Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 294 of 343
Found at i:96763915 original size:27 final size:27
Alignment explanation
Indices: 96763877--96764023 Score: 213
Period size: 27 Copynumber: 5.4 Consensus size: 27
96763867 TAATTTTTCA
*
96763877 AAATCAAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* *
96763904 AAATCGAGGGTAAAATGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
96763931 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
96763958 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* * * *
96763985 AATTCGAGGGTAAAACGATAATTATGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
96764012 AAATCAAGGGTA
1 AAATCGAGGGTA
96764024 CTTTGGTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAT
Found at i:96764032 original size:81 final size:81
Alignment explanation
Indices: 96763840--96764035 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
96763830 GGTATTTTGG
* * * * *
96763840 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTCAAAATCAAGGGTAAAACGGTAATTCTATA
1 TAATTATGTAAATCAAGGGTAATTTGGTAATTTAT-AAAATCAAGGGTAAAACGGTAATTCTATA
* *
96763905 AATCGAGGGTAAAATGG
65 AATCGAGGGTAAAACGA
* * *** * *
96763922 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT-AAATCGAGGGTAAAATGGTAATTCTATA
1 TAATTATGTAAATCAAGGGTAATTTGGTAATT-TATAAAATCAAGGGTAAAACGGTAATTCTATA
*
96763986 ATTCGAGGGTAAAACGA
65 AATCGAGGGTAAAACGA
*
96764003 TAATTATGTAAATCAAGGGTACTTTGGTAATTT
1 TAATTATGTAAATCAAGGGTAATTTGGTAATTT
96764036 TACAAATTGA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.71
82 24 0.26
83 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTATGTAAATCAAGGGTAATTTGGTAATTTATAAAATCAAGGGTAAAACGGTAATTCTATAA
ATCGAGGGTAAAACGA
Found at i:96765533 original size:44 final size:44
Alignment explanation
Indices: 96765439--96765548 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
96765429 TACTTGTTTT
* *
96765439 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTATAACTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACAACTTCA
* * * * * *
96765483 ACCTACTCCACTGCATCTTCA-AGGAGATAAGGTTTGCGACTTCG
1 ATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTACAACTTCA
***
96765527 ATCTACTTTGCTGCAACTTCAG
1 ATCTACTCCACTGCAACTTCAG
96765549 GAAGATCAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
43 1 0.02
44 50 0.98
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACAACTTCA
Found at i:96765757 original size:45 final size:45
Alignment explanation
Indices: 96765705--96765791 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
96765695 AGATTAGTCG
*
96765705 CTTCAATCAGCTTCACTGCAACTTCAAGAAGATAAGACTTGCCAT
1 CTTCAATCAGCTCCACTGCAACTTCAAGAAGATAAGACTTGCCAT
* *
96765750 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGC
1 CTTCAATCAGCTCCACTGCAACTTCAAGAAGATAAGACTTGC
96765792 AACTTTGACC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (45 bp):
CTTCAATCAGCTCCACTGCAACTTCAAGAAGATAAGACTTGCCAT
Found at i:96765808 original size:133 final size:133
Alignment explanation
Indices: 96765671--96765919 Score: 340
Period size: 133 Copynumber: 1.9 Consensus size: 133
96765661 TTTCGGTCTG
*
96765671 CTCCACTACAAT-TTCAGGGAGATAAGATTAGTCGC-TTCAATCAGCTTCACTGCAACTTCAAGA
1 CTCCACTAC-ATCTTCAGGGAGATAAGATTAGTCGCTTTCAATC-GCCTCACTGCAACTTCAAGA
96765734 AGATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTG
64 AGATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTG
96765799 ACCTA
129 ACCTA
* * * * * * * *
96765804 CTCCACTGCGTCTTCAGGGAGATAAGGTTAGTGGCTTTGATTCGCCTCACTGTAACTTCAGGAAG
1 CTCCACTACATCTTCAGGGAGATAAGATTAGTCGCTTTCAATCGCCTCACTGCAACTTCAAGAAG
* * ** *
96765869 ATAAGATTTGCTATCTTCGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
66 ATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
96765920 TTGATGGTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 1 0.01
133 94 0.94
134 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (133 bp):
CTCCACTACATCTTCAGGGAGATAAGATTAGTCGCTTTCAATCGCCTCACTGCAACTTCAAGAAG
ATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTGAC
CTA
Found at i:96765909 original size:45 final size:45
Alignment explanation
Indices: 96765634--96765965 Score: 207
Period size: 44 Copynumber: 7.5 Consensus size: 45
96765624 TACTCTACCA
* * * *
96765634 CAACTTCA-GAGAGATAAGATCTGCTATTTTCGGTCTGCTCCACTA
1 CAACTTCAGGA-AGATAAGATTTGCTATCTTCGATCTGCTCCACTG
* * * ** * * *
96765679 CAATTTCAGGGAGATAAGATTAG-TCGCTTCAATCAGCTTCACTG
1 CAACTTCAGGAAGATAAGATTTGCTATCTTCGATCTGCTCCACTG
* * * *
96765723 CAACTTCAAGAAGATAAGACTTGCCATCTTCAATCTGCTCCACTG
1 CAACTTCAGGAAGATAAGATTTGCTATCTTCGATCTGCTCCACTG
* * * * *
96765768 CAACTTCAAGG-AGATAAGACTTGC-AACTTTGACCTACTCCACTG
1 CAACTTC-AGGAAGATAAGATTTGCTATCTTCGATCTGCTCCACTG
** * * * ** *
96765812 CGTCTTCAGGGAGATAAGGTTAG-TGGCTTTGAT-TCGC-CTCACTG
1 CAACTTCAGGAAGATAAGATTTGCTATCTTCGATCT-GCTC-CACTG
* *
96765856 TAACTTCAGGAAGATAAGATTTGCTATCTTCGGTCTGCTCCACTG
1 CAACTTCAGGAAGATAAGATTTGCTATCTTCGATCTGCTCCACTG
* * * * * *
96765901 CAACTTCAGGGAGATAAGATTGATGGT-T-TT-AATCTTCTTCACTA
1 CAACTTCAGGAAGATAAGATT--TGCTATCTTCGATCTGCTCCACTG
96765945 CAACTTCAGGAAGATAAGATT
1 CAACTTCAGGAAGATAAGATT
96765966 CGCCATAATT
Statistics
Matches: 219, Mismatches: 56, Indels: 25
0.73 0.19 0.08
Matches are distributed among these distances:
43 5 0.02
44 118 0.54
45 87 0.40
46 6 0.03
47 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
CAACTTCAGGAAGATAAGATTTGCTATCTTCGATCTGCTCCACTG
Found at i:96765952 original size:133 final size:133
Alignment explanation
Indices: 96765671--96765965 Score: 335
Period size: 133 Copynumber: 2.2 Consensus size: 133
96765661 TTTCGGTCTG
* *
96765671 CTCCACTACAATTTCAGGGAGATAAGATTAGTCGCTTCAATCAGCTTCACTGCAACTTCAAGAAG
1 CTCCACTACAACTTCAGGGAGATAAGATTAGTCGCTTCAATCAGCCTCACTGCAACTTCAAGAAG
*
96765736 ATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTGAC
66 ATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTAAC
96765801 CTA
131 CTA
* ** * * * * * *
96765804 CTCCACTGCGTCTTCAGGGAGATAAGGTTAGTGGCTTTGATTC-GCCTCACTGTAACTTCAGGAA
1 CTCCACTACAACTTCAGGGAGATAAGATTAGTCGC-TTCAATCAGCCTCACTGCAACTTCAAGAA
* * ** * **
96765868 GATAAGATTTGCTATCTTCGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-ATGGTTTT
65 GATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCA--ACTTT
* *
96765931 AATCTT
128 AACCTA
* *
96765937 CTTCACTACAACTTCAGGAAGATAAGATT
1 CTCCACTACAACTTCAGGGAGATAAGATT
96765966 CGCCATAATT
Statistics
Matches: 132, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
131 1 0.01
132 3 0.02
133 123 0.93
134 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (133 bp):
CTCCACTACAACTTCAGGGAGATAAGATTAGTCGCTTCAATCAGCCTCACTGCAACTTCAAGAAG
ATAAGACTTGCCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGCAACTTTAAC
CTA
Found at i:96778139 original size:27 final size:26
Alignment explanation
Indices: 96778081--96778140 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
96778071 AGAGCTTAAC
*
96778081 ATAA-AATATATAAAACAATTTCAAA
1 ATAATAATATATAAAACAATTTAAAA
**
96778106 ATAAATAATATATAAGTCAATTTTAAAA
1 AT-AATAATATATAAAACAA-TTTAAAA
96778134 ATAATAA
1 ATAATAA
96778141 ATAAGGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 17 0.59
28 8 0.28
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATAATATATAAAACAATTTAAAA
Found at i:96778143 original size:28 final size:26
Alignment explanation
Indices: 96778083--96778143 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
96778073 AGCTTAACAT
*
96778083 AAAATATATAAAACAATTTCAAAATA
1 AAAATATATAAAACAATTTAAAAATA
**
96778109 AATAATATATAAGTCAATTTTAAAAATA
1 AA-AATATATAAAACAA-TTTAAAAATA
96778137 ATAAATA
1 A-AAATA
96778144 AGGATCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 12 0.41
28 14 0.48
29 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATATATAAAACAATTTAAAAATA
Found at i:96784543 original size:21 final size:20
Alignment explanation
Indices: 96784519--96784561 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
96784509 TAAATGATGG
96784519 TATTAGAAATATACGATATAA
1 TATTAGAAATATAC-ATATAA
* *
96784540 TATTAGAAGTATACATGTAA
1 TATTAGAAATATACATATAA
96784560 TA
1 TA
96784562 GTATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
TATTAGAAATATACATATAA
Found at i:96784725 original size:12 final size:12
Alignment explanation
Indices: 96784708--96784786 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
96784698 AAATAACATC
96784708 TAATAATATTAA
1 TAATAATATTAA
96784720 TAATAATATTAA
1 TAATAATATTAA
* *
96784732 AAATAATAATGAA
1 TAATAAT-ATTAA
* *
96784745 GTATATAAAAATAA
1 -TA-ATAATATTAA
*
96784759 -ATATGATA-TAA
1 TA-ATAATATTAA
96784770 TAATAATATTAA
1 TAATAATATTAA
96784782 -AATAA
1 TAATAA
96784787 AGTAATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
11 13 0.25
12 28 0.53
13 4 0.08
14 4 0.08
15 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:96784741 original size:21 final size:21
Alignment explanation
Indices: 96784717--96784758 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
96784707 CTAATAATAT
96784717 TAATAAT-AA-TAT-TAAAAA
1 TAATAATGAAGTATATAAAAA
96784735 TAATAATGAAGTATATAAAAA
1 TAATAATGAAGTATATAAAAA
96784756 TAA
1 TAA
96784759 ATATGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 3 0.14
21 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TAATAATGAAGTATATAAAAA
Found at i:96784841 original size:13 final size:14
Alignment explanation
Indices: 96784823--96784853 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
96784813 ATGTATGAAT
96784823 ATATACATATA-TA
1 ATATACATATATTA
96784836 ATATACATATATTA
1 ATATACATATATTA
96784850 ATAT
1 ATAT
96784854 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:96784927 original size:20 final size:21
Alignment explanation
