--25226092 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25226058 GTGCCAAAAT
25226068 GAGCTGATAC
1 GAGCTGATAC
25226078 GAGCTGATAC
1 GAGCTGATAC
25226088 GAGCT
1 GAGCT
25226093 AAAATCAGCT
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:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (10 bp):
GAGCTGATAC
Found at i:25229049 original size:20 final size:21
Alignment explanation
Indices: 25229026--25229079 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
25229016 TCTAGCAAAA
25229026 ACACTTGTTTTTTCATTT-TC
1 ACACTTGTTTTTTCATTTGTC
* *
25229046 ACACTCTTTTTTTTCTTTTGTC
1 ACACT-TGTTTTTTCATTTGTC
*
25229068 ACTCTTGTTTTT
1 ACACTTGTTTTT
25229080 ATCTCACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 17 0.61
22 6 0.21
ACGTcount: A:0.11, C:0.20, G:0.06, T:0.63
Consensus pattern (21 bp):
ACACTTGTTTTTTCATTTGTC
Found at i:25229148 original size:14 final size:15
Alignment explanation
Indices: 25229095--25229149 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
25229085 ACTTTCGTCA
*
25229095 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
25229110 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
25229125 TTCTTAT-TCTCTTT
1 TTCTTTTCTCTCTTT
25229139 TTCTTTT-TCTC
1 TTCTTTTCTCTC
25229150 GCTCAATGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:25237132 original size:28 final size:28
Alignment explanation
Indices: 25237074--25237128 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
25237064 TTTTTCAATC
* * *
25237074 TCTTTTTGTTTTTGAAATCTCATTTTCA
1 TCTTTTTCTTTTTGAAATCTCAATCTCA
*
25237102 TCTTTTTCTTTTT-CAATCTCAATCTCA
1 TCTTTTTCTTTTTGAAATCTCAATCTCA
25237129 ATCTCAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.18, C:0.20, G:0.04, T:0.58
Consensus pattern (28 bp):
TCTTTTTCTTTTTGAAATCTCAATCTCA
Found at i:25237155 original size:33 final size:32
Alignment explanation
Indices: 25237118--25237182 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
25237108 TCTTTTTCAA
25237118 TCTCAATCTCAATCTCAAATTCTTTTTTCTTTT
1 TCTCAATCTCAATCTCAAATTC-TTTTTCTTTT
* ** **
25237151 TCTCACTCTCGCTCTCATTTTCTTTTTCTTTT
1 TCTCAATCTCAATCTCAAATTCTTTTTCTTTT
25237183 ATTTCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.14, C:0.28, G:0.02, T:0.57
Consensus pattern (32 bp):
TCTCAATCTCAATCTCAAATTCTTTTTCTTTT
Found at i:25237189 original size:15 final size:14
Alignment explanation
Indices: 25237168--25237218 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
25237158 CTCGCTCTCA
25237168 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
25237182 TATTTCTTTTTCTTT
1 T-TTTCTTTTTCTTT
* *
25237197 TTCTCTCATTTCTTT
1 TTTTCT-TTTTCTTT
25237212 TTTTCTT
1 TTTTCTT
25237219 CTCTCAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.16
15 26 0.84
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:25237223 original size:22 final size:21
Alignment explanation
Indices: 25237168--25237229 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
25237158 CTCGCTCTCA
* *
25237168 TTTTCTTTTTCTTTTATTTCT
