Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 134 of 204
Found at i:41219628 original size:85 final size:84
Alignment explanation
Indices: 41219529--41219701 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 84
41219519 TCCCGAGTTG
* * * * ** *
41219529 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTATGTGTAAGACCATGTC
1 TGATTTCATATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
*
41219594 TGGGACATTGGCATCGTATA
66 TAGGACA-TGGCATCGTATA
* * *
41219614 TGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATATC
1 TGATTTCATATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
* * *
41219679 TAGGATATGGCATTGTATG
66 TAGGACATGGCATCGTATA
41219698 TGAT
1 TGAT
41219702 ATATGTGTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 14 0.19
85 60 0.81
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (84 bp):
TGATTTCATATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
TAGGACATGGCATCGTATA
Found at i:41219641 original size:42 final size:41
Alignment explanation
Indices: 41219529--41219656 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 41
41219519 TCCCGAGTTG
* *
41219529 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
41219570 TGAGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATT-TCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* * *
41219614 TGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
41219655 TG
1 TG
41219657 TGATAACATG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 7 0.09
42 32 0.42
43 33 0.43
44 5 0.06
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:41219690 original size:42 final size:42
Alignment explanation
Indices: 41219535--41219702 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 42
41219525 GTTGTGATTT
* * *
41219535 CATGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATAA
** * **
41219578 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATAA
* * * *
41219620 CGTATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATAA
* * * *
41219663 CATGTAAGACCATATCTAGGATA-TGGCATTGTATGTGATA
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATA
41219703 TATGTGTTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 9 0.09
42 42 0.40
43 53 0.51
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATAA
Found at i:41221155 original size:16 final size:16
Alignment explanation
Indices: 41221123--41221163 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
41221113 TTTACTTAAA
41221123 TATTTTA-CATACATT
1 TATTTTATCATACATT
*
41221138 TATTTTATCATCCATT
1 TATTTTATCATACATT
41221154 TATTTATATC
1 TATTT-TATC
41221164 TTTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 4 0.17
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTATCATACATT
Found at i:41224683 original size:18 final size:19
Alignment explanation
Indices: 41224645--41224683 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
41224635 TGGTTCAAGC
*
41224645 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
41224664 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
41224682 TT
1 TT
41224684 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:41224829 original size:23 final size:23
Alignment explanation
Indices: 41224802--41224866 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
41224792 ACGAATTCCT
*
41224802 ACCAAACACACCAGAATGATCCA
1 ACCAAACACACTAGAATGATCCA
*
41224825 CCCAAACACACTAGAATGATCCA
1 ACCAAACACACTAGAATGATCCA
41224848 ACCAAACACACTAGAATGA
1 ACCAAACACACTAGAATGA
41224867 CTCCCAGTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.48, C:0.32, G:0.09, T:0.11
Consensus pattern (23 bp):
ACCAAACACACTAGAATGATCCA
Found at i:41225840 original size:24 final size:22
Alignment explanation
Indices: 41225827--41225878 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
41225817 GTATTAGTTA
41225827 ATAATAAT-TATTATTATAATT
1 ATAATAATATATTATTATAATT
*
41225848 ATAATAATATATTATAATAA-T
1 ATAATAATATATTATTATAATT
41225869 ATAATAATAT
1 ATAATAATAT
41225879 TTAATTCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATAATATATTATTATAATT
Found at i:41225871 original size:13 final size:12
Alignment explanation
Indices: 41225825--41225869 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
41225815 ATGTATTAGT
41225825 TAATAATAATTA
1 TAATAATAATTA
* *
41225837 TTATTATAATTA
1 TAATAATAATTA
41225849 TAATAATATATTA
1 TAATAATA-ATTA
41225862 TAATAATA
1 TAATAATA
41225870 TAATAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:41226269 original size:15 final size:15
Alignment explanation
Indices: 41226249--41226277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41226239 TATAAAATTA
41226249 AATCATAAAAATCTT
1 AATCATAAAAATCTT
41226264 AATCATAAAAATCT
1 AATCATAAAAATCT
41226278 AATATTTTTA
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:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCATAAAAATCTT
Found at i:41229668 original size:17 final size:18
Alignment explanation
Indices: 41229638--41229683 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
41229628 CCTTCATTTC
*
41229638 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTACTCTTTTATG
41229656 TTTCTTTACTCTTTTATG
1 TTTCTTTACTCTTTTATG
*
41229674 TTTATTTACT
1 TTTCTTTACT
41229684 TTATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCTTTACTCTTTTATG
Found at i:41231189 original size:20 final size:21
Alignment explanation
Indices: 41231152--41231191 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
41231142 TTAGCAAAAA
41231152 CGTTAAAATTAAATAACCAAC
1 CGTTAAAATTAAATAACCAAC
41231173 CGTT-AAATCTAAA-AACCAA
1 CGTTAAAAT-TAAATAACCAA
41231192 AAGATTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.23
Consensus pattern (21 bp):
CGTTAAAATTAAATAACCAAC
Found at i:41232015 original size:14 final size:15
Alignment explanation
Indices: 41231993--41232069 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
41231983 CAATCAAACA
41231993 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
41232007 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
41232022 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
41232042 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
41232056 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
41232070 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:41232034 original size:20 final size:20
Alignment explanation
Indices: 41232009--41232048 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41231999 AATATTTTCC
*
41232009 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
41232029 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
41232049 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:41232054 original size:34 final size:35
Alignment explanation
Indices: 41231997--41232063 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
41231987 CAAACACCAG
*
41231997 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
41232032 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
41232064 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:41235794 original size:22 final size:22
Alignment explanation
Indices: 41235769--41235832 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 22
41235759 AGTAAGACCT
41235769 TAAAGGTTCGAATATACACTAA
1 TAAAGGTTCGAATATACACTAA
** * *
41235791 TAAA-ACTCGAGTA-AGACCT--
1 TAAAGGTTCGAATATACA-CTAA
41235810 TAAAGGTTCGAATATACACTAA
1 TAAAGGTTCGAATATACACTAA
41235832 T
1 T
41235833 CAAATTCCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
19 4 0.14
20 10 0.34
21 10 0.34
22 5 0.17
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (22 bp):
TAAAGGTTCGAATATACACTAA
Found at i:41235808 original size:41 final size:41
Alignment explanation
Indices: 41235751--41235832 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
41235741 CAACTATAAG
41235751 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
1 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
41235792 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
1 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
41235833 CAAATTCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (41 bp):
AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
Found at i:41239955 original size:22 final size:22
Alignment explanation
Indices: 41239930--41239974 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
41239920 AACATAACGA
41239930 TATATATAAAATAT-ATTTTTAT
1 TATATA-AAAATATAATTTTTAT
**
41239952 TATATAATTATATAATTTTTAT
1 TATATAAAAATATAATTTTTAT
41239974 T
1 T
41239975 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATAAAAATATAATTTTTAT
Found at i:41239963 original size:8 final size:8
Alignment explanation
Indices: 41239950--41240004 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
41239940 ATATATTTTT
41239950 ATTATATA
1 ATTATATA
41239958 ATTATATA
1 ATTATATA
*
41239966 ATT-T-TT
1 ATTATATA
*
41239972 ATT-T-TT
1 ATTATATA
41239978 ATTATATA
1 ATTATATA
41239986 ATTATATA
1 ATTATATA
41239994 ATTATATA
1 ATTATATA
41240002 ATT
1 ATT
41240005 TTTATTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 10 0.23
7 2 0.05
8 31 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTATATA
Found at i:41239963 original size:28 final size:28
Alignment explanation
Indices: 41239932--41240023 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
41239922 CATAACGATA
41239932 TATATAAAATATATTTTTATTATATAAT
1 TATATAAAATATATTTTTATTATATAAT
** *
41239960 TATATAATTTTTATTTTTATTATATAAT
1 TATATAAAATATATTTTTATTATATAAT
* *
41239988 TATATAATTATATAATTTTTATT-T-TATT
1 TATATAA-AATAT-ATTTTTATTATATAAT
41240016 TATATAAA
1 TATATAAA
41240024 TAAAAATGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 42 0.76
29 4 0.07
30 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TATATAAAATATATTTTTATTATATAAT
Found at i:41239990 original size:36 final size:36
Alignment explanation
Indices: 41239950--41240022 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
41239940 ATATATTTTT
41239950 ATTATATAATTATATAATTTTTATTTT-TATTATATA
1 ATTATATAATTATATAATTTTTATTTTAT-TTATATA
41239986 ATTATATAATTATATAATTTTTATTTTATTTATATA
1 ATTATATAATTATATAATTTTTATTTTATTTATATA
41240022 A
1 A
41240023 ATAAAAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (36 bp):
ATTATATAATTATATAATTTTTATTTTATTTATATA
Found at i:41244153 original size:9 final size:9
Alignment explanation
Indices: 41244136--41244166 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41244126 TCGAGTTGAT
41244136 TCGAATAAC
1 TCGAATAAC
*
41244145 TCGATTAAC
1 TCGAATAAC
41244154 TCGAATAAC
1 TCGAATAAC
41244163 TCGA
1 TCGA
41244167 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:41249571 original size:51 final size:51
Alignment explanation
Indices: 41249495--41249607 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
41249485 CTGATCAGTA
41249495 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* *
41249546 ACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
*
41249597 GCAAGTGATAA
1 ACAAGTGATAA
41249608 ATGTAATCCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:41252233 original size:12 final size:12
Alignment explanation
Indices: 41252218--41252244 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41252208 ATTTGTTATA
41252218 ATACTATTATTC
1 ATACTATTATTC
41252230 ATACTATTATTC
1 ATACTATTATTC
41252242 ATA
1 ATA
41252245 ATAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (12 bp):
ATACTATTATTC
Found at i:41256113 original size:25 final size:25
Alignment explanation
Indices: 41256085--41256138 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
41256075 ATTGTGATCA
41256085 TTTTTGAACCAA-TATTCTTTCAGTC
1 TTTTTGAA-CAATTATTCTTTCAGTC
* *
41256110 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAGTC
41256135 TTTT
1 TTTT
41256139 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAGTC
Found at i:41257785 original size:6 final size:7
Alignment explanation
Indices: 41257765--41257818 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
41257755 CTGAAAAATT
41257765 ATGAAAA
1 ATGAAAA
41257772 ATGAAAAA
1 ATG-AAAA
41257780 AT-AAAA
1 ATGAAAA
41257786 ATGAAAA
1 ATGAAAA
41257793 ATGAAAAAA
1 ATG--AAAA
41257802 ATGAAAA
1 ATGAAAA
41257809 A-GTAAAA
1 ATG-AAAA
41257816 ATG
1 ATG
41257819 GAGAGGCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.17
7 20 0.49
8 7 0.17
9 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:41257787 original size:14 final size:14
Alignment explanation
Indices: 41257768--41257818 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
41257758 AAAAATTATG
41257768 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
*
41257782 AAAAATGAAAAATGAA
1 AAAAATGAAAAA--AT
*
41257798 AAAAATGAAAAAGT
1 AAAAATGAAAAAAT
41257812 AAAAATG
1 AAAAATG
41257819 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 19 0.59
16 13 0.41
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:41258051 original size:14 final size:14
Alignment explanation
Indices: 41258028--41258065 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
41258018 GAAAGGTCTT
41258028 CAGA-AAGTTTCTA
1 CAGAGAAGTTTCTA
41258041 CAGAGAAGTTTCTA
1 CAGAGAAGTTTCTA
41258055 CAGAGAAGTTT
1 CAGAGAAGTTT
41258066 AATTTGCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (14 bp):
