Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 292 of 335
Found at i:87634919 original size:31 final size:31
Alignment explanation
Indices: 87634883--87634941 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
87634873 TCACTTGTTA
87634883 ACTTTGTTTAAATAAAATTTTAAATTATTAC
1 ACTTTGTTTAAATAAAATTTTAAATTATTAC
* **
87634914 ACTTTGTTTAACTAAGTTTTTAAATTAT
1 ACTTTGTTTAAATAAAATTTTAAATTAT
87634942 ATTTGTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (31 bp):
ACTTTGTTTAAATAAAATTTTAAATTATTAC
Found at i:87636458 original size:10 final size:10
Alignment explanation
Indices: 87636445--87636472 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
87636435 ATATTTACAT
87636445 TAAAATATAA
1 TAAAATATAA
87636455 TAAAATATAA
1 TAAAATATAA
87636465 TAAAATAT
1 TAAAATAT
87636473 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAATATAA
Found at i:87636521 original size:13 final size:14
Alignment explanation
Indices: 87636503--87636556 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
87636493 ATTTAATTTT
87636503 AAATTAT-TATTAA
1 AAATTATATATTAA
87636516 AAATTA-A-ATTAA
1 AAATTATATATTAA
87636528 ATAATT-TATATTTAA
1 A-AATTATATA-TTAA
*
87636543 AAATAATATATTAA
1 AAATTATATATTAA
87636557 TATTATTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
12 6 0.18
13 11 0.32
14 8 0.24
15 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTATATATTAA
Found at i:87636555 original size:29 final size:30
Alignment explanation
Indices: 87636527--87636589 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
87636517 AATTAAATTA
87636527 AATAAT-TTA-TATTTAAAAATAATATATT
1 AATAATATTACTATTTAAAAATAATATATT
* * * *
87636555 AATATTATTACTTTTTAAAAATAATAAAGT
1 AATAATATTACTATTTAAAAATAATATATT
87636585 AATAA
1 AATAA
87636590 AAATATCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.18
29 3 0.11
30 20 0.71
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AATAATATTACTATTTAAAAATAATATATT
Found at i:87636700 original size:46 final size:46
Alignment explanation
Indices: 87636607--87636700 Score: 102
Period size: 46 Copynumber: 2.0 Consensus size: 46
87636597 TATATTAATG
* * *
87636607 TATATAAATAAAAATATTAAAATATATTATTTTATATTAGTATTAA
1 TATATAAATAAAAATATTAAAATACATTATTTTATATTAGAAATAA
* * *
87636653 TATATTAATATAAATATTAAAATACA-TACTTTTAATTTTA-AAATAA
1 TATATAAATAAAAATATTAAAATACATTA-TTTT-ATATTAGAAATAA
87636699 TA
1 TA
87636701 AATCTAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.05
46 33 0.82
47 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (46 bp):
TATATAAATAAAAATATTAAAATACATTATTTTATATTAGAAATAA
Found at i:87638450 original size:51 final size:51
Alignment explanation
Indices: 87638395--87638496 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
87638385 TGGAAGTTAG
* *
87638395 GAAATTACCAAAA-AATAATGTTGATTTTATATGAAATTTTAATAAATATAT
1 GAAATTACCAAAACAAT-ATGTTGATTTTATATAAAATATTAATAAATATAT
* * * *
87638446 GAAATTACTAAAACAATTTTTTGATTTTATATAAAATATTAGTAAATATAT
1 GAAATTACCAAAACAATATGTTGATTTTATATAAAATATTAATAAATATAT
87638497 TTTTATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (51 bp):
GAAATTACCAAAACAATATGTTGATTTTATATAAAATATTAATAAATATAT
Found at i:87638811 original size:31 final size:33
Alignment explanation
Indices: 87638774--87638835 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
87638764 ACATATATTA
* *
87638774 TTTTTTTATAATTGAAA-TAAAAAT-AAAAGTT
1 TTTTTTTACAATAGAAATTAAAAATGAAAAGTT
87638805 TTTTTTTACAATAGAAATTAAAAATGAAAAG
1 TTTTTTTACAATAGAAATTAAAAATGAAAAG
87638836 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 15 0.56
32 7 0.26
33 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
TTTTTTTACAATAGAAATTAAAAATGAAAAGTT
Found at i:87641833 original size:34 final size:34
Alignment explanation
Indices: 87641768--87641833 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
87641758 TCAAGTACAT
* * *
87641768 ATACAGATTCGGGCTTAAGCCCATTATAGATATG
1 ATACAGATTAGGGCCTAAGCCCATTACAGATATG
87641802 ATACAGATTAGGGCCTAAGCCCATCT-CAGATA
1 ATACAGATTAGGGCCTAAGCCCAT-TACAGATA
87641834 CAAATACAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (34 bp):
ATACAGATTAGGGCCTAAGCCCATTACAGATATG
Found at i:87642998 original size:16 final size:16
Alignment explanation
Indices: 87642977--87643011 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
87642967 TGAGGTTGAC
* *
87642977 GAAGAATCAAAATAAA
1 GAAGAATAAAAAGAAA
87642993 GAAGAATAAAAAGAAA
1 GAAGAATAAAAAGAAA
87643009 GAA
1 GAA
87643012 AATGAAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.09
Consensus pattern (16 bp):
GAAGAATAAAAAGAAA
Found at i:87644757 original size:19 final size:19
Alignment explanation
Indices: 87644720--87644757 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
87644710 ATATAGTGAT
*
87644720 GTTGAAAAATATAATAATA
1 GTTGAAAAATATAAAAATA
87644739 GTTGAATAAATA-AAAAATA
1 GTTGAA-AAATATAAAAATA
87644758 ACCTCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (19 bp):
GTTGAAAAATATAAAAATA
Found at i:87648366 original size:33 final size:32
Alignment explanation
Indices: 87648320--87648381 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
87648310 ATGCATGACT
87648320 ACTAAATACATCTACCCTAAATACATTCATTAA
1 ACTAAATACATCTACCCTAAA-ACATTCATTAA
* * *
87648353 ACTAGATACATCTACTCTGAAACATTCAT
1 ACTAAATACATCTACCCTAAAACATTCAT
87648382 CAAATATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (32 bp):
ACTAAATACATCTACCCTAAAACATTCATTAA
Found at i:87653829 original size:26 final size:26
Alignment explanation
Indices: 87653800--87653908 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
87653790 TGGTACAAAT
*
87653800 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87653826 TGATAATGGATTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87653852 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87653878 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87653904 TGATA
1 TGATA
87653909 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87660826 original size:26 final size:25
Alignment explanation
Indices: 87660783--87660889 Score: 178
Period size: 26 Copynumber: 4.2 Consensus size: 25
87660773 TGGTACAAAT
87660783 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
87660808 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
87660834 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
87660860 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
87660886 TGAT
1 TGAT
87660890 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
25 11 0.14
26 64 0.83
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:87665811 original size:11 final size:11
Alignment explanation
Indices: 87665789--87665829 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
87665779 TTAATTTTTT
87665789 AAAATT-TAAA
1 AAAATTATAAA
87665799 AAAATTATAAA
1 AAAATTATAAA
87665810 AAAATTATAAA
1 AAAATTATAAA
87665821 AAAATTATA
1 AAAATTATA
87665830 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 6 0.20
11 24 0.80
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:87677661 original size:55 final size:56
Alignment explanation
Indices: 87677595--87677706 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
87677585 CTTTACAAGT
*
87677595 CCTTCCAAAAGATAACAAAGTCTTTG-CCATTTTCCCAGCGAATAGAGAGTCTCCC
1 CCTTCCAAAAGATAACAAAGTCTTTGCCCATTTTCCCAGCGAATAGAGACTCTCCC
87677650 CCTTCCAAAAGATAACAAAGTCTTTGCCCATTTTCCCAGCGAATAGAGACTCTCCC
1 CCTTCCAAAAGATAACAAAGTCTTTGCCCATTTTCCCAGCGAATAGAGACTCTCCC
87677706 C
1 C
87677707 AGCGTTAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 26 0.47
56 29 0.53
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (56 bp):
CCTTCCAAAAGATAACAAAGTCTTTGCCCATTTTCCCAGCGAATAGAGACTCTCCC
Found at i:87679132 original size:10 final size:10
Alignment explanation
Indices: 87679117--87679179 Score: 90
Period size: 10 Copynumber: 6.3 Consensus size: 10
87679107 ATGTATTCTT
*
87679117 TATACATATA
1 TATATATATA
*
87679127 TATACATATA
1 TATATATATA
87679137 TATATATATA
1 TATATATATA
87679147 TATATATATA
1 TATATATATA
*
87679157 TATATATAGA
1 TATATATATA
*
87679167 TATATAGATA
1 TATATATATA
87679177 TAT
1 TAT
87679180 TCTCTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 49 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (10 bp):
TATATATATA
Found at i:87679135 original size:8 final size:8
Alignment explanation
Indices: 87679117--87679179 Score: 90
Period size: 8 Copynumber: 7.9 Consensus size: 8
87679107 ATGTATTCTT
*
87679117 TATACATA
1 TATATATA
*
87679125 TATATACA
1 TATATATA
87679133 TATATATA
1 TATATATA
87679141 TATATATA
1 TATATATA
87679149 TATATATA
1 TATATATA
87679157 TATATATA
1 TATATATA
*
87679165 GATATATA
1 TATATATA
*
87679173 GATATAT
1 TATATAT
87679180 TCTCTTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 51 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (8 bp):
TATATATA
Found at i:87679161 original size:6 final size:6
Alignment explanation
Indices: 87679117--87679179 Score: 90
Period size: 6 Copynumber: 10.5 Consensus size: 6
87679107 ATGTATTCTT
* *
87679117 TATACA TATATA TACATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* *
87679165 GATATA TAGATA TAT
1 TATATA TATATA TAT
87679180 TCTCTTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:87679563 original size:162 final size:162
Alignment explanation
Indices: 87679226--87679655 Score: 511
Period size: 162 Copynumber: 2.6 Consensus size: 162
87679216 TTTGGTCTTA
* * *
87679226 GACAATTGCATACTTTGGAGATAAAGAGTTGCTCGCAATTGGAAGACATAATCCAAGGCCTACAA
1 GACAATTGCATACTTTGAAGATAAAGAGTTGCTCTCAATTGGAAGACATAATCCAAGACCTACAA
* * * * * *
87679291 ATGCCATATACGTAAGCCTCCAAAGTTTATGGGAAGTAAAAGTTGAAAAATGCGATAATTTAAAG
66 GTGCC--ATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTAAAAAATGCGATAAATTAAAA
* * * * * **
87679356 TATCTTTTTCCACTGTTTGTTGCTAATAGTCTTG
129 TATCTCTTCCCACTGTCTGCTACTAATACCCTTG
* * * **
87679390 GACAATTGCATACTTTGAAGATAAAAAGTTGCTCTCAATTGAAAAACATAATCCAAGACCCGCAA
1 GACAATTGCATACTTTGAAGATAAAGAGTTGCTCTCAATTGGAAGACATAATCCAAGACCTACAA
* *
87679455 GTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAGGTTAAAAAATGTGATAAATTAAAATA
66 GTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTAAAAAATGCGATAAATTAAAATA
87679520 TCTCTTCCCACTGTCTGCTACTAATACCCTTG
131 TCTCTTCCCACTGTCTGCTACTAATACCCTTG
* * *** *
87679552 GGCAATTGCATACTTTGAAAATAAAGAGTTGCT-TGCAATTGGAAGATGGAATCTAAGACCTACA
1 GACAATTGCATACTTTGAAGATAAAGAGTTGCTCT-CAATTGGAAGACATAATCCAAGACCTACA
* * *
87679616 AGTGCCATACATATGTCTACTCCAAAGTCTAGGGGAAGTA
65 AGTGCCATACATAAG-C--CTCCAAAGTTTAAGGGAAGTA
87679656 TGTGTATCTC
Statistics
Matches: 225, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
161 1 0.00
162 143 0.64
163 1 0.00
164 61 0.27
165 19 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (162 bp):
GACAATTGCATACTTTGAAGATAAAGAGTTGCTCTCAATTGGAAGACATAATCCAAGACCTACAA
GTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTAAAAAATGCGATAAATTAAAATA
TCTCTTCCCACTGTCTGCTACTAATACCCTTG
Found at i:87681045 original size:148 final size:148
Alignment explanation
