Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 144 of 187
Found at i:43430458 original size:40 final size:40
Alignment explanation
Indices: 43430408--43430507 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
43430398 AGGGGTGTTA
** *
43430408 CACACTAAGTGCCATATATAGTCGAAACTTTCTTGAATTG
1 CACACTAAGTGCCATATATAACCGAAACTTTCTTGAATCG
* * *
43430448 CACAATAAGTGCCGTATATAACCGAAGCTTTCTTGAATCG
1 CACACTAAGTGCCATATATAACCGAAACTTTCTTGAATCG
*
43430488 CACACTAAGTGTCATATATA
1 CACACTAAGTGCCATATATA
43430508 TATATGATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAACCGAAACTTTCTTGAATCG
Found at i:43431316 original size:39 final size:39
Alignment explanation
Indices: 43431272--43431349 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
43431262 TAAAATACTC
43431272 AAATACCAAAATTAACCTTTAAATTAATTCAAAACTACA
1 AAATACCAAAATTAACCTTTAAATTAATTCAAAACTACA
43431311 AAATACCAAAATTAACCTTTAAATTAATTCAAAACTACA
1 AAATACCAAAATTAACCTTTAAATTAATTCAAAACTACA
43431350 TTTATGACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (39 bp):
AAATACCAAAATTAACCTTTAAATTAATTCAAAACTACA
Found at i:43454557 original size:53 final size:53
Alignment explanation
Indices: 43454477--43454683 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
43454467 TTCCTTTTTA
* *
43454477 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * *
43454530 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACCG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * *
43454584 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * *
43454639 AACTTACCAGTGCCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
43454684 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 39 0.32
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:43454632 original size:55 final size:53
Alignment explanation
Indices: 43454490--43454683 Score: 183
Period size: 54 Copynumber: 3.6 Consensus size: 53
43454480 TTACCATTGT
* * *
43454490 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTACGAACTCACCAATGC
* * * * ** * *
43454543 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACCGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-CG-AACTCACCAATGC
* * * * *
43454598 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA-AAACTTACCAGTGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCC-T-TACGAACTCACCAATGC
* *
43454652 CATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
43454684 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 33 0.30
54 38 0.34
55 37 0.33
56 1 0.01
57 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTACGAACTCACCAATGC
Found at i:43459884 original size:23 final size:23
Alignment explanation
Indices: 43459854--43459899 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43459844 TATTTCTTTC
43459854 ATACGAGCTTACTAAGCTATATA
1 ATACGAGCTTACTAAGCTATATA
43459877 ATACGAGCTTACTAAGCTATATA
1 ATACGAGCTTACTAAGCTATATA
43459900 GCTTACTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
ATACGAGCTTACTAAGCTATATA
Found at i:43465475 original size:49 final size:47
Alignment explanation
Indices: 43465410--43465721 Score: 230
Period size: 46 Copynumber: 6.6 Consensus size: 47
43465400 GTAAGGTGCT
* *
43465410 GATGCAATGTCCCAGACATGGTCTTACACTGGCTATCATCTTTAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-ATCATCTTGAA-GCC
* * * * *
43465459 AATGCCATGTCTCAGACATGTTCTTACACTAGC-TC-TCAAT-AACCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCATCATC-TTGAA----GCC
* * *
43465508 GATGCCATATCCCAGACATGGTCTTACACTGACA-CATCTTGCAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCATCATCTTGAAGCC
* * * *
43465554 GATG-CATGTCCAAGACAT-GTCTTACACTGGCCTAAGTCTCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCATCA-TCTTGAAGCC
* * * * *
43465600 GATG-CATGTCTCAGACAT-GTCTTACACTAGCACTCGTCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCA-TCATCTTGAAGCC
* * * **
43465646 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-ATCATCTTGAAGCC
* *
43465694 GATG-AATGTCCCAGGCAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
43465722 AGCTCACACA
Statistics
Matches: 209, Mismatches: 41, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
44 12 0.06
45 13 0.06
46 70 0.33
47 27 0.13
48 24 0.11
49 60 0.29
50 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCATCATCTTGAAGCC
Found at i:43465695 original size:94 final size:93
Alignment explanation
Indices: 43465405--43465729 Score: 261
Period size: 94 Copynumber: 3.4 Consensus size: 93
43465395 CATGGGTAAG
* * * *** *
43465405 GTGCTGATGCAATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTTAAGGCCAATGCCATGT
1 GTGCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGC-ACACATCTCGCA-GCCGATGCCATGT
* * * * *
43465469 CTCAGACATGTTCTTACACTAGCTCTCAATAACC
62 CCCAAACATGGTCTTACACTGGCTCTC-AT-ATC
* *
43465503 GTGCCGATGCCATATCCCAGACATGGTCTTACACT-G-ACACATCTTGCAGCCGATG-CATGT-C
1 GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCGCAGCCGATGCCATGTCC
* *
43465564 CAAGACAT-GTCTTACACTGGC-CTAAGTCTC
64 CAA-ACATGGTCTTACACTGGCTCTCA-TATC
* * * *
43465594 GAAGCCGATGCATGTCTCAGACATGTCTTACACTAGCACTCGTCTCG-ATGCCGATGCCATGTCC
1 G-TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCGCA-GCCGATGCCATGTCC
*
43465658 CAAACATGGTCTTACACTGGCTCTCATATT
64 CAAACATGGTCTTACACTGGCTCTCATATC
* * *
43465688 GTGGCCGATGAATGTCCCAGGCATGTCTTACACTAGCTCACA
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
43465730 CAAGTGACCC
Statistics
Matches: 185, Mismatches: 29, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
90 10 0.05
91 17 0.09
92 24 0.13
93 22 0.12
94 62 0.34
95 10 0.05
96 7 0.04
97 1 0.01
98 31 0.17
99 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
GTGCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCGCAGCCGATGCCATGTCCCA
AACATGGTCTTACACTGGCTCTCATATC
Found at i:43468286 original size:45 final size:45
Alignment explanation
Indices: 43467342--43468279 Score: 1697
Period size: 45 Copynumber: 20.9 Consensus size: 45
43467332 TTTTCTCAAA
* * * * *
43467342 TCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGATATCAT-TC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGA-ATAATATC
* * * *
43467385 -CACCGACATTATAGCCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCTGAATAATATC
*
43467429 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467474 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467519 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467564 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467609 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467654 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467699 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467744 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467789 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467834 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467879 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467924 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43467969 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43468014 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43468059 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43468104 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
43468149 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
* * *
43468194 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
*
43468239 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAA
43468280 CATTTCATCA
Statistics
Matches: 872, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
42 8 0.01
43 16 0.02
44 11 0.01
45 837 0.96
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATC
Found at i:43470197 original size:17 final size:17
Alignment explanation
Indices: 43470175--43470219 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
43470165 ACATAACTTG
* *
43470175 CATGCATGTTATTTAAA
1 CATGCATATCATTTAAA
43470192 CATGCATATCATTTAAA
1 CATGCATATCATTTAAA
43470209 CATGCATATCA
1 CATGCATATCA
43470220 AAAATCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (17 bp):
CATGCATATCATTTAAA
Found at i:43474394 original size:25 final size:26
Alignment explanation
Indices: 43474345--43474394 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
43474335 AAGGTAAATC
*
43474345 CGTATGTTAAATAAGCTTTACTCTAAA
1 CGTATGTTAAAT-AGCTTTAATCTAAA
*
43474372 CGTATTTTAAAT-GCTTTAATCTA
1 CGTATGTTAAATAGCTTTAATCTA
43474395 TGCATGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
CGTATGTTAAATAGCTTTAATCTAAA
Found at i:43479548 original size:27 final size:27
Alignment explanation
Indices: 43479510--43479565 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
43479500 AAGCACTTGT
*
43479510 TTATAGTCTAAGCTGGACTTACCGCTC
1 TTATAGTCTAAGCTCGACTTACCGCTC
*
43479537 TTATAGTCTAAGCTCGACTTACCTCTC
1 TTATAGTCTAAGCTCGACTTACCGCTC
43479564 TT
1 TT
43479566 CTGCATGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (27 bp):
TTATAGTCTAAGCTCGACTTACCGCTC
Found at i:43486692 original size:37 final size:37
Alignment explanation
Indices: 43486628--43486703 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
43486618 TCACAAGCCA
43486628 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
43486665 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
43486702 AA
1 AA
43486704 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:43487379 original size:17 final size:17
Alignment explanation
Indices: 43487357--43487392 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43487347 CGACTCTGTC
43487357 TCACAAGAATTCAAATA
1 TCACAAGAATTCAAATA
43487374 TCACAAGAATTCAAATA
1 TCACAAGAATTCAAATA
43487391 TC
1 TC
43487393 TCATGATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (17 bp):
TCACAAGAATTCAAATA
Found at i:43491016 original size:15 final size:15
Alignment explanation
Indices: 43490998--43491056 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
43490988 AAACCAGAAT
*
43490998 AAAGAAATCCATGAC
