Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 232 of 318
Found at i:73744811 original size:20 final size:20
Alignment explanation
Indices: 73744786--73744852 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
73744776 TTATGAATAC
73744786 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
73744806 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
73744826 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
73744846 ACCATGT
1 ATCATGT
73744853 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:73744817 original size:11 final size:11
Alignment explanation
Indices: 73744786--73744841 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
73744776 TTATGAATAC
73744786 ATCATGTGCAT
1 ATCATGTGCAT
*
73744797 ATCA--TACAT
1 ATCATGTGCAT
73744806 ATCATGTGCAT
1 ATCATGTGCAT
*
73744817 ATCA--TACAT
1 ATCATGTGCAT
*
73744826 GTCATGTGCAT
1 ATCATGTGCAT
73744837 ATCAT
1 ATCAT
73744842 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:73749080 original size:68 final size:67
Alignment explanation
Indices: 73749008--73749157 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
73748998 CATCATGTGT
* * * *
73749008 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
73749070 ATGTAG
62 ATGTAG
** * *
73749076 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
73749141 AG
66 AG
73749143 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
73749158 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:73749113 original size:64 final size:64
Alignment explanation
Indices: 73749032--73749215 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
73749022 AGACATTATG
* *
73749032 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
73749096 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
73749161 AA
63 AA
* * * *
73749163 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
73749216 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73752345 original size:28 final size:29
Alignment explanation
Indices: 73752314--73752379 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
73752304 TAAAGTGTTT
*
73752314 TTTGACGAAAA-TGTCAATT-AGGGATTAA
1 TTTGA-GAAAAGTGTAAATTGAGGGATTAA
*
73752342 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGAGAAAAGTGTAAATTGAGGGATTAA
* *
73752371 ATTGTGAAA
1 TTTGAGAAA
73752380 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 12 0.38
29 15 0.47
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
TTTGAGAAAAGTGTAAATTGAGGGATTAA
Found at i:73752856 original size:40 final size:40
Alignment explanation
Indices: 73752791--73752902 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
73752781 ACTATGTTTG
*
73752791 GCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
* * *
73752831 GCACTTAGTGTGC-TAATTGGA-ATAGCTTCAGCTATATGTG
1 GCACTTAGTGTGCGT--TTCGAGATAGCTTCAGCTATATATA
* * * *
73752871 GCACTAAGTGTACGATACTGAGATAGCTTCAG
1 GCACTTAGTGTGCGTTTC-GAGATAGCTTCAG
73752903 TTTAATGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 42 0.72
41 14 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGTTTCGAGATAGCTTCAGCTATATATA
Found at i:73759976 original size:19 final size:18
Alignment explanation
Indices: 73759954--73759990 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
73759944 AATATTTAAA
73759954 TATAAAAATATTTATATAT
1 TATAAAAATA-TTATATAT
*
73759973 TATATAAATATTATATAT
1 TATAAAAATATTATATAT
73759991 GTTTGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAAAATATTATATAT
Found at i:73766424 original size:22 final size:22
Alignment explanation
Indices: 73766399--73766470 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
73766389 ATGTGTGCTA
73766399 GTGTAAGACATGTCTGGGACAT
1 GTGTAAGACATGTCTGGGACAT
* * *
73766421 GTGTCAGCCATAG-CATGAGAGCCA-
1 GTGTAAGACAT-GTC-TG-G-GACAT
*
73766445 GTGTAAGACATGTTTGGGACAT
1 GTGTAAGACATGTCTGGGACAT
73766467 GTGT
1 GTGT
73766471 CGGCCTCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
21 3 0.08
22 15 0.41
23 6 0.16
24 10 0.27
25 3 0.08
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (22 bp):
GTGTAAGACATGTCTGGGACAT
Found at i:73766503 original size:48 final size:47
Alignment explanation
Indices: 73766398--73766703 Score: 219
Period size: 46 Copynumber: 6.5 Consensus size: 47
73766388 TATGTGTGCT
** * *
73766398 AGTGTAAGACATGTCTGGGACATGTGTCAGCC-ATAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAACATGAGAGCC
* ** * * *
73766444 AGTGTAAGACATGTTTGGGACATGTGTCGGCCTCTAAATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCT-AACA-TGAGAGCC
* *
73766492 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAACATGAGAGCC
* * * * *
73766538 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTA-ACA-TGAGAGCC
* * * * * * *
73766586 AGTGTAAGACATGTCTTGAACATGCATCAGCAT-TGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAACATGAGAGCC
* * * * * * * *
73766632 AGTGTAAGACATGTTTGGTATATGCATCGGCCTCGTGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC-TAACATGA-GAGCC
*
73766680 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
73766704 GCGTCAGCTT
Statistics
Matches: 206, Mismatches: 43, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
45 3 0.01
46 99 0.48
47 3 0.01
48 97 0.47
49 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAACATGAGAGCC
Found at i:73766559 original size:94 final size:93
Alignment explanation
Indices: 73766398--73766703 Score: 366
Period size: 94 Copynumber: 3.3 Consensus size: 93
73766388 TATGTGTGCT
** * *
73766398 AGTGTAAGACATGTCTGGGACATGTGTCAGCCATAGCATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATG-TTAGG
** *
73766463 ACATGTGTCGGCCTCTAAATATTTAAGCC
65 ACATGCATCGGCCTCTAGATATTTAAGCC
73766492 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGT-TAGG
*
73766557 ACATGCATCGGCCTCGAGATATTTAAGCC
65 ACATGCATCGGCCTCTAGATATTTAAGCC
* * * * * *
73766586 AGTGTAAGACATGTCTTGAACATGCATCAG-CATTGAG-ACGAGAGCTAGTGTAAGACATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCATGAGAGCCAGTGTAAGACATGTTAG
* ** *
73766649 GTATATGCATCGGCCTCGT-GATATACAAGCT
64 G-ACATGCATCGGCCTC-TAGATATTTAAGCC
*
73766680 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
73766704 GCGTCAGCTT
Statistics
Matches: 185, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
93 6 0.03
94 177 0.96
95 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCCAGTGTAAGACATGTTAGGA
CATGCATCGGCCTCTAGATATTTAAGCC
Found at i:73766562 original size:46 final size:47
Alignment explanation
Indices: 73766398--73766616 Score: 203
Period size: 48 Copynumber: 4.7 Consensus size: 47
73766388 TATGTGTGCT
** *
73766398 AGTGTAAGACATGTCTGGGACATGTGTCAGCCA-TAGCA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGCATTGA-AGCC
* ** * * ** *
73766444 AGTGTAAGACATGTTTGGGACATGTGTCGGCCTCTAAATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AAGCATTGAAGCC
73766492 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGCA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGCATTGA-AGCC
* * * * * *
73766538 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAG-CATTGAAGCC
* *
73766586 AGTGTAAGACATGTCTTGAACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
73766617 ATTGAGACGA
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 67 0.47
47 2 0.01
48 68 0.48
49 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGCATTGAAGCC
Found at i:73768414 original size:49 final size:49
Alignment explanation
Indices: 73768342--73768467 Score: 153
Period size: 49 Copynumber: 2.6 Consensus size: 49
73768332 TGTGGTGTGT
** *
73768342 CAGTGTAAGATTTGTTTGGGACATGGCATCAACCCCGATAGATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCAACCCCGATAGATGAGAGC
* * * * * *
73768391 CAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGCTATATGATAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCAACCCCGATAGATGAGAGC
*
73768440 CAGTGTAAGACTATGTCTAGGACATGGC
1 CAGTGTAAGAC-ATGTCTGGGACATGGC
73768468 GTCGACATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 52 0.79
50 14 0.21
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCAACCCCGATAGATGAGAGC
Found at i:73776458 original size:43 final size:42
Alignment explanation
Indices: 73776411--73776494 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
73776401 AGGATTTCTG
* *
73776411 ATATCAATTTTGCATGTAAGACCATGTCTGGGACATTGGCATT
1 ATATCAAGTTT-CATGTAAGACCATGTCTGGGACAGTGGCATT
** * *
73776454 ATATCTGGTTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 ATATCAAGTTTCATGTAAGACCATGTCTGGGACAGTGGCAT
73776495 CGATGTTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
ATATCAAGTTTCATGTAAGACCATGTCTGGGACAGTGGCATT
Found at i:73777978 original size:48 final size:46
Alignment explanation
Indices: 73777915--73778195 Score: 196