1 TTTTCTTTTTCTCTCATTTCT
25237189 TTTTCTTTTTCTCTCATTTCT
1 TTTTCTTTTTCTCTCATTTCT
*
25237210 TTTT-TTCTTCTCTCAGTTTC
1 TTTTCTTTTTCTCTCA-TTTC
25237230 ATTCAAGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 10 0.27
21 27 0.73
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTCTTTTTCTCTCATTTCT
Found at i:25238142 original size:12 final size:12
Alignment explanation
Indices: 25238125--25238169 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
25238115 AATACAAACT
25238125 TTTTTTTTCGAA
1 TTTTTTTTCGAA
25238137 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
25238149 TTTTTTTTTTGAA
1 -TTTTTTTTCGAA
25238162 TTTTTTTT
1 TTTTTTTT
25238170 TACAATCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:25238142 original size:13 final size:13
Alignment explanation
Indices: 25238124--25238170 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
25238114 GAATACAAAC
25238124 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
25238137 -TTTTTTTTCGAA
1 TTTTTTTTTCGAA
*
25238149 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
25238162 TTTTTTTTT
1 TTTTTTTTT
25238171 ACAATCTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:25246262 original size:649 final size:647
Alignment explanation
Indices: 25245271--25246563 Score: 1897
Period size: 658 Copynumber: 2.0 Consensus size: 647
25245261 AAGCCTATTA
* * *
25245271 ATAGGCCTTCTAACTATTTTCCTAATCTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTA
1 ATAGGCCTTCTAACTATTTTCCTAACCCTATTAGAAAACTAAAAAAAACCTAATTATTAAATTCA
* * * *
25245336 GAGGGAAAAATTCGGCTAAGGCATTTAATAGGCTGCTTGGGCTGAATTTTTTTACATAGGCATTA
66 GAGGG-AAAATTCGGCCAAGGCATTTAATAGGCTGCTTGGGCTGAATTATTTTACAGAGGAATTA
* * * *
25245401 ATCATAAAGTCTAAAAATTAAACTAAGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTT
130 ATCATAAAGTCTAAAAATTAAAATAAGTATTTAAAAAATTAAAACTTAACAAATTGGGCCACTTT
*
25245466 GACAATTTGGCCTGATTTTCAACTAAGTCTCATTTAACTTCCTTGATTGGGCTTGGAACATCTTA
195 GACAATTTGGCCTGATTTTCAACTAAGTCTCATTTAACTTCCTTGATTGGACTTGGAACATCTTA
* * * *
25245531 TTGGGCCTTGCCTTCAAGAACTTGGGCTTGTATTCATTTCCTGCCGAAATTGGTTTGTTGATGCT
260 TTGGGCCGTGCCTTCAAGAACTTGGGCTTGTATCCATTTCCTCCCGAAATTGGTTCGTTGATGCT
*
25245596 CGTAACGGAGATCCAATGCGCCTTAGCTGCAAGATTT-GGTTTCTT-G-GA-CCAAGATTTGAAA
325 CGTAACGGAGATCCAATGCGCCTTAGCTGCAAG-TTTCAGTTTCTTGGAGATCCAAGATTTGAAA
*
25245657 TCTTGATTTTCTTGATTCTTGAAATCACTCCAAACAGCAAAATTGGACCAAGATTCGGTTTCTTG
389 TCTTGATTTTCTTGATTCTTGAAATCACTCAAAACAGCAAAATTGGACCAAGATTCGGTTTCTTG
* * *
25245722 ATTATCTTCAAAATAAGAAAGTGAATCTTGATTTTATTTTTCCTTCGTGTACGCATCTAAGGCCT
454 ATTATCTTCAAAACAAGAAAGTGAATCTTGATTTTATTTTTCCTTCGTATACACATCTAAGGCCT
* * * * *
25245787 TGCTAATAAATTCTTGAATGGTTCCATTTAGTTTTGA-ACGCATTTGTCTGGCCTTTGACCTCGT
519 TGCTAATAAAGTCTTGAATGATTCCATTTAG-TTTCATACGCATCTGCCTGGCCTTTGACCT-GT
* * *
25245851 TATTGGGCCTTGTGGTAATTTGAGCCTATCACGTTCTTGAGCTTGAGTTGGGTCTTTGAGCCTTC
582 TATTGGGCCTTGTGGTAATTTGAGCCCATCACGTCCTTGAGCTTGAATTGGG-CTTTGAGCCTTC
25245916 TT
646 TT
* *
