Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 326 of 352
Found at i:105430959 original size:25 final size:25
Alignment explanation
Indices: 105430894--105430982 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
105430884 TTATATAAAA
* * *
105430894 TATATATTATTTTTATTTATATATAT
1 TATACATTATATTTATTTTTAT-TAT
*
105430920 TATCCATTATA-TTATTTTTATTAT
1 TATACATTATATTTATTTTTATTAT
* **
105430944 TATACATTTTATTTATAAATTA-TAT
1 TATACATTATATTTAT-TTTTATTAT
105430969 TATACATTATATTT
1 TATACATTATATTT
105430983 TACTATATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
24 12 0.23
25 29 0.56
26 11 0.21
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TATACATTATATTTATTTTTATTAT
Found at i:105430994 original size:49 final size:46
Alignment explanation
Indices: 105430904--105430995 Score: 114
Period size: 49 Copynumber: 1.9 Consensus size: 46
105430894 TATATATTAT
* **
105430904 TTTTATTTATATATATTATCCATTATATTATTTTTATTATTATACA
1 TTTTATTTATATATATTATACATTATATTATTACTATTATTATACA
105430950 TTTTATTTATAAATTATATTATACATTATATT-TTACTATATATTAT
1 TTTTATTTAT--A-TATATTATACATTATATTATTACTAT-TATTAT
105430996 GCCTTACATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
46 10 0.26
48 6 0.15
49 23 0.59
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (46 bp):
TTTTATTTATATATATTATACATTATATTATTACTATTATTATACA
Found at i:105431176 original size:17 final size:17
Alignment explanation
Indices: 105431154--105431192 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
105431144 TTTTATTTAT
*
105431154 ATATTTTTTTACATATC
1 ATATTTTATTACATATC
* *
105431171 ATATTTTATTATATATT
1 ATATTTTATTACATATC
105431188 ATATT
1 ATATT
105431193 ATATACATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:105431182 original size:40 final size:41
Alignment explanation
Indices: 105431130--105431227 Score: 112
Period size: 43 Copynumber: 2.4 Consensus size: 41
105431120 TGATAGTATT
* * *
105431130 TATATTTCATTATATTT-TATT-TATATATTTTTTTACATA
1 TATATTTTATTATATTTATATTATATACATTTTATTACATA
*
105431169 TCATATTTTATTATATATTATATTATATACATTTTATTATATA
1 T-ATATTTTATTATAT-TTATATTATATACATTTTATTACATA
105431212 TATATTCTT-TTATATT
1 TATATT-TTATTATATT
105431228 ACTTATCATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
39 1 0.02
40 13 0.26
41 3 0.06
42 15 0.30
43 18 0.36
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (41 bp):
TATATTTTATTATATTTATATTATATACATTTTATTACATA
Found at i:105431197 original size:14 final size:14
Alignment explanation
Indices: 105431140--105431280 Score: 82
Period size: 14 Copynumber: 10.1 Consensus size: 14
105431130 TATATTTCAT
105431140 TATATTTTATT-TA
1 TATATTTTATTATA
*
105431153 TATATTTTTTTACATA
1 TATATTTTATT--ATA
105431169 TCATATTTTA-T-TA
1 T-ATATTTTATTATA
*
105431182 TATATTATATTATA
1 TATATTTTATTATA
*
105431196 TACATTTTATTATA
1 TATATTTTATTATA
* *
105431210 TATATATTCTT-T-
1 TATATTTTATTATA
105431222 TATA--TTACTTATCA
1 TATATTTTA-TTAT-A
105431236 TATAGTTTATATTATTA
1 TATA-TTT-TATTA-TA
* *
105431253 TATACTTTGTT-TA
1 TATATTTTATTATA
*
105431266 TAAATTTTATTATA
1 TATATTTTATTATA
105431280 T
1 T
105431281 GCTATATATT
Statistics
Matches: 98, Mismatches: 14, Indels: 31
0.69 0.10 0.22
Matches are distributed among these distances:
10 2 0.02
11 2 0.02
12 12 0.12
13 25 0.26
14 29 0.30
15 3 0.03
16 6 0.06
17 16 0.16
18 3 0.03
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (14 bp):
TATATTTTATTATA
Found at i:105431228 original size:40 final size:41
Alignment explanation
Indices: 105431139--105431228 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
105431129 TTATATTTCA
* * * *
105431139 TTATATTTTATTTATATATTTTTTTACATATCATATTTTAT
1 TTATATTATATTTATACATTTTATTACATATCATATTCTAT
*
105431180 TATATATTATATTATATACATTTTATTATATAT-ATATTCT-T
1 T-TATATTATATT-TATACATTTTATTACATATCATATTCTAT
105431221 TTATATTA
1 TTATATTA
105431229 CTTATCATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 7 0.17
41 3 0.07
42 16 0.38
43 16 0.38
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (41 bp):
TTATATTATATTTATACATTTTATTACATATCATATTCTAT
Found at i:105431264 original size:21 final size:20
Alignment explanation
Indices: 105431203--105431267 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
105431193 ATATACATTT
105431203 TATTATATATATATTCT-TTTA
1 TATTAT-TATATATT-TGTTTA
*
105431224 TATTACTTATCATA-TAGTTTA
1 TATTA-TTAT-ATATTTGTTTA
105431245 TATTATTATATACTTTGTTTA
1 TATTATTATATA-TTTGTTTA
105431266 TA
1 TA
105431268 AATTTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 26 0.70
22 4 0.11
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTATTATATATTTGTTTA
Found at i:105437294 original size:17 final size:17
Alignment explanation
Indices: 105437272--105437306 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
105437262 TTCATTATAT
105437272 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
105437289 TTACATTTTATTATATA
1 TTACATTTTATTACATA
105437306 T
1 T
105437307 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:105437337 original size:21 final size:21
Alignment explanation
Indices: 105437297--105437364 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
105437287 TATTACATTT
*
105437297 TATTA-TATATATAT-TTTTA
1 TATTATTATATATATGGTTTA
105437316 TATTACTTAT-TATATGGTTTA
1 TATTA-TTATATATATGGTTTA
*
105437337 TATTATTATATATTTGGTTATA
1 TATTATTATATATATGGTT-TA
*
105437359 AATTAT
1 TATTAT
105437365 ATTATACACT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 5 0.12
20 9 0.22
21 20 0.49
22 7 0.17
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (21 bp):
TATTATTATATATATGGTTTA
Found at i:105443735 original size:7 final size:7
Alignment explanation
Indices: 105443674--105443803 Score: 66
Period size: 7 Copynumber: 18.0 Consensus size: 7
105443664 ACTAATTAAT
105443674 CTAAACC
1 CTAAACC
105443681 CTAAATCC
1 CTAAA-CC
105443689 CT-AACC
1 CTAAACC
* *
105443695 TCTGACCC
1 -CTAAACC
105443703 CTAAACC
1 CTAAACC
* *
105443710 TTAAATC
1 CTAAACC
* *
105443717 ATAAAAC
1 CTAAACC
*
105443724 ATAAACC
1 CTAAACC
105443731 CTAAACCC
1 CTAAA-CC
105443739 CTAAACC
1 CTAAACC
*
105443746 TTAAACC
1 CTAAACC
*
105443753 TTAAACC
1 CTAAACC
* *
105443760 CCAACCCC
1 CTAA-ACC
*
105443768 TCTAAAAC
1 -CTAAACC
*
105443776 TTAAACC
1 CTAAACC
105443783 CT-AACC
1 CTAAACC
*
105443789 CTTAACC
1 CTAAACC
105443796 CATAAACC
1 C-TAAACC
105443804 ATAATCCATA
Statistics
Matches: 95, Mismatches: 20, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
6 8 0.08
7 62 0.65
8 22 0.23
9 3 0.03
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:105443759 original size:14 final size:14
Alignment explanation
Indices: 105443704--105443837 Score: 52
Period size: 14 Copynumber: 9.3 Consensus size: 14
105443694 CTCTGACCCC
* * *
105443704 TAAACCTTAAATCA
1 TAAACCATAAACCT
* *
105443718 TAAAACATAAACCC
1 TAAACCATAAACCT
*
105443732 TAAACCCCTAAACCT
1 TAAA-CCATAAACCT
* *
105443747 TAAACCTTAAACCC
1 TAAACCATAAACCT
* * * *
105443761 CAACCCCTCTAAAACT
1 TAA-ACC-ATAAACCT
* *
105443777 TAAACCCTAACCCT
1 TAAACCATAAACCT
* *
105443791 TAACCCATAAACCA
1 TAAACCATAAACCT
* *
105443805 TAATCCATAAAACCA
1 TAAACCAT-AAACCT
* *
105443820 TAATCTATAAACCT
1 TAAACCATAAACCT
105443834 TAAA
1 TAAA
105443838 ATAGTAACTC
Statistics
Matches: 90, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
14 55 0.61
15 28 0.31
16 7 0.08
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:105443796 original size:30 final size:29
Alignment explanation
Indices: 105443725--105443796 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
105443715 TCATAAAACA
* * *
105443725 TAAACCCTAAACCCCTAAACCTTAAACCT
1 TAAACCCTAACCCCCTAAAACTTAAACCC
*
105443754 TAAACCCCAACCCCTCTAAAACTTAAACCC
1 TAAACCCTAACCCC-CTAAAACTTAAACCC
105443784 T-AACCCTTAACCC
1 TAAACCC-TAACCC
105443797 ATAAACCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (29 bp):
TAAACCCTAACCCCCTAAAACTTAAACCC
Found at i:105443817 original size:15 final size:15
Alignment explanation
Indices: 105443795--105443830 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
105443785 AACCCTTAAC
105443795 CCAT-AAACCATAAT
1 CCATAAAACCATAAT
105443809 CCATAAAACCATAAT
1 CCATAAAACCATAAT
*
105443824 CTATAAA
1 CCATAAA
105443831 CCTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
CCATAAAACCATAAT
Found at i:105443829 original size:22 final size:22
Alignment explanation
Indices: 105443795--105443838 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
105443785 AACCCTTAAC
*
105443795 CCATAAACCATAATCCATAAAA
1 CCATAAACCATAAACCATAAAA
* * *
105443817 CCATAATCTATAAACCTTAAAA
1 CCATAAACCATAAACCATAAAA
105443839 TAGTAACTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAACCATAAACCATAAAA
Found at i:105444320 original size:41 final size:41
Alignment explanation
Indices: 105444275--105444581 Score: 395
Period size: 41 Copynumber: 7.6 Consensus size: 41
105444265 TTTTTTTGCA
* *
105444275 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAACG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
* * *
105444316 GCGTTTTTCCAAAAGCGCCTCTAAAAACT-GAGCAATAGCG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
* *
105444356 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGTG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