Period size: 49 Copynumber: 5.9 Consensus size: 46
73777905 CAGCCACAAC
*
73777915 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGA-A
* * * *
73777962 TATTTA-AGCCATTGTAAGACATGTTTGGGACATGCATCGGCATTGAA
1 -A-TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAA
* * * *
73778009 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCGTCAGC-TTG--
1 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCGAA
* * * * **
73778053 -TGGTGTGTCAGTGTAAGGCATGTCTGGGACATGACATCAACATCGATA
1 AT-GAGAGCCAGTGTAAGACATGTCTGGGACATG-CATCGGCATCGA-A
* * * *
73778101 GATGAGAGACAGTGTAAGACCTGTCTGGGACATAGCATCGGCCTCGCTAT
1 -ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCG--AA
* * *
73778151 ATGA-ATGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCATC
1 ATGAGA-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATC
73778196 TTAACCCATG
Statistics
Matches: 182, Mismatches: 35, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 30 0.16
45 4 0.02
46 28 0.15
47 7 0.04
48 38 0.21
49 49 0.27
50 23 0.13
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAA
Found at i:73780594 original size:42 final size:43
Alignment explanation
Indices: 73780535--73780639 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
73780525 TCATGACTGA
* * *
73780535 GATTTCGTATAAGACCATATCTGGGATATGG-GATCGATATG-T
1 GATTTCATATAAGACCATATCAGGGACATGGTG-TCGATATGAT
*
73780577 GATTTCATATAAGACCATGTCAGGGACATGGTGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGACATGGTGTCGATATGAT
*
73780620 -ACTTCATGA-AAGACCATATC
1 GATTTCAT-ATAAGACCATATC
73780640 CAGAATATGG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 51 0.94
43 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (43 bp):
GATTTCATATAAGACCATATCAGGGACATGGTGTCGATATGAT
Found at i:73783602 original size:13 final size:13
Alignment explanation
Indices: 73783584--73783610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73783574 GGAGTAATCG
73783584 CACACGGGCGTGT
1 CACACGGGCGTGT
73783597 CACACGGGCGTGT
1 CACACGGGCGTGT
73783610 C
1 C
73783611 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:73791726 original size:18 final size:19
Alignment explanation
Indices: 73791707--73791742 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73791697 GAAATGGCCT
73791707 AATGGGCCAGAATGGGCTA
1 AATGGGCCAGAATGGGCTA
*
73791726 AATGGGCCCG-ATGGGCT
1 AATGGGCCAGAATGGGCT
73791743 GTTGGGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
AATGGGCCAGAATGGGCTA
Found at i:73791841 original size:28 final size:27
Alignment explanation
Indices: 73791810--73791954 Score: 114
Period size: 28 Copynumber: 5.1 Consensus size: 27
73791800 GTGAACATGA
73791810 ATATAATGTGATTTGGG-CTAAATGGGCC
1 ATATAATGTGA-TTGGGCCT-AATGGGCC
* *
73791838 ATATAAAG-GAAATTGGGCCTAATAGGCC
1 ATATAATGTG--ATTGGGCCTAATGGGCC
* *
73791866 ATAGGAATGTGAATTGGGCCTGATGGGCC
1 ATA-TAATGTG-ATTGGGCCTAATGGGCC
** **
73791895 ATATGAACATGATTGGGCCGGATGGGCC
1 ATAT-AATGTGATTGGGCCTAATGGGCC
* *
73791923 ATATAAATGAGATTGGGCCTAGTGGGCC
1 ATAT-AATGTGATTGGGCCTAATGGGCC
73791951 ATAT
1 ATAT
73791955 GCATGTATGT
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.01
28 63 0.67
29 29 0.31
30 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (27 bp):
ATATAATGTGATTGGGCCTAATGGGCC
Found at i:73803617 original size:29 final size:29
Alignment explanation
Indices: 73803575--73803633 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
73803565 ATCGAGGCTA
73803575 AATCATATCACTCATTACTAACACTTAAC
1 AATCATATCACTCATTACTAACACTTAAC
*
73803604 AATCATATCACTCATTAGTAACACTTAAC
1 AATCATATCACTCATTACTAACACTTAAC
73803633 A
1 A
73803634 TATTTACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (29 bp):
AATCATATCACTCATTACTAACACTTAAC
Found at i:73803671 original size:15 final size:17
Alignment explanation
Indices: 73803653--73803684 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
73803643 TAGCATAATT
73803653 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
73803668 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
73803685 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:73811712 original size:22 final size:22
Alignment explanation
Indices: 73811681--73811724 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
73811671 ATTTATTAAC
*
73811681 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
73811703 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
73811725 GATCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:73815663 original size:25 final size:26
Alignment explanation
Indices: 73815621--73815674 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
73815611 TTATCCTAAA
*
73815621 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
73815647 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
73815672 TTT
1 TTT
73815675 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:73819647 original size:18 final size:18
Alignment explanation
Indices: 73819624--73819658 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
73819614 GCCCAAAAAT
73819624 CCCACATGCCTGTGTGGG
1 CCCACATGCCTGTGTGGG
73819642 CCCACATGCCTGTGTGG
1 CCCACATGCCTGTGTGG
73819659 CCAACACGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.34, G:0.31, T:0.23
Consensus pattern (18 bp):
CCCACATGCCTGTGTGGG
Found at i:73823327 original size:6 final size:6
Alignment explanation
Indices: 73823309--73823404 Score: 56
Period size: 6 Copynumber: 15.7 Consensus size: 6
73823299 AAGAAACATT
* * * *
73823309 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
73823358 ATCAGA ATCAGA ATCA-A TATTCGGTA A-CAGA ATCAAA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAGA -A-TCAG-A ATCAGA ATCAGA ATCAGA ATCA
73823405 ATATCAGGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.07
6 58 0.83
7 4 0.06
8 2 0.03
9 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:73823361 original size:37 final size:37
Alignment explanation
Indices: 73823320--73823404 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
73823310 TCAGAACTAG
*
73823320 AATCAGAATCAGAATCAGA-ATTAGGTGACAAAATCAA
1 AATCAGAATCAGAATCA-ATATTAGGTAACAAAATCAA
* *
73823357 AATCAGAATCAGAATCAATATTCGGTAACAGAATCAA
1 AATCAGAATCAGAATCAATATTAGGTAACAAAATCAA
73823394 AATCAGAATCA
1 AATCAGAATCA
73823405 ATATCAGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAATATTAGGTAACAAAATCAA
Found at i:73823392 original size:31 final size:31
Alignment explanation
Indices: 73823357--73823434 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
73823347 ACAAAATCAA
*
73823357 AATCAGAATCAGAATCAATATTC-GGTAACAG
1 AATCAAAATCAGAATCAATA-TCAGGTAACAG
73823388 AATCAAAATCAGAATCAATATCAGGTAACAG
1 AATCAAAATCAGAATCAATATCAGGTAACAG
*
73823419 AATAAAAAATCAGAAT
1 AAT-CAAAATCAGAAT
73823435 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.05
31 30 0.70
32 11 0.26
ACGTcount: A:0.53, C:0.14, G:0.13, T:0.21
Consensus pattern (31 bp):
AATCAAAATCAGAATCAATATCAGGTAACAG
Found at i:73823631 original size:31 final size:32
Alignment explanation
Indices: 73823574--73823635 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
73823564 ACGAAGTCAC
* *
73823574 CAGATATAGATATCGTGGCTAGGCCACCAGAA
1 CAGATATAGATATCGTGGCGAAGCCACCAGAA
*
73823606 CAGATATATATAT-GTGGCGAAGCCACCAGA
1 CAGATATAGATATCGTGGCGAAGCCACCAGA
73823636 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (32 bp):
CAGATATAGATATCGTGGCGAAGCCACCAGAA
Found at i:73824157 original size:27 final size:27
Alignment explanation
Indices: 73823881--73824151 Score: 319
Period size: 27 Copynumber: 10.0 Consensus size: 27
73823871 GGGGCAAAAT
* * * *
73823881 GGTAATTTTACCCGACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
73823908 GGTAATGT-TACCCTACAGAGATATTTC
1 GGTAAT-TCTACCCTACAGGGGTATTTC
* * *
73823935 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
73823962 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
73823989 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
73824016 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
73824043 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
73824070 GGTAATTCTACCTTGCAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
73824097 AGTTATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** **
73824124 AATAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
73824151 G
1 G
73824152 ACAATTTCAC
Statistics
Matches: 207, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 205 0.99
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:73824173 original size:81 final size:81
Alignment explanation
Indices: 73823940--73824175 Score: 190
Period size: 81 Copynumber: 2.9 Consensus size: 81
73823930 ATTTCGGTAT
* * ** * ** * ** *