Indices: 96784892--96784937 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
96784882 AATCATTAGT
96784892 AATAA-TAATACTTTAA-AAA
1 AATAATTAATACTTTAATAAA
96784911 AATAATTAATA-TATTAATAAA
1 AATAATTAATACT-TTAATAAA
96784932 AATAAT
1 AATAAT
96784938 AGTAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATTAATACTTTAATAAA
Found at i:96785435 original size:24 final size:24
Alignment explanation
Indices: 96785407--96785464 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
96785397 AAAAAGGGTG
*
96785407 GGGGAGAGGAG-AGAAAGGAGAGAA
1 GGGGAGAGGAGAAGAAAAGAGAG-A
96785431 GGGGAGAGG-GAAGAAAAGAGAGA
1 GGGGAGAGGAGAAGAAAAGAGAGA
*
96785454 GAGGAGAGGAG
1 GGGGAGAGGAG
96785465 GGAGCCCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (24 bp):
GGGGAGAGGAGAAGAAAAGAGAGA
Found at i:96786916 original size:72 final size:73
Alignment explanation
Indices: 96786808--96786959 Score: 195
Period size: 72 Copynumber: 2.1 Consensus size: 73
96786798 CAAACAGATT
* *
96786808 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCATCTCTCA-CAATATGAGTTGAAATT-A
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCT-AGCAATATGAGTTGAAATTGA
96786871 AAACACAAAAA
64 AAA-ACAAAAA
* * **
96786882 TTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
96786946 AACAAAAA
66 AACAAAAA
96786954 TT-AAAA
1 TTGAAAA
96786960 GGCTTAACTC
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
71 5 0.07
72 46 0.66
73 4 0.06
74 15 0.21
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (73 bp):
TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
AACAAAAA
Found at i:96787052 original size:120 final size:123
Alignment explanation
Indices: 96786834--96787061 Score: 327
Period size: 120 Copynumber: 1.9 Consensus size: 123
96786824 ATGTGACCCG
* *
96786834 AGGCTCAACTCATCTCTCACAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCACAATATGAGTTG-AATT-AAACACAAAAATCGAAAATACCTCAGCG
* *
96786899 TGCCCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTGAAAAACAAAAATTAAA
* * * *
96786959 AGGCTTAACTCACCTCTCGCAATATGAGTTG-A-T-AACACAAAAGTCGAAAATACCTCAGTGTG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
* *
96787021 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTT
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTT
96787062 TTTGAAAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
120 63 0.68
122 1 0.01
123 1 0.01
125 28 0.30
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTGAAAAACAAAAATTAAA
Found at i:96787398 original size:79 final size:78
Alignment explanation
Indices: 96787304--96787448 Score: 211
Period size: 79 Copynumber: 1.8 Consensus size: 78
96787294 TAAAACACAA
* *
96787304 AAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACTTCTCACCA-TATGAGTTGACTTTT
1 AAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTC-CCATTATGAGTTGA-TTTT
96787368 TTTTTTGAAAAGCAT
64 TTTTTTGAAAAGCAT
* * * *
96787383 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTCCCATTATGAGTTGATTTTTT
96787448 T
66 T
96787449 GAAAAACATA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 9 0.15
79 50 0.85
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (78 bp):
AAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTCCCATTATGAGTTGATTTTTT
TTTTGAAAAGCAT
Found at i:96788203 original size:13 final size:13
Alignment explanation
Indices: 96788185--96788212 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
96788175 AGTCTCACTG
96788185 TTTGTCGTACAGT
1 TTTGTCGTACAGT
96788198 TTTGTCGTACAGT
1 TTTGTCGTACAGT
96788211 TT
1 TT
96788213 AAACGCCTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTGTCGTACAGT
Found at i:96799902 original size:21 final size:20
Alignment explanation
Indices: 96799878--96799920 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
96799868 TAAATGATGG
96799878 TATTAGAAATATACGATATAA
1 TATTAGAAATATAC-ATATAA
* *
96799899 TATTAGAAGTATACATGTAA
1 TATTAGAAATATACATATAA
96799919 TA
1 TA
96799921 GTATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
TATTAGAAATATACATATAA
Found at i:96800083 original size:12 final size:12
Alignment explanation
Indices: 96800066--96800097 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
96800056 AAATAACACC
96800066 TAATAATATTAA
1 TAATAATATTAA
96800078 TAATAATATTAA
1 TAATAATATTAA
*
96800090 AAATAATA
1 TAATAATA
96800098 ATGAAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:96800198 original size:13 final size:14
Alignment explanation
Indices: 96800180--96800210 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
96800170 ATGTATGAAT
96800180 ATATACATATA-TA
1 ATATACATATATTA
96800193 ATATACATATATTA
1 ATATACATATATTA
96800207 ATAT
1 ATAT
96800211 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:96800276 original size:24 final size:22
Alignment explanation
Indices: 96800249--96800308 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
96800239 AATCATTAGT
96800249 ATTAATAATACTTTAAAAAAAATA
1 ATTAATAATA--TTAAAAAAAATA
*
96800273 ATTAAT-ATATTAATAAAAATA
1 ATTAATAATATTAAAAAAAATA
96800294 ATAGTAATAATATTA
1 AT--TAATAATATTA
96800309 GTAATATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 13 0.41
23 7 0.22
24 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTAATAATATTAAAAAAAATA
Found at i:96800794 original size:24 final size:24
Alignment explanation
Indices: 96800766--96800823 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
96800756 AAAAAAGGTG
*
96800766 GGGGAGAGGAG-AGAAAGGAGAGAA
1 GGGGAGAGGAGAAGAAAAGAGAG-A
96800790 GGGGAGAGG-GAAGAAAAGAGAGA
1 GGGGAGAGGAGAAGAAAAGAGAGA
96800813 GGGGAGAGGAG
1 GGGGAGAGGAG
96800824 GGAGCCCCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (24 bp):
GGGGAGAGGAGAAGAAAAGAGAGA
Found at i:96801809 original size:13 final size:13
Alignment explanation
Indices: 96801791--96801829 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
96801781 CTTTTAAAAA
96801791 TTTTATAATTTTT
1 TTTTATAATTTTT
*
96801804 TTTTATAAATTTT
1 TTTTATAATTTTT
*
96801817 GTTTATAATTTTT
1 TTTTATAATTTTT
96801830 ATGATTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATAATTTTT
Found at i:96805461 original size:16 final size:15
Alignment explanation
Indices: 96805440--96805487 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
96805430 GATGTGAATA
96805440 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
96805456 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
96805471 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
96805487 A
1 A
96805488 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:96805463 original size:24 final size:24
Alignment explanation
Indices: 96805436--96805491 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
96805426 TAATGATGTG
*
96805436 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
96805460 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
96805484 AATAATAA
1 AATAATAA
96805492 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:96805470 original size:8 final size:8
Alignment explanation
Indices: 96805436--96805487 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
96805426 TAATGATGTG
*
96805436 AATAATAA
1 AATATTAA
96805444 AATATATAA
1 AATAT-TAA
96805453 AATA-TAA
1 AATATTAA
96805460 AATATTAA
1 AATATTAA
*
96805468 AATATCAA
1 AATATTAA
*
96805476 AATATTAG
1 AATATTAA
96805484 AATA
1 AATA
96805488 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:96805730 original size:2 final size:2
Alignment explanation
Indices: 96805725--96805800 Score: 56
Period size: 2 Copynumber: 40.5 Consensus size: 2
96805715 CATGTAAAAA
* * *
96805725 AT AT AT AT AT AT AT AT AT AA AT A- AT AT A- AT AT -T AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
96805764 AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A
96805801 GAATTTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
1 6 0.10
2 51 0.86
3 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (2 bp):
AT
Found at i:96805773 original size:25 final size:23
Alignment explanation
Indices: 96805737--96805863 Score: 72
Period size: 23 Copynumber: 5.6 Consensus size: 23
96805727 ATATATATAT
96805737 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATT-AAG
* * *
96805762 ATATATACATAAAATAGTA-TAAT
1 ATATATA-ATAATATAATATTAAG
96805785 ATATATATATAATATAGA-ATTTAA-
1 ATATATA-ATAATATA-ATA-TTAAG
* * *
96805809 A-ATATACCTAATATATTA-AAAG
1 ATATATA-ATAATATAATATTAAG
96805831 A-ATAT-AT-ATATAATATTAAG
1 ATATATAATAATATAATATTAAG
*
96805851 AAATATAATAATA
1 ATATATAATAATA
96805864 ACAAAAAAGG
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
19 7 0.09
20 5 0.06
21 6 0.08
22 7 0.09
23 33 0.42
24 3 0.04
25 18 0.23
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATATAATAATATAATATTAAG
Found at i:96805823 original size:86 final size:84
Alignment explanation
Indices: 96805659--96805841 Score: 190
Period size: 86 Copynumber: 2.1 Consensus size: 84
96805649 AAATTTGTAC
* * *
96805659 ATAATATAGTGTTAAAAATACATACATAATATAGTTAAGATATATACATAAGATAACATGTAAAA
1 ATAATATAATATTAAAAATACATACATAAAATAGTTAAGATATATACATAAGATAACATGTAAAA
*
96805724 AATATATATATATATATATAA
66 AATACATATATATAT-TA-AA
* * * * * *
96805745 ATAATATAATATTAAAGATATATACATAAAATAGTATAATATATATATATAATATAGA-ATTTAA
1 ATAATATAATATTAAAAATACATACATAAAATAGT-TAAGATATATACATAAGATA-ACATGTAA
* *
96805809 AATATACCTA-ATATATTAAA
64 AAAATACATATATATATTAAA
*
96805829 AGAATATATATAT
1 ATAATATA-ATAT
96805842 AATATTAAGA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
84 9 0.11
85 6 0.07
86 36 0.44
87 29 0.36
88 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (84 bp):
ATAATATAATATTAAAAATACATACATAAAATAGTTAAGATATATACATAAGATAACATGTAAAA
AATACATATATATATTAAA
Found at i:96806392 original size:30 final size:30
Alignment explanation
Indices: 96806356--96806500 Score: 227