* * *
105444397 GCGTTTTTGCAAAAGCGCCGCTAAAAACT-GAACAATAGCG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
* * * *
105444437 GCATTTTTTCAAAAGCGCCGCTAAAATCTCGATCTATAGTG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
* * * *
105444478 GCGTTTTTCCAAAAGCACCGCTAAAAA-TTGAGCAATAGCG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
** *
105444518 GCGTTTTTTAAAAAGCGCCGCTAAAAGCTCGATCTATAGCG
1 GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
*
105444559 GCGTTTTTTCAAAAGCGCCGCTA
1 GCGTTTTTCCAAAAGCGCCGCTA
105444582 TTGTTTAGTT
Statistics
Matches: 226, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
40 101 0.45
41 125 0.55
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
GCGTTTTTCCAAAAGCGCCGCTAAAAACTCGATCTATAGCG
Found at i:105444374 original size:81 final size:81
Alignment explanation
Indices: 105444275--105444581 Score: 479
Period size: 81 Copynumber: 3.8 Consensus size: 81
105444265 TTTTTTTGCA
* *
105444275 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAACGGCGTTTTTCCAAAAGCGCCTCTAA
1 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAA
105444340 AAACTGAGCAATAGCG
66 AAACTGAGCAATAGCG
* *
105444356 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGTGGCGTTTTTGCAAAAGCGCCGCTAA
1 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAA
*
105444421 AAACTGAACAATAGCG
66 AAACTGAGCAATAGCG
* * * * *
105444437 GCATTTTTTCAAAAGCGCCGCTAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCACCGCTAA
1 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAA
*
105444502 AAATTGAGCAATAGCG
66 AAACTGAGCAATAGCG
** * *
105444518 GCGTTTTTTAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTA
105444582 TTGTTTAGTT
Statistics
Matches: 208, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 208 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (81 bp):
GCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAA
AAACTGAGCAATAGCG
Found at i:105449651 original size:10 final size:10
Alignment explanation
Indices: 105449632--105449671 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
105449622 TTAAATTCTA
105449632 AAAGATAAAT
1 AAAGATAAAT
105449642 ACAA-ATAAAT
1 A-AAGATAAAT
105449652 AAAGATAAAT
1 AAAGATAAAT
105449662 AAAGATAAAT
1 AAAGATAAAT
105449672 TCTAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.07
10 24 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105450478 original size:96 final size:97
Alignment explanation
Indices: 105450308--105450494 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 97
105450298 AATTAATTTA
* * *
105450308 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
* *
105450373 CCCCGGTTACTCAGTCCAACACATTCCTAATT
66 CCCCAGTTACTCAGCCCAACACATTCCTAATT
* *
105450405 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGTACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
105450469 CCCCAGTTACTCAGCCCAACACATTC
66 CCCCAGTTACTCAGCCCAACACATTC
105450495 TTAAAAATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 74 0.89
97 9 0.11
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCAGTTACTCAGCCCAACACATTCCTAATT
Found at i:105451688 original size:8 final size:8
Alignment explanation
Indices: 105451664--105451725 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
105451654 ATCAATAGTA
105451664 AAAAAAAT
1 AAAAAAAT
**
105451672 AAAGTAAT
1 AAAAAAAT
105451680 AAAAAAAT
1 AAAAAAAT
*
105451688 ATAAAAAT
1 AAAAAAAT
*
105451696 -AAAATAT
1 AAAAAAAT
*
105451703 AAAAATAAG
1 AAAAA-AAT
105451712 ATAAAAAAT
1 A-AAAAAAT
105451721 AAAAA
1 AAAAA
105451726 TTGGGTTGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
7 5 0.12
8 27 0.66
9 5 0.12
10 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:105451693 original size:24 final size:25
Alignment explanation
Indices: 105451665--105451724 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
105451655 TCAATAGTAA
* *
105451665 AAAAAATAAAGTAATAAAAA-AATAT
1 AAAAAATAAAAT-ATAAAAATAAGAT
105451690 -AAAAATAAAATATAAAAATAAGAT
1 AAAAAATAAAATATAAAAATAAGAT
105451714 AAAAAATAAAA
1 AAAAAATAAAA
105451725 ATTGGGTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 10 0.32
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAAATAAAATATAAAAATAAGAT
Found at i:105451699 original size:13 final size:12
Alignment explanation
Indices: 105451665--105451724 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
105451655 TCAATAGTAA
*
105451665 AAAAAATAAAGT
1 AAAAAATAAAAT
*
105451677 AATAAA-AAAAT
1 AAAAAATAAAAT
105451688 ATAAAAATAAAAT
1 A-AAAAATAAAAT
*
105451701 ATAAAAATAAGAT
1 A-AAAAATAAAAT
105451714 AAAAAATAAAA
1 AAAAAATAAAA
105451725 ATTGGGTTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
11 5 0.12
12 18 0.44
13 18 0.44
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:105459703 original size:45 final size:45
Alignment explanation
Indices: 105459652--105459747 Score: 192
Period size: 45 Copynumber: 2.1 Consensus size: 45
105459642 GCCAATCAAG
105459652 AGAAAAACACTAAATTGGAAAACAAATACCAAGAATCAGACATCT
1 AGAAAAACACTAAATTGGAAAACAAATACCAAGAATCAGACATCT
105459697 AGAAAAACACTAAATTGGAAAACAAATACCAAGAATCAGACATCT
1 AGAAAAACACTAAATTGGAAAACAAATACCAAGAATCAGACATCT
105459742 AGAAAA
1 AGAAAA
105459748 CAAAGGTGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (45 bp):
AGAAAAACACTAAATTGGAAAACAAATACCAAGAATCAGACATCT
Found at i:105460488 original size:3 final size:3
Alignment explanation
Indices: 105460480--105460692 Score: 84
Period size: 3 Copynumber: 69.7 Consensus size: 3
105460470 GAATTAAATA
* * * *
105460480 TAT TAT TAT TAT TAT TAT TAT TCT TAC TGT TAT CT-T TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
105460525 TAC CAT TGT TAT TAC TACT TCCAT TAT T-T T-T TAT T-T CTAAC TAT
1 TAT TAT TAT TAT TAT TA-T T--AT TAT TAT TAT TAT TAT -T-AT TAT
* * *
105460569 TAT TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT TAT TGT TAT TAT TAC
1 TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * *
105460616 TAT TAT TAAA TAT CT-T TAT TAT TAC TAT TAT T-T TGT TCCT T-T TAT
1 TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* *
105460661 TAT TGTT TAT TAT CAT TA- TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
105460693 CTACCATTAT
Statistics
Matches: 156, Mismatches: 34, Indels: 40
0.68 0.15 0.17
Matches are distributed among these distances:
2 14 0.09
3 122 0.78
4 17 0.11
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:105463784 original size:14 final size:14
Alignment explanation
Indices: 105463765--105463807 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
105463755 TAGAGCTAAT
105463765 TTAATTTAAAATTA
1 TTAATTTAAAATTA
*
105463779 TTAATTAAAAATTA
1 TTAATTTAAAATTA
105463793 TGCTAATTTTAAAAT
1 T--TAA-TTTAAAAT
105463808 AAAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.58
16 3 0.12
17 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TTAATTTAAAATTA
Found at i:105465813 original size:25 final size:25
Alignment explanation
Indices: 105465780--105465839 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
105465770 CCATATGCTC
*
105465780 TATTATTTCTTGCTTGC-AA-TTCTG
1 TATTGTTTCTT-CTTGCAAAGTTCTG
*
105465804 TTATTGTTTCTTTTTGCAAAGTTCTG
1 -TATTGTTTCTTCTTGCAAAGTTCTG
105465830 T-TTGTTTCTT
1 TATTGTTTCTT
105465840 TCACAAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 13 0.42
25 13 0.42
26 5 0.16
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (25 bp):
TATTGTTTCTTCTTGCAAAGTTCTG
Found at i:105475849 original size:17 final size:19
Alignment explanation
Indices: 105475831--105475915 Score: 59
Period size: 23 Copynumber: 4.3 Consensus size: 19
105475821 AAGCCATTTT
105475831 AAAATT-TAAAAATTATTA
1 AAAATTATAAAAATTATTA
105475849 AAAATTCATAAAAATTATAAATA
1 AAAATT-ATAAAAATTAT---TA
* *
105475872 AAATGTTATAAAAGTT-TT-
1 AAA-ATTATAAAAATTATTA
*
105475890 AAAATTATAAAATCTTTATTA
1 AAAATTATAAAA--ATTATTA
105475911 AAAAT
1 AAAAT
105475916 AAGAATACCA
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
17 8 0.15
18 9 0.17
19 3 0.06
20 12 0.23
21 5 0.09
22 1 0.02
23 13 0.25
24 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATAAAAATTATTA
Found at i:105475868 original size:9 final size:9
Alignment explanation
Indices: 105475831--105475869 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
105475821 AAGCCATTTT
105475831 AAAATT-TA
1 AAAATTATA
105475839 AAAATTATTA
1 AAAATTA-TA
105475849 AAAATTCATA
1 AAAATT-ATA
105475859 AAAATTATA
1 AAAATTATA
105475868 AA
1 AA
105475870 TAAAATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 5 0.18
10 16 0.57
11 1 0.04
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:105477307 original size:41 final size:39
Alignment explanation
Indices: 105477279--105477436 Score: 140
Period size: 39 Copynumber: 4.0 Consensus size: 39
105477269 CGTTTGAATG
105477279 AAAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTC
1 AAAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTC
* * * *
105477318 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCACTAAAGAATGAGCATTAGCGGCGC-TTTTC
* * * * * *
105477358 AAGAAACGCCGCTATAAGTA-CACCTTTAGCGGCGTTTTTC
1 AA-AAACGCCACTA-AAGAATGAGCATTAGCGGCGCTTTTC
* * *
105477398 AAAAAACGCCGCTAAAG-ATCGAGTACTAGCGGCGCTTTT
1 -AAAAACGCCACTAAAGAAT-GAGCATTAGCGGCGCTTTT