25245918 ATAGGCCTTCTATCTATTTTCCTAACCCTATTAGGAAAACTAAAAAAAAAACCTAATTATTAACT
1 ATAGGCCTTCTAACTATTTTCCTAACCCTATTA-GAAAACT--AAAAAAAACCTAATTATTAAAT
* * *
25245983 TCA-AGGG-AAATTCGGCCAAGGCTTTTAATGGGCTTCTTGGGCTGAATTATTTTACAGAGGAAT
63 TCAGAGGGAAAATTCGGCCAAGGCATTTAATAGGCTGCTTGGGCTGAATTATTTTACAGAGGAA-
25246046 TTAATCATAAAGTCTAAAAAATTAAAATAAGTATTTAAAAAATTAAAACTTAACAAATTGGGCCA
127 TTAATCATAAAGTCT-AAAAATTAAAATAAGTATTTAAAAAATTAAAACTTAACAAATTGGGCCA
25246111 CTTTGACAATTTGGCCTGATTTTCAACTAAGTCT-AGTTTGAACTT-CTTGATTGGACTTGGAAC
191 CTTTGACAATTTGGCCTGATTTTCAACTAAGTCTCA-TTT-AACTTCCTTGATTGGACTTGGAAC
* *
25246174 ATCTTATTGGG-CGTGTCTTCAAGAACTTGGGCTTGTGATCC-GTTCTCTCCCGAAATTGGTTCG
254 ATCTTATTGGGCCGTGCCTTCAAGAACTTGGGCTTGT-ATCCATTTC-CTCCCGAAATTGGTTCG
* *
25246237 TTGATGCTCGTAACTGAGATCCAATGTGCCTTAGCTGCAAGTTTCAGTTTCTTGGACCAAGATTT
317 TTGATGCTCGTAACGGAGATCCAATGCGCCTTAGCTGCAAGTTTCAGTTTCTTGG----AGA--T
**
25246302 CCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATTGCTCAAAACAGCAAAATTGGACCAAG
376 CCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCACTCAAAACAGCAAAATTGGACCAAG
* * * *
25246367 ATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTTGTATAC
441 ATTCGGTTTCTTGATTATCTTCAAAACAAGAAAGTGAATCTTGATTTTATTTTTCCTTCGTATAC
* *
25246432 ACATTTAAGGCCTTGCTAATGAAGTCTTGAATGATTCCATTTAGTTTCATACGCATCTGCCTGGC
506 ACATCTAAGGCCTTGCTAATAAAGTCTTGAATGATTCCATTTAGTTTCATACGCATCTGCCTGGC
* *
25246497 CTTTGGCCTGTTATTTGGCCTTGTGGTAATTTGAGCCCATCACGTCCTTGAGCTTGAATTGGGCT
571 CTTTGACCTGTTATTGGGCCTTGTGGTAATTTGAGCCCATCACGTCCTTGAGCTTGAATTGGGCT
25246562 TT
636 TT
25246564 TGTGACTCGT
Statistics
Matches: 578, Mismatches: 48, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
647 78 0.13
648 52 0.09
649 178 0.31
650 29 0.05
655 2 0.00
656 4 0.01
657 54 0.09
658 181 0.31
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (647 bp):
ATAGGCCTTCTAACTATTTTCCTAACCCTATTAGAAAACTAAAAAAAACCTAATTATTAAATTCA
GAGGGAAAATTCGGCCAAGGCATTTAATAGGCTGCTTGGGCTGAATTATTTTACAGAGGAATTAA
TCATAAAGTCTAAAAATTAAAATAAGTATTTAAAAAATTAAAACTTAACAAATTGGGCCACTTTG
ACAATTTGGCCTGATTTTCAACTAAGTCTCATTTAACTTCCTTGATTGGACTTGGAACATCTTAT
TGGGCCGTGCCTTCAAGAACTTGGGCTTGTATCCATTTCCTCCCGAAATTGGTTCGTTGATGCTC
GTAACGGAGATCCAATGCGCCTTAGCTGCAAGTTTCAGTTTCTTGGAGATCCAAGATTTGAAATC
TTGATTTTCTTGATTCTTGAAATCACTCAAAACAGCAAAATTGGACCAAGATTCGGTTTCTTGAT
TATCTTCAAAACAAGAAAGTGAATCTTGATTTTATTTTTCCTTCGTATACACATCTAAGGCCTTG
CTAATAAAGTCTTGAATGATTCCATTTAGTTTCATACGCATCTGCCTGGCCTTTGACCTGTTATT
GGGCCTTGTGGTAATTTGAGCCCATCACGTCCTTGAGCTTGAATTGGGCTTTGAGCCTTCTT
Found at i:25249056 original size:20 final size:20
Alignment explanation
Indices: 25249031--25249075 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25249021 TAAATACACA
25249031 TAATTAAAA-ATAGACACAAT
1 TAATTAAAATA-AGACACAAT
**
25249051 TAATTAAGTTAAGACACAAT
1 TAATTAAAATAAGACACAAT
25249071 TAATT
1 TAATT
25249076 CAGTTGGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAAATAAGACACAAT
Found at i:25249080 original size:20 final size:20
Alignment explanation