Period size: 30 Copynumber: 4.8 Consensus size: 30
96806346 TAGGTACAAG
* * *
96806356 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
96806386 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
96806416 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
96806446 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
96806476 TGGTGGTAGAAAATGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
96806501 TGAGAAAAGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 106 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:96806449 original size:60 final size:60
Alignment explanation
Indices: 96806356--96806500 Score: 254
Period size: 60 Copynumber: 2.4 Consensus size: 60
96806346 TAGGTACAAG
*
96806356 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
96806416 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* * *
96806476 TGGTGGTAGAAAATGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
96806501 TGAGAAAAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:96807267 original size:14 final size:14
Alignment explanation
Indices: 96807248--96807297 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
96807238 GAGTTGATTT
* *
96807248 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
96807262 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
96807277 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
96807291 TT-AAAAA
1 TTGAAAAA
96807298 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:96807436 original size:75 final size:75
Alignment explanation
Indices: 96807277--96807504 Score: 307
Period size: 76 Copynumber: 3.0 Consensus size: 75
96807267 AAAACAGAAA
* * ** *
96807277 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
96807342 GAGTT-A-ATTT
64 GAGTTGATTTTT
* * * * *
96807352 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTTAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
96807417 GTTGATTTTT
66 GTTGATTTTT
*
96807427 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
96807492 AGTTGATTTTT
65 AGTTGATTTTT
96807503 TT
1 TT
96807505 ACGAACATAA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
73 33 0.25
74 1 0.01
75 41 0.31
76 58 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:96807551 original size:239 final size:237
Alignment explanation
Indices: 96807269--96808152 Score: 1368
Period size: 239 Copynumber: 3.7 Consensus size: 237
96807259 AAATTGAAAA
* * *
96807269 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
1 AACAGAAATTGAAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
*
96807334 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTTAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
*
96807399 TCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCC
131 TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCC
96807464 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACG
194 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACG
*
96807508 AACATAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
1 AACAGAAATTGAA-AACCAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
96807572 TCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
65 TCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
96807637 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCT
130 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCT
96807702 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
195 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTACG
* *
96807747 AACAGAAATTGAAGAA-CAGAAATTGAAACGACCTCAGCATGTGAGTCGAGGCTCAACTCACCTC
1 AACAGAAATTGAA-AACCAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
* *
96807811 TCGCAATATGAGTTAATTTTTGACAAATAGAAATTTAAATTACCTCAGCGTGTCCCGAGGCTCAA
65 TCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAA
* * *
96807876 CTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAA--TAGAAATTACCTCAGCGTGTCC
130 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTA-AAAATACCTCAGCGTGTCC
* **
96807939 TAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTAAA
194 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACG
* * *
96807980 AACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCT
1 AACAGAAATTGAAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* * ** * * ** *
96808045 TGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
* *
96808110 TCACCTCTCGCAATATGATTTGATTTTTTTGAAAATCAGAAAT
131 TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAAT
96808153 AAAAACATCA
Statistics
Matches: 602, Mismatches: 35, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
232 2 0.00
233 139 0.23
235 14 0.02
237 76 0.13
238 51 0.08
239 318 0.53
240 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (237 bp):
AACAGAAATTGAAAACCAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACG
Found at i:96807579 original size:90 final size:88
Alignment explanation
Indices: 96807427--96807610 Score: 246
Period size: 90 Copynumber: 2.1 Consensus size: 88
96807417 GTTGATTTTT
* *
96807427 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
96807492 AGTTGATTTTTTTACGAACATAAA
66 AGTT-AATTTTTGACAAACAGAAA
* *
96807516 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
96807579 ATGAGTTAATTTTTGACAAACAGAAA
63 ATGAGTTAATTTTTGACAAACAGAAA
96807605 TTGAAA
1 TTGAAA
96807611 TTACCTCAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 14 0.17
89 33 0.40
90 34 0.41
91 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (88 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGACAAACAGAAA
Found at i:96807647 original size:73 final size:73
Alignment explanation
Indices: 96807516--96807739 Score: 340
Period size: 74 Copynumber: 3.0 Consensus size: 73
96807506 CGAACATAAA
* * **
96807516 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
96807581 GAGTTAATTT
64 GAGTTGATTT
* *
96807591 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
96807656 GTTGATTT
66 GTTGATTT
* *
96807664 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
96807729 AGTTGATTT
65 AGTTGATTT
96807738 TT
1 TT
96807740 TTTTACGAAC
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
73 53 0.39
74 58 0.42
75 26 0.19
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:96807765 original size:14 final size:14
Alignment explanation
Indices: 96807746--96807773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96807736 TTTTTTTTAC
96807746 GAACAGAAATTGAA
1 GAACAGAAATTGAA
96807760 GAACAGAAATTGAA
1 GAACAGAAATTGAA
96807774 ACGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:96807885 original size:73 final size:73
Alignment explanation
Indices: 96807793--96807976 Score: 323
Period size: 73 Copynumber: 2.5 Consensus size: 73
96807783 GCATGTGAGT
* **
96807793 CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAATAGAAATTTAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATAGAAATTACCTCA
96807858 GCGTGTCC
66 GCGTGTCC
96807866 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATAGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATAGAAATTACCTCA
96807931 GCGTGTCC
66 GCGTGTCC
**
96807939 TAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
96807977 AAAAACAGAA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 106 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATAGAAATTACCTCA
GCGTGTCC
Found at i:96807902 original size:165 final size:164
Alignment explanation
Indices: 96807597--96807904 Score: 501
Period size: 165 Copynumber: 1.9 Consensus size: 164
96807587 ATTTTTGACA
** * *
96807597 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAACGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
96807662 TTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
96807727 TGAGTTGATTTTTTTTTACGAACAGAAATTGAAG
131 TGAGTTGATTTTTTTTTACGAACAGAAATTGAAG
**
96807761 AACAGAAATTGAAACGACCTCAGCATGTGAGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAACGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
* * *
96807826 ATTTTTGACAAATAGAAATTT-AAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
64 ATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
96807890 TATGAGTTGATTTTT
129 TATGAGTTGATTTTT
96807905 GACAAATAGA
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
164 22 0.17
165 56 0.42
166 54 0.41
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (164 bp):
AACAGAAATTGAAACGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTTACGAACAGAAATTGAAG
Found at i:96807999 original size:14 final size:14
Alignment explanation
Indices: 96807977--96808008 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
96807967 AGTTGATTTT
96807977 AAAAACAGAAATTG
1 AAAAACAGAAATTG
*
96807991 AAAACCAGAAATTG
1 AAAAACAGAAATTG
96808005 AAAA
1 AAAA
96808009 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:96808107 original size:160 final size:158
Alignment explanation
Indices: 96807839--96808136 Score: 429
Period size: 160 Copynumber: 1.9 Consensus size: 158
96807829 TTTGACAAAT
* * * * *
96807839 AGAAATTTAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTT
**
96807904 TGACAAATAGAAATAGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
66 TGACAAATAGAAATAGAAACCACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
96807969 TTGATTTTAAAAACAGAAATTGAAAACC
131 TTGATTTTAAAAACAGAAATTGAAAACC
* *
96807997 AGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATT
1 AGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATT
* * *
96808062 TTTGATGAACATA-AATTA-AAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
64 TTTGA-CAA-ATAGAAATAGAAACCACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATA
*
96808125 TGATTTGATTTT
127 TGAGTTGATTTT
96808137 TTTGAAAATC
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
158 23 0.19
160 91 0.74