1 AAAGAAATCCAAGAC
* *
43491013 AAAGGAATCCAAGAT
1 AAAGAAATCCAAGAC
* **
43491028 AAAGATATCCAAGGT
1 AAAGAAATCCAAGAC
*
43491043 ACAGAAATCCAAGA
1 AAAGAAATCCAAGA
43491057 TACCATATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.14
Consensus pattern (15 bp):
AAAGAAATCCAAGAC
Found at i:43493028 original size:37 final size:37
Alignment explanation
Indices: 43492964--43493039 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
43492954 TTACAAGCCA
43492964 AAATCATTATAAGCCACATCTCATGGCTAAAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCT-AATCACAAC
*
43493001 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
43493038 AA
1 AA
43493040 CATTGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 5 0.14
37 29 0.83
38 1 0.03
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:43496711 original size:10 final size:11
Alignment explanation
Indices: 43496692--43496721 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
43496682 AATTTAATAA
43496692 AATTCACATTC
1 AATTCACATTC
43496703 AATTC-CATTC
1 AATTCACATTC
43496713 AATTCACAT
1 AATTCACAT
43496722 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:43502993 original size:24 final size:23
Alignment explanation
Indices: 43502935--43502993 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
43502925 AAAAGAACTT
43502935 CAATTTTATTAAAAATATAAAAA
1 CAATTTTATTAAAAATATAAAAA
*
43502958 TAATTTACTATT-AAAATATTAAAAA
1 CAATTT--TATTAAAAATA-TAAAAA
43502983 CAACTTTTATT
1 CAA-TTTTATT
43502994 TTTTTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 5 0.17
24 10 0.33
25 12 0.40
26 3 0.10
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
CAATTTTATTAAAAATATAAAAA
Found at i:43503150 original size:21 final size:21
Alignment explanation
Indices: 43503126--43503166 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43503116 TTCAGCTTCT
43503126 AGCGGGAGTTGTGCTTGCTCC
1 AGCGGGAGTTGTGCTTGCTCC
* *
43503147 AGCGGGTGTTGTGGTTGCTC
1 AGCGGGAGTTGTGCTTGCTC
43503167 TGATTGTGGG
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:0.07, C:0.20, G:0.41, T:0.32
Consensus pattern (21 bp):
AGCGGGAGTTGTGCTTGCTCC
Found at i:43505022 original size:25 final size:24
Alignment explanation
Indices: 43504973--43505024 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
43504963 ACTGCTATAG
* *
43504973 AAAATTATAAAATAAAAATTAATT
1 AAAATTAAAAAATAAAAAATAATT
43504997 AAAATTAAATAAATGAAAAAAT-ATT
1 AAAATTAAA-AAAT-AAAAAATAATT
43505022 AAA
1 AAA
43505025 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTAAAAAATAAAAAATAATT
Found at i:43505235 original size:30 final size:29
Alignment explanation
Indices: 43505196--43505262 Score: 116
Period size: 30 Copynumber: 2.3 Consensus size: 29
43505186 ATTAATTAAA
43505196 GAGAGTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTGAGAAATTTAAGGAGAAATTT
*
43505225 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAG-TTTGAGAAATTTAAGGAGAAATTT
43505255 GAGAGTTT
1 GAGAGTTT
43505263 TTTTGCTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 8 0.22
30 28 0.78
ACGTcount: A:0.37, C:0.01, G:0.30, T:0.31
Consensus pattern (29 bp):
GAGAGTTTGAGAAATTTAAGGAGAAATTT
Found at i:43508474 original size:23 final size:24
Alignment explanation
Indices: 43508448--43508493 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
43508438 TGTAAAAGTT
43508448 TCTGAAAAGAGAGAAGAA-AAAGA
1 TCTGAAAAGAGAGAAGAACAAAGA
* * *
43508471 TCTGGAAAGGGATAAGAACAAAG
1 TCTGAAAAGAGAGAAGAACAAAG
43508494 TAAAAAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.54, C:0.07, G:0.28, T:0.11
Consensus pattern (24 bp):
TCTGAAAAGAGAGAAGAACAAAGA
Found at i:43510590 original size:22 final size:22
Alignment explanation
Indices: 43510565--43510607 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
43510555 ACATAAATAT
43510565 TAGTTTACAAAGTATTAAAGTG
1 TAGTTTACAAAGTATTAAAGTG
43510587 TAGTTTACAAAGTATTAAAGT
1 TAGTTTACAAAGTATTAAAGT
43510608 TATACACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (22 bp):
TAGTTTACAAAGTATTAAAGTG
Found at i:43511311 original size:20 final size:21
Alignment explanation
Indices: 43511274--43511313 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43511264 ATTAAATGCT
* *
43511274 AAAATTATTGGTACTTTTTTA
1 AAAAGTATTGATACTTTTTTA
43511295 AAAAGTATTGATA-TTTTTT
1 AAAAGTATTGATACTTTTTT
43511314 GTTGTAGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (21 bp):
AAAAGTATTGATACTTTTTTA
Found at i:43523045 original size:23 final size:24
Alignment explanation
Indices: 43523001--43523048 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
43522991 GAAGATGTGC
*
43523001 AAAATTCGGCAGTCAAGGGGGAAAA
1 AAAATTCGGCAG-CAAGAGGGAAAA
43523026 AAAATTCGGCAG-AAGAGGGAAAA
1 AAAATTCGGCAGCAAGAGGGAAAA
43523049 TAAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
25 12 0.55
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.10
Consensus pattern (24 bp):
AAAATTCGGCAGCAAGAGGGAAAA
Found at i:43524545 original size:16 final size:16
Alignment explanation
Indices: 43524509--43524547 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43524499 GTTTGGTTCA
*
43524509 CTGTAATAGAATAGGG
1 CTGTAATAGAATAGAG
* *
43524525 TTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
43524541 CTGTAAT
1 CTGTAAT
43524548 CAATAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:43524866 original size:12 final size:12
Alignment explanation
Indices: 43524815--43524867 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
43524805 AATAATATAT
*
43524815 ATTTTAATAA-C
1 ATTTTAATAATA
43524826 ATTATTAAT-ATA
1 ATT-TTAATAATA
43524838 ATTATTAATAAT-
1 ATT-TTAATAATA
43524850 A-TTTAATAATA
1 ATTTTAATAATA
43524861 ATTTTAA
1 ATTTTAA
43524868 GTTAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 8 0.22
11 6 0.17
12 20 0.56
13 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTTAATAATA
Found at i:43526312 original size:108 final size:108
Alignment explanation
Indices: 43526123--43527096 Score: 1930
Period size: 108 Copynumber: 9.0 Consensus size: 108
43526113 AAAAAGAAGA
*
43526123 ATTCATATTAGATATAAGTTTGGACAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
*
43526188 TATATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526231 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526296 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526339 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526404 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526447 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526512 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526555 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526620 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526663 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526728 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526771 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526836 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526879 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43526944 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43526987 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
1 ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
43527052 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
66 TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
43527095 AT
1 AT
43527097 GCTCATCCCA
Statistics
Matches: 864, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 864 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (108 bp):
ATTCATATTAGATATAAGTTTGGTCAAATTAAGATAATAAAGACTTGAAATAATTCTTACATTTA
TTTATGAGTTCCATACCGCATCTTCAGCAACAACAAGCTGCCT
Found at i:43529390 original size:17 final size:17
Alignment explanation
Indices: 43529368--43529401 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43529358 TTACATAATT
*
43529368 TCAAACTTTGATTTTTA
1 TCAAACTTTAATTTTTA
43529385 TCAAACTTTAATTTTTA
1 TCAAACTTTAATTTTTA
43529402 AAATCATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
TCAAACTTTAATTTTTA
Found at i:43530739 original size:15 final size:16
Alignment explanation
Indices: 43530700--43530740 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
43530690 AACAACACTC
43530700 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
43530716 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
43530730 CTTTCTTTTTC
1 CTTTCTTTTTC
43530741 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:43530938 original size:15 final size:14
Alignment explanation
Indices: 43530918--43530965 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
43530908 CTCATTTTCA
43530918 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
43530933 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
43530947 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
43530962 TCTT
1 TCTT
43530966 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:43530970 original size:22 final size:21
Alignment explanation
Indices: 43530918--43530976 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
43530908 CTCATTTTCA
* *
43530918 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
43530939 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
43530960 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
43530977 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:43531518 original size:56 final size:56
Alignment explanation
Indices: 43531457--43531566 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
43531447 TATCATGCAA
* *
43531457 TTTATCAAAATTTGATTTCACAATTCTACGTATCTCTTGCTTCAAATATTGGAAAT
1 TTTATCAAAATTTGATTTCACAATTCTACGCATCTCTTGCATCAAATATTGGAAAT
* * *
43531513 TTTATCAAAGTTTGATTTCACCATTCTACGCATTTCTTGCATCAAATATTGGAA
1 TTTATCAAAATTTGATTTCACAATTCTACGCATCTCTTGCATCAAATATTGGAA
43531567 TTCTGATTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (56 bp):
TTTATCAAAATTTGATTTCACAATTCTACGCATCTCTTGCATCAAATATTGGAAAT
Found at i:43534293 original size:155 final size:155
