Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 107 of 186
Found at i:35272468 original size:32 final size:32
Alignment explanation
Indices: 35272427--35272488 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
35272417 CATCTATTTT
35272427 CATTGTTCAACTATTTGACAACACGAAAAATC
1 CATTGTTCAACTATTTGACAACACGAAAAATC
* *
35272459 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTATTTGACAACACGAAAAA
35272489 ACCAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTATTTGACAACACGAAAAATC
Found at i:35286136 original size:22 final size:21
Alignment explanation
Indices: 35286107--35286150 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
35286097 TACTTGGTAG
* * *
35286107 TACAAATTGAAATTACATAAT
1 TACAAATTAAAATCAAATAAT
35286128 TACATAATTAAAATCAAATAAT
1 TACA-AATTAAAATCAAATAAT
35286150 T
1 T
35286151 GTTTACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAAATTAAAATCAAATAAT
Found at i:35290585 original size:39 final size:39
Alignment explanation
Indices: 35290540--35290621 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
35290530 AAGCAAGACA
*
35290540 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
* *
35290579 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
35290618 CTGG
1 CTGG
35290622 TAACATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
Found at i:35294133 original size:34 final size:34
Alignment explanation
Indices: 35294079--35294144 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
35294069 TTAGCCCCTC
* *
35294079 TTTCAGTAGCAGTAGCAGTCTGAGCCTAAGCCTA
1 TTTCAGTAACACTAGCAGTCTGAGCCTAAGCCTA
* * *
35294113 TTTCAGTAACACTAGTAGTCTGGGCCTTAGCC
1 TTTCAGTAACACTAGCAGTCTGAGCCTAAGCC
35294145 CAATTTAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (34 bp):
TTTCAGTAACACTAGCAGTCTGAGCCTAAGCCTA
Found at i:35313563 original size:48 final size:47
Alignment explanation
Indices: 35313489--35313611 Score: 132
Period size: 47 Copynumber: 2.6 Consensus size: 47
35313479 GTGTGCTAGC
*
35313489 GTAAGA-CATGTCTAAGG-CATGCATCGGCCACATT-ATGAGAGCTAAT
1 GTAAGACCATGTCT-GGGACATGCATCGGCC-CATTGATGAGAGCTAAT
* *
35313535 GTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGATGAGATCTAGT
1 GTAAGACCATGTCTGGGACAT-GCATCGGCCCATT--GATGAGAGCTAAT
35313583 GTAAG-CCATGTCTGGGACATGCATCGGCC
1 GTAAGACCATGTCTGGGACATGCATCGGCC
35313612 TCGAGATCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
45 4 0.06
46 15 0.23
47 25 0.38
48 22 0.33
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGCATCGGCCCATTGATGAGAGCTAAT
Found at i:35313630 original size:46 final size:46
Alignment explanation
Indices: 35313523--35313755 Score: 145
Period size: 46 Copynumber: 5.0 Consensus size: 46
35313513 CGGCCACATT
* * *
35313523 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAG-CCATGTCTGGGACAT-GCATCGGCATCGAG
* * *
35313571 ATGAGATCTAGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGCCATGTCTGGGACATGCATCGGCATCGAG
* * * * *
35313617 ATCTA-AGCCAGTGTAAGACTTGCCTGGGACATGCATC-GAATACGAG
1 AT-GAGAGCCAGTGTAAGCCATGTCTGGGACATGCATCGGCAT-CGAG
* * * * ** *
35313663 AT--GTGTC-GTGTAAGCCAATGTCTAGGACATGGCATTGAAACCAGTAG
1 ATGAGAGCCAGTGTAAGCC-ATGTCTGGGACAT-GCATCGGCATC-G-AG
* * *
35313710 ATGAAAACCAGTGTAAGACC-TGTCTGGGACATGGCATCGGCCTCGA
1 ATGAGAGCCAGTGTAAG-CCATGTCTGGGACAT-GCATCGGCATCGA
35313756 TATATGAAAG
Statistics
Matches: 142, Mismatches: 31, Indels: 25
0.72 0.16 0.13
Matches are distributed among these distances:
43 8 0.06
44 12 0.08
45 7 0.05
46 50 0.35
47 21 0.15
48 16 0.11
49 19 0.13
50 7 0.05
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
ATGAGAGCCAGTGTAAGCCATGTCTGGGACATGCATCGGCATCGAG
Found at i:35313833 original size:97 final size:97
Alignment explanation
Indices: 35313717--35313944 Score: 417
Period size: 97 Copynumber: 2.4 Consensus size: 97
35313707 TAGATGAAAA
35313717 CCAGTGT-AA-GACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCA
1 CCAGTGTAAATGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCA
35313780 ATTTGGGACATGGCATCGACTTGATGGATAAG
66 ATTTGGGACATGGCATCGACTTGATGGATAAG
35313812 CCAGTGTAAATGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCA
1 CCAGTGTAAATGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCA
35313877 ATTTGGGACATGGCATCGACTTGATGGATAAG
66 ATTTGGGACATGGCATCGACTTGATGGATAAG
*
35313909 CCAGTGTAAAT-ACCATGTCTAGGACATGGCATCGGC
1 CCAGTGTAAATGACC-TGTCTGGGACATGGCATCGGC
35313945 ATTATACCCT
Statistics
Matches: 129, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
95 7 0.05
96 5 0.04
97 117 0.91
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (97 bp):
CCAGTGTAAATGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCA
ATTTGGGACATGGCATCGACTTGATGGATAAG
Found at i:35313845 original size:48 final size:47
Alignment explanation
Indices: 35313534--35313942 Score: 216
Period size: 49 Copynumber: 8.6 Consensus size: 47
35313524 TGAGAGCTAA
* * * * *
35313534 TGTAAGACCATGTCTGGGACATGGCATCGGCATTG--AGATGAGATCTAG
1 TGTAAGACC-TGTCTGGGACATGGCATCGAC-TCGATAGAT-AAAGCCAG
* *
35313582 TGTAAG-CCATGTCTGGGACAT-GCATCGGCCTCG--AGATCTAAGCCAG
1 TGTAAGACC-TGTCTGGGACATGGCATC-GACTCGATAGAT-AAAGCCAG
* * * ** *
35313628 TGTAAGACTTGCCTGGGACAT-GCATCGAATACG--AGAT-GTGTC-G
1 TGTAAGACCTGTCTGGGACATGGCATCGACT-CGATAGATAAAGCCAG
* * ** * *
35313671 TGTAAG-CCAATGTCTAGGACATGGCATTGAAACCAGTAGATGAAAACCAG
1 TGTAAGACC--TGTCTGGGACATGGCATCGACTCGA-TAGAT-AAAGCCAG
* * *
35313721 TGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATC-GACTCGATAGAT-AAAGCCAG
** * * *
35313770 TGTAAGACCAATTTGGGACATGGCATCGACTTGATGGAT-AAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACTCGATAGATAAAGCCAG
* * *
35313816 TGTAAATGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAG
1 TGT-AA-GACCTGTCTGGGACATGGCATC-GACTCGATAGAT-AAAGCCAG
** * * *
35313867 TGTAAGACCAATTTGGGACATGGCATCGACTTGATGGAT-AAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACTCGATAGATAAAGCCAG
* *
35313913 TGTAAATACCATGTCTAGGACATGGCATCG
1 TGT-AAGACC-TGTCTGGGACATGGCATCG
35313943 GCATTATACC
Statistics
Matches: 278, Mismatches: 62, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.00
43 7 0.03
44 13 0.05
45 9 0.03
46 61 0.22
47 29 0.10
48 56 0.20
49 79 0.28
50 12 0.04
51 11 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACTCGATAGATAAAGCCAG
Found at i:35315929 original size:68 final size:66
Alignment explanation
Indices: 35315856--35316005 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
35315846 CATCATGTGT
* * * *
35315856 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
35315919 TGTAG
62 TGTAG
** * *
35315924 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
35315989 AG
65 AG
35315991 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
35316006 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:35315961 original size:64 final size:64
Alignment explanation
Indices: 35315880--35316063 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
35315870 AGACATTATG
* * *
35315880 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
35315944 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35316009 AA
63 AA
* * *
35316011 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
35316064 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35321116 original size:13 final size:13
Alignment explanation
Indices: 35321100--35321132 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35321090 TTTAATTAAA
*
35321100 TTAGTTAACTAGT
1 TTAGATAACTAGT
35321113 TTAGATAACTAGT
1 TTAGATAACTAGT
35321126 TTA-ATAA
1 TTAGATAA
35321133 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (13 bp):
TTAGATAACTAGT
Found at i:35326320 original size:14 final size:14
Alignment explanation
Indices: 35326296--35326334 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
35326286 CGAATCCTCC
*
35326296 TATTTTTTTTATTT
1 TATTTTATTTATTT
*
35326310 TCTTTTATTTATTT
1 TATTTTATTTATTT
35326324 TATTCTTATTT
1 TATT-TTATTT
35326335 TTCTTTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTATTTATTT
Found at i:35329034 original size:13 final size:13
Alignment explanation
Indices: 35329018--35329050 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35329008 TTTAATTAAA
*
35329018 TTAGTTAATTAGT
1 TTAGATAATTAGT
35329031 TTAGATAATTAGT
1 TTAGATAATTAGT
35329044 TTA-ATAA
1 TTAGATAA
35329051 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:35329439 original size:42 final size:42
Alignment explanation
Indices: 35329369--35329486 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
35329359 TTTTATAGGC
** **
35329369 TGTGTATCAGTGAAGCTCCCCACATGAGCTTAAGTGATAAGT
1 TGTGTATCAGCAAAGCTCCCCATGTGAGCTTAAGTGATAAGT
*
35329411 TGTGTATCAGCAAAGC-CCTCTATGTGAGCTTAAGTGATAAGT
1 TGTGTATCAGCAAAGCTCC-CCATGTGAGCTTAAGTGATAAGT
*
35329453 TGTGTATCAGCAAAGCTCCCCATGTGAGTTTAAG
1 TGTGTATCAGCAAAGCTCCCCATGTGAGCTTAAG
35329487 GTACAAGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.03
42 63 0.94
43 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTGTATCAGCAAAGCTCCCCATGTGAGCTTAAGTGATAAGT
Found at i:35331767 original size:43 final size:42
Alignment explanation
Indices: 35331709--35331796 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
35331699 TTCGTGATAT
* *
35331709 ATGTAGCATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGG
1 ATGTAGCATCCGAGCTCGTTGAGTGGTACGAGTTCATAATGG
*
35331751 ATGTGAGCATCCGAGCTCGTTGAGTGGTATGAGTTCATAATGG
1 ATGT-AGCATCCGAGCTCGTTGAGTGGTACGAGTTCATAATGG
35331794 ATG
1 ATG
35331797 CGATACATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.31
Consensus pattern (42 bp):
ATGTAGCATCCGAGCTCGTTGAGTGGTACGAGTTCATAATGG
Found at i:35333837 original size:18 final size:17
Alignment explanation
Indices: 35333781--35333844 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
35333771 GTCTTATTAC
*
35333781 ATGCGAACCCTAAAAAAT
1 ATGCGAACCC-ATAAAAT
* **
35333799 ATGCGAACCTATACATGT
1 ATGCGAACCCATA-AAAT
35333817 ATGCGAACCCATGAAAAT
1 ATGCGAACCCAT-AAAAT
*
35333835 ATGCTAACCC
1 ATGCGAACCC
35333845 CACCAACGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 2 0.06
18 33 0.92
19 1 0.03
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (17 bp):
ATGCGAACCCATAAAAT
Found at i:35334472 original size:23 final size:24