161 6 0.05
162 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (158 bp):
AGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTT
TGACAAATAGAAATAGAAACCACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTAAAAACAGAAATTGAAAACC
Found at i:96815691 original size:20 final size:20
Alignment explanation
Indices: 96815666--96815707 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
96815656 ATCCTCGTTC
96815666 ACCGGTCATTTTTCGACAGA
1 ACCGGTCATTTTTCGACAGA
96815686 ACCGGTCATTTTTCGACAGA
1 ACCGGTCATTTTTCGACAGA
96815706 AC
1 AC
96815708 ATAATGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (20 bp):
ACCGGTCATTTTTCGACAGA
Found at i:96816485 original size:12 final size:12
Alignment explanation
Indices: 96816465--96816500 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
96816455 TGGGATATGC
*
96816465 AATGTATGAATG
1 AATGCATGAATG
96816477 AATGCATGAATG
1 AATGCATGAATG
96816489 AATGCATGAATG
1 AATGCATGAATG
96816501 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:96818049 original size:16 final size:15
Alignment explanation
Indices: 96818028--96818075 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
96818018 GATGTGAATA
96818028 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
96818044 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
96818059 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
96818075 A
1 A
96818076 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:96818051 original size:24 final size:24
Alignment explanation
Indices: 96818024--96818079 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
96818014 TAATGATGTG
*
96818024 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
96818048 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
96818072 AATAATAA
1 AATAATAA
96818080 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:96818058 original size:8 final size:8
Alignment explanation
Indices: 96818024--96818075 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
96818014 TAATGATGTG
*
96818024 AATAATAA
1 AATATTAA
96818032 AATATATAA
1 AATAT-TAA
96818041 AATA-TAA
1 AATATTAA
96818048 AATATTAA
1 AATATTAA
*
96818056 AATATCAA
1 AATATTAA
*
96818064 AATATTAG
1 AATATTAA
96818072 AATA
1 AATA
96818076 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:96818342 original size:29 final size:31
Alignment explanation
Indices: 96818283--96818363 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
96818273 TATAGTTAAG
* * *
96818283 ATATATACATAAGATAACATGTAAAAAATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
*
96818314 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
* *
96818343 ATACATAAAATAGTATAATAT
1 ATATAT-AAATAATATAATAT
96818364 ATATATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 12 0.28
30 14 0.33
31 17 0.40
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (31 bp):
ATATATAAATAATATAATATGTAAAAAATAT
Found at i:96818350 original size:25 final size:25
Alignment explanation
Indices: 96818224--96818445 Score: 108
Period size: 25 Copynumber: 9.0 Consensus size: 25
96818214 TAAATACGTG
* *
96818224 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
96818249 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
96818274 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
96818296 ATAACATGTAAAAAATATATATATAAATAAT
1 ATAATAT-T----AA-AGATATATACATAAT
*
96818327 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
96818352 ATAGTA-TAATATATATATATATAAT
1 ATAATATTAA-AGATATATACATAAT
* *
96818377 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
96818400 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
96818422 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
96818445 A
1 A
96818446 ACAAAAAAGG
Statistics
Matches: 151, Mismatches: 29, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 27 0.18
24 11 0.07
25 58 0.38
26 4 0.03
30 2 0.01
31 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:96818366 original size:50 final size:46
Alignment explanation
Indices: 96818309--96818443 Score: 134
Period size: 50 Copynumber: 2.9 Consensus size: 46
96818299 ACATGTAAAA
*
96818309 AATATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTAT
1 AATATATATATATATAATATAATATT-AAGA-ATATACATAAAATA-T-T
* *
96818359 AATATATATATATATAATATAGA-ATTTAA-AATATACCTAATATATT
1 AATATATATATATATAATATA-ATA-TTAAGAATATACATAAAATATT
* *
96818405 AAAAGA-ATATATATAATATAATATTAAGAAATATA-ATAA
1 AATATATATATATATAATATAATATTAAG-AATATACATAA
96818444 TAACAAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
44 5 0.07
45 18 0.24
46 11 0.15
47 1 0.01
48 12 0.16
49 1 0.01
50 23 0.31
51 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (46 bp):
AATATATATATATATAATATAATATTAAGAATATACATAAAATATT
Found at i:96818968 original size:30 final size:30
Alignment explanation
Indices: 96818932--96819016 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
96818922 TAGGTACAAG
*
96818932 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
96818962 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
96818992 TGGTGGTGAAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
96819017 TGAGAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.21, C:0.04, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:96822392 original size:90 final size:87
Alignment explanation
Indices: 96822285--96822453 Score: 248
Period size: 89 Copynumber: 1.9 Consensus size: 87
96822275 ATCAAACTTA
* * * * *
96822285 ATCACTTTAATATTAAATTAATAAAATATTTATCAAGATAAATATTAGATTAAATTTAATGTTAA
1 ATCACTGTAATATTAAATTAATAAAATA-CTATCAACATAAATATTAAATTAAATTTAATATTAA
96822350 ATCTTATTAAAATAATAGAATGTTT
65 A-C-TATTAAAATAATAGAATGTTT
* *
96822375 ATCACTGTAATATTAAATTAATAAAATACTATTAACATAAATATTAAATTTAATTTAATATTAAA
1 ATCACTGTAATATTAAATTAATAAAATACTATCAACATAAATATTAAATTAAATTTAATATTAAA
96822440 CTATTAAAATAATA
66 CTATTAAAATAATA
96822454 TTAATTTTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
87 13 0.18
88 1 0.01
89 31 0.43
90 27 0.38
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (87 bp):
ATCACTGTAATATTAAATTAATAAAATACTATCAACATAAATATTAAATTAAATTTAATATTAAA
CTATTAAAATAATAGAATGTTT
Found at i:96824068 original size:12 final size:12
Alignment explanation
Indices: 96824051--96824081 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
96824041 GACCACACGC
96824051 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
96824063 CCGTGTGCTAGG
1 CCGTGTGCCAGG
96824075 CCGTGTG
1 CCGTGTG
96824082 AAAATGAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:96824225 original size:15 final size:14
Alignment explanation
Indices: 96824188--96824227 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
96824178 AGGGACGCAC
96824188 GGTC-GTGTCACCT
1 GGTCTGTGTCACCT
96824201 GGTCTGTGTCACCT
1 GGTCTGTGTCACCT
96824215 GGTCGTGTGTCAC
1 GGTC-TGTGTCAC
96824228 ACACGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 8 0.32
ACGTcount: A:0.07, C:0.28, G:0.33, T:0.33
Consensus pattern (14 bp):
GGTCTGTGTCACCT
Found at i:96825288 original size:25 final size:25
Alignment explanation
Indices: 96825260--96825315 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
96825250 AAACTCTTTT
96825260 GAGCTGAATATCAGTAAGCTCATAC
1 GAGCTGAATATCAGTAAGCTCATAC
* *
96825285 GAGCTGAGTATCGGTAAGCTCATAC
1 GAGCTGAATATCAGTAAGCTCATAC
96825310 GAGCTG
1 GAGCTG
96825316 CGGTGAGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (25 bp):
GAGCTGAATATCAGTAAGCTCATAC
Found at i:96827007 original size:15 final size:15
Alignment explanation
Indices: 96826983--96827014 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96826973 GATGTATGAA
*
96826983 AAATATAAAATACAT
1 AAATACAAAATACAT
96826998 AAATACAAAATACAT
1 AAATACAAAATACAT
96827013 AA
1 AA
96827015 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATACAAAATACAT
Found at i:96845705 original size:27 final size:26
Alignment explanation
Indices: 96845670--96845781 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
96845660 AGCATGGCTG
* *
96845670 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
96845696 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
96845724 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
96845751 TCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
96845778 CCAG
1 CCAG
96845782 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:96845761 original size:54 final size:54
Alignment explanation
Indices: 96845670--96845781 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
96845660 AGCATGGCTG
* * *
96845670 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* * * *
96845724 CCAGAACAGAAATATGTGGCAGAGCCATCAGAT-CAGATAATTATGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
96845778 CCAG
1 CCAG
96845782 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:96847244 original size:24 final size:24
Alignment explanation
Indices: 96847212--96847285 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
96847202 ACATAGTTCA
96847212 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
96847236 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
96847260 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
96847284 CC
1 CC
96847286 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:96847955 original size:23 final size:24
Alignment explanation
Indices: 96847907--96847957 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
96847897 TTCGTCAGAG
* *
96847907 TCCTGATATAGGCTCTTATGAGCT
1 TCCTGACATAGGCTCTTATGAACT
96847931 TCCTGACAT-GGCTCGTT-TGAACT
1 TCCTGACATAGGCTC-TTATGAACT
96847954 TCCT
1 TCCT
96847958 TTTAAGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (24 bp):
TCCTGACATAGGCTCTTATGAACT
Found at i:96848031 original size:23 final size:24
Alignment explanation