73823940 TTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACCCTA
1 TTCTACCCTACAGGGGTATTTCAATAATTCTACCATACAAAGGTATTTCGA-CAATTCTACAATG
* *
73824004 CAGGGGTATTTCGGTAA
65 CAGGGGTATTCCAGTAA
* ** ** ** **
73824021 TTTTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCTTGC
1 TTCTACCCTACAGGGGTATTTCAATAATTCTACCATACAAAGGTATTTCGACAATTCTACAATGC
* *
73824086 AAGGGTATTCCAGTTA
66 AGGGGTATTCCAGTAA
* *
73824102 TTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAAAGGTATTTCGACAATT-TCACAAAT
1 TTCTACCCTACAGGGGTATTTCAATAATTCTACCATACAAAGGTATTTCGACAATTCT-AC-AAT
73824166 -CAGGGGTATT
64 GCAGGGGTATT
73824176 TTGGTAATTT
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 127 0.98
82 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TTCTACCCTACAGGGGTATTTCAATAATTCTACCATACAAAGGTATTTCGACAATTCTACAATGC
AGGGGTATTCCAGTAA
Found at i:73824263 original size:27 final size:27
Alignment explanation
Indices: 73824233--73824522 Score: 409
Period size: 27 Copynumber: 10.7 Consensus size: 27
73824223 GGGTATTTCA
* *
73824233 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
73824260 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
73824287 GTAATTCTGTAAATCAAGGGTAAGACG
1 GTAATTCTATAAATCGAGGGTAAAATG
73824314 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
73824341 ATAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
73824368 GTAATTCTATAAATCAAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
73824395 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
73824422 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
73824449 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
73824476 GTAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
73824503 GTAATTTTAGAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
73824523 CATTTCAATA
Statistics
Matches: 234, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 234 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:73833545 original size:46 final size:45
Alignment explanation
Indices: 73833478--73833646 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
73833468 AACCCGCCCC
* *
73833478 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* *
73833524 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
73833572 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
73833617 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
73833647 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 56 0.54
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:73833591 original size:93 final size:93
Alignment explanation
Indices: 73833483--73833653 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
73833473 GCCCCTAAGT
* * *
73833483 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73833548 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
73833576 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
73833641 CGAGTTTGGATGC
66 CGAGTTCGGATGC
73833654 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:73834109 original size:30 final size:30
Alignment explanation
Indices: 73834075--73834135 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
73834065 CATTTAATAC
*
73834075 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATCACACTTTTGCCCCT
* * *
73834105 AAACTTTTGCATAATCACACTTTTGCCCCT
1 AAACTTTGGAAAAATCACACTTTTGCCCCT
73834135 A
1 A
73834136 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.34
Consensus pattern (30 bp):
AAACTTTGGAAAAATCACACTTTTGCCCCT
Found at i:73837237 original size:41 final size:40
Alignment explanation
Indices: 73837192--73837280 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 40
73837182 CTGAACCCAT
* * * *
73837192 TACAGAATCAGATACAAATTAAGGCCTTAGCCCAGCTCAGA
1 TACAGAATCAGAAACAAATTAAGGCCTCAGCACA-ATCAGA
* * *
73837233 TACAGAATCAGAAATATATTAGGGCCTCAGCACAATCAGA
1 TACAGAATCAGAAACAAATTAAGGCCTCAGCACAATCAGA
73837273 TACAGAAT
1 TACAGAAT
73837281 GCATATCAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 13 0.32
41 28 0.68
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (40 bp):
TACAGAATCAGAAACAAATTAAGGCCTCAGCACAATCAGA
Found at i:73848803 original size:16 final size:14
Alignment explanation
Indices: 73848758--73848795 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
73848748 CGAAATTAAA
* *
73848758 AATTGTAAAATAGT
1 AATTATAAAATAAT
73848772 AATTATAAAATAAT
1 AATTATAAAATAAT
73848786 AATTATAAAA
1 AATTATAAAA
73848796 CCTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (14 bp):
AATTATAAAATAAT
Found at i:73856335 original size:120 final size:120
Alignment explanation
Indices: 73856192--73856431 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
73856182 TACAATCATT
*
73856192 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATCATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* *
73856257 TATTTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
73856312 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
*
73856377 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
73856432 TTCTATTAAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
Found at i:73856384 original size:26 final size:25
Alignment explanation
Indices: 73856346--73856404 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
73856336 ATTAAATTAT
*
73856346 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
73856372 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
73856398 ATATTAT
1 ATATTAT
73856405 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:73856403 original size:15 final size:15
Alignment explanation
Indices: 73856359--73856414 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
73856349 TTTTTGTTAA
*
73856359 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
73856374 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
73856385 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
73856400 ATTATATATTATAAT
1 ATTATATTTTATAAT
73856415 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:73856655 original size:21 final size:21
Alignment explanation
Indices: 73856631--73856683 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
73856621 CATTGTTTCT
*
73856631 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
73856652 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
73856673 AATCTCACCGC
1 AATCTCACCGC
73856684 CACCGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:73857103 original size:49 final size:49
Alignment explanation
Indices: 73857043--73857259 Score: 170
Period size: 49 Copynumber: 4.4 Consensus size: 49
73857033 GTACGCATAG
*
73857043 TAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAA
1 TAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAA
* * ** * *
73857092 TAGGCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGT-A
1 TAGCCTACACTTAGTACTACACATGTGACC-AATTATCCGGTACACGTAA
* * * * * * * * * *
73857141 GAGCCTGCACTTAGTACTGCAGTCGTTTTTGA--AGTTATCGGGTACGCATAG
1 TAGCCTACACTTAGTACTACA--C--ATGTGACCAATTATCCGGTACACGTAA
* * *
73857192 TAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
1 TAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAA
* *
73857241 TAGCCTGCAGTTAGTACTA
1 TAGCCTACACTTAGTACTA
73857260 TACACTTGAC
Statistics
Matches: 125, Mismatches: 35, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
47 3 0.02
49 77 0.62
50 23 0.18
51 19 0.15
53 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAA
Found at i:73860437 original size:12 final size:12
Alignment explanation
Indices: 73860420--73860447 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
73860410 TATGCATTGA
73860420 TAAGTTGATTTT
1 TAAGTTGATTTT
73860432 TAAGTTGATTTT
1 TAAGTTGATTTT
73860444 TAAG
1 TAAG
73860448 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (12 bp):
TAAGTTGATTTT
Found at i:73872225 original size:27 final size:27
Alignment explanation
Indices: 73872185--73872297 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
73872175 AGGAAACGTC
* *
73872185 CTGGTGGCTATGCCATAATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
73872212 CTGGTGGCTCTGCCACAAATATCTATT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
73872239 TTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTGT-T
* * *
73872267 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
73872293 CTGGT
1 CTGGT
73872298 AGCCATACTG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.08
27 55 0.74
28 13 0.18
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:73879891 original size:28 final size:27
Alignment explanation
Indices: 73879860--73879917 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
73879850 CTAGAATGCA
*
73879860 CCTAAGTATGGAAAATTACCATTATACC
1 CCTAAG-ATGGAAAATGACCATTATACC
* *
