Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 294 of 345
Found at i:99751872 original size:30 final size:30
Alignment explanation
Indices: 99751803--99751875 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
99751793 TTAAAACTTA
* *
99751803 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATGAT-AATGATATTTAAATAATTT
*
99751834 AATATAATGATAATGATATTTAAGTAATTT
1 AATATAATGATAATGATATTTAAATAATTT
99751864 AATATAATGATA
1 AATATAATGATA
99751876 CATAAGATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.42
Consensus pattern (30 bp):
AATATAATGATAATGATATTTAAATAATTT
Found at i:99751881 original size:24 final size:25
Alignment explanation
Indices: 99751833--99751888 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
99751823 TTAAATAATT
**
99751833 TAATATAATGATAATGATATTTAAG
1 TAATATAATGATAATGATACATAAG
*
99751858 TAATTTAAT-ATAATGATACATAAG
1 TAATATAATGATAATGATACATAAG
99751882 --ATATAAT
1 TAATATAAT
99751889 TTAATTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
24 13 0.48
25 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (25 bp):
TAATATAATGATAATGATACATAAG
Found at i:99753400 original size:38 final size:40
Alignment explanation
Indices: 99753326--99753406 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
99753316 AATTATTATC
*
99753326 AAATATAGGAAAATCGTATATATATACTTTTGCTTTTTAA
1 AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAA
*
99753366 AAATATAGGAAATTCATATATATATA-TTTT-CTTTTTAA
1 AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAA
99753404 AAA
1 AAA
99753407 ATAAAATAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 11 0.28
39 4 0.10
40 24 0.62
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (40 bp):
AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAA
Found at i:99755882 original size:27 final size:27
Alignment explanation
Indices: 99755852--99755915 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
99755842 ACTTCAGTTG
99755852 TGAATTAT-ACTGATTTGGCTTCGAGCC
1 TGAA-TATCACTGATTTGGCTTCGAGCC
*
99755879 TGAATATCGGCTGATTTGGCTTCGAGCC
1 TGAATATC-ACTGATTTGGCTTCGAGCC
99755907 ATG-ATATCA
1 -TGAATATCA
99755916 GTATTTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 4 0.12
28 23 0.72
29 2 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (27 bp):
TGAATATCACTGATTTGGCTTCGAGCC
Found at i:99755897 original size:28 final size:28
Alignment explanation
Indices: 99755861--99755914 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
99755851 GTGAATTATA
99755861 CTGATTTGGCTTCGAGCC-TGAATATCGG
1 CTGATTTGGCTTCGAGCCATG-ATATCGG
99755889 CTGATTTGGCTTCGAGCCATGATATC
1 CTGATTTGGCTTCGAGCCATGATATC
99755915 AGTATTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (28 bp):
CTGATTTGGCTTCGAGCCATGATATCGG
Found at i:99757701 original size:42 final size:42
Alignment explanation
Indices: 99757598--99757760 Score: 195
Period size: 43 Copynumber: 3.8 Consensus size: 42
99757588 ATATATTTTT
* * * *
99757598 GTGTAAGACTACGTTTGGGACGTTGGCATCGAATTTTGATTTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TTTGATTT-C
99757642 GTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTC
* *
99757684 GTGTAAGACC-CTGTCTGGGACAG-TGACATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTTC
* *
99757727 ATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGTAT
99757761 GAGCTTTCTG
Statistics
Matches: 105, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.29
43 43 0.41
44 31 0.30
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTC
Found at i:99760555 original size:46 final size:44
Alignment explanation
Indices: 99760459--99760667 Score: 159
Period size: 46 Copynumber: 4.5 Consensus size: 44
99760449 GTGCTAATGC
* * *
99760459 CATGTCCCAAACATGGTCTTACACTGACACAT-TTCATGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTCATCTTGA-GGCCGATG
*
99760504 CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-T-CATCTTGAGGCCGATG
* * * * ** * **
99760550 CATGTCCCATACATATCTTACACTAGCGCTCGTCTCAATGTTGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTCATCTTGAGGCCGATG
* ** * *
99760596 CTATGTTCCAGACATGGTCTTACACTGACTCTTATAATGTGGCTGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGACTC--ATCTTGAGGCCGATG
99760644 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
99760668 AGCCCACAAT
Statistics
Matches: 130, Mismatches: 25, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
44 12 0.09
45 13 0.10
46 57 0.44
47 29 0.22
48 19 0.15
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACTCATCTTGAGGCCGATG
Found at i:99760620 original size:94 final size:92
Alignment explanation
Indices: 99760500--99760670 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 92
99760490 TTTCATGGCC
* ** *
99760500 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGAGGCCGATGCATGTCCCATACAT
1 GATGCATGTCCCAGACATGTCTTACACTGACTCT-CATAATGAGGCCGATGCATGTCCCAGACAT
99760564 ATCTTACACTAGCGCTCGTCTCAATGTT
65 ATCTTACACTAGCGCTCGTCTCAATGTT
* * * *
99760592 GATGCTATGTTCCAGACATGGTCTTACACTGACTCTTATAATGTGGCTGATGCATGTCCCAGACA
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGACTCTCATAATGAGGCCGATGCATGTCCCAGACA
*
99760657 TGTCTTACACTAGC
64 TATCTTACACTAGC
99760671 CCACAATAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 5 0.07
93 12 0.18
94 49 0.73
95 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTCTCATAATGAGGCCGATGCATGTCCCAGACATA
TCTTACACTAGCGCTCGTCTCAATGTT
Found at i:99761741 original size:55 final size:52
Alignment explanation
Indices: 99761633--99761871 Score: 168
Period size: 55 Copynumber: 4.5 Consensus size: 52
99761623 ATTAGGGTTT
* ** * *
99761633 AAGGATACCATGTAAGACCATGCCAAGGGATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACA-AGC-ATTGATAA-G-TTCATAAGGC
* * *
99761688 AAGGAAATCATGTAAGACCATGTCAAGACACGCCATTGATAAGTTACCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACAAG-CATTGATAAGTT--CATAAGGC
* * * * * *
99761743 AAAGG-TCCCATGTAAGAACATGCCAAGGCATAGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACA-AGCATTGATAAGTTCATAAGGC
* *
99761796 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACA-AGCATTGATAAGTTCAT-AAGGC
* *
99761845 AAGGATACCACGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGTCAAG
99761872 TCATGGAAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
49 25 0.17
51 1 0.01
52 8 0.05
53 41 0.27
54 9 0.06
55 61 0.41
56 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACAAGCATTGATAAGTTCATAAGGC
Found at i:99761836 original size:108 final size:110
Alignment explanation
Indices: 99761640--99761840 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
99761630 TTTAAGGATA
* * * *
99761640 CCATGTAAGACCATGCCAAGGGATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATAGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
99761705 CCATGTCAAGACACGCCATTGATAAGTTACCATAAGGCAAAGGTC
66 CCATGTCAAGACACGCCAATGATAAGTTACCATAAGGCAAAGGTC
* *
99761750 CCATGTAAGAACATGCCAAGGCATAGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATAGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
99761812 ACCATGTCAAGACATGGCAATGATAAGTT
65 ACCATGTCAAGACACGCCAATGATAAGTT
99761841 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATAGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACACGCCAATGATAAGTTACCATAAGGCAAAGGTC
Found at i:99761956 original size:5 final size:5
Alignment explanation
Indices: 99761946--99761973 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99761936 AGAGAATATC
99761946 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
1 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
99761974 ACGAGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AAGGT
Found at i:99762110 original size:16 final size:16
Alignment explanation
Indices: 99762089--99762119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99762079 ATAAATTTGA
99762089 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
99762105 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
99762120 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:99769369 original size:14 final size:14
Alignment explanation
Indices: 99769350--99769378 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99769340 ACAAAGGTGC
99769350 ACTTAGCATTTCAT
1 ACTTAGCATTTCAT
99769364 ACTTAGCATTTCAT
1 ACTTAGCATTTCAT
99769378 A
1 A
99769379 TGTCAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
ACTTAGCATTTCAT
Found at i:99788273 original size:38 final size:38
Alignment explanation
Indices: 99788222--99788370 Score: 262
Period size: 38 Copynumber: 3.9 Consensus size: 38
99788212 AGGGACATTG
99788222 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
*
99788260 TTTGAACTCGTTCTCCTTGAAATATGTATCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
* * *
99788298 TTTAAACCTGCTCTCCTTGAAATATGTATCAATACTTA
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
99788336 TTTGAACCCGTTCTCCTTGAAATATGTATCAATAC
1 TTTGAACCCGTTCTCCTTGAAATATGTATCAATAC
99788371 AAGTATTCCA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 103 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (38 bp):
TTTGAACCCGTTCTCCTTGAAATATGTATCAATACTTA
Found at i:99791178 original size:20 final size:20
Alignment explanation
Indices: 99791148--99791185 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99791138 ATCAAAGTAA
99791148 TTTTCAAAATTTGAAAATAAC
1 TTTTCAAAATTT-AAAATAAC
99791169 TTTT-AAAATTTAAAATA
1 TTTTCAAAATTTAAAATA
99791186 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTTCAAAATTTAAAATAAC
Found at i:99791250 original size:20 final size:19
Alignment explanation
Indices: 99791212--99791273 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