105477437 TTAAAAATGC
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 34 0.36
40 34 0.36
41 23 0.24
42 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (39 bp):
AAAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTC
Found at i:105477326 original size:39 final size:39
Alignment explanation
Indices: 105477279--105477452 Score: 163
Period size: 40 Copynumber: 4.4 Consensus size: 39
105477269 CGTTTGAATG
*
105477279 AAAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTC
1 AAAAACGCCGCTAAAGAATGAGCATTAGCGGCGCTTTTC
* * *
105477318 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGAATGAGCATTAGCGGCGC-TTTTC
* * * * *
105477358 AAGAAACGCCGCTATAAGTA-CACCTTTAGCGGCGTTTTTC
1 AA-AAACGCCGCTA-AAGAATGAGCATTAGCGGCGCTTTTC
* * *
105477398 AAAAAACGCCGCTAAAG-ATCGAGTACTAGCGGCGCTTTTTT
1 -AAAAACGCCGCTAAAGAAT-GAGCATTAGCGGCGC-TTTTC
*
105477439 AAAAATGCCGCTAA
1 AAAAACGCCGCTAA
105477453 TGCTTGATCT
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 34 0.31
40 43 0.40
41 27 0.25
42 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGAATGAGCATTAGCGGCGCTTTTC
Found at i:105477397 original size:80 final size:80
Alignment explanation
Indices: 105477303--105477647 Score: 250
Period size: 81 Copynumber: 4.4 Consensus size: 80
105477293 AGAATGAGCA
*
105477303 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGCC
1 TTAGCGGCGTTTTTCAAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGCC
105477368 GCTATAAGTACACCT
66 GCTATAAGTACACCT
* * *
105477383 TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTTAA-AAATGC
1 TTAGCGGCGTTTTTC-AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGC
* ** *
105477447 CGCTA-ATGCTTGATCT
65 CGCTATAAG-TACACCT
* **** * ** * * *
105477463 TTAGTGGCGTTTTTCAAAAAAAAATTGCAAAAGAATT-TTTCA-AAACGACGTCGTTTTATT--G
1 TTAGCGGCGTTTTTC--AAAAACGCCGCTAAAG-ATTGAGT-ATTAGCGGCG-C-TTTT-TTAAG
* * **
105477524 --A----GCTTTTAGT--GGCT
59 AAACGCCGCTATAAGTACACCT
* * *
105477538 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGATTGAGTATTAGCGGCGTTTTTTTAAGAAACACC
1 TTAGCGGCGTTTTTCAAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGCC
105477603 GCTATAAGTACACCT
66 GCTATAAGTACACCT
* *
105477618 TTAGAGGCGCTTTTTAAAAAACGCCGCTAA
1 TTAGCGGCG-TTTTTCAAAAACGCCGCTAA
105477648 TGCTTGATCT
Statistics
Matches: 197, Mismatches: 45, Indels: 45
0.69 0.16 0.16
Matches are distributed among these distances:
70 2 0.01
71 4 0.02
72 5 0.03
73 17 0.09
74 1 0.01
75 15 0.08
77 4 0.02
78 8 0.04
79 2 0.01
80 52 0.26
81 77 0.39
82 4 0.02
83 4 0.02
84 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (80 bp):
TTAGCGGCGTTTTTCAAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGCC
GCTATAAGTACACCT
Found at i:105477407 original size:40 final size:40
Alignment explanation
Indices: 105477302--105477483 Score: 133
Period size: 40 Copynumber: 4.5 Consensus size: 40
105477292 AAGAATGAGC
* ** *
105477302 ATTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGATTGAGT
1 ATTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATACACT
* *
105477341 ATTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAG-TACACCT
1 ATTAGCGGCG-TTTTTCAAAAAACGCCGCTA-AAGATACA-CT
*
105477383 -TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGAT-CGAGT
1 ATTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATAC-ACT
* * * * * **
105477422 ACTAGCGGCGCTTTTT-TAAAAATGCCGCTAATGCTTGATCT
1 ATTAGCGGCG-TTTTTCAAAAAACGCCGCTAAAGATACA-CT
*
105477463 -TTAGTGGCGTTTTTCAAAAAA
1 ATTAGCGGCGTTTTTCAAAAAA
105477484 AAATTGCAAA
Statistics
Matches: 113, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
39 20 0.18
40 60 0.53
41 29 0.26
42 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (40 bp):
ATTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATACACT
Found at i:105477484 original size:81 final size:81
Alignment explanation
Indices: 105477303--105477483 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 81
105477293 AGAATGAGCA
* * *
105477303 TTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTAAGAAACGC
1 TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTTAAGAAACGC
105477367 CGCTATAAGTACACCT
66 CGCTATAAGTACACCT
*
105477383 TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTTAA-AAATGC
1 TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTTAAGAAACGC
* ** *
105477447 CGCTA-ATGCTTGATCT
66 CGCTATAAG-TACACCT
*
105477463 TTAGTGGCGTTTTTCAAAAAA
1 TTAGCGGCGTTTTTCAAAAAA
105477484 AAATTGCAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.02
80 48 0.53
81 40 0.44
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (81 bp):
TTAGCGGCGTTTTTCAAAAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTTAAGAAACGC
CGCTATAAGTACACCT
Found at i:105477891 original size:21 final size:21
Alignment explanation
Indices: 105477845--105477896 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
105477835 TTAATTATCA
* *
105477845 TTATAGTTTAGGGTTTATGAT
1 TTATGGTTAAGGGTTTATGAT
*
105477866 ATATGGTTAAGGGTTTAATG-T
1 TTATGGTTAAGGGTTT-ATGAT
105477887 TTATGAGTTA
1 TTATG-GTTA
105477897 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGAT
Found at i:105477965 original size:7 final size:7
Alignment explanation
Indices: 105477955--105478010 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
105477945 GGTTTAAGGT
*
105477955 TTAGGTG
1 TTAGGGG
105477962 TTAGGGG
1 TTAGGGG
105477969 TTAGGGG
1 TTAGGGG
105477976 TTAGGGG
1 TTAGGGG
105477983 TTAGGGG
1 TTAGGGG
*
105477990 TTAAGGG
1 TTAGGGG
*
105477997 TGAGGGG
1 TTAGGGG
105478004 TTCAGGG
1 TT-AGGG
105478011 TTTATGTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
7 39 0.91
8 4 0.09
ACGTcount: A:0.16, C:0.02, G:0.54, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:105477997 original size:21 final size:21
Alignment explanation
Indices: 105477938--105478010 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
105477928 GGTGGTTTAA
*
105477938 GGGTT-GGGGTTTAAGGTTTAG
1 GGGTTAGGGG-TTAAGGGTTAG
* *
105477959 GTGTTAGGGGTTAGGGGTTAG
1 GGGTTAGGGGTTAAGGGTTAG
*
105477980 GGGTTAGGGGTTAAGGGTGAG
1 GGGTTAGGGGTTAAGGGTTAG
105478001 GGGTTCAGGG
1 GGGTT-AGGG
105478011 TTTATGTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.15, C:0.01, G:0.53, T:0.30
Consensus pattern (21 bp):
GGGTTAGGGGTTAAGGGTTAG
Found at i:105478028 original size:7 final size:7
Alignment explanation
Indices: 105477931--105478058 Score: 73
Period size: 7 Copynumber: 18.0 Consensus size: 7
105477921 GTTTAAAGGT
105477931 GGTTTAAG
1 GGTTT-AG
*
105477939 GG-TTGG
1 GGTTTAG
*
105477945 GGTTTAA
1 GGTTTAG
105477952 GGTTTA-
1 GGTTTAG
105477958 GGTGTTAG
1 GGT-TTAG
*
105477966 GGGTTAG
1 GGTTTAG
*
105477973 GGGTTAG
1 GGTTTAG
*
105477980 GGGTTAGG
1 GGTTTA-G
*
105477988 GGTTAAG
1 GGTTTAG
*
105477995 GG-TGAGG
1 GGTTTA-G
*
105478002 GGTTCAG
1 GGTTTAG
*
105478009 GGTTTAT
1 GGTTTAG
*
105478016 GTTTTAG
1 GGTTTAG
*
105478023 GGTTTAA
1 GGTTTAG
105478030 GGTTTAG
1 GGTTTAG
*
105478037 GGATTAG
1 GGTTTAG
*
105478044 GAGTTTAA
1 G-GTTTAG
105478052 GGTTTAG
1 GGTTTAG
105478059 ATTAATTAGT
Statistics
Matches: 94, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
6 8 0.09
7 70 0.74
8 16 0.17
ACGTcount: A:0.19, C:0.01, G:0.44, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:105478209 original size:15 final size:15
Alignment explanation
Indices: 105478191--105478233 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
105478181 ATTATTTTAA
105478191 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
105478206 GGTTTAAGGATTAT-
1 GGTTTATGGATTATG
*
105478220 GATTTATGG-TTATG
1 GGTTTATGGATTATG
105478234 TAAGAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:105478211 original size:22 final size:22
Alignment explanation
Indices: 105478186--105478228 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
105478176 GAGTTATTAT
*
105478186 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
105478208 TTTAAGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
105478229 TTATGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:105481772 original size:43 final size:43
Alignment explanation
Indices: 105481738--105481915 Score: 185
Period size: 43 Copynumber: 4.1 Consensus size: 43
105481728 GGTTATGATT
* * *
105481738 TTTAGCAGCGTTTGTAAAAAAAGCTCCGCTAAAGGTCGTGGTC
1 TTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
105481781 TTTAGCGGCGTTTTTGAGAAAAGCGCCGTTAAAAGTCATGGCC
1 TTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
105481824 TTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGGTC
* ** * ** *
105481867 TTTAGCAGCATTTGTGGGAAAAGTGCCGCTAAAAATCATGGTG
1 TTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGGTC
105481910 TTTAGC
1 TTTAGC
105481916 GGCATTTTTG
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 113 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:105481914 original size:86 final size:86
Alignment explanation
Indices: 105481738--105481924 Score: 230
Period size: 86 Copynumber: 2.2 Consensus size: 86
105481728 GGTTATGATT
* * * * * * *
105481738 TTTAGCAGCGTTTGTAAAAAAAGCTCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTTGAGAAAA
1 TTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCATTTGTGAGAAAA
* *
105481803 GCGCCGTTAAAAGTCATGGCC