Alignment explanation
Indices: 35334409--35334472 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
35334399 GATAAATTTT
* * *
35334409 CCAGAATGTGGTGAAGTGTGTTCG
1 CCAGAATATGGCGAAGTGTGTTCA
* *
35334433 CCAGAATATGGCAAAGTGTGTTTA
1 CCAGAATATGGCGAAGTGTGTTCA
*
35334457 CCAG-ATTTGGCGAAGT
1 CCAGAATATGGCGAAGT
35334473 AGGCTTGCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (24 bp):
CCAGAATATGGCGAAGTGTGTTCA
Found at i:35340248 original size:40 final size:40
Alignment explanation
Indices: 35340150--35340412 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
35340140 TCCTCGTTCA
* * * * *
35340150 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35340189 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35340229 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35340269 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35340309 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35340349 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35340389 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35340413 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35345609 original size:40 final size:39
Alignment explanation
Indices: 35345511--35345773 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
35345501 TCCTCGTTCA
* * * *
35345511 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35345550 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35345589 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35345629 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
35345669 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35345709 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35345750 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35345774 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35345733 original size:120 final size:119
Alignment explanation
Indices: 35345511--35345773 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
35345501 TCCTCGTTCA
* * *
35345511 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
35345576 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
35345629 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
35345694 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
35345750 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35345774 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:35345782 original size:41 final size:41
Alignment explanation
Indices: 35345705--35345782 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35345695 TTTGTATCTC
* * *
35345705 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35345746 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35345783 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35353559 original size:40 final size:39
Alignment explanation
Indices: 35353461--35353723 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
35353451 TCCTCGTTCA
* * * *
35353461 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35353500 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35353539 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35353579 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
35353619 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35353659 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35353700 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35353724 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35353683 original size:120 final size:119
Alignment explanation
Indices: 35353461--35353723 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
35353451 TCCTCGTTCA
* * *
35353461 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
35353526 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
35353579 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
35353644 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
35353700 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35353724 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:35353732 original size:41 final size:41
Alignment explanation
Indices: 35353655--35353732 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35353645 TTTGTATCTC
* * *
35353655 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35353696 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35353733 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35355834 original size:18 final size:18
Alignment explanation
Indices: 35355811--35355846 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35355801 AAAGCATCTA
35355811 CGTTGACACAACCAGTAT
1 CGTTGACACAACCAGTAT
35355829 CGTTGACACAACCAGTAT
1 CGTTGACACAACCAGTAT
35355847 TGAAAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (18 bp):
CGTTGACACAACCAGTAT
Found at i:35362921 original size:41 final size:41
Alignment explanation
Indices: 35362876--35362976 Score: 193
Period size: 41 Copynumber: 2.5 Consensus size: 41
35362866 TGCGGATTCT
35362876 CATCAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCATGAC
1 CATCAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCATGAC
35362917 CATCAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCATGAC
1 CATCAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCATGAC
*
35362958 CATCATCTTGTGTGAGCAG
1 CATCAGCTTGTGTGAGCAG
35362977 ACCCGTTGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (41 bp):
CATCAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCATGAC
Found at i:35372742 original size:111 final size:111
Alignment explanation
Indices: 35372540--35372751 Score: 264
Period size: 111 Copynumber: 1.9 Consensus size: 111
35372530 TAATAGTTGG
* * *
35372540 TATGGTTTCTGACTCTTTTTTTTTTTATGCTGGATGAATATTTTCCTATACTGAGCCGTGCTTAA
1 TATGGTTTCTGACTCTTTTTTTTTTTATGCTGAATGAATAATTTCCTATACTGAACCGTGCTTAA
* * * *
35372605 ATACATGACTCTGTTTAATGGTTTATTTTTTAATTGTTGTGATTGA
66 ATACATCACTATGTTTAATGGGTTATTTTTGAATTGTTGTGATTGA
* * * **
35372651 TATGGTTTCTGAC-CTTTTTTTTTGTTATGTTTAATGAATAATTTCGTATACTGAATTGTGCTTA
1 TATGGTTTCTGACTCTTTTTTTTT-TTATGCTGAATGAATAATTTCCTATACTGAACCGTGCTTA
* ** *
35372715 AATACGTCTTTATGTTTGATGGGTTATTTTTGAATTG
65 AATACATCACTATGTTTAATGGGTTATTTTTGAATTG
35372752 GTTGGTATGG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
110 10 0.12
111 74 0.88
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.51
Consensus pattern (111 bp):
TATGGTTTCTGACTCTTTTTTTTTTTATGCTGAATGAATAATTTCCTATACTGAACCGTGCTTAA
ATACATCACTATGTTTAATGGGTTATTTTTGAATTGTTGTGATTGA
Found at i:35378093 original size:6 final size:6
Alignment explanation
Indices: 35378084--35378118 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
35378074 TTTGGGTTTG
*
35378084 GATTTC GATTTC GATTTC GATTTC GATTTG GATTT
1 GATTTC GATTTC GATTTC GATTTC GATTTC GATTT
35378119 GAATTTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.51
Consensus pattern (6 bp):
GATTTC
Found at i:35378119 original size:6 final size:6
Alignment explanation
Indices: 35378074--35378142 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
35378064 GGGATTAGGG
* * * * * *
35378074 TTTGGG TTTGGA TTTCGA TTTCGA TTTCGA TTTCGA TTTGGA TTTGAA
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA
* * *
35378122 TTTGAA TTTTGA TTTTGA TTT
1 TTTGGA TTTGGA TTTGGA TTT
35378143 TTGGGGATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.55
Consensus pattern (6 bp):
TTTGGA
Found at i:35378461 original size:23 final size:20
Alignment explanation
Indices: 35378434--35378485 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
35378424 TTATTATAAG
35378434 TAATTTTATAAAAAATCAATTA
1 TAATTTTATAAAAAA-C-ATTA
*
35378456 TTAA-TTTATTAAAAACATTA
1 -TAATTTTATAAAAAACATTA
35378476 TAATTGTTAT
1 TAATT-TTAT
35378486 GAATATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 5 0.19
21 5 0.19
22 10 0.38
23 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
TAATTTTATAAAAAACATTA
Found at i:35378875 original size:5 final size:5
Alignment explanation
Indices: 35378861--35378907 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
35378851 TTGTGTGTTC
35378861 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
35378908 TCATAAATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:35383300 original size:5 final size:5
Alignment explanation
Indices: 35383290--35383321 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
35383280 TTGTGTGTTC
35383290 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
35383322 TCACATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:35383304 original size:9 final size:9
Alignment explanation
Indices: 35383290--35383320 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
35383280 TTGTGTGTTC
35383290 TTTATTTTA
1 TTTATTTTA
35383299 TTTATTTTA
1 TTTATTTTA
35383308 TTTTATTTTA
1 -TTTATTTTA
35383318 TTT
1 TTT
35383321 TTCACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:35384542 original size:23 final size:23
Alignment explanation
Indices: 35384515--35384560 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35384505 ATATGTTGAA
35384515 TAAAACCTGTACATGTTTTACAT
1 TAAAACCTGTACATGTTTTACAT
35384538 TAAAACCTGTACATGTTTTACAT
1 TAAAACCTGTACATGTTTTACAT
35384561 ATAGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
TAAAACCTGTACATGTTTTACAT
Found at i:35388059 original size:32 final size:32
Alignment explanation
Indices: 35388018--35388085 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
35388008 GTGAGCTAAG
35388018 ATATATGAATTATGATTATAAATTTTGTTGCA
1 ATATATGAATTATGATTATAAATTTTGTTGCA
35388050 ATATATGAATTATGATTATAAATTTTGTTGCA
1 ATATATGAATTATGATTATAAATTTTGTTGCA
35388082 ATAT
1 ATAT
35388086 CATGTTAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (32 bp):
ATATATGAATTATGATTATAAATTTTGTTGCA
Found at i:35388827 original size:31 final size:31
Alignment explanation
Indices: 35388792--35388853 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
35388782 AAGCTTGTTG
35388792 GCATAGTGTTTATTATTTTCATATGGACTTA
1 GCATAGTGTTTATTATTTTCATATGGACTTA
35388823 GCATAGTGTTTATTATTTTCATATGGACTTA
1 GCATAGTGTTTATTATTTTCATATGGACTTA
35388854 CTAAGCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (31 bp):
GCATAGTGTTTATTATTTTCATATGGACTTA