99791202 AATTTTTATT
* *
99791212 TTTTAAAAAGATTATAAAA
1 TTTTAAAAAAATTAAAAAA
99791231 TTTTAAAAAAATCTAAAAAA
1 TTTTAAAAAAAT-TAAAAAA
* * *
99791251 ATATATCAAAAATTAAAAAA
1 TTTTA-AAAAAATTAAAAAA
99791271 TTT
1 TTT
99791274 AATAAAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.32
20 17 0.50
21 6 0.18
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TTTTAAAAAAATTAAAAAA
Found at i:99791280 original size:19 final size:18
Alignment explanation
Indices: 99791213--99791281 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
99791203 ATTTTTATTT
* *
99791213 TTTAAAAAGATTATAAAAT
1 TTTAAAAAAATTA-AAAAA
99791232 TTTAAAAAAATCTAAAAAAA
1 TTTAAAAAAAT-T-AAAAAA
* *
99791252 TATATCAAAAATTAAAAAA
1 TTTA-AAAAAATTAAAAAA
*
99791271 TTTAATAAAAT
1 TTTAAAAAAAT
99791282 AATAATTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.12
19 19 0.47
20 9 0.22
21 7 0.17
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
TTTAAAAAAATTAAAAAA
Found at i:99792954 original size:35 final size:35
Alignment explanation
Indices: 99792885--99792955 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
99792875 TCTAGGATCA
* * *
99792885 CATATCTTTGAAGATCCCCTTCCATTTTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* * *
99792920 CATATCTTTGAAGATTACTTTCTATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
99792955 C
1 C
99792956 TCCGGAGATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:99798129 original size:35 final size:35
Alignment explanation
Indices: 99798067--99798137 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
99798057 TCTAGGATCA
* * *
99798067 CATATCTTTGAAGATCCCCTTCTATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* *
99798102 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
99798137 C
1 C
99798138 TCCGGAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:99799483 original size:20 final size:18
Alignment explanation
Indices: 99799460--99799502 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
99799450 ATTTTATATT
99799460 TAAAATTATTAAAAAAATCA
1 TAAAATTA-T-AAAAAATCA
*
99799480 TAAAATTATAGAAAATCA
1 TAAAATTATAAAAAATCA
99799498 TAAAA
1 TAAAA
99799503 ATCATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
19 1 0.05
20 8 0.36
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAATTATAAAAAATCA
Found at i:99799546 original size:22 final size:23
Alignment explanation
Indices: 99799514--99799558 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
99799504 TCATTAATTT
*
99799514 TAAAAATTATAAAAAAT-TAAAG
1 TAAAAAATATAAAAAATATAAAG
*
99799536 TAAAAAATATATAAAATATAAAG
1 TAAAAAATATAAAAAATATAAAG
99799559 AAATTGCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAAAATATAAAAAATATAAAG
Found at i:99799655 original size:20 final size:20
Alignment explanation
Indices: 99799602--99799656 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
99799592 AATATTTTTT
99799602 AAAAAT-TTTATATAAATTATG
1 AAAAATGTTTA-A-AAATTATG
*
99799623 AAAAA-GTGGTAAAAATTATG
1 AAAAATGT-TTAAAAATTATG
99799643 AAAAATGTTTAAAA
1 AAAAATGTTTAAAA
99799657 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 18 0.62
21 9 0.31
22 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAAATGTTTAAAAATTATG
Found at i:99799760 original size:22 final size:22
Alignment explanation
Indices: 99799734--99799807 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 22
99799724 CAAGTTATTC
*
99799734 AAAAAATATAAAATTACAAAAAT
1 AAAATATATAAAATTAC-AAAAT
*
99799757 AAAAATGATATAAAATTACAATAT
1 -AAAAT-ATATAAAATTACAAAAT
*
99799781 AAATATAAATAAAA-TACAAAAT
1 AAA-ATATATAAAATTACAAAAT
99799803 AAAAT
1 AAAAT
99799808 GCAAATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 10 0.23
24 10 0.23
25 12 0.27
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAATATATAAAATTACAAAAT
Found at i:99799773 original size:25 final size:23
Alignment explanation
Indices: 99799734--99799806 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
99799724 CAAGTTATTC
99799734 AAAAA-ATATAAAATTACAAAAAT
1 AAAAATATATAAAATTAC-AAAAT
*
99799757 AAAAATGATATAAAATTACAATAT
1 AAAAAT-ATATAAAATTACAAAAT
* *
99799781 AAATATAAATAAAA-TACAAAAT
1 AAAAATATATAAAATTACAAAAT
99799803 AAAA
1 AAAA
99799807 TGCAAATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.23
23 12 0.28
24 9 0.21
25 12 0.28
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (23 bp):
AAAAATATATAAAATTACAAAAT
Found at i:99799813 original size:23 final size:23
Alignment explanation
Indices: 99799741--99799814 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
99799731 TTCAAAAAAT
*
99799741 ATAAAATTACAAAAATAAAAATGAT
1 ATAAAATTAC-AAAAT-AAAATGAA
*
99799766 ATAAAATTACAATATAAATAT-AA
1 ATAAAATTACAAAATAAA-ATGAA
99799789 ATAAAA-TACAAAATAAAATGCAA
1 ATAAAATTACAAAATAAAATG-AA
99799812 ATA
1 ATA
99799815 TGTTTACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 15 0.35
24 6 0.14
25 10 0.23
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (23 bp):
ATAAAATTACAAAATAAAATGAA
Found at i:99801782 original size:20 final size:21
Alignment explanation
Indices: 99801759--99801808 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
99801749 TTAAATTCTA
*
99801759 AAAGATAAATACAAATAAAT-
1 AAAGATAAATAAAAATAAATG
*
99801779 AAAGATAATTAAAAATAAATG
1 AAAGATAAATAAAAATAAATG
99801800 AAA-ATAAAT
1 AAAGATAAAT
99801809 CCTAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (21 bp):
AAAGATAAATAAAAATAAATG
Found at i:99804665 original size:17 final size:17
Alignment explanation
Indices: 99804638--99804737 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
99804628 AAATAGAATG
99804638 TTTATATATTAAATTAAA
1 TTTA-ATATTAAATTAAA
99804656 TTTAATATTAAGA-TAATCA
1 TTTAATATTAA-ATTAA--A
99804675 CTTTAATATTAAATT-AA
1 -TTTAATATTAAATTAAA
* * *
99804692 -TAAATACT--GTTAAGA
1 TTTAATATTAAATTAA-A
99804707 --TAAGTATTAAATTAAA
1 TTTAA-TATTAAATTAAA
99804723 TTTAATATTAAATTA
1 TTTAATATTAAATTA
99804738 TTAAAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 25
0.67 0.06 0.26
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
15 10 0.16
16 1 0.02
17 25 0.39
18 8 0.12
19 3 0.05
20 12 0.19
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:99804692 original size:20 final size:18
Alignment explanation
Indices: 99804638--99804693 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 18
99804628 AAATAGAATG
99804638 TTTATATATTAAATTAA-A
1 TTTA-ATATTAAATTAATA
99804656 TTTAATATTAAGA-TAATCA
1 TTTAATATTAA-ATTAAT-A
99804675 CTTTAATATTAAATTAATA
1 -TTTAATATTAAATTAATA
99804694 AATACTGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.30
18 5 0.15
19 3 0.09
20 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTAATATTAAATTAATA
Found at i:99805488 original size:17 final size:18
Alignment explanation
Indices: 99805456--99805490 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99805446 AATATGATAC
*
99805456 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
99805474 TAAAA-TATAAAAAAAAT
1 TAAAATTATAAAAAAAAT
99805491 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:99805779 original size:22 final size:21
Alignment explanation
Indices: 99805744--99805819 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
99805734 AAAAGGTATC
* *
99805744 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
99805765 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99805788 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99805807 TGC-AATCATATCT
1 TACAAATCATATCT
99805820 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99805804 original size:19 final size:19
Alignment explanation
Indices: 99805780--99805870 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
99805770 AATCATATCT
99805780 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99805799 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99805817 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
99805834 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
99805853 TCTAAGATTGCCTATCAT
1 TCTAAGATTGCATATCAT
99805871 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99805836 original size:35 final size:37
Alignment explanation
Indices: 99805773--99805862 Score: 143
Period size: 35 Copynumber: 2.5 Consensus size: 37
99805763 ATTACAAAAT
99805773 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
99805809 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
99805844 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
99805863 CCTATCATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
35 22 0.43
36 19 0.37
37 10 0.20
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:99805849 original size:14 final size:15
Alignment explanation
Indices: 99805794--99805849 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
99805784 AGATTGCATA
99805794 TCATATCTAAGATTG
1 TCATATCTAAGATTG
99805809 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
99805827 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
99805844 -CATATC
1 TCATATC
99805850 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:99808181 original size:45 final size:45
Alignment explanation
Indices: 99808089--99808265 Score: 284
Period size: 45 Copynumber: 4.0 Consensus size: 45
99808079 CCGAATTCAT
* * * *
99808089 TCACCGACATTATAGCCTGCTAGGCTC-GAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
99808133 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
99808178 TCACCAGCATTATAGCCTGCTAGGGTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
99808223 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