Indices: 96847986--96848031 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
96847976 CTTGTTACAT
*
96847986 GGCTCTTTGTGAACATTCCTGATA
1 GGCTCTTCGTGAACATTCCTGATA
*
96848010 GGCTCTTCGTGAGC-TTCCTGAT
1 GGCTCTTCGTGAACATTCCTGAT
96848032 TAAAAGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (24 bp):
GGCTCTTCGTGAACATTCCTGATA
Found at i:96849499 original size:31 final size:31
Alignment explanation
Indices: 96849464--96849554 Score: 73
Period size: 31 Copynumber: 2.9 Consensus size: 31
96849454 ATGATGCTAG
*
96849464 AGATATTTTTATATTTTATAAT-TATTTAATT
1 AGATATTTTTATATTTTATAATAT-TTTAATA
** *
96849495 AGATAAATAT-TATTTTATTAATATTTTAATA
1 AGATATTTTTATATTTTA-TAATATTTTAATA
96849526 AGATATATTTTTATTATTTTAT--TATTTTA
1 AG--ATATTTTTA-TATTTTATAATATTTTA
96849555 TTAGTATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
30 7 0.15
31 19 0.40
32 8 0.17
33 5 0.11
34 1 0.02
35 7 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (31 bp):
AGATATTTTTATATTTTATAATATTTTAATA
Found at i:96851389 original size:46 final size:46
Alignment explanation
Indices: 96851332--96851590 Score: 342
Period size: 46 Copynumber: 5.6 Consensus size: 46
96851322 ATGAAATGTG
96851332 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * ** *
96851378 TGAGACCATGGTTGAGAGATACCATGGCAA-GATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACG-TGACATGAAAAGAA
* * * *
96851424 TAAGACCATGTTTGAAAGATACCATGACAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
96851470 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * *
96851516 TAAGACCATGGTTGAAAGATACCAAGGCAACATGATA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
* * *
96851562 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
96851591 TCATGTCAAA
Statistics
Matches: 186, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
45 6 0.03
46 179 0.96
47 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:96851570 original size:138 final size:138
Alignment explanation
Indices: 96851322--96851580 Score: 412
Period size: 138 Copynumber: 1.9 Consensus size: 138
96851312 GCTCTCTAAA
** *
96851322 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATGAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
* * * * *
96851387 GGTTGAGAGATACCATGGCAAGATGACGGGAAATGAATAAGACCAT-GTTTGAAAGATACCATGA
66 GGTTGAAAGATACCAAGGCAACATGACAGAAAATGAATAAGACCATAG-TTGAAAGATACCATGA
96851451 CAGCGTGAC
130 CAGCGTGAC
96851460 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
* *
96851525 GGTTGAAAGATACCAAGGCAACATGATAGAAAATGAGTAAGACCATAGTTGAAAGA
66 GGTTGAAAGATACCAAGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGA
96851581 CACTATGGCA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
138 109 0.99
139 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (138 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
GGTTGAAAGATACCAAGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGATACCATGAC
AGCGTGAC
Found at i:96852891 original size:25 final size:25
Alignment explanation
Indices: 96852863--96852910 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
96852853 GACCTCAGTA
*
96852863 TGCTCTCTGATTACTAGTACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
*
96852888 TGCTCTCTGATTATTAGCACATT
1 TGCTCTCTGATTACTAGCACATT
96852911 CAACACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:96854581 original size:9 final size:9
Alignment explanation
Indices: 96854567--96854598 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
96854557 ATAAGATATA
96854567 TTATTATTT
1 TTATTATTT
96854576 TTATTATTT
1 TTATTATTT
96854585 TTATTA-TT
1 TTATTATTT
96854593 TTATTA
1 TTATTA
96854599 GTATGTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTATTATTT
Found at i:96854587 original size:31 final size:31
Alignment explanation
Indices: 96854500--96854587 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
96854490 GATGCTAGAG
* * *
96854500 ATATTTTTATATTTTATAATTATTTAATTAGAT
1 ATATTATTAT-TTTTATTATT-TTTAATAAGAT
*
96854533 A-AATATTA-TTTTATTAATATTTTAATAAGAT
1 ATATTATTATTTTTATT-AT-TTTTAATAAGAT
96854564 ATATTATTATTTTTATTATTTTTA
1 ATATTATTATTTTTATTATTTTTA
96854588 TTATTTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
30 6 0.13
31 18 0.39
32 14 0.30
33 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
ATATTATTATTTTTATTATTTTTAATAAGAT
Found at i:96856472 original size:21 final size:21
Alignment explanation
Indices: 96856448--96856519 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
96856438 CTCTCTAAAA
96856448 TGAAATGTGTCAGACCATGGT
1 TGAAATGTGTCAGACCATGGT
** *
96856469 TGAAA-GATACCATGACAACATGAT
1 TGAAATG-TGTCA-GAC--CATGGT
*
96856493 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTCAGACCATGGT
96856515 TGAAA
1 TGAAA
96856520 GATACCATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.34
22 8 0.21
24 8 0.21
25 7 0.18
26 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTCAGACCATGGT
Found at i:96856514 original size:46 final size:46
Alignment explanation
Indices: 96856447--96856669 Score: 331
Period size: 46 Copynumber: 4.8 Consensus size: 46
96856437 GCTCTCTAAA
* *
96856447 ATGAAATGTGTCAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
96856493 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
96856539 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
96856585 ATGAAATGAATAAGACCATGGTTGAGAGATACCATGGCAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
**
96856632 A-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
96856670 GCGTTAGGGG
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 163 0.99
47 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:96857796 original size:51 final size:51
Alignment explanation
Indices: 96857720--96857821 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
96857710 GACTAACTAC
*
96857720 TTTGTTTTAACTAAAAATTACCCAAGTAAAATGAAATGAAAGGAAAAAATA
1 TTTGTTTTAACTAAAAATTACCCAAGTAAAATGAAAGGAAAGGAAAAAATA
96857771 TTTGTTTTAACTAAAAATTACCCAAGTAAAATGAAAGGAAAGGAAAAAATA
1 TTTGTTTTAACTAAAAATTACCCAAGTAAAATGAAAGGAAAGGAAAAAATA
96857822 GAAAAAAGCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (51 bp):
TTTGTTTTAACTAAAAATTACCCAAGTAAAATGAAAGGAAAGGAAAAAATA
Found at i:96863149 original size:19 final size:19
Alignment explanation
Indices: 96863127--96863165 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
96863117 CAGTACATTA
*
96863127 AATATTATTCTTTGATAAT
1 AATATTATTCATTGATAAT
96863146 AATATTATTCATTGATAAT
1 AATATTATTCATTGATAAT
96863165 A
1 A
96863166 TGTAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
AATATTATTCATTGATAAT
Found at i:96866930 original size:8 final size:8
Alignment explanation
Indices: 96866885--96866953 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 8
96866875 AAATTTAAAA
96866885 TTATA-TT
1 TTATATTT
96866892 TTA-ATTT
1 TTATATTT
96866899 TTATGATTT
1 TTAT-ATTT
* *
96866908 TGTATGTTC
1 T-TATATTT
96866917 TTATATTT
1 TTATATTT
96866925 TTATATTT
1 TTATATTT
96866933 GTTATAATTT
1 -TTAT-ATTT
96866943 TTATATATT
1 TTATAT-TT
96866952 TT
1 TT
96866954 GAATTACTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 1 0.02
7 8 0.16
8 15 0.29
9 20 0.39
10 7 0.14
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (8 bp):
TTATATTT
Found at i:96866964 original size:21 final size:19
Alignment explanation
Indices: 96866940--96866993 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
96866930 TTTGTTATAA
*
96866940 TTTTTATATATTTTGAATTAC
1 TTTTTATA-ATTTTAAATT-C
* *
96866961 TTTTATAAAATTTTAAATTT
1 TTTT-TATAATTTTAAATTC
96866981 TTTTTATAATTTT
1 TTTTTATAATTTT
96866994 TAGATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.29
20 4 0.14
21 13 0.46
22 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTAAATTC
Found at i:96867212 original size:127 final size:127
Alignment explanation
Indices: 96867075--96867330 Score: 451
Period size: 127 Copynumber: 2.0 Consensus size: 127
96867065 TTTATTTGTC
96867075 TAGATCCATTTGAAAGTTTATTTTTTTAAAAA-ATATATTAACTTTTAGGATTTAGTTTATTTTT
1 TAGATCCATTTGAAAGTTTA-TTTTTTAAAAATATATATTAACTTTTAGGATTTAGTTTATTTTT
* *
96867139 TAAAAATATATGTTGATGTGTCACCATGTGGCATGTCACATGTCAATTTTTTATTGTTTTCAT
65 TAAAAATATATGTTGATGTGTCACCATGTAGCATGCCACATGTCAATTTTTTATTGTTTTCAT
* * *
96867202 TAGATTCATTTGAACGTTTATTTTTTAAAAATATATATTAACTTTTAGGATTTATTTTATTTTTT
1 TAGATCCATTTGAAAGTTTATTTTTTAAAAATATATATTAACTTTTAGGATTTAGTTTATTTTTT
96867267 AAAAATATATGTTGATGTGTCACCATGTAGCATGCCACATGTCAATTTTTTATTGTTTTCAT
66 AAAAATATATGTTGATGTGTCACCATGTAGCATGCCACATGTCAATTTTTTATTGTTTTCAT
96867329 TA
1 TA
96867331 ACATTCGTTA
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 11 0.09
127 112 0.91
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (127 bp):
TAGATCCATTTGAAAGTTTATTTTTTAAAAATATATATTAACTTTTAGGATTTAGTTTATTTTTT
AAAAATATATGTTGATGTGTCACCATGTAGCATGCCACATGTCAATTTTTTATTGTTTTCAT
Found at i:96871478 original size:94 final size:94
Alignment explanation
Indices: 96871317--96871506 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 94
96871307 AGTCAAAGGA
* *
96871317 AAACCATAGCTATTTTATCAATCTAACTCAAAAAATTTTGATATTTTTAAAAATAATTCAGGTTC
1 AAACCATAGCTATTTTATCAATCTAACTCAAAAAATTTTGATATTTATAAAAATAACTCAGGTTC
*
96871382 GAAAACAATCATCAAAATAATCTGAAATT
66 GAAAACAATCATCAAAATAATCTAAAATT
* *
96871411 AAACCATGGCTATTTTATCAATCTAACTCAAAAAGTTTTGATATTTATAAAAATAACTCAGGTTC
1 AAACCATAGCTATTTTATCAATCTAACTCAAAAAATTTTGATATTTATAAAAATAACTCAGGTTC
96871476 GAAAACAATCATCAAAATAATCTAAAATT
66 GAAAACAATCATCAAAATAATCTAAAATT
96871505 AA
1 AA
96871507 TAGTATTTTT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (94 bp):
AAACCATAGCTATTTTATCAATCTAACTCAAAAAATTTTGATATTTATAAAAATAACTCAGGTTC
GAAAACAATCATCAAAATAATCTAAAATT
Found at i:96875504 original size:27 final size:27
Alignment explanation