73879888 CCT-AGGTGTAAAATGACCATTATACC
1 CCTAAGATGGAAAATGACCATTATACC
73879914 CCTA
1 CCTA
73879918 GGGTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 21 0.81
27 2 0.08
28 3 0.12
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (27 bp):
CCTAAGATGGAAAATGACCATTATACC
Found at i:73880065 original size:27 final size:27
Alignment explanation
Indices: 73880025--73880110 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
73880015 AGGAAACGTC
73880025 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
* *
73880052 CTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGT-T
* *
73880080 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
73880106 CTGGT
1 CTGGT
73880111 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.12
27 32 0.62
28 14 0.27
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGTT
Found at i:73885520 original size:24 final size:24
Alignment explanation
Indices: 73885477--73885529 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
73885467 TTTTTCATTT
*
73885477 TAAAAGTTCCATTACTTA-TTCAA
1 TAAAAGTTCCATTACATATTTCAA
73885500 CTAAAAGCTTCCATT-CATATTTCAA
1 -TAAAAG-TTCCATTACATATTTCAA
73885525 TAAAA
1 TAAAA
73885530 TTGGGTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAAAGTTCCATTACATATTTCAA
Found at i:73887283 original size:23 final size:24
Alignment explanation
Indices: 73887230--73887319 Score: 78
Period size: 23 Copynumber: 3.8 Consensus size: 24
73887220 GGACTCACCG
*
73887230 CAGCTCGTAAGAGCTTACTGTTCT
1 CAGCTCGTAAGAGCTTACTGATCT
* * *
73887254 CAGCTCGTATGATCTTATTGAT-T
1 CAGCTCGTAAGAGCTTACTGATCT
* * *
73887277 CAGCTCGTCAGAGCTTACCG-TTT
1 CAGCTCGTAAGAGCTTACTGATCT
*
73887300 CAGCTC-AATAGAGCTTACTG
1 CAGCTCGTA-AGAGCTTACTG
73887320 TCCATCAACC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
22 1 0.02
23 33 0.63
24 18 0.35
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGATCT
Found at i:73890119 original size:15 final size:15
Alignment explanation
Indices: 73890096--73890125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73890086 AAACCTTAAC
73890096 TTCTCGAAGTAATGA
1 TTCTCGAAGTAATGA
*
73890111 TTCTTGAAGTAATGA
1 TTCTCGAAGTAATGA
73890126 AAAGACTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (15 bp):
TTCTCGAAGTAATGA
Found at i:73890607 original size:24 final size:25
Alignment explanation
Indices: 73890562--73890608 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
73890552 ATTTTCCAAG
*
73890562 TTCCATTACTTATTCCACTAAAAGC
1 TTCCATTACATATTCCACTAAAAGC
* *
73890587 TTCCATT-CATATTTCATTAAAA
1 TTCCATTACATATTCCACTAAAA
73890609 TTGGGTCGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (25 bp):
TTCCATTACATATTCCACTAAAAGC
Found at i:73896681 original size:40 final size:39
Alignment explanation
Indices: 73896597--73896781 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
73896587 TCGAATGATG
* * * *
73896597 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
73896637 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
73896677 TCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
73896716 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
73896757 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
73896782 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:73896803 original size:79 final size:79
Alignment explanation
Indices: 73896650--73896814 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
73896640 GGACTAAGAT
* *
73896650 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
73896715 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
73896729 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
73896792 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
73896808 CCGAAGG
1 CCGAAGG
73896815 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:73897801 original size:16 final size:16
Alignment explanation
Indices: 73897780--73897812 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
73897770 TCATGCCATA
73897780 TATGTATAGATTCCTC
1 TATGTATAGATTCCTC
73897796 TATGTATAGATTCCTC
1 TATGTATAGATTCCTC
73897812 T
1 T
73897813 TTGAGTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TATGTATAGATTCCTC
Found at i:73904888 original size:40 final size:39
Alignment explanation
Indices: 73904804--73904988 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
73904794 TCGAATGATG
* * * *
73904804 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
73904844 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
73904884 TCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
73904923 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
73904964 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
73904989 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:73905010 original size:79 final size:79
Alignment explanation
Indices: 73904857--73905021 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
73904847 GGACTAAGAT
* **
73904857 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
73904922 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
73904936 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
73904999 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
73905015 CCGAAGG
1 CCGAAGG
73905022 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:73913414 original size:16 final size:16
Alignment explanation
Indices: 73913393--73913424 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
73913383 CTACTATAGG
*
73913393 TAGTAGACTGTACTGA
1 TAGTAGACTATACTGA
73913409 TAGTAGACTATACTGA
1 TAGTAGACTATACTGA
73913425 AATATTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (16 bp):
TAGTAGACTATACTGA
Found at i:73918869 original size:14 final size:14
Alignment explanation
Indices: 73918850--73918876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73918840 GATATGTATA
73918850 CATAGTTTTTTTTG
1 CATAGTTTTTTTTG
73918864 CATAGTTTTTTTT
1 CATAGTTTTTTTT
73918877 AAGAACAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (14 bp):
CATAGTTTTTTTTG
Found at i:73926855 original size:10 final size:10
Alignment explanation
Indices: 73926823--73926856 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
73926813 CGTTTTGTCC
73926823 CTTTTTGGCT
1 CTTTTTGGCT
73926833 CGTTTTTGGCT
1 C-TTTTTGGCT
*
73926844 CTTTTTGACT
1 CTTTTTGGCT
73926854 CTT
1 CTT
73926857 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:73931767 original size:23 final size:24
Alignment explanation
Indices: 73931725--73931781 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
73931715 AGCTCGTAAG
*
73931725 AGCTTACTGTTCTCAACTC-ATCAA
1 AGCTTACTATTCTCAACTCAAT-AA
*
73931749 AGCTTACTATT-TCAACTCAATAG
1 AGCTTACTATTCTCAACTCAATAA
73931772 AGCTTACTAT
1 AGCTTACTAT
73931782 CTATCAGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.35
Consensus pattern (24 bp):
AGCTTACTATTCTCAACTCAATAA
Found at i:73931974 original size:19 final size:19
Alignment explanation
Indices: 73931950--73932014 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
73931940 AAAATCTATG
73931950 TGTTATATGGATGAATTAC
1 TGTTATATGGATGAATTAC
*
73931969 TGTTATATGGATGAATTAT
1 TGTTATATGGATGAATTAC
* * * *
73931988 TGTTCAAAAGGATGAGTTGC
1 TGTT-ATATGGATGAATTAC
73932008 TGTTATA
1 TGTTATA
73932015 GAATGATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.63
20 14 0.37
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.42
Consensus pattern (19 bp):
TGTTATATGGATGAATTAC
Found at i:73936979 original size:28 final size:29
Alignment explanation
Indices: 73936925--73936984 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
73936915 ATTTATTTCA
* *
73936925 CAATTTAACCCCTCAATTTACACTTTTAT
1 CAATTAAACCCCTCAATTGACACTTTTAT
* * *
73936954 CAATTAAATCCCT-AATTGACATTTTTGT
1 CAATTAAACCCCTCAATTGACACTTTTAT
73936982 CAA
1 CAA
73936985 AAATTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.40
Consensus pattern (29 bp):
CAATTAAACCCCTCAATTGACACTTTTAT
Found at i:73939165 original size:40 final size:40
Alignment explanation
Indices: 73939077--73939291 Score: 355
Period size: 40 Copynumber: 5.4 Consensus size: 40
73939067 AACCCAAGTA
* *
73939077 CCTTCGGGATTTAG-CCGGATATAGCT-A-TCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
73939115 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
73939155 CCTTCTGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
73939195 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73939235 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
73939275 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
73939292 AGTTATCATC
Statistics
Matches: 166, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
38 14 0.08
39 11 0.07
40 141 0.85