99808266 CTGTACAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 26 0.21
45 97 0.79
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:99817315 original size:43 final size:43
Alignment explanation
Indices: 99817249--99817334 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
99817239 AAGTTGAACA
*
99817249 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
99817292 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
99817335 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:99820274 original size:58 final size:56
Alignment explanation
Indices: 99820124--99820275 Score: 148
Period size: 57 Copynumber: 2.7 Consensus size: 56
99820114 TATCGTATAA
* *
99820124 TAGGATTAGTAGTCCAGGCTAAATCCTTTATATAACATATGCTCAGAGGAGCTTGAT
1 TAGGATTACTAGTCCAGGATAAATCCTTTATATAACATATGCTCAGAGGA-CTTGAT
* * * *
99820181 TAGGATTACTAGTCCAGGCTAAA-CCCTAATCATAACGTATGCTCGAGAGGTA-TT-AT
1 TAGGATTACTAGTCCAGGATAAATCCTTTAT-ATAACATATGCTC-AGAGG-ACTTGAT
* * *
99820237 ATCAGGATTACTTGTTCGGGATAAATCCTTTATATAACA
1 -T-AGGATTACTAGTCCAGGATAAATCCTTTATATAACA
99820276 AGGTCAATGG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
56 7 0.09
57 37 0.47
58 28 0.36
59 6 0.08
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (56 bp):
TAGGATTACTAGTCCAGGATAAATCCTTTATATAACATATGCTCAGAGGACTTGAT
Found at i:99820854 original size:20 final size:20
Alignment explanation
Indices: 99820813--99820854 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
99820803 AGCACATGCA
* *
99820813 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
99820833 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
99820853 TT
1 TT
99820855 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:99824003 original size:35 final size:35
Alignment explanation
Indices: 99823807--99823985 Score: 198
Period size: 35 Copynumber: 5.1 Consensus size: 35
99823797 CATGATTCAC
* * * * *
99823807 AACTCAGTATTGTTAATACCATACCTACGTTTTAC
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
* *
99823842 AACTCGGTATGGGA-AATACCATACCTACGTATTAT
1 AACTCAGTAT-GGATAATACCATACCTACGTATCAT
* * ** *
99823877 AGCTCGGTATGGAGGATACCATTCCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
* * *
99823912 AGCTCAATATGGAAAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
*
99823947 AACTCAGTATGGATAATACCATACCTACGTGTCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
99823982 AACT
1 AACT
99823986 TTTCCATGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 3 0.02
35 120 0.97
36 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACGTATCAT
Found at i:99827589 original size:83 final size:79
Alignment explanation
Indices: 99827450--99827668 Score: 300
Period size: 83 Copynumber: 2.7 Consensus size: 79
99827440 CGGATGATAT
* *
99827450 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TTA
99827515 TGCGAGTAGTTG-CTATAC
65 TGC---TAG-TGACTATAC
*
99827533 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTAT
*
99827598 GCTAGTGACTATAT
66 GCTAGTGACTATAC
* * *
99827612 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
99827669 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
78 16 0.13
79 45 0.35
80 2 0.02
82 5 0.04
83 59 0.46
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTAT
GCTAGTGACTATAC
Found at i:99827612 original size:39 final size:40
Alignment explanation
Indices: 99827446--99827668 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
99827436 TATTCGGATG
* *
99827446 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
99827486 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
99827529 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
99827569 ATATCCGGGCTAAGTCCCGAAGGCA-TTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
99827608 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
99827648 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
99827669 ATACTTGGGT
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 52 0.31
40 76 0.46
41 2 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:99835660 original size:40 final size:40
Alignment explanation
Indices: 99835565--99835744 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
99835555 TATTCGGATG
*
99835565 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTGACT
*
99835608 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
99835648 ATATCCGGGCTAAGTCCCGAAGGTATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
99835688 ATATCCGGGCTAAGACCCGAAGGCATTTCTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
99835728 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
99835745 AAAGATACTT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 9 0.07
40 83 0.66
41 2 0.02
43 31 0.25
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:99845003 original size:28 final size:28
Alignment explanation
Indices: 99844971--99845026 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
99844961 CACTGGTAGG
*
99844971 CACATGGACGTGT-GTCTTGGCCGTGTGT
1 CACATGGACATGTGGT-TTGGCCGTGTGT
*
99844999 CACATGGGCATGTGGTTTGGCCGTGTGT
1 CACATGGACATGTGGTTTGGCCGTGTGT
99845027 TCCTTGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.11, C:0.20, G:0.38, T:0.32
Consensus pattern (28 bp):
CACATGGACATGTGGTTTGGCCGTGTGT
Found at i:99845585 original size:14 final size:14
Alignment explanation
Indices: 99845568--99845597 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99845558 ATACATGAAA
99845568 ATCAAGCTCCCAAG
1 ATCAAGCTCCCAAG
99845582 ATCAAGCTCCCAAG
1 ATCAAGCTCCCAAG
99845596 AT
1 AT
99845598 TAAATTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (14 bp):
ATCAAGCTCCCAAG
Found at i:99850570 original size:18 final size:18
Alignment explanation
Indices: 99850524--99850571 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
99850514 TGTAGGTGAG
99850524 CCCCCTTGCATG-CAAAC
1 CCCCCTTGCATGTCAAAC
*
99850541 CCCCCTTTCATGTACAAA-
1 CCCCCTTGCATGT-CAAAC
*
99850559 CCTCCTTGCATGT
1 CCCCCTTGCATGT
99850572 GCAAGCCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.42
18 11 0.42
19 4 0.15
ACGTcount: A:0.21, C:0.42, G:0.10, T:0.27
Consensus pattern (18 bp):
CCCCCTTGCATGTCAAAC
Found at i:99850771 original size:23 final size:23
Alignment explanation
Indices: 99850701--99850781 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
99850691 CTGTTAGGAT
*
99850701 ATGCGAACCCTATCTACTATTAC
1 ATGCGAACCCTATCTACTATGAC
* * * ** *
99850724 ATACAAACCCTAACTGTTTTG-C
1 ATGCGAACCCTATCTACTATGAC
*
99850746 ATGCGAACCATATCTACTATGAC
1 ATGCGAACCCTATCTACTATGAC
99850769 ATGCGAACCCTAT
1 ATGCGAACCCTAT
99850782 ATGTATACAC
Statistics
Matches: 42, Mismatches: 15, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
22 15 0.36
23 27 0.64
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.28
Consensus pattern (23 bp):
ATGCGAACCCTATCTACTATGAC
Found at i:99850937 original size:15 final size:15
Alignment explanation
Indices: 99850901--99850998 Score: 87
Period size: 14 Copynumber: 6.8 Consensus size: 15
99850891 TAAACATGCA
*
99850901 AACCC-ATATATGCG
1 AACCCTATATGTGCG
*
99850915 AA-CCTATATGTACG
1 AACCCTATATGTGCG
* *
99850929 AACCCTATATTTGCA
1 AACCCTATATGTGCG
*
99850944 AACCTTATATGTGCG
1 AACCCTATATGTGCG
* **
99850959 AACCC-CTATGTGTA
1 AACCCTATATGTGCG
*
99850973 AACCC-ATATGTGTG
1 AACCCTATATGTGCG
99850987 AACCCTATATGT
1 AACCCTATATGT
99850999 TAATTAAAAC
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
13 2 0.03
14 34 0.51
15 31 0.46
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (15 bp):
AACCCTATATGTGCG
Found at i:99850955 original size:30 final size:28
Alignment explanation
Indices: 99850901--99850997 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
99850891 TAAACATGCA
*
99850901 AACCCATATATGCGAACCTATATGTACG
1 AACCCATATATGCAAACCTATATGTACG
* *
99850929 AACCCTATATTTGCAAACCTTATATGTGCG
1 AACCC-ATATATGCAAACC-TATATGTACG
* * * * **
99850959 AACCCCTATGTGTAAACCCATATGTGTG
1 AACCCATATATGCAAACCTATATGTACG
99850987 AACCC-TATATG
1 AACCCATATATG
99850998 TTAATTAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.09
28 18 0.31
29 21 0.36
30 14 0.24
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (28 bp):
AACCCATATATGCAAACCTATATGTACG
Found at i:99853587 original size:23 final size:23
Alignment explanation
Indices: 99853557--99853604 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
99853547 AAAGAAAAAC
*
99853557 AAGAACACATTGATTTTAGGTGA
1 AAGAACACATAGATTTTAGGTGA
99853580 AAGAACACATAGATTTTAGGTGA
1 AAGAACACATAGATTTTAGGTGA
99853603 AA
1 AA
99853605 CCCTTTTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (23 bp):
AAGAACACATAGATTTTAGGTGA
Found at i:99853775 original size:49 final size:49
Alignment explanation
Indices: 99853702--99853838 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 49
99853692 TTTTATTTAT
*
99853702 AGGTTGAAAAACCTTATT-ATAATCAATGTCAAATATAAAG-AGCGTAGTA
1 AGGTTGAAAAACCTTATTCA-AATCAATATCAAATA-AAAGAAGCGTAGTA
* * * *
99853751 AGGTTGAAACACCTTATTCAAATCAATATCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCTTATTCAAATCAATATCAAATAAAAGAAGCGTAGTA
* * *
99853800 AGGTTGAAAAACCTTATTCTAATCAAAATAAAATAAAAG
1 AGGTTGAAAAACCTTATTCAAATCAATATCAAATAAAAG
99853839 TGTAGTTCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
48 2 0.03
49 72 0.96
50 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCAAATCAATATCAAATAAAAGAAGCGTAGTA
Found at i:99858289 original size:49 final size:49
Alignment explanation
Indices: 99858217--99858395 Score: 225
Period size: 49 Copynumber: 3.7 Consensus size: 49
99858207 TATTTATAGT
*
99858217 TTGAAAAACCTTATTCTAATCAACGTAAAATAGAACGAGTCTAGTAAGG
1 TTGAAAAACCTTATTCTAATCAACGTAAAATAGAATGAGTCTAGTAAGG