66 GCGCCGCTAAAAATCATGGCC
* * *
105481824 TTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCATTTGTGGGAAAA
1 TTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCATTTGTGAGAAAA
* **
105481889 GTGCCGCTAAAAATCATGGTG
66 GCGCCGCTAAAAATCATGGCC
*
105481910 TTTAGCGGCATTTTT
1 TTTAGCGGCGTTTTT
105481925 GTAAATAAAC
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCATTTGTGAGAAAA
GCGCCGCTAAAAATCATGGCC
Found at i:105481921 original size:43 final size:43
Alignment explanation
Indices: 105481756--105481925 Score: 205
Period size: 43 Copynumber: 4.0 Consensus size: 43
105481746 CGTTTGTAAA
* * * *
105481756 AAAAGCTCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTTGAG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTTTGAG
* * * *
105481799 AAAAGCGCCGTTAAAAGTCATGGCCTTTAGCGGCGTTTTTTAG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTTTGAG
* * * *
105481842 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCATTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTTTGAG
* * *
105481885 AAAAGTGCCGCTAAAAATCATGGTGTTTAGCGGCATTTTTG
1 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTTTG
105481926 TAAATAAACG
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCATTTTTGAG
Found at i:105492297 original size:25 final size:25
Alignment explanation
Indices: 105492263--105492313 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
105492253 TTCATAGTCT
105492263 AGTAAGTCATTATAAATAAATATGA
1 AGTAAGTCATTATAAATAAATATGA
*
105492288 AGTAAGTCATTATAAATAAGTATGA
1 AGTAAGTCATTATAAATAAATATGA
105492313 A
1 A
105492314 ATAAATGCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (25 bp):
AGTAAGTCATTATAAATAAATATGA
Found at i:105492535 original size:78 final size:78
Alignment explanation
Indices: 105492452--105492602 Score: 257
Period size: 78 Copynumber: 1.9 Consensus size: 78
105492442 ATGTGTATCT
* *
105492452 ATATATATATAGATTAGTTTTATTGAAAAGATTGGGAAACACACAGAAAGTGTCCATTAAGAGAA
1 ATATATATATAGATTAGTTTTATTGAAAAGATAGGGAAACACACAGAAAGTGTCCATTAAGACAA
105492517 AACACACACACAC
66 AACACACACACAC
* * *
105492530 ATATATATATATATTAGTTTTATTGAAAAGATAGGGAAACACACGGAAAGTGTCCATTAAGTCAA
1 ATATATATATAGATTAGTTTTATTGAAAAGATAGGGAAACACACAGAAAGTGTCCATTAAGACAA
105492595 AACACACA
66 AACACACA
105492603 AGGGCCACCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (78 bp):
ATATATATATAGATTAGTTTTATTGAAAAGATAGGGAAACACACAGAAAGTGTCCATTAAGACAA
AACACACACACAC
Found at i:105496789 original size:30 final size:31
Alignment explanation
Indices: 105496721--105496790 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
105496711 AATTTTTTAT
* * *
105496721 AATAT-ATATTTATAATTTTTAAATAATTAA
1 AATATAATTTTTATAATTTTTAAAGAAGTAA
* *
105496751 ATTA-AATTTTTATAA-TTTTAAAGAGGTAA
1 AATATAATTTTTATAATTTTTAAAGAAGTAA
105496780 AATATAATTTT
1 AATATAATTTT
105496791 ATCTTTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (31 bp):
AATATAATTTTTATAATTTTTAAAGAAGTAA
Found at i:105502083 original size:18 final size:18
Alignment explanation
Indices: 105502060--105502147 Score: 86
Period size: 18 Copynumber: 4.9 Consensus size: 18
105502050 ACCGTTTGGT
105502060 ACTATTCACGTATACAAC
1 ACTATTCACGTATACAAC
****
105502078 ACTATTCACGTATATGGT
1 ACTATTCACGTATACAAC
*
105502096 ACTATTCATGTATACAAC
1 ACTATTCACGTATACAAC
* ***
105502114 ACTATTCACATATACGGT
1 ACTATTCACGTATACAAC
*
105502132 ACTGTTCACGTATACA
1 ACTATTCACGTATACA
105502148 GTAGTTGGGA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACAAC
Found at i:105502103 original size:36 final size:36
Alignment explanation
Indices: 105502056--105502147 Score: 148
Period size: 36 Copynumber: 2.6 Consensus size: 36
105502046 TACGACCGTT
*
105502056 TGGTACTATTCACGTATACAACACTATTCACGTATA
1 TGGTACTATTCACGTATACAACACTATTCACATATA
*
105502092 TGGTACTATTCATGTATACAACACTATTCACATATA
1 TGGTACTATTCACGTATACAACACTATTCACATATA
* *
105502128 CGGTACTGTTCACGTATACA
1 TGGTACTATTCACGTATACA
105502148 GTAGTTGGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (36 bp):
TGGTACTATTCACGTATACAACACTATTCACATATA
Found at i:105523101 original size:21 final size:21
Alignment explanation
Indices: 105523075--105523115 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105523065 TCAGACAGCA
* *
105523075 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
105523096 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
105523116 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105524793 original size:16 final size:16
Alignment explanation
Indices: 105524772--105524805 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
105524762 AAAAGGAAAA
105524772 ACTTCAGAAGATTCCG
1 ACTTCAGAAGATTCCG
105524788 ACTTCAGAAGATTCCG
1 ACTTCAGAAGATTCCG
105524804 AC
1 AC
105524806 AGCAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (16 bp):
ACTTCAGAAGATTCCG
Found at i:105526464 original size:13 final size:13
Alignment explanation
Indices: 105526446--105526480 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
105526436 TTAGCATTGT
*
105526446 TTTTGAAAAATGC
1 TTTTGAAAAATAC
*
105526459 TTTTGAAAAATAT
1 TTTTGAAAAATAC
105526472 TTTTGAAAA
1 TTTTGAAAA
105526481 GTTTAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAATAC
Found at i:105534377 original size:30 final size:28
Alignment explanation
Indices: 105534322--105534397 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
105534312 AATAAAAAAT
* *
105534322 TTTAAAATATATTAAATCATCAAATACA
1 TTTAAAATATATTAAAACAACAAATACA
* *
105534350 TTTAAAATAAATATTAAAACAAGAAATAAA
1 TTTAAAAT--ATATTAAAACAACAAATACA
**
105534380 TAAAAAAATATATTAAAA
1 T-TTAAAATATATTAAAA
105534398 AAATTCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 8 0.21
29 9 0.23
30 17 0.44
31 5 0.13
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (28 bp):
TTTAAAATATATTAAAACAACAAATACA
Found at i:105534481 original size:23 final size:23
Alignment explanation
Indices: 105534453--105534497 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
105534443 TTATATTAAA
*
105534453 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAATATAAATATG
*
105534476 ATTAAAAATAAAATATATATAT
1 ATTAAAAATAAAATATAAATAT
105534498 TTAGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:105535278 original size:23 final size:23
Alignment explanation
Indices: 105535252--105535297 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
105535242 AATTTTCTGT
105535252 AATAA-TACTAAATTAATTTTAAA
1 AATAATTA-TAAATTAATTTTAAA
*
105535275 AATAATTATAATTTAATTTTAAA
1 AATAATTATAAATTAATTTTAAA
105535298 TTATTAGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTATAAATTAATTTTAAA
Found at i:105548480 original size:6 final size:6
Alignment explanation
Indices: 105548471--105548498 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
105548461 CTAAATTAAT
105548471 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
105548499 AACTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:105549554 original size:239 final size:242
Alignment explanation
Indices: 105549086--105549569 Score: 830
Period size: 239 Copynumber: 2.0 Consensus size: 242
105549076 ATGTGCAAGT
*
105549086 GATAATTAAGATGCTTAGAGCTAAAGTAGTAATTCTATTTTACATATAGTTGAGCATAAGAACAA
1 GATAATTAAGATGCTTAGAGC---A-TAGTAATTCTATTTTACATATAGTTGAGCATAAAAACAA
*
105549151 CTTGTTTCTATGCTTCGGAAAAAATGAAATACTATCACAATTTGTCCCTCATAATTTTATCAAAA
62 CTTGTTTCTATGCTTCGGAAAAAATGAAATACTATCACAATTGGTCCCTCATAATTTTATCAAAA
105549216 TTTTAGATAAATTCCTTTAAAAAAAAAGAGGAGAAATTAATAAAAAAATGACATATTTATTTGTA
127 TTTTAGATAAATTCCTTTAAAAAAAAAGAGGAGAAATTAATAAAAAAATGACATATTTATTTGTA
105549281 GTTCCCACTAAAGTCTTGGTTTGAAACCTATTAATATTATATTGAAACATG
192 GTTCCCACTAAAGTCTTGGTTTGAAACCTATTAATATTATATTGAAACATG
105549332 GATAATTAAGATGCTTAGAGC-TAGTAATTCTATTTTACATATAGTTGAGCATAAAAACAACTTG
1 GATAATTAAGATGCTTAGAGCATAGTAATTCTATTTTACATATAGTTGAGCATAAAAACAACTTG
*
105549396 TTTCTATGCTTCGG-AAAAATGAAATATTATCACAATTGGTCCCTCATAATTTTATCAAAATTTT
66 TTTCTATGCTTCGGAAAAAATGAAATACTATCACAATTGGTCCCTCATAATTTTATCAAAATTTT
*** * *
105549460 AGATAAATTCCTTTTTTAAAAAA-AGGAGAACTTAATAAAAAAATGTCATATTTATTTGTAGTTC
131 AGATAAATTCCTTTAAAAAAAAAGAGGAGAAATTAATAAAAAAATGACATATTTATTTGTAGTTC
*
105549524 CCACTAAAGTCTTTGTTTGAAACCTATTAATATTATATTGAAACAT
196 CCACTAAAGTCTTGGTTTGAAACCTATTAATATTATATTGAAACAT
105549570 AAAAAATCCA
Statistics
Matches: 229, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
239 84 0.37
240 68 0.30
241 56 0.24
246 21 0.09
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (242 bp):
GATAATTAAGATGCTTAGAGCATAGTAATTCTATTTTACATATAGTTGAGCATAAAAACAACTTG
TTTCTATGCTTCGGAAAAAATGAAATACTATCACAATTGGTCCCTCATAATTTTATCAAAATTTT
AGATAAATTCCTTTAAAAAAAAAGAGGAGAAATTAATAAAAAAATGACATATTTATTTGTAGTTC
CCACTAAAGTCTTGGTTTGAAACCTATTAATATTATATTGAAACATG
Found at i:105569946 original size:38 final size:38
Alignment explanation
Indices: 105569885--105570079 Score: 239
Period size: 38 Copynumber: 5.0 Consensus size: 38
105569875 ATTTGATGTG
* * *
105569885 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTA
105569925 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
105569963 TATCCAGGTTAAATCCCGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
105570001 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