Alignment explanation
Indices: 43534011--43534320 Score: 584
Period size: 155 Copynumber: 2.0 Consensus size: 155
43534001 CAACTATTTA
*
43534011 AAAGCATAAGTTAAAATAAATTGAAGTTCAAATTTAATGACCTGAAATTAGCTCGAATTTGAGCT
1 AAAGCATAAGTTAAAATAAATTGAAGTTCAAATTTAATGACCTGAAATTAGCTCAAATTTGAGCT
43534076 CCATTGAACTGAAACAATCTCGATCAACTTGCAAGAATTTGCGATTGTCGCCTGATGAACTGAAC
66 CCATTGAACTGAAACAATCTCGATCAACTTGCAAGAATTTGCGATTGTCGCCTGATGAACTGAAC
43534141 CAAGGATGTTTTCGGGGCAGGGTCG
131 CAAGGATGTTTTCGGGGCAGGGTCG
*
43534166 AAAGCATAAGTTAAAATAAATTGAAGTTCAAATTTAATGAGCTGAAATTAGCTCAAATTTGAGCT
1 AAAGCATAAGTTAAAATAAATTGAAGTTCAAATTTAATGACCTGAAATTAGCTCAAATTTGAGCT
**
43534231 CCATTGAACTGAAACAATCTCGATCAACTTGCAAGAATTTTTGATTGTCGCCTGATGAACTGAAC
66 CCATTGAACTGAAACAATCTCGATCAACTTGCAAGAATTTGCGATTGTCGCCTGATGAACTGAAC
43534296 CAAGGATGTTTTCGGGGCAGGGTCG
131 CAAGGATGTTTTCGGGGCAGGGTCG
43534321 TATCATTCCC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 151 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (155 bp):
AAAGCATAAGTTAAAATAAATTGAAGTTCAAATTTAATGACCTGAAATTAGCTCAAATTTGAGCT
CCATTGAACTGAAACAATCTCGATCAACTTGCAAGAATTTGCGATTGTCGCCTGATGAACTGAAC
CAAGGATGTTTTCGGGGCAGGGTCG
Found at i:43536155 original size:15 final size:14
Alignment explanation
Indices: 43536135--43536182 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
43536125 CTCATTTTCA
43536135 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
43536150 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
43536164 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
43536179 TCTT
1 TCTT
43536183 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:43536187 original size:22 final size:21
Alignment explanation
Indices: 43536135--43536193 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
43536125 CTCATTTTCA
* *
43536135 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
43536156 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
43536177 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
43536194 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:43537126 original size:33 final size:32
Alignment explanation
Indices: 43537083--43537162 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
43537073 AATCACTCTT
* *
43537083 TTTTTTTTTTTCAATTTTG-ATTTTTTTTTTC
1 TTTTTTTTTTTCAATTCTGAAATTTTTTTTTC
43537114 TTCCTTTTTTTTT-AATTCTGAAATTTTTTTTTC
1 TT--TTTTTTTTTCAATTCTGAAATTTTTTTTTC
43537147 TTTTTTTTTCTTCAAT
1 TTTTTTTTT-TTCAAT
43537163 ACTAAATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 9 0.21
32 8 0.19
33 25 0.60
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTTTTTTTTTCAATTCTGAAATTTTTTTTTC
Found at i:43537141 original size:32 final size:30
Alignment explanation
Indices: 43537081--43537156 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
43537071 TCAATCACTC
* *
43537081 TTTT-TTTTTTTTTCAATTTTG-ATTTTTT
1 TTTTCTTTTTTTTTCAATTCTGAAATTTTT
*
43537109 TTTTCTTCCTTTTTTTTTAATTCTGAAATTTTT
1 TTTTC-T--TTTTTTTTCAATTCTGAAATTTTT
43537142 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTTC
43537157 TTCAATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 4 0.10
30 9 0.23
32 15 0.38
33 11 0.28
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.78
Consensus pattern (30 bp):
TTTTCTTTTTTTTTCAATTCTGAAATTTTT
Found at i:43537219 original size:14 final size:14
Alignment explanation
Indices: 43537195--43537232 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
43537185 AAATTGAATA
*
43537195 CAAACTTTTTTTTT
1 CAAATTTTTTTTTT
43537209 --AATTTTTTTTTT
1 CAAATTTTTTTTTT
43537221 CAAATTTTTTTT
1 CAAATTTTTTTT
43537233 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.52
14 10 0.48
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (14 bp):
CAAATTTTTTTTTT
Found at i:43537244 original size:11 final size:12
Alignment explanation
Indices: 43537201--43537244 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
43537191 AATACAAACT
*
43537201 TTTTTTTTAATT
1 TTTTTTTTAATA
43537213 TTTTTTTTCAA-A
1 TTTTTTTT-AATA
43537225 TTTTTTTT-ATA
1 TTTTTTTTAATA
43537236 TTTTTTTTA
1 TTTTTTTTA
43537245 CAATACCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
12 16 0.57
13 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTAATA
Found at i:43539203 original size:25 final size:25
Alignment explanation
Indices: 43539169--43539222 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
43539159 AATAAATCAG
*
43539169 CATGCATGCTTCCTTGAATGTTGTT
1 CATGCATGCTTCCTTGAATGCTGTT
** *
43539194 CATGCATGCTTTTTTTAATGCTGTT
1 CATGCATGCTTCCTTGAATGCTGTT
43539219 CATG
1 CATG
43539223 TACCTGCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (25 bp):
CATGCATGCTTCCTTGAATGCTGTT
Found at i:43539440 original size:76 final size:76
Alignment explanation
Indices: 43539307--43539448 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
43539297 TTCGGCAGCA
* * * * *
43539307 ACAATTAACTTCAGCTGGACACCATTTAAGACATCATTAAATTCGATAGTAGTAAGACAAATTAA
1 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
43539372 ATTATGTAATG
66 ATTATGTAATG
*
43539383 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCCA-CAAGACACATTA
1 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAG-CAGCAAGACAAATTA
43539447 AA
65 AA
43539449 GTGGCTCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (76 bp):
ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
ATTATGTAATG
Found at i:43541159 original size:12 final size:12
Alignment explanation
Indices: 43541142--43541167 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43541132 AAAACACCAT
43541142 GGAAGCATGCTA
1 GGAAGCATGCTA
43541154 GGAAGCATGCTA
1 GGAAGCATGCTA
43541166 GG
1 GG
43541168 TTCGACCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (12 bp):
GGAAGCATGCTA
Found at i:43541872 original size:29 final size:29
Alignment explanation
Indices: 43541813--43541878 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
43541803 GTACAATATT
*
43541813 AAAGGGATAAATTCAGCTATCGAATGCGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
** * * *
43541842 AAAGGGATAGCTTCGGCTATCGATTATGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
*
43541871 AAAAGGAT
1 AAAGGGAT
43541879 GGTGACGACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (29 bp):
AAAGGGATAAATTCAGCTATCGAATACGA
Found at i:43541899 original size:29 final size:30
Alignment explanation
Indices: 43541867--43541938 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
43541857 GCTATCGATT
* *
43541867 ATGAAAAAGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTAACGACCATCGAACA
*
43541896 ATGAAAAGGGATGGTAACGACCATCGAACT
1 ATGAAAAGGGATGGTAACGACCATCGAACA
43541926 ATGAAAAGGGATG
1 ATGAAAAGGGATG
43541939 ACTTCGGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.15
Consensus pattern (30 bp):
ATGAAAAGGGATGGTAACGACCATCGAACA
Found at i:43541958 original size:30 final size:32
Alignment explanation
Indices: 43541924--43541998 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 32
43541914 GACCATCGAA
* *
43541924 CTATGAAAAGGGATGA-CTTCGGTTAT-CAAT
1 CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
* *
43541954 CTATGAAATGAGAT-AGCTTCGGCTATGAAAT
1 CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
43541985 C-ATGAAAAGGGATG
1 CTATGAAAAGGGATG
43541999 GTGACGACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
29 1 0.03
30 31 0.86
31 4 0.11
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (32 bp):
CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
Found at i:43542020 original size:30 final size:30
Alignment explanation
Indices: 43541986--43542057 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
43541976 CTATGAAATC
* *
43541986 ATGAAAAGGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATGGCGACGACCATCAAACA
* * **
43542016 ATGAAAATGGATGGCGACGACCATTAAATT
1 ATGAAAAGGGATGGCGACGACCATCAAACA
43542046 ATGAAAAGGGAT
1 ATGAAAAGGGAT
43542058 AGCTTCGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGCGACGACCATCAAACA
Found at i:43542050 original size:60 final size:59
Alignment explanation
Indices: 43541864--43542057 Score: 158
Period size: 60 Copynumber: 3.3 Consensus size: 59
43541854 TCGGCTATCG
* * * *
43541864 ATTATGAAAAAGGATGGTGACGACCATCAACAATGAAAAGGGATGGTAACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAATGGATGGCAACGACCATCAA
* * * *** * * ** * * *
43541923 ACTATGAAAAGGGATGACT-TCGGTTATCAATCTATG-AAATGAGATAGCTTCGGCTATGAA
1 ATTATGAAAAGGGATG-GTGACGACCATCAA-CAATGAAAATG-GATGGCAACGACCATCAA
* * *
43541983 ATCATGAAAAGGGATGGTGACGACCATCGAACAATGAAAATGGATGGCGACGACCATTAA
1 ATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAAATGGATGGCAACGACCATCAA
43542043 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
43542058 AGCTTCGGCT
Statistics
Matches: 97, Mismatches: 32, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
59 26 0.27
60 64 0.66
61 7 0.07
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (59 bp):
ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAATGGATGGCAACGACCATCAA
Found at i:43542086 original size:90 final size:90
Alignment explanation
Indices: 43541896--43542067 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 90
43541886 ACCATCAACA
* ** *** *
43541896 ATGAAAAGGGATGGTAACGACCATCGAACTATGAAAAGGGATGACTTCGGTTATCAATCTATGAA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCATAAATCTATGAA
*
43541961 ATGAGATAGCTTCGGCTATGAAATC
66 AAGAGATAGCTTCGGCTATGAAATC
* * *
43541986 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAATGGATGGCGACGACCATTAAAT-TATGA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCA-TAAATCTATGA
*
43542050 AAAGGGATAGCTTCGGCT
65 AAAGAGATAGCTTCGGCT
43542068 GTCGAACTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
90 65 0.94
91 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCATAAATCTATGAA
AAGAGATAGCTTCGGCTATGAAATC
Found at i:43543210 original size:42 final size:41
Alignment explanation