Indices: 87680776--87681062 Score: 459
Period size: 148 Copynumber: 1.9 Consensus size: 148
87680766 TGCGCTCAAT
*
87680776 TTACAAACGCTAAAGATAGAGAGGTGCTTTGGATTGGAAGAAATAATCCAAGACATTCAAATATC
1 TTACAAACGCTAAAGATAGAGAGGTGCTTTGGATTGAAAGAAATAATCCAAGACATTCAAATATC
* * *
87680841 AATCATAAACTTTCAATGCTTAAGGGAAGTACAAGTTACAGAATGCAATAATTTGAAATATCTCT
66 AAACATAAACTTTCAATGCCTAAGGGAAGTACAAGTTACAGAATGCAATAACTTGAAATATCTCT
87680906 TCCCAATGTCTTTGGCAA
131 TCCCAATGTCTTTGGCAA
* * * *
87680924 TTACAAACTCTGAAGATAGAGAGGTGCTTTGGATTGAAAGAAATAATCCAAGA-GTCTCAAGTAT
1 TTACAAACGCTAAAGATAGAGAGGTGCTTTGGATTGAAAGAAATAATCCAAGACAT-TCAAATAT
* **
87680988 CAAACATAAGCTTTCAATGCCTAAGGGAAGTACAAGTTACAGGCTGCAATAACTTGAAATATCTC
65 CAAACATAAACTTTCAATGCCTAAGGGAAGTACAAGTTACAGAATGCAATAACTTGAAATATCTC
87681053 TTCCCAATGT
130 TTCCCAATGT
87681063 GTGTTGTTAA
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
147 1 0.01
148 126 0.99
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (148 bp):
TTACAAACGCTAAAGATAGAGAGGTGCTTTGGATTGAAAGAAATAATCCAAGACATTCAAATATC
AAACATAAACTTTCAATGCCTAAGGGAAGTACAAGTTACAGAATGCAATAACTTGAAATATCTCT
TCCCAATGTCTTTGGCAA
Found at i:87683012 original size:17 final size:17
Alignment explanation
Indices: 87682983--87683024 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
87682973 TTTAATCTTT
*
87682983 TAAAATT-TATAAA-AA
1 TAAAATTATTTAAATAA
87682998 TATAAATTATTTAAATAA
1 TA-AAATTATTTAAATAA
87683016 TAAAATTAT
1 TAAAATTAT
87683025 ATTTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 12 0.52
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTATTTAAATAA
Found at i:87683050 original size:81 final size:81
Alignment explanation
Indices: 87682899--87683067 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 81
87682889 TATTTAGTTG
* * * **
87682899 TTTTAAAATTTTTAAAATTTTAAATTAATAAAATAAAAATATATTTTATTATTTTTAAAATAATT
1 TTTTAAAATTTATAAAAATATAAATTAATAAAATAAAAATATATTTTATTATTCATAAAATAATT
*
87682964 AAATTTTAA-TTTAATC
66 AAA-TTTAATTTTAACC
* * *
87682980 TTTTAAAATTTATAAAAATATAAATTATTTAAATAATAAAATTATATTTTATTA-TCATAAAATT
1 TTTTAAAATTTATAAAAATATAAATTA-AT-AA-AATAAAAATATATTTTATTATTCATAAAATA
87683044 A-T-AATTTAATTTTAACC
63 ATTAAATTTAATTTTAACC
87683061 TTTTAAA
1 TTTTAAA
87683068 CAATTTTCTG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
80 5 0.07
81 39 0.52
82 2 0.03
83 10 0.13
84 19 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (81 bp):
TTTTAAAATTTATAAAAATATAAATTAATAAAATAAAAATATATTTTATTATTCATAAAATAATT
AAATTTAATTTTAACC
Found at i:87683443 original size:24 final size:24
Alignment explanation
Indices: 87683396--87683445 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
87683386 ATATTCACGA
* * * *
87683396 ATAAACTTGTTTATTGACTTGTTT
1 ATAAACTCGTTTATTCAATCGTTT
87683420 ATAAACTCGTTTATTCAATCGTTT
1 ATAAACTCGTTTATTCAATCGTTT
87683444 AT
1 AT
87683446 TTATTAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (24 bp):
ATAAACTCGTTTATTCAATCGTTT
Found at i:87690487 original size:168 final size:162
Alignment explanation
Indices: 87689944--87690458 Score: 877
Period size: 162 Copynumber: 3.1 Consensus size: 162
87689934 TGCGCCCAAT
* *
87689944 TTGCAAACTCTGAAGATAGAGAGATGCTTTGGAATGGAAGAAATAATTCAAGACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
* *
87690009 AACCATAAGCTTCCAATGCCTAAGGGAATTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
66 AACCATAAGCTTCCAATGCCTAATGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
87690074 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
*
87690106 TTGCAAACTCTGAAGATAGAGAGGTGTTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
* * * *
87690171 AATCACAAGCTTTCAATGCCTAATGGAAGTACAAGTCAAAGAATGCAATAAATTGAAATTTCTCT
66 AACCATAAGCTTCCAATGCCTAATGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
*
87690236 TCCCCATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
87690268 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATT
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAG---T
*
87690333 ATCAACCATAAGCTTCCAATTATGCCTAATGGAAGTACAAGTCACAGAATGCAATAATTTGAAAT
63 ATCAACCATAAGCTTCC-A--ATGCCTAATGGAAGTACAAGTCACAGAATGCAATAAATTGAAAT
87690398 TTCTCTTCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
125 TTCTCTTCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
87690436 TTGCAAACTCTGAAGATAGAGAG
1 TTGCAAACTCTGAAGATAGAGAG
87690459 CTGTTCCCAA
Statistics
Matches: 330, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
162 212 0.64
165 15 0.05
166 1 0.00
168 102 0.31
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (162 bp):
TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
AACCATAAGCTTCCAATGCCTAATGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
Found at i:87690914 original size:2 final size:2
Alignment explanation
Indices: 87690907--87690933 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
87690897 TTCTTTTATT
87690907 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
87690934 TGCAAACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87692612 original size:162 final size:162
Alignment explanation
Indices: 87692340--87693156 Score: 1305
Period size: 162 Copynumber: 5.0 Consensus size: 162
87692330 TCGTTTGTAA
*
87692340 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAATATCAACCATAAGCTTTCAATGC
1 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
*
87692405 CTAAGGGAATTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
66 CTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
*
87692470 TAGTCTTGGGAAATTGCAAACTCTGAAAATAG
131 TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
* *
87692502 AGAGATGCTTTGGAATGGAAAAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
1 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
* * *
87692567 CTAATGGAAGTACAAGTCAAAGAATGCAACAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
66 CTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
87692632 TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
131 TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
* * *
87692664 AGAGGTGCTTTAGAATGGAAGAAATAATCCAAGACTCGCAAGTATCAACCACAAGCTTTCAATGC
1 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
* * *
87692729 CTAAGGGAAGTACAAGTCACAGAATGTAATGATTTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
66 CTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
* *
87692794 TAGTCTTGGGAAATTGCAAACCCTAAAGATAG
131 TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
87692826 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
1 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
* * * *
87692891 CTAAGGGAAGTACAAGTCACAGAATGTAATGATTTGAAATTTCTCTTCCCGATGTGTGTTGCTAA
66 CTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
*
87692956 TAGTCTTGGGAAATTGCAAACCCTGAAGATAG
131 TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
*
87692988 AGAGGTGCTTTGGAATGGAAGAAATAATTCAAGACTCACAAGTATTGTCAACCATAAG-TTTCCA
1 AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTA---TCAACCATAAGCTTT-CA
* * * * * *
87693052 ATGTCTAATGGAAGTACAAGTCAGAGAAAGCAATAAATTAAAATTTCTTTTCCCAATGTGTGTTG
62 ATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTG
* *
87693117 CTAATAGTCTTGGGCAATTGCGAA-TCCTGAAGATAG
127 CTAATAGTCTTGGGAAATTGCAAACT-CTGAAGATAG
87693153 AGAG
1 AGAG
87693157 ATGTTCCAAA
Statistics
Matches: 610, Mismatches: 40, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
162 503 0.82
164 3 0.00
165 104 0.17
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (162 bp):
AGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATCAACCATAAGCTTTCAATGC
CTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCTTCCCAATGTGTGTTGCTAA
TAGTCTTGGGAAATTGCAAACTCTGAAGATAG
Found at i:87695252 original size:21 final size:21
Alignment explanation
Indices: 87695226--87695270 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
87695216 AAAGGAATAT
87695226 GATAGTGATTTTTCAATTGAA
1 GATAGTGATTTTTCAATTGAA
87695247 GATAGTGATTTTTCAATTGAA
1 GATAGTGATTTTTCAATTGAA
87695268 GAT
1 GAT
87695271 TAATCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.42
Consensus pattern (21 bp):
GATAGTGATTTTTCAATTGAA
Found at i:87703385 original size:23 final size:24
Alignment explanation
Indices: 87703336--87703396 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
87703326 ATATTTACAT
* *
87703336 ATTATGTATCTAT-TTCTTATATT
1 ATTATGTATATATATTCTTATATG
*
87703359 ATTATGTATATATATTCTTGTA-G
1 ATTATGTATATATATTCTTATATG
* *
87703382 ATTACGTATGTATAT
1 ATTATGTATATATAT
87703397 ATACTTCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTATGTATATATATTCTTATATG
Found at i:87703701 original size:24 final size:23
Alignment explanation
Indices: 87703658--87703704 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
87703648 ACTATCTTAA
*
87703658 GTATATATTTTCAACGCTATTAT
1 GTATATATTTTCAACCCTATTAT
*
87703681 GTATATACTTTTCATCCCTATTAT
1 GTATATA-TTTTCAACCCTATTAT
87703705 TATGTACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (23 bp):
GTATATATTTTCAACCCTATTAT
Found at i:87703730 original size:2 final size:2
Alignment explanation
Indices: 87703723--87703754 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
87703713 CATTTTAAGT
87703723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87703755 GCATTATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87707522 original size:3 final size:3
Alignment explanation
Indices: 87707516--87707583 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
87707506 ATGTTGTTCT
87707516 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87707564 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
87707584 TCCCTTTCTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87708259 original size:61 final size:63
Alignment explanation
Indices: 87708185--87708303 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 63
87708175 CAATCTCTCT
** * * *
87708185 CAATTATGAATTTGAGTAAATTAGTC-TCTTTAGAAA-AAATTGGAGTAATTTAATCCCTTTA
1 CAATTATGAATTTGAACAAATTAGTCATCTCTAAAAAGAAATTGGAGCAATTTAATCCCTTTA
*
87708246 CAATTTTGAATTTGAACAAATTAGTCTATCTCTAAAAAGAAATTGGAGCAATTTAATC
1 CAATTATGAATTTGAACAAATTAGTC-ATCTCTAAAAAGAAATTGGAGCAATTTAATC
87708304 ATTGTCAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
61 23 0.47
63 8 0.16
64 18 0.37
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (63 bp):
CAATTATGAATTTGAACAAATTAGTCATCTCTAAAAAGAAATTGGAGCAATTTAATCCCTTTA
Found at i:87713197 original size:133 final size:133
Alignment explanation
Indices: 87712959--87713214 Score: 469
Period size: 133 Copynumber: 1.9 Consensus size: 133
87712949 TATCTTTCCA
* * *
87712959 GTTGCTAATAGCCTTGAGCAATTGCATACTTTGAAGATAAAGAGTTGTCGGAGTTTGGAAGGCAT
1 GTTGCTAATAGCCTTGAGCAATTGCATACTTTGAAGATAAAGAGTTGCCGGAGCTTGAAAGGCAT
87713024 AATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTTCCCACTG
66 AATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTTCCCACTG
87713089 TCT
131 TCT
87713092 GTTGCTAATAGCCTTG-GACAATTGCATACTTTGAAGATAAAGAGTTGCCGGAGCTTGAAAGGCA
1 GTTGCTAATAGCCTTGAG-CAATTGCATACTTTGAAGATAAAGAGTTGCCGGAGCTTGAAAGGCA