105570039 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
105570079 T
1 T
105570080 GTTTGGGTTT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 95 0.69
39 11 0.08
40 30 0.22
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:105572512 original size:5 final size:5
Alignment explanation
Indices: 105572494--105572528 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
105572484 CTAATTTAAC
105572494 ATAAA ATCAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAA
105572529 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:105578518 original size:27 final size:27
Alignment explanation
Indices: 105578470--105578628 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
105578460 GCGAGGCTGC
* *
105578470 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
105578497 CAGATATTGTGCCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
105578523 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
105578550 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
105578577 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
105578604 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
105578629 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:105578573 original size:54 final size:54
Alignment explanation
Indices: 105578512--105578628 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
105578502 ATTGTGCCAG
105578512 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCGTGGCAT
* *
105578566 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCGTGGCAT
105578620 AGCCACCAG
1 AGCCACCAG
105578629 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCGTGGCAT
Found at i:105580291 original size:26 final size:26
Alignment explanation
Indices: 105580255--105580362 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
105580245 TGAAATTCCC
*
105580255 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
105580281 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105580307 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105580333 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105580359 ATCA
1 ATCA
105580363 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105585661 original size:26 final size:27
Alignment explanation
Indices: 105585616--105585748 Score: 115
Period size: 26 Copynumber: 5.2 Consensus size: 27
105585606 GTGACGAAGT
105585616 CACCAGATACAGATAT-TGT-GCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
105585642 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
105585669 CA-C---TCAGATA-ATCATGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
*
105585692 CA-GAGAACA-ATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
105585717 CACCAGATCAGATA-ATTTGGCATAGC
1 CACCAGAACAGATATATGTGGCAGAGC
105585743 CACCAG
1 CACCAG
105585749 GACGCTTCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.02
23 16 0.18
25 21 0.24
26 36 0.41
27 12 0.14
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:105587357 original size:26 final size:26
Alignment explanation
Indices: 105587327--105587434 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
105587317 TGAAATTCCC
105587327 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105587353 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105587379 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105587405 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105587431 ATCA
1 ATCA
105587435 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105591131 original size:24 final size:24
Alignment explanation
Indices: 105591116--105591183 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
105591106 AAGCTCTGAC
105591116 GAGCTAAAAACAGTAAGCTCCAAT
1 GAGCTAAAAACAGTAAGCTCCAAT
*
105591140 GAGCTGAAAACAGTAAGCTCCAAT
1 GAGCTAAAAACAGTAAGCTCCAAT
105591164 GAGCTAAAAACAGTAAGCTC
1 GAGCTAAAAACAGTAAGCTC
105591184 TTAAGAGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (24 bp):
GAGCTAAAAACAGTAAGCTCCAAT
Found at i:105595054 original size:20 final size:20
Alignment explanation
Indices: 105595029--105595096 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
105595019 AAATATCAAA
**
105595029 ATTTCTAATGTGATACCAAT
1 ATTTCTAACATGATACCAAT
*
105595049 ATTTCTAACAT-ATAGCGAA-
1 ATTTCTAACATGATA-CCAAT
*
105595068 ATTTTTAACATGATACCAAT
1 ATTTCTAACATGATACCAAT
105595088 ATTTCTAAC
1 ATTTCTAAC
105595097 GGCATCTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.41
20 23 0.59
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (20 bp):
ATTTCTAACATGATACCAAT
Found at i:105595150 original size:19 final size:19
Alignment explanation
Indices: 105595120--105595156 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
105595110 ATATTTTGCC
105595120 AAATTTTCTAACAAGTATCA
1 AAATTTTCTAACAA-TATCA
105595140 AAATTTT-TAACAATATC
1 AAATTTTCTAACAATATC
105595157 TCATTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATTTTCTAACAATATCA
Found at i:105595572 original size:60 final size:60
Alignment explanation
Indices: 105595478--105595591 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
105595468 ACCTATTACC
* * * * * *
105595478 ATACCAAAATATCTAATAATATATTTTTAGAAATTTCAGTATTTGATTAAAAATTTTGAT
1 ATACCAAAACATCTAACAAAATATTTTTAAAAATTTCAATATTTAATTAAAAATTTTGAT
* *
105595538 ATACCAAAACATTTAACAAAATATTTTTAAAAATTTTAATATTTAATTAAAAAT
1 ATACCAAAACATCTAACAAAATATTTTTAAAAATTTCAATATTTAATTAAAAAT
105595592 ATTAGTATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (60 bp):
ATACCAAAACATCTAACAAAATATTTTTAAAAATTTCAATATTTAATTAAAAATTTTGAT
Found at i:105600730 original size:6 final size:6
Alignment explanation
Indices: 105600719--105600777 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
105600709 ATGCTATGTG
* * * *
105600719 TATATA TATATA TGTATA TATATA TATGTA TATGTA TATATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
105600767 TGTATA TATAT
1 TATATA TATAT
105600778 CCAAGTTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:105600736 original size:14 final size:14
Alignment explanation
Indices: 105600717--105600775 Score: 91
Period size: 14 Copynumber: 4.1 Consensus size: 14
105600707 ACATGCTATG
105600717 TGTATATATATATA
1 TGTATATATATATA
105600731 TGTATATATATATA
1 TGTATATATATATA
105600745 TGTATATGTATATATA
1 TGTATA--TATATATA
*
105600761 TGTATATGTATATA
1 TGTATATATATATA
105600775 T
1 T
105600776 ATCCAAGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
14 28 0.67
16 14 0.33
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (14 bp):
TGTATATATATATA
Found at i:105600738 original size:10 final size:10
Alignment explanation
Indices: 105600723--105600777 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
105600713 TATGTGTATA
105600723 TATATATATG
1 TATATATATG
*
105600733 TATATATATA
1 TATATATATG
*
105600743 TATGTATATG
1 TATATATATG
105600753 TATATATATG
1 TATATATATG
* *
105600763 TATATGTATA
1 TATATATATG
105600773 TATAT
1 TATAT
105600778 CCAAGTTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:105600738 original size:16 final size:16
Alignment explanation
Indices: 105600713--105600777 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
105600703 TAAAACATGC
*
105600713 TATGTGTATATATATA
1 TATGTATATATATATA
105600729 TATG--TATATATATA
1 TATGTATATATATATA
*
105600743 TATGTATATGTATATA
1 TATGTATATATATATA
*
105600759 TATGTATATGTATATA
1 TATGTATATATATATA
105600775 TAT
1 TAT
105600778 CCAAGTTCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
14 14 0.30
16 32 0.70
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (16 bp):
TATGTATATATATATA
Found at i:105601839 original size:25 final size:25
Alignment explanation
Indices: 105601810--105601858 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
105601800 GTGGTTTTAA
105601810 ATTTTTTATAGATTT-TATAAAAATG
1 ATTTTTTATA-ATTTATATAAAAATG
* *
105601835 ATTTTTTTTACTTTATATAAAAAT
1 ATTTTTTATAATTTATATAAAAAT
105601859 AAATATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTTTATAATTTATATAAAAATG
Found at i:105601950 original size:18 final size:19
Alignment explanation
Indices: 105601909--105601952 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
105601899 TCTTTTTATG
*
105601909 AATAAAATAATTCTGTAAA
1 AATAAAATAATTATGTAAA
*
105601928 AATAAATTAATTATG-AAA
1 AATAAAATAATTATGTAAA
*
105601946 TATAAAA
1 AATAAAA
105601953 GTTTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAAAATAATTATGTAAA
Found at i:105602619 original size:15 final size:15
Alignment explanation
Indices: 105602599--105602633 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
105602589 GATCACTGTG
105602599 AAGACATGTTTAGCA
1 AAGACATGTTTAGCA
105602614 AAGACATGTTTAGCA
1 AAGACATGTTTAGCA
105602629 AAGAC
1 AAGAC
105602634 TAGGATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (15 bp):
AAGACATGTTTAGCA
Found at i:105606912 original size:3 final size:3
Alignment explanation
Indices: 105606904--105606940 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
105606894 TTCATCCTTT
105606904 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
105606941 CTGAAACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:105606998 original size:16 final size:17
Alignment explanation
Indices: 105606975--105607019 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