Indices: 43543163--43543270 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 41
43543153 ACAGCCTAGC
* * *
43543163 ACACGGTCTGACACACGGGCGTGTAAGGTTATTTTGAAGGGT
1 ACACGG-CTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
**
43543205 ACACGGCCTGGCACATGGGCGTGTGGGGTTATTTCGAAGGGT
1 ACACGG-CTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
*
43543247 GCACGGCATGGCACATGGGCGTGT
1 ACACGGC-TGGCACATGGGCGTGT
43543271 GGCTTAGCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (41 bp):
ACACGGCTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
Found at i:43543271 original size:42 final size:42
Alignment explanation
Indices: 43543174--43543272 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
43543164 CACGGTCTGA
* ** * *
43543174 CACACGGGCGTGTAAGGTTATTTTGAAGGGTACACGGCCTGG
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
*
43543216 CACATGGGCGTGTGGGGTTATTTCGAAGGGTGCACGGCATGG
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
43543258 CACATGGGCGTGTGG
1 CACATGGGCGTGTGG
43543273 CTTAGCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.18, C:0.18, G:0.40, T:0.23
Consensus pattern (42 bp):
CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
Found at i:43547172 original size:6 final size:6
Alignment explanation
Indices: 43547161--43547244 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 6
43547151 TGATCAATTG
* * * *
43547161 AAAGAA AAAGAAAA AAATGAA AATGAGGA AAAG-A AAAGAA AAATAA TAAGAG
1 AAAGAA AAAG--AA AAA-GAA AA--AGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
43547213 AAAGAGA AAAGAA AATGAGA AAAGAA AAAGAA
1 AAAGA-A AAAGAA AAAGA-A AAAGAA AAAGAA
43547245 GAAAAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 31 0.51
7 14 0.23
8 9 0.15
9 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:43547232 original size:13 final size:13
Alignment explanation
Indices: 43547216--43547269 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
43547206 ATAAGAGAAA
43547216 GAGAAAAGAAAAT
1 GAGAAAAGAAAAT
43547229 GAGAAAAGAAAA-
1 GAGAAAAGAAAAT
*
43547241 -AGAAGA-AAAAT
1 GAGAAAAGAAAAT
*
43547252 -A-AAAAGAATAT
1 GAGAAAAGAAAAT
43547263 GAGAAAA
1 GAGAAAA
43547270 AAATTCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 10 0.29
12 1 0.03
13 16 0.47
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
GAGAAAAGAAAAT
Found at i:43547241 original size:19 final size:18
Alignment explanation
Indices: 43547192--43547269 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
43547182 AATGAGGAAA
*
43547192 AGAAAAGAAAAATAATAAG
1 AGAAAAGAAAAAGAA-AAG
43547211 AG-AAAGAGAAAAGAAAATG
1 AGAAAAGA-AAAAGAAAA-G
43547230 AGAAAAGAAAAAG--AAG
1 AGAAAAGAAAAAGAAAAG
* *
43547246 A-AAAATAAAAAGAATATG
1 AGAAAAGAAAAAGAA-AAG
43547264 AGAAAA
1 AGAAAA
43547270 AAATTCTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
17 2 0.04
18 10 0.20
19 20 0.41
20 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AGAAAAGAAAAAGAAAAG
Found at i:43550247 original size:50 final size:50
Alignment explanation
Indices: 43550174--43550371 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
43550164 TTTCTTGTGC
* **
43550174 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
43550224 TGCCCATGCCATGTCCCAAATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * *
43550274 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * * *
43550330 TTCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
43550372 TTACCTAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.66
53 2 0.02
56 39 0.32
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
Found at i:43553043 original size:10 final size:10
Alignment explanation
Indices: 43553030--43553068 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
43553020 AGCTCAAATC
*
43553030 AGCTCGTTTG
1 AGCTCATTTG
*
43553040 AGCTCATTTT
1 AGCTCATTTG
*
43553050 AGCTCATTCG
1 AGCTCATTTG
43553060 AGCTCATTT
1 AGCTCATTT
43553069 CAATTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:43567240 original size:15 final size:16
Alignment explanation
Indices: 43567211--43567240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43567201 CAAACATGCT
43567211 TTAACACATTATCAAA
1 TTAACACATTATCAAA
43567227 TTAACACA-TATCAA
1 TTAACACATTATCAA
43567241 TAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:43592817 original size:40 final size:40
Alignment explanation
Indices: 43592758--43592868 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
43592748 GTTTGGATAA
* *
43592758 AAAATGCCGCTAAAAATCGAGCATTAGCGGCGCTTTACA-T
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTA-AGG
* * **
43592798 AAAACGCCACTAAAGATCGAGCATTAGCGGTACTTTAAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
*
43592838 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCG
43592869 TTTTTAATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 13 0.22
40 46 0.78
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
Found at i:43592956 original size:41 final size:41
Alignment explanation
Indices: 43592909--43593185 Score: 288
Period size: 41 Copynumber: 6.8 Consensus size: 41
43592899 TAATCTTTCG
* *
43592909 GGGCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * * *
43592950 GGGCTTTAGTGGCGTTTTTGAAAAAGTGCCACTAACGCTCT
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * *
43592991 GGCCTTTAGCGGCGTTTTTGAAAAAGTGCCG-TAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* *
43593031 GGACTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * ** *
43593072 GGTCTTTAGCGGC-GTTTTCAGAAAATTGTCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGA-AAAAGCGCCGCTAATGCTCT
* * * *
43593113 GGCCTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
** * *
43593154 ATGCTTTAGTGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
43593186 AACAATATTT
Statistics
Matches: 196, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 39 0.20
41 153 0.78
42 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:43593065 original size:122 final size:123
Alignment explanation
Indices: 43592910--43593185 Score: 360
Period size: 122 Copynumber: 2.3 Consensus size: 123
43592900 AATCTTTCGG
* * *
43592910 GGCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGTTTT-TGAAAA
1 GGCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAG-AAA
* * *
43592974 AGTGCCACTAACGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGTGCCG-TAATGCTC-A
65 AGTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
* *
43593031 GGACTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCAGAAA
1 GG-CTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAGAAA
* * * * *
43593096 ATTGTCGCTAATGCTCTGGCCTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
65 AGTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
* * * *
43593155 TGCTTTAGTGGCGTTTTTGAAAAAGCGCCGC
1 GGCTTTAGCGGCATTTTTAAAAAAGCGCCGC
43593186 AACAATATTT
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
121 2 0.01
122 95 0.71
123 35 0.26
124 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (123 bp):
GGCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAGAAAA
GTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
Found at i:43593832 original size:26 final size:28
Alignment explanation
Indices: 43593800--43593862 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
43593790 TTATTTAATT
*
43593800 GGTTTAGGGATTTGGGTTAAAGTTT-AG
1 GGTTTAGGGATTCGGGTTAAAGTTTAAG
**
43593827 GG-TTAGGGATTCGGGTTAGGGTTTAAG
1 GGTTTAGGGATTCGGGTTAAAGTTTAAG
43593854 GGTTTAGGG
1 GGTTTAGGG
43593863 GTTTAGAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.61
27 6 0.19
28 6 0.19
ACGTcount: A:0.19, C:0.02, G:0.43, T:0.37
Consensus pattern (28 bp):
GGTTTAGGGATTCGGGTTAAAGTTTAAG
Found at i:43593857 original size:8 final size:8
Alignment explanation
Indices: 43593844--43593881 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
43593834 GATTCGGGTT
43593844 AGGGTTTA
1 AGGGTTTA
43593852 AGGGTTTA
1 AGGGTTTA
*
43593860 GGGGTTT-
1 AGGGTTTA
43593867 AGAGGTTTA
1 AG-GGTTTA
43593876 AGGGTT
1 AGGGTT
43593882 GGGATTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 23 0.88
9 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (8 bp):
AGGGTTTA
Found at i:43593912 original size:8 final size:7
Alignment explanation
Indices: 43593800--43593957 Score: 78
Period size: 7 Copynumber: 22.3 Consensus size: 7
43593790 TTATTTAATT
43593800 GGTTTAG
1 GGTTTAG
43593807 GGATTT-G
1 GG-TTTAG
*
43593814 GG-TTAA
1 GGTTTAG
*
43593820 AGTTTAG
1 GGTTTAG
43593827 GG-TTAG
1 GGTTTAG
* *
43593833 GGATTCG
1 GGTTTAG
43593840 GG-TTAG
1 GGTTTAG
43593846 GGTTTAAG
1 GGTTT-AG
43593854 GGTTTAGG
1 GGTTTA-G
43593862 GGTTTAG
1 GGTTTAG
43593869 AGGTTTAAG
1 -GGTTT-AG
43593878 GG-TT-G
1 GGTTTAG
*
43593883 GGATTTAA
1 GG-TTTAG
43593891 GGTTTAG
1 GGTTTAG
*
43593898 GGGTTAG
1 GGTTTAG
43593905 TGGTTTAG
1 -GGTTTAG
*
43593913 GGGTTAG
1 GGTTTAG
**
43593920 ACTTTATG
1 GGTTTA-G
*
43593928 GGTTAAG
1 GGTTTAG
*
43593935 AG-TTAG
1 GGTTTAG
*
43593941 GGATTTGG
1 GG-TTTAG
43593949 GGTTTAG
1 GGTTTAG
43593956 GG
1 GG
43593958 ATTCAGGGGT
Statistics
Matches: 113, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
5 5 0.04
6 16 0.14
7 49 0.43
8 41 0.36
9 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.42, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:43593915 original size:15 final size:15
Alignment explanation
Indices: 43593891--43593919 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43593881 TGGGATTTAA
43593891 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGT
43593906 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
43593920 ACTTTATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGGTTAGT
Found at i:43594303 original size:50 final size:50
Alignment explanation
Indices: 43594242--43594556 Score: 603
Period size: 50 Copynumber: 6.3 Consensus size: 50
43594232 AAACCATTTG
*
43594242 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