CAGAGAAGTTTCTA
Found at i:41259698 original size:44 final size:44
Alignment explanation
Indices: 41259254--41259944 Score: 185
Period size: 44 Copynumber: 15.8 Consensus size: 44
41259244 CCAGTAATTC
41259254 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGAT--TAAGGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGT-A-GATCT
*** * * * * * *
41259298 TATCTCCCTAAACAGTAGTGGGGA-AGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGT-GGAATAGATTGAAGATAGTAGATCT
* ** * * * * **
41259342 TACCTCTTTGAGGTTA-CAGTAGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATAGTAGATCT
* *
41259385 CTATCTCCCTGGACAGCAGTGGAATAGATTAAAGAT--TAAGGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGT-A-GATCT
** * * * * * * *
41259430 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
* ** * * * **
41259474 TACCTCCCTAAGGTTA-CAGTGGAGTACATAGAAGCCAGTA-AT-T
1 TATCTCCCT--GGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
41259517 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTA--AGGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TAGTA-GATCT
** * * * * *
41259562 TATCTCCCTAAGCAGTAGTGGAATAGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
* * * * * **
41259606 TACCTCCCTGAGGTTA-CAGTGGAGTACATTAAAGCCAGTA-AT-T
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATAGTAGATCT
* **
41259649 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTTTAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
** * * * * * *
41259694 TATCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGATGGTGGATTT
1 TATCTCCCTGGGCAGCAGTGGAA-TAGATTGAAGATAGTAGATCT
* * * * ** *
41259738 TACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCAGTAG-TTT
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATAGTAGATCT
* **
41259782 TATCTCCCT----AGCAGTGGAATAGATTAAAGATTTTAGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
** * * * * * *
41259822 TATCTCCCTAAGCAGTAGT-GAAGCAGATCGAAGATGGTGGATTT
1 TATCTCCCTGGGCAGCAGTGGAA-TAGATTGAAGATAGTAGATCT
* * * * **
41259866 TACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATAGTAGATCT
***
41259909 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGAT
41259945 TAAACTCTCC
Statistics
Matches: 447, Mismatches: 154, Indels: 93
0.64 0.22 0.13
Matches are distributed among these distances:
38 1 0.00
39 18 0.04
40 11 0.02
41 1 0.00
42 8 0.02
43 78 0.17
44 241 0.54
45 80 0.18
46 9 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTAGATCT
Found at i:41260277 original size:517 final size:522
Alignment explanation
Indices: 41259209--41260280 Score: 1476
Period size: 517 Copynumber: 2.1 Consensus size: 522
41259199 ATGGCAGATT
*
41259209 TTACCT-CTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
1 TTACCTAC-CTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT--G-AGCAGT
* **
41259273 GGAATAGATTGAAGATTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATCGAAGATGGCAG
62 GGAATAGATTAAAGATTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGAAGATGGCAG
**
41259338 ATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCA
127 ATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCA
*
41259403 GTGGAATAGATTAAAGATTAAGGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC
192 GTGGAATAGATTAAAGATTAA-GATC-T-TCTCCCTAAGCAGTAGTAGAGTAGAACGAAGATGGC
41259468 AGATTTTACCTCCCTAAGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCTGGGCAG
254 AGATTTTACCTCCCTAAGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCTGGGCAG
*
41259533 CAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAATAGATCGAAGATG
319 CAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATG
*
41259598 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGC
384 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGCAATTCTATCTCCCTGGGC
**
41259663 AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGA
449 AGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGA
**** **
41259728 TGGTGGATT
514 TGACAAAAC
* ** * *
41259737 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT-AGCAGTGGAA
1 TTACCTACCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGAGCAGTGGAA
* * * **
41259801 TAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGATGGTGGATT
66 TAGATTAAAGA-TTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGAAGATGGCAGATT
* * ***
41259865 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTG
130 TTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGTG
* * **
41259930 GAATAGATTGAAGATTAA-A-C-TCT-CCTAAGCAGTAGTGGAGTAGAACGAAGATGGTGGATTT
195 GAATAGATTAAAGATTAAGATCTTCTCCCTAAGCAGTAGTAGAGTAGAACGAAGATGGCAGATTT
* ** * ***
41259991 TACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGG
260 TACCTCCCTAAGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
* * * * * *
41260056 AATAGATTGAATATTATA-GATCTTATCTCCCTAAGTAGTAGTTGAGCAGATCGAAGATGGCGGA
325 AATAGATTGAAGACTA-AGGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCAGA
* * * * *
41260120 TTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGCAATTTTATCTCTCTGGGCAGCAG
389 TTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGCAATTCTATCTCCCTGGGCAGCAG
* *
41260185 TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACA
454 TGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGATGACA
41260250 AAAC
519 AAAC
* * *
41260254 TTATCTACTTGAAGTTGCAGTGGAGTA
1 TTACCTACCTGAAGTTACAGTGGAGTA
41260281 GATAGAAGAA
Statistics
Matches: 482, Mismatches: 59, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
517 286 0.59
518 4 0.01
521 1 0.00
522 1 0.00
524 137 0.28
525 3 0.01
528 49 0.10
529 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (522 bp):
TTACCTACCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGAGCAGTGGAA
TAGATTAAAGATTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGAAGATGGCAGATTT
TACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGTGG
AATAGATTAAAGATTAAGATCTTCTCCCTAAGCAGTAGTAGAGTAGAACGAAGATGGCAGATTTT
ACCTCCCTAAGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
ATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCAGATT
TTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGCAATTCTATCTCCCTGGGCAGCAGTG
GAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGATGACAAA
AC
Found at i:41260304 original size:132 final size:131
Alignment explanation
Indices: 41259198--41260246 Score: 1497
Period size: 132 Copynumber: 8.0 Consensus size: 131
41259188 AGAGCAGGTT
*
41259198 GATGGCAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
41259263 GGGCAGCAGTGGAATAGATTGAAGATTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41259328 AA
130 AA
** *
41259330 GATGGCAGATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
41259395 GGACAGCAGTGGAATAGATTAAAGATTAAGGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41259460 AA
130 AA
* *
41259462 GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* **
41259527 GGGCAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAATAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41259592 AA
130 AA
*
41259594 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
41259659 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41259724 AA
130 AA
** * * *
41259726 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
41259791 ----AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41259852 AA
130 AA
** *
41259854 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*** * *
41259919 GGTTGGCAGTGGAATAGATTGAAGATTAA-A-C---TCT-CCTAAGCAGTAGTGGAGTAGAACGA
66 GGGCAGCAGTGGAATAGATTGAAGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
41259978 A
131 A
** * *
41259979 GATGGTGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*** * * *
41260044 GGTTGGCAGTGGAATAGATTGAATATTATAGATCTTATCTCCCTAAGTAGTAGTTGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41260109 AA
130 AA
* * * * * *
41260111 GATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGCAATTTTATCTCTCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
41260176 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
41260241 AA
130 AA
41260243 GATG
1 GATG
41260247 ACAAAACTTA
Statistics
Matches: 845, Mismatches: 60, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
125 114 0.13
126 4 0.00
127 1 0.00
128 127 0.15
129 1 0.00
130 1 0.00
131 6 0.01
132 589 0.70
133 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (131 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
A
Found at i:41260977 original size:17 final size:17
Alignment explanation
Indices: 41260952--41260987 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
41260942 AACAAACAGC
* *
41260952 AAGAGAAAAGCAGAAAA
1 AAGAAAAAAACAGAAAA
41260969 AAGAAAAAAACAGAAAA
1 AAGAAAAAAACAGAAAA
41260986 AA
1 AA
41260988 ATTGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAACAGAAAA
Found at i:41261191 original size:16 final size:15
Alignment explanation
Indices: 41261172--41261206 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
41261162 TTTATTTATT
*
41261172 TTTTGTTTTCTTTTTC
1 TTTTGTTTTC-CTTTC
41261188 TTTTGTTTTCCTTTC
1 TTTTGTTTTCCTTTC
41261203 TTTT
1 TTTT
41261207 TTCATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTCCTTTC
Found at i:41262212 original size:51 final size:51
Alignment explanation
Indices: 41262153--41262316 Score: 283
Period size: 51 Copynumber: 3.2 Consensus size: 51
41262143 CTGATCAATA
41262153 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTG
** *
41262204 ACAAGTGATAAGTGGTATATTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTG
* *
41262255 ACAAGTGATAAATGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTG
41262306 ACAAGTGATAA
1 ACAAGTGATAA
41262317 ATGTGATCTG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACAAGTG
Found at i:41265145 original size:24 final size:24
Alignment explanation
Indices: 41265121--41265178 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
41265111 ATTTTTTTTA
41265121 TATATTAATATGTATGTATCATTAT
1 TATATTAATATGTAT-TATCATTAT
* *
41265146 TATTTTTATATGTATTATCATGT-T
1 TATATTAATATGTATTATCAT-TAT
41265170 TA-ATTAATA
1 TATATTAATA
41265179 AATATTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.18
24 9 0.32
25 14 0.50
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (24 bp):
TATATTAATATGTATTATCATTAT
Found at i:41270449 original size:21 final size:21
Alignment explanation
Indices: 41270425--41270477 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
41270415 CATTGTTTCT
41270425 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
41270446 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
41270467 AATCTCACCGC
1 AATCTCACCGC
41270478 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:41274314 original size:43 final size:42
Alignment explanation
Indices: 41274257--41274395 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
41274247 TCCCAAACGT
* *
41274257 GGTCTTACATGTAATCAAATAACGATGCCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAAT-ACGATGCCAATATCCCAGACAG
* * * * *
41274300 GGTCTTACCCGTAATCATATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
* ** *
41274342 GGTTTTACACGTAAATCTCAAAT-CGATGCCAACGTCCTAGAC-G
1 GGTCTTACACGT-AA--TCAAATACGATGCCAATATCCCAGACAG
41274385 TGGTCTTACAC
1 -GGTCTTACAC
41274396 AAAATCACAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.36
43 19 0.25
44 25 0.32
45 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:41280958 original size:33 final size:33
Alignment explanation
Indices: 41280867--41280984 Score: 134
Period size: 33 Copynumber: 3.6 Consensus size: 33
41280857 GTGAAGTTAT
* *
41280867 TTTTTGGTCAATTATACATACACCAACAATGT-T
1 TTTTAGGTCAATTATACATACACCAACAA-GTAA
* * *
41280900 TTTTATGGT-AAATA-AAATTAAACCAACAAGTAA
1 TTTTA-GGTCAATTATACA-TACACCAACAAGTAA
*
41280933 TTTTAGGTCAATTATACATACACCAACAATTAA
1 TTTTAGGTCAATTATACATACACCAACAAGTAA
41280966 TTTTAGGTCAATTATACAT
1 TTTTAGGTCAATTATACAT
41280985 GCTTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.10
33 59 0.83
34 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (33 bp):
TTTTAGGTCAATTATACATACACCAACAAGTAA
Found at i:41284086 original size:26 final size:27
Alignment explanation
Indices: 41284046--41284127 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
41284036 TAAGATCATT
*
41284046 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
41284073 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
41284099 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
41284127 T
1 T
41284128 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:41284209 original size:18 final size:17
Alignment explanation
Indices: 41284181--41284215 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41284171 ATTATTAAGA
*
41284181 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
41284198 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
41284216 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:41284309 original size:120 final size:120
Alignment explanation
Indices: 41284128--41284472 Score: 665
Period size: 120 Copynumber: 2.9 Consensus size: 120
41284118 TATTAATTAT
41284128 AGTATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
41284192 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