Found at i:35394636 original size:22 final size:23
Alignment explanation
Indices: 35394611--35394654 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
35394601 GAAAATTTTG
35394611 AATTTTAATTAATTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
35394633 AATTTTGATTAATTTTGATAAT
1 AATTTTAATTAATTTTGATAAT
35394655 TTTTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:35394667 original size:20 final size:20
Alignment explanation
Indices: 35394611--35394661 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35394601 GAAAATTTTG
* *
35394611 AATTTTAATTAATTTTATAATA
1 AATTTTGATTAA-TTT-TGATA
35394633 AATTTTGATTAATTTTGATA
1 AATTTTGATTAATTTTGATA
*
35394653 ATTTTTGAT
1 AATTTTGAT
35394662 AGATTTGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.46
21 3 0.12
22 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
AATTTTGATTAATTTTGATA
Found at i:35398456 original size:46 final size:46
Alignment explanation
Indices: 35398307--35398523 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 46
35398297 TGTGAGTGCT
* ** * * *
35398307 AGTGTAAGACATGTCTAGGACATGCATCGGCC-ACATTATGGAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTAAGCC
** * * *
35398353 AGTGTAAGAGCATGTCTGGGACATGGCATCGGTATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGTA-AGCC
*
35398401 AGTGCAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
* *
35398447 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATAA-TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATG-TAAGCC
35398493 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35398524 AAACCTTACC
Statistics
Matches: 145, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 70 0.48
47 46 0.32
48 26 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
Found at i:35398523 original size:94 final size:94
Alignment explanation
Indices: 35398306--35398523 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 94
35398296 TTGTGAGTGC
* * *
35398306 TAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGAGCATGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCCAGTGTAAGAGCATGTCTG
* **
35398371 GGACATGGCATCGGTATTGAGACGAGTGC
66 GGACATGGCATCGGTATCGAGACGAGTAA
* ** *
35398400 TAGTGCAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTAAGCCAGTGTAAGA-CATGTCT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATGATGGAAGCCAGTGTAAGAGCATGTCT
*
35398463 GGGACAT-GCATCGGCTA-CGAGATGA-TAA
65 GGGACATGGCATCGG-TATCGAGACGAGTAA
35398491 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35398524 AAACCTTACC
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
91 2 0.02
92 21 0.20
93 30 0.28
94 53 0.50
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCCAGTGTAAGAGCATGTCTG
GGACATGGCATCGGTATCGAGACGAGTAA
Found at i:35409843 original size:15 final size:15
Alignment explanation
Indices: 35409821--35409855 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
35409811 GAAAATAGAA
35409821 TTGG-AGAATTACTT
1 TTGGAAGAATTACTT
35409835 TTGGAAGAATTACTT
1 TTGGAAGAATTACTT
35409850 TTGGAA
1 TTGGAA
35409856 AAACGATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (15 bp):
TTGGAAGAATTACTT
Found at i:35411071 original size:52 final size:54
Alignment explanation
Indices: 35410968--35411077 Score: 152
Period size: 52 Copynumber: 2.1 Consensus size: 54
35410958 CGTACATTGG
35410968 CCTATTTTCTCCGTTTTTGGCCCGTTTCCCGTTCCTTTCGCTCTCCCATGCTCA
1 CCTATTTTCTCCGTTTTTGGCCCGTTTCCCGTTCCTTTCGCTCTCCCATGCTCA
* ** * * *
35411022 CCTATTTTCTCTG-TTTTGGCGTGTTTCTCGTT-CTTTCGCTCTCCTATGCTTA
1 CCTATTTTCTCCGTTTTTGGCCCGTTTCCCGTTCCTTTCGCTCTCCCATGCTCA
35411074 CCTA
1 CCTA
35411078 AGTATAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 22 0.44
53 16 0.32
54 12 0.24
ACGTcount: A:0.06, C:0.34, G:0.14, T:0.46
Consensus pattern (54 bp):
CCTATTTTCTCCGTTTTTGGCCCGTTTCCCGTTCCTTTCGCTCTCCCATGCTCA
Found at i:35415717 original size:46 final size:46
Alignment explanation
Indices: 35415664--35415792 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 46
35415654 TCTTGTGTGT
*
35415664 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATG-GA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC--TAAGAGAGA
* * *
35415710 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCACTAAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACTAAGA-GAGA
35415758 GCTAGTGTAAGACATGTCTGGGACATGCATCGACC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACC
35415793 TCGAGATGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.04
46 17 0.24
47 34 0.48
48 17 0.24
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACTAAGAGAGA
Found at i:35415816 original size:46 final size:48
Alignment explanation
Indices: 35415667--35415883 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 48
35415657 TGTGTGTGCT
** * *
35415667 AGTGTAAGACATGTCTGGGACATGCATCGACC-AC-ATTATGGAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTACGACGATGTAAGCC
* * *
35415713 AGTGTAAGACCATGTTTGGGACATGGCATC-AGCACTAAGACGA-GT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGA-C-CTACGACGATGTAAGCC
35415761 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTACGACGATGTAAGCC
* * * * * * *
35415807 AATGTAAGACATGTTTGGAACATGTATCG-GCTATGA-GATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTACGACGATGTA-AGCC
*
35415853 AGTATAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35415884 GGACCTTACC
Statistics
Matches: 137, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 4 0.03
45 5 0.04
46 58 0.42
47 40 0.29
48 23 0.17
49 1 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTACGACGATGTAAGCC
Found at i:35427671 original size:27 final size:26
Alignment explanation
Indices: 35427640--35427808 Score: 128
Period size: 27 Copynumber: 6.3 Consensus size: 26
35427630 TATCGTTAAG
35427640 ACCCCTGATTTGTGAAATTA-TCGAAAT
1 ACCCCTGATTTGT-AAATTACT-GAAAT
* **
35427667 ACCCCAGGGTTGTAAACTTACTGAAAT
1 ACCCCTGATTTGTAAA-TTACTGAAAT
* *
35427694 ACCCCTGATTTGCGAAATTACCGAAAT
1 ACCCCTGATTTG-TAAATTACTGAAAT
** *
35427721 A-CCCTCGGGTTGTAAACTTACTAAAAT
1 ACCCCT-GATTTGTAAA-TTACTGAAAT
*
35427748 ACCCCTGATTTGTAAAATTACTAAAAT
1 ACCCCTGATTTGT-AAATTACTGAAAT
** *
35427775 ACCCCCAATTTGCAAAATTA-TCGAAAT
1 ACCCCTGATTTG-TAAATTACT-GAAAT
35427802 ACCCCTG
1 ACCCCTG
35427809 TAGGGTAGGA
Statistics
Matches: 112, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.10
27 90 0.80
28 11 0.10
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (26 bp):
ACCCCTGATTTGTAAATTACTGAAAT
Found at i:35427722 original size:54 final size:53
Alignment explanation
Indices: 35427640--35427779 Score: 208
Period size: 54 Copynumber: 2.6 Consensus size: 53
35427630 TATCGTTAAG
* *
35427640 ACCCCTGATTTGTGAAATTATCGAAATACCCCAGGGTTGTAAACTTACTGAAAT
1 ACCCCTGATTTGTGAAATTACCGAAATACCCC-GGGTTGTAAACTTACTAAAAT
*
35427694 ACCCCTGATTTGCGAAATTACCGAAATACCCTCGGGTTGTAAACTTACTAAAAT
1 ACCCCTGATTTGTGAAATTACCGAAATACCC-CGGGTTGTAAACTTACTAAAAT
* **
35427748 ACCCCTGATTTGTAAAATTACTAAAATACCCC
1 ACCCCTGATTTGTGAAATTACCGAAATACCCC
35427780 CAATTTGCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 76 0.97
55 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (53 bp):
ACCCCTGATTTGTGAAATTACCGAAATACCCCGGGTTGTAAACTTACTAAAAT
Found at i:35427855 original size:27 final size:27
Alignment explanation
Indices: 35427825--35427876 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
35427815 AGGATTACTG
35427825 TAATACCCCTATAGGGAAAAATGACTA
1 TAATACCCCTATAGGGAAAAATGACTA
* *
35427852 TAATACCCCTATATGGTAAAATGAC
1 TAATACCCCTATAGGGAAAAATGAC
35427877 GATTATGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (27 bp):
TAATACCCCTATAGGGAAAAATGACTA
Found at i:35428081 original size:27 final size:25
Alignment explanation
Indices: 35428013--35428082 Score: 61
Period size: 27 Copynumber: 2.6 Consensus size: 25
35428003 ATGGAGGAAG
* *
35428013 TACTGTACTGGTGACTATGTCAAAT
1 TACTGTACTAGTGGCTATGTCAAAT
*
35428038 TCACTGTTA-TTGATGGCTATGTCACAAT
1 T-ACTG-TACTAG-TGGCTATGTCA-AAT
35428066 TACTGATACTAGTGGCT
1 TACTG-TACTAGTGGCT
35428083 TTGCCACATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
25 1 0.03
26 6 0.17
27 23 0.64
28 6 0.17
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (25 bp):
TACTGTACTAGTGGCTATGTCAAAT
Found at i:35428293 original size:33 final size:33
Alignment explanation
Indices: 35428256--35428318 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
35428246 CTTAGGCCCA
*
35428256 CACTGTTACTGTATAGGGCTAAGGCCCAGATTG
1 CACTGATACTGTATAGGGCTAAGGCCCAGATTG
*
35428289 CACTGATACTGTATAGGGTTAAGGCCCAGA
1 CACTGATACTGTATAGGGCTAAGGCCCAGA
35428319 CTGTGAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (33 bp):
CACTGATACTGTATAGGGCTAAGGCCCAGATTG
Found at i:35430772 original size:13 final size:13
Alignment explanation
Indices: 35430751--35430794 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
35430741 AAAGGTTATA
* *
35430751 GAGTAGACAATCT
1 GAGTCGACAATCC
35430764 GAGTCGACAATCC
1 GAGTCGACAATCC
*
35430777 CAGTCGACAATTCC
1 GAGTCGACAA-TCC
35430791 GAGT
1 GAGT
35430795 ATGAGGTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (13 bp):
GAGTCGACAATCC
Found at i:35435322 original size:333 final size:333
Alignment explanation
Indices: 35434710--35435342 Score: 1160
Period size: 333 Copynumber: 1.9 Consensus size: 333
35434700 GTCATAAAAC
*
35434710 ATAATGATTTTGGAAAAAAAATTAATTTTTGAGCTTTGGGGCAAAAGTGTAAATATGCAAAAGTT
1 ATAATAATTTTGGAAAAAAAATTAATTTTTGAGCTTTGGGGCAAAAGTGTAAATATGCAAAAGTT
35434775 TAGGGGCAAAATTATAATTTTTCCAAAGTGAGTTAAGGACTATTTTGATAAATGTGAGTATTAAA
66 TAGGGGCAAAATTATAATTTTTCCAAAGTGAGTTAAGGACTATTTTGATAAATGTGAGTATTAAA
* *
35434840 TCAGCTAAATGTGTTATTTGAGACCAAGAAAGACGTTGAATCAACCTTGATCTGGGAAAGGAAAA
131 TCAACAAAATGTGTTATTTGAGACCAAGAAAGACGTTGAATCAACCTTGATCTGGGAAAGGAAAA
35434905 GATTGTGGACTAAATTGCAAAATTTCTTTATTTTGTACCTAGGTAAGTTCAAGTGCAAATGTAGT
196 GATTGTGGACTAAATTGCAAAATTTCTTTATTTTGTACCTAGGTAAGTTCAAGTGCAAATGTAGT
35434970 AACATAATTATCATTTTAAGTAATTTAATGTTATTTATATTATACTTTGTGATATGATAATTTAA
261 AACATAATTATCATTTTAAGTAATTTAATGTTATTTATATTATACTTTGTGATATGATAATTTAA
35435035 TGTTATTT
326 TGTTATTT
35435043 ATAATAATTTTGGAAAAAAAATATAATTTTTGAGCTTTGGGGCAAAAGTGTAAATATGCAAAAGT