43594292 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
43594342 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
43594392 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
43594442 ATATATTTAAATATTATTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
43594492 ATATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
43594542 ATATATTTAAATATT
1 ATATATTTAAATATT
43594557 TAAATATTAG
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 261 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:43594322 original size:15 final size:14
Alignment explanation
Indices: 43594272--43594522 Score: 68
Period size: 15 Copynumber: 19.6 Consensus size: 14
43594262 AAATAGAATT
*
43594272 AATAAATAAGTTTA
1 AATAAATTAGTTTA
43594286 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
43594301 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
43594313 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
43594322 AATAAATAAGTTTA
1 AATAAATTAGTTTA
43594336 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
43594351 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
43594363 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
43594372 AATAAATAAGTTTA
1 AATAAATTAGTTTA
43594386 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
43594401 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
43594413 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
43594422 AATAAATAAGTTTA
1 AATAAATTAGTTTA
43594436 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
*
43594451 AAT--ATTATTTTA
1 AATAAATTAGTTTA
*
43594463 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
43594472 AATAAATAAGTTTA
1 AATAAATTAGTTTA
43594486 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
43594501 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
43594513 AATAGAATTA
1 AATA-AATTA
43594523 ATAATTAAGT
Statistics
Matches: 182, Mismatches: 9, Indels: 91
0.65 0.03 0.32
Matches are distributed among these distances:
9 20 0.11
10 8 0.04
11 14 0.08
12 49 0.27
13 8 0.04
14 19 0.10
15 59 0.32
16 5 0.03
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (14 bp):
AATAAATTAGTTTA
Found at i:43598833 original size:41 final size:42
Alignment explanation
Indices: 43598766--43598877 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 42
43598756 TAATTTTTTT
43598766 TAAAAGTCATGTTTTTAGCGGCGTTTGTGAA-A-AAGTGCCGC
1 TAAAAGTCATGTTTTTAGCGGCGTTTGT-AATAGAAGTGCCGC
* * *
43598807 TAAAAGTTAT-TTTTATTGCGGGGTTTGTAATAGAAGTGCCGC
1 TAAAAGTCATGTTTT-TAGCGGCGTTTGTAATAGAAGTGCCGC
* *
43598849 TAAAGGTCATGATTTTTAGCGACGTTTGT
1 TAAAAGTCATG-TTTTTAGCGGCGTTTGT
43598878 GTGAAAAGCG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 6 0.10
41 21 0.36
42 17 0.29
43 10 0.17
44 4 0.07
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (42 bp):
TAAAAGTCATGTTTTTAGCGGCGTTTGTAATAGAAGTGCCGC
Found at i:43600939 original size:21 final size:22
Alignment explanation
Indices: 43600892--43600939 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
43600882 ATAATAATAC
*
43600892 TAAATTTTATATAATAAAGTTT
1 TAAATTTTATATAATAAAATTT
43600914 T-AATTTT-TAT-ATAAATATTT
1 TAAATTTTATATAATAAA-ATTT
43600934 TAAATT
1 TAAATT
43600940 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 10 0.43
22 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAAATTTTATATAATAAAATTT
Found at i:43602121 original size:24 final size:25
Alignment explanation
Indices: 43602094--43602143 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
43602084 TAATTTTTAG
43602094 TTATTTTTAAAT-TAAATATTA-TAA
1 TTATTTTTAAATGTAAAT-TTAGTAA
*
43602118 TTATTTTTACATGTAAATTTAGTAA
1 TTATTTTTAAATGTAAATTTAGTAA
43602143 T
1 T
43602144 ATTATGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (25 bp):
TTATTTTTAAATGTAAATTTAGTAA
Found at i:43602521 original size:67 final size:67
Alignment explanation
Indices: 43602441--43602584 Score: 252
Period size: 67 Copynumber: 2.1 Consensus size: 67
43602431 ATGGTAGTTA
* * *
43602441 AAAAATTAGCATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATCATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
43602506 TT
66 TT
*
43602508 AAAAATTAACATAATAACATATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
43602573 TT
66 TT
43602575 AAAAATTAAC
1 AAAAATTAAC
43602585 CCTCAAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (67 bp):
AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
TT
Found at i:43602731 original size:19 final size:18
Alignment explanation
Indices: 43602707--43602744 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
43602697 ATTAATATTA
43602707 ATATTAATTAAATATAAAT
1 ATATTAATTAAATA-AAAT
43602726 ATATTAATTAAATAAAAT
1 ATATTAATTAAATAAAAT
43602744 A
1 A
43602745 AAAATTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTAATTAAATAAAAT
Found at i:43602891 original size:30 final size:27
Alignment explanation
Indices: 43602835--43602892 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 27
43602825 GGGGAGGAAG
*
43602835 ATTTTTATTTTTATTTAATATTAATAT
1 ATTTTTATTTTTATTTAATATAAATAT
43602862 ATTTTTATTTTTATTTATAAATATAAATAT
1 ATTTTTATTTTTA-TT-T-AATATAAATAT
43602892 A
1 A
43602893 AAATTTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 1 0.04
30 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTATTTTTATTTAATATAAATAT
Found at i:43605581 original size:5 final size:5
Alignment explanation
Indices: 43605573--43605598 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
43605563 GAGATGGAAT
43605573 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
43605599 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:43605598 original size:26 final size:26
Alignment explanation
Indices: 43605547--43605598 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
43605537 TGAAATTTTC
* * *
43605547 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
43605573 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
43605599 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:43606053 original size:17 final size:17
Alignment explanation
Indices: 43606015--43606063 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
43606005 GGGTGAGAAG
43606015 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
43606033 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
43606050 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
43606064 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:43613173 original size:38 final size:37
Alignment explanation
Indices: 43613122--43613196 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
43613112 AGCTATCCTA
43613122 GTGGTCCAAGGTTCAAGTCCTAGTGTTCACACTCTTT
1 GTGGTCCAAGGTTCAAGTCCTAGTGTTCACACTCTTT
*
43613159 NGTGGTCCAAGGTTCAAGTCCTAGTGTTCACTCTCTTT
1 -GTGGTCCAAGGTTCAAGTCCTAGTGTTCACACTCTTT
43613197 CATTTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.36
Consensus pattern (37 bp):
GTGGTCCAAGGTTCAAGTCCTAGTGTTCACACTCTTT
Found at i:43615591 original size:20 final size:19
Alignment explanation
Indices: 43615568--43615613 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
43615558 AGCTCAACTC
* *
43615568 TAGCTCAATGAGCTCGTTCT
1 TAGCTCAATAAACTCGTT-T
*
43615588 TAGCTCACTAAACTCGTTT
1 TAGCTCAATAAACTCGTTT
43615607 TAGCTCA
1 TAGCTCA
43615614 CTTTAGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (19 bp):
TAGCTCAATAAACTCGTTT
Found at i:43617040 original size:11 final size:12
Alignment explanation
Indices: 43617002--43617038 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
43616992 CCCGGGTTAG
43617002 ATTTGTAAAAAAA
1 ATTTG-AAAAAAA
43617015 ATTTGAAAAAAA
1 ATTTGAAAAAAA
43617027 ATTTGAAAAAAA
1 ATTTGAAAAAAA
43617039 TTCATGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
ATTTGAAAAAAA
Found at i:43622253 original size:56 final size:56
Alignment explanation
Indices: 43622167--43622277 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
43622157 AATTTCTCAG
*
43622167 TTTGATTTGGTCCTCATGGACTTGTTCCGGAGTGAGCGGCACTAAGGTGATTTTCC
1 TTTGATTTGGTCCTCATGGACTTGTTCCGGAGTGAGCGGCACTAAGGTGAGTTTCC
43622223 TTTGATTTGGTCCTCATGGACTTGTTCCGGAGTGAGCGGCACTAAGGTGAGTTTC
1 TTTGATTTGGTCCTCATGGACTTGTTCCGGAGTGAGCGGCACTAAGGTGAGTTTC
43622278 TTTCCTTGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.16, C:0.19, G:0.30, T:0.35
Consensus pattern (56 bp):
TTTGATTTGGTCCTCATGGACTTGTTCCGGAGTGAGCGGCACTAAGGTGAGTTTCC
Found at i:43625924 original size:23 final size:22
Alignment explanation
Indices: 43625872--43625924 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
43625862 TCCACGTCTT
*
43625872 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
43625894 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
43625917 TTTCTTTT
1 TTTCTTTT
43625925 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:43630154 original size:23 final size:22
Alignment explanation
Indices: 43630102--43630154 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
43630092 TCCACATCTT
*
43630102 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
43630124 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
43630147 TTTCTTTT
1 TTTCTTTT
43630155 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:43637861 original size:202 final size:202
Alignment explanation
Indices: 43637515--43637917 Score: 806
Period size: 202 Copynumber: 2.0 Consensus size: 202
43637505 TGGAGAATAA
43637515 AGAGTGAATTTCTCACTAAAATTATATTTCATTCAGAAATTTGGCAAAAAGTCCTTTTACAAGAA
1 AGAGTGAATTTCTCACTAAAATTATATTTCATTCAGAAATTTGGCAAAAAGTCCTTTTACAAGAA
43637580 ATTCAAGAACTATTTATAGCTTAAGTGACTAGTAGCCGAATAGTCAAGTTCAATACTTAAAAACT
66 ATTCAAGAACTATTTATAGCTTAAGTGACTAGTAGCCGAATAGTCAAGTTCAATACTTAAAAACT
43637645 AAGTAAACATTGAACTAATTTTGAGCTAAGATCCATGAATGGTCTTGAATCAATGTTCGGCTGAA
131 AAGTAAACATTGAACTAATTTTGAGCTAAGATCCATGAATGGTCTTGAATCAATGTTCGGCTGAA
43637710 TATAGAG
196 TATAGAG
43637717 AGAGTGAATTTCTCACTAAAATTATATTTCATTCAGAAATTTGGCAAAAAGTCCTTTTACAAGAA
1 AGAGTGAATTTCTCACTAAAATTATATTTCATTCAGAAATTTGGCAAAAAGTCCTTTTACAAGAA