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:73943393 original size:27 final size:27
Alignment explanation
Indices: 73943363--73943513 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
73943353 ATATTGAGTC
* *
73943363 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
73943390 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
73943418 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
73943445 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
73943472 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
73943499 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73943514 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:73951454 original size:27 final size:27
Alignment explanation
Indices: 73951424--73951601 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
73951414 ATATTAAGTC
* *
73951424 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
73951451 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
73951478 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
73951506 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
73951533 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
73951560 CGCACACTTGGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
73951587 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73951602 GTACAATTCA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:73951563 original size:82 final size:81
Alignment explanation
Indices: 73951445--73951600 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
73951435 TGCTATATAA
* *
73951445 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
73951510 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
73951527 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTGGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
73951591 CACTTAGTGC
65 CACTTAGTGC
73951601 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:73951584 original size:54 final size:54
Alignment explanation
Indices: 73951424--73951600 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
73951414 ATATTAAGTC
* * * *
73951424 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
73951478 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
73951533 CGCACACTTAGTGCATCATATTCATTTCGCACACTTGGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
73951587 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73951601 TGTACAATTC
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:73951613 original size:82 final size:83
Alignment explanation
Indices: 73951424--73951613 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
73951414 ATATTAAGTC
* * * * *
73951424 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
73951488 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
73951506 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
*
73951567 TTGGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
73951587 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
73951614 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 68 0.76
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:73963929 original size:15 final size:14
Alignment explanation
Indices: 73963878--73963936 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 14
73963868 AAGGGAAGGG
*
73963878 AAAAG-GAAAGAAA
1 AAAAGAGAAGGAAA
*
73963891 AAAA-AGAAGG-AG
1 AAAAGAGAAGGAAA
*
73963903 AATAGAGAAAGGAAGA
1 AAAAGAG-AAGGAA-A
73963919 AAAAGAGAAGGAAA
1 AAAAGAGAAGGAAA
73963933 AAAA
1 AAAA
73963937 TAAATAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
12 4 0.11
13 10 0.28
14 9 0.25
15 7 0.19
16 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (14 bp):
AAAAGAGAAGGAAA
Found at i:73964782 original size:12 final size:12
Alignment explanation
Indices: 73964767--73964791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73964757 AAATGGAAGA
73964767 TGAGTTGGAATT
1 TGAGTTGGAATT
73964779 TGAGTTGGAATT
1 TGAGTTGGAATT
73964791 T
1 T
73964792 ATAAGATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (12 bp):
TGAGTTGGAATT
Found at i:73965101 original size:1 final size:1
Alignment explanation
Indices: 73965097--73965141 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
73965087 TGCCTGTAGA
73965097 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
73965142 CTTATCACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:73968750 original size:56 final size:56
Alignment explanation
Indices: 73968688--73968813 Score: 166
Period size: 56 Copynumber: 2.2 Consensus size: 56
73968678 CACGGACGTA
* *
73968688 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GTACACTAAGTGCCATCTTCAATAAT
1 TCGCACACTAAGTGCCATTCCTGGATGT-TTCGCACACTAAGTGCCATCCT-AATAAT
* * * *
73968744 TTGCACACTAAGTGCTATTTCTGGATGTTTCGCACACTAAGTTCCATCCTAATAAT
1 TCGCACACTAAGTGCCATTCCTGGATGTTTCGCACACTAAGTGCCATCCTAATAAT
73968800 TCGCACACTAAGTG
1 TCGCACACTAAGTG
73968814 TCGTTTTCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
56 36 0.59
57 25 0.41
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATTCCTGGATGTTTCGCACACTAAGTGCCATCCTAATAAT
Found at i:73974063 original size:47 final size:47
Alignment explanation
Indices: 73974000--73974303 Score: 518
Period size: 47 Copynumber: 6.5 Consensus size: 47
73973990 ATTCAGCCAA
73974000 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
73974047 GAAACTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
73974094 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
73974141 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
73974188 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
73974235 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
73974282 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
73974304 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:73974472 original size:37 final size:37
Alignment explanation
Indices: 73974422--73974522 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 37
73974412 CCGAGCTCTA
*
73974422 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
73974459 AAGACCCGATGACTACGTGTGGAGA-TTTGTCCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
* *
73974495 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
73974523 CGTCTGAGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 33 0.55
37 27 0.45
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
Found at i:73975845 original size:40 final size:40
Alignment explanation
Indices: 73975799--73976021 Score: 356
Period size: 40 Copynumber: 5.6 Consensus size: 40
73975789 GAGTGAAATG
73975799 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
73975839 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
73975879 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
73975919 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * * *
73975959 TCCGGACTAAGTTCTGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
73975999 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
73976022 ATCATGCTGG
Statistics
Matches: 166, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 166 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:73979877 original size:47 final size:47
Alignment explanation
Indices: 73979818--73980073 Score: 424
Period size: 47 Copynumber: 5.5 Consensus size: 47
73979808 ATTCAGCCAA
73979818 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
73979865 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
73979912 GAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
73979958 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
73980005 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
73980052 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
73980074 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 46 0.23
47 150 0.77
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:73979977 original size:93 final size:94
Alignment explanation
Indices: 73979818--73980073 Score: 424
Period size: 93 Copynumber: 2.7 Consensus size: 94
73979808 ATTCAGCCAA
*
73979818 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
73979883 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
73979912 GAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
*
73979976 TAAGGCCTAATGGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * *
73980005 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
73980070 TAAG
66 TAAG
73980074 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
93 88 0.58
94 65 0.42
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:73980070 original size:140 final size:140
Alignment explanation
Indices: 73979818--73980073 Score: 431
Period size: 140 Copynumber: 1.8 Consensus size: 140
73979808 ATTCAGCCAA