* *
99858266 TTGAAACACCTTATTCTAATCAACGTAAAATAGAGTGAGTCTAGTAAGG
1 TTGAAAAACCTTATTCTAATCAACGTAAAATAGAATGAGTCTAGTAAGG
* * * * * * *
99858315 TCGAAACACCTTAGTCTAATCAATGTTACATAG-ATGAAGTGTAGTAAGG
1 TTGAAAAACCTTATTCTAATCAACGTAAAATAGAATG-AGTCTAGTAAGG
* **
99858364 TTGAAAAACCATATTCTAATCAAAATAAAATA
1 TTGAAAAACCTTATTCTAATCAACGTAAAATA
99858396 AAAGAAGTGT
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
48 2 0.02
49 109 0.98
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (49 bp):
TTGAAAAACCTTATTCTAATCAACGTAAAATAGAATGAGTCTAGTAAGG
Found at i:99860982 original size:21 final size:21
Alignment explanation
Indices: 99860944--99860983 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99860934 CTTGAAAAGT
*
99860944 GGTATTGATACATGTTTATCA
1 GGTATTGATACATATTTATCA
* *
99860965 GGTATTGGTACTTATTTAT
1 GGTATTGATACATATTTAT
99860984 TATGGATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (21 bp):
GGTATTGATACATATTTATCA
Found at i:99862974 original size:15 final size:16
Alignment explanation
Indices: 99862947--99862976 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99862937 GATAACTATT
99862947 AATATACATTATATAA
1 AATATACATTATATAA
99862963 AATATA-ATTATATA
1 AATATACATTATATA
99862977 TTACTTGTTA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATACATTATATAA
Found at i:99863095 original size:29 final size:29
Alignment explanation
Indices: 99863038--99863094 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
99863028 GATTTTTTAC
99863038 AATATTTACAAAAAGAGATAGTTAATTTT
1 AATATTTACAAAAAGAGATAGTTAATTTT
*
99863067 AATATTTATAAAAAGA-ATAGTTAATTTT
1 AATATTTACAAAAAGAGATAGTTAATTTT
99863095 TGTAAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (29 bp):
AATATTTACAAAAAGAGATAGTTAATTTT
Found at i:99882149 original size:14 final size:14
Alignment explanation
Indices: 99882130--99882158 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99882120 TCCGACTTAG
99882130 ATTTGTGGTCCCGA
1 ATTTGTGGTCCCGA
99882144 ATTTGTGGTCCCGA
1 ATTTGTGGTCCCGA
99882158 A
1 A
99882159 ACCACTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (14 bp):
ATTTGTGGTCCCGA
Found at i:99889608 original size:40 final size:40
Alignment explanation
Indices: 99889532--99889675 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
99889522 TAACTCATTC
* *
99889532 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
99889572 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
99889612 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
99889653 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
99889676 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:99897460 original size:40 final size:40
Alignment explanation
Indices: 99897384--99897527 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
99897374 TAACTCATTC
* *
99897384 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
99897424 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
99897464 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
99897505 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
99897528 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:99900440 original size:16 final size:16
Alignment explanation
Indices: 99900407--99900455 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
99900397 AAAATATGCA
*
99900407 TAAAAATAATACTCCAAC
1 TAAATATAATA-T-CAAC
99900425 TAAATATAATATCAAC
1 TAAATATAATATCAAC
99900441 TAAATATAATATCAA
1 TAAATATAATATCAA
99900456 TGGTATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 19 0.63
17 1 0.03
18 10 0.33
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAATATAATATCAAC
Found at i:99905361 original size:3 final size:3
Alignment explanation
Indices: 99905353--99905405 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
99905343 CTACTTTTTA
99905353 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
99905401 ATC AT
1 ATC AT
99905406 TATTATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:99915019 original size:14 final size:15
Alignment explanation
Indices: 99915000--99915032 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99914990 TTATTTGCAT
99915000 GTTTAGA-GCTTAGG
1 GTTTAGATGCTTAGG
*
99915014 GTTTAGATGTTTAGG
1 GTTTAGATGCTTAGG
99915029 GTTT
1 GTTT
99915033 GGGGTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.45
Consensus pattern (15 bp):
GTTTAGATGCTTAGG
Found at i:99915024 original size:22 final size:22
Alignment explanation
Indices: 99914998--99915041 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99914988 GGTTATTTGC
99914998 ATGTTTAGAGCTTAGGGTTTAG
1 ATGTTTAGAGCTTAGGGTTTAG
* * *
99915020 ATGTTTAGGGTTTGGGGTTTAG
1 ATGTTTAGAGCTTAGGGTTTAG
99915042 GATTTTTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.43
Consensus pattern (22 bp):
ATGTTTAGAGCTTAGGGTTTAG
Found at i:99915141 original size:28 final size:28
Alignment explanation
Indices: 99915076--99915239 Score: 90
Period size: 28 Copynumber: 5.6 Consensus size: 28
99915066 TTTTATATAT
99915076 TTAGTGTTTAGGATTTTGAAGAAAATAAA
1 TTAGTGTTTAGGATTTT-AAGAAAATAAA
*
99915105 TTAGGGTTTTAGGATTTT-A-AAAATCAAA
1 TTAGTG-TTTAGGATTTTAAGAAAAT-AAA
* *
99915133 TTAGTGTTTATGATTTTTTTAAAAATAAATTAAA
1 TTAGTGTTTAGGA---TTTT-AAGA-AAA-TAAA
99915167 TTA-TGATTT-GTTG-TTTATAA-AAAATAAA
1 TTAGTG-TTTAG--GATTT-TAAGAAAATAAA
* *
99915195 TTAGGGTTTATGGATTTTTA-AAAATAAA
1 TTAGTGTTTA-GGATTTTAAGAAAATAAA
* *
99915223 TTTGTGTTTAGGGTTTT
1 TTAGTGTTTAGGATTTT
99915240 TGTAAGTATT
Statistics
Matches: 108, Mismatches: 9, Indels: 38
0.70 0.06 0.25
Matches are distributed among these distances:
27 17 0.16
28 38 0.35
29 12 0.11
30 17 0.16
31 5 0.05
32 2 0.02
33 3 0.03
34 12 0.11
35 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (28 bp):
TTAGTGTTTAGGATTTTAAGAAAATAAA
Found at i:99915606 original size:125 final size:124
Alignment explanation
Indices: 99915302--99915944 Score: 679
Period size: 124 Copynumber: 5.2 Consensus size: 124
99915292 TTTTTGTTCA
* * * * *
99915302 GTCAACAAAAGTACTAAAACAAGCTCTCAGATGGATGCTATTTTTATACAGTAATTTCTG-AAAA
1 GTCAGCAAAAGTACTAAAA-AAGCTCTCACATGGATGCTCTTTTTCTACAGTAGTTTCTGAAAAA
* * *
99915366 ATAATTTTAAGAAGATGATTCTGAAAAATAGGGT-AAAAACGCTTTAAGCAGGATGCACT
65 ATAATTTTGAGAAGATGATTCTGAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * ** *
99915425 GTCAGCAAAAGTAGTGAAAAAAGCTC-CTACCTGGACT-CTCGTTTTCTACAACAGTTTTTGAAA
1 GTCAGCAAAAGTACT-AAAAAAGCTCTC-ACATGGA-TGCTCTTTTTCTACAGTAGTTTCTGAAA
* ** * * * * *
99915488 AGATAATTTTTTGAAGATGATTATGAAAAAATAGGGCCAAAAACGCTTCAAACAGGATGCCCT
63 AAATAATTTTGAGAAGATGATTCTG-AAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * *
99915551 TTTAGCAAAAGTACTAAAAAAGCTCTCACATGGAAGCTATTTTTCTACAGTAGTTTCTGAAAATA
1 GTCAGCAAAAGTACTAAAAAAGCTCTCACATGGATGCTCTTTTTCTACAGTAGTTTCTGAAAAAA
* * * * * * *
99915616 TAATTTCGAGAAGGTGGTTTTGAAAAATAGTGTAAAAAACGCTTCAAGTAGGATTCACT
66 TAATTTTGAGAAGATGATTCTGAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * * * *
99915675 GTCAACAAAAATACTGAAAAAAAGCT-TCCACCTAGAGGCTCTTTTTTTACAATAGTTTCTGAAA
1 GTCAGCAAAAGTACT--AAAAAAGCTCT-CACATGGATGCTCTTTTTCTACAGTAGTTTCTGAAA
*
99915739 AAATAATTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
63 AAATAATTTTGAGAAGATGATTCTG-AAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * *
99915802 GTCAGCAAAAGTACTGAAAAAGCTC-CA-AGTTGGATGCTCTTTTTCCATAGTAGTTTCTGAAAA
1 GTCAGCAAAAGTACTAAAAAAGCTCTCACA--TGGATGCTCTTTTTCTACAGTAGTTTCTGAAAA
* * * *
99915865 AATAATTCTGAGAAGATGATTTTGAAAAATAGTGTCAAAAACGCTTTAAACAGGATGCACT
64 AATAATTTTGAGAAGATGATTCTGAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* *
99915926 ATCAGTAAAAGTACTAAAA
1 GTCAGCAAAAGTACTAAAA
99915945 TTATGAAAAC
Statistics
Matches: 425, Mismatches: 80, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
122 1 0.00
123 40 0.09
124 122 0.29
125 122 0.29
126 93 0.22
127 47 0.11
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (124 bp):
GTCAGCAAAAGTACTAAAAAAGCTCTCACATGGATGCTCTTTTTCTACAGTAGTTTCTGAAAAAA
TAATTTTGAGAAGATGATTCTGAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
Found at i:99915769 original size:14 final size:14
Alignment explanation
Indices: 99915731--99915771 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
99915721 TTACAATAGT
99915731 TTCTGAAAAAATAA
1 TTCTGAAAAAATAA
* * *
99915745 TTTTGAGAAAATGA
1 TTCTGAAAAAATAA
99915759 TTCTGAAAAAATA
1 TTCTGAAAAAATA
99915772 GTGTCAAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (14 bp):
TTCTGAAAAAATAA
Found at i:99915785 original size:251 final size:247
Alignment explanation
Indices: 99915302--99915925 Score: 759
Period size: 251 Copynumber: 2.5 Consensus size: 247
99915292 TTTTTGTTCA
* * *
99915302 GTCAACAAAAGTACTAAAACAAGCTCTCAGATGGATGCTATTTTTATACAGTAATTTCTGAAAAA
1 GTCAGCAAAAGTACTAAAA-AAGCTCTCA-ATGGATGCTATTTTTCTACAGTAGTTTCTGAAAAA
** * * * *
99915367 TAATTTTAAGAAGATGATTCTGAAAAATAGGGTAAAAACGCTTTAAGCAGGATGCACTGTCAGCA
64 TAATTTCGAGAAGATGATTTTGAAAAATAGTGTAAAAACGCTTCAAGCAGGATGCACTGTCAACA
* * * * * *
99915432 AAAGTAGTGAAAAAAGCTCCTACCTGGACTCTCGTTTTCTACAACAGTTTTTGAAAAGATAATTT
129 AAAATACTGAAAAAAGCTCCTACCTAGACGCTCGTTTTCTACAACAGTTTCTGAAAAAATAATTT
** * *
99915497 TTTGAAGATGATTATGAAAAAATAGGGCCAAAAACGCTTCAAACAGGATGCCCT
194 TGAGAAAATGATTATGAAAAAATAGGGCCAAAAACGCTTCAAACAGGATGCACT
* * *
99915551 TTTAGCAAAAGTACTAAAAAAGCTCTCACATGGAAGCTATTTTTCTACAGTAGTTTCTGAAAATA
1 GTCAGCAAAAGTACTAAAAAAGCTCTCA-ATGGATGCTATTTTTCTACAGTAGTTTCTGAAAA-A
* * * *
99915616 TAATTTCGAGAAGGTGGTTTTGAAAAATAGTGTAAAAAACGCTTCAAGTAGGATTCACTGTCAAC
64 TAATTTCGAGAAGATGATTTTGAAAAATAGTGT-AAAAACGCTTCAAGCAGGATGCACTGTCAAC
* * * *
99915681 AAAAATACTGAAAAAAAGCTTCC-ACCTAGAGGCTCTTTTTTTACAATAGTTTCTGAAAAAATAA