43637782 ATTCAAGAACTATTTATAGCTTAAGTGACTAGTAGCCGAATAGTCAAGTTCAATACTTAAAAACT
66 ATTCAAGAACTATTTATAGCTTAAGTGACTAGTAGCCGAATAGTCAAGTTCAATACTTAAAAACT
43637847 AAGTAAACATTGAACTAATTTTGAGCTAAGATCCATGAATGGTCTTGAATCAATGTTCGGCTGAA
131 AAGTAAACATTGAACTAATTTTGAGCTAAGATCCATGAATGGTCTTGAATCAATGTTCGGCTGAA
43637912 TATAGA
196 TATAGA
43637918 CCAAGGAAGA
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 201 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (202 bp):
AGAGTGAATTTCTCACTAAAATTATATTTCATTCAGAAATTTGGCAAAAAGTCCTTTTACAAGAA
ATTCAAGAACTATTTATAGCTTAAGTGACTAGTAGCCGAATAGTCAAGTTCAATACTTAAAAACT
AAGTAAACATTGAACTAATTTTGAGCTAAGATCCATGAATGGTCTTGAATCAATGTTCGGCTGAA
TATAGAG
Found at i:43639054 original size:15 final size:15
Alignment explanation
Indices: 43639029--43639075 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
43639019 AGAAAAGAAT
43639029 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
43639045 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
*
43639060 AAA-AATGTGAAAATG
1 AAAGAA-ATGAAAATG
43639075 A
1 A
43639076 GATTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 21 0.78
16 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:43639064 original size:28 final size:29
Alignment explanation
Indices: 43639019--43639075 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
43639009 ATTTTGAGCG
43639019 AGAAAAGAATAAAGAAAA-TGAAAATGAA
1 AGAAAAGAATAAAGAAAAGTGAAAATGAA
*
43639047 AGAAATGAA-AAAGAAAAATGTGAAAATGA
1 AGAAAAGAATAAAG-AAAA-GTGAAAATGA
43639076 GATTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 12 0.48
30 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.12
Consensus pattern (29 bp):
AGAAAAGAATAAAGAAAAGTGAAAATGAA
Found at i:43639122 original size:12 final size:12
Alignment explanation
Indices: 43639105--43639180 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
43639095 AGTGAAAAGC
43639105 AAAAAGAGATTG
1 AAAAAGAGATTG
*
43639117 AAAAAGAAATTG
1 AAAAAGAGATTG
*
43639129 --AAAGAGA-AG
1 AAAAAGAGATTG
*
43639138 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
43639153 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
43639165 AAAGAGAGCTTG
1 AAAAAGAGATTG
43639177 AAAA
1 AAAA
43639181 GAAATCGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:43639146 original size:15 final size:15
Alignment explanation
Indices: 43639128--43639161 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43639118 AAAAGAAATT
43639128 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
43639143 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
43639158 GAAA
1 GAAA
43639162 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:43645112 original size:21 final size:21
Alignment explanation
Indices: 43645088--43645128 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43645078 TTTATTGTTC
43645088 AATTAATACATATACTAATAA
1 AATTAATACATATACTAATAA
*
43645109 AATTAATATATATACTAATA
1 AATTAATACATATACTAATA
43645129 TATATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTAATACATATACTAATAA
Found at i:43646523 original size:31 final size:31
Alignment explanation
Indices: 43646481--43646543 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
43646471 CAAAAACAAG
* * *
43646481 AATGCAGACATAGATGGATGGCCATTTATAT
1 AATGCAAACATAGACGGATGACCATTTATAT
43646512 AATGCAAACATAGACGGATGACCATTTATAT
1 AATGCAAACATAGACGGATGACCATTTATAT
43646543 A
1 A
43646544 TTTTACCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (31 bp):
AATGCAAACATAGACGGATGACCATTTATAT
Found at i:43650384 original size:2 final size:2
Alignment explanation
Indices: 43650379--43650409 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43650369 GAATGATATA
43650379 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
43650410 AAACTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:43659814 original size:22 final size:22
Alignment explanation
Indices: 43659784--43659826 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43659774 ACACCAAAAC
* *
43659784 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
43659806 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
43659827 AACCCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:43659969 original size:42 final size:42
Alignment explanation
Indices: 43659918--43660247 Score: 529
Period size: 42 Copynumber: 7.9 Consensus size: 42
43659908 GTTTACAAAC
* *
43659918 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
43659960 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
43660002 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
43660044 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
43660086 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
43660128 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* * * ***
43660170 AAAAACGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* * * *
43660210 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
43660248 TTATACAAAA
Statistics
Matches: 276, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
40 32 0.12
41 4 0.01
42 240 0.87
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:43660339 original size:14 final size:14
Alignment explanation
Indices: 43660316--43660349 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
43660306 GCCCTCCTGT
*
43660316 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
43660330 AGCAACATTTCAAA
1 AGCAACATTTCAAA
43660344 AGCAAC
1 AGCAAC
43660350 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:43660641 original size:21 final size:21
Alignment explanation
Indices: 43660573--43660643 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
43660563 TTTTGCTCTG
* *
43660573 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
43660594 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
43660615 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
43660636 CTCTGCTT
1 CTCTGCTT
43660644 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:43666118 original size:18 final size:18
Alignment explanation
Indices: 43666095--43666259 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
43666085 AATTGCAATG
43666095 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
43666113 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
43666131 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
43666149 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
43666168 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
43666186 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
43666200 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
43666218 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
43666234 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
43666251 GTAAGTTAT
1 GTAAGTTAT
43666260 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:43666143 original size:11 final size:9
Alignment explanation
Indices: 43666095--43666259 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
43666085 AATTGCAATG
43666095 GTAAGTTAT
1 GTAAGTTAT
43666104 GTAAGTTAT
1 GTAAGTTAT
43666113 GTAAGTTAAAT
1 GTAAGTT--AT
43666124 GT-A-TTAT
1 GTAAGTTAT
43666131 GTAAGTTAAAT
1 GTAAGTT--AT
43666142 GTAAG-T-T
1 GTAAGTTAT
43666149 GTAAGTTAT
1 GTAAGTTAT
*
43666158 -TATGTATTAT
1 GTAAG--TTAT
43666168 GTAAG-T-T
1 GTAAGTTAT
43666175 GTAAGTTAAAT
1 GTAAGTT--AT
*
43666186 GT-A-TTGT
1 GTAAGTTAT
43666193 GTAAG-T-T
1 GTAAGTTAT
43666200 GTAAGTTAAAT
1 GTAAGTT--AT
43666211 GT-A-TTAT
1 GTAAGTTAT
43666218 GTAAG-T-T
1 GTAAGTTAT
43666225 GTAAGTTAT
1 GTAAGTTAT
*
43666234 -TATGTATTAT
1 GTAAG--TTAT
43666244 GTAAG-T-T
1 GTAAGTTAT
43666251 GTAAGTTAT
1 GTAAGTTAT
43666260 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43666236 original size:76 final size:77
Alignment explanation
Indices: 43666140--43666472 Score: 339
Period size: 76 Copynumber: 4.1 Consensus size: 77
43666130 TGTAAGTTAA
* *
43666140 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
43666204 GTTAAATGTATT
66 GTTAAATGTATT
* * * *
43666216 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTCTGA-TTTTCA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGT-A
*
43666280 CCAGAAATTGCAATGGTAAGTT
65 --AG---TT-AAAT-GT-A-TT
43666302 ATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGTTGTAAGTTATTATGTATTA
1 ATGTAAG-T-TGTAAG-----T-TATTATGT-A-TT--ATGTAAGTTGTAAGTTATTATGTATTA
43666367 TGTAAGTTGTAAGTTAAATGTATT
54 TGTAAGTTGTAAGTTAAATGTATT
* *
43666391 GTGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
*
43666455 GTTATTATGTTATT
66 GTTA-AATG-TATT
43666469 ATGT
1 ATGT
43666473 CGACAAGATT
Statistics
Matches: 217, Mismatches: 14, Indels: 50
0.77 0.05 0.18
Matches are distributed among these distances:
76 89 0.41
77 15 0.07
78 9 0.04
79 3 0.01
80 4 0.02
81 2 0.01
82 3 0.01
83 3 0.01
84 2 0.01
85 1 0.00
86 9 0.04
87 7 0.03
88 7 0.03
89 8 0.04
90 1 0.00
91 2 0.01
92 3 0.01
93 3 0.01
94 8 0.04
95 1 0.00
96 4 0.02
98 30 0.14
99 3 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (77 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
GTTAAATGTATT
Found at i:43666318 original size:18 final size:18
Alignment explanation
Indices: 43666295--43666459 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
43666285 AATTGCAATG
43666295 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
43666313 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
43666331 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
43666349 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
43666368 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
43666386 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
43666400 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
43666418 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
43666434 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
43666451 GTAAGTTAT
1 GTAAGTTAT
43666460 TATGTTATTA
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:43666343 original size:11 final size:9