1 ATAATAATTTTGGAAAAAAAAT-TAATTTTTGAGCTTTGGGGCAAAAGTGTAAATATGCAAAAGT
* *
35435108 TTAGGGGTAAAATTGTAA-TTTTCCAAAGTGAGTTAAGGACTATTTTGATAAATGTGAGTATTAA
65 TTAGGGGCAAAATTATAATTTTTCCAAAGTGAGTTAAGGACTATTTTGATAAATGTGAGTATTAA
* *
35435172 ATCAACAAAATGTGTTATTTTAGACCAAGAAAGACGTTGAATCAACCTTGATCTGGTAAAGGAAA
130 ATCAACAAAATGTGTTATTTGAGACCAAGAAAGACGTTGAATCAACCTTGATCTGGGAAAGGAAA
* *
35435237 AGATTGTGGACTAAATTGCAAAATTTCTTTATTTTGTACCTAGGTAAGTTCAGGTGTAAATGTAG
195 AGATTGTGGACTAAATTGCAAAATTTCTTTATTTTGTACCTAGGTAAGTTCAAGTGCAAATGTAG
*
35435302 TAACATAATTATCATTTTAAGTAATTTATTGTTATTTATAT
260 TAACATAATTATCATTTTAAGTAATTTAATGTTATTTATAT
35435343 GATATGATGA
Statistics
Matches: 289, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
333 231 0.80
334 58 0.20
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (333 bp):
ATAATAATTTTGGAAAAAAAATTAATTTTTGAGCTTTGGGGCAAAAGTGTAAATATGCAAAAGTT
TAGGGGCAAAATTATAATTTTTCCAAAGTGAGTTAAGGACTATTTTGATAAATGTGAGTATTAAA
TCAACAAAATGTGTTATTTGAGACCAAGAAAGACGTTGAATCAACCTTGATCTGGGAAAGGAAAA
GATTGTGGACTAAATTGCAAAATTTCTTTATTTTGTACCTAGGTAAGTTCAAGTGCAAATGTAGT
AACATAATTATCATTTTAAGTAATTTAATGTTATTTATATTATACTTTGTGATATGATAATTTAA
TGTTATTT
Found at i:35437138 original size:14 final size:14
Alignment explanation
Indices: 35437119--35437166 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
35437109 ACCATAAAGG
35437119 CTCCACAAAGAGTT
1 CTCCACAAAGAGTT
35437133 CTCCACAAAG-G--
1 CTCCACAAAGAGTT
*
35437144 CTTCACAAAGAGTT
1 CTCCACAAAGAGTT
*
35437158 CTCTACAAA
1 CTCCACAAA
35437167 AGCTTTACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 1 0.04
14 17 0.61
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (14 bp):
CTCCACAAAGAGTT
Found at i:35437159 original size:25 final size:25
Alignment explanation
Indices: 35437084--35437171 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
35437074 CAAGGAATTT
* * *
35437084 TCCACAAAGACTTCATAGAGAGTTC
1 TCCACAAAGGCTTCACAAAGAGTTC
* * *
35437109 ACCATAAAGGCTCCACAAAGAGTTC
1 TCCACAAAGGCTTCACAAAGAGTTC
35437134 TCCACAAAGGCTTCACAAAGAGTTC
1 TCCACAAAGGCTTCACAAAGAGTTC
* *
35437159 TCTACAAAAGCTT
1 TCCACAAAGGCTT
35437172 TACAGAATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.22
Consensus pattern (25 bp):
TCCACAAAGGCTTCACAAAGAGTTC
Found at i:35439999 original size:22 final size:22
Alignment explanation
Indices: 35439969--35440019 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
35439959 TGATGGACAG
*
35439969 TAAGCTCTATCGAGCTAAAAAA
1 TAAGTTCTATCGAGCTAAAAAA
* *
35439991 TAAGTTCTATCGAGCTGAACAA
1 TAAGTTCTATCGAGCTAAAAAA
35440013 TAAGTTC
1 TAAGTTC
35440020 CAATGAGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (22 bp):
TAAGTTCTATCGAGCTAAAAAA
Found at i:35440027 original size:22 final size:22
Alignment explanation
Indices: 35439977--35440033 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
35439967 AGTAAGCTCT
*
35439977 ATCGAGCTAAAAAATAAGTTCT
1 ATCGAGCTAAAAAATAAGTTCA
* *
35439999 ATCGAGCTGAACAATAAGTTCCA
1 ATCGAGCTAAAAAATAAGTT-CA
*
35440022 AT-GAGCCAAAAA
1 ATCGAGCTAAAAA
35440034 TAGTAAGCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.21
Consensus pattern (22 bp):
ATCGAGCTAAAAAATAAGTTCA
Found at i:35440749 original size:32 final size:32
Alignment explanation
Indices: 35440712--35440779 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
35440702 TATCATTAAA
35440712 CATTTAAACAACCAAGCATTCAACAATGGCAT
1 CATTTAAACAACCAAGCATTCAACAATGGCAT
*
35440744 CATTTAAACAACCAAGCATTCAATAATGGCAT
1 CATTTAAACAACCAAGCATTCAACAATGGCAT
35440776 CATT
1 CATT
35440780 CAAAATCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.25
Consensus pattern (32 bp):
CATTTAAACAACCAAGCATTCAACAATGGCAT
Found at i:35442747 original size:16 final size:16
Alignment explanation
Indices: 35442726--35442756 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35442716 AGATTTAGCT
35442726 TTTAACTTGTAATTCG
1 TTTAACTTGTAATTCG
35442742 TTTAACTTGTAATTC
1 TTTAACTTGTAATTC
35442757 ACGGTCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (16 bp):
TTTAACTTGTAATTCG
Found at i:35448619 original size:29 final size:29
Alignment explanation
Indices: 35448547--35448643 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 29
35448537 GAAAGCATGA
*
35448547 CATATGAATGTGATTTGGGCCTAATGTGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
* *
35448576 TATACGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
* * *
35448605 CATATGGATGAGA-TTGGGCCTAGTGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGC
*
35448633 CATATGCATGT
1 CATATGAATGT
35448644 ATGTAAACTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 23 0.40
29 35 0.60
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (29 bp):
CATATGAATGTGATTTGGGCCTAATGGGC
Found at i:35455968 original size:16 final size:16
Alignment explanation
Indices: 35455947--35455977 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35455937 CGGCAAATCC
35455947 CGAAATGCCGAAAAGG
1 CGAAATGCCGAAAAGG
35455963 CGAAATGCCGAAAAG
1 CGAAATGCCGAAAAG
35455978 CTAGAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.29, T:0.06
Consensus pattern (16 bp):
CGAAATGCCGAAAAGG
Found at i:35456260 original size:28 final size:29
Alignment explanation
Indices: 35456176--35456267 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
35456166 GAAAGCATGA
*
35456176 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGAGATTTGGGCCTAATGGGC
* **
35456205 TATACCAAT-ATGATTTGGGCCTAATGGGC
1 CATATGAATGA-GATTTGGGCCTAATGGGC
*
35456234 CATATGAATGAGA-TTGGGCCTAGTGGGC
1 CATATGAATGAGATTTGGGCCTAATGGGC
35456262 CATATG
1 CATATG
35456268 CATGTAAGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.38
29 32 0.60
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
CATATGAATGAGATTTGGGCCTAATGGGC
Found at i:35457399 original size:17 final size:17
Alignment explanation
Indices: 35457379--35457411 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35457369 TTTAAAGAAG
35457379 GGTTTTCGATAAAACAA
1 GGTTTTCGATAAAACAA
*
35457396 GGTTTTCGCTAAAACA
1 GGTTTTCGATAAAACA
35457412 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (17 bp):
GGTTTTCGATAAAACAA
Found at i:35458064 original size:23 final size:23
Alignment explanation
Indices: 35458034--35458169 Score: 129
Period size: 22 Copynumber: 6.0 Consensus size: 23
35458024 GGGCTAATGG
*
35458034 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAA
*
35458057 ACAGTAAGCTTTATCGAGCT-AA
1 ACAGTAAGCTCTATCGAGCTGAA
* *
35458079 ACAATAAGCTCTATCAAGCT-AA
1 ACAGTAAGCTCTATCGAGCTGAA
* *
35458101 ATAGTAAGCTC-ATACGAGTTGAA
1 ACAGTAAGCTCTAT-CGAGCTGAA
* *
35458124 ACGGTAAGCTCCAAT-GAGCTGAAA
1 ACAGTAAGCT-CTATCGAGCTG-AA
35458148 ACAGTAAGCTCT-TACGAGCTGA
1 ACAGTAAGCTCTAT-CGAGCTGA
35458170 TATATTAGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 35 0.38
23 35 0.38
24 18 0.20
25 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCTATCGAGCTGAA
Found at i:35458091 original size:45 final size:46
Alignment explanation
Indices: 35458038--35458169 Score: 128
Period size: 45 Copynumber: 2.9 Consensus size: 46
35458028 TAATGGACAG
35458038 TAAGCTCTATTGAGCTGAAACAGTAAGCTTTATCGAGCT-AAACAA
1 TAAGCTCTATTGAGCTGAAACAGTAAGCTTTATCGAGCTGAAACAA
** * * * **
35458083 TAAGCTCTATCAAGCT-AAATAGTAAGC-TCATACGAGTTGAAACGG
1 TAAGCTCTATTGAGCTGAAACAGTAAGCTTTAT-CGAGCTGAAACAA
* *
35458128 TAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTA-CGAGCTGA
1 TAAGCTCTATTGAGCTG-AAACAGTAAGCT-TTATCGAGCTGA
35458170 TATATTAGTA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
43 3 0.04
44 15 0.22
45 30 0.45
47 17 0.25
49 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGCTCTATTGAGCTGAAACAGTAAGCTTTATCGAGCTGAAACAA
Found at i:35458665 original size:16 final size:16
Alignment explanation
Indices: 35458644--35458680 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
35458634 TATACAATTA
35458644 GGCCATAACCCATGAT
1 GGCCATAACCCATGAT
35458660 GGCCATAACCCATGAT
1 GGCCATAACCCATGAT
35458676 GGCCA
1 GGCCA
35458681 AATTTCCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (16 bp):
GGCCATAACCCATGAT
Found at i:35462327 original size:14 final size:13
Alignment explanation
Indices: 35462307--35462346 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
35462297 AATATTTGAC
35462307 TTGTTCTTAATTT
1 TTGTTCTTAATTT
*
35462320 TGTGTTCTTAATTC
1 T-TGTTCTTAATTT
35462334 TTGTT-TTAATTT
1 TTGTTCTTAATTT
35462346 T
1 T
35462347 CCAGGATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 12 0.50
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (13 bp):
TTGTTCTTAATTT
Found at i:35478316 original size:39 final size:39
Alignment explanation
Indices: 35478273--35478368 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 39
35478263 TAGGACATAT
* * * *
35478273 TTCCAGCGCCTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGTCCGGGTATAA
35478312 TTCCAGCACATAGCCTGCAGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGTCCGGGTATAA
*
35478351 TTCCAGCATATAGCCTGC
1 TTCCAGCACATAGCCTGC
35478369 GGGTCTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCTTAAGTCCGGGTATAA
Found at i:35478390 original size:40 final size:39
Alignment explanation
Indices: 35478273--35478394 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 39
35478263 TAGGACATAT
* * * * **
35478273 TTCCAGCGCCTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGCCCGAATATAA
* **
35478312 TTCCAGCACATAGCCTGCAGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGCCCGAATATAA
* * * *
35478351 TTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGAATATAA
1 TTCCAGCACATAGCCTGC-AGACCTTAAGCCCGAATATAA
35478391 TTCC
1 TTCC
35478395 TTAATTCCAG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 52 0.73
40 19 0.27
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCTTAAGCCCGAATATAA
Found at i:35486008 original size:39 final size:39
Alignment explanation
Indices: 35485948--35486084 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
35485938 AAGCTTGCGT
* *
35485948 TTCCAGCACGTAGCCTC-CGGACCCTAAGTCCAGATATAA
1 TTCCAGCACATAGCC-CGCGGACCCTAAGTCCGGATATAA
*
35485987 TTCCAGCACATAGCCCGCGGACCCTAAGTTCGGATATAA
1 TTCCAGCACATAGCCCGCGGACCCTAAGTCCGGATATAA
* * *
35486026 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCCGCGGACCCTAAGTCCGGATATAA