73979818 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
73979883 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCATG
66 CAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCATG
73979948 TGATGAATGT
131 TGATGAATGT
73979958 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
73980023 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 CAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
73980074 TCCCGAAGGG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 107 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (140 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
CAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCATG
TGATGAATGT
Found at i:73980274 original size:71 final size:73
Alignment explanation
Indices: 73980191--73980326 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 73
73980181 CCGAGCTCTA
*
73980191 AAGACCCGATGACTACGTGTAGAGA-TTTGTCCGGGTAAGA-CCGATGACTACGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTAGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
73980254 GTCCGGGT
66 GTCCGGGT
*
73980262 AAGACCCGATGACTACGTGTAGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTAGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
73980327 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 25 0.41
72 15 0.25
73 21 0.34
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (73 bp):
AAGACCCGATGACTACGTGTAGAGATTTTGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
GTCCGGGT
Found at i:73980301 original size:37 final size:36
Alignment explanation
Indices: 73980191--73980326 Score: 220
Period size: 35 Copynumber: 3.8 Consensus size: 36
73980181 CCGAGCTCTA
73980191 AAGACCCGATGACTACGTGTAGAGATTTGTCCGGGT
1 AAGACCCGATGACTACGTGTAGAGATTTGTCCGGGT
*
73980227 AAGA-CCGATGACTACGTGTGGAGATTTGTCCGGGT
1 AAGACCCGATGACTACGTGTAGAGATTTGTCCGGGT
73980262 AAGACCCGATGACTACGTGTAGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTAGAGA-TTTGTCCGGGT
* * *
73980299 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTAGAGATTT
73980327 CGTCTGAGCT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
35 34 0.37
36 26 0.28
37 33 0.35
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (36 bp):
AAGACCCGATGACTACGTGTAGAGATTTGTCCGGGT
Found at i:73987102 original size:60 final size:60
Alignment explanation
Indices: 73987029--73987165 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
73987019 AACTGTGTTA
* *
73987029 ATAT-GGCTAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGGTTGATACTG
1 ATATGGGCTAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
73987089 ATATGGGCT-AGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
73987149 ATATGGGCTAAGGCCCA
1 ATATGGGCTAAGGCCCA
73987166 GTTAACACTG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
59 1 0.01
60 47 0.70
61 19 0.28
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:73990232 original size:37 final size:37
Alignment explanation
Indices: 73990124--73990232 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
73990114 GGAAATATAT
*
73990124 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
73990161 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
73990198 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
73990233 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:73998009 original size:11 final size:11
Alignment explanation
Indices: 73997993--73998093 Score: 82
Period size: 11 Copynumber: 9.4 Consensus size: 11
73997983 TTTTGTAGGT
73997993 TTTTGGTGTTG
1 TTTTGGTGTTG
73998004 TTTTGGTGTTG
1 TTTTGGTGTTG
* *
73998015 TTGGTGATGTTG
1 TT-TTGGTGTTG
73998027 -TTTGGTGTTG
1 TTTTGGTGTTG
**
73998037 TTTTTATGTTG
1 TTTTGGTGTTG
* *
73998048 -TTTGGTGCTA
1 TTTTGGTGTTG
**
73998058 TTTTTATGTTG
1 TTTTGGTGTTG
*
73998069 -TTTGGTGCTG
1 TTTTGGTGTTG
*
73998079 TTTTGATGTTG
1 TTTTGGTGTTG
73998090 TTTT
1 TTTT
73998094 ATTGTTCTTT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
10 20 0.30
11 40 0.60
12 7 0.10
ACGTcount: A:0.05, C:0.02, G:0.31, T:0.62
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:73998047 original size:21 final size:21
Alignment explanation
Indices: 73997993--73998092 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
73997983 TTTTGTAGGT
* *
73997993 TTTTGGTGTTGTTTTGGTGTTG
1 TTTTGATGTTG-TTTGGTGCTG
* *
73998015 TTGGTGATGTTGTTTGGTGTTG
1 TT-TTGATGTTGTTTGGTGCTG
* *
73998037 TTTTTATGTTGTTTGGTGCTA
1 TTTTGATGTTGTTTGGTGCTG
*
73998058 TTTTTATGTTGTTTGGTGCTG
1 TTTTGATGTTGTTTGGTGCTG
73998079 TTTTGATGTTGTTT
1 TTTTGATGTTGTTT
73998093 TATTGTTCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
21 48 0.70
22 14 0.20
23 7 0.10
ACGTcount: A:0.05, C:0.02, G:0.31, T:0.62
Consensus pattern (21 bp):
TTTTGATGTTGTTTGGTGCTG
Found at i:73998112 original size:21 final size:22
Alignment explanation
Indices: 73998079--73998125 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
73998069 TTTGGTGCTG
*
73998079 TTTTGATGTTGTTTTATTGTTC
1 TTTTGATGGTGTTTTATTGTTC
*
73998101 TTTTG-TGGTGTTTTATTGTTT
1 TTTTGATGGTGTTTTATTGTTC
73998122 TTTT
1 TTTT
73998126 TGTCATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.06, C:0.02, G:0.19, T:0.72
Consensus pattern (22 bp):
TTTTGATGGTGTTTTATTGTTC
Found at i:73999100 original size:14 final size:14
Alignment explanation
Indices: 73999081--73999115 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
73999071 GACATTTTTT
*
73999081 TTCTAATGATACTA
1 TTCTAACGATACTA
73999095 TTCTAACGATACTA
1 TTCTAACGATACTA
73999109 TTCTAAC
1 TTCTAAC
73999116 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:74002074 original size:50 final size:50
Alignment explanation
Indices: 74001999--74002210 Score: 307
Period size: 50 Copynumber: 4.2 Consensus size: 50
74001989 TAAATGACCA
*
74001999 TGTATATTCGGCCACATAGATATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
74002049 TGTATATTCGGCCACATAGGTATGTACATACGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * ** *
74002099 TGTATATTCAGCCACATAGGTATGTACATAGGTTTTGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * * *
74002149 TGTATATTCGACCATATATGTATTTACATATGTGATGTTATATTTGAACT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
74002199 TGTGTATTCGGC
1 TGTATATTCGGC
74002211 TAAATGAGTG
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 143 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:74010033 original size:50 final size:50
Alignment explanation
Indices: 74009958--74010269 Score: 498
Period size: 50 Copynumber: 6.2 Consensus size: 50
74009948 TAAACGACCA
74009958 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
74010008 TGTATATTCGGCCACATAGGTATGTACATATGTGAAGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
** * *
74010058 TGTATATTCATCCGCATAGGTATGTACATATGTGATGATATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * *
74010108 TGTATATTCGGCCTCAAAGGTATGTACATATGTGATGCTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
74010158 TGTATATTCAGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
74010208 TGTATATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
74010258 TGTGTATTCGGC
1 TGTATATTCGGC
74010270 TAAATGATTG
Statistics
Matches: 241, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 241 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:74013921 original size:39 final size:40
Alignment explanation
Indices: 74013812--74013997 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
74013802 TTCGAATGAT
* * *
74013812 TTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
74013851 TATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAA
1 T-TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
74013892 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
74013931 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-A
1 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
74013970 TAACCGGGCTATGTCCCGAAGGCATTTG
1 T-TCCGGGCTAAGTCCCGAAGGCATTTG
74013998 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:74014019 original size:79 final size:79
Alignment explanation
Indices: 74013868--74014030 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
74013858 ACTAAGATCT
* * **
74013868 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
74013933 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
74013947 GAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
74014010 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
74014026 GAAGG
1 GAAGG
74014031 TACGTGATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:74018132 original size:25 final size:27
Alignment explanation
Indices: 74018083--74018138 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
74018073 AGATTGTTAA
*