105606965 AATGCTTCAA
* *
105606975 TCTCTCCTTTCCCTTTC
1 TCTCTCCTTCCCCTCTC
105606992 T-TCTCCTTCCCCTCTC
1 TCTCTCCTTCCCCTCTC
*
105607008 TCTCTCCCTCCC
1 TCTCTCCTTCCC
105607020 TTCCATAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCTCCTTCCCCTCTC
Found at i:105611502 original size:40 final size:37
Alignment explanation
Indices: 105611436--105611570 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
105611426 CATGGCAAAG
*
105611436 TGTGAAATATAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
105611471 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * *
105611511 TAAGAAACGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
105611546 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
105611571 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 48 0.58
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:105619496 original size:40 final size:38
Alignment explanation
Indices: 105619376--105619507 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 38
105619366 TCCTCATTGA
* *
105619376 AATACCATACCTACATTTTACAACTCGGTATGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * **
105619411 AATGCCATACCTACGTTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
105619451 AATACCATACCTACATTTCACAACTCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
*
105619487 -ATACCATACCTATATTTCACA
1 AATACCATACCTACATTTCACA
105619508 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
35 47 0.58
38 2 0.02
39 2 0.02
40 30 0.37
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:105620544 original size:18 final size:18
Alignment explanation
Indices: 105620521--105620671 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
105620511 GAACAATTAT
* *
105620521 TTATTTAGTAATAATCAG
1 TTATTCAGTAATAATCAA
** *
105620539 TTATTTGGTAACAATCAA
1 TTATTCAGTAATAATCAA
*
105620557 TTATTCAATAATAATCAA
1 TTATTCAGTAATAATCAA
105620575 TTATTCAGT-ATCAATCAA
1 TTATTCAGTAAT-AATCAA
*
105620593 TTGATCGGTTATCCAGTAACAATCAA
1 TT-A-----T-T-CAGTAATAATCAA
*
105620619 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAATAATCA-A
* * *
105620638 -TATACAGTAACAATTAAA
1 TTATTCAGTAATAA-TCAA
105620656 TTATTCAGTAATAATC
1 TTATTCAGTAATAATC
105620672 GATCTTTTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.02
18 69 0.66
19 16 0.15
20 1 0.01
24 1 0.01
25 2 0.02
26 12 0.12
27 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAATAATCAA
Found at i:105620795 original size:6 final size:6
Alignment explanation
Indices: 105620784--105620808 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
105620774 CCGAAGCCAG
105620784 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
105620809 GCTGTACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:105620871 original size:47 final size:47
Alignment explanation
Indices: 105620802--105620904 Score: 152
Period size: 47 Copynumber: 2.2 Consensus size: 47
105620792 CAGTAACAGT
* * *
105620802 AACAGTAGCTGTACGATACACAGAGTACCTCATCGGAATAAATCCGA
1 AACAGTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
* * *
105620849 AACAGTAACAGTACGGTGCACAGAGTACCTCATCAGAATAAATTCGA
1 AACAGTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
105620896 AACAGTAAC
1 AACAGTAAC
105620905 GGTAACAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (47 bp):
AACAGTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
Found at i:105620910 original size:53 final size:52
Alignment explanation
Indices: 105620796--105620914 Score: 131
Period size: 47 Copynumber: 2.3 Consensus size: 52
105620786 CAGTAACAGT
* * *
105620796 AACAGTAACAGTAGCTGTACGATACACAGAGTACCTCATCGGAATAAATCCGA
1 AACAGTAAC-GTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
* * *
105620849 AAC----A-GTAACAGTACGGTGCACAGAGTACCTCATCAGAATAAATTCGA
1 AACAGTAACGTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
105620896 AACAGTAACGGTAACAGTA
1 AACAGTAAC-GTAACAGTA
105620915 ACAATATCTG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
47 40 0.74
49 1 0.02
51 1 0.02
53 12 0.22
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (52 bp):
AACAGTAACGTAACAGTACGATACACAGAGTACCTCATCAGAATAAATCCGA
Found at i:105621996 original size:19 final size:17
Alignment explanation
Indices: 105621968--105622006 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
105621958 AAACCTTGAA
105621968 TTTTCCCTTTTTATCTTTC
1 TTTTCCC-TTTT-TCTTTC
*
105621987 TTTTCTCTTTTTCTTTC
1 TTTTCCCTTTTTCTTTC
105622004 TTT
1 TTT
105622007 CTTTCCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCCCTTTTTCTTTC
Found at i:105627195 original size:24 final size:22
Alignment explanation
Indices: 105627154--105627197 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
105627144 TGACATGCTT
105627154 AATTTTTTAATTTAACTCGAAC
1 AATTTTTTAATTTAACTCGAAC
*
105627176 AATTTTATTAGATTTGACTCGA
1 AATTTT-TTA-ATTTAACTCGA
105627198 CTTAAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTTTTTAATTTAACTCGAAC
Found at i:105638233 original size:58 final size:59
Alignment explanation
Indices: 105638168--105638296 Score: 147
Period size: 58 Copynumber: 2.2 Consensus size: 59
105638158 TTTATTGACC
* * *
105638168 CAATTTGGTACTAGAAGTTGATACTTTTTCT-TAATTTAG-TATCTAAA-TTTTTTTGGCT
1 CAATTTGGTACTAGAACTTGATA-TTTTTCTCTAATTT-GTTACCTAAACTTTTTTAGGCT
* * * *
105638226 CAATTTGGTATTTGAACTTGATATTTTTTTCTAATTTGTTACCTAAACCTTTTTTAGGTT
1 CAATTTGGTACTAGAACTTGATATTTTTCTCTAATTTGTTACCTAAA-CTTTTTTAGGCT
105638286 CAATTTGGTAC
1 CAATTTGGTAC
105638297 CTAAATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 7 0.12
58 33 0.56
60 19 0.32
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (59 bp):
CAATTTGGTACTAGAACTTGATATTTTTCTCTAATTTGTTACCTAAACTTTTTTAGGCT
Found at i:105638518 original size:24 final size:24
Alignment explanation
Indices: 105638488--105638537 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
105638478 CATTATTTTC
* *
105638488 AATTAATTAAATAAATAAAATTAA
1 AATTAATTAAACAAATAAAATAAA
* *
105638512 AATTAATTGAACATATAAAATAAA
1 AATTAATTAAACAAATAAAATAAA
105638536 AA
1 AA
105638538 AATCATATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTAATTAAACAAATAAAATAAA
Found at i:105639792 original size:52 final size:52
Alignment explanation
Indices: 105639714--105639819 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
105639704 TTCTTTTACA
**
105639714 TTTAAACATAATTTTTAAATATTATATATATTTCACGGGCCGCAAATTAAAG
1 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
105639766 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
1 TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
105639818 TT
1 TT
105639820 CATGATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (52 bp):
TTTAAACATAATTTTTAAATATTATATATATGCCACGGGCCGCAAATTAAAG
Found at i:105641259 original size:21 final size:21
Alignment explanation
Indices: 105641209--105641259 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
105641199 TATTATATTT
*
105641209 ATTAATTTAAAGAATAAATAG
1 ATTAATTTTAAGAATAAATAG
* *
105641230 ATTCA-TTTAATAATAGAAT-G
1 ATTAATTTTAAGAATA-AATAG
105641250 ATTAATTTTA
1 ATTAATTTTA
105641260 TACGTTAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
ATTAATTTTAAGAATAAATAG
Found at i:105643867 original size:46 final size:46
Alignment explanation
Indices: 105643798--105643888 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
105643788 TCACATACGC
*
105643798 TATTTTATCAATCTAACTCAAAAAATTTTAATATTTATAAAAATAT
1 TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATAT
* *
105643844 TATTTTATCAATCTGACTTAAAAAAATTTAATATTTATAAAAATA
1 TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATA
105643889 ACCCTAGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (46 bp):
TATTTTATCAATCTAACTCAAAAAAATTTAATATTTATAAAAATAT
Found at i:105645531 original size:21 final size:22
Alignment explanation
Indices: 105645507--105645562 Score: 98
Period size: 21 Copynumber: 2.6 Consensus size: 22
105645497 TACCATTGTT
105645507 TCTAATCTCACCGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
105645528 TCTAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
105645550 T-TAATCTCACCGC
1 TCTAATCTCACCGC
105645563 CACCGCTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:105651240 original size:23 final size:22
Alignment explanation
Indices: 105651176--105651233 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
105651166 AAAAATTACA
**
105651176 AAAAAAATTCAAAATAATT-TT
1 AAAAAAATTCAAAATGTTTATT
*
105651197 -CAAAAATTCAAAATGTTTATT
1 AAAAAAATTCAAAATGTTTATT
105651218 AAAAAAATTCCAAAAT
1 AAAAAAATT-CAAAAT
105651234 TTATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
21 2 0.07
22 7 0.23
23 6 0.20
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAAATTCAAAATGTTTATT
Found at i:105651269 original size:18 final size:18
Alignment explanation
Indices: 105651229--105651267 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
105651219 AAAAAATTCC
*
105651229 AAAATTTATATTTTTAAA
1 AAAATTAATATTTTTAAA
105651247 AAAATTAAT-TTTTTAAA
1 AAAATTAATATTTTTAAA
105651264 AAAA
1 AAAA
105651268 ATATAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTAATATTTTTAAA
Found at i:105657120 original size:18 final size:17
Alignment explanation
Indices: 105657087--105657119 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