Indices: 96875474--96875581 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 27
96875464 CAGAAAAATA
*
96875474 TAAATTAAAATGGTAAGAAAGATAATT
1 TAAATTAAAATGGAAAGAAAGATAATT
*
96875501 TAAA-TGAAAT-GAGAA-AAA-A-AA--
1 TAAATTAAAATGGA-AAGAAAGATAATT
* **
96875522 TAAATTAAAATGGAAAGAAAGAAAAAAA
1 TAAATTAAAATGGAAAGAAAG-ATAATT
96875550 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAATGGAAAGAAAGATAATT
96875577 TAAAT
1 TAAAT
96875582 GAAATGAGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
21 4 0.06
22 7 0.11
23 7 0.11
24 1 0.02
25 5 0.08
26 9 0.14
27 12 0.18
28 21 0.32
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.22
Consensus pattern (27 bp):
TAAATTAAAATGGAAAGAAAGATAATT
Found at i:96875537 original size:21 final size:21
Alignment explanation
Indices: 96875467--96875537 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 21
96875457 TTAATATCAG
*
96875467 AAAAATATAAATTAAAATGGTA
1 AAAAAAATAAATTAAAATGG-A
*
96875489 AGAAAGATAATTTAAA-TGAAATGAGA
1 A-AAA-A-AA--TAAATTAAAATG-GA
96875515 AAAAAAATAAATTAAAATGGA
1 AAAAAAATAAATTAAAATGGA
96875536 AA
1 AA
96875538 GAAAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
21 8 0.21
22 7 0.18
23 5 0.13
24 2 0.05
25 4 0.10
26 8 0.21
27 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (21 bp):
AAAAAAATAAATTAAAATGGA
Found at i:96875547 original size:28 final size:28
Alignment explanation
Indices: 96875515--96875571 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
96875505 TGAAATGAGA
96875515 AAAAAAATAAATTAAAATGGAAAGAAAG
1 AAAAAAATAAATTAAAATGGAAAGAAAG
96875543 AAAAAAATAAATTAAAATGGAAAGAAAG
1 AAAAAAATAAATTAAAATGGAAAGAAAG
96875571 A
1 A
96875572 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAAAAATAAATTAAAATGGAAAGAAAG
Found at i:96875553 original size:76 final size:74
Alignment explanation
Indices: 96875465--96875763 Score: 378
Period size: 76 Copynumber: 4.0 Consensus size: 74
96875455 AATTAATATC
* *
96875465 AGAAAAATATAAATTAAAATGGTAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATAAATTAA
1 AGAAAAAAATAAATTAAAATGG-AAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAA
96875530 AATGGAAAGAA
65 AAT-GAAAGAA
* * *
96875541 AGAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGGAAGAAATTAAATTTA
1 AGAAAAAAATAAATTAAAATGG-AAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAA
*
96875606 AATGAAA-TA
65 AATGAAAGAA
* * * *
96875615 AGAAAAAAATTAAATTTACATGG-ACAAA-A-AATATAAATGAAATGAGAAAAAAATTAAATTAA
1 AGAAAAAAA-TAAATTAAAATGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAA
96875677 AATGAAATG--
65 AATGAAA-GAA
*
96875686 AGAAAAAATTAAATTAAAATGGAA-ACAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAA
1 AGAAAAAAATAAATTAAAATGGAAGA-AAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAA
*
96875750 AATGGAAACAA
65 AAT-GAAAGAA
96875761 AGA
1 AGA
96875764 TAATTTAAAC
Statistics
Matches: 194, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
70 12 0.06
71 47 0.24
72 2 0.01
73 39 0.20
74 14 0.07
75 18 0.09
76 62 0.32
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (74 bp):
AGAAAAAAATAAATTAAAATGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTAAA
ATGAAAGAA
Found at i:96875594 original size:27 final size:25
Alignment explanation
Indices: 96875488--96875863 Score: 160
Period size: 27 Copynumber: 15.3 Consensus size: 25
96875478 TTAAAATGGT
96875488 AAGAAAGATAATTTAAATGAAATGAG
1 AAGAAA-ATAATTTAAATGAAATGAG
* *
96875514 AAAAAAAATAAATTAAAATGGAAA-GA-
1 -AAGAAAAT-AATTTAAAT-GAAATGAG
* *
96875540 AAGAAAA-AA-ATAAATTAAAATG-G
1 AAGAAAATAATTTAAA-TGAAATGAG
96875563 AAAGAAAGATAATTTAAATGAAATGAGG
1 -AAGAAA-ATAATTTAAATGAAATGA-G
*
96875591 AAGAAATTAAATTTAAATGAAAT---
1 AAGAAAAT-AATTTAAATGAAATGAG
* * *
96875614 AAGAAAA-AAATTAAATTTACATG-G
1 AAGAAAATAATTTAAA-TGAAATGAG
* *
96875638 -ACAAAA-AATATAAATGAAATGAG
1 AAGAAAATAATTTAAATGAAATGAG
* *
96875661 AAAAAAATTAAATTAAAATGAAAT--G
1 AAGAAAA-T-AATTTAAATGAAATGAG
*
96875686 -AGAAAA-AA-TTAAATTAAAATG-G
1 AAGAAAATAATTTAAA-TGAAATGAG
96875708 AA-ACAAGATAATTTAAATGAAATGAG
1 AAGA-AA-ATAATTTAAATGAAATGAG
*
96875734 -A-AAAA-AA-TTAAATTAAAATG-G
1 AAGAAAATAATTTAAA-TGAAATGAG
* *
96875755 AAACAAAGATAATTTAAACGAAATGAG
1 -AAGAAA-ATAATTTAAATGAAATGAG
* *
96875782 AAAAAAATTAATTTTAAATGTAA--A-
1 AAGAAAA-TAA-TTTAAATGAAATGAG
* *
96875806 AA-AAGATAATTTAAATGAAATGAT
1 AAGAAAATAATTTAAATGAAATGAG
* *
96875830 AAAAAAATAAATTTAAATGAAATGGG
1 AAGAAAAT-AATTTAAATGAAATGAG
*
96875856 AAAAAAAT
1 AAGAAAAT
96875864 TTTAATGGAA
Statistics
Matches: 270, Mismatches: 36, Indels: 87
0.69 0.09 0.22
Matches are distributed among these distances:
20 4 0.01
21 30 0.11
22 28 0.10
23 31 0.11
24 26 0.10
25 25 0.09
26 55 0.20
27 66 0.24
28 5 0.02
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (25 bp):
AAGAAAATAATTTAAATGAAATGAG
Found at i:96875740 original size:48 final size:47
Alignment explanation
Indices: 96875541--96875848 Score: 315
Period size: 48 Copynumber: 6.5 Consensus size: 47
96875531 ATGGAAAGAA
96875541 AGAAAAAAA-TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATG
1 AGAAAAAAATTAAATTAAAATGGAAA-AAAGATAATTTAAATGAAATG
* * * * * * * *
96875588 AGGAAGAAATTAAATTTAAAT-GAAATAAGAAAAAAATTAAATTTACATG
1 AGAAAAAAATTAAATTAAAATGGAAA-AA-AGATAATTTAAA-TGAAATG
* *
96875637 -GACAAAAAATATAAA-TGAAATGAGAAAAAA-ATTAAATTAAAATGAAATG
1 AGA-AAAAAAT-TAAATTAAAATG-GAAAAAAGA-T-AATTTAAATGAAATG
*
96875686 AG-AAAAAATTAAATTAAAATGGAAACAAGATAATTTAAATGAAATG
1 AGAAAAAAATTAAATTAAAATGGAAAAAAGATAATTTAAATGAAATG
*
96875732 AGAAAAAAATTAAATTAAAATGGAAACAAAGATAATTTAAACGAAATG
1 AGAAAAAAATTAAATTAAAATGGAAA-AAAGATAATTTAAATGAAATG
* * *
96875780 AGAAAAAAATTAATTTTAAATGTAAAAAAAGATAATTTAAATGAAATG
1 AGAAAAAAATTAAATTAAAATG-GAAAAAAGATAATTTAAATGAAATG
* *
96875828 ATAAAAAAA-TAAATTTAAATG
1 AGAAAAAAATTAAATTAAAATG
96875849 AAATGGGAAA
Statistics
Matches: 218, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
46 16 0.07
47 58 0.27
48 102 0.47
49 25 0.11
50 13 0.06
51 4 0.02
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (47 bp):
AGAAAAAAATTAAATTAAAATGGAAAAAAGATAATTTAAATGAAATG
Found at i:96875757 original size:21 final size:22
Alignment explanation
Indices: 96875610--96875849 Score: 118
Period size: 22 Copynumber: 10.3 Consensus size: 22
96875600 AATTTAAATG
* *
96875610 AAATAAGAAAAAAATTAAATTT
1 AAATGAGAAAAAAATTAAATTA
* *
96875632 ACATG-GACAAAAAATATAAA-TG
1 AAATGAGA-AAAAAAT-TAAATTA
96875654 AAATGAGAAAAAAATTAAATTA
1 AAATGAGAAAAAAATTAAATTA
96875676 AAATGAAATGAGAAAAAATTAAATTA
1 AAATG--A-GA-AAAAAATTAAATTA
*
96875702 AAATG-GAAACAAGATAATTTAAA-TG
1 AAATGAG-AA-AA-A-AA-TTAAATTA
96875727 AAATGAGAAAAAAATTAAATTA
1 AAATGAGAAAAAAATTAAATTA
*
96875749 AAATG-GAAACAAAGA-TAATTTAAA
1 AAATGAGAAA-AAA-ATTAAATT--A
* *
96875773 CGAAATGAGAAAAAAATTAATTTT
1 --AAATGAGAAAAAAATTAAATTA
* *
96875797 AAATGTAAAAAAAGATAATTTAAA-TG
1 AAATG--AGAAAA-A-AA-TTAAATTA
* *
96875823 AAATGATAAAAAAA-TAAATTT
1 AAATGAGAAAAAAATTAAATTA
96875844 AAATGA
1 AAATGA
96875850 AATGGGAAAA
Statistics
Matches: 175, Mismatches: 14, Indels: 59
0.71 0.06 0.24
Matches are distributed among these distances:
20 4 0.02
21 22 0.13
22 53 0.30
23 12 0.07
24 15 0.09
25 14 0.08
26 47 0.27
27 8 0.05
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (22 bp):
AAATGAGAAAAAAATTAAATTA
Found at i:96875865 original size:48 final size:46
Alignment explanation
Indices: 96875541--96875896 Score: 218
Period size: 48 Copynumber: 7.6 Consensus size: 46
96875531 ATGGAAAGAA
* *
96875541 AGAAAAAAATAAATTAAAATGGAAA-GAAAGATAATTTAAATGAAATG
1 AGAAAAAAATAAATTTAAAT-GAAATGAAA-AAAATTTAAATGAAATG
* * * *
96875588 AGGAAGAAATTAAATTTAAATGAAATAAGAAAAAAA-TTAAATTTACATG
1 A-GAAAAAAATAAATTTAAATGAAAT--GAAAAAAATTTAAA-TGAAATG
* * * *
96875637 -GACAAAAAATATAAATGAAATGAGAA-AAAAATTAAATTAAAATGAAATG
1 AGA-AAAAAATA-AATTTAAATGA-AATGAAAA--AAATTTAAATGAAATG
* * * * *
96875686 AGAAAAAATTAAATTAAAATGGAAA-CAAGATAATTTAAATGAAATG
1 AGAAAAAAATAAATTTAAAT-GAAATGAAAAAAATTTAAATGAAATG
* * * *
96875732 AGAAAAAAATTAAATTAAAATGGAAA-CAAAGATAATTTAAACGAAATG
1 AGAAAAAAA-TAAATTTAAAT-GAAATGAAA-AAAATTTAAATGAAATG
*
96875780 AGAAAAAAATTAATTTTAAATGTAAA--AAAAGATAATTTAAATGAAATG
1 AGAAAAAAA-TAAATTTAAATG-AAATGAAAA-A-AATTTAAATGAAATG
*
96875828 ATAAAAAAATAAATTTAAATGAAATGGGAAAAAAATTT---T--AATG
1 AGAAAAAAATAAATTTAAATGAAAT--GAAAAAAATTTAAATGAAATG
*
96875871 -GAAAAAAATATAATTTAGATGAAATG
1 AGAAAAAAATA-AATTTAAATGAAATG
96875897 GAAATGAAAT
Statistics
Matches: 254, Mismatches: 32, Indels: 52
0.75 0.09 0.15
Matches are distributed among these distances:
41 1 0.00
42 9 0.04
43 17 0.07
45 1 0.00
46 26 0.10
47 45 0.18
48 104 0.41
49 35 0.14
50 16 0.06
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (46 bp):
AGAAAAAAATAAATTTAAATGAAATGAAAAAAATTTAAATGAAATG
Found at i:96875905 original size:11 final size:10
Alignment explanation
Indices: 96875889--96875998 Score: 85
Period size: 11 Copynumber: 10.1 Consensus size: 10
96875879 TATAATTTAG
96875889 ATGAAATGGAA
1 ATGAAAT-GAA
96875900 ATGAAATGAA
1 ATGAAATGAA
*
96875910 ATGGAAATTCAA
1 AT-GAAA-TGAA
96875922 ATGAAATGAA
1 ATGAAATGAA
*
96875932 ATAGAAATTCAA
1 AT-GAAA-TGAA
*
96875944 ATTAAATGAA
1 ATGAAATGAA
*
96875954 ATAGAAATTCAA
1 AT-GAAA-TGAA
*
96875966 ATTAAATGGAA
1 ATGAAAT-GAA
*
96875977 TTGAAATAGAA
1 ATGAAAT-GAA
96875988 ATGAAATGAA
1 ATGAAATGAA
96875998 A
1 A
96875999 AAAAAAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
10 20 0.25
11 44 0.56
12 15 0.19
ACGTcount: A:0.57, C:0.03, G:0.16, T:0.24
Consensus pattern (10 bp):
ATGAAATGAA
Found at i:96875907 original size:5 final size:5
Alignment explanation
Indices: 96875889--96875998 Score: 85
Period size: 5 Copynumber: 20.2 Consensus size: 5
96875879 TATAATTTAG
*
96875889 ATGAA ATGGAA ATGAA ATGAA ATGGAA ATTCAA ATGAA ATGAA ATAGAA