* *
35486065 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCCGCGG
35486085 GTCTTTAAGC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 88 0.99
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCCGCGGACCCTAAGTCCGGATATAA
Found at i:35496197 original size:39 final size:39
Alignment explanation
Indices: 35496154--35496291 Score: 159
Period size: 39 Copynumber: 3.5 Consensus size: 39
35496144 TAGGACATAT
* * *
35496154 TTCCAGCGCGTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
35496193 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
* * * * * **
35496232 TTCCAGCATATAGCCTTCGGGTCTTTAAGCCCGAATATAA
1 TTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGGTATAA
* *
35496272 TTCAAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
35496292 GTCTTTAAGC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 54 0.63
40 32 0.37
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
Found at i:35496271 original size:40 final size:40
Alignment explanation
Indices: 35496188--35496304 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
35496178 TAAGTCCGGT
* * * * **
35496188 TATAATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGG
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGAA
*
35496227 TATAATTCCAGCATATAGCCTTCGGGTCTTTAAGCCCGAA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGAA
*
35496267 TATAATTCAAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCG
35496305 GATACACATC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 21 0.31
40 47 0.69
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGAA
Found at i:35499150 original size:20 final size:20
Alignment explanation
Indices: 35499122--35499159 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35499112 CTAGGAACTA
35499122 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
35499142 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
35499160 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:35500512 original size:30 final size:30
Alignment explanation
Indices: 35500478--35500542 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
35500468 CACGGGCAGA
*
35500478 GACACGGCCGTGTGTCCCAGCTGTGTAGAG
1 GACACGGCCGTGTGTCCCAGCCGTGTAGAG
35500508 GACACGGCCGTGTGTCCCAGCCGTGTAGAG
1 GACACGGCCGTGTGTCCCAGCCGTGTAGAG
35500538 GACAC
1 GACAC
35500543 AGCCTTTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.17
Consensus pattern (30 bp):
GACACGGCCGTGTGTCCCAGCCGTGTAGAG
Found at i:35514450 original size:43 final size:42
Alignment explanation
Indices: 35514357--35514457 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
35514347 TGACTATCCT
* * *
35514357 AGACAAGGTCTTACAC-GAATCAAATACAATGCCGATGTCCC
1 AGACATGGTCTTACACAGAATCAAATACAATGCCAATGTCCA
* * *
35514398 AGACATGGTCTTACACATAATCACATATCGATGCCAATGTCCA
1 AGACATGGTCTTACACAGAATCAAATA-CAATGCCAATGTCCA
**
35514441 AGATGTGGTCTTACACA
1 AGACATGGTCTTACACA
35514458 AGAACACATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 15 0.30
42 8 0.16
43 27 0.54
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
AGACATGGTCTTACACAGAATCAAATACAATGCCAATGTCCA
Found at i:35514466 original size:43 final size:43
Alignment explanation
Indices: 35514303--35514467 Score: 106
Period size: 43 Copynumber: 3.9 Consensus size: 43
35514293 ATATCATACA
* * * *** *
35514303 ATGCCAACGTCCCAGATATGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
* * * * * * * *
35514346 ATG--ACTATCCTAGACAAGGTCTTACAC-GAATCAAATA-CA
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
* * *
35514385 ATGCCGATGTCCCAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
**
35514428 ATGCCAATGTCCAAGATGTGGTCTTACACA-AGAACACATA
1 ATGCCAATGTCCAAGACATGGTCTTACACATA-AACACATA
35514468 CAGAAAATCC
Statistics
Matches: 94, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
39 4 0.04
40 8 0.09
41 36 0.38
42 9 0.10
43 37 0.39
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCAAGACATGGTCTTACACATAAACACATATCG
Found at i:35518012 original size:24 final size:27
Alignment explanation
Indices: 35517965--35518016 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
35517955 AATCGAAGTA
35517965 AGTTCGTATGTTAAATAAGCTTTAATAT
1 AGTTCGTATGTTAAAT-AGCTTTAATAT
35517993 AGTT-GTAT-TTAAAT-GCTTTAATAT
1 AGTTCGTATGTTAAATAGCTTTAATAT
35518017 TGCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (27 bp):
AGTTCGTATGTTAAATAGCTTTAATAT
Found at i:35521281 original size:29 final size:29
Alignment explanation
Indices: 35521240--35521319 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
35521230 ATGAGCATGA
*
35521240 ATAT-AATGTGATTTGGGTCTAAAGGG-T
1 ATATAAATGTGATTTGGGCCTAAAGGGCT
*
35521267 CATATAAATGTGATTTGGACCTAAAGGGCT
1 -ATATAAATGTGATTTGGGCCTAAAGGGCT
*
35521297 ATAAAAATGTGATTTGGGCCTAA
1 ATATAAATGTGATTTGGGCCTAA
35521320 TAGGCCATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 4 0.09
29 41 0.89
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCT
Found at i:35528008 original size:28 final size:28
Alignment explanation
Indices: 35527933--35528000 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
35527923 GAAGTAGTTA
*
35527933 GGCCTAATGGGCCATATGAATGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
35527961 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
*
35527989 GGCCTGATGGGC
1 GGCCTAATGGGC
35528001 AATGTGAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAAAGTGATTG
Found at i:35528015 original size:28 final size:28
Alignment explanation
Indices: 35527933--35528023 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
35527923 GAAGTAGTTA
* * *
35527933 GGCCTAATGGGCCATATGAATGTGATTG
1 GGCCTAATGGGCAATATGAAAGAGATTG
* *
35527961 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCAATATGAAAGAGATTG
* * *
35527989 GGCCTGATGGGCAATGTGAACA-AGATTC
1 GGCCTAATGGGCAATATGAA-AGAGATTG
35528017 GGCCTAA
1 GGCCTAA
35528024 AGGGGCCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 54 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
GGCCTAATGGGCAATATGAAAGAGATTG
Found at i:35528397 original size:27 final size:27
Alignment explanation
Indices: 35528338--35528729 Score: 363
Period size: 27 Copynumber: 14.7 Consensus size: 27
35528328 TAATAAAGAG
*
35528338 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACTGAAATACCCTCGATT-TGTA
* * *
35528364 AAATTACTAAAAAACTCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
35528391 AAATTACCGACATATCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35528417 AAATTACTAAAATACCCTAGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
35528444 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
35528470 AAATCAATGAAAAACCCTAGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35528497 AAATTATTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
35528524 AAATTACCGAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
35528550 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
35528577 AAATTA-TCGAAATACCCTCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
35528604 TAATTA-TCGAAATACCCTCAATTTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
35528631 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
35528658 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
35528685 AAATTA-TCAAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
**
35528712 AAATTACCAAAATACCCT
1 AAATTACTGAAATACCCT
35528730 TGTAGTGTAA
Statistics
Matches: 302, Mismatches: 54, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.01
26 85 0.28
27 215 0.71
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:35528501 original size:80 final size:79
Alignment explanation
Indices: 35528338--35528702 Score: 353
Period size: 80 Copynumber: 4.6 Consensus size: 79
35528328 TAATAAAGAG
* * * * **
35528338 AAATTACCGAAATACCCTCGATTATG--AAATTACTAAAAAACTCTCGATTTGTAAAATTACCGA
1 AAATTACTGAAATACCCTCGATT-TGTAAAATTACCAAAATACCCTCGA-TTGTAAAA-TAATGA
* * * *
35528401 CATATCCTCGA-TTGTG
63 AATACCCTAGATTTGTA
* * *
35528417 AAATTACTAAAATACCCTAGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATCAATGAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAAT-AATGAAA
*
35528482 AACCCTAGATTTGTA
65 TACCCTAGATTTGTA
* * * *
35528497 AAATTATTGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACTGAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAA-TAATGAAA
*
35528562 TACCCTTGATTTGTA
65 TACCCTAGATTTGTA
** * * * * *
35528577 AAATTA-TCGAAATACCCTCGATTTGTGTAATTATCGAAATACCCTCAATTTATAAAATTATCGA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATAAT-GA
35528641 AATACCCTCA-ATTTGTA
63 AATACCCT-AGATTTGTA
* * *
35528658 AAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCT
35528703 TATAGTGTAA
Statistics
Matches: 239, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.01
79 38 0.16
80 134 0.56
81 64 0.27
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (79 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATAATGAAAT
ACCCTAGATTTGTA
Found at i:35528633 original size:54 final size:54
Alignment explanation
Indices: 35528338--35528729 Score: 406
Period size: 53 Copynumber: 7.3 Consensus size: 54
35528328 TAATAAAGAG
* * *
35528338 AAATTACCGAAATACCCTCGATTATG--AAATTA-CTAAAAAACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATT-TGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
35528391 AAATTACCGACATATCCTCGA-TTGTGAAATTA-CTAAAATACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
35528444 AAATTACCAAAATACCCTCGA-TTGTGAAATCAAT-GAAAAACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAAT-TATCGAAATACCCTCGATTTGTA
** * *
35528497 AAATTATTGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
35528550 AAATTACTGAAATACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
35528604 TAATTATCGAAATACCCTCAATTTATAAAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
35528658 AAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCT-TATAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGAT-TTGTA
*
35528712 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
35528730 TGTAGTGTAA
Statistics
Matches: 288, Mismatches: 43, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
51 2 0.01
52 1 0.00