41284247 AGTATCATATATTATGATTTGAGTAAATTAATGTAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
41284312 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
41284367 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
41284432 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
41284473 TAAATATGAT
Statistics
Matches: 222, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 29 0.13
120 193 0.87
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:41284329 original size:18 final size:17
Alignment explanation
Indices: 41284301--41284335 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41284291 ATTATTAAGA
*
41284301 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
41284318 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
41284336 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:41284449 original size:18 final size:17
Alignment explanation
Indices: 41284421--41284455 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41284411 ATTATTAAGA
*
41284421 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
41284438 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
41284456 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:41284712 original size:16 final size:16
Alignment explanation
Indices: 41284691--41284726 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
41284681 AATTTGCTAT
41284691 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
41284707 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
41284723 TACA
1 TACA
41284727 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:41285212 original size:18 final size:20
Alignment explanation
Indices: 41285189--41285230 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
41285179 AAGTGCTTAA
*
41285189 ATATAATT-ATTAG-ATTTT
1 ATATAATTGATGAGTATTTT
41285207 ATATAATTGATGAGTATTTT
1 ATATAATTGATGAGTATTTT
41285227 ATAT
1 ATAT
41285231 TTGAGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (20 bp):
ATATAATTGATGAGTATTTT
Found at i:41286155 original size:28 final size:27
Alignment explanation
Indices: 41286099--41286155 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
41286089 ATAAAATATT
* *
41286099 TTAAATATTTTAATCATTAAATTGAAA
1 TTAAATATTTTAATCATTAAAATAAAA
41286126 TTAAACTATTTTAAT-ATTAAAATAATAA
1 TTAAA-TATTTTAATCATTAAAATAA-AA
41286154 TT
1 TT
41286156 CGATCTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAAATATTTTAATCATTAAAATAAAA
Found at i:41289492 original size:21 final size:21
Alignment explanation
Indices: 41289468--41289515 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
41289458 TCTAGGTCAA
41289468 TTTAGGATCAAGGGTTAAAGG
1 TTTAGGATCAAGGGTTAAAGG
** **
41289489 TTTAGTTTTTAGGGTTAAAGG
1 TTTAGGATCAAGGGTTAAAGG
41289510 TTTAGG
1 TTTAGG
41289516 GTTATATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.40
Consensus pattern (21 bp):
TTTAGGATCAAGGGTTAAAGG
Found at i:41289601 original size:21 final size:21
Alignment explanation
Indices: 41289577--41289624 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
41289567 TACGGTTTAG
41289577 GGTTTAAGGGATAAAGGTTGT
1 GGTTTAAGGGATAAAGGTTGT
*
41289598 GGTTTAAGGGATAAGGGTTGT
1 GGTTTAAGGGATAAAGGTTGT
41289619 GGTTTA
1 GGTTTA
41289625 GGGTCTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGATAAAGGTTGT
Found at i:41291484 original size:22 final size:22
Alignment explanation
Indices: 41291457--41291503 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
41291447 GTCTTTCTAC
41291457 TTAGGTTTAATCAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
*
41291479 TTAGGTTTAATCAGTATTAAAT
1 TTAGGTTTAATCAGTATAAAAT
41291501 TTA
1 TTA
41291504 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAGGTTTAATCAGTATAAAAT
Found at i:41292635 original size:19 final size:19
Alignment explanation
Indices: 41292613--41292650 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
41292603 ATTAGTAAGA
41292613 AATTTTTAAATTACATAAC
1 AATTTTTAAATTACATAAC
*
41292632 AATTTTTAAATTATATAAC
1 AATTTTTAAATTACATAAC
41292651 TTACATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTTAAATTACATAAC
Found at i:41292745 original size:25 final size:25
Alignment explanation
Indices: 41292717--41292767 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
41292707 TTTTTTTTCA
41292717 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
41292742 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
41292767 A
1 A
41292768 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:41292860 original size:19 final size:19
Alignment explanation
Indices: 41292836--41292879 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
41292826 TATAAACTTG
41292836 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
41292855 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
*
41292874 TATAAC
1 CATAAC
41292880 TTACATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAACAATTTTTAAATTA
Found at i:41292935 original size:17 final size:17
Alignment explanation
Indices: 41292915--41292947 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41292905 ACATTTTTAA
41292915 TATATATTTTT-AAAATC
1 TATAT-TTTTTCAAAATC
41292932 TATATTTTTTCAAAAT
1 TATATTTTTTCAAAAT
41292948 TTATCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTTTTTCAAAATC
Found at i:41292972 original size:25 final size:25
Alignment explanation
Indices: 41292944--41292994 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
41292934 TATTTTTTCA
41292944 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
41292969 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
41292994 A
1 A
41292995 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:41293038 original size:227 final size:228
Alignment explanation
Indices: 41292613--41293118 Score: 933
Period size: 227 Copynumber: 2.2 Consensus size: 228
41292603 ATTAGTAAGA
*
41292613 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTATAC
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
41292678 ATTTTTAATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTA
66 ATTTTTAATATATATTTTTAAAATCTATA-TTTTTTTCAAAATTTATCAATCATAGCATAACTTA
* *
41292743 AATTTATCAATCATATCATAACTTATATATAAACTTACCTAATACATGCATATCTTAAATAACAT
130 AATTTATCAATCATATCATAACTTATATATAAACTCACATAATACATGCATATCTTAAATAACAT
*
41292808 ACAATACATAAACATGCATATAAACTTGCATAAC
195 ACAATACATAAACATACATATAAACTTGCATAAC
41292842 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
41292907 ATTTTTAATATATATTTTTAAAATCTATA-TTTTTTCAAAATTTATCAATCATAGCATAACTTAA
66 ATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACTTAA
41292971 ATTTATCAATCATATCATAACTTATATATAAACTCACATAATACATGCATATCTTAAATAACATA
131 ATTTATCAATCATATCATAACTTATATATAAACTCACATAATACATGCATATCTTAAATAACATA
*
41293036 CAATACATAAACTTACATATAAACTTGCATAAC
196 CAATACATAAACATACATATAAACTTGCATAAC
* *
41293069 AATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATACCTTA
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
41293119 CATAAATTAA
Statistics
Matches: 270, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
227 177 0.66
229 93 0.34
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (228 bp):
AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
ATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACTTAA
ATTTATCAATCATATCATAACTTATATATAAACTCACATAATACATGCATATCTTAAATAACATA
CAATACATAAACATACATATAAACTTGCATAAC
Found at i:41293105 original size:19 final size:19
Alignment explanation
Indices: 41293063--41293106 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
41293053 TATAAACTTG
*
41293063 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAAGTA
41293082 CATAACAATTTTTAAAGTA
1 CATAACAATTTTTAAAGTA
*
41293101 TATAAC
1 CATAAC
41293107 TTACATACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (19 bp):
CATAACAATTTTTAAAGTA
Found at i:41293120 original size:9 final size:9
Alignment explanation
Indices: 41293102--41293692 Score: 486
Period size: 9 Copynumber: 65.2 Consensus size: 9
41293092 TTTAAAGTAT
41293102 ATAACTTAC
1 ATAACTTAC
*
41293111 ATACCTTAC
1 ATAACTTAC
* *
41293120 ATAAATTAA
1 ATAACTTAC
*
41293129 ATAATTTAC
1 ATAACTTAC
41293138 ATAACTTAC
1 ATAACTTAC
*
41293147 ATAACTTAA
1 ATAACTTAC
41293156 ATAACTTAC
1 ATAACTTAC
41293165 ATAA--TAC
1 ATAACTTAC
*
41293172 ATAACCTAC
1 ATAACTTAC
*
41293181 ATAACTTAA
1 ATAACTTAC
* *
41293190 ATTATTTAC
1 ATAACTTAC
41293199 ATAA--TAC
1 ATAACTTAC
41293206 ATAACTTAGTAC
1 ATAAC-T--TAC
*
41293218 ATAATTTAC
1 ATAACTTAC
41293227 ATAA--TAC
1 ATAACTTAC
41293234 ATAACTTAGTAC
1 ATAAC-T--TAC
41293246 ATAACTTAC
1 ATAACTTAC
** *
41293255 ATTATTTTTTC
1 A-TA-ACTTAC
41293266 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
41293278 ATAAATTAA
1 ATAACTTAC
41293287 ATAACTTAC
1 ATAACTTAC
41293296 ATAACTTAC
1 ATAACTTAC
41293305 ATAACTTAC
1 ATAACTTAC
41293314 ATAACTTAC
1 ATAACTTAC
41293323 ATAACTTAC
1 ATAACTTAC
41293332 ATAACTTAC
1 ATAACTTAC
41293341 ATAACTTAC
1 ATAACTTAC
* *
41293350 ATAAATTAA
1 ATAACTTAC
41293359 ATAACTTAC
1 ATAACTTAC
*
41293368 ATAAATTAC
1 ATAACTTAC
41293377 AT-A---AC
1 ATAACTTAC
41293382 ATAACTTAC
1 ATAACTTAC
41293391 ATAACTTAC
1 ATAACTTAC
41293400 ATAA--TAC
1 ATAACTTAC
*
41293407 ATAACCTAC
1 ATAACTTAC
* *
41293416 CTAACTTAA
1 ATAACTTAC
* *
41293425 ATTATTTAC
1 ATAACTTAC
41293434 ATAA--TAC
1 ATAACTTAC
41293441 ATAACTTAGTAC
1 ATAAC-T--TAC
*
41293453 ATAATTTAC
1 ATAACTTAC
41293462 ATAA--TAC
1 ATAACTTAC
41293469 ATAACTTAGTAC
1 ATAAC-T--TAC
41293481 ATAACTTAC
1 ATAACTTAC
** *
41293490 ATTATTTTTTC
1 A-TA-ACTTAC
41293501 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
41293513 ATAAATTAA
1 ATAACTTAC
41293522 ATAACTTAC
1 ATAACTTAC
41293531 ATAACTTAC
1 ATAACTTAC
41293540 ATAACTTAC
1 ATAACTTAC
41293549 ATAACTTAC
1 ATAACTTAC
41293558 ATAACTTAC
1 ATAACTTAC
*
41293567 ATATCTTAC
1 ATAACTTAC
41293576 ATAACTTAC
1 ATAACTTAC
*
41293585 ATATCTTAC
1 ATAACTTAC
41293594 ATAACTTAC
1 ATAACTTAC
* *
41293603 ATAAATTAA
1 ATAACTTAC
41293612 ATAACTTAC
1 ATAACTTAC
*
41293621 ATTACTTAC
1 ATAACTTAC
*
41293630 ATAAATTAC
1 ATAACTTAC
41293639 ATAACTTAC
1 ATAACTTAC
41293648 ATAACTTAC
1 ATAACTTAC
41293657 ATAACTTAC
1 ATAACTTAC
41293666 ATAA--TAC
1 ATAACTTAC
41293673 ATAACCTT-C
1 ATAA-CTTAC
*
41293682 CTAACTTAC
1 ATAACTTAC
41293691 AT
1 AT
41293693 TATTGTCTAA
Statistics
Matches: 472, Mismatches: 64, Indels: 92
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.01
6 1 0.00
7 49 0.10
8 4 0.01
9 355 0.75
10 7 0.01
11 10 0.02
12 40 0.08
13 2 0.00
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:41293428 original size:235 final size:233
Alignment explanation
Indices: 41293102--41293728 Score: 955
Period size: 235 Copynumber: 2.7 Consensus size: 233
41293092 TTTAAAGTAT
* * * *
41293102 ATAACTTACATACCTTACATAAATTAAATAATTTACAT--A-ACTTACATAACTTAAATAACTTA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAATACTAACATAACTTACATAACTTA
41293164 CATAATACATAACCTACATAACTTAAATTATTTACATAATACATAACTTAGTACATAATTTACAT
66 CATAATACATAACCTACATAACTTAAATTATTTACATAATACATAACTTAGTACATAATTTACAT
41293229 AATACATAACTTAGTACATAACTTACATTATTTTTTCTAAATTGCTTACATAAATTAAATAACTT
131 AATACATAACTTAGTACATAACTTACATTATTTTTTCTAAATTGCTTACATAAATTAAATAACTT
41293294 ACATAACTTACATAACTTACATAACTTACATAACTTAC
196 ACATAACTTACATAACTTACATAACTTACATAACTTAC
41293332 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAATTACATAACATAACTTACATAACT
1 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAA-TAC-TAACATAACTTACATAACT
*
41293397 TACATAATACATAACCTACCTAACTTAAATTATTTACATAATACATAACTTAGTACATAATTTAC
64 TACATAATACATAACCTACATAACTTAAATTATTTACATAATACATAACTTAGTACATAATTTAC
41293462 ATAATACATAACTTAGTACATAACTTACATTATTTTTTCTAAATTGCTTACATAAATTAAATAAC
129 ATAATACATAACTTAGTACATAACTTACATTATTTTTTCTAAATTGCTTACATAAATTAAATAAC
41293527 TTACATAACTTACATAACTTACATAACTTACATAACTTAC
194 TTACATAACTTACATAACTTACATAACTTACATAACTTAC
* ** * *
41293567 ATATCTTACATAACTTACATATCTTACATAACTTACATAAAT--TAA-ATAACTTACATTACTTA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAATACTAACATAACTTACATAACTTA
* * * * * *
41293629 CATAAATTACATAACTTACATAACTTACATAACTTACATAATACATAACCTTCCTAACTTACATT
66 CAT-AA-TACATAACCTACATAACTTAAATTATTTACATAATACATAA-C-T--T-A-GTACATA
41293694 ATTGT-C-TAATACATAACTTAGTACATAACTTACAT
123 ATT-TACATAATACATAACTTAGTACATAACTTACAT
41293729 AACTCATTTA
Statistics
Matches: 366, Mismatches: 17, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
230 55 0.15
231 5 0.01
232 37 0.10
233 1 0.00
234 4 0.01
235 223 0.61
236 1 0.00
237 30 0.08
238 9 0.02
239 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (233 bp):
ATAACTTACATAACTTACATAAATTAAATAACTTACATAAATACTAACATAACTTACATAACTTA
CATAATACATAACCTACATAACTTAAATTATTTACATAATACATAACTTAGTACATAATTTACAT
AATACATAACTTAGTACATAACTTACATTATTTTTTCTAAATTGCTTACATAAATTAAATAACTT
ACATAACTTACATAACTTACATAACTTACATAACTTAC
Found at i:41299224 original size:12 final size:12
Alignment explanation
Indices: 41299204--41299243 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
41299194 AGCAGATGCC
41299204 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
41299216 GCAGTGAGAGAA
1 GCAGCGAGAGAA
* *
41299228 GCAACGATAGAA
1 GCAGCGAGAGAA
41299240 GCAG
1 GCAG
41299244 AGGTTCAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:41299709 original size:42 final size:42