105657077 TTTCCTTGTT
105657087 TTTCAAATTATTTTTTA
1 TTTCAAATTATTTTTTA
105657104 TTTCAAAATT-TTTTTT
1 TTTC-AAATTATTTTTT
105657120 TTATAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCAAATTATTTTTTA
Found at i:105658042 original size:2 final size:2
Alignment explanation
Indices: 105658035--105658063 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105658025 CCAACTAACA
105658035 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
105658064 AGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:105658068 original size:2 final size:2
Alignment explanation
Indices: 105658063--105658102 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
105658053 GTGTGTGTGT
* *
105658063 GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GG GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
105658103 AACCTTGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:105669043 original size:18 final size:18
Alignment explanation
Indices: 105669022--105669322 Score: 144
Period size: 18 Copynumber: 16.3 Consensus size: 18
105669012 GAACAATTAT
105669022 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
105669040 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
105669058 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
105669076 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
105669102 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
105669120 TTATTCAATAA-AATCA-
1 TTATTCAGTAACAGTCAG
* *
105669136 TATATTCAGTAACAATTAAG
1 T-TATTCAGTAAC-AGTCAG
*
105669156 TTATTCAATAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
105669173 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
105669192 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
105669210 TTATTCAGCAATATTCAG
1 TTATTCAGTAACAGTCAG
* *
105669228 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
105669246 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
105669264 ATATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
105669282 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
105669300 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
105669318 TTATT
1 TTATT
105669323 TTATACCTTT
Statistics
Matches: 214, Mismatches: 51, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
16 1 0.00
17 16 0.07
18 163 0.76
19 17 0.08
20 1 0.00
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:105669062 original size:36 final size:36
Alignment explanation
Indices: 105669007--105669322 Score: 192
Period size: 36 Copynumber: 8.6 Consensus size: 36
105668997 GTTCATTAAC
* *
105669007 ATTCAG-AACAATTATTTATTCAGTAACAGTCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * **
105669042 ATTCGGTAACAATCAATTATTCAATAATAACCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * *
105669078 ATTCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATT
1 ATTCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTT
* * *
105669122 ATTCAATAA-AATC-ATATATTCAGTAACAATTAAGTT
1 ATTCAGTAACAATCAAT-TATTCAGTAAC-AGTCAGTT
* * * *
105669158 ATTCAATAACAGTC-ATTCATTCAGTGACAATCAGTT
1 ATTCAGTAACAATCAATT-ATTCAGTAACAGTCAGTT
** * * *
105669194 ATTCAGTAATGATCAATTATTCAGCAATATTCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * * *
105669230 ATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-AT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTC-AGTT
* * * *
105669266 ATCCAGTAACAATCAATTATCCGGTAACAGTCAATT
1 ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
* * *
105669302 ATTCAATAATAATCAGTTATT
1 ATTCAGTAACAATCAATTATT
105669323 TTATACCTTT
Statistics
Matches: 213, Mismatches: 52, Indels: 31
0.72 0.18 0.10
Matches are distributed among these distances:
35 13 0.06
36 154 0.72
37 20 0.09
42 4 0.02
43 5 0.02
44 17 0.08
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAACAGTCAGTT
Found at i:105669234 original size:8 final size:8
Alignment explanation
Indices: 105669188--105669254 Score: 53
Period size: 8 Copynumber: 7.6 Consensus size: 8
105669178 TCAGTGACAA
105669188 TCAGTTAT
1 TCAGTTAT
*
105669196 TCAGTAAT
1 TCAGTTAT
*
105669204 GATCAATTAT
1 --TCAGTTAT
*
105669214 TCAGCAATAT
1 TCAG--TTAT
105669224 TCAGTTAT
1 TCAGTTAT
105669232 TCAGTAATAT
1 TCAGT--TAT
105669242 TCAGTTAT
1 TCAGTTAT
105669250 TCAGT
1 TCAGT
105669255 AACAGTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
8 26 0.55
10 21 0.45
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (8 bp):
TCAGTTAT
Found at i:105669246 original size:10 final size:10
Alignment explanation
Indices: 105669211--105669256 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 10
105669201 AATGATCAAT
*
105669211 TATTCAGCAA
1 TATTCAGTAA
105669221 TATTCAGT--
1 TATTCAGTAA
105669229 TATTCAGTAA
1 TATTCAGTAA
105669239 TATTCAGT--
1 TATTCAGTAA
105669247 TATTCAGTAA
1 TATTCAGTAA
105669257 CAGTCTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 16 0.52
10 15 0.48
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (10 bp):
TATTCAGTAA
Found at i:105669491 original size:6 final size:6
Alignment explanation
Indices: 105669480--105669504 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
105669470 ACAAATCCGG
105669480 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
105669505 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:105669534 original size:45 final size:45
Alignment explanation
Indices: 105669485--105669594 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
105669475 TCCGGAACAG
*
105669485 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGATGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGACGAATCGA
* * * *
105669530 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGACGAATCGA
* *
105669575 TAATAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
105669595 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGACGAATCGA
Found at i:105669718 original size:16 final size:16
Alignment explanation
Indices: 105669697--105669734 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
105669687 AATAGGTTAT
105669697 TTAATTCACT-TTTCAA
1 TTAATTCA-TATTTCAA
*
105669713 TTAATTCATATTTTAA
1 TTAATTCATATTTCAA
105669729 TTAATT
1 TTAATT
105669735 AACTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTCATATTTCAA
Found at i:105673638 original size:20 final size:21
Alignment explanation
Indices: 105673615--105673658 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
105673605 TATTTTTTTG
105673615 TTATTTTTA-AT-ATAAAATAT
1 TTATTTTTACATCATAAAA-AT
105673635 TTATTTTTACATCATAAAAAT
1 TTATTTTTACATCATAAAAAT
105673656 TTA
1 TTA
105673659 AAATTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTTTTACATCATAAAAAT
Found at i:105675481 original size:49 final size:49
Alignment explanation
Indices: 105675417--105675655 Score: 253
Period size: 49 Copynumber: 4.8 Consensus size: 49
105675407 TAGCCAAAGC
* * *
105675417 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *** *
105675466 TATCCGGTACACATAGTAGGCTGCACTTAGTACTACACACATAACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
105675516 CATCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
** * * * *
105675567 TATTGGGCACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
105675616 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACAC
105675656 ATGACCTCAC
Statistics
Matches: 151, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
49 72 0.48
50 44 0.29
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:105675653 original size:100 final size:99
Alignment explanation
Indices: 105675430--105675655 Score: 267
Period size: 100 Copynumber: 2.3 Consensus size: 99
105675420 CTGGTACGCA
* *
105675430 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGGCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGCACACATAGTAGGCTGCACTTA
* * * *
105675495 GTACTACACACATAACCTAACCATCTGATACACT
66 GTACTACACACACAACCTAACAATCCGATACACG
* * ** *
105675529 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGCACGCATAGTA-GCTTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGCACACATAGTAGGC-TGCAC
** * * *
105675593 TTAGTACTACACATGCGACC-AATAATCCGGTACACG
63 TTAGTACTACACACACAACCTAACAATCCGATACACG
105675629 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
105675656 ATGACCTCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 29 0.27
100 43 0.40
101 36 0.33
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGCACACATAGTAGGCTGCACTTA
GTACTACACACACAACCTAACAATCCGATACACG
Found at i:105677272 original size:18 final size:17
Alignment explanation
Indices: 105677237--105677294 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
105677227 ATTAAATTTG
105677237 TAATATTAAT-TTTATT
1 TAATATTAATATTTATT
*
105677253 TAATATTAATATTATGTT
1 TAATATTAATATT-TATT
* *
105677271 TACTATTATTATTT-TT
1 TAATATTAATATTTATT
*
105677287 AAATATTA
1 TAATATTA
105677295 GTGTACTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.51
17 3 0.09
18 14 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TAATATTAATATTTATT
Found at i:105677327 original size:17 final size:16
Alignment explanation
Indices: 105677304--105677352 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
105677294 AGTGTACTTT
105677304 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