128 AAAAATACTG-AAAAAAGC-TCCTACCTAGACGCTCGTTTTCTACAACAGTTTCTGAAAAAATAA
* * * *
99915745 TTTTGAGAAAATGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
191 TTTTGAGAAAATGATTATGAAAAAATAGGGCCAAAAACGCTTCAAACAGGATGCACT
* * * *
99915802 GTCAGCAAAAGTACTGAAAAAGCTC-CAAGTTGGATGCTCTTTTTCCATAGTAGTTTCTGAAAAA
1 GTCAGCAAAAGTACTAAAAAAGCTCTCAA--TGGATGCTATTTTTCTACAGTAGTTTCTG-AAAA
* *
99915866 ATAA-TTCTGAGAAGATGATTTTGAAAAATAGTGTCAAAAACGCTTTAAACAGGATGCACT
63 ATAATTTC-GAGAAGATGATTTTGAAAAATAGTGT-AAAAACGCTTCAAGCAGGATGCACT
99915926 ATCAGTAAAA
Statistics
Matches: 318, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
248 40 0.13
249 45 0.14
250 40 0.13
251 186 0.58
252 7 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (247 bp):
GTCAGCAAAAGTACTAAAAAAGCTCTCAATGGATGCTATTTTTCTACAGTAGTTTCTGAAAAATA
ATTTCGAGAAGATGATTTTGAAAAATAGTGTAAAAACGCTTCAAGCAGGATGCACTGTCAACAAA
AATACTGAAAAAAGCTCCTACCTAGACGCTCGTTTTCTACAACAGTTTCTGAAAAAATAATTTTG
AGAAAATGATTATGAAAAAATAGGGCCAAAAACGCTTCAAACAGGATGCACT
Found at i:99919395 original size:46 final size:46
Alignment explanation
Indices: 99919345--99919520 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
99919335 TGGTTGAGCA
99919345 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99919391 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
99919436 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99919484 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
99919521 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99919501 original size:93 final size:93
Alignment explanation
Indices: 99919342--99919513 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
99919332 GGATGGTTGA
* *
99919342 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
99919407 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
99919435 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
99919500 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
99919514 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:99926969 original size:45 final size:46
Alignment explanation
Indices: 99926916--99927089 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
99926906 TGGTTGAGCA
99926916 TCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99926961 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
99927006 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99927053 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
99927090 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 65 0.60
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99927070 original size:92 final size:92
Alignment explanation
Indices: 99926913--99927082 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
99926903 GGATGGTTGA
**
99926913 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAATCACCGAACTCGTTGAGTT
99926978 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
99927005 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAATCACCGAACTCGTTGAGT
99927069 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
99927083 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 59 0.80
93 15 0.20
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAATCACCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:99929285 original size:33 final size:33
Alignment explanation
Indices: 99929248--99929317 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
99929238 ATAATAAATT
* *
99929248 ATATTTAAATAATTTAATATAATTATACATGAA
1 ATATTTAAATAATTTAATATAATAATACATAAA
*
99929281 ATATTTAAATAATTTAATTTAATAATACATAAA
1 ATATTTAAATAATTTAATATAATAATACATAAA
99929314 ATAT
1 ATAT
99929318 AAATTAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (33 bp):
ATATTTAAATAATTTAATATAATAATACATAAA
Found at i:99929593 original size:16 final size:16
Alignment explanation
Indices: 99929567--99929610 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
99929557 AAATGGGATG
99929567 AAAATAAATTTTTAATT
1 AAAA-AAATTTTTAATT
99929584 AAAAAAA-TTTTAATT
1 AAAAAAATTTTTAATT
*
99929599 AATTAAAATTTT
1 AA-AAAAATTTT
99929611 CAAACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 7 0.29
17 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAAATTTTTAATT
Found at i:99930876 original size:17 final size:18
Alignment explanation
Indices: 99930856--99930889 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99930846 AAAGGTTTTA
*
99930856 TTAA-TATAAACAATAAC
1 TTAATTATAAAAAATAAC
99930873 TTAATTATAAAAAATAA
1 TTAATTATAAAAAATAA
99930890 AATATTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAATTATAAAAAATAAC
Found at i:99939662 original size:8 final size:7
Alignment explanation
Indices: 99939635--99939660 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99939625 ATCATATTTG
99939635 TTTTTAT
1 TTTTTAT
99939642 TTTTTAT
1 TTTTTAT
99939649 TTTTTAT
1 TTTTTAT
99939656 TTTTT
1 TTTTT
99939661 TAAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:99939987 original size:13 final size:13
Alignment explanation
Indices: 99939969--99939997 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
99939959 ATCTTGCTTA
99939969 GTCCTAAACTTGT
1 GTCCTAAACTTGT
99939982 GTCCTAAACTTGT
1 GTCCTAAACTTGT
99939995 GTC
1 GTC
99939998 GTGCTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (13 bp):
GTCCTAAACTTGT
Found at i:99940909 original size:12 final size:12
Alignment explanation
Indices: 99940892--99940929 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
99940882 AAACTCGATA
99940892 GAAAAAAAAAAG
1 GAAAAAAAAAAG
*
99940904 GAAAAAAAAAAA
1 GAAAAAAAAAAG
*
99940916 G-AGAAAAAAAG
1 GAAAAAAAAAAG
99940927 GAA
1 GAA
99940930 GCTCAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAG
Found at i:99940912 original size:14 final size:14
Alignment explanation
Indices: 99940893--99940925 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
99940883 AACTCGATAG
99940893 AAAAAAAAAAG-GA
1 AAAAAAAAAAGAGA
99940906 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
99940920 AAAAAA
1 AAAAAA
99940926 GGAAGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:99945261 original size:32 final size:32
Alignment explanation
Indices: 99945225--99945287 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
99945215 CCTAATTTGG
*
99945225 GTTGCCAACACTTCTATAAATAAGACATTAGA
1 GTTGCCAACACTTCTATAAATAAAACATTAGA
99945257 GTTGCCAACACTTCTATAAATAAAACATTAG
1 GTTGCCAACACTTCTATAAATAAAACATTAG
99945288 GGGTTTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (32 bp):
GTTGCCAACACTTCTATAAATAAAACATTAGA
Found at i:99949366 original size:20 final size:20
Alignment explanation
Indices: 99949343--99949383 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
99949333 CTTAAAACAT
99949343 GCCAAAAACATTCAACCTAA
1 GCCAAAAACATTCAACCTAA
99949363 GCCAAAAACATTCAACCTAA
1 GCCAAAAACATTCAACCTAA
99949383 G
1 G
99949384 TACCTAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.29, G:0.07, T:0.15
Consensus pattern (20 bp):
GCCAAAAACATTCAACCTAA
Found at i:99949371 original size:31 final size:31
Alignment explanation
Indices: 99949314--99949373 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
99949304 TACATGACTT
**
99949314 CAAAACACATTCAAACAAGCTTAAAACATGC
1 CAAAACACATTCAAACAAGCCAAAAACATGC
*
99949345 CAAAA-ACATTCAACCTAAGCCAAAAACAT
1 CAAAACACATTCAAAC-AAGCCAAAAACAT
99949374 TCAACCTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.53, C:0.27, G:0.05, T:0.15
Consensus pattern (31 bp):
CAAAACACATTCAAACAAGCCAAAAACATGC
Found at i:99951809 original size:23 final size:23
Alignment explanation
Indices: 99951782--99951836 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
99951772 TTTTTATTTT
99951782 GTGTTAGAATTAGTAGGAACTAG
1 GTGTTAGAATTAGTAGGAACTAG
99951805 GTGTTAGAATTAGTAGGAACTAG
1 GTGTTAGAATTAGTAGGAACTAG
*
99951828 GTTTTAGAA
1 GTGTTAGAA
99951837 AGCAACGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (23 bp):
GTGTTAGAATTAGTAGGAACTAG
Found at i:99968294 original size:27 final size:27
Alignment explanation
Indices: 99968241--99968298 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
99968231 AAATATAAAT
* *
99968241 ATTA-TAAAATAATTATTTTGTACTTAA
1 ATTATTAAAATAATTAATTTGTAATT-A
*
99968268 ATTATTAACATAATTAATTT-TAATTA
1 ATTATTAAAATAATTAATTTGTAATTA
99968294 ATTAT
1 ATTAT
99968299 AATAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 8 0.30
28 13 0.48
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTATTAAAATAATTAATTTGTAATTA
Found at i:99968306 original size:20 final size:20
Alignment explanation
Indices: 99968277--99968316 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99968267 AATTATTAAC
*
99968277 ATAATTAATTTTAATTAATT
1 ATAATAAATTTTAATTAATT
*
99968297 ATAATAAATTTTGATTAATT
1 ATAATAAATTTTAATTAATT
99968317 CTGATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATAATAAATTTTAATTAATT
Found at i:99968323 original size:10 final size:10
Alignment explanation
Indices: 99968278--99968316 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
99968268 ATTATTAACA
99968278 TAATTAATTT
1 TAATTAATTT
*
99968288 TAATTAATTA
1 TAATTAATTT
*
99968298 TAATAAATTT
1 TAATTAATTT
*
99968308 TGATTAATT
1 TAATTAATT
99968317 CTGATTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
TAATTAATTT
Found at i:99971289 original size:81 final size:81
Alignment explanation
Indices: 99971146--99971327 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
99971136 TTAGCCTCTA
99971146 TGGCGAACTCTGAAAGAATAGCCTTTATGACAAACTTTGAAAGAATATCCTTTATGGCGAACTCT
1 TGGCGAACTCTGAAAGAATAGCCTTTATGACAAACTTTGAAAGAATATCCTTTATGGCGAACTCT
* * *
99971211 GAAGGAATA-GCTTCTG