Alignment explanation
Indices: 43666295--43666459 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
43666285 AATTGCAATG
43666295 GTAAGTTAT
1 GTAAGTTAT
43666304 GTAAGTTAT
1 GTAAGTTAT
43666313 GTAAGTTAAAT
1 GTAAGTT--AT
43666324 GT-A-TTAT
1 GTAAGTTAT
43666331 GTAAGTTAAAT
1 GTAAGTT--AT
43666342 GTAAG-T-T
1 GTAAGTTAT
43666349 GTAAGTTAT
1 GTAAGTTAT
*
43666358 -TATGTATTAT
1 GTAAG--TTAT
43666368 GTAAG-T-T
1 GTAAGTTAT
43666375 GTAAGTTAAAT
1 GTAAGTT--AT
*
43666386 GT-A-TTGT
1 GTAAGTTAT
43666393 GTAAG-T-T
1 GTAAGTTAT
43666400 GTAAGTTAAAT
1 GTAAGTT--AT
43666411 GT-A-TTAT
1 GTAAGTTAT
43666418 GTAAG-T-T
1 GTAAGTTAT
43666425 GTAAGTTAT
1 GTAAGTTAT
*
43666434 -TATGTATTAT
1 GTAAG--TTAT
43666444 GTAAG-T-T
1 GTAAGTTAT
43666451 GTAAGTTAT
1 GTAAGTTAT
43666460 TATGTTATTA
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43666411 original size:200 final size:200
Alignment explanation
Indices: 43666068--43666464 Score: 794
Period size: 200 Copynumber: 2.0 Consensus size: 200
43666058 AGATCTTGAA
43666068 GTCTGATTTTCACCAGAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
1 GTCTGATTTTCACCAGAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
43666133 AAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAG
66 AAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAG
43666198 TTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTAT
131 TTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTAT
43666263 GTATT
196 GTATT
43666268 GTCTGATTTTCACCAGAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
1 GTCTGATTTTCACCAGAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
43666333 AAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAG
66 AAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAG
43666398 TTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTAT
131 TTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTAT
43666463 GT
196 GT
43666465 TATTATGTCG
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 197 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (200 bp):
GTCTGATTTTCACCAGAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGT
AAGTTAAATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAG
TTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTAT
GTATT
Found at i:43666666 original size:25 final size:24
Alignment explanation
Indices: 43666649--43666743 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 24
43666639 GTATTATGTC
43666649 AGTCAAATGTATTATGTAAGTTGTA
1 AGTCAAATGTATTATGT-AGTTGTA
*
43666674 AGTTAAATGTATTATGTAAGTTGTA
1 AGTCAAATGTATTATGT-AGTTGTA
* *
43666699 AGTTATTATGTATTATGTAAGTAATGTA
1 AGTCA-AATGTATTATGT-AGT--TGTA
*
43666727 AGTTAAATGTATTATGT
1 AGTCAAATGTATTATGT
43666744 CGACAAGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
25 29 0.45
26 15 0.23
27 11 0.17
28 9 0.14
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (24 bp):
AGTCAAATGTATTATGTAGTTGTA
Found at i:43666696 original size:271 final size:270
Alignment explanation
Indices: 43666382--43666906 Score: 998
Period size: 271 Copynumber: 1.9 Consensus size: 270
43666372 GTTGTAAGTT
*
43666382 AAATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
1 AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
*
43666447 AGT-TGTAAGTTATTATGTTATTATGTCGACAAGATTTTTTTGTCCAAACTTAACCCTACCAACC
66 AGTATGTAAGTTA-AATG-TATTATGTCGACAAGATTTTTTTGTCCAAACTTAACCCTACCAACC
43666511 AATTTTTAAAAATATATAATAAAAAATAATTTAAATTATTATTGAGAATAATATCAAATCATTCA
129 AATTTTTAAAAATATATAATAAAAAATAATTTAAATTATTATTGAGAATAATATCAAATCATTCA
43666576 AGTTTATTTTAAATATTAATATTTCTTTTAAGATAATGAGTGAGGACCGAGCTCAATTATAATGT
194 AGTTTATTTTAAATATTAATATTTCTTTTAAGATAATGAGTGAGGACCGAGCTCAATTATAATGT
43666641 ATTATGTCAGTC
259 ATTATGTCAGTC
43666653 AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
1 AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
43666718 AGTAATGTAAGTTAAATGTATTATGTCGACAAGATTTTTTTGTCCAAACTTAACCCTACCAACCA
66 AGT-ATGTAAGTTAAATGTATTATGTCGACAAGATTTTTTTGTCCAAACTTAACCCTACCAACCA
43666783 ATTTTTAAAAATATATAATAAAAAATAATTTAAATTATTATTGAGAATAATATCAAATCATTCAA
130 ATTTTTAAAAATATATAATAAAAAATAATTTAAATTATTATTGAGAATAATATCAAATCATTCAA
43666848 GTTTATTTTAAATATTAATATTTCTTTTAAGATAATGAGTGAGGACCGAGCTCAATTAT
195 GTTTATTTTAAATATTAATATTTCTTTTAAGATAATGAGTGAGGACCGAGCTCAATTAT
43666907 TATTGCATTA
Statistics
Matches: 250, Mismatches: 2, Indels: 4
0.98 0.01 0.02
Matches are distributed among these distances:
271 238 0.95
272 3 0.01
273 9 0.04
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (270 bp):
AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
AGTATGTAAGTTAAATGTATTATGTCGACAAGATTTTTTTGTCCAAACTTAACCCTACCAACCAA
TTTTTAAAAATATATAATAAAAAATAATTTAAATTATTATTGAGAATAATATCAAATCATTCAAG
TTTATTTTAAATATTAATATTTCTTTTAAGATAATGAGTGAGGACCGAGCTCAATTATAATGTAT
TATGTCAGTC
Found at i:43669025 original size:7 final size:7
Alignment explanation
Indices: 43668972--43669047 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
43668962 ACCTTAATCA
*
43668972 CTAAACT
1 CTAAACC
43668979 CTCAAACC
1 CT-AAACC
43668987 CTAAACC
1 CTAAACC
** *
43668994 AAAAACA
1 CTAAACC
43669001 CTAAA-C
1 CTAAACC
* *
43669007 CTACATC
1 CTAAACC
*
43669014 GTAAACC
1 CTAAACC
43669021 CTAAACC
1 CTAAACC
*
43669028 CTAAACT
1 CTAAACC
43669035 CTAAACC
1 CTAAACC
43669042 CTAAAC
1 CTAAAC
43669048 TAGAATTCAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:43669110 original size:17 final size:17
Alignment explanation
Indices: 43669088--43669137 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
43669078 TATCCTATTT
43669088 CCTACATTATATAATAA
1 CCTACATTATATAATAA
43669105 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
43669122 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
43669138 TCTAGCGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:43669340 original size:113 final size:111
Alignment explanation
Indices: 43669159--43669509 Score: 411
Period size: 113 Copynumber: 3.1 Consensus size: 111
43669149 TTCCCACAAC
* * * *
43669159 GCGCCGCTAATAATATGTTTTACCGGCGTTTTACCATAAGCGCCAC-AACTGGTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-T-GTAGTATACATCA
43669223 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
63 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
* * *
43669272 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAAT-GTAGTATACATCAA
* * * * *
43669337 GACCAAA-CTCTGCGTTTTGGTTAA-GAAATATTGCGGCGCTTTTCACTAC
64 GACCAAAGCGCTGCGTTTTGGTTAATG---TTTTGCGGCGCTTTACAATAA
* * * *
43669386 TCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATG-TAGTATACATCAA
* * *
43669451 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGTTTTCCAATAA
64 GACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
*
43669499 GCGCCACTAAT
1 GCGCCGCTAAT
43669510 CCTAATATAC
Statistics
Matches: 200, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.00
112 16 0.08
113 87 0.44
114 80 0.40
115 16 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGTAGTATACATCAAGA
CCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
Found at i:43669611 original size:188 final size:188
Alignment explanation
Indices: 43669294--43669691 Score: 688
Period size: 188 Copynumber: 2.1 Consensus size: 188
43669284 CTATGCTTTA
* * * *
43669294 GCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
43669359 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
43669424 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
43669482 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
* * *
43669547 AAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTAGTAGCGTTTTAATATA
66 AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
* *
43669612 AGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
131 AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
* * *
43669670 GCGACGCTTTACAATAAGCGCC
1 GCGGCGTTTTCCAATAAGCGCC
43669692 GCTACTACTA
Statistics
Matches: 198, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 198 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (188 bp):
GCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATA
AGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTT
Found at i:43669732 original size:113 final size:114
Alignment explanation
Indices: 43669482--43669907 Score: 464
Period size: 114 Copynumber: 3.7 Consensus size: 114
43669472 TTAATATTTT
* ** *
43669482 GCGGCGTTTTCCA-ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-AATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
* * * *
43669546 TAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
** * * ** *
43669596 GTAGCGTTTTAATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
* * * * ** * * *
43669661 T-A-ATATTTTGCGACGCTTTACAATAAGCGCCGCTACTACTATGCGTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* * *
43669709 GCGGCGTTTTTAA-ATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCG-TTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
*
43669773 TAAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* ** * *
43669823 GCGGCGTTTGAATATAAGCGCCACTAAGGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGA
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
** *
43669888 TAAGAGCTTTTGCGGCGCTT
65 TAAGAAATATTGCGGCGCTT
43669908 GGTAGTAAAC
Statistics
Matches: 252, Mismatches: 53, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
112 14 0.06
113 76 0.30
114 119 0.47
115 43 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (114 bp):
GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
Found at i:43676793 original size:40 final size:40
Alignment explanation
Indices: 43676611--43676833 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
43676601 TCCTCGTTCA
* * * * *
43676611 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43676650 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43676690 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43676730 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