87713156 TAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTT
65 TAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTT
87713215 AAAAAATGCG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
132 1 0.01
133 118 0.99
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (133 bp):
GTTGCTAATAGCCTTGAGCAATTGCATACTTTGAAGATAAAGAGTTGCCGGAGCTTGAAAGGCAT
AATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAGAAGTTCCCACTG
TCT
Found at i:87713347 original size:162 final size:162
Alignment explanation
Indices: 87713080--87713668 Score: 930
Period size: 162 Copynumber: 3.6 Consensus size: 162
87713070 GAAATAGAAG
* *
87713080 TTCCCACTGTCTGTTGCTAATAGCCTTGGACAATTGCATACTTTGAAGATAAAGAGTTGCCGGAG
1 TTCCCACTGTCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
*
87713145 CTTGAAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
66 CTTGGAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
* *
87713210 AAGTTAAAAAATGCGATAATTTAAAGTATCTC
131 AAGTTGAAAAATGCAATAATTTAAAGTATCTC
*
87713242 TTCCCACTGTCTGTTGCTAATAGCCTTAGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
1 TTCCCACTGTCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
*
87713307 CTTGGAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGAGAAATAG
66 CTTGGAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
* * *
87713372 AATTTGAAAAATCCAGTAATTTAAAGTATCTC
131 AAGTTGAAAAATGCAATAATTTAAAGTATCTC
*
87713404 TTCCCACTATCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
1 TTCCCACTGTCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
* **
87713469 CTTGGAAGGCATAATTCAAGGGTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
66 CTTGGAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
*
87713534 AAGTTGAAAAATGCAATAATTTAAAGTATCTT
131 AAGTTGAAAAATGCAATAATTTAAAGTATCTC
* * * * *
87713566 TTCCCACTGTCAGCTGCTAATAGCCTTGGGCAATTACATACTTTGAAGATGAAGAGTTGCTCGCA
1 TTCCCACTGTCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCT-GGA
* ** *
87713631 -ATTGGAAGATATAATCCAAGA-TCCACAAGTGGCATACA
65 GCTTGGAAGGCATAATCCAAGACT-CACAAGTGCCATACA
87713669 AATGTCTACT
Statistics
Matches: 393, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
161 1 0.00
162 390 0.99
163 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (162 bp):
TTCCCACTGTCTGTTGCTAATAGCCTTGGGCAATTGCATACTTTGAAGATAAAGAGTTGCTGGAG
CTTGGAAGGCATAATCCAAGACTCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAATAG
AAGTTGAAAAATGCAATAATTTAAAGTATCTC
Found at i:87715610 original size:43 final size:43
Alignment explanation
Indices: 87715549--87715634 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
87715539 GAAACTACAT
87715549 TTCCAATTGGTCATGATATAGATTGGTATAAAAATTTCAATTG
1 TTCCAATTGGTCATGATATAGATTGGTATAAAAATTTCAATTG
87715592 TTCCAATTGGTCATGATATAGATTGGTATAAAAATTTCAATTG
1 TTCCAATTGGTCATGATATAGATTGGTATAAAAATTTCAATTG
87715635 AATGCCATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (43 bp):
TTCCAATTGGTCATGATATAGATTGGTATAAAAATTTCAATTG
Found at i:87717464 original size:29 final size:29
Alignment explanation
Indices: 87717405--87717473 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
87717395 TTAATCAATG
* *
87717405 TTTA-AAATTTTTATCTATTTTTATTTAAT
1 TTTATAAATTTTTATATATTTTTA-TGAAT
*
87717434 TTTTTAAATTTTCTATATATTTTTA-GAAT
1 TTTATAAATTTT-TATATATTTTTATGAAT
87717463 TTTATAAATTT
1 TTTATAAATTT
87717474 AAAAAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 16 0.47
30 7 0.21
31 11 0.32
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTATAAATTTTTATATATTTTTATGAAT
Found at i:87718280 original size:22 final size:21
Alignment explanation
Indices: 87718226--87718289 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
87718216 AAAGGGTATC
*
87718226 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
87718247 TACAAAACCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
87718270 TACATATCATATC-C-AAGAT
1 TACAAATCATATCTCTAAGAT
87718289 T
1 T
87718290 GCATATTCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 6 0.16
20 1 0.03
21 3 0.08
22 16 0.43
23 11 0.30
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:87718490 original size:2 final size:2
Alignment explanation
Indices: 87718483--87718519 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
87718473 AGCTACACCC
87718483 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87718520 TACTCTACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87730049 original size:26 final size:26
Alignment explanation
Indices: 87730012--87730095 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
87730002 TGATACAAAT
* *
87730012 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87730038 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87730064 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87730090 TGATAA
1 TGATAA
87730096 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:87732910 original size:4 final size:5
Alignment explanation
Indices: 87732884--87732941 Score: 70
Period size: 5 Copynumber: 12.0 Consensus size: 5
87732874 AGGCAACCCA
87732884 ATTTT ATTTT ATTTT ATTTT A-TTT A-TTT ATTTT ACTATTT A--TT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT ATTTT ATTTT
87732932 ATTTT ATTTT
1 ATTTT ATTTT
87732942 TTTGGATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.06
4 8 0.17
5 32 0.67
6 1 0.02
7 4 0.08
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:87733152 original size:12 final size:12
Alignment explanation
Indices: 87733135--87733159 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87733125 CAATTATTTC
87733135 TGCCGTTAAACA
1 TGCCGTTAAACA
87733147 TGCCGTTAAACA
1 TGCCGTTAAACA
87733159 T
1 T
87733160 ACTATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TGCCGTTAAACA
Found at i:87735053 original size:46 final size:46
Alignment explanation
Indices: 87734998--87735165 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
87734988 TATTTGGGCA
87734998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87735044 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
87735089 CATCCTAGCTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87735137 CCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
87735166 GTTTATGGGC
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.55
47 25 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87735191 original size:93 final size:93
Alignment explanation
Indices: 87734994--87735167 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
87734984 AGGATATTTG
* * * **
87734994 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCTAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
87735059 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
87735087 GGCATCCTAGCTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCTAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
87735152 TTGAGTCTGAGTTCGT
66 TTGAGTCCGAGTTCGT
87735168 TTATGGGCGG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCTAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:87736635 original size:4 final size:4
Alignment explanation
Indices: 87736622--87736675 Score: 56
Period size: 4 Copynumber: 13.2 Consensus size: 4
87736612 ACATACATGC
* * *
87736622 ATAA AGAA ATAA ATAA ATAA ATAA ATAA AGAA A-AA ATATA TGTAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA
87736671 ATAA A
1 ATAA A
87736676 ATTTGGGACT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 2 0.05
6 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:87736643 original size:12 final size:12
Alignment explanation
Indices: 87736622--87736675 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
87736612 ACATACATGC
87736622 ATAAAGAAATAA
1 ATAAAGAAATAA
*
87736634 ATAAATAAATAA
1 ATAAAGAAATAA
87736646 ATAAAGAAA-AA
1 ATAAAGAAATAA
*
87736657 ATATATGTAAATAA
1 ATA-AAG-AAATAA
87736671 ATAAA
1 ATAAA
87736676 ATTTGGGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.14
12 21 0.60
13 4 0.11
14 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (12 bp):
ATAAAGAAATAA
Found at i:87737249 original size:15 final size:15
Alignment explanation
Indices: 87737229--87737258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87737219 CATTTTATTT
*
87737229 ATATTAGGATAATTA
1 ATATTAAGATAATTA
87737244 ATATTAAGATAATTA
1 ATATTAAGATAATTA
87737259 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:87737286 original size:27 final size:26
Alignment explanation
Indices: 87737225--87737287 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
87737215 ACTCCATTTT
87737225 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
87737252 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
87737280 ATTTTATT
1 ATTTTATT
87737288 TTAATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:87740597 original size:14 final size:14
Alignment explanation
Indices: 87740563--87740601 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
87740553 CTGAATTGGT
*
87740563 ACATCTGCATACAT
1 ACATCTGCATACAC
*
87740577 ACGTCTGCATACAC
1 ACATCTGCATACAC
*
87740591 GCATCTGCATA
1 ACATCTGCATA
87740602 TAAAGCTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (14 bp):
ACATCTGCATACAC
Found at i:87743109 original size:13 final size:14
Alignment explanation
Indices: 87743091--87743119 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87743081 ACTTTTGCTC
87743091 AAAAAAAAAA-CAA
1 AAAAAAAAAACCAA
87743104 AAAAAAAAAACCAA
1 AAAAAAAAAACCAA
87743118 AA
1 AA
87743120 CCTTCAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACCAA
Found at i:87743895 original size:19 final size:18
Alignment explanation
Indices: 87743837--87743897 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
87743827 TATTTTTTAT
*
87743837 ATTTTTAAAAAATTTTAA
1 ATTTTTAAAAAATTTTGA
* *
87743855 ACTTATTAAAAAA-TTGGA
1 A-TTTTTAAAAAATTTTGA
87743873 ATTTTTAAAAATATTTTGA
1 ATTTTTAAAAA-ATTTTGA
87743892 ATTTTT
1 ATTTTT
87743898 GAAATTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.26
18 6 0.17
19 20 0.57
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTTAAAAAATTTTGA
Found at i:87749490 original size:162 final size:162
Alignment explanation
Indices: 87749214--87749560 Score: 577
Period size: 162 Copynumber: 2.1 Consensus size: 162
87749204 TGTGCCCAAT
* * * * *
87749214 TTGCAAACTCTAAAGATAGAGTGTTGCTTTGGAATGGAAGAAATAATTCAAGACTCACAAGTATT
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
*
87749279 AACCATAAGCTTCCAATGCCTAAGGGAATTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
66 AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
*
87749344 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTCGGAAA
* *
87749376 TTGCAAACTCTGAAGGTAGAGAGGTGCTTTGGAATGGATGAAATAATCCAAGACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
* * *
87749441 AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACACACTGCAATAATTTGAAATTTCTCT
66 AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
*
87749506 TCCCAATGTGTGTTGCTAATAGTCTTCGGCAA
131 TCCCAATGTGTGTTGCTAATAGTCTTCGGAAA