66 AAAAGAATATCCTT-TG
* * * * *
99971227 TGGC-AAGCTCTGAAAGAATAGGCTTTGTGGCGAACTTTGAAAGAATATCCTTTATGGTGAACTC
1 TGGCGAA-CTCTGAAAGAATAGCCTTTATGACAAACTTTGAAAGAATATCCTTTATGGCGAACTC
99971291 TAAAAGAATATCCTTTG
65 TAAAAGAATATCCTTTG
*
99971308 TGGCGAACACTGAAAGAATA
1 TGGCGAACTCTGAAAGAATA
99971328 ACCTCTGTGA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
80 2 0.02
81 82 0.92
82 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (81 bp):
TGGCGAACTCTGAAAGAATAGCCTTTATGACAAACTTTGAAAGAATATCCTTTATGGCGAACTCT
AAAAGAATATCCTTTG
Found at i:99971336 original size:27 final size:27
Alignment explanation
Indices: 99971137--99971327 Score: 206
Period size: 27 Copynumber: 7.1 Consensus size: 27
99971127 GGCATTTGGT
*
99971137 TAGCCTCTATGGCGAACTCTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* * *
99971164 TAGCCTTTATGACAAACTTTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* *
99971191 TATCCTTTATGGCGAACTCTGAAGGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*
99971218 TAG-CTTCTGTGGC-AAGCTCTGAAAGAA
1 TAGCCTT-TATGGCGAA-CTCTGAAAGAA
* * *
99971245 TAGGCTTTGTGGCGAACTTTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* * *
99971272 TATCCTTTATGGTGAACTCTAAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* * *
99971299 TATCCTTTGTGGCGAACACTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
99971326 TA
1 TA
99971328 ACCTCTGTGA
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
26 5 0.04
27 127 0.93
28 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGCCTTTATGGCGAACTCTGAAAGAA
Found at i:99974381 original size:27 final size:27
Alignment explanation
Indices: 99974343--99974702 Score: 297
Period size: 27 Copynumber: 13.3 Consensus size: 27
99974333 CAAAGCCCTT
* *
99974343 AACTCTAAAAGAATAACCTTTGTGGTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* * * *
99974370 AACTCTGAAAGAATAACCTCTATGCTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* * * * * *
99974397 AACTTTGAACGAATATCCTCTATGATG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* * * * * **
99974424 AACTTTGAAAGAATATCCTCTATAGCA
1 AACTCTGAAAGAATAGCCTTTGTGGTG
*
99974451 AACTCTGAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
*
99974478 AACTCTGAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* *
99974505 AACTCTAAAAGAATAGCCTTCGTGGTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* * **
99974532 AAATCTGAAAGAATAGCCTTCGTGGCA
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* **
99974559 AACTTTGAAAGAATAGCCTTCATGGTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* **
99974586 AATTCTGAAAGAATAGCCTTTGTGGCA
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* * * * *
99974613 AATTTTGAAAAAATAGCCTCTATGGTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
* *** * ***
99974640 AACTCTAAAAGAATATTTTTTATGACA
1 AACTCTGAAAGAATAGCCTTTGTGGTG
*
99974667 AACTCTGAAAGAATAACCTTTGTGGTG
1 AACTCTGAAAGAATAGCCTTTGTGGTG
99974694 AACTCTGAA
1 AACTCTGAA
99974703 TGGACTACCT
Statistics
Matches: 271, Mismatches: 62, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 271 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
AACTCTGAAAGAATAGCCTTTGTGGTG
Found at i:99974720 original size:108 final size:108
Alignment explanation
Indices: 99974343--99974720 Score: 388
Period size: 108 Copynumber: 3.5 Consensus size: 108
99974333 CAAAGCCCTT
* * * * * *
99974343 AACTCTAAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATAACCTCTAT-GCTGAACTTTGAAC
1 AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGC-AAACTTTGAAA
* * * * *
99974407 GAATATCCTCTATGATGAACTTTGAAAGAATATCCTCTAT-AGCA
65 AAATAGCCTCTATGGTGAACTCTGAAAGAATATCCTTTATGA-CA
* * * *
99974451 AACTCTGAAAGAATAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTGTGGCGAACTCT-AAAA
1 AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGCAAACTTTGAAAA
* * * ** *
99974515 GAATAGCCT-TCGTGGTGAAATCTGAAAGAATAGCCTTCGTGGCA
66 -AATAGCCTCT-ATGGTGAACTCTGAAAGAATATCCTTTATGACA
* * ** * *
99974559 AACTTTGAAAGAATAGCCTTCATGGTGAATTCTGAAAGAATAGCCTTTGTGGCAAATTTTGAAAA
1 AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGCAAACTTTGAAAA
* **
99974624 AATAGCCTCTATGGTGAACTCTAAAAGAATATTTTTTATGACA
66 AATAGCCTCTATGGTGAACTCTGAAAGAATATCCTTTATGACA
* *
99974667 AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAATGGACTA-CCTTTGTGGCA
1 AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAA-AGAATAGCCTTTGTGGCA
99974721 TACCCGGATT
Statistics
Matches: 220, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
107 3 0.01
108 206 0.94
109 11 0.05
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (108 bp):
AACTCTGAAAGAATAACCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGCAAACTTTGAAAA
AATAGCCTCTATGGTGAACTCTGAAAGAATATCCTTTATGACA
Found at i:99979787 original size:22 final size:22
Alignment explanation
Indices: 99979762--99979814 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
99979752 AACATTTCTT
**
99979762 TGCTCTCT-TATTAACACTTTAG
1 TGCTCTCTGT-TTAACACTACAG
*
99979784 TGCTCTCTGTTTAGCACTACAG
1 TGCTCTCTGTTTAACACTACAG
99979806 TGCTCTCTG
1 TGCTCTCTG
99979815 ATGTGGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.42
Consensus pattern (22 bp):
TGCTCTCTGTTTAACACTACAG
Found at i:99988739 original size:24 final size:24
Alignment explanation
Indices: 99988709--99988773 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
99988699 CGACCCCTCC
99988709 CCCTTCCCTTTCCTTTC-TC-TTT
1 CCCTTCCCTTTCCTTTCTTCTTTT
*
99988731 -CCTTCTTCCTCATCCTTTCTTCTTTT
1 CCCTTC--CCT-TTCCTTTCTTCTTTT
*
99988757 CCCTTCCCTTTCTTTTC
1 CCCTTCCCTTTCCTTTC
99988774 CCCTTTCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
21 5 0.15
23 3 0.09
24 13 0.38
25 5 0.15
26 3 0.09
27 5 0.15
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (24 bp):
CCCTTCCCTTTCCTTTCTTCTTTT
Found at i:99990772 original size:47 final size:46
Alignment explanation
Indices: 99990717--99990890 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
99990707 AGTCTTAGCA
*
99990717 GATGCATGTCCCAGACACCTCTTACACTGGCTA-TCATCATTGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATCATT-AGGCC
* * *
99990764 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTACGCG
1 GATGCATGTCCCAGACACGTCTTACACTGGCACTCATCAT-TAGGCC
* * *
99990810 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-AATATGGCC
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCATCATTA-GGCC
* * *
99990858 GATGCATGTCCCAGACATGTGTTACATTGGCAC
1 GATGCATGTCCCAGACACGTCTTACACTGGCAC
99990891 ACAAGAAATC
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
46 21 0.19
47 63 0.58
48 24 0.22
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCACTCATCATTAGGCC
Found at i:99990861 original size:94 final size:92
Alignment explanation
Indices: 99990620--99990890 Score: 275
Period size: 94 Copynumber: 2.9 Consensus size: 92
99990610 GGGATAAGTT
* * * * *
99990620 GCAGATGCCATGTCCCAGACATGGTCCTATACTAGCTCTCATATATACGTGCTGATGCATGT-CC
1 GCAGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATA-ATATG-GCCGATGCATGTCCC
* * * *
99990684 TGAACAAGTCTTACACTAGCACGAGTCTTA
64 AG-ACATGTCTTACACTGGCACCAGTCTTA
** * *
99990714 GCAGATG-CATGTCCCAGACA-CCTCTTACACTGGCTA-TCATCAT-TGAGGCCGATGCATGTCC
1 GCAGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATAATAT--GGCCGATGCATGTCC
99990775 CAGACATGTCTTACACTGGCACTCA-TCTCTA
63 CAGACATGTCTTACACTGGCAC-CAGTCT-TA
*
99990806 CGCGGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATATGGCCGATGCATGTCCCA
1 -GCAGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATATGGCCGATGCATGTCCCA
* *
99990871 GACATGTGTTACATTGGCAC
65 GACATGTCTTACACTGGCAC
99990891 ACAAGAAATC
Statistics
Matches: 146, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
91 33 0.23
92 20 0.14
93 19 0.13
94 56 0.38
95 17 0.12
96 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (92 bp):
GCAGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATATGGCCGATGCATGTCCCAG
ACATGTCTTACACTGGCACCAGTCTTA
Found at i:99998208 original size:47 final size:47
Alignment explanation
Indices: 99998150--99998373 Score: 294
Period size: 47 Copynumber: 4.8 Consensus size: 47
99998140 ATGACTCTTA
99998150 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATCATCGAG
99998197 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATCATCGAG
* ** *
99998244 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-ATTTAA
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCATCGAG
* * *
99998290 GCCGATGTCATGTCCTAGACACGGTCTTACACTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAC-GTCTTACACTGGCACTCATCATCGAG
* * *
99998338 GCTGATGCATGTCCCAGACATGTGTTACACTGGCAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCAC
99998374 ACAAGAAATC
Statistics
Matches: 160, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
46 25 0.16
47 108 0.68
48 25 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCATCGAG
Found at i:99998352 original size:141 final size:138
Alignment explanation
Indices: 99998109--99998371 Score: 354
Period size: 141 Copynumber: 1.9 Consensus size: 138
99998099 TATACGTGCT
*
99998109 GATGCATGTCCCGAACATGTCTTACACTAGCATGACTCTTAGCCGATGCATGTCCCAGACACGTC
1 GATGCATGTCCCGAACATGTCTTACACTAGCATCACTCTTAGCCGATGCATGTCCCAGACACGTC
*
99998174 TTACACTGGCTATCATCATCGAGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCA
66 TTACACTGGCTATCATAATCGAGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCA
99998239 TCGAGGCC
131 TCGAGGCC
* * *
99998247 GATGCATGTCCC-AGACATGTCTTACACTGGCACTCA-TATTTAAGCCGATGTCATGTCCTAGAC
1 GATGCATGTCCCGA-ACATGTCTTACACTAGCA-TCACT-CTT-AGCCGATG-CATGTCCCAGAC
* * * *