74018083 AATTCTTCTAAAAGAAACTCAAAAG-G
1 AATTCTTCGAAAAGAAACTCAAAAGAG
74018109 AATTCTT-GAAAAGAAAACTC-AAAGAG
1 AATTCTTCGAAAAG-AAACTCAAAAGAG
74018135 AATT
1 AATT
74018139 TAATGACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (27 bp):
AATTCTTCGAAAAGAAACTCAAAAGAG
Found at i:74020181 original size:95 final size:96
Alignment explanation
Indices: 74020056--74020235 Score: 263
Period size: 95 Copynumber: 1.9 Consensus size: 96
74020046 TCTCTAGTTG
* * ** * *
74020056 GATATTTAATTGGACATTGGAAACTTTTATGATCTTTTAAACTACACCAATAGCATTACAC-AAA
1 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
* *
74020120 GGTAATATCTCAATTGTATTATCTTTATTTA
66 GGTAATAGCTCAATCGTATTATCTTTATTTA
* *
74020151 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAATATTGCACAAAA
1 GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
74020216 GGTAATAGCTCAATCGTATT
66 GGTAATAGCTCAATCGTATT
74020236 CCTCTTTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 53 0.72
96 21 0.28
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (96 bp):
GATATTTAATTGAACATTAGAAACCATTATGAACTTTTAAACTACACCAATAACATTACACAAAA
GGTAATAGCTCAATCGTATTATCTTTATTTA
Found at i:74029293 original size:46 final size:46
Alignment explanation
Indices: 74029114--74029322 Score: 185
Period size: 46 Copynumber: 4.5 Consensus size: 46
74029104 ATTGTGTGCT
* * ** **
74029114 AGTGTAAGACATGTCTGGGACATGAATCGGCCACATTATCAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTAAGCC
** * *
74029160 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGTA-AGCC
* * *
74029208 AGTGTAAGACATGTTTGGGACATGCATTGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGTAAGCC
* * *
74029254 AGTGTAAGACATGCCTGGGACATGTATCGGCTACAAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTAAGCC
74029298 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
74029323 GCTTCAGCAT
Statistics
Matches: 134, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 56 0.42
47 31 0.23
48 20 0.15
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTAAGCC
Found at i:74030013 original size:31 final size:31
Alignment explanation
Indices: 74029975--74030036 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
74029965 GAATGCAAAG
74029975 TAGTCTTTCATGAATGTCAAATTGTTGGTAT
1 TAGTCTTTCATGAATGTCAAATTGTTGGTAT
*
74030006 TAGTCTTTCATGAATGTGAAATTGTTGGTAT
1 TAGTCTTTCATGAATGTCAAATTGTTGGTAT
74030037 GCTTGAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (31 bp):
TAGTCTTTCATGAATGTCAAATTGTTGGTAT
Found at i:74038532 original size:44 final size:44
Alignment explanation
Indices: 74038468--74038596 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 44
74038458 ATAGGATTTT
*
74038468 GATATGTGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* ** *
74038511 GATTTGAGATTTACGTGTAAGACCTTGTTTGGGACAG-TGGCATC
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATC
* * *
74038555 GATATGCGA-TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
74038597 TGTACGAGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 38 0.54
44 32 0.45
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (44 bp):
GATATGAGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:74041017 original size:22 final size:21
Alignment explanation
Indices: 74040974--74041017 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
74040964 AACAATATGT
* *
74040974 AAAATTCAATATTGTTTGAAA
1 AAAAATCAATATCGTTTGAAA
74040995 AAAAATCAATATCGTTTGAAA
1 AAAAATCAATATCGTTTGAAA
74041016 AA
1 AA
74041018 CATTTACCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAATCAATATCGTTTGAAA
Found at i:74041597 original size:27 final size:25
Alignment explanation
Indices: 74041545--74041597 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
74041535 AAACTTTTCT
*
74041545 AAAAGAAACTCAAGAGGAATTCTTG
1 AAAAGAAACTCAAGAGGAATTATTG
74041570 AAAAGAAAACTCGAAGA-GAATTTATTG
1 AAAAG-AAACTC-AAGAGGAA-TTATTG
74041597 A
1 A
74041598 CTCAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 9 0.38
27 10 0.42
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGGAATTATTG
Found at i:74045975 original size:45 final size:45
Alignment explanation
Indices: 74045911--74046066 Score: 161
Period size: 45 Copynumber: 3.4 Consensus size: 45
74045901 TTTCCATGGC
* * * *
74045911 GTCTTTCAGCCATAGTCTTATTTATTTTCGACTTAATGTCATAGT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
* * *
74045956 GTCTTTCAACTATGGTCTTACTCATTTTCCATCATT-TTGTCATAGT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGA-C-TTATTGTCATAGT
* * * * * * *
74046002 GTCATTCAACTATGGTCTTATTTGTTTCCGTCATATTGCCATAAT
1 GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
74046047 GTCTTTCAACTATGGTCTTA
1 GTCTTTCAACTATGGTCTTA
74046067 CAGGTTTGAA
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 53 0.59
46 34 0.38
47 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTATTTATTTTCGACTTATTGTCATAGT
Found at i:74046010 original size:46 final size:46
Alignment explanation
Indices: 74045947--74046067 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 46
74045937 TTCGACTTAA
*
74045947 TGTCATAGTGTCTTTCAACTATGGTCTTACTCAT-TTTCCATCATTT
1 TGTCATAGTGTCTTTCAACTATGGTCTTACT-ATGTTTCCATCATAT
* * *
74045993 TGTCATAGTGTCATTCAACTATGGTCTTA-TTTGTTTCCGTCATAT
1 TGTCATAGTGTCTTTCAACTATGGTCTTACTATGTTTCCATCATAT
* *
74046038 TGCCATAATGTCTTTCAACTATGGTCTTAC
1 TGTCATAGTGTCTTTCAACTATGGTCTTAC
74046068 AGGTTTGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 37 0.56
46 28 0.42
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (46 bp):
TGTCATAGTGTCTTTCAACTATGGTCTTACTATGTTTCCATCATAT
Found at i:74051001 original size:23 final size:23
Alignment explanation
Indices: 74050949--74051004 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
74050939 TAAAGAATAA
*
74050949 AATTATTATTTTATTAAAATTTTT
1 AATTATTATTTTATTAAAA-TATT
* *
74050973 ATTTATTTTTTTCATTAAAA-ATT
1 AATTATTATTTT-ATTAAAATATT
74050996 AATTATTAT
1 AATTATTAT
74051005 ATATCAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 9 0.35
24 10 0.38
25 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTATTATTTTATTAAAATATT
Found at i:74052354 original size:17 final size:18
Alignment explanation
Indices: 74052322--74052360 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
74052312 ATTATGTTGT
74052322 TTTTAATAAAATTTATAA
1 TTTTAATAAAATTTATAA
*
74052340 TTTTAA-AATATTTATAA
1 TTTTAATAAAATTTATAA
74052357 TTTT
1 TTTT
74052361 TTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATAAAATTTATAA
Found at i:74052361 original size:18 final size:18
Alignment explanation
Indices: 74052321--74052367 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
74052311 TATTATGTTG
*
74052321 TTTTTAATAAAATTTATAA
1 TTTTTAA-AATATTTATAA
74052340 -TTTTAAAATATTTATAA
1 TTTTTAAAATATTTATAA
*
74052357 TTTTTTAAATA
1 TTTTTAAAATA
74052368 ATTTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTAAAATATTTATAA
Found at i:74052362 original size:19 final size:18
Alignment explanation
Indices: 74052321--74052371 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
74052311 TATTATGTTG
74052321 TTTTTAATAAAATTTATAA
1 TTTTTAA-AAAATTTATAA
*
74052340 -TTTTAAAATATTTATAA
1 TTTTTAAAAAATTTATAA
*
74052357 TTTTTTAAATAATTT
1 -TTTTTAAAAAATTT
74052372 TACTTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAAATTTATAA
Found at i:74054487 original size:23 final size:23
Alignment explanation
Indices: 74054432--74054487 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
74054422 CCATTTCGGA
* *
74054432 AAGGGACTTATCCAAAGAATGCC
1 AAGGTACTTTTCCAAAGAATGCC
74054455 AAGGTACTTTTCCAAAGAATGCC
1 AAGGTACTTTTCCAAAGAATGCC
74054478 AAGGTACTTT
1 AAGGTACTTT
74054488 AAGCGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
AAGGTACTTTTCCAAAGAATGCC
Found at i:74058262 original size:79 final size:81
Alignment explanation
Indices: 74058126--74058310 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
74058116 TTGAATGATG
*
74058126 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
74058190 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
74058205 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
74058267 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
74058285 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74058311 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:74058324 original size:40 final size:40
Alignment explanation
Indices: 74058127--74058310 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
74058117 TGAATGATGT
* * * *
74058127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
74058167 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