87749538 TTGCAAACTCTGAAGATAGAGAG
1 TTGCAAACTCTGAAGATAGAGAG
87749561 CTGTTCCCAA
Statistics
Matches: 171, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 171 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (162 bp):
TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
TCCCAATGTGTGTTGCTAATAGTCTTCGGAAA
Found at i:87751739 original size:24 final size:23
Alignment explanation
Indices: 87751670--87751740 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
87751660 TAATTCTAAT
*
87751670 ATTACAGAAGATAAATTTAAAAAC
1 ATTACAGAAG-TAAATATAAAAAC
* * *
87751694 ATCA-ATAATGTTAATATGAAAAAC
1 ATTACAGAA-GTAAATAT-AAAAAC
87751718 ATTACAGAACGTAAATATAAAAA
1 ATTACAGAA-GTAAATATAAAAA
87751741 TTTTGTTTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
23 8 0.22
24 18 0.50
25 10 0.28
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.25
Consensus pattern (23 bp):
ATTACAGAAGTAAATATAAAAAC
Found at i:87751902 original size:30 final size:30
Alignment explanation
Indices: 87751867--87751928 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
87751857 TAATAATAAT
87751867 AAAATTACACTTTAATTC-TCAAAAATGATA
1 AAAATTACA-TTTAATTCTTCAAAAATGATA
** * *
87751897 AAAATTTGATTTAATTCTTTAAAAATTATA
1 AAAATTACATTTAATTCTTCAAAAATGATA
87751927 AA
1 AA
87751929 GATATAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTAATTCTTCAAAAATGATA
Found at i:87753032 original size:2 final size:2
Alignment explanation
Indices: 87753025--87753054 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87753015 GAAAATTGTG
87753025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87753055 TACTCGTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87753397 original size:30 final size:30
Alignment explanation
Indices: 87753326--87753397 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
87753316 ATATTGAAAC
*
87753326 AATAAAATAAAATTATTATTGTTTAAAAAT
1 AATAAAATAATATTATTATTGTTTAAAAAT
* *
87753356 AATATATTAATATTATTACTT-TTTAAAAAT
1 AATAAAATAATATTATTA-TTGTTTAAAAAT
87753386 AATAAAATAATA
1 AATAAAATAATA
87753398 AAAATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
AATAAAATAATATTATTATTGTTTAAAAAT
Found at i:87753870 original size:2 final size:2
Alignment explanation
Indices: 87753863--87753895 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
87753853 CATGTTAGTT
87753863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87753896 TGAATATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87756806 original size:131 final size:131
Alignment explanation
Indices: 87756666--87756906 Score: 365
Period size: 131 Copynumber: 1.8 Consensus size: 131
87756656 ACGAAATTTT
* *
87756666 GAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACATTAGGGCACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCC
* * * *
87756731 GCAAATTGCCAAATATCGGATCTCATCTTCGTTTTGAAGAATTTTAAGAGACATGAGTGAAAATT
66 GCAAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTTAAGAGACATGAGTGAAAATT
87756796 C
131 C
* * * *
87756797 GAAGTGATATTCGATTATTTCGAGTAAACGCGGAATTGCAACCCAACACGTTAGGGCACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCC
* * *
87756862 GCGAATTGCCAAACATCGAATCCCGTCTTTGATTTGAAGAATTTT
66 GCAAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTT
87756907 TGAATGAATG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 97 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (131 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCC
GCAAATTGCCAAACATCGAATCCCATCTTCGATTTGAAGAATTTTAAGAGACATGAGTGAAAATT
C
Found at i:87757800 original size:2 final size:2
Alignment explanation
Indices: 87757795--87757823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87757785 ATCTAAGGTT
87757795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87757824 GCACGCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87759567 original size:3 final size:3
Alignment explanation
Indices: 87759522--87759687 Score: 57
Period size: 3 Copynumber: 54.3 Consensus size: 3
87759512 TATATCTTTA
* *
87759522 TAT TAT ATAT TA- TAT AAT TAT T-T TAT CAT ATAT TAT T-T ATAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT
* * * *
87759567 TATT TAT TAT GTAT TAT TTT TCACA AAT TAT TAT TAT T-T TA- CAT TAT
1 TA-T TAT TAT -TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
87759614 TAT T-T GTA- TAT TAT TAT TA- TAT TTT TACT T-G TAT TAT GTAT TATT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TA-T
87759659 TAT T-T TAT T-T ATAT GTAT TAT ATAT TAT T
1 TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT T
87759688 TTTACATATA
Statistics
Matches: 122, Mismatches: 17, Indels: 48
0.65 0.09 0.26
Matches are distributed among these distances:
2 17 0.14
3 77 0.63
4 28 0.23
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87759567 original size:91 final size:90
Alignment explanation
Indices: 87759473--87759762 Score: 244
Period size: 88 Copynumber: 3.1 Consensus size: 90
87759463 TATCATTACT
87759473 TATTATTTATTATAGTATAT-TTTTATCACATAATGTTTATATATCTTTATATTATATATTATAT
1 TATTATTTATTATAGTATATATTTTATCACATAAT-TTTATATATCTTTATATTATATATTATAT
87759537 AATTATTTTATCATATATTATTTATAT-
65 AATTATTTTAT-AT-TATTATTTATATG
* *
87759564 TATTATTTATTAT-GTAT-TATTTT-TCACA-AATTATTAT-TAT-TTTACATTAT-TATT-TGT
1 TATTATTTATTATAGTATATATTTTATCACATAATT-TTATATATCTTTATATTATATATTATAT
*
87759621 ATATTATTATTATATTTTTACTTGTATTATG
65 A-ATTATT-TTATATTATTA-TT-TA-TATG
* * * *
87759652 TATTATTTATTTTA-TTTATATGTATTAT-ATATTATTTTTACATATATACTTTCATATTATATA
1 TATTATTTATTATAGTATATAT-T-TTATCACA-TAATTTT--ATATAT-CTTT-ATATTATATA
*
87759715 TATATTATAATTATTTTATATTATTATGTCATATG
59 T-TA-TATAATTATTTTATATTATTAT-TTATATG
*
87759750 TATTATATATTAT
1 TATTATTTATTAT
87759763 TTTTACATAT
Statistics
Matches: 160, Mismatches: 13, Indels: 45
0.73 0.06 0.21
Matches are distributed among these distances:
84 7 0.04
85 14 0.09
86 15 0.09
87 7 0.04
88 21 0.13
89 9 0.06
90 9 0.06
91 17 0.11
92 3 0.02
93 3 0.02
94 2 0.01
95 3 0.02
97 3 0.02
98 21 0.13
99 5 0.03
100 12 0.08
101 6 0.04
102 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (90 bp):
TATTATTTATTATAGTATATATTTTATCACATAATTTTATATATCTTTATATTATATATTATATA
ATTATTTTATATTATTATTTATATG
Found at i:87759575 original size:49 final size:49
Alignment explanation
Indices: 87759461--87759583 Score: 119
Period size: 49 Copynumber: 2.5 Consensus size: 49
87759451 TTAATTAACA
* * * *
87759461 TATATCATTACTTATTATTTATTATAGTATATTTTTATCACATAATGTT
1 TATATTATTATTTATTATATATTATAGTATATTTTTATCACATAATATT
* *
87759510 TATA-TATCT-TTATATTATATATTATA-TA-ATTATTTTATCATATATTATT
1 TATATTAT-TATT-TATTATATATTATAGTATA-T-TTTTATCACATAATATT
*
87759559 TATATTATTATTTATTATGTATTAT
1 TATATTATTATTTATTATATATTAT
87759584 TTTTCACAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
47 1 0.02
48 6 0.10
49 49 0.80
50 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (49 bp):
TATATTATTATTTATTATATATTATAGTATATTTTTATCACATAATATT
Found at i:87759628 original size:14 final size:13
Alignment explanation
Indices: 87759518--87759755 Score: 80
Period size: 13 Copynumber: 17.0 Consensus size: 13
87759508 TTTATATATC
87759518 TTTATATTA-TAT
1 TTTATATTATTAT
* *
87759530 ATTATATAATTAT
1 TTTATATTATTAT
87759543 TTTATCATATATTA-
1 TTTAT-AT-TATTAT
87759557 TTTATATTATTA-
1 TTTATATTATTAT
87759569 TTTATTATGTATTATT
1 TTTA-TAT-TATTA-T
87759585 TTTCACAAATTATTATTAT
1 TTT-----A-TATTATTAT
*
87759604 TTTACATTATTAT
1 TTTATATTATTAT
87759617 TTGTATATTATTA-
1 TT-TATATTATTAT
*
87759630 -TTATATTTTTACT
1 TTTATATTATTA-T
*
87759643 TGTATTATGTATTA-
1 TTTA-TAT-TATTAT
*
87759657 TTTATTTTATTTAT
1 TTTATATTA-TTAT
*
87759671 ATGTATTATATATTAT
1 -TTTA-TAT-TATTAT
*
87759687 TTT-TACATATATACT
1 TTTATA-TTAT-TA-T
*
87759702 TTCATATTATATAT
1 TTTATATTAT-TAT
87759716 ATATTATA--ATTAT
1 -T-TTATATTATTAT
87759729 TTTATATTATTAT
1 TTTATATTATTAT
* *
87759742 GTCATATGTATTAT
1 TTTATAT-TATTAT
87759756 ATATTATTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 62
0.68 0.08 0.24
Matches are distributed among these distances:
11 14 0.08
12 20 0.11
13 45 0.26
14 38 0.22
15 22 0.13
16 19 0.11
17 2 0.01
19 4 0.02
20 5 0.03
21 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (13 bp):
TTTATATTATTAT
Found at i:87759664 original size:25 final size:23
Alignment explanation
Indices: 87759617--87759684 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 23
87759607 ACATTATTAT
87759617 TTGTATAT-TATTATTATATTTTTA
1 TTGTATATGTATTATT-TA-TTTTA
87759641 CTTGTATTATGTATTATTTATTTTA
1 -TTGTA-TATGTATTATTTATTTTA
*
87759666 TT-TATATGTATTATATATT
1 TTGTATATGTATTATTTATT
87759685 ATTTTTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 14 0.35
23 2 0.05
24 2 0.05
25 10 0.25
26 5 0.12
27 7 0.17
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (23 bp):
TTGTATATGTATTATTTATTTTA
Found at i:87759667 original size:19 final size:18
Alignment explanation
Indices: 87759518--87759667 Score: 61
Period size: 19 Copynumber: 7.6 Consensus size: 18
87759508 TTTATATATC
*
87759518 TTTATATTATATATTATATA
1 TTTATTTTAT-TATTAT-TA
* *
87759538 ATTATTTTATCATATATTA
1 TTTATTTTATTAT-TATTA
*
87759557 TTTATATTATTATTTATTA
1 TTTATTTTATTA-TTATTA
**
87759576 TGTATTATTTTTCACAAATTATTA
1 --T-TTA-TTTT-A-TTATTATTA
87759600 -TTATTTTACATTATTATT-
1 TTTATTTT--ATTATTATTA
* * *
87759618 TGTATATTATTATTATATT
1 TTTATTTTATTATTAT-TA
*
87759637 TTTACTTGTATTATGTATTA
1 TTTA-TTTTATTAT-TATTA
87759657 TTTATTTTATT
1 TTTATTTTATT
87759668 TATATGTATT
Statistics
Matches: 98, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
17 8 0.08
18 1 0.01
19 42 0.43
20 29 0.30
21 4 0.04
22 3 0.03
23 3 0.03
24 7 0.07
25 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTATTTTATTATTATTA
Found at i:87759691 original size:22 final size:23
Alignment explanation
Indices: 87759550--87759691 Score: 82
Period size: 24 Copynumber: 6.1 Consensus size: 23
87759540 TATTTTATCA
87759550 TATAT-TATT-TATATTATTATT
1 TATATGTATTATATATTATTATT
* ** *
87759571 TATTATGTATTAT-TTTTCACAAAT
1 TA-TATGTATTATATATT-ATTATT
* *
87759595 TATTAT-TATTTTACATTATTATTT
1 TA-TATGTATTATATATTATTA-TT
*
87759619 GTATAT-TATTATTATATTTTTACTT
1 -TATATGTATTA-TATATTATTA-TT
*
87759644 GTATTATGTATTATTTATT-TTATT
1 -TA-TATGTATTATATATTATTATT
87759668 TATATGTATTATATATTATT-TT
1 TATATGTATTATATATTATTATT
87759690 TA
1 TA
87759692 CATATATACT
Statistics
Matches: 94, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.02
22 21 0.22
23 18 0.19
24 22 0.23
25 18 0.19
26 8 0.09
27 5 0.05
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (23 bp):
TATATGTATTATATATTATTATT
Found at i:87759784 original size:27 final size:25
Alignment explanation
Indices: 87759726--87759784 Score: 52
Period size: 24 Copynumber: 2.4 Consensus size: 25
87759716 ATATTATAAT
* *
87759726 TATTT-TATATTATTATGT-CATATG
1 TATTTATATATTATT-TTTACATATA
87759750 TA-TTATATATTATTTTTACATATA
1 TATTTATATATTATTTTTACATATA
87759774 TACTTTCATAT
1 TA-TTT-ATAT
87759785 TATATATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
26 2 0.07
27 4 0.14
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (25 bp):