43676770 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43676810 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43676834 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43676842 original size:41 final size:41
Alignment explanation
Indices: 43676765--43676842 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43676755 TTAGTATCTC
* * *
43676765 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43676806 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43676843 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43695102 original size:41 final size:41
Alignment explanation
Indices: 43694913--43695104 Score: 271
Period size: 41 Copynumber: 4.7 Consensus size: 41
43694903 CATTAAATGT
* * * *
43694913 AAGGGGTTGCTTAGTGCAGATT-CCCTAAATCACTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAA-CTCTGATCAAA
*
43694954 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCAT-TGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAAC-TCTGATCAAA
* * * *
43694995 AAGTGGTTGCCAAGTGCAGATTCCCTGAAACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
43695036 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
43695077 AAGGGGTTGCTAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
43695105 GGGGTTGCTA
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 128 0.96
42 5 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
Found at i:43695196 original size:43 final size:41
Alignment explanation
Indices: 43695104--43695196 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
43695094 AGATTCCCCG
* * *
43695104 AGGGGTTGCTAAGTGTTGATTTCCCAAATTATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCAAATCATTGATTCTAA
** * *
43695145 AGGTGGTTGCTAAGTGCTGATTCCACCTTATCCTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCAAATCATTGATTCT-AA
43695189 AGGGGTTG
1 AGGGGTTG
43695197 TTATGTGTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.07
42 18 0.43
43 16 0.38
44 5 0.12
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAAATCATTGATTCTAA
Found at i:43698883 original size:15 final size:15
Alignment explanation
Indices: 43698863--43698892 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43698853 TACTATCAGC
43698863 TAAGAGTTAAATAGT
1 TAAGAGTTAAATAGT
43698878 TAAGAGTTAAATAGT
1 TAAGAGTTAAATAGT
43698893 CAAATGTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
TAAGAGTTAAATAGT
Found at i:43699484 original size:67 final size:67
Alignment explanation
Indices: 43699400--43699531 Score: 255
Period size: 67 Copynumber: 2.0 Consensus size: 67
43699390 TAAATGTCAG
43699400 CAAAGTTTTGAAAAATTGAAAGCGTTATTAACTAAAGTGCCAGTTTTAGTGCAACCTGAAACAGG
1 CAAAGTTTTGAAAAATTGAAAGCGTTATTAACTAAAGTGCCAGTTTTAGTGCAACCTGAAACAGG
43699465 GA
66 GA
*
43699467 CAAAGTTTTGAAAAATTGAAAGCGTTATTAACTAAAGTGCCAGTTTTAGTGCAACCTGTAACAGG
1 CAAAGTTTTGAAAAATTGAAAGCGTTATTAACTAAAGTGCCAGTTTTAGTGCAACCTGAAACAGG
43699532 TAAAGAGTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (67 bp):
CAAAGTTTTGAAAAATTGAAAGCGTTATTAACTAAAGTGCCAGTTTTAGTGCAACCTGAAACAGG
GA
Found at i:43702701 original size:41 final size:41
Alignment explanation
Indices: 43702644--43702831 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
43702634 CATTGAATGT
* * *
43702644 AAGGGGTTGCTTAGTGCAGATTCCCTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACACTAATCAAA
* *
43702685 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACACTAATCAAA
* * * *
43702726 AAGGGGTTTCCAAGTGCAGATTCCCTGAAACTCTAATAAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACACTAATCAAA
* *
43702767 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACACTAATCAAA
*
43702808 AAGGGGTTGCTAAGTGCAAATTCC
1 AAGGGGTTGCTAAGTGCAGATTCC
43702832 TCGAGGGGTT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 133 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCTGAAACACTAATCAAA
Found at i:43711457 original size:41 final size:41
Alignment explanation
Indices: 43711398--43711577 Score: 184
Period size: 41 Copynumber: 4.4 Consensus size: 41
43711388 AGAATATTGT
* * * *
43711398 TGAATTGCACAAATGTGCCCCTATTTGTACTTTAG-TACCAC
1 TGAATTGCATATACGTGCCCCTATTTGTAC-TTAGATACCCC
* *
43711439 TGAATTGCATTTACGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATTGCATATACGTGCCCCTATTTGTACTTAGATACCCC
* * ** * * *
43711480 TAAATTGCACACGCATGCCCCTATTTGTACTTCGTTACCCC
1 TGAATTGCATATACGTGCCCCTATTTGTACTTAGATACCCC
* * *
43711521 TGAATTGCACATATGTGCCCCTATTTCTACTTTAG-TACCCC
1 TGAATTGCATATACGTGCCCCTATTTGTAC-TTAGATACCCC
43711562 TGAATTGCATATACGT
1 TGAATTGCATATACGT
43711578 TGTAACAACT
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
40 3 0.03
41 109 0.95
42 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (41 bp):
TGAATTGCATATACGTGCCCCTATTTGTACTTAGATACCCC
Found at i:43711481 original size:20 final size:20
Alignment explanation
Indices: 43711456--43711521 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
43711446 CATTTACGTG
43711456 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCGATA
* * * *
43711476 CCCCTAAATTGCAC-ACGCATG
1 CCCCT-ATTTGTACTTCG-ATA
*
43711497 CCCCTATTTGTACTTCGTTA
1 CCCCTATTTGTACTTCGATA
43711517 CCCCT
1 CCCCT
43711522 GAATTGCACA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.33
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGATA
Found at i:43711539 original size:82 final size:82
Alignment explanation
Indices: 43711413--43711570 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 82
43711403 TGCACAAATG
** *
43711413 TGCCCCTATTTGTACTTTAGTACCACTGAATTGCATTTACGTGCCCCTATTTGTACTTCGA-TAC
1 TGCCCCTATTTGTACTTTAGTACCACTGAATTGCACATACGTGCCCCTATTTCTACTT-GAGTAC
43711477 CCCTAAATTGCACACGCA
65 CCCTAAATTGCACACGCA
* * * *
43711495 TGCCCCTATTTGTAC-TTCGTTACCCCTGAATTGCACATATGTGCCCCTATTTCTACTTTAGTAC
1 TGCCCCTATTTGTACTTTAG-TACCACTGAATTGCACATACGTGCCCCTATTTCTACTTGAGTAC
*
43711559 CCCTGAATTGCA
65 CCCTAAATTGCA
43711571 TATACGTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 4 0.06
82 62 0.94
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (82 bp):
TGCCCCTATTTGTACTTTAGTACCACTGAATTGCACATACGTGCCCCTATTTCTACTTGAGTACC
CCTAAATTGCACACGCA
Found at i:43712866 original size:48 final size:48
Alignment explanation
Indices: 43712790--43712985 Score: 239
Period size: 48 Copynumber: 4.1 Consensus size: 48
43712780 CTACTATGCG
* * * *
43712790 CACCGATATTCTGTTATGACAAAAGGGTGGCACGGACTGTGTGCAAGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * *
43712838 CACCAATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGT
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * *
43712886 CACCAATAAACTGTTAAGATACAAGGGTGGCACGAACTATGTGCAGGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * *
43712934 CACCGAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
43712982 CACC
1 CACC
43712986 GAGAAATCTA
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
Found at i:43718406 original size:48 final size:48
Alignment explanation
Indices: 43718344--43718539 Score: 239
Period size: 48 Copynumber: 4.1 Consensus size: 48
43718334 CTACTATGTG
* *
43718344 CACCGATATTCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* *
43718392 CACCAATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * * * *
43718440 CACCAATAAACTGTTAAGATACAAGGGTGGCACAGATTATGTGCAGGA
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * * *
43718488 CACCGAGAATCTATTATTACACAAAGGTGGTACGGACTGTGTGCAGGC
1 CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
43718536 CACC
1 CACC
43718540 GAGAAATCTA
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
CACCAATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGC
Found at i:43723058 original size:50 final size:50
Alignment explanation
Indices: 43722980--43723173 Score: 262
Period size: 50 Copynumber: 3.9 Consensus size: 50
43722970 ATTTGGGTAA
*
43722980 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATG
* *
43723030 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATG
* * * * * * *
43723080 AGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATG
** *
43723130 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCCTTGGCAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT
43723174 GTTATTATCA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 90 0.73
51 34 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATG
Found at i:43726493 original size:50 final size:50
Alignment explanation
Indices: 43726412--43726802 Score: 525
Period size: 50 Copynumber: 7.8 Consensus size: 50
43726402 ATTTGGGTAA
* *
43726412 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
43726462 AGAGGTCCCATG-AAGGACCAAGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAA-GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
43726512 AGAGGTCCTATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
43726562 AGAGGTCCCATGTAAGACAAAGTCTGGGACATGGCGTTGGCACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* **
43726612 AGAGTTCCCATAAAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
43726662 AGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
43726712 AGAGGTCTCC-CGTAAGACCATGTCTAGGACTTGGCATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
43726762 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
43726803 GATGTTATTA
Statistics
Matches: 297, Mismatches: 39, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
49 2 0.01
50 263 0.89
51 32 0.11
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:43728469 original size:50 final size:50
Alignment explanation
Indices: 43728394--43728488 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
43728384 GTGAAGTTGC
* *
43728394 TAGGTCACATGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAATGA
* * *
43728444 TAGGTCGCTTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGG
43728489 GTATCATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAATGA
Done.