99998310 ACGGTCTTACACTGGC-ACTCATAAT-GTGGCTGATGCATGTCCCAGACATGTGTTACACTGGC
61 AC-GTCTTACACTGGCTA-TCATAATCGAGGCCGATGCATGTCCCAGACACGTCTTACACTGGC
99998372 ACACAAGAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
137 1 0.01
138 30 0.28
139 4 0.04
140 8 0.07
141 47 0.43
142 19 0.17
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (138 bp):
GATGCATGTCCCGAACATGTCTTACACTAGCATCACTCTTAGCCGATGCATGTCCCAGACACGTC
TTACACTGGCTATCATAATCGAGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCA
TCGAGGCC
Found at i:100000670 original size:12 final size:12
Alignment explanation
Indices: 100000653--100000681 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
100000643 TATTATTTAA
100000653 TTTTAATTTTCC
1 TTTTAATTTTCC
100000665 TTTTAATTTTCC
1 TTTTAATTTTCC
100000677 TTTTA
1 TTTTA
100000682 TATATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTAATTTTCC
Found at i:100003476 original size:18 final size:18
Alignment explanation
Indices: 100003453--100003489 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
100003443 TATTTCCTTG
100003453 GGTATTGTCTTCTCCATC
1 GGTATTGTCTTCTCCATC
100003471 GGTATTGTCTTCTCCATC
1 GGTATTGTCTTCTCCATC
100003489 G
1 G
100003490 CGATCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.27, G:0.19, T:0.43
Consensus pattern (18 bp):
GGTATTGTCTTCTCCATC
Found at i:100005625 original size:18 final size:18
Alignment explanation
Indices: 100005602--100005639 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
100005592 GTATATCAGA
*
100005602 CTGGATTTAGGACTAGAT
1 CTGGATTCAGGACTAGAT
*
100005620 CTGGATTCAGGACTGGAT
1 CTGGATTCAGGACTAGAT
100005638 CT
1 CT
100005640 AAGAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (18 bp):
CTGGATTCAGGACTAGAT
Found at i:100018290 original size:93 final size:93
Alignment explanation
Indices: 100018178--100018349 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
100018168 GCCCATAAGT
* *
100018178 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100018243 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
100018271 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100018336 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
100018350 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:100018345 original size:46 final size:46
Alignment explanation
Indices: 100018170--100018345 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
100018160 TGTAACCCGC
* * *
100018170 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
100018216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
100018266 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
100018309 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
100018346 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:100022488 original size:17 final size:16
Alignment explanation
Indices: 100022437--100022489 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
100022427 TTAAATTTAA
*
100022437 AAAATTATTAAAATCAT
1 AAAATTA-TAAAATTAT
100022454 AAAAATTATAAAAATTAT
1 -AAAATTAT-AAAATTAT
100022472 AAAATTATAAAACTTAT
1 AAAATTATAAAA-TTAT
100022489 A
1 A
100022490 TTAAAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 14 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTATAAAATTAT
Found at i:100022489 original size:9 final size:9
Alignment explanation
Indices: 100022436--100022489 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
100022426 TTTAAATTTA
100022436 AAAAATTAT
1 AAAAATTAT
* *
100022445 TAAAATCAT
1 AAAAATTAT
100022454 AAAAATTAT
1 AAAAATTAT
100022463 AAAAATTAT
1 AAAAATTAT
100022472 -AAAATTAT
1 AAAAATTAT
*
100022480 AAAACTTAT
1 AAAAATTAT
100022489 A
1 A
100022490 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
8 8 0.21
9 31 0.79
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:100022622 original size:9 final size:10
Alignment explanation
Indices: 100022602--100022655 Score: 58
Period size: 9 Copynumber: 5.3 Consensus size: 10
100022592 AAATTTATAA
100022602 TTTTA-AATT
1 TTTTATAATT
100022611 TTTTATAATTTT
1 TTTTATAA--TT
100022623 TTTTATAATTT
1 TTTTATAA-TT
100022634 TTTTATAA-T
1 TTTTATAATT
*
100022643 TTTTATGATT
1 TTTTATAATT
100022653 TTT
1 TTT
100022656 AAATAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 13 0.32
10 6 0.15
11 11 0.28
12 10 0.25
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTATAATT
Found at i:100022625 original size:11 final size:11
Alignment explanation
Indices: 100022609--100022646 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
100022599 TAATTTTAAA
100022609 TTTTTTATAATT
1 TTTTTTATAA-T
100022621 TTTTTTATAAT
1 TTTTTTATAAT
100022632 TTTTTTATAAT
1 TTTTTTATAAT
100022643 TTTT
1 TTTT
100022647 ATGATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:100022626 original size:12 final size:12
Alignment explanation
Indices: 100022609--100022646 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
100022599 TAATTTTAAA
100022609 TTTTTTATAATT
1 TTTTTTATAATT
100022621 TTTTTTATAA-T
1 TTTTTTATAATT
100022632 TTTTTTATAATT
1 TTTTTTATAATT
100022644 TTT
1 TTT
100022647 ATGATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:100022639 original size:23 final size:21
Alignment explanation
Indices: 100022602--100022646 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 21
100022592 AAATTTATAA
100022602 TTTTAAATTTTTTATAATTTT
1 TTTTAAATTTTTTATAATTTT
100022623 TTTTATAATTTTTTTATAATTTT
1 TTTTA-AA-TTTTTTATAATTTT
100022646 T
1 T
100022647 ATGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 5 0.23
22 2 0.09
23 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTAAATTTTTTATAATTTT
Found at i:100022645 original size:20 final size:19
Alignment explanation
Indices: 100022595--100022673 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 19
100022585 TTAACAAAAA
100022595 TTTATAA-TTTTAAA-TTT
1 TTTATAATTTTTAAATTTT
100022612 TTTATAATTTTTTTTATAATTTT
1 TTTATAA---TTTTTA-AATTTT
*
100022635 TTTATAATTTTTATGATTTT
1 TTTATAATTTTTA-AATTTT
** *
100022655 TAAATAATATTTAAATTTT
1 TTTATAATTTTTAAATTTT
100022674 AAAAGGGCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 7 0.14
19 5 0.10
20 22 0.43
21 5 0.10
22 2 0.04
23 10 0.20
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTATAATTTTTAAATTTT
Found at i:100040122 original size:18 final size:19
Alignment explanation
Indices: 100040093--100040128 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
100040083 GTGAAAAAAT
*
100040093 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAATTAAG
100040112 TGAAA-TTAGGGAATTAA
1 TGAAATTTAGGGAATTAA
100040129 TTTAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAATTAAG
Found at i:100046863 original size:47 final size:47
Alignment explanation
Indices: 100046812--100047146 Score: 490
Period size: 47 Copynumber: 7.1 Consensus size: 47
100046802 TCAGGATTTT
* *
100046812 ATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
100046859 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGTCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
100046906 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
100046953 ATATGATGAATATGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
100047000 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* **
100047047 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGTTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
100047094 ATATGATGAATATGAACATACATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
100047141 ATGTGA
1 ATGTGA
100047147 CATATGTATG
Statistics
Matches: 260, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 260 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:100047181 original size:48 final size:48
Alignment explanation
Indices: 100047116--100047250 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
100047106 TGAACATACA
* * * *
100047116 TATATGTGATAAGGCCGAATGGCTAATGTGACATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
100047164 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
100047212 TATGTGTGGTAAAGCCGAATGGTTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
100047251 GGCGATGTGC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:100047503 original size:37 final size:37
Alignment explanation
Indices: 100047397--100047505 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
100047387 GGAAATATAT
* * * *
100047397 TCCGGGTGAGACCTGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
100047434 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
100047471 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
100047506 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:100049124 original size:40 final size:40
Alignment explanation
Indices: 100048773--100049107 Score: 571
Period size: 40 Copynumber: 8.4 Consensus size: 40
100048763 GAGAATTGAG
*
100048773 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* * * *
100048813 AATGATGTATCCGAGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
100048853 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
100048893 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
100048933 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
100048973 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
100049013 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
100049053 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
100049093 AGTGATGTATCCGGG
1 AGTGATGTATCCGGG
100049108 GTAGGTCCCA
Statistics
Matches: 277, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 277 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
Found at i:100053111 original size:47 final size:47