TATTTATATATTATTTTTACATATA
Found at i:87760161 original size:26 final size:26
Alignment explanation
Indices: 87760124--87760259 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
87760114 TGATACAAAT
* *
87760124 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87760150 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
87760176 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87760202 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
87760228 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87760254 TGATAA
1 TGATAA
87760260 GAATATCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:87762105 original size:19 final size:19
Alignment explanation
Indices: 87762069--87762150 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 19
87762059 TTATATGTTA
**
87762069 ATTTAAAAATTATAAAAAT
1 ATTTAAAAAAAATAAAAAT
*
87762088 ATTTAAAAAAAAT-TAAA-
1 ATTTAAAAAAAATAAAAAT
*
87762105 ATTTAAAAATAA-AAAAAT
1 ATTTAAAAAAAATAAAAAT
***
87762123 AAAAAATAAAAAATAAAAA-
1 ATTTAA-AAAAAATAAAAAT
*
87762142 ACTTAAAAA
1 ATTTAAAAA
87762151 TTTAATATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
17 14 0.30
18 9 0.19
19 19 0.40
20 5 0.11
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTTAAAAAAAATAAAAAT
Found at i:87762110 original size:7 final size:7
Alignment explanation
Indices: 87762095--87762152 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
87762085 AATATTTAAA
87762095 AAAAATT
1 AAAAATT
*
87762102 AAAATTT
1 AAAAATT
*
87762109 AAAAATAA
1 AAAAAT-T
*
87762117 AAAAATA
1 AAAAATT
*
87762124 AAAAATA
1 AAAAATT
*
87762131 AAAAATA
1 AAAAATT
87762138 AAAAACTT
1 AAAAA-TT
87762146 AAAAATT
1 AAAAATT
87762153 TAATATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 33 0.73
8 12 0.27
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:87762118 original size:22 final size:22
Alignment explanation
Indices: 87762093--87762155 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
87762083 AAAATATTTA
87762093 AAAAAAATTAAAATTTAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
* * *
87762115 AAAAAAATAAAAAATAAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
*
87762137 AAAAAACTTAAAAATTTAA
1 AAAAAAATT-AAAATTTAA
87762156 TATTTAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAATTAAAATTTAAAAAT
Found at i:87762119 original size:6 final size:7
Alignment explanation
Indices: 87762094--87762142 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
87762084 AAATATTTAA
87762094 AAAAAAT
1 AAAAAAT
* *
87762101 TAAAATT
1 AAAAAAT
*
87762108 TAAAAAT
1 AAAAAAT
87762115 AAAAAAAT
1 -AAAAAAT
87762123 AAAAAAT
1 AAAAAAT
87762130 AAAAAAT
1 AAAAAAT
87762137 AAAAAA
1 AAAAAA
87762143 CTTAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:87762269 original size:17 final size:16
Alignment explanation
Indices: 87762247--87762283 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
87762237 TTTTGAAAGA
87762247 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAAT-TT
87762264 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
87762280 AAAA
1 AAAA
87762284 TTGAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:87766899 original size:19 final size:21
Alignment explanation
Indices: 87766871--87766918 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
87766861 TTATTATTTA
87766871 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
87766891 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
87766911 TTTTAGTT
1 TTTTAGTT
87766919 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:87767114 original size:43 final size:43
Alignment explanation
Indices: 87767067--87767160 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
87767057 TTGTGAGAAA
*
87767067 GCGTTTTTGGGAAAAGCGTCGCTAAAGGTCT-TGACCTTTAGCG
1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGT-TATGACCTTTAGCG
*
87767110 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
*
87767153 GTGTTTTT
1 GCGTTTTT
87767161 TTAAATAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (43 bp):
GCGTTTTTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
Found at i:87770025 original size:45 final size:45
Alignment explanation
Indices: 87769976--87770652 Score: 407
Period size: 45 Copynumber: 15.8 Consensus size: 45
87769966 CAAGATAGTG
* *
87769976 GATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * * * *
87770021 GATCTTATTTCTCTGTATTTGACAGGGAGCAGATCGAAGACAT-AGCA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAG--ATGA-CA
* *
87770068 GATCTGA---C-CT-TCAT---C-GGG-GTAGATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * * **
87770103 GATCTTATCTCTCTGTAATAGGCTGGAAGTAGATCTGAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* *
87770148 GATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACAT-AGCA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAG--ATGA-CA
* * *
87770195 GATCTGA---C-CT-TCATCGA----G-GCAGATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * * * *
87770230 GATATTATCTCTCTGTATTCGACGAGGAGCAAATCGAAGACAT-AGCA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAG--ATGA-CA
* * * *
87770277 GATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGATA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * *
87770312 GATCTTATCTCTCCGTAATGGATGGGGAGTAGATCAAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * *
87770357 TATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* *
87770402 GATCTTATCTCTCTGTAATGGACGGGGAGTAGATCAAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * **
87770447 AATCTTATCTCTCAGTAATGGATAGGGAGTAGATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* * * * * * *
87770492 GATCTTATCTTTCTGTATTTGATGCGGAGCAGATCGAAGACAT-AGCA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAG--ATGA-CA
* * *
87770539 GATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGACA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* *
87770574 GATCTTATCTCTCTGTAATAGACGGGGAGTAGATCCAAGATGATA
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
* *
87770619 GATCTTATCTCTCTGTATTCGACGGGGAGCAGAT
1 GATCTTATCTCTCTGTAATCGACGGGGAGTAGAT
87770653 TGAAGAATTC
Statistics
Matches: 491, Mismatches: 85, Indels: 112
0.71 0.12 0.16
Matches are distributed among these distances:
35 38 0.08
36 4 0.01
37 37 0.08
38 12 0.02
39 9 0.02
40 14 0.03
42 11 0.02
43 10 0.02
44 12 0.02
45 301 0.61
46 4 0.01
47 39 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
GATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGATGACA
Found at i:87770111 original size:127 final size:127
Alignment explanation
Indices: 87769893--87770269 Score: 540
Period size: 127 Copynumber: 3.0 Consensus size: 127
87769883 TGAAGATAGT
* *
87769893 AGATCTTATCTCTCTGTATTCAACGGGGAGTAGATCAAAGACATAGCAGATCTGACCTTCATCGG
1 AGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGG
**
87769958 GGCAGATCCAAGAT-AGTGGATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGATGAC
66 GGCAGATCCAAGATGA-CAGATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGATGAC
* * * *
87770020 AGATCTTATTTCTCTGTATTTGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGG
1 AGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGG
* * * * * * * **
87770085 GGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATAGGCTGGAAGTAGATCTGAGATGAC
66 GGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGATGAC
*
87770147 AGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGA
1 AGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGG
* * * *
87770212 GGCAGATCCAAGATGACAGATATTATCTCTCTGTATTCGACGAGGAGCAAATCGAAGA
66 GGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGA
87770270 CATAGCAGAT
Statistics
Matches: 215, Mismatches: 34, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
127 214 1.00
128 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (127 bp):
AGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGG
GGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAAATCCAAGATGAC
Found at i:87770268 original size:209 final size:209
Alignment explanation
Indices: 87770008--87770396 Score: 602
Period size: 209 Copynumber: 1.9 Consensus size: 209
87769998 CGGGGAGTAA
* * * *
87770008 ATCCAAGATGACAGATCTTATTTCTCTGTATTTGACAGGGAGCAGATCGAAGACATAGCAGATCT
1 ATCCAAGATGACAGATATTATCTCTCTGTATTCGACAGGGAGCAAATCGAAGACATAGCAGATCT
* * *
87770073 GACCTTCATCGGGGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATAGGCT-GGAAGTAGAT
66 GACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCCGTAAT-GGATGGGAAGTAGAT
** * *
87770137 CTGAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGA
130 CAAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGACATAGCAGATCTGA
87770202 CCTTCATCGAGGCAG
195 CCTTCATCGAGGCAG
87770217 ATCCAAGATGACAGATATTATCTCTCTGTATTCGAC-GAGGAGCAAATCGAAGACATAGCAGATC
1 ATCCAAGATGACAGATATTATCTCTCTGTATTCGACAG-GGAGCAAATCGAAGACATAGCAGATC
* *
87770281 TGACCTTCATCGGGGCAGATCCAAGATGATAGATCTTATCTCTCCGTAATGGATGGGGAGTAGAT
65 TGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCCGTAATGGATGGGAAGTAGAT
* * *
87770346 CAAAGATGACATATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGA
130 CAAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGA
87770397 TGACAGATCT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
208 4 0.02
209 158 0.98
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (209 bp):
ATCCAAGATGACAGATATTATCTCTCTGTATTCGACAGGGAGCAAATCGAAGACATAGCAGATCT
GACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCTCCGTAATGGATGGGAAGTAGATC
AAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAGTAGATCCAAGACATAGCAGATCTGAC
CTTCATCGAGGCAG
Found at i:87770270 original size:82 final size:82
Alignment explanation
Indices: 87770140--87770613 Score: 439
Period size: 82 Copynumber: 5.6 Consensus size: 82
87770130 AGTAGATCTG
87770140 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCT
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCT
*
87770205 TCATCGAGGCAGATCCA
66 TCATCGGGGCAGATCCA
* * * *
87770222 AGATGACAGATATTATCTCTCTGTATTCGACGAGGAGCAAATCGAAGACATAGCAGATCTGACCT
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCT
87770287 TCATCGGGGCAGATCCA
66 TCATCGGGGCAGATCCA
* * * * * * * **
87770304 AGATGATAGATCTTATCTCTCCGTAATGGATGGGGAGTAGATCAAAGATGACATATCTTATCT--
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATC---GAAGACATAGCAGATCTGA
* *
87770367 CTCTGTAATGGGCGGGGAGTAGATCCA
63 C-CT-TCAT---C-GGG-GCAGATCCA
* * * * * ** **
87770394 AGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCAAAGATGACAAATCTTATCTCT
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATC---GAAGACATAGCAGATCTGA
* * * *
87770459 CAGTAATGGATAGGGAGTAGATCCA
63 C-CT--T-CATCGGG-GCAGATCCA
* * * * *
87770484 AGATGACAGATCTTATCTTTCTGTATTTGATGCGGAGCAGATCGAAGACATAGCAGATCTGACCT
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCT
87770549 TCATCGGGGCAGATCCA
66 TCATCGGGGCAGATCCA
* * *
87770566 AGATGACAGATCTTATCTCTCTGTAATAGACGGGGAGTAGATCCAAGA
1 AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGA
87770614 TGATAGATCT
Statistics
Matches: 325, Mismatches: 53, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
82 160 0.49
83 6 0.02
84 3 0.01
85 16 0.05
86 1 0.00
87 13 0.04
88 1 0.00
89 3 0.01
90 117 0.36
92 2 0.01
93 1 0.00
94 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (82 bp):
AGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCT
TCATCGGGGCAGATCCA
Found at i:87770452 original size:90 final size:88
Alignment explanation
Indices: 87770086--87770635 Score: 407
Period size: 82 Copynumber: 6.4 Consensus size: 88
87770076 CTTCATCGGG
* * **
87770086 GTAGATCCAAGATGACAGATCTTATCTCTCTGTAATAGGCTGGAAGTAGATCTGAGATGACAGAT
1 GTAGATCAAAGATGACAGATCTTATCTCTCTGTAAT-GGC-GGGAGTAGATCCAAGATGACAGAT
* *
87770151 CTTATCTCTCTGTATTCGACGGGGA
64 CTTATCTCTCTGTAATGGACGGGGA
* * * * *
87770176 GTAGATCGAAGACAT-AGCAGATCTGA---C-CT-TCAT--CGAG-GCAGATCCAAGATGACAGA
1 GTAGATC-AA-AGATGA-CAGATCTTATCTCTCTGTAATGGCGGGAGTAGATCCAAGATGACAGA
* * * *
87770232 TATTATCTCTCTGTATTCGACGAGGA
63 TCTTATCTCTCTGTAATGGACGGGGA
* * * * * * *
87770258 GCAAATCGAAGACAT-AGCAGATCTGA---C-CT-TCAT--CGGG-GCAGATCCAAGATGATAGA
1 GTAGATC-AA-AGATGA-CAGATCTTATCTCTCTGTAATGGCGGGAGTAGATCCAAGATGACAGA
* *
87770314 TCTTATCTCTCCGTAATGGATGGGGA
63 TCTTATCTCTCTGTAATGGACGGGGA
*
87770340 GTAGATCAAAGATGACATATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGAT
1 GTAGATCAAAGATGACAGATCTTATCTCTCTGTAAT-GGC-GGGAGTAGATCCAAGATGACAGAT
87770405 CTTATCTCTCTGTAATGGACGGGGA
64 CTTATCTCTCTGTAATGGACGGGGA
* * *
87770430 GTAGATCAAAGATGACAAATCTTATCTCTCAGTAATGGATAGGGAGTAGATCCAAGATGACAGAT
1 GTAGATCAAAGATGACAGATCTTATCTCTCTGTAATGG--CGGGAGTAGATCCAAGATGACAGAT
* * * * *
87770495 CTTATCTTTCTGTATTTGATGCGGA
64 CTTATCTCTCTGTAATGGACGGGGA
* * * * *
87770520 GCAGATCGAAGACAT-AGCAGATCTGA---C-CT-TCAT--CGGG-GCAGATCCAAGATGACAGA
1 GTAGATC-AA-AGATGA-CAGATCTTATCTCTCTGTAATGGCGGGAGTAGATCCAAGATGACAGA
*
87770576 TCTTATCTCTCTGTAATAGACGGGGA
63 TCTTATCTCTCTGTAATGGACGGGGA
* *
87770602 GTAGATCCAAGATGATAGATCTTATCTCTCTGTA
1 GTAGATCAAAGATGACAGATCTTATCTCTCTGTA
87770636 TTCGACGGGG
Statistics
Matches: 377, Mismatches: 58, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
80 20 0.05
81 5 0.01
82 162 0.43
83 6 0.02
84 5 0.01
85 4 0.01
87 6 0.02
88 4 0.01
89 7 0.02
90 132 0.35
91 5 0.01
92 21 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
GTAGATCAAAGATGACAGATCTTATCTCTCTGTAATGGCGGGAGTAGATCCAAGATGACAGATCT
TATCTCTCTGTAATGGACGGGGA
Found at i:87772365 original size:16 final size:16
Alignment explanation
Indices: 87772337--87772551 Score: 63
Period size: 16 Copynumber: 12.8 Consensus size: 16
87772327 TATATCTTTA
87772337 TATTATATATTATATAAT
1 TATT-TATATTATAT-AT
*
87772355 TATTT-TATTATCTAT
1 TATTTATATTATATAT
87772370 TATTTATATTAT-TAT
1 TATTTATATTATATAT
*
87772385 T-TATTAT-GTAT-TAT
1 TAT-TTATATTATATAT
*
87772399 T-TTTCACAAATTAT-TAT
1 TATTT---ATATTATATAT
* *
87772416 TATTTTACATTATTATTT
1 TA-TTTATATTA-TATAT
*
87772434 GTATATTATTATTATATTTT
1 -TAT-TTA-TATTATA-TAT
* * *
87772454 TACTTGTATTATGTAT
1 TATTTATATTATATAT
87772470 TATTTATATTATTTATAT
1 TATTTATATTA--TATAT
*
87772488 GTATTATATATTAT-TTT
1 -TATT-TATATTATATAT
*
87772505 TACATATATACTT-TCATAT
1 T--ATTTATA-TTAT-ATAT
*
87772524 TATATATATTATA-AT
1 TATTTATATTATATAT
87772539 TATTTTATATTAT
1 TA-TTTATATTAT
87772552 TATGTCATCT
Statistics
Matches: 154, Mismatches: 18, Indels: 52
0.69 0.08 0.23
Matches are distributed among these distances:
13 2 0.01
14 9 0.06
15 19 0.12
16 43 0.28
17 30 0.19
18 18 0.12
19 19 0.12
20 14 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (16 bp):
TATTTATATTATATAT
Found at i:87772373 original size:3 final size:3
Alignment explanation
Indices: 87772337--87772502 Score: 66
Period size: 3 Copynumber: 54.3 Consensus size: 3
87772327 TATATCTTTA
*
87772337 TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT CTAT TAT T-T ATAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT
* * * *
87772382 TATT TAT TAT GTAT TAT TTT TCACA AAT TAT TAT TAT T-T TA- CAT TAT
1 TA-T TAT TAT -TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
87772429 TAT T-T GTA- TAT TAT TAT TA- TAT TTT TACT T-G TAT TAT GTAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TAT
87772473 T-T ATAT TAT T-T ATAT GTAT TAT ATAT TAT T
1 TAT -TAT TAT TAT -TAT -TAT TAT -TAT TAT T
87772503 TTTACATATA
Statistics
Matches: 124, Mismatches: 15, Indels: 48
0.66 0.08 0.26
Matches are distributed among these distances:
2 16 0.13
3 81 0.65
4 27 0.22
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87772430 original size:50 final size:50
Alignment explanation
Indices: 87772361--87772505 Score: 115
Period size: 53 Copynumber: 2.9 Consensus size: 50
87772351 TAATTATTTT
*
87772361 ATTATCTATTATTT--A-TATTATTATTTATTATGTATTATTTTTCAC-AA
1 ATTATGTATTATTTACATTATTATTATTTATTAT-TATTATTTTTCACTAA
* **
87772408 ATTAT-TATTATTTTACATTATTATT-TGTATATTATTATTATATTTTTACTTGT
1 ATTATGTATTA-TTTACATTATTATTAT-T-TATTATTATTAT-TTTTCAC-TAA
* *
87772461 ATTATGTATTATTTATATTATT-TATATGTATTATATATTATTTTT
1 ATTATGTATTATTTACATTATTAT-TATTTATTAT-TATTATTTTT
87772506 ACATATATAC
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
46 5 0.06
47 8 0.10
49 2 0.03
50 14 0.17
51 12 0.15
52 11 0.14
53 22 0.28
54 6 0.08
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (50 bp):
ATTATGTATTATTTACATTATTATTATTTATTATTATTATTTTTCACTAA
Found at i:87772485 original size:20 final size:20
Alignment explanation
Indices: 87772463--87772554 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
87772453 TTACTTGTAT
87772463 TATGTATTATTTATATTATTTA
1 TATGTATTA--TATATTATTTA
*
87772485 TATGTATTATATATTATTTT
1 TATGTATTATATATTATTTA
**
87772505 TACATA-TATACT-TTCATATTA
1 TATGTATTATA-TATT-AT-TTA
*
87772526 TATATATTATA-ATTATTTTA
1 TATGTATTATATATTA-TTTA
87772546 TAT-TATTAT
1 TATGTATTAT
87772555 GTCATCTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
19 12 0.20
20 24 0.41
21 10 0.17
22 13 0.22
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (20 bp):
TATGTATTATATATTATTTA
Found at i:87772883 original size:17 final size:16
Alignment explanation
Indices: 87772863--87772913 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
87772853 TTATATTTTA
87772863 TATTTTTATATAATTAT
1 TATTTTTATATAA-TAT
*
87772880 TATTCTTATA-AATA-
1 TATTTTTATATAATAT
*
87772894 TATTTTTATATTATAT
1 TATTTTTATATAATAT
87772910 TATT
1 TATT
87772914 AAATATCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.31
15 5 0.17
16 6 0.21
17 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTATATAATAT
Found at i:87775313 original size:47 final size:47
Alignment explanation
Indices: 87775241--87775351 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
87775231 TAGTATGTTG
* * * *
87775241 TGGATGAACTACTGGTCGAGTAGGCGATTACCGACTAGAATAGGTTC
1 TGGATGAACCACTGGTCAAGCAGGCGATTACCGACTAGAATAGATTC
* * *
87775288 TGGATGAACCACTGGTCAAGCAGGCGATTGCCGACTAGAATATATTG
1 TGGATGAACCACTGGTCAAGCAGGCGATTACCGACTAGAATAGATTC
*
87775335 TGGATAAACCACTGGTC
1 TGGATGAACCACTGGTC
87775352 GAACAGATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGGATGAACCACTGGTCAAGCAGGCGATTACCGACTAGAATAGATTC
Found at i:87778292 original size:16 final size:15
Alignment explanation
Indices: 87778243--87778292 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
87778233 GTGCTGTAAA
87778243 TTGGA-TTCTTGTATC
1 TTGGATTTCTT-TATC
*
87778258 ATGGATTTCTTTATC
1 TTGGATTTCTTTATC
87778273 TTGGATTTCTTTATTC
1 TTGGATTTCTTTA-TC
87778289 TTGG
1 TTGG
87778293 CTTCTCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:87785588 original size:30 final size:31
Alignment explanation
Indices: 87785552--87785610 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
87785542 GCACTTGTTA
87785552 ACTTTGTTTAAATAA-TTTTTAAATTATTAC
1 ACTTTGTTTAAATAAGTTTTTAAATTATTAC
87785582 ACTTTGTTTAAATAAGTTTTTAAATTATT
1 ACTTTGTTTAAATAAGTTTTTAAATTATT
87785611 TTTGTGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (31 bp):
ACTTTGTTTAAATAAGTTTTTAAATTATTAC
Found at i:87785658 original size:28 final size:29
Alignment explanation
Indices: 87785589--87785655 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
87785579 TACACTTTGT
* **
87785589 TTAAATAAGTTTTTAAATTATTTTTGTGG
1 TTAAATAAGTTCTTAAATTATTTTTGTAA
*
87785618 TT-AATAAGTTCTTAAATTTTTTTTGTAA
1 TTAAATAAGTTCTTAAATTATTTTTGTAA
87785646 TTAAATAAGT
1 TTAAATAAGT
87785656 CTTTATCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (29 bp):
TTAAATAAGTTCTTAAATTATTTTTGTAA
Found at i:87787115 original size:13 final size:13
Alignment explanation
Indices: 87787097--87787121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87787087 ATTAAAATAT
87787097 AATAAAATATTAA
1 AATAAAATATTAA
87787110 AATAAAATATTA
1 AATAAAATATTA
87787122 TAACATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAAATATTAA
Found at i:87787154 original size:13 final size:14
Alignment explanation
Indices: 87787136--87787189 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
87787126 ATTTAATTTT
87787136 AAATTAT-TATTAA
1 AAATTATATATTAA
87787149 AAATTA-A-ATTAA
1 AAATTATATATTAA
87787161 ATAATT-TATATTTAA
1 A-AATTATATA-TTAA
*
87787176 AAAATATATATTAA
1 AAATTATATATTAA
87787190 TATTATTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
12 6 0.18
13 11 0.32
14 8 0.24
15 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTATATATTAA
Found at i:87787160 original size:23 final size:22
Alignment explanation
Indices: 87787087--87787162 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
87787077 AAATATTTAC
* *
87787087 ATTAAAATATAATAAAATATTAA
1 ATTAAATTATTATAAAA-ATTAA
* * * *
87787110 AATAAAATATTATAACATTTAA
1 ATTAAATTATTATAAAAATTAA
*
87787132 TTTTAAATTATTATTAAAAATTAA
1 -ATTAAATTATTA-TAAAAATTAA
87787156 ATTAAAT
1 ATTAAAT
87787163 AATTTATATT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 4 0.10
23 29 0.71
24 8 0.20
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAAATTATTATAAAAATTAA
Found at i:87788998 original size:51 final size:51
Alignment explanation
Indices: 87788943--87789044 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
87788933 TGGAAGTTAG
* *
87788943 GAAATTACCAAAA-AATAATGTTGATTATATATGAAATTTTAATAAATATAT
1 GAAATTACCAAAACAAT-ATGTTGATTATATATAAAATATTAATAAATATAT
** * * *
87788994 GAAATTATTAAAACAATTTTTTGATTTTATATAAAATATTAATAAATATAT
1 GAAATTACCAAAACAATATGTTGATTATATATAAAATATTAATAAATATAT
87789045 TTTTATATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (51 bp):
GAAATTACCAAAACAATATGTTGATTATATATAAAATATTAATAAATATAT
Found at i:87789321 original size:17 final size:17
Alignment explanation
Indices: 87789295--87789327 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87789285 TTATTTATTT
*
87789295 TATATGCAATATATATG
1 TATATACAATATATATG
87789312 TATATACAATATATAT
1 TATATACAATATATAT
87789328 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATACAATATATATG
Found at i:87797625 original size:12 final size:12
Alignment explanation
Indices: 87797608--87797650 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
87797598 GAATAAACTC