Alignment explanation
Indices: 41299663--41299953 Score: 337
Period size: 42 Copynumber: 6.9 Consensus size: 42
41299653 TTTGTGAAAC
* **
41299663 AAGCGCCGTTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTT-TCCT
* * * *
41299705 AAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTT-TTCCT
*
41299748 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGACG-TTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCT
*
41299789 AAGCACCGCTAAAGAACATGACCTTTT-GCGGCG-TTTTTCTCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTC-CT
* **
41299831 AAGTGCCGCTAAAGAACATGATCTTTT-GAAGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTCCT
41299873 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCT
*
41299915 AAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
41299954 TTTCTGTAAG
Statistics
Matches: 218, Mismatches: 20, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.00
41 39 0.18
42 142 0.65
43 36 0.17
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCT
Found at i:41299847 original size:126 final size:126
Alignment explanation
Indices: 41299663--41299952 Score: 392
Period size: 126 Copynumber: 2.3 Consensus size: 126
41299653 TTTGTGAAAC
* * ** * * *
41299663 AAGCGCCGTTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACATTA
1 AAGCACCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTT-CTCTAAGTGCCGCTAAAGAACATGA
*
41299726 -CTTTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGACG-TTTTTCCT
64 TCTTTT-GAAGCGTTTT-TTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCCT
41299789 AAGCACCGCTAAAGAACATGACCTTTT-GCGGCGTTTTTCTCTAAGTGCCGCTAAAGAACATGAT
1 AAGCACCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTCTCTAAGTGCCGCTAAAGAACATGAT
* *
41299853 CTTTTGAAGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
65 CTTTTGAAGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCCT
* *
41299915 AAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTT
1 AAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTT
41299953 TTTTCTGTAA
Statistics
Matches: 146, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
125 42 0.29
126 94 0.64
127 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (126 bp):
AAGCACCGCTAAAGAACATGACTTTTAGCGGCGTTTTTCTCTAAGTGCCGCTAAAGAACATGATC
TTTTGAAGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCCT
Found at i:41300071 original size:21 final size:21
Alignment explanation
Indices: 41300045--41300087 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
41300035 TTAGTGGCGT
* *
41300045 TAAAAAGCGCCGCTAAAGACC
1 TAAAAAACGCCGCTAAAAACC
41300066 TAAAAAACGCCGCTAAAAACC
1 TAAAAAACGCCGCTAAAAACC
41300087 T
1 T
41300088 TTTCTGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.14, T:0.12
Consensus pattern (21 bp):
TAAAAAACGCCGCTAAAAACC
Found at i:41300845 original size:15 final size:16
Alignment explanation
Indices: 41300805--41300846 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
41300795 GAATTTTGAC
41300805 GATTCAAATAATATTA
1 GATTCAAATAATATTA
*
41300821 GATATCCAAAT-ATATTG
1 GAT-T-CAAATAATATTA
41300838 GATTCAAAT
1 GATTCAAAT
41300847 TCACTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 9 0.39
18 5 0.22
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (16 bp):
GATTCAAATAATATTA
Found at i:41302820 original size:83 final size:83
Alignment explanation
Indices: 41302724--41302881 Score: 244
Period size: 83 Copynumber: 1.9 Consensus size: 83
41302714 TTTTATTTTT
* * * *
41302724 AGGGGGCTAAAGTGTAATTTTATTATATATTAATTTATAATTTTATATTTATAAGAAGACTGAAT
1 AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
*
41302789 TGACAATTTTTCTTTTGG
66 TGAAAATTTTTCTTTTGG
* * *
41302807 AGGGGGTTAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTATTTATAAGAGGACTAAAA
1 AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
41302872 TGAAAATTTT
66 TGAAAATTTT
41302882 CATTTTTAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (83 bp):
AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
TGAAAATTTTTCTTTTGG
Found at i:41309728 original size:50 final size:50
Alignment explanation
Indices: 41309665--41309947 Score: 309
Period size: 50 Copynumber: 5.7 Consensus size: 50
41309655 CATTTGGGTA
* *
41309665 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
41309715 AAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** *
41309765 AAGAGGTCTCATGTAAGACCATGTCTGCAACATGGCGTTGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
41309815 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * *
41309865 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* **
41309914 AAAACATCCCATGTAAGACCATGTCTGGGACATG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATG
41309948 ACTTTGACAT
Statistics
Matches: 200, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 31 0.16
50 169 0.85
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:41312577 original size:13 final size:12
Alignment explanation
Indices: 41312540--41312583 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
41312530 AAAAACTTAA
* *
41312540 TGATTAAAAAGT
1 TGATGAAAAACT
*
41312552 TGATGGAAAACT
1 TGATGAAAAACT
41312564 TGATGAAAAGACT
1 TGATGAAAA-ACT
41312577 TGATGAA
1 TGATGAA
41312584 CAGCTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:41312655 original size:13 final size:14
Alignment explanation
Indices: 41312637--41312675 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41312627 GGTAATTAAA
41312637 AACTTGAT-AAAAG
1 AACTTGATGAAAAG
41312650 AACTTGATGAAAAG
1 AACTTGATGAAAAG
* *
41312664 CACTTGAAGAAA
1 AACTTGATGAAA
41312676 GAAAACACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (14 bp):
AACTTGATGAAAAG
Found at i:41312668 original size:14 final size:14
Alignment explanation
Indices: 41312560--41312675 Score: 54
Period size: 13 Copynumber: 8.9 Consensus size: 14
41312550 GTTGATGGAA
41312560 AACTTGATGAAAAG
1 AACTTGATGAAAAG
*
41312574 -ACTTGATGAACAG
1 AACTTGATGAAAAG
41312587 --CTT-A--AAAAG
1 AACTTGATGAAAAG
**
41312596 AACTTGATG-CGA-
1 AACTTGATGAAAAG
* * *
41312608 AACTTAATAAAAAA
1 AACTTGATGAAAAG
* *
41312622 AACTTGGT-AATTAAA
1 AACTTGATGAA--AAG
41312637 AACTTGAT-AAAAG
1 AACTTGATGAAAAG
41312650 AACTTGATGAAAAG
1 AACTTGATGAAAAG
* *
41312664 CACTTGAAGAAA
1 AACTTGATGAAA
41312676 GAAAACACTT
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
9 4 0.05
11 4 0.05
12 11 0.14
13 26 0.33
14 21 0.27
15 12 0.15
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.23
Consensus pattern (14 bp):
AACTTGATGAAAAG
Found at i:41312775 original size:30 final size:25
Alignment explanation
Indices: 41312712--41312762 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
41312702 GCAAACTTGA
41312712 TGATTAAATGCTAAAATTACATATT
1 TGATTAAATGCTAAAATTACATATT
41312737 TGATTAAATGCTAAAATTACATATT
1 TGATTAAATGCTAAAATTACATATT
41312762 T
1 T
41312763 TATGTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
TGATTAAATGCTAAAATTACATATT
Found at i:41313144 original size:14 final size:14
Alignment explanation
Indices: 41313122--41313164 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
41313112 AAGTGTTTTC
*
41313122 TTTCTTCAAGTGTT
1 TTTCATCAAGTGTT
*
41313136 TTTCATCAAGTTTT
1 TTTCATCAAGTGTT
*
41313150 TTTTATCAAGTGTT
1 TTTCATCAAGTGTT
41313164 T
1 T
41313165 AATTATCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (14 bp):
TTTCATCAAGTGTT
Found at i:41313148 original size:29 final size:28
Alignment explanation
Indices: 41313127--41313189 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
41313117 TTTTCTTTCT
41313127 TCAAGTGTTT-TTCATCAAGTTTTTTTTA
1 TCAAGTGTTTATT-ATCAAGTTTTTTTTA
41313155 TCAAGTGTTTAATTATCAAGTTTTTTTTA
1 TCAAGTGTTT-ATTATCAAGTTTTTTTTA
*
41313184 TTAAGT
1 TCAAGT
41313190 TTCGCATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 10 0.31
29 20 0.62
30 2 0.06
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (28 bp):
TCAAGTGTTTATTATCAAGTTTTTTTTA
Found at i:41313170 original size:15 final size:13
Alignment explanation
Indices: 41313127--41313180 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
41313117 TTTTCTTTCT
41313127 TCAAGTGTTTTTCA
1 TCAAGTGTTTTT-A
*
41313141 TCAAGTTTTTTTTA
1 TCAAG-TGTTTTTA
41313155 TCAAGTGTTTAATTA
1 TCAAGTGTTT--TTA
41313170 TCAAGT-TTTTT
1 TCAAGTGTTTTT
41313181 TTATTAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 2 0.06
13 4 0.11
14 14 0.40
15 15 0.43
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.56
Consensus pattern (13 bp):
TCAAGTGTTTTTA
Found at i:41313189 original size:14 final size:14
Alignment explanation
Indices: 41313127--41313191 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
41313117 TTTTCTTTCT
* *
41313127 TCAAGTGTTTTTCA
1 TCAAGTTTTTTTTA
41313141 TCAAGTTTTTTTTA
1 TCAAGTTTTTTTTA
**
41313155 TCAAGTGTTTAATTA
1 TCAAGT-TTTTTTTA
41313170 TCAAGTTTTTTTTA
1 TCAAGTTTTTTTTA
*
41313184 TTAAGTTT
1 TCAAGTTT
41313192 CGCATCAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 31 0.72
15 12 0.28
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.57
Consensus pattern (14 bp):
TCAAGTTTTTTTTA
Found at i:41313230 original size:13 final size:13
Alignment explanation
Indices: 41313212--41313247 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
41313202 TCGTTTTAAG
41313212 CTTTTCATCAAGT
1 CTTTTCATCAAGT
41313225 CTTTTCATCAAGT
1 CTTTTCATCAAGT
*
41313238 -TTTCCATCAA
1 CTTTTCATCAA
41313248 CTTTTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (13 bp):
CTTTTCATCAAGT
Found at i:41313253 original size:24 final size:24
Alignment explanation
Indices: 41313213--41313258 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
41313203 CGTTTTAAGC
* *
41313213 TTTTCATCAAGTCTTTTCATCAAG
1 TTTTCATCAACTCTTTTAATCAAG
41313237 TTTTCCATCAACT-TTTTAATCA
1 TTTT-CATCAACTCTTTTAATCA
41313259 TTAAGTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTCATCAACTCTTTTAATCAAG
Found at i:41317195 original size:6 final size:6
Alignment explanation
Indices: 41317184--41317274 Score: 96
Period size: 6 Copynumber: 15.3 Consensus size: 6
41317174 ATCTACCTAC
* *
41317184 AAAATA AAAATA AAAATA AAAATA AATATA AAAAT- -AAATA TAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * ** *
41317230 TATATA AAAATTA AATTTA AAAAGA AAAATA AAAATA AAAATA AA
1 AAAATA AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AA
41317275 TTAAAATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
4 4 0.06
6 63 0.89
7 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:41317262 original size:35 final size:34
Alignment explanation
Indices: 41317184--41317286 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 34
41317174 ATCTACCTAC
* *
41317184 AAAATAAAAATAAAAATAAAAA-TAAATATAAAAATA
1 AAAATAAAAAT---AATAAAAATTAAATTTAAAAAGA
* *
41317220 AATATAAATATATATAAAAATTAAATTTAAAAAGA
1 AAAATAAAAATA-ATAAAAATTAAATTTAAAAAGA
* *
41317255 AAAATAAAAATAAAAATAAATTAAAATTAAAA
1 AAAATAAAAATAATAA-AAATTAAATTTAAAA
41317287 TGTGTATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
33 1 0.02
34 10 0.18
35 36 0.64
36 9 0.16
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (34 bp):
AAAATAAAAATAATAAAAATTAAATTTAAAAAGA
Found at i:41317287 original size:12 final size:12
Alignment explanation
Indices: 41317184--41317286 Score: 65
Period size: 12 Copynumber: 8.8 Consensus size: 12
41317174 ATCTACCTAC
41317184 AAAA-TAAAAAT
1 AAAATTAAAAAT
*
41317195 AAAAATAAAAAT
1 AAAATTAAAAAT
41317207 -AAATATAAAAAT
1 AAAAT-TAAAAAT
*
41317219 -AAA-TATAAAT
1 AAAATTAAAAAT
*
41317229 -ATATATAAAAATT
1 AAAAT-TAAAAA-T
* *
41317242 AAATTTAAAAAG
1 AAAATTAAAAAT
*
41317254 AAAAATAAAAAT
1 AAAATTAAAAAT
* *
41317266 AAAAAT-AAATT
1 AAAATTAAAAAT
41317277 AAAATTAAAA
1 AAAATTAAAA
41317287 TGTGTATTTC
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
10 8 0.11
11 16 0.22
12 40 0.55
13 7 0.10
14 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:41324123 original size:13 final size:12
Alignment explanation
Indices: 41324086--41324208 Score: 79
Period size: 12 Copynumber: 9.9 Consensus size: 12
41324076 AAAAACATAA
*
41324086 TGATTAAAAACT
1 TGATGAAAAACT
*
41324098 TGATGGAAAACT
1 TGATGAAAAACT
41324110 TGATGAAAAGACT
1 TGATGAAAA-ACT
*
41324123 TGATGAAAAGC-
1 TGATGAAAAACT
*
41324134 TGA-AAAAGAACT
1 TGATGAAA-AACT
**
41324146 TGATGTGAAACT
1 TGATGAAAAACT
* *
41324158 TAATAAAAAACT
1 TGATGAAAAACT
*
41324170 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
41324185 TGATAAAAGAACT
1 TGATGAAA-AACT
*
41324198 TTATGAAAAAC
1 TGATGAAAAAC
41324209 ACTTGAAGAA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
10 3 0.04
11 5 0.06
12 43 0.51
13 23 0.27
14 1 0.01
15 10 0.12
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:41324206 original size:25 final size:25
Alignment explanation
Indices: 41324086--41324208 Score: 103
Period size: 25 Copynumber: 5.0 Consensus size: 25
41324076 AAAAACATAA
* *
41324086 TGATTAAA-AACTTGATGGAAAACT
1 TGATAAAAGAACTTGATGAAAAACT
*
41324110 TGATGAAAAG-ACTTGATGAAAAGC-
1 TGAT-AAAAGAACTTGATGAAAAACT
**
41324134 TGA-AAAAGAACTTGATGTGAAACT
1 TGATAAAAGAACTTGATGAAAAACT
* *
41324158 TAATAAAA-AACTTGGTAATTAAAAACT
1 TGATAAAAGAACTT-G--ATGAAAAACT
*
41324185 TGATAAAAGAACTTTATGAAAAAC
1 TGATAAAAGAACTTGATGAAAAAC
41324209 ACTTGAAGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