53 156 0.54
54 129 0.45
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:35529244 original size:11 final size:11
Alignment explanation
Indices: 35529228--35529255 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35529218 ATTGCATGTA
35529228 TGATATTATTG
1 TGATATTATTG
35529239 TGATATTATTG
1 TGATATTATTG
35529250 TGATAT
1 TGATAT
35529256 GGGCTTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:35531630 original size:28 final size:28
Alignment explanation
Indices: 35531590--35531650 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
35531580 GTAGTAGTTA
* *
35531590 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
*
35531618 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
35531646 GGCCT
1 GGCCT
35531651 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTG
Found at i:35532343 original size:27 final size:27
Alignment explanation
Indices: 35531975--35532330 Score: 422
Period size: 27 Copynumber: 13.3 Consensus size: 27
35531965 GAAATTACTA
*
35531975 AAATACCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGATTTGTAAAATTATCG
* *
35532002 AAATACCCTCGATTTGTAAAACTACCG
1 AAATACCCTCGATTTGTAAAATTATCG
* * *
35532029 AAATGCCATCGA-TTGTGAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-G
*
35532055 AAA-ACCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGATTTGTAAAATTATCG
* * *
35532081 AAATACCCACAATTTGTAAAA-TATCA
1 AAATACCCTCGATTTGTAAAATTATCG
*
35532107 AAATACCCTCGA-TTGTGAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-G
** *
35532133 AAATACCCTTAATTTGTAAAAATA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-G
35532160 AAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCG
35532187 AAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCG
*
35532214 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCG
* *
35532241 AAATACCTTCTATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCG
*
35532268 AAATACCCTCGATTTGTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTATCG
* * * *
35532295 AAATACCCT-TATAGTGTAAAATTACCA
1 AAATACCCTCGAT-TTGTAAAATTATCG
35532322 AAATACCCT
1 AAATACCCT
35532331 TGTAGTGTAA
Statistics
Matches: 284, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
25 15 0.05
26 54 0.19
27 214 0.75
28 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTATCG
Found at i:35537994 original size:30 final size:30
Alignment explanation
Indices: 35537960--35538020 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35537950 TCCTTAACTC
35537960 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35537990 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35538020 A
1 A
35538021 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35541079 original size:16 final size:16
Alignment explanation
Indices: 35541058--35541120 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
35541048 CACTGGAATG
*
35541058 GAATAGGGCTGTAATA
1 GAATAGAGCTGTAATA
*
35541074 GAATAGAGCTGTAATG
1 GAATAGAGCTGTAATA
* ** *
35541090 GAATAAAATTGTAATG
1 GAATAGAGCTGTAATA
35541106 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
35541121 TAGTAATTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (16 bp):
GAATAGAGCTGTAATA
Found at i:35545339 original size:119 final size:119
Alignment explanation
Indices: 35545109--35545448 Score: 405
Period size: 119 Copynumber: 2.9 Consensus size: 119
35545099 AACATTGGAT
* * ** * * * * *
35545109 AGGAAAGCCTTTGTAGTGAGTACTAAATTTTAAGGAATGCCTTTGCGGTAAAACTTATGAAAGGT
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
* * ** * ** *
35545174 AAGCCTACGTGGCAAACCTATGAAAGGAAATTACTCTATGTTAAAACTCTGGACA
66 AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGA-A
* *
35545229 A-GAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAACGCCTTTGTGGAAAAACTCAATAAAAGG
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTC-ATGAAAGG
* * * *
35545293 TAAACCTATGTTGCGAACCTTTGAAA-GAAATGCCTTTACGGAAAAACTCTAGAA
65 TAAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGAA
* * *
35545347 AGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGATAAACTCATGAAAGGT
1 AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
*
35545412 AAGCCTATGTGGCGAACCTCTGAAAGGAAATGCCTCT
66 AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCT
35545449 GTCACAAAAA
Statistics
Matches: 185, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
118 32 0.17
119 124 0.67
120 29 0.16
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (119 bp):
AGGAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGT
AAGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTACGGAAAAACTCTAGAA
Found at i:35545402 original size:61 final size:61
Alignment explanation
Indices: 35545216--35545426 Score: 179
Period size: 61 Copynumber: 3.5 Consensus size: 61
35545206 ACTCTATGTT
* * * * *
35545216 AAAACTCTGGACAA-GAAAACCTTTGTGGCAAGTACTGAATGTTAAGGAACGCCTTTGTGGA
1 AAAACTCTAGA-AAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
* * * * **
35545277 AAAACTCAATA-AAAGGTAAA-CCTATGTTGCGA--ACCT--TTG-AAAGAAATGCCTTTACGGA
1 AAAACTC--TAGAAAGG-AAAGCCTATGTGGCGAGTA-CTGAATGTTAAGGAATGCCTTTGTGGA
*
35545335 AAAACTCTAGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
1 AAAACTCTAGAAAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
* *
35545396 TAAACTC-ATGAAAGGTAAGCCTATGTGGCGA
1 AAAACTCTA-GAAAGGAAAGCCTATGTGGCGA
35545427 ACCTCTGAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
56 5 0.04
57 15 0.13
58 23 0.20
59 3 0.03
60 4 0.03
61 52 0.44
62 11 0.09
63 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (61 bp):
AAAACTCTAGAAAGGAAAGCCTATGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGA
Found at i:35545446 original size:29 final size:29
Alignment explanation
Indices: 35545378--35545446 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
35545368 ACTGAATGTT
* *
35545378 AAGGAATGCCTTTGTGGATAAACTCATGA
1 AAGGAATGCCTATGTGGAGAAACTCATGA
* *
35545407 AAGGTAA-GCCTATGTGGCGAACCTC-TGA
1 AAGG-AATGCCTATGTGGAGAAACTCATGA
35545435 AAGGAAATGCCT
1 AAGG-AATGCCT
35545447 CTGTCACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 9 0.27
29 22 0.67
30 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (29 bp):
AAGGAATGCCTATGTGGAGAAACTCATGA
Found at i:35547776 original size:27 final size:27
Alignment explanation
Indices: 35547745--35547922 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35547735 TAAATTGTAC
35547745 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35547772 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35547798 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35547826 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35547854 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35547881 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35547908 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35547923 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35547859 original size:82 final size:81
Alignment explanation
Indices: 35547746--35547901 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35547736 AAATTGTACA
* *
35547746 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35547810 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35547827 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35547892 TGCGAGTTGA
65 TGCGAATTGA
35547902 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35547913 original size:82 final size:81
Alignment explanation
Indices: 35547742--35547922 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35547732 GATTAAATTG
* *
35547742 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35547807 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35547823 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35547887 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35547905 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35547923 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35554104 original size:43 final size:43
Alignment explanation
Indices: 35554043--35554621 Score: 696
Period size: 43 Copynumber: 13.5 Consensus size: 43
35554033 ACATTTTTGA
* *
35554043 GTTGGCATCGATATGTGATTACGTGTAAGATCACGTCTGGGAT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
35554086 GTTGGCATCGATATGTGATTACGTGTAAGACC-CTGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC
* * * *
35554129 AG-TGGCATTGATATGTG-TTCTCGTGTAAGACCACATCTGGGAT
1 -GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGAC
35554172 GTTGGCATCGATATGTGATTACGTGTAAGACC-CTGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC
* * * *
35554215 AG-TGGCATTGATATGTG-TTCTCGTGTAAGACCACATCTGGGAT
1 -GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGAC
*
35554258 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTAGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* *
35554301 ATTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* * *
35554344 ATTGGTATCGATATGTGATTATGTGTAAGACCACGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* * *
35554387 GTTGGCATCGATATGTGATTATGTGTAAGACC-CTGTCTAGGATA
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-C
*
35554431 G-TGGCATCGATATGTG-TTATCGTGTAAGACTACGTCTGGGAC
1 GTTGGCATCGATATGTGATTA-CGTGTAAGACCACGTCTGGGAC
*
35554473 GTTGGCATCAATATGTGATTACGTGTAAGACC-CTGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC
* *
35554516 AG-TGGCATCGATATGTG-TTCACGTGTAAAACCACGTCTGGGAT
1 -GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGAC
* * * * ***
35554559 GTTGACATCAATATGTGATTATGTGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
35554602 GTTGGCATCGATATGTGATT
1 GTTGGCATCGATATGTGATT
35554622 CCAATATGTG
Statistics
Matches: 463, Mismatches: 49, Indels: 48
0.83 0.09 0.09
Matches are distributed among these distances:
42 17 0.04
43 429 0.93
44 17 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGAC
Found at i:35554698 original size:56 final size:56
Alignment explanation
Indices: 35554589--35554698 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
35554579 ATGTGTAAGA
* * *
35554589 CCACGTTTAATACGTTGGCATCGATATGTGATTCCAATATGTGTGTGCAAGTAAAT
1 CCACGTTTAATACGTTAGCATCGATATGTGATTCCAATATGTATGTACAAGTAAAT
* * * *