Indices: 25249042--25249080 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25249032 AATTAAAAAT
25249042 AGACACAATTAATTAAGTTA
1 AGACACAATTAATTAAGTTA
*
25249062 AGACACAATTAATTCAGTT
1 AGACACAATTAATTAAGTT
25249081 GGACAAGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
AGACACAATTAATTAAGTTA
Found at i:25256497 original size:15 final size:16
Alignment explanation
Indices: 25256472--25256501 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25256462 ACATTGTAAT
25256472 AAAAATGAAAAAGAAG
1 AAAAATGAAAAAGAAG
25256488 AAAAAT-AAAAAGAA
1 AAAAATGAAAAAGAA
25256502 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAAATGAAAAAGAAG
Found at i:25256526 original size:6 final size:6
Alignment explanation
Indices: 25256485--25256538 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
25256475 AATGAAAAAG
* ** * *
25256485 AAGAAA AATAAA AAGAAA GTGAAG AAGAAA AGGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
25256533 AAGAAA
1 AAGAAA
25256539 TCAAAAAAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:25256582 original size:27 final size:28
Alignment explanation
Indices: 25256551--25256616 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
25256541 AAAAAAGTGA
25256551 GAAAAAGAAAATGAAGA-AAAG-AAAATT
1 GAAAAAGAAAATG-AGATAAAGAAAAATT
* * *
25256578 TAAAAAGAAATTGAGATTAAGAAAAATT
1 GAAAAAGAAAATGAGATAAAGAAAAATT
25256606 GAAAAAGAAAA
1 GAAAAAGAAAA
25256617 AGATGTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.09
27 14 0.44
28 15 0.47
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (28 bp):
GAAAAAGAAAATGAGATAAAGAAAAATT
Found at i:25256585 original size:13 final size:13
Alignment explanation
Indices: 25256473--25256587 Score: 52
Period size: 12 Copynumber: 9.2 Consensus size: 13
25256463 CATTGTAATA
25256473 AAAATGAAAAAGAAG
1 AAAATG-AAAA-AAG
25256488 AAAA--ATAAAAAG
1 AAAATGA-AAAAAG
* *
25256500 AAAGTG-AAGAAG
1 AAAATGAAAAAAG
*
25256512 AAAA-GGAAAAAG
1 AAAATGAAAAAAG
*
25256524 AAAAAG-AAAAAG
1 AAAATGAAAAAAG
*
25256536 -AAATCAAAAAAG
1 AAAATGAAAAAAG
25256548 ----TGAGAAAAAG
1 AAAATGA-AAAAAG
25256558 AAAATGAAGAAAAG
1 AAAATGAA-AAAAG
**
25256572 AAAATTTAAAAAG
1 AAAATGAAAAAAG
25256585 AAA
1 AAA
25256588 TTGAGATTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
9 2 0.03
10 6 0.08
11 4 0.05
12 36 0.46
13 13 0.16
14 14 0.18
15 4 0.05
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:25258117 original size:14 final size:14
Alignment explanation
Indices: 25258098--25258124 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25258088 TGCATCTCCC
25258098 CATGCATGAATCTA
1 CATGCATGAATCTA
25258112 CATGCATGAATCT
1 CATGCATGAATCT
25258125 GCCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:25267147 original size:16 final size:16
Alignment explanation
Indices: 25267101--25267150 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
25267091 GATTACTCTC
25267101 TTCACTCG-TTTCTTT
1 TTCACTCGATTTCTTT
* *
25267116 TACAGGCTCTATTTCTTT
1 TTCA--CTCGATTTCTTT
25267134 TTCACTCGATTTCTTT
1 TTCACTCGATTTCTTT
25267150 T
1 T