1 ATGAA AT-GAA ATGAA ATGAA AT-GAA A-TGAA ATGAA ATGAA AT-GAA
* * * * *
96875938 ATTCAA ATTAA ATGAA ATAGAA ATTCAA ATTAA ATGGAA TTGAA ATAGAA
1 A-TGAA ATGAA ATGAA AT-GAA A-TGAA ATGAA AT-GAA ATGAA AT-GAA
96875988 ATGAA ATGAA A
1 ATGAA ATGAA A
96875999 AAAAAAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
5 49 0.57
6 34 0.40
7 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.16, T:0.24
Consensus pattern (5 bp):
ATGAA
Found at i:96875916 original size:22 final size:22
Alignment explanation
Indices: 96875898--96875998 Score: 139
Period size: 22 Copynumber: 4.6 Consensus size: 22
96875888 GATGAAATGG
*
96875898 AAATGAAATGAAATGGAAATTC
1 AAATGAAATGAAATAGAAATTC
96875920 AAATGAAATGAAATAGAAATTC
1 AAATGAAATGAAATAGAAATTC
*
96875942 AAATTAAATGAAATAGAAATTC
1 AAATGAAATGAAATAGAAATTC
* * * **
96875964 AAATTAAATGGAATTGAAATAG
1 AAATGAAATGAAATAGAAATTC
96875986 AAATGAAATGAAA
1 AAATGAAATGAAA
96875999 AAAAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.58, C:0.03, G:0.15, T:0.24
Consensus pattern (22 bp):
AAATGAAATGAAATAGAAATTC
Found at i:96875967 original size:28 final size:27
Alignment explanation
Indices: 96875914--96875989 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
96875904 AATGAAATGG
*
96875914 AAATTCAAATGAAAT-GAAATAGAAATT
1 AAATT-AAATGAAATAGAAATACAAATT
*
96875941 CAAATTAAATGAAATAGAAATTCAAATT
1 -AAATTAAATGAAATAGAAATACAAATT
* *
96875969 AAATGGAATTGAAATAGAAAT
1 AAAT-TAAATGAAATAGAAAT
96875990 GAAATGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.31
28 29 0.69
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (27 bp):
AAATTAAATGAAATAGAAATACAAATT
Found at i:96876433 original size:20 final size:19
Alignment explanation
Indices: 96876381--96876437 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
96876371 CTAGTTAATA
96876381 TGAAAAAATATGAAA-TGAAT
1 TGAAAAAA-AT-AAATTGAAT
*
96876401 TGAAAATAA-AAATTGAAT
1 TGAAAAAAATAAATTGAAT
96876419 TGAAAAAAGATAAATTGAA
1 TGAAAAAA-ATAAATTGAA
96876438 ATGAGACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 2 0.06
20 15 0.47
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (19 bp):
TGAAAAAAATAAATTGAAT
Found at i:96876517 original size:18 final size:20
Alignment explanation
Indices: 96876480--96876521 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
96876470 TGTATATTAG
*
96876480 GAAAAAAAATAAATTTAAAT
1 GAAAAAAAATAAATTGAAAT
96876500 GAAAAAAAAT-AA-TGAAAT
1 GAAAAAAAATAAATTGAAAT
96876518 GAAA
1 GAAA
96876522 TGTTAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
GAAAAAAAATAAATTGAAAT
Found at i:96876520 original size:5 final size:5
Alignment explanation
Indices: 96876510--96876587 Score: 57
Period size: 5 Copynumber: 14.0 Consensus size: 5
96876500 GAAAAAAAAT
* *
96876510 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATTA AATCA AATGA
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATGA AATGA
*
96876560 AATGTTA AATGA ATATAA AATGA AATGA
1 AATG--A AATGA A-ATGA AATGA AATGA
96876588 TGATTATGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 34 0.56
6 14 0.23
7 13 0.21
ACGTcount: A:0.56, C:0.01, G:0.14, T:0.28
Consensus pattern (5 bp):
AATGA
Found at i:96876580 original size:28 final size:28
Alignment explanation
Indices: 96876526--96876587 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
96876516 ATGAAATGTT
*
96876526 AAATGAAATATGAATATGAAATTAAATC
1 AAATGAAATATGAATATGAAATAAAATC
* * *
96876554 AAATGAAATGTTAA-ATGAATATAAAATG
1 AAATGAAATATGAATATGAA-ATAAAATC
96876582 AAATGA
1 AAATGA
96876588 TGATTATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (28 bp):
AAATGAAATATGAATATGAAATAAAATC
Found at i:96876698 original size:21 final size:19
Alignment explanation
Indices: 96876623--96876721 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 19
96876613 AAATGAAAAT
* *
96876623 AAATTATAAACTTAAATGA
1 AAATAATAAATTTAAATGA
* * * *
96876642 AAACAA-ATACTGAAATGA
1 AAATAATAAATTTAAATGA
96876660 AAATAA-AAATTTTGAAATGA
1 AAATAATAAA-TTT-AAATGA
96876680 GAAATAATTAAATTTAAATGCA
1 -AAATAA-TAAATTTAAATG-A
*
96876702 AAAAAAT-AATTTAAATGA
1 AAATAATAAATTTAAATGA
96876720 AA
1 AA
96876722 TGGAAATGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
18 20 0.31
19 15 0.23
20 7 0.11
21 16 0.25
22 4 0.06
23 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (19 bp):
AAATAATAAATTTAAATGA
Found at i:96876735 original size:17 final size:16
Alignment explanation
Indices: 96876713--96876811 Score: 63
Period size: 16 Copynumber: 6.6 Consensus size: 16
96876703 AAAAATAATT
96876713 TAAATGAAATGGAAATG
1 TAAATGAAAT-GAAATG
96876730 TAAATGAAATGAAATG
1 TAAATGAAATGAAATG
* *
96876746 -AAA--CAA--AAATA
1 TAAATGAAATGAAATG
96876757 TAAATGAAATG-AATAG
1 TAAATGAAATGAAAT-G
*
96876773 -GAA-GAAATGAAATG
1 TAAATGAAATGAAATG
* *
96876787 CAAATGAAATATAAATG
1 TAAATGAAAT-GAAATG
96876804 -AAATGAAA
1 TAAATGAAA
96876812 AAAAAAGAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
11 4 0.06
12 3 0.05
13 2 0.03
14 9 0.14
15 13 0.20
16 19 0.29
17 15 0.23
ACGTcount: A:0.61, C:0.02, G:0.17, T:0.20
Consensus pattern (16 bp):
TAAATGAAATGAAATG
Found at i:96876738 original size:11 final size:10
Alignment explanation
Indices: 96876714--96876811 Score: 74
Period size: 11 Copynumber: 9.3 Consensus size: 10
96876704 AAAATAATTT
96876714 AAATGAAATGG
1 AAATGAAAT-G
96876725 AAATGTAAATG
1 AAATG-AAATG
96876736 AAATGAAATG
1 AAATGAAATG
** *
96876746 AAACAAAAATAT
1 AAA-TGAAAT-G
96876758 AAATGAAATG
1 AAATGAAATG
*
96876768 -AATAGGAA-G
1 AAAT-GAAATG
96876777 AAATGAAATG
1 AAATGAAATG
*
96876787 CAAATGAAATAT
1 -AAATGAAAT-G
96876799 AAATGAAATG
1 AAATGAAATG
96876809 AAA
1 AAA
96876812 AAAAAAGAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
9 7 0.10
10 18 0.26
11 37 0.54
12 7 0.10
ACGTcount: A:0.61, C:0.02, G:0.17, T:0.19
Consensus pattern (10 bp):
AAATGAAATG
Found at i:96876739 original size:5 final size:5
Alignment explanation
Indices: 96876714--96876811 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
96876704 AAAATAATTT
** *
96876714 AAATG AAATGG AAATG TAAATG AAATG AAATG AAACAA AAATAT AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAATG AAA-TG AAAT-G AAATG
* *
96876763 AAATG -AATAG GAA-G AAATG AAATG CAAATG AAATAT AAATG AAATG
1 AAATG AAAT-G AAATG AAATG AAATG -AAATG AAAT-G AAATG AAATG
96876809 AAA
1 AAA
96876812 AAAAAAGAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
4 6 0.08
5 42 0.55
6 28 0.37
ACGTcount: A:0.61, C:0.02, G:0.17, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:96881818 original size:25 final size:25
Alignment explanation
Indices: 96881784--96881834 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
96881774 GATATTTTTC
*
96881784 CATCGGCACCTTTGATCATGCAATA
1 CATCGGCACCTTTGATCATACAATA
96881809 CATCGGCACCTTTGATCATACAATA
1 CATCGGCACCTTTGATCATACAATA
96881834 C
1 C
96881835 CCATTAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (25 bp):
CATCGGCACCTTTGATCATACAATA
Found at i:96882365 original size:90 final size:89
Alignment explanation
Indices: 96882271--96882643 Score: 369
Period size: 91 Copynumber: 4.1 Consensus size: 89
96882261 CAGATGGGTA
* * * * * *
96882271 AAATTAATACACGAAAATTTTAAATTCAAAC-TACAT-ATAATACAGATTAAATTAAATTCACAT
1 AAATTAATACACGAAAATTTAAAAATGAAACTTACATCATAA-ACA-ATTATATTAAATTTACAG
*
96882334 ATACAAAAAAAATACAAATATTCTAAT
64 ATA-AAAAAAAATACAAATATTCTAAG
* * * * *
96882361 AAATTAATACACGAAAATATAAAAATGAAACCTTAAATCCTAAACAATTGTATTAAATTTACAGG
1 AAATTAATACACGAAAATTTAAAAATGAAA-CTTACATCATAAACAATTATATTAAATTTACAGA
* *
96882426 TATAATAAAATA-AAATATTCTAAG
65 TAAAAAAAAATACAAATATTCTAAG
* * * * *
96882450 AAATTAATACACGAAAATATAAAAAATGATACCTTACATCGTAAACAACTATATTAAATTTATAG
1 AAATTAATACACGAAAAT-TTAAAAATGA-AACTTACATCATAAACAATTATATTAAATTTACAG
*
96882515 ATATAAAAAAAATACAAACATTCTAAG
64 ATA-AAAAAAAATACAAATATTCTAAG
* * * * * *
96882542 AAATTAATACACGAAAATATAAAAAT-AATACCTTAAATCCTAAGCAACTACATTAAATTTACAG
1 AAATTAATACACGAAAATTTAAAAATGAA-A-CTTACATCATAAACAATTATATTAAATTTACAG
*
96882606 ATATAAAAAAAATACAAACATTCTAAAG
64 ATA-AAAAAAAATACAAATATTCT-AAG
96882634 AAA-TAATACA
1 AAATTAATACA
96882644 ATTATTTTGA
Statistics
Matches: 239, Mismatches: 34, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
89 30 0.13
90 73 0.31
91 91 0.38
92 42 0.18
93 3 0.01
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (89 bp):
AAATTAATACACGAAAATTTAAAAATGAAACTTACATCATAAACAATTATATTAAATTTACAGAT
AAAAAAAAATACAAATATTCTAAG
Found at i:96882599 original size:91 final size:91
Alignment explanation
Indices: 96882321--96882643 Score: 447
Period size: 91 Copynumber: 3.6 Consensus size: 91
96882311 TACAGATTAA
* * * * *
96882321 ATTAAATTCACATATACAAAAAAAATACAAATATTCTAATAAATTAATACACGAAAATATAAAAA
1 ATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
* *
96882386 TGAA-ACCTTAAATCCTAAACAATTGT
66 T-AATACCTTAAATCCTAAACAACTAT
* * *
96882412 ATTAAATTTACAGGTAT-AATAAAATA-AAATATTCTAAGAAATTAATACACGAAAATATAAAAA
1 ATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATAT-AAAA
* * *
96882475 ATGATACCTTACATCGTAAACAACTAT
65 ATAATACCTTAAATCCTAAACAACTAT
*
96882502 ATTAAATTTATAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
1 ATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
* *
96882567 TAATACCTTAAATCCTAAGCAACTAC
66 TAATACCTTAAATCCTAAACAACTAT
96882593 ATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAAATACAAACATTCT-AAGAAATTAATACA
96882644 ATTATTTTGA
Statistics
Matches: 206, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
89 32 0.16
90 47 0.23
91 90 0.44
92 37 0.18
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (91 bp):
ATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAA
TAATACCTTAAATCCTAAACAACTAT
Found at i:96888502 original size:45 final size:45
Alignment explanation