Alignment explanation
Indices: 100053060--100053394 Score: 526
Period size: 47 Copynumber: 7.1 Consensus size: 47
100053050 TTAGGATTTT
*
100053060 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
100053107 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
100053154 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
100053201 ATATGATGAATATGAACATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
100053248 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
100053295 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
100053342 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
100053389 ATGTGA
1 ATGTGA
100053395 CATATGTATG
Statistics
Matches: 266, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 266 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:100053429 original size:48 final size:48
Alignment explanation
Indices: 100053364--100053498 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
100053354 TGAACATGCA
* * * *
100053364 TATATGTGATAAGGCCGAATGGCTAATGTGACATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
100053412 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
100053460 TATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
100053499 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:100053703 original size:37 final size:37
Alignment explanation
Indices: 100053653--100053750 Score: 142
Period size: 37 Copynumber: 2.6 Consensus size: 37
100053643 ATTCCGAGTG
* *
100053653 AGACCCGAAGACTACGTGTGGAGAGTATGTCTGGGTA
1 AGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTA
* *
100053690 AGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTA
* *
100053727 AGACCCGATAACTTCGTGTGGAGA
1 AGACCCGATGACTACGTGTGGAGA
100053751 TTTCGTCTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTA
Found at i:100061172 original size:46 final size:45
Alignment explanation
Indices: 100060786--100061283 Score: 232
Period size: 44 Copynumber: 11.0 Consensus size: 45
100060776 AGCTACAAAT
* * * * **
100060786 TACAAATCTTATCTCCCTAAAGTTGTAG-TGGAGCAAATTAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * * * *
100060830 CACAGATCTTATCTCCCTGAAGTTGCAG-TGGAGTAGATTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * **
100060874 TGGCAAATCTTATCTCTCTGAAGTTGCA-ATAGAGTAGATTAAAGC
1 T-ACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * * * * * *
100060919 TATAAACCTTATCACTCTGAAGTTGCA-ATAGAACAGGTTGAAAT
1 TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * * * * * *
100060963 TACGAGTCTTATTTCTCTGAAGTTGTA-ATAGAGCAGACTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * **
100061007 TAGCGAATCTTATTTCCCTGAAGTTGCAG-TGGAATAGATTAAAGCTACAAA
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATT--A---A-AAA
**
100061058 TTACAAATCTTATCTCCCTGAAGTTGC-GATAGAGCAGATTAAAGC
1 -TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
* *
100061103 TACAAACCTTATCTCCCTGAAGTTGCAG-TGGAGCA-AGTTAAAAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGA-TTAAAAA
* * *
100061147 TAAATAAATCTTATCTCCCTGAAGTTGCAG-CAGAGCAGATTGAAGACAGGC
1 T--ACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATT-AA-A-A--A
* * * * **
100061198 TACAAATCTTATC-CCTCAGAAGTTGTAG-TGGAGTAGATTAAAGC
1 TACAAATCTTATCTCC-CTGAAGTTGCAGATAGAGCAGATTAAAAA
* * * *
100061242 CACAAGTAC-AATCTCCCTGAAGTTGCA-ATAGAGCAGTTTAAA
1 TACAAAT-CTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAA
100061284 GTGACAAATC
Statistics
Matches: 351, Mismatches: 77, Indels: 52
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.00
44 169 0.48
45 71 0.20
46 33 0.09
47 4 0.01
48 5 0.01
49 31 0.09
50 2 0.01
51 33 0.09
52 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (45 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGATAGAGCAGATTAAAAA
Found at i:100061239 original size:95 final size:90
Alignment explanation
Indices: 100061062--100061230 Score: 225
Period size: 90 Copynumber: 1.8 Consensus size: 90
100061052 TACAAATTAC
* *
100061062 AAATCTTATCTCCCTGAAGTTGCGATAGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCGACAGAGCAGATTAAAGCTACAAACCTTATCTCCCAGAAGTT
100061127 GCAGTGGAGCAAGTTAAAAATAAAT
66 GCAGTGGAGCAAGTTAAAAATAAAT
*
100061152 AAATCTTATCTCCCTGAAGTTGC-AGCAGAGCAGATTGAAGACAGGCTACAAATCTTATC-CCTC
1 AAATCTTATCTCCCTGAAGTTGCGA-CAGAGCAGATT--A-A-A-GCTACAAACCTTATCTCC-C
*
100061215 AGAAGTTGTAGTGGAG
59 AGAAGTTGCAGTGGAG
100061231 TAGATTAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
89 1 0.01
90 33 0.49
92 1 0.01
93 1 0.01
94 3 0.04
95 29 0.43
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (90 bp):
AAATCTTATCTCCCTGAAGTTGCGACAGAGCAGATTAAAGCTACAAACCTTATCTCCCAGAAGTT
GCAGTGGAGCAAGTTAAAAATAAAT
Found at i:100065896 original size:48 final size:48
Alignment explanation
Indices: 100065841--100066063 Score: 207
Period size: 48 Copynumber: 4.6 Consensus size: 48
100065831 GAGATATCAA
* *
100065841 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAAATCCCCT
1 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAGATCCCGT
* *
100065889 ATAAGACCATATTTGAGG-TATTGCATCGGCATCAATAA-GAGATCCCGT
1 ATAAGACCATATCTG-GGATATGGCATCGGCATCAA-AATGAGATCCCGT
** * * * * ** *
100065937 ATAAGACCACGTTTGGGACATGGCATTGTCATCAGTATGAGATCCCAT
1 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAGATCCCGT
* * * * * *
100065985 CTAAGACCATATCTGGGATATGACATTGGCATCGATATGAGGTCCCGT
1 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAGATCCCGT
* * * *
100066033 ATAAGACGATGTCTGGGACATAGCATCGGCA
1 ATAAGACCATATCTGGGATATGGCATCGGCA
100066064 CCGTTATGAG
Statistics
Matches: 140, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
47 3 0.02
48 133 0.95
49 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (48 bp):
ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAGATCCCGT
Found at i:100065962 original size:96 final size:96
Alignment explanation
Indices: 100065841--100066063 Score: 243
Period size: 96 Copynumber: 2.3 Consensus size: 96
100065831 GAGATATCAA
** * * *
100065841 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAAATCCCCTATAAGACCATATTTGAG
1 ATAAGACCACGTCTGGGACATGGCATCGGCATCAAAATGAAATCCCATATAAGACCATATCTG-G
100065906 G-TATTG-CATCGGCATCAATAAGAGATCCCGT
65 GATA-TGACATCGGCATCAATAAGAGATCCCGT
* * * ** * *
100065937 ATAAGACCACGTTTGGGACATGGCATTGTCATCAGTATGAGATCCCATCTAAGACCATATCTGGG
1 ATAAGACCACGTCTGGGACATGGCATCGGCATCAAAATGAAATCCCATATAAGACCATATCTGGG
* * * *
100066002 ATATGACATTGGCATCGATATGAGGTCCCGT
66 ATATGACATCGGCATCAATAAGAGATCCCGT
* * *
100066033 ATAAGACGATGTCTGGGACATAGCATCGGCA
1 ATAAGACCACGTCTGGGACATGGCATCGGCA
100066064 CCGTTATGAG
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
95 4 0.04
96 99 0.96
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (96 bp):
ATAAGACCACGTCTGGGACATGGCATCGGCATCAAAATGAAATCCCATATAAGACCATATCTGGG
ATATGACATCGGCATCAATAAGAGATCCCGT
Found at i:100066072 original size:96 final size:95
Alignment explanation
Indices: 100065841--100066097 Score: 239
Period size: 96 Copynumber: 2.7 Consensus size: 95
100065831 GAGATATCAA
** * * ** * * * *
100065841 ATAAGACCATATCTGGGATATGGCATCGGCATCAAAATGAAATCCCCTATAAGACCATATTTGAG
1 ATAAGACCACGTCTGGGACATAGCATCGGCATCAGTATGAGATCCCATCTAAGACCATATCTG-G
100065906 GTATTGCATCGGCATCAATAAGAGATCCCGT
65 GTATTGCATCGGCATCAATAAGAGATCCCGT
* * * *
100065937 ATAAGACCACGTTTGGGACATGGCATTGTCATCAGTATGAGATCCCATCTAAGACCATATCTGGG
1 ATAAGACCACGTCTGGGACATAGCATCGGCATCAGTATGAGATCCCATCTAAGACCATATCTGGG
* * * *
100066002 -ATATGACATTGGCATCGATATGAGGTCCCGT
66 TAT-TG-CATCGGCATCAATAAGAGATCCCGT
* * * ** * *
100066033 ATAAGACGATGTCTGGGACATAGCATCGGCA-CCGTTATGAGATTTCATGTAAGACCATAGCTGG
1 ATAAGACCACGTCTGGGACATAGCATCGGCATCAG-TATGAGATCCCATCTAAGACCATATCTGG
100066097 G
65 G
100066098 CTATAGGCTT
Statistics
Matches: 131, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
94 2 0.02
95 6 0.05
96 123 0.94
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (95 bp):
ATAAGACCACGTCTGGGACATAGCATCGGCATCAGTATGAGATCCCATCTAAGACCATATCTGGG
TATTGCATCGGCATCAATAAGAGATCCCGT
Found at i:100067364 original size:27 final size:27
Alignment explanation
Indices: 100067316--100067474 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
100067306 GCGAGGCTGC
* *
100067316 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
100067343 CAGATATTGCGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
100067369 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
100067396 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
100067423 CAGATATATGTGGTAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
100067450 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
100067475 GAAGCTTCCT
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
26 9 0.08
27 94 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:100067416 original size:54 final size:54
Alignment explanation
Indices: 100067334--100067474 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
100067324 GTGACGAAGT
* * *
100067334 CACCAGATACAGAT-ATTGCGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
100067388 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
100067442 CACCAAATCAAATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
100067475 GAAGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:100067875 original size:8 final size:8
Alignment explanation
Indices: 100067864--100067893 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
100067854 CTCAAAATAC
100067864 CGGCTTTT
1 CGGCTTTT
*
100067872 CGGCATTT
1 CGGCTTTT
100067880 CGGCTTTT
1 CGGCTTTT
100067888 CGGCTT
1 CGGCTT
100067894 GTGCTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Done.