25267151 CAAGTTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 3 0.11
18 10 0.36
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (16 bp):
TTCACTCGATTTCTTT
Found at i:25267175 original size:12 final size:12
Alignment explanation
Indices: 25267142--25267186 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
25267132 TTTTCACTCG
25267142 ATTTC-TTTTCA
1 ATTTCTTTTTCA
* *
25267153 AGTTCTCTTTCA
1 ATTTCTTTTTCA
25267165 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
25267177 ATCTCTTTTT
1 ATTTCTTTTT
25267187 GTTTTTCACT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 4 0.14
12 24 0.86
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:25267193 original size:18 final size:17
Alignment explanation
Indices: 25267170--25267209 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25267160 TTTCAATTTC
25267170 TTTTTCAATCTCTTTTTG
1 TTTTTCAATCTC-TTTTG
* *
25267188 TTTTTCACTTTCTTTTG
1 TTTTTCAATCTCTTTTG
25267205 TTTTT
1 TTTTT
25267210 GAAATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTTCAATCTCTTTTG
Found at i:25274626 original size:16 final size:18
Alignment explanation
Indices: 25274589--25274626 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25274579 TTCAATTTCT
25274589 TTTTCAATCTCTTTTTGC
1 TTTTCAATCTCTTTTTGC
*
25274607 TTTTCACTCT-TTTTTG-
1 TTTTCAATCTCTTTTTGC
25274623 TTTT
1 TTTT
25274627 TGAAATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 6 0.32
18 9 0.47
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTCAATCTCTTTTTGC
Found at i:25274689 original size:12 final size:12
Alignment explanation
Indices: 25274647--25274688 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
25274637 TTTTCATCTT
25274647 TTTCTTTTTC-A
1 TTTCTTTTTCAA
25274658 TTTC--TTTCAA
1 TTTCTTTTTCAA
25274668 TTTCTTTTTCAA
1 TTTCTTTTTCAA
25274680 TGTTCTTTT
1 T-TTCTTTT
25274689 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:25275875 original size:25 final size:26
Alignment explanation
Indices: 25275834--25275904 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
25275824 AATAATATTT
**
25275834 TTTTTTGAA-ATACTTTTTCAATTAA
1 TTTTTTGAATATTTTTTTTCAATTAA
** **
25275859 TTTTTT-TTTATTTTTTTTCAATTTC
1 TTTTTTGAATATTTTTTTTCAATTAA
25275884 TTTTTTGAATATTTTTTTTCA
1 TTTTTTGAATATTTTTTTTCA
25275905 CAATGACTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 24 0.67
26 12 0.33
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTTTTGAATATTTTTTTTCAATTAA
Found at i:25275887 original size:13 final size:13
Alignment explanation
Indices: 25275847--25275904 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
25275837 TTTGAAATAC
25275847 TTTTTCAATTAATTT
1 TTTTTCAA-T-ATTT
25275862 TTTTT---TATTT
1 TTTTTCAATATTT
25275872 TTTTTCAAT-TTCT
1 TTTTTCAATATT-T
*
25275885 TTTTTGAATATTT
1 TTTTTCAATATTT
25275898 TTTTTCA
1 TTTTTCA
25275905 CAATGACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
12 2 0.06
13 17 0.47
14 2 0.06
15 5 0.14
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTTCAATATTT
Done.