22 5 0.06
23 11 0.14
24 14 0.18
25 28 0.36
27 14 0.18
28 5 0.06
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (25 bp):
TGATAAAAGAACTTGATGAAAAACT
Found at i:41327469 original size:17 final size:17
Alignment explanation
Indices: 41327447--41327505 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
41327437 AAAATACGGA
41327447 AATTTTTGAAACACGAG
1 AATTTTTGAAACACGAG
*
41327464 AATTTTTTGAAACACGAA
1 AA-TTTTTGAAACACGAG
* *
41327482 AAGTTTTGAAATACGAG
1 AATTTTTGAAACACGAG
41327499 AATTTTT
1 AATTTTT
41327506 TTTGAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 20 0.56
18 16 0.44
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (17 bp):
AATTTTTGAAACACGAG
Found at i:41327498 original size:35 final size:37
Alignment explanation
Indices: 41327379--41327521 Score: 143
Period size: 38 Copynumber: 3.9 Consensus size: 37
41327369 CGTGATCCGA
* *
41327379 TTGAAACAC--GAATTTTTTTTAAAACACGAGAA-TT
1 TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
* * * * * *
41327413 TTGAAACACAATAATTTTTTTAAAAAAATACGGAAATTT
1 TTGAAACACGAGAATTTTTTT--GAAAACACGAAAAGTT
41327452 TTGAAACACGAGAA-TTTTTTG-AAACACGAAAAGTT
1 TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
*
41327487 TTGAAATACGAGAATTTTTTTTGAAAACACGAAAA
1 TTGAAACACGAGAA-TTTTTTTGAAAACACGAAAA
41327522 TTGTTTTATA
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
34 9 0.10
35 24 0.27
36 9 0.10
37 7 0.08
38 26 0.29
39 14 0.16
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.33
Consensus pattern (37 bp):
TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
Found at i:41327508 original size:38 final size:36
Alignment explanation
Indices: 41327379--41327523 Score: 145
Period size: 35 Copynumber: 4.0 Consensus size: 36
41327369 CGTGATCCGA
*
41327379 TTGAAACAC--GAATTTTTTTTAAAACACGAGAATT
1 TTGAAACACGAGAATTTTTTTTAAAACACGAAAATT
* * * * *
41327413 TTGAAACACAATAATTTTTTTAAAAAAATACGGAAATTT
1 TTGAAACACGAGAATTTTTTT--TAAAACAC-GAAAATT
*
41327452 TTGAAACACGAGAA--TTTTTTGAAACACGAAAAGTT
1 TTGAAACACGAGAATTTTTTTTAAAACACGAAAA-TT
*
41327487 TTGAAATACGAGAATTTTTTTTGAAAACACGAAAATT
1 TTGAAACACGAGAATTTTTTTT-AAAACACGAAAATT
41327524 GTTTTATAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
34 13 0.15
35 20 0.22
36 9 0.10
37 13 0.15
38 17 0.19
39 17 0.19
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (36 bp):
TTGAAACACGAGAATTTTTTTTAAAACACGAAAATT
Found at i:41327523 original size:73 final size:73
Alignment explanation
Indices: 41327379--41327523 Score: 168
Period size: 73 Copynumber: 2.0 Consensus size: 73
41327369 CGTGATCCGA
* * * *
41327379 TTGAAACACGAATTTTTTTTAAAACACGAGAATTTTGAAACACAATAATTTTTTTAAAAAAATAC
1 TTGAAACACGAATATTTTTTAAAACACGAAAATTTTGAAACACAAGAATTTTTTTAAAAAAACAC
*
41327444 GGAAATTT
66 GAAAATTT
* * * **
41327452 TTGAAACACGAGA-ATTTTTTGAAACACGAAAAGTTTTGAAATACGAGAATTTTTTT-TGAAAAC
1 TTGAAACACGA-ATATTTTTTAAAACACGAAAA-TTTTGAAACACAAGAATTTTTTTAAAAAAAC
41327515 ACGAAAATT
64 ACGAAAATT
41327524 GTTTTATAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 39 0.65
74 21 0.35
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (73 bp):
TTGAAACACGAATATTTTTTAAAACACGAAAATTTTGAAACACAAGAATTTTTTTAAAAAAACAC
GAAAATTT
Found at i:41328240 original size:14 final size:13
Alignment explanation
Indices: 41328221--41328262 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
41328211 ACTATTTTCA
41328221 ATTTTTTTATTTTT
1 ATTTTTTT-TTTTT
41328235 ATTTTTATTTTTTT
1 ATTTTT-TTTTTTT
41328249 ATTTTTTCTTTTTT
1 ATTTTTT-TTTTTT
41328263 TCTTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.88
15 2 0.08
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (13 bp):
ATTTTTTTTTTTT
Found at i:41328260 original size:15 final size:15
Alignment explanation
Indices: 41328221--41328273 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
41328211 ACTATTTTCA
*
41328221 ATTTTTT-TATTTTT
1 ATTTTTTCTTTTTTT
*
41328235 A-TTTTTATTTTTTT
1 ATTTTTTCTTTTTTT
41328249 ATTTTTTCTTTTTTT
1 ATTTTTTCTTTTTTT
* *
41328264 CTTTCTTCTT
1 ATTTTTTCTT
41328274 CTTATTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 20 0.61
ACGTcount: A:0.09, C:0.08, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTCTTTTTTT
Found at i:41328721 original size:29 final size:28
Alignment explanation
Indices: 41328643--41328817 Score: 145
Period size: 29 Copynumber: 6.0 Consensus size: 28
41328633 CAAACGCTAC
** * *
41328643 AAAAATTTTGGGGACAAAATATAATTTT
1 AAAAATTTAAGGGTCAAAATGTAATTTT
*
41328671 GAGAAAATTTAAGGGTCCAAATGTAATTTT
1 -A-AAAATTTAAGGGTCAAAATGTAATTTT
* * *
41328701 AAAAAGTTGATGGGTCAAAATGTAATTTAA
1 AAAAA-TTTAAGGGTCAAAATGTAATTT-T
* * *
41328731 AAAAAATTAAGGGTCAAAGTATAATTTT
1 AAAAATTTAAGGGTCAAAATGTAATTTT
* * *
41328759 AGGAAAATTTAGGGGTCAAAATGAAATTTC
1 A--AAAATTTAAGGGTCAAAATGTAATTTT
41328789 AAAAAGTTT-AGGAGTCAAAATGTAATTTT
1 AAAAA-TTTAAGG-GTCAAAATGTAATTTT
41328818 TTTATTTTTT
Statistics
Matches: 115, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
28 11 0.10
29 55 0.48
30 49 0.43
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (28 bp):
AAAAATTTAAGGGTCAAAATGTAATTTT
Found at i:41328727 original size:59 final size:57
Alignment explanation
Indices: 41328674--41328817 Score: 150
Period size: 59 Copynumber: 2.5 Consensus size: 57
41328664 TAATTTTGAG
*
41328674 AAAATTTAAGGGTCCAAATGTAATTTTA-AAAAGTTGATGGGTCAAAATGTAATTTAAA
1 AAAATTTAAGGGTCCAAATGTAATTTTAGAAAA-TTGAGGGGTCAAAATGTAATTT-AA
* * * *
41328732 AAAAATTAAGGGT-CAAAGTATAATTTTAGGAAAATTTAGGGGTCAAAATGAAATTTCAA
1 AAAATTTAAGGGTCCAAA-TGTAATTTTA-GAAAATTGAGGGGTCAAAATGTAATTT-AA
* *
41328791 AAAGTTT-AGGAGTCAAAATGTAATTTT
1 AAAATTTAAGG-GTCCAAATGTAATTTT
41328818 TTTATTTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
57 4 0.06
58 24 0.34
59 36 0.51
60 7 0.10
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (57 bp):
AAAATTTAAGGGTCCAAATGTAATTTTAGAAAATTGAGGGGTCAAAATGTAATTTAA
Found at i:41329269 original size:79 final size:77
Alignment explanation
Indices: 41328980--41330938 Score: 1887
Period size: 79 Copynumber: 25.4 Consensus size: 77
41328970 TTTTCTATTA
* * * * * * * * *
41328980 AAAAATAGAAA-T-AAAAAATAGCTCGGCATGCGACCCAAAGCTCAACTCACCTGTCGGATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
41329043 AGTTGATCTTTG
66 AGTTGATTTTTG
* * * * * * * *
41329055 AAAAA-AAAAATT-GAAAAACACCTCGGTGTGTGGCCCAAGGCTCAACTCACTTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41329118 AGTTGATTTTTG
66 AGTTGATTTTTG
* * * ** *
41329130 AAAAACAGAAATT--AAAGATACATCGGCGTGTGACCTGAGGCTCAACTCATTTCCCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
41329193 AGTTGATTTTGG
66 AGTTGATTTTTG
** *
41329205 AAAAACAGAAATTTAAAAGAAATACCTCGGAATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
41329270 TGAGTTGATTTTTG
64 TGAGTTGATTTTTG
* * * *
41329284 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTAAACTCACCTCTCGTAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
***
41329348 TGAGTTGATTTAAA
64 TGAGTTGATTTTTG
* * * * *
41329362 AAAAATAGAAATT--GAAAATACCTCAGC--GTGACCGGAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41329423 AGTTGAGTTTTTTTTTTG
66 AGTTGA------TTTTTG
* ** * * * *
41329441 AGAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACTTCTCACAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
41329505 TGAGTTGA-TTTTA
64 TGAGTTGATTTTTG
* * * * *
41329518 AAAAATAGAAATT--TAAAATACATCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41329579 AGTTGATTTTTTTG
66 AGTTGA--TTTTTG
*
41329593 AAAAATAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
41329658 GAGTTGATTTTTG
65 GAGTTGATTTTTG
* * **
41329671 AAAAACAGAAATTTAAAAGAAATACCTTGGCATGT-TTCCGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* **
41329735 TGAGTTGA-TATAA
64 TGAGTTGATTTTTG
* * * * *
41329748 AAAAACAGAAATT--GAAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCACTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
41329809 ATTTGAATTTTTTG
66 AGTTG-A-TTTTTG
* *
41329823 AAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41329888 AGTTGATTTTTTG
66 AGTTGA-TTTTTG
* * * * *
41329901 AAAAACAGAAATTTAAAAGAAATACCTCAGCATGTG-TCCGAGGCTCAACTCACCTCTTGTAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
**
41329965 TGAGTTGATTTTAAAA
64 TGAGTTGATTTT--TG
* * * *
41329981 AAAAATAGAAATT--GAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41330042 AGTTGATTTTTTTG
66 AGTTGA--TTTTTG
* * *
41330056 AAAAACAGAAATT-AAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
41330120 AGTTGATTTTAG
66 AGTTGATTTTTG
* * * *
41330132 -AAAATAGAAATT--GAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41330192 AGTTGATTTTTTTTTG
66 AGTTGA----TTTTTG
* * * * * * *
41330208 AAAAATAGAAATTTAAAAGAAATACATTGGCATGTG-TCCGAGGCTGAACTCACCTCTTGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* *
41330272 TGAGTTGATTTAATA
64 TGAGTTGATTT-TTG
* * * * *
41330287 AAAAACAAAAATT--TAAAATACCTC--AGTGTGACCCGAGGCTCAACTCACATCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41330348 AGTTGATTTTTTTG
66 AGTTGA--TTTTTG
*
41330362 -AAAATAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
41330426 GAGTTGATTTTTTG
65 GAGTTGA-TTTTTG
* * * * *
41330440 AAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACCTCTCGTAAT
1 -AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
41330504 ATGAGTTGATTTTAG
63 ATGAGTTGATTTTTG
* * ** * * *
41330519 AAAAAAAGAAATT--GAAAATACCTTAGC--GTGAACCAAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41330580 AGTTGATTTTTTTG
66 AGTTGA--TTTTTG
*
41330594 AAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
41330659 GAGTTGATTTTTTA
65 GAGTTGA-TTTTTG
* * * *
41330673 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACATCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
***
41330737 TGAGTTGATTTAAA
64 TGAGTTGATTTTTG
* * * * * *
41330751 AAAAACCAGAAATT--GAAAATACCTCAGC--ATGACCCGAGGCTCAACTTACCTATCGCATTAT
1 AAAAA-CAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
41330812 GAGTTGATTTTTTTG
65 GAGTTGA--TTTTTG
* * *
41330827 AAAAACAGAAA-TCAAAAAATACATCGGCGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
41330891 AGTTGATTTTTG
66 AGTTGATTTTTG
*
41330903 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTG
41330939 TCTTGCAATA
Statistics
Matches: 1579, Mismatches: 212, Indels: 182
0.80 0.11 0.09
Matches are distributed among these distances:
71 5 0.00
72 106 0.07
73 89 0.06
74 115 0.07
75 254 0.16
76 88 0.06
77 67 0.04
78 258 0.16
79 320 0.20
80 169 0.11
81 27 0.02
82 33 0.02
83 14 0.01
84 31 0.02
85 3 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (77 bp):
AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTG
Found at i:41330072 original size:233 final size:229
Alignment explanation
Indices: 41328980--41332400 Score: 3859
Period size: 233 Copynumber: 15.0 Consensus size: 229
41328970 TTTTCTATTA
* * * * * * * * *
41328980 AAAAATAGAAA-T-AAAAAATAGCTCGGCATGCGACCCAAAGCTCAACTCACCTGTCGGATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
41329043 AGTTGATCTTTGAAAAAA-A-AAA-TTGAA-AAACACCTCGG-TGTGTGGCCCAAGGCTCAACTC
66 AGTTGATTTTTTAAAAAATAGAAATTTAAAGAAATACCTCGGCTGTGT---CCGAGGCTCAACTC
* * * * * *
41329103 ACTTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACATCGGCGTGTGACCTG
128 ACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAA-ATACCTCAGC--GTGACCCG
** * * *
41329167 AGGCTCAACTCATTTCCCGCAATATGAGTTGA--TTTTGG
190 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
** *
41329205 AAAAACAGAAATTTAAAAGAAATACCTCGGAATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * *
41329270 TGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTAAACT
64 TGAGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAACT
* ** * *
41329334 CACCTCTCGTAATATGAGTTGATTTAAAAAAAATAGAAATTGAAAATACCTCAGCGTGACCGGAG
127 CACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAG
41329399 GCTCAACTCACCTCTCGCATTATGAGTTGAGTTTTTTTTTTG
192 GCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTTTTG
* ** * * * *
41329441 AGAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACTTCTCACAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * *
41329505 TGAGTTGA--TTTTAAAAAATAGAAATTT--A-AAATACATCAGC-GTGACCCGAGGCTCAACTC
64 TGAGTTGATTTTTTAAAAAATAGAAATTTAAAGAAATACCTCGGCTGTG-TCCGAGGCTCAACTC
* * * * *
41329564 ACCTCTCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCGGCGTGTGA
128 ACCTCTCGCAATATGAGTTGA--TTTTTAAAAAACAGAAATT---GAAAATACCTCAGC--GTGA
*
41329629 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
186 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * **
41329671 AAAAACAGAAATTTAAAAGAAATACCTTGGCATGT-TTCCGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * * * * *
41329735 TGAGTTGA--TATAAAAAAACAGAAA-TT-GA-AAATACCTCAGC-GTGACCCAAGGCTCAACTC
64 TGAGTTGATTTTTTAAAAAATAGAAATTTAAAGAAATACCTCGGCTGTG-TCCGAGGCTCAACTC
* * * * * * *
41329794 ACCACTCGCATTATGATTTGAATTTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGAC
128 ACCTCTCGCAATATGAGTTG-A-TTTTTAAAAAACAGAAATT--GAAAATACCTCAGC--GTGAC
*
41329859 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
187 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * * * *
41329901 AAAAACAGAAATTTAAAAGAAATACCTCAGCATGTG-TCCGAGGCTCAACTCACCTCTTGTAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