105677321 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
*
105677336 GTACGTATATATATTTA
1 GTATGTATATAT-TTTA
105677353 TGAAGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:105677445 original size:18 final size:17
Alignment explanation
Indices: 105677424--105677457 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105677414 TAATACTATA
*
105677424 TTATATATATACATTTTT
1 TTATATACATAC-TTTTT
105677442 TTATATACATACTTTT
1 TTATATACATACTTTT
105677458 AATATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATACATACTTTTT
Found at i:105680152 original size:50 final size:53
Alignment explanation
Indices: 105680096--105680193 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
105680086 TTATTTCATG
*
105680096 TTGTTTT-AAG-CTTTT-TTATTTTTAA-TCAATGTTTATAATTAATAAATATA
1 TTGTTTTCAAGTCTTTTATTATTTTTAATTC-ATCTTTATAATTAATAAATATA
* *
105680146 TTGTTTTCAAGTTTTTTATTATTTTTAATTCATCTTTTTAATTAATAA
1 TTGTTTTCAAGTCTTTTATTATTTTTAATTCATCTTTATAATTAATAA
105680194 CTCTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 7 0.17
51 3 0.07
52 4 0.10
53 25 0.61
54 2 0.05
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (53 bp):
TTGTTTTCAAGTCTTTTATTATTTTTAATTCATCTTTATAATTAATAAATATA
Found at i:105682615 original size:20 final size:20
Alignment explanation
Indices: 105682586--105682640 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
105682576 AAATTGAATT
* *
105682586 TCTTACAAAATTATTAAATC
1 TCTTATAAAATTATTAAACC
* *
105682606 TCTTATAAAACTACTAAACC
1 TCTTATAAAATTATTAAACC
* *
105682626 TATCATAAAATTATT
1 TCTTATAAAATTATT
105682641 GAATATTTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.38
Consensus pattern (20 bp):
TCTTATAAAATTATTAAACC
Found at i:105683607 original size:21 final size:21
Alignment explanation
Indices: 105683561--105683607 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
105683551 AGTATCATTT
*
105683561 TATATTTATATACTACATAAA
1 TATAATTATATACTACATAAA
* *
105683582 AATAATTATATA-TAGATCAAA
1 TATAATTATATACTACAT-AAA
105683603 TATAA
1 TATAA
105683608 AAATAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAATTATATACTACATAAA
Found at i:105683738 original size:29 final size:30
Alignment explanation
Indices: 105683658--105683742 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
105683648 GAATCAAAGC
* *
105683658 TAAAGTTTATTGCATACATTTGA-GCCACAAT
1 TAAAGTTTA-TGCATACAATT-ACACCACAAT
* * *
105683689 CAAAGTTTTATGTATATAATTACACCA-AAT
1 TAAAG-TTTATGCATACAATTACACCACAAT
105683719 TAAAGTTTATGCATACAATTACAC
1 TAAAGTTTATGCATACAATTACAC
105683743 ATTAAACGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 17 0.39
30 8 0.18
31 15 0.34
32 4 0.09
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (30 bp):
TAAAGTTTATGCATACAATTACACCACAAT
Found at i:105702460 original size:16 final size:16
Alignment explanation
Indices: 105702429--105702463 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
105702419 GTATTAAATT
105702429 TATATATATATTAAAA
1 TATATATATATTAAAA
105702445 TATA-ATATATTAAAA
1 TATATATATATTAAAA
105702460 -ATAT
1 TATAT
105702464 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 11 0.61
16 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATATATATTAAAA
Found at i:105702488 original size:23 final size:24
Alignment explanation
Indices: 105702436--105702505 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
105702426 ATTTATATAT
*
105702436 ATATTAAAATATAATA-TATTAAAA
1 ATATTAAAATA-AATATTTTTAAAA
*
105702460 ATATTAAAATAAATATTTTTAACA
1 ATATTAAAATAAATATTTTTAAAA
*
105702484 A-ATTAAAA-AAA-ATTTTAAAAA
1 ATATTAAAATAAATATTTTTAAAA
105702505 A
1 A
105702506 ATCTTTATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 9 0.22
22 3 0.07
23 11 0.27
24 18 0.44
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATTAAAATAAATATTTTTAAAA
Found at i:105705879 original size:46 final size:45
Alignment explanation
Indices: 105705803--105706052 Score: 266
Period size: 46 Copynumber: 5.6 Consensus size: 45
105705793 TGATGTCATA
* * * *
105705803 GTATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCTATCATGTTGCCATG
* * *
105705849 GTATCTTTCAACCATGGTCTTATTCATTTTCTCGTCATGTTGCCATA
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCT-ATCATGTTGCCATG
105705896 GTATCTTTCAACCATGGTCTTACTCA--T-T-TCATG-T--CA-G
1 GTATCTTTCAACCATGGTCTTACTCATTTCTATCATGTTGCCATG
* *
105705933 GT-TGCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTAT-CTTTCAACCATGGTCTTACTCATTTC-TATCATGTTGCCATG
* * *
105705979 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCTATG
1 GTATCTTTCAACCATGGTCTTACTCATTTC-TATCATGTTGCCATG
*
105706025 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
105706053 CCATATCAGA
Statistics
Matches: 179, Mismatches: 12, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
36 1 0.01
37 23 0.13
38 2 0.01
39 1 0.01
40 1 0.01
41 6 0.03
42 4 0.02
43 2 0.01
44 1 0.01
45 2 0.01
46 97 0.54
47 39 0.22
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCTATCATGTTGCCATG
Found at i:105705942 original size:37 final size:37
Alignment explanation
Indices: 105705900--105706021 Score: 127
Period size: 37 Copynumber: 3.1 Consensus size: 37
105705890 GCCATAGTAT
* *
105705900 CTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTG
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
*
105705937 CTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGG
1 CTTTCAACCATGGTCTTACTCATTTCATATCACG-T----T-G
*
105705980 TATCTTTCAACCATGGTCTTACACATTTCATATCACGTTG
1 ---CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
105706020 CT
1 CT
105706022 ATGGTATCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
37 33 0.46
38 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 32 0.45
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (37 bp):
CTTTCAACCATGGTCTTACTCATTTCATATCACGTTG
Found at i:105705995 original size:83 final size:84
Alignment explanation
Indices: 105705853--105706021 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 84
105705843 GCCATGGTAT
* *
105705853 CTTTCAACCATGGTCTTATTCATTTTCTCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
1 CTTTCAACCATGGTCTTATTCATTTTCTCATCACGTTGCCATAGTATCTTTCAACCATGGTCTTA
* * *
105705918 CTCATTTCATGTCAGGTTG
66 CACATTTCATATCACGTTG
*
105705937 CTTTCAACCATGGTCTTATTCA-TTTCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 CTTTCAACCATGGTCTTATTCATTTTC-TCATCACGTTGCCATAGTATCTTTCAACCATGGTCTT
105706000 ACACATTTCATATCACGTTG
65 ACACATTTCATATCACGTTG
105706020 CT
1 CT
105706022 ATGGTATCTT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
83 55 0.71
84 23 0.29
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (84 bp):
CTTTCAACCATGGTCTTATTCATTTTCTCATCACGTTGCCATAGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACGTTG
Found at i:105713166 original size:22 final size:23
Alignment explanation
Indices: 105713141--105713185 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
105713131 GTTTATTTTC
105713141 TTAATTTAT-TAAATAATATATT
1 TTAATTTATATAAATAATATATT
* *
105713163 TTAATTTATATAATTGATATATT
1 TTAATTTATATAAATAATATATT
105713186 ATTCGGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAATTTATATAAATAATATATT
Found at i:105724908 original size:24 final size:24
Alignment explanation
Indices: 105724881--105724927 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
105724871 CTCCATTTTT
*
105724881 ATATCCATTTCTCTATTTTATTTC
1 ATATCCATTTATCTATTTTATTTC
***
105724905 ATATTGTTTTATCTATTTTATTT
1 ATATCCATTTATCTATTTTATTT
105724928 TTCATATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATCCATTTATCTATTTTATTTC
Found at i:105725300 original size:29 final size:29
Alignment explanation
Indices: 105725267--105725324 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
105725257 TTTTTAGATA
105725267 ATTTTATTTTCCAAATCAACCATATCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
* *
105725296 ATTTTATTTTTCAAATCAACCATTTCTCT
1 ATTTTATTTTCCAAATCAACCATATCTCT
105725325 TCTTTCTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTATTTTCCAAATCAACCATATCTCT
Found at i:105725369 original size:29 final size:28
Alignment explanation
Indices: 105725333--105725460 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 28
105725323 CTTCTTTCTC
*
105725333 CCCTATTTTATTTTCCATATCAACCATTT
1 CCCTATTTTATTTTCCATAT-AACCGTTT
* *
105725362 CTCTATTTTATTTTTCATAT----GTTT
1 CCCTATTTTATTTTCCATATAACCGTTT
* *****
105725386 CCCTATTTTATTTTCCTTATTGTTTTTT
1 CCCTATTTTATTTTCCATATAACCGTTT
*
105725414 CCCGTATTTTATTTTTCATATCAACCGTTT
1 CCC-TATTTTATTTTCCATAT-AACCGTTT
*
105725444 CTCTATTTTATTTTCCA
1 CCCTATTTTATTTTCCA
105725461 CATTCTTTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
24 20 0.26
28 6 0.08
29 46 0.60
30 5 0.06
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (28 bp):
CCCTATTTTATTTTCCATATAACCGTTT
Found at i:105725406 original size:14 final size:14
Alignment explanation
Indices: 105725383--105725428 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
105725373 TTTTCATATG
105725383 TTTCCCTATTTTAT
1 TTTCCCTATTTTAT
*
105725397 TTTCCTTATTGTT-T
1 TTTCCCTATT-TTAT
105725411 TTTCCCGTATTTTAT
1 TTTCCC-TATTTTAT
105725426 TTT
1 TTT
105725429 TCATATCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTCCCTATTTTAT
Done.