Indices: 96888450--96888543 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
96888440 TAAAACTCCA
* *
96888450 AAATTTTTCCACTACAAATTAAGTAATCACTTAAGTGTTTTCTGT
1 AAATTTTTCCACTACAAATGAAGTAATCACTTAAGTGTTTTCTAT
*
96888495 AAATTTTTCCACTGCAAATGAAGTAATCACTTAAGTGTTTTCTAT
1 AAATTTTTCCACTACAAATGAAGTAATCACTTAAGTGTTTTCTAT
96888540 AAAT
1 AAAT
96888544 ACATATATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (45 bp):
AAATTTTTCCACTACAAATGAAGTAATCACTTAAGTGTTTTCTAT
Found at i:96892077 original size:20 final size:20
Alignment explanation
Indices: 96892054--96892097 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
96892044 AAATAAATGA
*
96892054 TAAATATTCAAAATAATA-AT
1 TAAATAGTCAAAAT-ATAGAT
*
96892074 TAAATAGTGAAAATATAGAT
1 TAAATAGTCAAAATATAGAT
96892094 TAAA
1 TAAA
96892098 GTAAAGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (20 bp):
TAAATAGTCAAAATATAGAT
Found at i:96892283 original size:26 final size:26
Alignment explanation
Indices: 96892246--96892304 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
96892236 AATTGAAGGG
96892246 TGAAG-AATGAATTCCCACGACTCCT
1 TGAAGAAATGAATTCCCACGACTCCT
*
96892271 TGAAGAAATGAATTCCCATGACTCCT
1 TGAAGAAATGAATTCCCACGACTCCT
*
96892297 TAAAGAAA
1 TGAAGAAA
96892305 ATCGAGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (26 bp):
TGAAGAAATGAATTCCCACGACTCCT
Found at i:96893788 original size:15 final size:15
Alignment explanation
Indices: 96893768--96893822 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
96893758 GTCTACCCAT
*
96893768 GGCAAAGAAGGAATC
1 GGCAAAGGAGGAATC
96893783 GGCAAAGGAGGAATC
1 GGCAAAGGAGGAATC
*
96893798 GGCAAAGGAGGAATT
1 GGCAAAGGAGGAATC
96893813 GGCAAAGGAG
1 GGCAAAGGAG
96893823 TATAAAGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.40, T:0.07
Consensus pattern (15 bp):
GGCAAAGGAGGAATC
Found at i:96910571 original size:17 final size:17
Alignment explanation
Indices: 96910549--96910582 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96910539 TTAATTTCCC
*
96910549 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
96910566 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
96910583 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:96910903 original size:26 final size:27
Alignment explanation
Indices: 96910874--96910929 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
96910864 TTTAAACTCC
*
96910874 TTTACATATTATTTATTTTAAA-TATT
1 TTTACATATTATTTACTTTAAACTATT
* *
96910900 TTTATATGTTATTTACTTTAAACTATT
1 TTTACATATTATTTACTTTAAACTATT
96910927 TTT
1 TTT
96910930 TTATATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTACATATTATTTACTTTAAACTATT
Found at i:96911202 original size:25 final size:24
Alignment explanation
Indices: 96911164--96911226 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
96911154 GTATTATTTT
96911164 ATTGTTTTGAATATTAATGATTTTTAA
1 ATTGTTTT--ATATTAATGA-TTTTAA
* *
96911191 ATTGTTTTATATTATTTATTTTAA
1 ATTGTTTTATATTAATGATTTTAA
96911215 ATTGCTTTTATA
1 ATTG-TTTTATA
96911227 GTATCTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.30
25 15 0.45
27 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTGTTTTATATTAATGATTTTAA
Found at i:96911217 original size:24 final size:25
Alignment explanation
Indices: 96911185--96911240 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
96911175 TATTAATGAT
* *
96911185 TTTTAAATTG-TTTTATATTATTTA
1 TTTTAAATTGCTTTTATAGTATCTA
96911209 TTTTAAATTGCTTTTATAGTATCTA
1 TTTTAAATTGCTTTTATAGTATCTA
*
96911234 TTCTAAA
1 TTTTAAA
96911241 CCTTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
TTTTAAATTGCTTTTATAGTATCTA
Found at i:96912094 original size:18 final size:18
Alignment explanation
Indices: 96912071--96912106 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96912061 CAAAAAACAT
*
96912071 CGTTTTAGTAAACCAAAG
1 CGTTTTAGTAAAACAAAG
*
96912089 CGTTTTATTAAAACAAAG
1 CGTTTTAGTAAAACAAAG
96912107 GTGATCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
CGTTTTAGTAAAACAAAG
Found at i:96913106 original size:17 final size:18
Alignment explanation
Indices: 96913079--96913112 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
96913069 AATATTATAT
96913079 TTTTATTTTTTAAAATAA
1 TTTTATTTTTTAAAATAA
96913097 TTTT-TTTTTTAAAATA
1 TTTTATTTTTTAAAATA
96913113 CTCTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTTTTTAAAATAA
Found at i:96915815 original size:30 final size:30
Alignment explanation
Indices: 96915781--96915845 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
96915771 ACTTAACAAG
* *
96915781 CAAATACCTCTAAAATAATTAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAAATAA
* *
96915811 CAAATGCCTTTAAAATAATAAAAAAAATAA
1 CAAATACCTCTAAAATAATAAAAAAAATAA
96915841 -AAATA
1 CAAATA
96915846 AAATAAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAAATAA
Found at i:96921079 original size:36 final size:36
Alignment explanation
Indices: 96921034--96921115 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
96921024 TAACGATAAA
96921034 TTATTCAGTAACAGTCAATTATTCAATAGCAGTCAG
1 TTATTCAGTAACAGTCAATTATTCAATAGCAGTCAG
* * *
96921070 TTATCCAGTAACAGTCAGTTATTTAATAGCAGTCAG
1 TTATTCAGTAACAGTCAATTATTCAATAGCAGTCAG
96921106 TTATTCAGTA
1 TTATTCAGTA
96921116 CCTTTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAATTATTCAATAGCAGTCAG
Found at i:96921085 original size:18 final size:18
Alignment explanation
Indices: 96921010--96921115 Score: 115
Period size: 18 Copynumber: 5.9 Consensus size: 18
96921000 ACTCTTTAAT
96921010 AGTCAGTTATTCAGTAAC
1 AGTCAGTTATTCAGTAAC
* *
96921028 -GATAAATTATTCAGTAAC
1 AG-TCAGTTATTCAGTAAC
* * *
96921046 AGTCAATTATTCAATAGC
1 AGTCAGTTATTCAGTAAC
*
96921064 AGTCAGTTATCCAGTAAC
1 AGTCAGTTATTCAGTAAC
* * *
96921082 AGTCAGTTATTTAATAGC
1 AGTCAGTTATTCAGTAAC
96921100 AGTCAGTTATTCAGTA
1 AGTCAGTTATTCAGTA
96921116 CCTTTATTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
17 1 0.01
18 69 0.97
19 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (18 bp):
AGTCAGTTATTCAGTAAC
Found at i:96921092 original size:54 final size:54
Alignment explanation
Indices: 96921010--96921112 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
96921000 ACTCTTTAAT
* *
96921010 AGTCAGTTATTCAGTAACGATAAATTATTCAGTAACAGTCAATTATTCAATAGC
1 AGTCAGTTATCCAGTAACGATAAATTATTCAATAACAGTCAATTATTCAATAGC
* * * * *
96921064 AGTCAGTTATCCAGTAAC-AGTCAGTTATTTAATAGCAGTCAGTTATTCA
1 AGTCAGTTATCCAGTAACGA-TAAATTATTCAATAACAGTCAATTATTCA
96921113 GTACCTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 40 0.98
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (54 bp):
AGTCAGTTATCCAGTAACGATAAATTATTCAATAACAGTCAATTATTCAATAGC
Found at i:96922497 original size:13 final size:14
Alignment explanation
Indices: 96922470--96922501 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96922460 TTTCTTTCTT
96922470 TATTAAAATATCTA
1 TATTAAAATATCTA
96922484 TATTAAAA-ATCTA
1 TATTAAAATATCTA
96922497 T-TTAA
1 TATTAA
96922502 TAACAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 6 0.33
14 8 0.44
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAAAATATCTA
Found at i:96925855 original size:17 final size:16
Alignment explanation
Indices: 96925807--96925858 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
96925797 ATTTTGTTTT
96925807 ATTA-ATTTATCAATTA
1 ATTACATTTAT-AATTA
96925823 ATTACATATT-TAATTA
1 ATTACAT-TTATAATTA
*
96925839 ATTAACCTTTATAATTA
1 ATT-ACATTTATAATTA
96925856 ATT
1 ATT
96925859 TAAATTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 14 0.45
17 15 0.48
18 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTACATTTATAATTA
Found at i:96932379 original size:17 final size:16
Alignment explanation
Indices: 96932335--96932381 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
96932325 GTTTTATTAA
96932335 TTTATCAATTAATTACC
1 TTTAT-AATTAATTACC
*
96932352 TATT-TACTTAATTAACC
1 T-TTATAATTAATT-ACC
96932369 TTTATAATTAATT
1 TTTATAATTAATT
96932382 TAAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.36
17 14 0.56
18 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAATTAATTACC
Found at i:96943242 original size:12 final size:10
Alignment explanation
Indices: 96943214--96943249 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
96943204 GAAAAAAAAA
96943214 TTGTCTCTCT
1 TTGTCTCTCT
96943224 TTGTCTCTCT
1 TTGTCTCTCT
96943234 TTGTCTCTCT
1 TTGTCTCTCT
96943244 TTGTCT
1 TTGTCT
96943250 TTTGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.28, G:0.11, T:0.61
Consensus pattern (10 bp):
TTGTCTCTCT
Found at i:96947687 original size:19 final size:18
Alignment explanation
Indices: 96947655--96947700 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
96947645 AATTTTAAAT
*
96947655 ATAAAAAGAA-TAAAGAA
1 ATAAAAATAAGTAAAGAA
*
96947672 ATAATAAATAAGTAAATAA
1 ATAA-AAATAAGTAAAGAA
96947691 ATAAAAATAA
1 ATAAAAATAA
96947701 TAATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
ATAAAAATAAGTAAAGAA
Found at i:96948956 original size:15 final size:15
Alignment explanation
Indices: 96948931--96948975 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
96948921 GTAAATGGAC
96948931 TTGGATTTTTTATTTT
1 TTGG-TTTTTTATTTT
*
96948947 TTGGTTTTTTATATT
1 TTGGTTTTTTATTTT
96948962 TT-GTTTATTTATTT
1 TTGGTTT-TTTATTT
96948976 ATTGTTTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (15 bp):
TTGGTTTTTTATTTT
Found at i:96948980 original size:15 final size:13
Alignment explanation
Indices: 96948936--96948983 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
96948926 TGGACTTGGA
96948936 TTTTTTATTTTTTGG
1 TTTTTTA-TTTTT-G
96948951 TTTTTTATATTTTG
1 TTTTTTAT-TTTTG
96948965 TTTATTTATTTATTG
1 TTT-TTTATTT-TTG
96948980 TTTT
1 TTTT
96948984 CGATTGGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTTTTATTTTTG
Done.