87797608 GTTTATTGACTT
1 GTTTATTGACTT
*
87797620 GTTTA-TAAGCTT
1 GTTTATTGA-CTT
*
87797632 GTTTATTGAATT
1 GTTTATTGACTT
87797644 GTTTATT
1 GTTTATT
87797651 TATTAATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (12 bp):
GTTTATTGACTT
Found at i:87803263 original size:162 final size:164
Alignment explanation
Indices: 87803003--87803309 Score: 356
Period size: 162 Copynumber: 1.9 Consensus size: 164
87802993 GAGAGATGCA
*
87803003 ATAATTTGAAATATATCTTCCCAATGTCAGTTGATAATAGCCTTATGCAATTACATACTTTGAAG
1 ATAATTTGAAATATATCTTCCCAATGTCAGTTGATAATAGCCTTAGGCAATTACATACTTTGAAG
* * * * *
87803068 ATAAAGAGTTGCAGGAGCTTAGAAGGCATAATCCAATACTCACAAGTCCCATACATAAG-C-CTC
66 ATAAAGAGTTGCAGCAGATTAGAAGACATAATCCAAGACCCACAAGTCCCATACATAAGTCACTC
*
87803131 CAAAGTTTAAGGGAAATAGAAGTTGAAAATTGCG
131 CAAAGTCTAAGGGAAATAGAAGTTGAAAATTGCG
* * * * * *
87803165 ATAATTT-AAAGTATCTCTTTCCATTGTCGGTTGCA-AATAGCCTT-GGCCAATTGCATATTTTG
1 ATAATTTGAAA-TATATCTTCCCAATGTCAGTTG-ATAATAGCCTTAGG-CAATTACATACTTTG
* * * ** *
87803227 AAGATAAAGAGTTGCTCGCA-ATTGGAAGATATAATCCAAGACCCACAAGTGGCATACATATGTC
63 AAGATAAAGAGTTGC-AGCAGATTAGAAGACATAATCCAAGACCCACAAGTCCCATACATAAGTC
87803291 TACTCCAAAGTCTAAGGGA
127 -ACTCCAAAGTCTAAGGGA
87803310 GGTATGTGTA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
161 4 0.03
162 95 0.80
163 4 0.03
165 16 0.13
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (164 bp):
ATAATTTGAAATATATCTTCCCAATGTCAGTTGATAATAGCCTTAGGCAATTACATACTTTGAAG
ATAAAGAGTTGCAGCAGATTAGAAGACATAATCCAAGACCCACAAGTCCCATACATAAGTCACTC
CAAAGTCTAAGGGAAATAGAAGTTGAAAATTGCG
Found at i:87804780 original size:162 final size:162
Alignment explanation
Indices: 87804500--87805170 Score: 1036
Period size: 162 Copynumber: 4.1 Consensus size: 162
87804490 TGCGCCCAAT
* * *
87804500 TTGCAAACTTTGAACATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
* * * * *
87804565 AACGATAAGCTTTCAATGTCTAAGGGAAGTACAAGTCACAGAGTGCAATAAATTGAAATTTCTCT
66 AACCATAAACTTCCAATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
87804630 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
*
87804662 TTGCAAACTCTAAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
* * * * * * * *
87804727 AACCGTAAGCTTTCAATGCCTTAGGAAAGTACAAGTCAAAGAATGCTATAAATTGATATTTCTCT
66 AACCATAAACTTCCAATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
87804792 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
*
87804824 TTGCAAACTCTAAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
* * * ** *
87804889 AACCACAAACTTCCAATGCCTTACGGAAGTACAAGTCATTGAATGCAATAATTTGAAATTTCTCT
66 AACCATAAACTTCCAATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
87804954 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
* * *
87804986 TTGCAAACTCTGAAGATAGAGTGGTGCTTTAGAATTGAAGAAATAATCCAACACTCACAAGTATC
1 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
* * * *
87805051 AACCATAAAATTCCAATGCCTAAGGGAAGTACAAGTCACGGAATGCAATAATTTGAAATATCTCT
66 AACCATAAACTTCCAATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
* *
87805116 TCCCAATGTGTGTTGCTAATAGTCTTGAGCAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
*
87805148 TTGCAAATTCTGAAGATAGAGAG
1 TTGCAAACTCTGAAGATAGAGAG
87805171 CTGTTCCCAA
Statistics
Matches: 470, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 470 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (162 bp):
TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAATAATCCAACACTCACAAGTATC
AACCATAAACTTCCAATGCCTAAGGGAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
Found at i:87807179 original size:24 final size:24
Alignment explanation
Indices: 87807147--87807237 Score: 101
Period size: 24 Copynumber: 3.5 Consensus size: 24
87807137 GACCAAAGAG
87807147 GAAGATGAAAGTGATTTTGAATAT
1 GAAGATGAAAGTGATTTTGAATAT
87807171 GAAGATGAAAGTGATGAAGTGACTTTGAATAT
1 GAAGATGAAA--G-TG-A-T---TTTGAATAT
87807203 GAAGATGAAAGTGATTTTGAATAT
1 GAAGATGAAAGTGATTTTGAATAT
*
87807227 GAAGGTGAAAG
1 GAAGATGAAAG
87807238 CACAGGTACA
Statistics
Matches: 58, Mismatches: 1, Indels: 16
0.77 0.01 0.21
Matches are distributed among these distances:
24 29 0.50
26 1 0.02
27 3 0.05
28 2 0.03
29 3 0.05
30 1 0.02
32 19 0.33
ACGTcount: A:0.42, C:0.01, G:0.29, T:0.29
Consensus pattern (24 bp):
GAAGATGAAAGTGATTTTGAATAT
Found at i:87807192 original size:32 final size:33
Alignment explanation
Indices: 87807150--87807217 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
87807140 CAAAGAGGAA
*
87807150 GATGAAAGTGATTTTGAATATGAAGATGAAAGT
1 GATGAAAGTGACTTTGAATATGAAGATGAAAGT
87807183 GATG-AAGTGACTTTGAATATGAAGATGAAAGT
1 GATGAAAGTGACTTTGAATATGAAGATGAAAGT
87807215 GAT
1 GAT
87807218 TTTGAATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.28, T:0.29
Consensus pattern (33 bp):
GATGAAAGTGACTTTGAATATGAAGATGAAAGT
Found at i:87807743 original size:24 final size:24
Alignment explanation
Indices: 87807711--87807767 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
87807701 GACCAAAGAG
87807711 GAAGATGAAAGTGATTTTGAATAT
1 GAAGATGAAAGTGATTTTGAATAT
87807735 GAAGATGAAAGTGATTTTGAATAT
1 GAAGATGAAAGTGATTTTGAATAT
87807759 GAAGATGAA
1 GAAGATGAA
87807768 CAGGTACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (24 bp):
GAAGATGAAAGTGATTTTGAATAT
Found at i:87808044 original size:509 final size:515
Alignment explanation
Indices: 87807183--87808198 Score: 1607
Period size: 509 Copynumber: 2.0 Consensus size: 515
87807173 AGATGAAAGT
*
87807183 GATGAAGTGACTTTGAATATGAAGATGAAAGTGATTTTGAATATGAAGGTGAAAGCACAGGTACA
1 GATGAAGTGACTTTGAATATGAAGATGAAAGTGATTTTGAATATGAAGATG-AA-CACAGGTACA
*
87807248 CTACTCTTCCAAACTCAATAATAAGCTTTAAAACAAAAGTTCATCCATTGAATTTCTTTCTCTAT
64 CTACTCTTCCAAACTCAATAATAAGCTTTAAAACAAAAGTTCATACATTGAATTTCTTTCTCTAT
**
87807313 GTATTCTCCCAATACTAAGCTTTAATTTCTATGCATTAATGCAATATTTTTATTTTGGCTGCCTG
129 GTATTCTCCCAATACTAAGCTTTAATTTCTATGCATTAACACAATATTTTTATTTTGGCTGCCTG
87807378 AGAGAAATTCTTTTTTTTTTATGCTTTAAATGACTAAATGAAATTGCATCAACTGTAATCGGTTT
194 AGAG-AATTC--TTTTTTTTATGCTTTAAATGAC--------A-T-CA-CAACTGTAATCGGTTT
* *
87807443 CTGTTGGCTGTCAATACTTCTTTCTAGATATCATTGTCGCATTATTAATTTCAATTCACAGTTCT
245 CTGCTGGCTGTCAATACTTCTTTCTAGATATCATTGTCGCATTATTAATATCAATTCACAGTTCT
* *
87807508 TATTCTTAATATGTCATCCTTTGTCCAATTTTGGAGAATTGGCTTTGCTTTCTTCATCATCAATC
310 TATTCTTAATATGTCATCCTTTGTCCAATTTTGGAAAACTGGCTTTGCTTTCTTCATCATCAATC
* * * *
87807573 ATCAAAAGCAAACAGTAATAAGTTAAGTTTTAATTTGCTTTGCAGGCAAGCCAATCAGTTGATGA
375 ATCAAAAGCAAACACTAATAAGTGAAGATTTAATTTGCTTTCCAGGCAAGCCAATCAGTTGATGA
*
87807638 AATTAGAGTGGAAGAATCTGCTACAGCTCAAGAAACTGCATTGCCAATTGGTTATATATGCTGGA
440 AATTAGAGTGGAAGAATCTGCTACAGCTCAAGAAACTGCATGGCCAATTGGTTATATATGCTGGA
87807703 CCAAAGAGGAA
505 CCAAAGAGGAA
*
87807714 GATGAAAGTGATTTTGAATATGAAGATGAAAGTGATTTTGAATATGAAGATG-A-ACAGGTACAC
1 GATG-AAGTGACTTTGAATATGAAGATGAAAGTGATTTTGAATATGAAGATGAACACAGGTACAC
87807777 TACTCTTCCAAACTCAATAATAAGCTTTAAAACAAAAGTTCATACATTGAATTAT-TTTCTCTAT
65 TACTCTTCCAAACTCAATAATAAGCTTTAAAACAAAAGTTCATACATTGAATT-TCTTTCTCTAT
*
87807841 GTATTCTCCCAATACTAAGCTTTAATTTCTATGCATTAACACAATATTTTTATTTTGGCTGTCTG
129 GTATTCTCCCAATACTAAGCTTTAATTTCTATGCATTAACACAATATTTTTATTTTGGCTGCCTG
*
87807906 AGAG-ATTC-TTTTTTTATGCTTTAAATGAC-T-A-AACTGTAATTGGTTTCTGCTGGCTGTCAA
194 AGAGAATTCTTTTTTTTATGCTTTAAATGACATCACAACTGTAATCGGTTTCTGCTGGCTGTCAA
* * * *
87807966 TATTTGTTTCTAGATATCATTGTTGCATTATTAATATCAATTCACAGTTCTTGTTCTTAATATGT
259 TACTTCTTTCTAGATATCATTGTCGCATTATTAATATCAATTCACAGTTCTTATTCTTAATATGT
87808031 CATCCTTTGTCCAATTTTGGAAAACTGGCTTTGCTTTCTTCATCATCAATCATCAAAAGCAAACA
324 CATCCTTTGTCCAATTTTGGAAAACTGGCTTTGCTTTCTTCATCATCAATCATCAAAAGCAAACA
* *
87808096 CTAATAAGTGAAGATTTAATTTGCTTTCCAGGCAAGCCAATCAGTTGATGAAATTATAGTGGATG
389 CTAATAAGTGAAGATTTAATTTGCTTTCCAGGCAAGCCAATCAGTTGATGAAATTAGAGTGGAAG
*
87808161 AATCTGCTACAGCTTAAGAAACTGCATGGCCAATTGGT
454 AATCTGCTACAGCTCAAGAAACTGCATGGCCAATTGGT
87808199 AGTGATATAG
Statistics
Matches: 460, Mismatches: 23, Indels: 26
0.90 0.05 0.05
Matches are distributed among these distances:
509 245 0.53
511 1 0.00
513 1 0.00
523 21 0.05
526 4 0.01
528 137 0.30
529 1 0.00
530 1 0.00
531 4 0.01
532 45 0.10
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (515 bp):
GATGAAGTGACTTTGAATATGAAGATGAAAGTGATTTTGAATATGAAGATGAACACAGGTACACT
ACTCTTCCAAACTCAATAATAAGCTTTAAAACAAAAGTTCATACATTGAATTTCTTTCTCTATGT
ATTCTCCCAATACTAAGCTTTAATTTCTATGCATTAACACAATATTTTTATTTTGGCTGCCTGAG
AGAATTCTTTTTTTTATGCTTTAAATGACATCACAACTGTAATCGGTTTCTGCTGGCTGTCAATA
CTTCTTTCTAGATATCATTGTCGCATTATTAATATCAATTCACAGTTCTTATTCTTAATATGTCA
TCCTTTGTCCAATTTTGGAAAACTGGCTTTGCTTTCTTCATCATCAATCATCAAAAGCAAACACT
AATAAGTGAAGATTTAATTTGCTTTCCAGGCAAGCCAATCAGTTGATGAAATTAGAGTGGAAGAA
TCTGCTACAGCTCAAGAAACTGCATGGCCAATTGGTTATATATGCTGGACCAAAGAGGAA
Found at i:87813082 original size:64 final size:63
Alignment explanation
Indices: 87813014--87813219 Score: 139
Period size: 64 Copynumber: 3.1 Consensus size: 63
87813004 CCAGAGCCAT
87813014 TTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGGCC-TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
* * * *** * ** * *
87813078 TTTCAAAATACATGTAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGGG
1 TTTCAGATTACA-ATAA-A-C--TGGGCCTA-GC---CCCTTATTCAGATAACA---GTA-TGGC
* *
87813141 CCAGA-GCCCT
53 CCATAGGCCCA
87813151 TTTCAGATTACAATAAACTGGGTCCTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAACTGGG-CCTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
87813215 TTTCA
1 TTTCA
87813220 AAATACATGC
Statistics
Matches: 99, Mismatches: 26, Indels: 34
0.62 0.16 0.21
Matches are distributed among these distances:
63 7 0.07
64 22 0.22
65 6 0.06
66 1 0.01
67 10 0.10
68 5 0.05
69 7 0.07
70 10 0.10
71 1 0.01
72 6 0.06
73 17 0.17
74 7 0.07
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (63 bp):
TTTCAGATTACAATAAACTGGGCCTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
Found at i:87813221 original size:137 final size:137
Alignment explanation
Indices: 87812987--87813261 Score: 507
Period size: 137 Copynumber: 2.0 Consensus size: 137
87812977 GCCCATTCAA
87812987 GTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
87813052 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGTAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
87813117 CATTTGG
131 CATTTGG
* *
87813124 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCC-TAGCCCCTTATT
1 GTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGG-CCTTAGCCCCTTATT
87813188 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
65 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
87813253 CCATTTGG
130 CCATTTGG
87813261 G
1 G
87813262 GAGACTACTC
Statistics
Matches: 134, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
137 132 0.99
138 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GTAACAGTGATACTGGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
CATTTGG
Found at i:87813555 original size:26 final size:26
Alignment explanation
Indices: 87813509--87813561 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87813499 TCAAACATGC