35554645 CCACGTTTAATATGTTAGCATCGATATGTGATTCCGATATGTATTTACGAGTAA
1 CCACGTTTAATACGTTAGCATCGATATGTGATTCCAATATGTATGTACAAGTAA
35554699 GACCCTGTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (56 bp):
CCACGTTTAATACGTTAGCATCGATATGTGATTCCAATATGTATGTACAAGTAAAT
Found at i:35559178 original size:43 final size:43
Alignment explanation
Indices: 35559117--35559441 Score: 472
Period size: 43 Copynumber: 7.6 Consensus size: 43
35559107 CAATAAACTT
* * * * *
35559117 GCACATTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
35559160 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
35559203 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTATATT
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*** *
35559246 GCACACTTAGTGCCAATTAATTAGTAGAAGCTATAATTGTATT
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
35559289 ACACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
35559332 GCACACTTAGTCCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
35559375 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
35559418 GCAAACTTAGTGCC-ATTACATTAA
1 GCACACTTAGTGCCAATTA-ATTAA
35559442 ACCAAACTTA
Statistics
Matches: 260, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 4 0.02
43 256 0.98
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
Found at i:35559494 original size:129 final size:129
Alignment explanation
Indices: 35559117--35559494 Score: 352
Period size: 129 Copynumber: 2.9 Consensus size: 129
35559107 CAATAAACTT
* * * * * ** * * *
35559117 GCACATTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTCGCACACTTAGTGCCAATTAATT
1 GCACACTTAGTGCCAATTAATTAGCAGAAGCTATAATTATATCACAAACTTAGTGCCAATTAATT
* * * * * * * *
35559182 AACCGAAGCTATAATTGTATCGCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTATATT
66 AACCGAAACTATAATTGTATCACACACATAGTCCCAATTAACTACCCCAAGCTATAATTATATC
* * * *
35559246 GCACACTTAGTGCCAATTAATTAGTAGAAGCTATAATTGTATTACACACTTAGTGCCAATTAATT
1 GCACACTTAGTGCCAATTAATTAGCAGAAGCTATAATTATATCACAAACTTAGTGCCAATTAATT
* * * * * * * *
35559311 AGCCGAAGCTATAATTGTATCGCACACTTAGTCCCAATTAATTAGCCGAAGCTATAATTGTATC
66 AACCGAAACTATAATTGTATCACACACATAGTCCCAATTAACTACCCCAAGCTATAATTATATC
* *
35559375 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATCGCAAACTTAGTGCC-ATTACAT
1 GCACACTTAGTGCCAATTAATTAGCAGAAGCTATAATTATATCACAAACTTAGTGCCAATTA-AT
* * * *
35559439 TAAACC-AAACT-TATATCTGTGTCACCCACATAGTTCC-ATTTACT-CCCCAATGCTAT
65 T-AACCGAAACTATA-AT-TGTATCACACACATAGTCCCAATTAACTACCCCAA-GCTAT
35559495 TACAATCTCA
Statistics
Matches: 212, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
128 10 0.05
129 184 0.87
130 18 0.08
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (129 bp):
GCACACTTAGTGCCAATTAATTAGCAGAAGCTATAATTATATCACAAACTTAGTGCCAATTAATT
AACCGAAACTATAATTGTATCACACACATAGTCCCAATTAACTACCCCAAGCTATAATTATATC
Found at i:35570922 original size:27 final size:27
Alignment explanation
Indices: 35570892--35571141 Score: 342
Period size: 27 Copynumber: 9.3 Consensus size: 27
35570882 GCAAAATGGG
* * * *
35570892 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
35570919 AATTCTACCCTACAGGGGTATGTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
35570946 AATTCTACCCTACAGGGGTATTT-GAGT
1 AATTCTACCCTACAGGGGTATTTCG-GT
**
35570973 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
35571000 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * * *
35571027 AATTCTAACCTATAGAGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
35571054 AATTCTACCCTACAGGAGCATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
35571081 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
35571108 AATTCTA-CCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
35571134 AATTCTAC
1 AATTCTAC
35571142 AACTTATCCA
Statistics
Matches: 199, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 26 0.13
27 173 0.87
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:35577166 original size:26 final size:27
Alignment explanation
Indices: 35577066--35577171 Score: 178
Period size: 27 Copynumber: 4.0 Consensus size: 27
35577056 NNNNNNNNNN
* *
35577066 GTAATCCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
35577093 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
35577120 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
35577147 GTAATTCTA-CCTATAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
35577172 GCAATCACTA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
26 15 0.20
27 61 0.80
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:35581852 original size:16 final size:16
Alignment explanation
Indices: 35581831--35581862 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35581821 TACCAAAGTG
35581831 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
35581847 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
35581863 AAGCCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.38, G:0.31, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:35582259 original size:27 final size:27
Alignment explanation
Indices: 35582189--35582251 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
35582179 TACGCACGAT
35582189 GGGCAAAATAGTCATTTAACACCCTAG
1 GGGCAAAATAGTCATTTAACACCCTAG
35582216 GGGCAAAATAGTCATTTAACACCCTAG
1 GGGCAAAATAGTCATTTAACACCCTAG
35582243 GGGCAAAAT
1 GGGCAAAAT
35582252 GGTAATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTAACACCCTAG
Found at i:35582282 original size:27 final size:27
Alignment explanation
Indices: 35582253--35582349 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
35582243 GGGCAAAATG
* * *
35582253 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
35582280 GTAATTCTATCCTAC-AGAGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
35582307 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
35582334 GTAATTCTACCCTACA
1 GTAATTCTACCCTACA
35582350 GNTTAGCTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
26 2 0.03
27 59 0.94
28 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:35584386 original size:42 final size:43
Alignment explanation
Indices: 35584338--35584433 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
35584328 TTTAAGTCAA
*
35584338 TGTTGTACACA-GGCATGTGCCATGGCTGTGGTTTAAAGACAG
1 TGTTGTACACACGGCATGTGCCATGGCCGTGGTTTAAAGACAG
** * *
35584380 TGTTGTACACACGGGTGTGTGCCATGGCCGTGTTTTAAAGTCAG
1 TGTTGTACACAC-GGCATGTGCCATGGCCGTGGTTTAAAGACAG
*
35584424 TGTTGCACAC
1 TGTTGTACAC
35584434 GAACTAAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 11 0.24
44 35 0.76
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
TGTTGTACACACGGCATGTGCCATGGCCGTGGTTTAAAGACAG
Found at i:35587438 original size:41 final size:41
Alignment explanation
Indices: 35587380--35587483 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
35587370 GCTATTAACG
* * * *
35587380 GGTCTGCTTACACAAGCTGACGGTTAAGACGTTGCTACATA
1 GGTCTGCTCACACAAGCTGACGGTCAAGACATAGCTACATA
* *
35587421 GGTCTGCTCACAGAAGCTAACGGTCAAGACATAGCTACATA
1 GGTCTGCTCACACAAGCTGACGGTCAAGACATAGCTACATA
*
35587462 -GTGCTGCTCACACAAGGTGACG
1 GGT-CTGCTCACACAAGCTGACG
35587484 AGAATCCACA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 2 0.04
41 51 0.96
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (41 bp):
GGTCTGCTCACACAAGCTGACGGTCAAGACATAGCTACATA
Found at i:35590211 original size:45 final size:44
Alignment explanation
Indices: 35590161--35590281 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 44
35590151 TCTTACTGTT
* *
35590161 TTCAGCTCATTGGAGCTTACTGTTTCAGCTGGTATGAGCTTATTG
1 TTCAGCTCA-TAGAGCTTACTGTTTCAGCTCGTATGAGCTTATTG
* *
35590206 TTCAGCTTGATAGAGCTTACCGTTTCAGCTCGTATGAGCTTATTG
1 TTCAGC-TCATAGAGCTTACTGTTTCAGCTCGTATGAGCTTATTG
*
35590251 TTTAGCTCAATAGAGCTTACTGTTTCAGCTC
1 TTCAGCTC-ATAGAGCTTACTGTTTCAGCTC
35590282 AAAATGTAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 64 0.96
46 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (44 bp):
TTCAGCTCATAGAGCTTACTGTTTCAGCTCGTATGAGCTTATTG
Found at i:35590212 original size:22 final size:23
Alignment explanation
Indices: 35590152--35590281 Score: 126
Period size: 23 Copynumber: 5.7 Consensus size: 23
35590142 CTCAAAAAAT
*
35590152 CTTACTGTTTTCAGCTCAT-TGGAG
1 CTTACTG-TTTCAGCTCGTAT-GAG
*
35590176 CTTACTGTTTCAGCTGGTATGAG
1 CTTACTGTTTCAGCTCGTATGAG
* *
35590199 CTTATTG-TTCAGCTTG-ATAGAG
1 CTTACTGTTTCAGCTCGTAT-GAG
*
35590221 CTTACCGTTTCAGCTCGTATGAG
1 CTTACTGTTTCAGCTCGTATGAG
* *
35590244 CTTATTGTTT-AGCTC-AATAGAG
1 CTTACTGTTTCAGCTCGTAT-GAG
35590266 CTTACTGTTTCAGCTC
1 CTTACTGTTTCAGCTC
35590282 AAAATGTAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
21 4 0.04
22 33 0.37
23 42 0.47
24 10 0.11
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (23 bp):
CTTACTGTTTCAGCTCGTATGAG
Found at i:35592518 original size:30 final size:30
Alignment explanation
Indices: 35592484--35592544 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35592474 TCCTTAACTC
35592484 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35592514 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35592544 A
1 A
35592545 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35604238 original size:7 final size:7
Alignment explanation
Indices: 35604226--35604315 Score: 171
Period size: 7 Copynumber: 12.7 Consensus size: 7
35604216 NNNNNNNNNN
35604226 CTAAACC
1 CTAAACC
35604233 CTAAACC
1 CTAAACC
35604240 CTAAACC
1 CTAAACC
35604247 CTAAACC
1 CTAAACC
35604254 CTAAACC
1 CTAAACC
35604261 CTAAACC
1 CTAAACC
35604268 CTAAACC
1 CTAAACC
35604275 CTAAACC
1 CTAAACC
35604282 CTAAACC
1 CTAAACC
35604289 CTAAAACC
1 CT-AAACC
35604297 CTAAACC
1 CTAAACC
35604304 CTAAACC
1 CTAAACC
35604311 CTAAA
1 CTAAA
35604316 AAGATCACGC
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
7 75 0.91
8 7 0.09
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:35604845 original size:27 final size:26
Alignment explanation
Indices: 35604828--35604897 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
35604818 ATATTAAGTC
35604828 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
35604855 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
35604883 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