** * * *
41329965 TGAGTTGATTTTAAAAAAAAATAGAAA-TT-GA-AAATACCTCAGC-GTGACCCGAGGCTCAACT
64 TGAGTTGATTTT-TTAAAAAATAGAAATTTAAAGAAATACCTCGGCTGTG-TCCGAGGCTCAACT
* * *
41330026 CACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCTCAGCATGTGAC
127 CACCTCTCGCAATATGAGTTGA--TTTTTAAAAAACAGAAATT-GAAAATACCTCAGC--GTGAC
* * *
41330091 CCGAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTAG
187 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * * *
41330132 -AAAATAGAAATT--GAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * * *
41330192 AGTTGATTTTTTTTTGAAAAATAGAAATTTAAAAGAAATACATTGGCATGTGTCCGAGGCTGAAC
66 AGTTGA---TTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAAC
* * * * *
41330257 TCACCTCTTGCAATATGAGTTGATTTAATAAAAAACAAAAATTTAAAATACCTCAGTGTGACCCG
126 TCACCTCTCGCAATATGAGTTGATTT-TTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCG
*
41330322 AGGCTCAACTCACATCTCGCATTATGAGTTGATTTTTTTG
190 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
*
41330362 -AAAATAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
41330426 GAGTTGATTTTTTGAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACT
65 GAGTTGATTTTTT-AAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAACT
* * * * *
41330491 CACCTCTCGTAATATGAGTTGA-TTTTAGAAAAAAAGAAATTGAAAATACCTTAGCGTGAACCAA
127 CACCTCTCGCAATATGAGTTGATTTTTA-AAAAACAGAAATTGAAAATACCTCAGCGTGACCCGA
41330555 GGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
191 GGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
*
41330594 AAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
41330659 GAGTTGATTTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTC
65 GAGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAACTC
* ** *
41330724 ACATCTCGCAATATGAGTTGATTTAAAAAAAACCAGAAATTGAAAATACCTCAGCATGACCCGAG
128 ACCTCTCGCAATATGAGTTGATTTTTAAAAAA-CAGAAATTGAAAATACCTCAGCGTGACCCGAG
* *
41330789 GCTCAACTTACCTATCGCATTATGAGTTGATTTTTTTG
192 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * *
41330827 AAAAACAGAAA-TCAAAAAATACATCGGCGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
41330891 AGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGC-ATGT-----G------T---
66 AGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGCTGTGTCCGAGGCTCAACTCAC
* * *
41330940 CT-T-GCAATATGAGTTGA-TTTAAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCT
130 CTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCT
* * *
41331002 AAACTCACCTATCACATTATGAGTTGATTTTTTTG
195 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * *
41331037 AAAAATAGAAATTAAAAAAATACCTCGGCGTGGGACTCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
41331102 AGTTGA-TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTGTCCGAGGCTCAACTCA
66 AGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGG-CTGTGTCCGAGGCTCAACTCA
41331166 CCTCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGC
129 CCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGC
*
41331230 TCAACTCACCTCTCACATTATGAGTTGATTTTTTTG
194 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
*
41331266 AAAAACAGAAATAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
41331331 AGTTGATTTTTTGAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTC
66 AGTTGATTTTTT-AAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAACTC
* * * * * *
41331396 ACCTCTCGTAATATGAGTTGATTTTAAAAAAAAAAGAAATTGAAAATACCTTAGCGTGAACCAAG
128 ACCTCTCGCAATATGAGTTGATTTT-TAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAG
41331461 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
192 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
*
41331499 AAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
41331564 GAGTTGATTTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTC
65 GAGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGC-TGTGTCCGAGGCTCAACTC
* **
41331629 ACATCTCGCAATATGAGTTGATTTAAAAAAAACTAGAAATTGAAAATACCTCAGCGTGACCCGAG
128 ACCTCTCGCAATATGAGTTGATTTTTAAAAAAC-AGAAATTGAAAATACCTCAGCGTGACCCGAG
* *
41331694 GCTCAACTTACCTATCGCATTATGAGTTGATTTTTTTG
192 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * *
41331732 AAAAACAGAAA-TCAAAAAATACATCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
41331796 AGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGC-ATGT-----G----------
66 AGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGGCTGTGTCCGAGGCTCAACTCAC
* *
41331844 -TCTCGCAATATGAGTTGA-TTTTAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCT
130 CTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCT
* *
41331907 AAACTCACCTATCGCATTATGAGTTGATTTTTTTG
195 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
* * *
41331942 AAAAATAGAAATTAAAAAAATACCTCGGCGTGGGACTCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
41332007 AGTTGA-TTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTGTCCGAGGCTCAACTCA
66 AGTTGATTTTTTAAAAAATAGAAATTT-AAAGAAATACCTCGG-CTGTGTCCGAGGCTCAACTCA
41332071 CCTCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGC
129 CCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGC
*
41332135 TCAACTCACCTCTCACATTATGAGTTGATTTTTTTG
194 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
** *
41332171 AAAAACAGAAA-TAAAAAAATACCTCGGCGTGTGAGTCGAGGCTCAGCTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
41332235 AGTTGATTTTTTTTAAAAAACAGAAA-TTAAAAAAATACCTCAGCCTGTGTCCGAGGCTCAACTC
66 AGTTGA--TTTTTTAAAAAATAGAAATTTAAAGAAATACCTC-GGCTGTGTCCGAGGCTCAACTC
* ** * * * * * * *
41332299 ACCTCTCACAATATGAGTCAATTTTTGAAAAATAGGAATTTAAAAAATACATCGGTATGTGACCC
128 ACCTCTCGCAATATGAGTTGATTTTTAAAAAACA-GAAATT-GAAAATACCTCAG--CGTGACCC
* *
41332364 GAGGCTCAACTCACCTCTCGCAATATGTGTTGATTTT
189 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT
41332401 CGAAAAAAAC
Statistics
Matches: 2842, Mismatches: 242, Indels: 215
0.86 0.07 0.07
Matches are distributed among these distances:
210 150 0.05
211 195 0.07
212 32 0.01
213 7 0.00
214 1 0.00
217 1 0.00
218 2 0.00
223 2 0.00
224 4 0.00
225 42 0.01
226 12 0.00
227 15 0.01
228 120 0.04
229 447 0.16
230 407 0.14
231 245 0.09
232 316 0.11
233 560 0.20
234 133 0.05
235 76 0.03
236 75 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (229 bp):
AAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTAAAAAATAGAAATTTAAAGAAATACCTCGGCTGTGTCCGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTC
AACTCACCTCTCGCATTATGAGTTGATTTTTTTG
Found at i:41331102 original size:79 final size:78
Alignment explanation
Indices: 41330989--41331843 Score: 978
Period size: 79 Copynumber: 11.0 Consensus size: 78
41330979 ATACATCAGC
* * * * *
41330989 GTGACCCGAGGCTAAACTCACCTATCACATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAA
41331054 AAATACCTCGGCGT
65 AAATACCTCGGCGT
* * *
41331068 GGGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTTAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTAAAA
**
41331132 GAAATACCTCGGTAT
65 -AAATACCTCGGCGT
* * *
41331147 GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTAAAAAACAGAAATT--GAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAA
*
41331207 AATACCTCAGC--
66 AATACCTCGGCGT
* * *
41331218 GTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAATAAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAA
41331283 AAATACCTCGGCGT
65 AAATACCTCGGCGT
*
41331297 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAA-TTAAA
*
41331362 AGAAATACCTCGGCAT
64 A-AAATACCTCGGCGT
* * * *** * *
41331378 GTG-TCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTAAAAAAAAAAGAAATT--GAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAA
**
41331440 AATACCTTAGC--
66 AATACCTCGGCGT
* * *
41331451 GTGAACCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT-AAA
41331516 AAAATACCTCGGCGT
64 AAAATACCTCGGCGT
* *
41331531 GTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAACAGAAATTTAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTAAAA
*
41331596 GAAATACCTCGGCAT
65 -AAATACCTCGGCGT
* * * *** *
41331611 GTG-TCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTAAAAAAAACTAGAAATT--GA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC-AGAAATTAAAA
*
41331672 AAATACCTCAGC--
65 AAATACCTCGGCGT
* * * *
41331684 GTGACCCGAGGCTCAACTTACCTATCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TCAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAA
* *
41331748 AAATACATCGGCAT
65 AAATACCTCGGCGT
41331762 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TTAAAA
*
41331826 GAAATACCTCGGCAT
65 -AAATACCTCGGCGT
41331841 GTG
1 GTG
41331844 TCTCGCAATA
Statistics
Matches: 662, Mismatches: 81, Indels: 66
0.82 0.10 0.08
Matches are distributed among these distances:
71 3 0.00
72 33 0.05
73 16 0.02
74 63 0.10
75 58 0.09
76 41 0.06
77 43 0.06
78 113 0.17
79 180 0.27
80 96 0.15
81 16 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (78 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAA
AATACCTCGGCGT
Found at i:41331821 original size:905 final size:903
Alignment explanation
Indices: 41329106--41332400 Score: 4420
Period size: 905 Copynumber: 3.6 Consensus size: 903
41329096 TCAACTCACT
* * * * *
41329106 TCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACATCGGCGTGTGACCTGAGG
1 TCTCGCAATATGAGTTGA-TTTTAAAAAATAGAAATTGAAA-ATACATCAGC--GTGACCCGAGG
* ** ** * * * *
41329170 CTCAACTCATTTCCCGCAATATGAGTTGATTTTGGAAAAACAGAAATTTAAAAGAAATACCTCGG
62 CTAAACTCACCTATCACATTATGAGTTGATTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGG
** * *
41329235 AATGTGAC-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTA
125 CGTGGGACTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTA
* * *
41329299 AAAGAAATACCTCGGCATGTGTCCGAGGCTAAACTCACCTCTCGTAATATGAGTTGATTTAAAAA
189 AAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATAAA
* * *
41329364 AAATAGAAATTGAAAATACCTCAGCGTGACCGGAGGCTCAACTCACCTCTCGCATTATGAGTTGA
254 AAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGA
* * ** * *
41329429 GTTTTTTTTTTGAGAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCA
319 ----TTTTTTTGAAAAACAGAAA-TTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCA
* * * *
41329493 CTTCTCACAATATGAGTTGA--TTTT-AAAAAATAGAAATTT---AAAATACATCAGC--GTGAC
379 CCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTTAAAAAAATACCTCAGCATGTG-T
* * * *
41329550 CCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAAT
443 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTAGAAAAAAAGAAATT---GAAAAT
** * * *
41329615 ACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACA
503 ACCTTAGC--GTGAACCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACA
* * * ** *
41329678 GAAATTTAAAAGAAATACCTTGGCATGT-TTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
566 GAAA-TTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTG
* * * * * **
41329742 A--TATAAAAAAACAGAAA-TT--GA-AAATACCTCAGC--GTGACCCAAGGCTCAACTCACCA-
630 ATTTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCA-CAT
* * *** * *
41329798 CTCGCATTATGATTTGAATTTTTTGAAAAA-TAGAAATTAAAAAAATACCTCGGCATGTGACCCG
693 CTCGCAATATGAGTTG-A-TTTAAAAAAAACTAGAAATT--GAAAATACCTCAGC--GTGACCCG
* * * *
41329862 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAAAGAAATAC
752 AGGCTCAACTTACCTATCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA--TCAAA-AAATAC
* * * * ** *
41329926 CTCAGCATGTG-TCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTAAAAAAAAATAGA
814 ATCGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT--TGAAAAACAGA
* * * ***
41329990 AATTGAAAATACCTCAGCGTGACC-CGAGGCTCAACTCACC
877 AATTTAAAAGA----A--AT-ACCTC--GG--C-A-T-GTG
* * * * *
41330030 TCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCTCAGCATGTGACCCGA
1 TCTCGCAATATGAGTTGA---TTTTAAAAAATAGAAATT-GAAAATACATCAGC--GTGACCCGA
* * * * * *
41330095 GGCTCAACTCACCTCTCACAATATGAGTTGATTTTAG-AAAATAGAAATT--GAAAATACCTCAG
60 GGCTAAACTCACCTATCACATTATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGG
* *
41330157 CGT--GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAAATAGAAAT
125 CGTGGGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAATAGAAAT
* * * *
41330220 TTAAAAGAAATACATTGGCATGTGTCCGAGGCTGAACTCACCTCTTGCAATATGAGTTGATTTAA
186 TTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-A
* * * * *
41330285 TAAAAAACAAAAATTTAAAATACCTCAGTGTGACCCGAGGCTCAACTCACATCTCGCATTATGAG
250 TAAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAG
*
41330350 TTGATTTTTTTG-AAAATAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCAC
315 TTGATTTTTTTGAAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCAC
*
41330414 CTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTC
380 CTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTTAAAA-AAATACCTCAGCATGTGTC
* *
41330479 TGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTAGAAAAAAAGAAATTGAAAATACCTTA
444 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAAAAGAAATTGAAAATACCTTA
41330544 GCGTGAACCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAA
509 GCGTGAACCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAA
41330609 AAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAA
574 AAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAA
41330674 AAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACATCTCGCAATATG
639 AAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACATCTCGCAATATG
* *
41330739 AGTTGATTTAAAAAAAACCAGAAATTGAAAATACCTCAGCATGACCCGAGGCTCAACTTACCTAT
704 AGTTGATTTAAAAAAAACTAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTAT
*
41330804 CGCATTATGAGTTGATTTTTTTGAAAAACAGAAATCAAAAAATACATCGGCGTGTGACCCGAGGC
769 CGCATTATGAGTTGATTTTTTTGAAAAACAGAAATCAAAAAATACATCGGCATGTGACCCGAGGC
41330869 TCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGC
834 TCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGC
41330934 ATGTG
899 ATGTG
* *
41330939 TCTTGCAATATGAGTTGATTTAAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCTAA
1 TCTCGCAATATGAGTTGATTTTAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCTAA
41331004 ACTCACCTATCACATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTG
66 ACTCACCTATCACATTATGAGTTGA--TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTG
41331069 GGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGA
129 GGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGA
*
41331134 AATACCTCGGTATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TAAAAAACA
194 AATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATAAAAAACA
41331198 GAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTT
259 GAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTT
41331263 TTGAAAAACAGAAA-TAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
324 TTGAAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
* *
41331327 TATGAGTTGATTTTTTGAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCA
389 TATGAGTTGATTTTTTGAAAAAATAGAAATTTAAAA-AAATACCTCAGCATGTGTCCGAGGCTCA
* *
41331392 ACTCACCTCTCGTAATATGAGTTGATTTTAAAAAAAAAAGAAATTGAAAATACCTTAGCGTGAAC
453 ACTCACCTCTCGCAATATGAGTTGATTTT-AGAAAAAAAGAAATTGAAAATACCTTAGCGTGAAC
41331457 CAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATA
517 CAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATA
41331522 CCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAACAGA
582 CCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAACAGA
41331587 AATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATT
647 AATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATT
41331652 TAAAAAAAACTAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTATCGCATTAT
712 TAAAAAAAACTAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTATCGCATTAT
41331717 GAGTTGATTTTTTTGAAAAACAGAAATCAAAAAATACATCGGCATGTGACCCGAGGCTCAACTCA
777 GAGTTGATTTTTTTGAAAAACAGAAATCAAAAAATACATCGGCATGTGACCCGAGGCTCAACTCA
*
41331782 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG
842 CCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG
41331844 TCTCGCAATATGAGTTGATTTTAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCTAA
1 TCTCGCAATATGAGTTGATTTTAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCTAA
*
41331909 ACTCACCTATCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTG
66 ACTCACCTATCACATTATGAGTTGA--TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTG
41331974 GGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGA
129 GGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGA
*
41332039 AATACCTCGGTATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TAAAAAACA
194 AATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATAAAAAACA
41332103 GAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTT
259 GAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTT
** *
41332168 TTGAAAAACAGAAA-T-AAAAAAATACCTCGGCGTGTGAGTCGAGGCTCAGCTCACCTCTCGCAA
324 TTGAAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
* * *
41332231 TATGAGTTGATTTTTTTTAAAAAACAGAAA-TTAAAAAAATACCTCAGCCTGTGTCCGAGGCTCA
389 TATGAGTTGA-TTTTTTGAAAAAATAGAAATTTAAAAAAATACCTCAGCATGTGTCCGAGGCTCA
* ** * * * * * *
41332295 ACTCACCTCTCACAATATGAGTCAATTTTTGAAAAATAGGAATTTAAAAAATACATCGGTA-TGT
453 ACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAA-AAGAAATT-GAAAATAC--C-TTAGCGT
* * * *
41332359 GACCCGAGGCTCAACTCACCTCTCGCAATATGTGTTGATTTT
513 GAACCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT
41332401 CGAAAAAAAC
Statistics
Matches: 2172, Mismatches: 148, Indels: 120
0.89 0.06 0.05
Matches are distributed among these distances:
902 5 0.00
903 93 0.04
904 284 0.13
905 796 0.37
906 144 0.07
907 2 0.00
908 14 0.01
909 16 0.01
910 37 0.02
911 1 0.00
912 1 0.00
914 2 0.00
915 3 0.00
916 2 0.00
918 1 0.00
919 20 0.01
920 76 0.03
921 46 0.02
922 52 0.02
923 92 0.04
924 135 0.06
925 115 0.05
926 66 0.03
927 71 0.03
928 44 0.02
929 24 0.01
930 27 0.01
931 3 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (903 bp):
TCTCGCAATATGAGTTGATTTTAAAAAATAGAAATTGAAAATACATCAGCGTGACCCGAGGCTAA
ACTCACCTATCACATTATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGGG
ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGAAA
TACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATAAAAAACAGA
AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTT
GAAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTGAAAAAATAGAAATTTAAAAAAATACCTCAGCATGTGTCCGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTAGAAAAAAAGAAATTGAAAATACCTTAGCGTGAACCAAG
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATACCTC
GGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAACAGAAATT
TAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTAAA
AAAAACTAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTATCGCATTATGAGT
TGATTTTTTTGAAAAACAGAAATCAAAAAATACATCGGCATGTGACCCGAGGCTCAACTCACCTC
TTGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG
Found at i:41332027 original size:77 final size:77
Alignment explanation
Indices: 41331844--41332407 Score: 623
Period size: 79 Copynumber: 7.4 Consensus size: 77
41331834 TCGGCATGTG
* * * *
41331844 TCTCGCAATATGAGTTGA-TTTTAAAAAATAGAAATT--GAAAATACATCAGC--GTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAG
*
41331904 GCTAAACTCACC
66 GCTCAACTCACC
* * * *
41331916 TATCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGGGACTCG
1 TCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCG
41331981 AGGCTCAACTCACC
64 AGGCTCAACTCACC
** *
41331995 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTG-TCCG
1 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA-TTAAAA-AAATACCTCGGCGTGTGACCCG
41332059 AGGCTCAACTCACC
64 AGGCTCAACTCACC
* * * *
41332073 TCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATT--GAAAATACCTCAGC--GTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAG
41332133 GCTCAACTCACC
66 GCTCAACTCACC
* * * **
41332145 TCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAA-TAAAAAAATACCTCGGCGTGTGAGTCG
1 TCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCG
*
41332209 AGGCTCAGCTCACC
64 AGGCTCAACTCACC
* * * * *
41332223 TCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTAAAAAAATACCTCAGCCTGTG-TCC
1 TCTCGCAATATGAGTTGA---TTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCC
41332287 GAGGCTCAACTCACC
63 GAGGCTCAACTCACC
* ** * * * **
41332302 TCTCACAATATGAGTCAATTTTTGAAAAATAGGAATTTAAAAAATACATCGGTATGTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAG
41332367 GCTCAACTCACC
66 GCTCAACTCACC
* *
41332379 TCTCGCAATATGTGTTGATTTTCGAAAAA
1 TCTCGCAATATGAGTTGATTTTTGAAAAA
41332408 AACAAAAATT
Statistics
Matches: 417, Mismatches: 55, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
71 3 0.01
72 49 0.12
73 10 0.02
74 2 0.00
75 32 0.08
76 46 0.11
77 83 0.20
78 75 0.18
79 97 0.23
80 20 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAG
GCTCAACTCACC
Found at i:41333339 original size:18 final size:16
Alignment explanation
Indices: 41333279--41333333 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
41333269 GGTTTTCATC
*
41333279 TTTTTTTTTCTTTTTT
1 TTTTTTTTTGTTTTTT
41333295 TTGTTTTTTTGTTTTTT
1 TT-TTTTTTTGTTTTTT
41333312 TTTGTTTTTTGTTTTTT
1 TTT-TTTTTTGTTTTTT
41333329 TTTTT
1 TTTTT
41333334 AATTTTTAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 5 0.14
17 31 0.86
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTT
Found at i:41333339 original size:25 final size:25
Alignment explanation
Indices: 41333291--41333339 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
41333281 TTTTTTTCTT
*
41333291 TTTTTTGTTTTTTTGTTTTTTTTTG
1 TTTTTTGTTTTTTTGTTTTATTTTG
41333316 TTTTTTGTTTTTTT-TTTTAATTTT
1 TTTTTTGTTTTTTTGTTTT-ATTTT
41333340 TAGGCATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTTTTGTTTTTTTGTTTTATTTTG
Found at i:41333340 original size:1 final size:1
Alignment explanation
Indices: 41333279--41333333 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
41333269 GGTTTTCATC
* * * * *
41333279 TTTTTTTTTCTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
41333334 AATTTTTAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:41339448 original size:36 final size:37
Alignment explanation
Indices: 41339408--41339554 Score: 185
Period size: 36 Copynumber: 4.1 Consensus size: 37
41339398 CGTGATCCGA
*
41339408 TTGAAACACGAGAAATTTTTTTAAAACACGAGAA-TT
1 TTGAAACACGAGAAATTTTTTTAAAACACGAAAATTT
* * * *
41339444 TTGAAACACAATAATTTTTTTTAAAACACGGAAATTT
1 TTGAAACACGAGAAATTTTTTTAAAACACGAAAATTT
* *
41339481 TTGAAACACGAG-AA-TTTTTTGAAACACAAAAATTT
1 TTGAAACACGAGAAATTTTTTTAAAACACGAAAATTT
*
41339516 TTGAAACACGAGAATTTTTTTTGAAAACAC-AAAATTT
1 TTGAAACACGAGAAATTTTTTT-AAAACACGAAAATTT
41339553 TT
1 TT
41339555 TGATAAATTA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
35 30 0.32
36 31 0.33
37 27 0.29
38 6 0.06
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (37 bp):
TTGAAACACGAGAAATTTTTTTAAAACACGAAAATTT
Found at i:41339462 original size:17 final size:17
Alignment explanation
Indices: 41339408--41339534 Score: 114
Period size: 17 Copynumber: 7.1 Consensus size: 17
41339398 CGTGATCCGA
41339408 TTGAAACACGAGAAATTTTT
1 TTGAAACACGAG-AA--TTT
*
41339428 TTAAAACACGAGAA-TT
1 TTGAAACACGAGAATTT
* *
41339444 TTGAAACACAATAATTTTTT
1 TTGAAACACGAGAA---TTT
*
41339464 TTAAAACACG-GAAATTT
1 TTGAAACACGAG-AATTT
41339481 TTGAAACACGAGAATTTT
1 TTGAAACACGAGAA-TTT
* *
41339499 TTGAAACACAAAAATTT
1 TTGAAACACGAGAATTT
41339516 TTGAAACACGAGAATTT
1 TTGAAACACGAGAATTT
41339533 TT
1 TT
41339535 TTTGAAAACA
Statistics
Matches: 88, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
16 13 0.15
17 34 0.39
18 16 0.18
19 2 0.02
20 23 0.26
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (17 bp):
TTGAAACACGAGAATTT
Found at i:41339463 original size:18 final size:17
Alignment explanation
Indices: 41339442--41339557 Score: 99
Period size: 17 Copynumber: 6.4 Consensus size: 17
41339432 AACACGAGAA
41339442 TTTTGAAACACAATAATTTT
1 TTTTGAAACACAA-AA--TT
* *
41339462 TTTTAAAACACGGAAA-T
1 TTTTGAAACAC-AAAATT
*
41339479 TTTTGAAACACGAGAATT
1 TTTTGAAACAC-AAAATT
*
41339497 TTTTGAAACACAAAAAT
1 TTTTGAAACACAAAATT
*
41339514 TTTTGAAACACGAGAATTTT
1 TTTTGAAACAC-A-AA-ATT
41339534 TTTTGAAAACACAAAATT
1 TTTTG-AAACACAAAATT
41339552 TTTTGA
1 TTTTGA
41339558 TAAATTACAT
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
17 30 0.38
18 20 0.25
19 4 0.05
20 19 0.24
21 7 0.09
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (17 bp):
TTTTGAAACACAAAATT
Found at i:41339483 original size:37 final size:36
Alignment explanation
Indices: 41339408--41339554 Score: 183
Period size: 35 Copynumber: 4.1 Consensus size: 36
41339398 CGTGATCCGA
* *
41339408 TTGAAACACGAGAAATTTTTTTAAAACACGAGAA-TT
1 TTGAAACACGAGAATTTTTTTTAAAACAC-AAAATTT
* * *
41339444 TTGAAACACAATAATTTTTTTTAAAACACGGAAATTT
1 TTGAAACACGAGAATTTTTTTTAAAACAC-AAAATTT
*
41339481 TTGAAACACGAGAA--TTTTTTGAAACACAAAAATTT
1 TTGAAACACGAGAATTTTTTTTAAAACAC-AAAATTT
41339516 TTGAAACACGAGAATTTTTTTTGAAAACACAAAATTT
1 TTGAAACACGAGAATTTTTTTT-AAAACACAAAATTT
41339553 TT
1 TT
41339555 TGATAAATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
35 32 0.33
36 29 0.30
37 29 0.30
38 6 0.06
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (36 bp):
TTGAAACACGAGAATTTTTTTTAAAACACAAAATTT
Found at i:41340262 original size:15 final size:16
Alignment explanation
Indices: 41340259--41340328 Score: 95
Period size: 18 Copynumber: 4.1 Consensus size: 16
41340249 TTTTTTTTTC
41340259 TTTTTTTTCTTTCTTCT
1 TTTTTTTTC-TTCTTCT
41340276 TTTTTTTTCTTCTTCT
1 TTTTTTTTCTTCTTCT
41340292 TCTTTTTCTTCTTCTTCT
1 T-TTTTT-TTCTTCTTCT
41340310 TTCTTTCTTTCTTCTTCT
1 TT-TTT-TTTCTTCTTCT
41340328 T
1 T
41340329 CAAAACCCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.16
17 15 0.31
18 25 0.51
19 1 0.02
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTCTTCTTCT
Found at i:41340262 original size:18 final size:18
Alignment explanation
Indices: 41340241--41340328 Score: 105
Period size: 15 Copynumber: 5.1 Consensus size: 18
41340231 TAATTTTTAA
* *
41340241 TTTTTTTCTTTTTTTTTC
1 TTTTTTTCTTTCTTCTTC
41340259 TTTTTTTTCTTTCTTCTT-
1 -TTTTTTTCTTTCTTCTTC
41340277 TTTTTTTC-TTCTTCTTC
1 TTTTTTTCTTTCTTCTTC
41340294 --TTTTTC-TTCTTCTTC
1 TTTTTTTCTTTCTTCTTC
*
41340309 TTTCTTTCTTTCTTCTTC
1 TTTTTTTCTTTCTTCTTC
41340327 TT
1 TT
41340329 CAAAACCCTA
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
15 15 0.24
16 8 0.13
17 13 0.21
18 11 0.18
19 15 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTCTTTCTTCTTC
Found at i:41340263 original size:26 final size:26
Alignment explanation
Indices: 41340246--41340325 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
41340236 TTTAATTTTT
41340246 TTCTTTTTTTTTCTTTTTTTTCTTTC
1 TTCTTTTTTTTTCTTTTTTTTCTTTC
* *
41340272 TTCTTTTTTTTTCTTCTTCTTCTTT-
1 TTCTTTTTTTTTCTTTTTTTTCTTTC
* * *
41340297 TTC-TTCTTCTTC-TTTCTTTCTTTC
1 TTCTTTTTTTTTCTTTTTTTTCTTTC
41340321 TTCTT
1 TTCTT
41340326 CTTCAAAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.18
24 10 0.22
25 4 0.09
26 23 0.51
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (26 bp):
TTCTTTTTTTTTCTTTTTTTTCTTTC
Found at i:41340288 original size:3 final size:3
Alignment explanation
Indices: 41340269--41340329 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
41340259 TTTTTTTTCT
* *
41340269 TTC TTC TT- TT- TTT TTC TTC TTC TTC TTT TTC TTC TTC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
41340313 TTTC TTTC TTC TTC TTC
1 -TTC -TTC TTC TTC TTC
41340330 AAAACCCTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.08
3 38 0.72
4 11 0.21
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:41340754 original size:29 final size:29
Alignment explanation
Indices: 41340685--41340843 Score: 149
Period size: 29 Copynumber: 5.4 Consensus size: 29
41340675 ATTCTGAGGC
*
41340685 CAAAATATAATTTCGAGAAAATTTAGGGGT
1 CAAAATATAATTTC-AAAAAATTTAGGGGT
* * * * * *
41340715 CCAAATGTAATTTCTAAAATTTTATGGAT
1 CAAAATATAATTTCAAAAAATTTAGGGGT
** *
41340744 CAAAATATAATTT-AAAAAGGTTAGGAGT
1 CAAAATATAATTTCAAAAAATTTAGGGGT
* * *
41340772 CAAAATAAAATTTTAGGAAAATTTAGGGGT
1 CAAAATATAATTTCA-AAAAATTTAGGGGT
* *
41340802 CAAAATGTAATTTCAAAAAGTTTAGGGGT
1 CAAAATATAATTTCAAAAAATTTAGGGGT
*
41340831 CAAAATGTAATTT
1 CAAAATATAATTT
41340844 TGAATTTTTT
Statistics
Matches: 102, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
28 21 0.21
29 47 0.46
30 34 0.33
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (29 bp):
CAAAATATAATTTCAAAAAATTTAGGGGT
Found at i:41340784 original size:87 final size:87
Alignment explanation
Indices: 41340685--41340843 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
41340675 ATTCTGAGGC
* * * * *
41340685 CAAAATATAATTTCGA-GAAAATTTAGGGGTCCAAATGTAATTTCTAAAATTTTATGGATCAAAA
1 CAAAATAAAATTT-GAGGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGATCAAAA
41340749 TATAATTTAAAAAGGTTAGGAGT
65 TATAATTTAAAAAGGTTAGGAGT
* *
41340772 CAAAATAAAATTTTAGGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGGTCAAAAT
1 CAAAATAAAATTTGAGGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGATCAAAAT
*
41340837 GTAATTT
66 ATAATTT
41340844 TGAATTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.02
87 62 0.98
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (87 bp):
CAAAATAAAATTTGAGGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAGGGATCAAAAT
ATAATTTAAAAAGGTTAGGAGT
Found at i:41340843 original size:59 final size:57
Alignment explanation
Indices: 41340685--41340844 Score: 180
Period size: 59 Copynumber: 2.8 Consensus size: 57
41340675 ATTCTGAGGC
* * *
41340685 CAAAATATAATTTCGAGAAAA-TTTAGGGGTCCAAATGTAATTTCTAAAATTTTATGGAT
1 CAAAATATAATTTC-A-AAAAGTTTAGGGGTCAAAATGTAATTT-TAAAAATTTAGGGAT
* * ** *
41340744 CAAAATATAATTT-AAAAAGGTTAGGAGTCAAAATAAAATTTTAGGAAAATTTAGGGGT
1 CAAAATATAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTTA--AAAATTTAGGGAT
*
41340802 CAAAATGTAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTT
1 CAAAATATAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTT
41340845 GAATTTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 6 0.07
57 18 0.21
58 22 0.26
59 38 0.45
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (57 bp):
CAAAATATAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTTAAAAATTTAGGGAT
Found at i:41340856 original size:10 final size:10
Alignment explanation
Indices: 41340841--41340875 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
41340831 CAAAATGTAA
41340841 TTTTGAATTT
1 TTTTGAATTT
41340851 TTTTGAATTTT
1 TTTTGAA-TTT
41340862 TTTTGAATTT
1 TTTTGAATTT
41340872 TTTT
1 TTTT
41340876 TTTGAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTGAATTT
Found at i:41340881 original size:13 final size:11
Alignment explanation
Indices: 41340841--41340876 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
41340831 CAAAATGTAA
41340841 TTTTGAA-TTT
1 TTTTGAATTTT
41340851 TTTTGAATTTT
1 TTTTGAATTTT
41340862 TTTTGAATTTT
1 TTTTGAATTTT
41340873 TTTT
1 TTTT
41340877 TTGAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTTGAATTTT
Found at i:41345635 original size:6 final size:6
Alignment explanation
Indices: 41345624--41345658 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
41345614 GTTTATCTTA
*
41345624 TTTTAT TTTTAT TTTTAT TTTTAT CTTTTCT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTT
41345659 GAACCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:41346806 original size:16 final size:17
Alignment explanation
Indices: 41346785--41346841 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
41346775 TATATATACA
*
41346785 TATATACGTTTAT-ATT
1 TATATACATTTATCATT
* *
41346801 TTTATA-TTTTATCATT
1 TATATACATTTATCATT
*
41346817 TATATACATTTATGTATT
1 TATATACATTTAT-CATT
41346835 TATATAC
1 TATATAC
41346842 GCATTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 5 0.15
16 13 0.39
17 5 0.15
18 10 0.30
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (17 bp):
TATATACATTTATCATT
Found at i:41346951 original size:35 final size:33
Alignment explanation
Indices: 41346884--41346960 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 33
41346874 TATGTATCCC
41346884 TTTTATAAATATACATACACGTACATAATTTTTA
1 TTTTATAAATATACATACAC-TACATAATTTTTA
* *
41346918 TTTATATAAATATATATACA-TACTTATATTTTTTA
1 TTT-TATAAATATACATACACTAC--ATAATTTTTA
41346953 TTTTATAA
1 TTTTATAA
41346961 TTTTCATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 3 0.08
34 8 0.21
35 27 0.71
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (33 bp):
TTTTATAAATATACATACACTACATAATTTTTA
Found at i:41347127 original size:120 final size:120
Alignment explanation
Indices: 41346992--41347234 Score: 468
Period size: 120 Copynumber: 2.0 Consensus size: 120
41346982 TCATATCATT
*
41346992 TATATATATACCTACATATTTTTAGATATATACATACTTATGTTTTTCTACGCTTTATAATTTGT
1 TATATATATACCTACATATTTTTAGATATATACATACTTAAGTTTTTCTACGCTTTATAATTTGT
41347057 ATATATATATACAGTCACATATTTTATAATCTATAACTTAAACATATTGATGTAC
66 ATATATATATACAGTCACATATTTTATAATCTATAACTTAAACATATTGATGTAC
41347112 TATATATATACCTACATATTTTTAGATATATACATACTTAAGTTTTTCTACGCTTTATAATTTGT
1 TATATATATACCTACATATTTTTAGATATATACATACTTAAGTTTTTCTACGCTTTATAATTTGT
*
41347177 ATATATATATACATTCACATATTTTATAATCTATAACTTAAACATATTGATGTAC
66 ATATATATATACAGTCACATATTTTATAATCTATAACTTAAACATATTGATGTAC
41347232 TAT
1 TAT
41347235 TCGTATAGTT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (120 bp):
TATATATATACCTACATATTTTTAGATATATACATACTTAAGTTTTTCTACGCTTTATAATTTGT
ATATATATATACAGTCACATATTTTATAATCTATAACTTAAACATATTGATGTAC
Found at i:41357835 original size:24 final size:23
Alignment explanation
Indices: 41357808--41357876 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
41357798 TTTAATTTTC
*
41357808 ATATATATATATACCTTATTATAA
1 ATATAT-TATATATCTTATTATAA
* *
41357832 ATATCTT-TATATCTTATTATAT
1 ATATATTATATATCTTATTATAA
*
41357854 ATATATCTATATATCTTTTTATA
1 ATATAT-TATATATCTTATTATA
41357877 GACACGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 18 0.47
23 2 0.05
24 18 0.47
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATTATATATCTTATTATAA
Found at i:41357842 original size:22 final size:24
Alignment explanation
Indices: 41357808--41357876 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
41357798 TTTAATTTTC
* *
41357808 ATATATATATATACCTTATTATA-
1 ATATATCTATATATCTTATTATAT
*
41357831 A-ATATCTTTATATCTTATTATAT
1 ATATATCTATATATCTTATTATAT
*
41357854 ATATATCTATATATCTTTTTATA
1 ATATATCTATATATCTTATTATA
41357877 GACACGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 18 0.46
23 2 0.05
24 19 0.49
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATCTATATATCTTATTATAT
Found at i:41358027 original size:30 final size:29
Alignment explanation
Indices: 41357992--41358050 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
41357982 TTTTATATAT
*
41357992 ATATACATACTTACACTGTTTTATTTTATG
1 ATATACATACTTACA-TCTTTTATTTTATG
*
41358022 ATATACATACTTATATCTTTTATTTTATG
1 ATATACATACTTACATCTTTTATTTTATG
41358051 TAATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.53
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTATG
Found at i:41362806 original size:5 final size:5
Alignment explanation
Indices: 41362796--41362821 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
41362786 TTTTTTTATG
41362796 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
41362822 GATGGTTGCT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:41366002 original size:109 final size:108
Alignment explanation
Indices: 41365681--41366196 Score: 763
Period size: 109 Copynumber: 4.7 Consensus size: 108
41365671 ATTTGGTTAG
* * *
41365681 ACGAGAAATCGAAACCCAGCACCTTAGAGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
*
41365746 TATTTTG-AAATTTTTGAAAAGGATACTT-AG-CTATTTGGTTGA
66 TATTTTGAAAATTTTTGAAAAGGATA-TTAAGTC-ATTTGGTCGA
* * *
41365788 ACGAGAAAAATCGACACCCAGTACCTTAGGGCATGTTCTCTCGAATTTCCAAACGGAAAACATTG
1 ACGAG--AAATCGAAACCCAGTACCTTAGGGCACGTTC-CTCGAATTTCCAAACGCAAAACATTG
* *
41365853 CCTTATTTTGAAATTTTTTGAAAAAGATATTAAGTCATTTGGTCGA
63 CCTTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGA
*
41365899 ACGAGAAATCAAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
*
41365964 TATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTGGTCGA
66 TA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCGA
* *
41366008 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCAAAACGCAAAATATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
*
41366073 TATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCGA
66 TATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGA
* * *
41366116 ACGAGATATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
41366181 TATTTTGAAATATTTT
66 TATTTTGAAA-ATTTT
41366197 CCTTTTTTGA
Statistics
Matches: 373, Mismatches: 24, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
107 10 0.03
108 134 0.36
109 154 0.41
110 42 0.11
111 32 0.09
112 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (108 bp):
ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
TATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCGA
Found at i:41366143 original size:217 final size:218
Alignment explanation
Indices: 41365681--41366196 Score: 817
Period size: 217 Copynumber: 2.4 Consensus size: 218
41365671 ATTTGGTTAG
* * *
41365681 ACGAGAAATCGAAACCCAGCACCTTAGAGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
* *
41365746 TATTTTG-AAATTTTTGAAAAGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGT
66 TATTTTGAAAATTTTTGAAAAGGATACTTAGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGT
* * * *
41365810 ACCTTAGGGCATGTTCTCTCGAATTTCCAAACGGAAAACATTGCCTTATTTTGAAATTTTTTGAA
130 ACCTTAGGGCACGTTCTCTCGAATTTCAAAACGCAAAACATTGCCTTATTTTGAAAATTTTTGAA
41365875 AAAGATATTAAGTCATTTGGTCGA
195 AAAGATATTAAGTCATTTGGTCGA
*
41365899 ACGAGAAATCAAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
*
41365964 TATTTTTGAAAAGTTTTT-AAAAGGATATTTAGCTATTTGGTCGAACGAG-AAATCGAAACCCAG
66 TA-TTTTGAAAA-TTTTTGAAAAGGATACTTAGCTATTTGGTCGAACGAGAAAATCGAAACCCAG
*
41366027 TACCTTAGGGCACGTTC-CTCGAATTTCAAAACGCAAAATATTGCCTTATTTTGAAAATTTTTG-
129 TACCTTAGGGCACGTTCTCTCGAATTTCAAAACGCAAAACATTGCCTTATTTTGAAAATTTTTGA
41366090 AAAAGAATATTAAGTCATTTGGTCGA
194 AAAAG-ATATTAAGTCATTTGGTCGA
* * *
41366116 ACGAGATATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCCT
1 ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
41366181 TATTTTGAAATATTTT
66 TATTTTGAAA-ATTTT
41366197 CCTTTTTTGA
Statistics
Matches: 277, Mismatches: 16, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
216 17 0.06
217 126 0.45
218 92 0.33
219 5 0.02
220 32 0.12
221 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (218 bp):
ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
TATTTTGAAAATTTTTGAAAAGGATACTTAGCTATTTGGTCGAACGAGAAAATCGAAACCCAGTA
CCTTAGGGCACGTTCTCTCGAATTTCAAAACGCAAAACATTGCCTTATTTTGAAAATTTTTGAAA
AAGATATTAAGTCATTTGGTCGA
Found at i:41366193 original size:18 final size:17
Alignment explanation
Indices: 41366170--41366211 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
41366160 TCCAAACGCA
41366170 AAATATTGCCTTATTTTG
1 AAATATTGCCTT-TTTTG
*
41366188 AAATATTTTCCTTTTTTG
1 AAATA-TTGCCTTTTTTG
41366206 AAATAT
1 AAATAT
41366212 GAAGTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (17 bp):
AAATATTGCCTTTTTTG
Found at i:41366353 original size:25 final size:24
Alignment explanation
Indices: 41366325--41366376 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
41366315 TAAATAAACT
*
41366325 AAAAACATAAAAATGAACATATAAA
1 AAAAACACAAAAATGAACATA-AAA
* *
41366350 AAAAATACATAAATGAACATAAAA
1 AAAAACACAAAAATGAACATAAAA
41366374 AAA
1 AAA
41366377 GAAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAACACAAAAATGAACATAAAA
Done.