74058207 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74058245 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74058286 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
74058311 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:74058332 original size:79 final size:79
Alignment explanation
Indices: 74058179--74058343 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
74058169 GGACTAAGAT
* **
74058179 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
74058244 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
74058258 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
74058321 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
74058337 CCGAAGG
1 CCGAAGG
74058344 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:74066358 original size:79 final size:81
Alignment explanation
Indices: 74066222--74066406 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
74066212 TTGAATGATG
*
74066222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
74066286 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
74066301 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
74066363 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
74066381 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74066407 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:74066413 original size:40 final size:40
Alignment explanation
Indices: 74066222--74066406 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
74066212 TTGAATGATG
* * * *
74066222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
74066262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
74066302 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
74066341 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
74066382 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74066407 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 83 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:74066428 original size:79 final size:79
Alignment explanation
Indices: 74066275--74066439 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
74066265 GGACTAAGAT
* **
74066275 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
74066340 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
74066354 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
74066417 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
74066433 CCGAAGG
1 CCGAAGG
74066440 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:74072793 original size:20 final size:20
Alignment explanation
Indices: 74072749--74072793 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
74072739 TATATTTTTT
*
74072749 AATTTAAAATTTATCATTAA
1 AATTTAAAATTTATCATCAA
* * *
74072769 TATTTAATATTTTTCATCAA
1 AATTTAAAATTTATCATCAA
74072789 AATTT
1 AATTT
74072794 GTGAATTAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTAAAATTTATCATCAA
Found at i:74073383 original size:22 final size:22
Alignment explanation
Indices: 74073340--74073383 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
74073330 ATTTACAAAT
* *
74073340 TTTAAAAATTCTTTAAATTTTA
1 TTTAAAAATTCATAAAATTTTA
74073362 TTTAAAAA-TCATAAAATCTTTA
1 TTTAAAAATTCATAAAAT-TTTA
74073384 AACAATAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAAATTCATAAAATTTTA
Found at i:74073493 original size:39 final size:39
Alignment explanation
Indices: 74073430--74073504 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
74073420 TTATAGACAT
* *
74073430 TATAAAAAATACAAATTATTATAAAATTATTAAAAATTC
1 TATAAAAAATACAAATAATTATAAAATTATAAAAAATTC
*
74073469 TATATAAAGATACAAA-AATTATAAAATTATAAAAAA
1 TATA-AAAAATACAAATAATTATAAAATTATAAAAAA
74073505 CACTTACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 22 0.69
40 10 0.31
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (39 bp):
TATAAAAAATACAAATAATTATAAAATTATAAAAAATTC
Found at i:74073691 original size:18 final size:17
Alignment explanation
Indices: 74073670--74073705 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
74073660 ATACATTTTA
*
74073670 TAATTGTTTTAAAAGTTT
1 TAATT-TTTTAAAAATTT
74073688 TAATTTTTTAAAAATTT
1 TAATTTTTTAAAAATTT
74073705 T
1 T
74073706 TAAAAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TAATTTTTTAAAAATTT
Found at i:74073706 original size:18 final size:18
Alignment explanation
Indices: 74073664--74073708 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
74073654 ATTTAAATAC
74073664 ATTTTATAATTGTTTTAAA
1 ATTTT-TAATTGTTTTAAA
*
74073683 AGTTTTAATT-TTTTAAAA
1 ATTTTTAATTGTTTT-AAA
74073701 ATTTTTAA
1 ATTTTTAA
74073709 AAGTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 15 0.65
19 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTTTTAATTGTTTTAAA
Found at i:74074819 original size:9 final size:9
Alignment explanation
Indices: 74074807--74074863 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
74074797 GTATTTAATT
74074807 AATTTTAAA
1 AATTTTAAA
*
74074816 AATTTTATA
1 AATTTTAAA
* *
74074825 ATTTTTAAT
1 AATTTTAAA
74074834 AATTTTAATA
1 AATTTTAA-A
74074844 AATTTT-AA
1 AATTTTAAA
*
74074852 AATTGTAAA
1 AATTTTAAA
74074861 AAT
1 AAT
74074864 AGTTTTTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 6 0.15
9 27 0.69
10 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (9 bp):
AATTTTAAA
Found at i:74074837 original size:10 final size:9
Alignment explanation
Indices: 74074800--74074855 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
74074790 CACATAAGTA
74074800 TTTAATTAAT
1 TTTAA-TAAT
*
74074810 TTTAAAAAT
1 TTTAATAAT
74074819 TTT-ATAATT
1 TTTAATAA-T
74074828 TTTAATAAT
1 TTTAATAAT
74074837 TTTAATAAAT
1 TTTAAT-AAT
74074847 TTTAA-AAT
1 TTTAATAAT
74074855 T
1 T
74074856 GTAAAAATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.17
9 17 0.41
10 17 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTAATAAT
Found at i:74074846 original size:28 final size:28
Alignment explanation
Indices: 74074800--74074855 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
74074790 CACATAAGTA
*
74074800 TTTAATTAATTTTAAAAATTTTATAATT
1 TTTAATTAATTTTAAAAATTTTAAAATT
74074828 TTTAA-TAATTTTAATAAATTTTAAAATT
1 TTTAATTAATTTTAA-AAATTTTAAAATT
74074856 GTAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAATTAATTTTAAAAATTTTAAAATT
Found at i:74076981 original size:4 final size:4
Alignment explanation
Indices: 74076972--74077002 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
74076962 TAAATTTTAA
74076972 AATT AATT AATTT AATT AATT AATT AATT AA
1 AATT AATT AA-TT AATT AATT AATT AATT AA
74077003 ATTCAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:74078707 original size:13 final size:13
Alignment explanation
Indices: 74078681--74078745 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
74078671 AGTTTGGCAA
74078681 TGCTTTTG-AAAG
1 TGCTTTTGAAAAG
*
74078693 TGCTTTTCAAAAG
1 TGCTTTTGAAAAG
*
74078706 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
**
74078719 TGCTTTTGGTAAG
1 TGCTTTTGAAAAG
74078732 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
74078745 T
1 T
74078746 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 9 0.21
13 30 0.71
14 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:74078743 original size:26 final size:26
Alignment explanation
Indices: 74078673--74078745 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
74078663 TAAGGGCTAG
*
74078673 TTTGGCAA-TGCTTTTG-AAAGTGCT
1 TTTGGAAAGTGCTTTTGAAAAGTGCT
** *
74078697 TTTCAAAAGTGC-TGTGAAAAAGTGCT
1 TTTGGAAAGTGCTTTTG-AAAAGTGCT
*
74078723 TTTGGTAAGTGCTTTTGAAAAGT
1 TTTGGAAAGTGCTTTTGAAAAGT
74078746 TTGGTTTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
24 8 0.22
25 3 0.08
26 23 0.62
27 3 0.08
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (26 bp):
TTTGGAAAGTGCTTTTGAAAAGTGCT
Found at i:74082916 original size:56 final size:56
Alignment explanation
Indices: 74082819--74082927 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
74082809 GACCATACAT
* * * *
74082819 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCAATATGTGACTC
** *
74082875 CGATATATGTGTGCGAGTAAGACCTTGTCTGGGACAG-TGGCATCAATATGTGA
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGAC-GTTGGCATCAATATGTGA
74082928 TTACATGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 44 0.98
57 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCAATATGTGACTC
Found at i:74097507 original size:17 final size:17
Alignment explanation
Indices: 74097485--74097517 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
74097475 ATTAAGAATG
74097485 TTATTAAATCATATTTT
1 TTATTAAATCATATTTT
*
74097502 TTATTAAATTATATTT
1 TTATTAAATCATATTT
74097518 AATAATAATT
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:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATCATATTTT
Done.