35604898 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:35604891 original size:28 final size:28
Alignment explanation
Indices: 35604828--35604922 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
35604818 ATATTAAGTC
*
35604828 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
35604855 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
35604883 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
35604912 CGCACACTTAG
1 CGCACACTTAG
35604923 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:35610961 original size:39 final size:39
Alignment explanation
Indices: 35610905--35610984 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
35610895 CGTATGGAAG
*
35610905 TCCATAGTTTTCTAGGCTTAGCGGGCTATTACCAAATAT
1 TCCATAGTTTTCCAGGCTTAGCGGGCTATTACCAAATAT
35610944 TCCATAGTTTTCCAGGCTTAGCGGGCTATTACCAAATAT
1 TCCATAGTTTTCCAGGCTTAGCGGGCTATTACCAAATAT
35610983 TC
1 TC
35610985 GTGAAAGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (39 bp):
TCCATAGTTTTCCAGGCTTAGCGGGCTATTACCAAATAT
Found at i:35617292 original size:18 final size:19
Alignment explanation
Indices: 35617266--35617309 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
35617256 GAACTTTTCT
*
35617266 ATACTTGTA-ATTATTGAA
1 ATACTTGTATATAATTGAA
*
35617284 ATGCTTGTATATAATTGAA
1 ATACTTGTATATAATTGAA
35617303 ATACTTG
1 ATACTTG
35617310 AAGTATGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (19 bp):
ATACTTGTATATAATTGAA
Found at i:35617542 original size:22 final size:22
Alignment explanation
Indices: 35617517--35617624 Score: 112
Period size: 22 Copynumber: 4.8 Consensus size: 22
35617507 TTATCGTTTC
35617517 AGCTCGCAT-GAGCTTACTATTT
1 AGCTCG-ATAGAGCTTACTATTT
*
35617539 AGCTCGATAGAGCTTACCATTT
1 AGCTCGATAGAGCTTACTATTT
* *
35617561 CAGCTC-ATATGAGCTTACTGTTC
1 -AGCTCGATA-GAGCTTACTATTT
**
35617584 AGCTCGATAGAGCTTACCGTTT
1 AGCTCGATAGAGCTTACTATTT
*
35617606 CAGCTCAATAGAGCTTACT
1 -AGCTCGATAGAGCTTACT
35617625 GTTCATCAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.03
22 37 0.51
23 34 0.47
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (22 bp):
AGCTCGATAGAGCTTACTATTT
Found at i:35617573 original size:45 final size:44
Alignment explanation
Indices: 35617513--35617629 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 44
35617503 GGAATTATCG
* *
35617513 TTTCAGCTCGCATGAGCTTACTATTTAGCTCGATAGAGCTTACCA
1 TTTCAGCTC-AATGAGCTTACTATTCAGCTCGATAGAGCTTACCA
* *
35617558 TTTCAGCTCATATGAGCTTACTGTTCAGCTCGATAGAGCTTACCG
1 TTTCAGCTCA-ATGAGCTTACTATTCAGCTCGATAGAGCTTACCA
*
35617603 TTTCAGCTCAATAGAGCTTACTGTTCA
1 TTTCAGCTCAAT-GAGCTTACTATTCA
35617630 TCAGCTTAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
44 2 0.03
45 64 0.97
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (44 bp):
TTTCAGCTCAATGAGCTTACTATTCAGCTCGATAGAGCTTACCA
Found at i:35618741 original size:66 final size:66
Alignment explanation
Indices: 35618626--35618808 Score: 187
Period size: 65 Copynumber: 2.8 Consensus size: 66
35618616 CAGTTTGCTC
* * *
35618626 CACACGGCCT--CACACATGGGCGTGTGGC-TGGCCGTGTGGTAGAAGTTAGTATACCCCTTAAA
1 CACACGGCCTAGCACACA--GGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATA-CCCTCAAA
35618688 TTGT
63 TTGT
* * * * *
35618692 -ACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTTGCATAAGTTAGTATACTCTCAAGTTT
1 CACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATACCCTCAAATTG
35618756 T
66 T
* * * * *
35618757 CACACGGCCTAGCACACGGGCGTGT-CCTTGGCCGTGTGACACAAGTCAGTAT
1 CACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTAT
35618809 GTATGCCCTA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
65 48 0.48
66 45 0.45
67 6 0.06
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.25
Consensus pattern (66 bp):
CACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATACCCTCAAATTG
T
Found at i:35618823 original size:66 final size:65
Alignment explanation
Indices: 35618692--35618848 Score: 169
Period size: 66 Copynumber: 2.4 Consensus size: 65
35618682 CTTAAATTGT
* * * * *
35618692 ACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTTGCATAAGTTAGTATACTCTCAAGTTTT
1 ACACGGCCTAGCACACGGGCGTGT-CCTTGGCCGTGTTGCACAAGTCAGTATACTCCCAAGTTTT
35618757 C
65 C
*
35618758 ACACGGCCTAGCACACGGGCGTGTCCTTGGCCGTG-TGACACAAGTCAGTATGTA-TGCCCTA-T
1 ACACGGCCTAGCACACGGGCGTGTCCTTGGCCGTGTTG-CACAAGTCAGTA--TACT-CCCAAGT
35618820 TTTC
62 TTTC
*
35618824 ACACGGTCTAAG-ACACGGGCGTGTC
1 ACACGGCCT-AGCACACGGGCGTGTC
35618849 TACTAGTCGT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
64 2 0.03
65 20 0.25
66 50 0.63
67 7 0.09
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (65 bp):
ACACGGCCTAGCACACGGGCGTGTCCTTGGCCGTGTTGCACAAGTCAGTATACTCCCAAGTTTTC
Found at i:35621801 original size:342 final size:343
Alignment explanation
Indices: 35621170--35621851 Score: 1132
Period size: 342 Copynumber: 2.0 Consensus size: 343
35621160 TATGTTTTTG
* *
35621170 AAAATAGTAATTGGTTTGAAAACTCGTCTATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
1 AAAACAGTAATTGGTTTGAAAACTCGTATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
* *
35621235 CCCAAATAGAAGTTAAAAACCTCAAATGGCCTTATTACATAACAAAAAATCAAATATGAAATTTG
66 CCCAAATAAAAGTTAAAAACCTCAAATGGCCTTATTAAATAACAAAAAATCAAATATGAAATTTG
* * * *
35621300 AGTAATTAAAATCAAAAGTAGAACATCAGCAATTGTTTGGCCACCTCCGAGTCCCTCGTGACTCT
131 AGTAATTAAAATCAAAAGTAGAACATCAGCAATCGTGTGGCCACCTCCGAGTCCCTCGCGACTCC
*
35621365 AAACCGTCAAAGGCTGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
196 AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
* *
35621430 GTGTAATCCCCTACTAGTCAAACAGTAAACAATGCATGCAGTAACAGTCT-GGCCTGGGCCCTAT
261 GTGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
35621494 TCAGTATCAGTACAGCTT
326 TCAGTATCAGTACAGCTT
*
35621512 AAAACAGTAATTGGTTTGAAAACTCGTATATTCCTAGTCTAGCAGCTTAAGGTAAGAAATCAAAG
1 AAAACAGTAATTGGTTTGAAAACTCGTATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
* * * *
35621577 CCTAAATAAAAGTTAAAAACCTCAAATGGCCTTATTAAATAACCAAAAATCTAATATGAATTTTG
66 CCCAAATAAAAGTTAAAAACCTCAAATGGCCTTATTAAATAACAAAAAATCAAATATGAAATTTG
* * * *
35621642 AGTAATTAAAGTCAAAAGTAGAACATCAGCAATCGTGTGGCCATCTCTGAGTCCCTCGCGGCTCC
131 AGTAATTAAAATCAAAAGTAGAACATCAGCAATCGTGTGGCCACCTCCGAGTCCCTCGCGACTCC
* * *
35621707 AAACCGTCTAAGGATGAGGATTACCTGTACAGTTAAAAGAAAGGGTGAGTTTGTGAAAACTCAGT
196 AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
* *
35621772 GTGTAATCCCTTACTAGTCAAATAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
261 GTGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
35621837 TCAGTATCAGTACAG
326 TCAGTATCAGTACAG
35621852 TCTGGGCCTT
Statistics
Matches: 314, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
342 285 0.91
343 29 0.09
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (343 bp):
AAAACAGTAATTGGTTTGAAAACTCGTATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
CCCAAATAAAAGTTAAAAACCTCAAATGGCCTTATTAAATAACAAAAAATCAAATATGAAATTTG
AGTAATTAAAATCAAAAGTAGAACATCAGCAATCGTGTGGCCACCTCCGAGTCCCTCGCGACTCC
AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
GTGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
TCAGTATCAGTACAGCTT
Found at i:35621858 original size:33 final size:34
Alignment explanation
Indices: 35621810--35621875 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
35621800 ACAATGAATG
* *
35621810 CAGTAACAGTATGGGCCTGGGCCCTATTCAGTAT
1 CAGTAACAGTATGGGCCTGAGCCCTATACAGTAT
* *
35621844 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTA
1 CAGTAACAGTATGGGCCTGAGCCCTATACAGTA
35621876 ATAGTGTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (34 bp):
CAGTAACAGTATGGGCCTGAGCCCTATACAGTAT
Found at i:35626470 original size:44 final size:44
Alignment explanation
Indices: 35626407--35626528 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 44
35626397 TCATAACATT
* * *
35626407 TTTTATAT-TTTATATTTTTTAT-ATTTTTTATAAATTTTAAAAAA
1 TTTTATATATATATATTTTTTATAAATTTTAAT-AATTTT-AAAAA
* *
35626451 TTTTATATATATAT-TTTTTTATAAATTTTAATGATTTTTAAAA
1 TTTTATATATATATATTTTTTATAAATTTTAATAATTTTAAAAA
* *
35626494 -TTT-TATATAT-T-CTTTTTATAAATTTTAATGATTTT
1 TTTTATATATATATATTTTTTATAAATTTTAATAATTTT
35626529 TATATTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
40 24 0.34
41 7 0.10
42 3 0.04
43 4 0.06
44 21 0.30
45 11 0.16
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (44 bp):
TTTTATATATATATATTTTTTATAAATTTTAATAATTTTAAAAA
Found at i:35626622 original size:10 final size:10
Alignment explanation
Indices: 35626420--35626623 Score: 96
Period size: 10 Copynumber: 19.8 Consensus size: 10
35626410 TATATTTTAT
*
35626420 ATTTTTTAT-
1 ATTTTTAATA
*
35626429 ATTTTTTATAA
1 ATTTTTAAT-A
* *
35626440 ATTTTAAAAA
1 ATTTTTAATA
35626450 ATTTTATATATA
1 ATTTT-TA-ATA
*
35626462 TATTTTTTTATA
1 -A-TTTTTAATA
* *
35626474 AATTTTAATG
1 ATTTTTAATA
35626484 ATTTTTAA-A
1 ATTTTTAATA
35626493 A-TTTTATATA
1 ATTTTTA-ATA
* *
35626503 TTCTTTTTATA
1 AT-TTTTAATA
* *
35626514 AATTTTAATG
1 ATTTTTAATA
35626524 ATTTTT-ATA
1 ATTTTTAATA
* **
35626533 TTTTTTTCTA
1 ATTTTTAATA
35626543 TATTTTTAAT-
1 -ATTTTTAATA
35626553 ATTTTT-ATA
1 ATTTTTAATA
*
35626562 TACTTTTAATA
1 -ATTTTTAATA
35626573 ATTTTTAATA
1 ATTTTTAATA
**
35626583 ATTTTTTTCTAA
1 A-TTTTTAAT-A
35626595 ATTTTTAATA
1 ATTTTTAATA
35626605 ATTTTTTAATA
1 A-TTTTTAATA
*
35626616 AATTTTAA
1 ATTTTTAA
35626624 ATACTTTTCT
Statistics
Matches: 146, Mismatches: 31, Indels: 35
0.69 0.15 0.17
Matches are distributed among these distances:
8 7 0.05
9 24 0.16
10 56 0.38
11 42 0.29
12 11 0.08
13 2 0.01
14 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:35626626 original size:11 final size:11
Alignment explanation
Indices: 35626544--35626626 Score: 75
Period size: 11 Copynumber: 7.9 Consensus size: 11
35626534 TTTTTTCTAT
35626544 ATTTTTAAT--
1 ATTTTTAATAA
*
35626553 ATTTTT-ATAT
1 ATTTTTAATAA
*
35626563 ACTTTTAAT-A
1 ATTTTTAATAA
35626573 ATTTTTAATAA
1 ATTTTTAATAA
* **
35626584 TTTTTTTCTAA
1 ATTTTTAATAA
35626595 ATTTTTAATAA
1 ATTTTTAATAA
*
35626606 TTTTTTAATAA
1 ATTTTTAATAA
*
35626617 ATTTTAAATA
1 ATTTTTAATA
35626627 CTTTTCTATA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.03
9 6 0.10
10 13 0.22
11 37 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTTTAATAA
Done.