*
87813509 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
87813535 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
87813561 A
1 A
87813562 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:87815081 original size:26 final size:26
Alignment explanation
Indices: 87815045--87815180 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
87815035 CATGAAATTC
*
87815045 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
87815071 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
87815097 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
87815123 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
87815149 TTATCATGAAACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCTA
87815175 TTATCA
1 TTATCA
87815181 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:87817894 original size:30 final size:31
Alignment explanation
Indices: 87817844--87817927 Score: 109
Period size: 30 Copynumber: 2.7 Consensus size: 31
87817834 ATAAAATATT
*
87817844 AAAACAATAAAATAAAATTATTA-TTGTTT-A
1 AAAATAATAAAATAAAATTATTACTT-TTTAA
* *
87817874 AAAATAATATAATAATATTATTACTTTTTAA
1 AAAATAATAAAATAAAATTATTACTTTTTAA
*
87817905 AAAATAATAAAATAAAAATATTA
1 AAAATAATAAAATAAAATTATTA
87817928 AAAAATTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 23 0.50
31 23 0.50
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (31 bp):
AAAATAATAAAATAAAATTATTACTTTTTAA
Found at i:87818100 original size:50 final size:50
Alignment explanation
Indices: 87818046--87818148 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
87818036 GACATATGAG
87818046 TTAATAAAAATTGATTTATTTTTAACATATTTCATGTAAGGGTGTCCATC
1 TTAATAAAAATTGATTTATTTTTAACATATTTCATGTAAGGGTGTCCATC
87818096 TTAATAAAAATTGATTTATTTTTAACATATTTCATGTAAGGGTGTCCATC
1 TTAATAAAAATTGATTTATTTTTAACATATTTCATGTAAGGGTGTCCATC
87818146 TTA
1 TTA
87818149 GTTAATTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.45
Consensus pattern (50 bp):
TTAATAAAAATTGATTTATTTTTAACATATTTCATGTAAGGGTGTCCATC
Found at i:87819604 original size:30 final size:30
Alignment explanation
Indices: 87819561--87819652 Score: 139
Period size: 30 Copynumber: 3.0 Consensus size: 30
87819551 CGGGTTAGGA
87819561 TGGGAAGGGAGTAAAAGTTTTGGGGGGAAAG
1 TGGGAA-GGAGTAAAAGTTTTGGGGGGAAAG
*
87819592 TGGGAAGGAGTAAAAGTTTTGGAGGGAAAG
1 TGGGAAGGAGTAAAAGTTTTGGGGGGAAAG
* * *
87819622 TGGGAAGAAGTAAAAGTTTTGAGGGAAAAG
1 TGGGAAGGAGTAAAAGTTTTGGGGGGAAAG
87819652 T
1 T
87819653 AAAAAGGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 50 0.89
31 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.42, T:0.21
Consensus pattern (30 bp):
TGGGAAGGAGTAAAAGTTTTGGGGGGAAAG
Found at i:87819657 original size:21 final size:21
Alignment explanation
Indices: 87819623--87819663 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87819613 GAGGGAAAGT
*
87819623 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
87819644 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
87819664 GAAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:87822638 original size:162 final size:162
Alignment explanation
Indices: 87822060--87822666 Score: 694
Period size: 162 Copynumber: 3.7 Consensus size: 162
87822050 TCCCAATGTT
* * * ** *
87822060 TGTTGCTAACAGCCTTGGGCAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTAAAAGAAA
1 TGTTACTAATAGCCTTGGACAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGACA
* * * * * **
87822125 TAATCCAAGACTCACAAGTGCCAAAAATAAGACTCCAAAGTCTAAAAGAAGTAAAAGTTGAAAAA
66 TAATCCAAGACCCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTGAAAAA
* * ** *
87822190 TGCGATAAGTTAAAGTATCTCTTTCGTCTTTC
131 TGTGATAACTTAAAGTATCTCTTTCCACTATC
* * * *
87822222 TGTTGA-TAATGGTCTTGGACAATTGCATACTTTGGAGATAAAGAGTTGCTCGCAATTGGAAGAC
1 TGTT-ACTAATAGCCTTGGACAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGAC
* * ** *
87822286 ATAATCCAAGGCCCACAACTGCCATATGTAAGCCTCCAAAGTTTATGGGAAGTAAAAGTTGAAAA
65 ATAATCCAAGACCCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTGAAAA
87822351 ATGTGATAACTTAAAGTATCTCTTTCCACTATC
130 ATGTGATAACTTAAAGTATCTCTTTCCACTATC
* * * * * * * *
87822384 TGTTGCTAATAGTCTTAGACAATTGCATACTTAGAAGATAAAAAGTTGCTCTCAATTGGAAAACA
1 TGTTACTAATAGCCTTGGACAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGACA
*** * * *
87822449 TAATCCAAGACTTGCAAGTGTCATACATAAGCCTCCAAAGTTTAAGGGAAATAAAGGTTGAAAAA
66 TAATCCAAGACCCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTGAAAAA
* * *
87822514 TGTGATAATTTAAAATATCTCTTCCCACTATC
131 TGTGATAACTTAAAGTATCTCTTTCCACTATC
** * * **
87822546 TACTACTAATACCCTTGGGCAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGATG
1 TGTTACTAATAGCCTTGGACAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGACA
* * *
87822611 TAATCCAAGACCCACAAGTGCCATACATATGTCTACTCCAAAGTCTAGGGGAAGTA
66 TAATCCAAGACCCACAAGTGCCATACATAAG-C--CTCCAAAGTTTAAGGGAAGTA
87822667 TGTGTATCTC
Statistics
Matches: 370, Mismatches: 70, Indels: 7
0.83 0.16 0.02
Matches are distributed among these distances:
162 351 0.95
163 1 0.00
165 18 0.05
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (162 bp):
TGTTACTAATAGCCTTGGACAATTGCATACTTTGAAAATAAAGAGTTGCTCGCAATTGGAAGACA
TAATCCAAGACCCACAAGTGCCATACATAAGCCTCCAAAGTTTAAGGGAAGTAAAAGTTGAAAAA
TGTGATAACTTAAAGTATCTCTTTCCACTATC
Found at i:87824357 original size:2 final size:2
Alignment explanation
Indices: 87824350--87824388 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87824340 AAGACATTCT
87824350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87824389 TATTTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87826169 original size:17 final size:17
Alignment explanation
Indices: 87826140--87826181 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
87826130 TTTAACTCTT
*
87826140 TAAAATT-TATAAA-AA
1 TAAAATTATTTAAATAA
87826155 TATAAATTATTTAAATAA
1 TA-AAATTATTTAAATAA
87826173 TAAAATTAT
1 TAAAATTAT
87826182 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 12 0.52
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTATTTAAATAA
Found at i:87826187 original size:82 final size:81
Alignment explanation
Indices: 87826056--87826226 Score: 197
Period size: 82 Copynumber: 2.1 Consensus size: 81
87826046 ATTTAGTTGT
* * * * *
87826056 TTTAAAATTTTTAAAATTTTAAATTAATAAAAATAAAAATATATTTTTTTATTTTTAAAATAATT
1 TTTAAAATTTATAAAAATATAAATTAATAAAAATAAAAATATATATTTTTATTATTAAAA-AATT
87826121 A-AATTTTAATTT-AACTC
65 ATAA-TTTAATTTCAAC-C
* *
87826138 TTTAAAATTTATAAAAATATAAATTATTTAAATAAT-AAAAT-TATATTTTTATTATTATAAAAT
1 TTTAAAATTTATAAAAATATAAATTA-ATAAA-AATAAAAATATATATTTTTATTATTAAAAAAT
87826201 TATAATTTAATTTCAACC
64 TATAATTTAATTTCAACC
87826219 TTCTAAAA
1 TT-TAAAA
87826227 AATTTTCTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
81 16 0.21
82 49 0.64
83 9 0.12
84 3 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (81 bp):
TTTAAAATTTATAAAAATATAAATTAATAAAAATAAAAATATATATTTTTATTATTAAAAAATTA
TAATTTAATTTCAACC
Found at i:87826825 original size:23 final size:23
Alignment explanation
Indices: 87826782--87826827 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
87826772 TTAATGTTTG
*
87826782 TGAACATGTTTGATTAAATTAAA
1 TGAACATGTTTGATGAAATTAAA
87826805 TGAACATGTTTG-TGAATATTAAA
1 TGAACATGTTTGATGAA-ATTAAA
87826828 CAAATGAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.39
Consensus pattern (23 bp):
TGAACATGTTTGATGAAATTAAA
Found at i:87827175 original size:29 final size:30
Alignment explanation
Indices: 87827104--87827184 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
87827094 CTTTCATTTT
*
87827104 TTTTGTAAAAAAGGAAAAAGCATGGGGACA
1 TTTTGTCAAAAAGGAAAAAGCATGGGGACA
87827134 TTTTGTCAAAAAGGAAAAAGCATGGGGACA
1 TTTTGTCAAAAAGGAAAAAGCATGGGGACA
* * *
87827164 TTTTTTTAAAAGGGAAAAAGC
1 TTTTGTCAAAAAGGAAAAAGC
87827185 TGTAACACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.23
Consensus pattern (30 bp):
TTTTGTCAAAAAGGAAAAAGCATGGGGACA
Found at i:87838101 original size:18 final size:18
Alignment explanation
Indices: 87838080--87838182 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
87838070 AATTTCATTT
* * *
87838080 AGTAACATTCAATCATTC
1 AGTAACAATCAGTTATTC
* *
87838098 AGTAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
87838116 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
*
87838134 AGTAGCAATCAGTTATTC
1 AGTAACAATCAGTTATTC
* *
87838152 AGTAACGATCAATTATTC
1 AGTAACAATCAGTTATTC
*
87838170 AGTAACAGTCAGT
1 AGTAACAATCAGT
87838183 CGTTCAGTAT
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:87838120 original size:36 final size:35
Alignment explanation
Indices: 87838080--87838191 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 35
87838070 AATTTCATTT
* *
87838080 AGTAACATTCAATCATTCAGTAGCAATTAGTTATTC
1 AGTAACA-TCAATTATTCAGTAGCAATCAGTTATTC
* **
87838116 AGTAACAATCATTTGCTCAGTAGCAATCAGTTATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
* * **
87838152 AGTAACGATCAATTATTCAGTAACAGTCAGTCGTTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
87838188 AGTA
1 AGTA
87838192 TTTTTATTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
36 61 0.98
37 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (35 bp):
AGTAACATCAATTATTCAGTAGCAATCAGTTATTC
Found at i:87839663 original size:28 final size:28
Alignment explanation
Indices: 87839603--87839664 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
87839593 ATATAATTAT
* *
87839603 TTAATTAATAAATATTTTTTACTTAATA
1 TTAAATAATAAATATTATTTACTTAATA
*
87839631 ATAAATAATAAATATCTATTTACTTAA-A
1 TTAAATAATAAATAT-TATTTACTTAATA
87839659 TTAAAT
1 TTAAAT
87839665 GTAATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATAATAAATATTATTTACTTAATA
Found at i:87840875 original size:16 final size:16
Alignment explanation
Indices: 87840856--87840906 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
87840846 CCTTTTTTTA
87840856 TAATTTCAGTTTTACT
1 TAATTTCAGTTTTACT
**
87840872 TAATTTTTG-TTT--T
1 TAATTTCAGTTTTACT
87840885 TAATTTCAGTTTTACT
1 TAATTTCAGTTTTACT
87840901 TAATTT
1 TAATTT
87840907 TAAACATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 8 0.29
14 3 0.11
15 3 0.11
16 14 0.50
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.63
Consensus pattern (16 bp):
TAATTTCAGTTTTACT
Found at i:87840890 original size:29 final size:30
Alignment explanation
Indices: 87840851--87840907 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
87840841 GACGTCCTTT
87840851 TTTTATAATTTCAGTTTTACTTAATTTTTG
1 TTTTATAATTTCAGTTTTACTTAATTTTTG
87840881 TTTT-TAATTTCAGTTTTACTTAATTTT
1 TTTTATAATTTCAGTTTTACTTAATTTT
87840908 AAACATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTTATAATTTCAGTTTTACTTAATTTTTG
Found at i:87842623 original size:14 final size:14
Alignment explanation
Indices: 87842604--87842635 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
87842594 GCCTTAAAAG
87842604 ATGAGAATATCAAC
1 ATGAGAATATCAAC
87842618 ATGAGAATATCAAC
1 ATGAGAATATCAAC
87842632 ATGA
1 ATGA
87842636 TTGGGTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (14 bp):
ATGAGAATATCAAC
Done.