Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008840.1 Hibiscus syriacus cultivar Beakdansim tig00112044_pilon, whole genome shotgun sequence
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: 1122218
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:691802 original size:42 final size:42
Alignment explanation
Indices: 691747--692099 Score: 483
Period size: 42 Copynumber: 8.3 Consensus size: 42
691737 AAAGAGCCTG
** *
691747 GGGAAACTGTAAGGCTTACCCTTGCACACATTAAAGGAACCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* *
691789 GGGAAACTGTAAGGCTTACCCTTACACACAACAAAGGAACCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* *
691831 GGGGGAAAACTGTAAGGCTTACCCTTGTACACAGCAAAGGGACCT
1 --GGG-AAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* *
691876 GGGAGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGACCT
1 GGGA-AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* * * *
691919 GGGGAATTGTAAGGCTTACCCTTGCACACAGCAAAGGGACTT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
*
691961 GGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
*
692003 -GGAGAACTGTAAGACTTACCCTTGCACACAACAAAGGGACCT
1 GGGA-AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* *
692045 GGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
*
692087 GGGGGAACTGTAA
1 -GGGAAACTGTAA
692100 CAGTAATTAA
Statistics
Matches: 283, Mismatches: 21, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.01
42 187 0.66
43 56 0.20
44 3 0.01
45 35 0.12
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (42 bp):
GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
Found at i:692049 original size:126 final size:128
Alignment explanation
Indices: 691747--692099 Score: 541
Period size: 126 Copynumber: 2.8 Consensus size: 128
691737 AAAGAGCCTG
** * *
691747 GGGA-AACTGTAAGGCTTACCCTTGCACACATTAAAGGAACCTGGGAAACTGTAAGGCTTACCCT
1 GGGAGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCT
* * * * *
691811 TACACACAACAAAGGAACCTGGGGGAAAACTGTAAGGCTTACCCTTGTACACAGCAAAGGGACCT
66 TGCACACAGCAAAGGGACCTGGGGG--AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
* * *
691876 GGGAGAACTGTAAGGCTTACCCTTGCACACAGCAAAAGGACCTGGGGAATTGTAAGGCTTACCCT
1 GGGAGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCT
*
691941 TGCACACAGCAAAGGGA-CTTGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
66 TGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
*
692003 -GGAGAACTGTAAGACTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCT
1 GGGAGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCT
692067 TGCACACAGCAAAGGGACCTGGGGGAACTGTAA
66 TGCACACAGCAAAGGGACCTGGGGGAACTGTAA
692100 CAGTAATTAA
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
126 77 0.38
127 50 0.24
129 10 0.05
130 68 0.33
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (128 bp):
GGGAGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAAGGCTTACCCT
TGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT
Found at i:695990 original size:27 final size:25
Alignment explanation
Indices: 695942--696009 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
695932 TGATTATTTT
695942 AAAT-ATTTTAAATAATTAAATTTTATA
1 AAATAATTTTAAA-AA-T-AATTTTATA
*
695969 AAATATATATTTAAAAATAATTTTATT
1 AAATA-AT-TTTAAAAATAATTTTATA
695996 AAATAATTTTAAAA
1 AAATAATTTTAAAA
696010 TGTATTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
25 7 0.19
26 2 0.05
27 17 0.46
28 1 0.03
29 4 0.11
30 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATAATTTTAAAAATAATTTTATA
Found at i:695999 original size:13 final size:13
Alignment explanation
Indices: 695960--696006 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
695950 TAAATAATTA
695960 AATTTTATAAAAT
1 AATTTTATAAAAT
695973 ATATATTTA-AAAAT
1 A-AT-TTTATAAAAT
*
695987 AATTTTATTAAAT
1 AATTTTATAAAAT
696000 AATTTTA
1 AATTTTA
696007 AAATGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 4 0.13
13 14 0.47
14 8 0.27
15 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTTTATAAAAT
Found at i:696017 original size:25 final size:27
Alignment explanation
Indices: 695960--696009 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
695950 TAAATAATTA
695960 AATTTTATAAAATATATATTTAAAAAT
1 AATTTTATAAAATATATATTTAAAAAT
*
695987 AATTTTATTAAATA-AT-TTTAAAA
1 AATTTTATAAAATATATATTTAAAA
696010 TGTATTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTTATAAAATATATATTTAAAAAT
Found at i:697009 original size:24 final size:24
Alignment explanation
Indices: 696982--697028 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
696972 GTATTCGAAA
696982 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
697006 TTTGATCTTGGTCAATACTCGGA
1 TTTGATCTTGGTCAATACCCGGA
697029 TTTTAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:699467 original size:20 final size:17
Alignment explanation
Indices: 699447--699630 Score: 104
Period size: 14 Copynumber: 10.8 Consensus size: 17
699437 TCATTTGACT
699447 ATCGCAATGCGGAAATGA
1 ATCGCAATGC-GAAATGA
*
699465 CTATCGCAA--CGAGA-GA
1 --ATCGCAATGCGAAATGA
699481 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
699498 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
699517 ATCGCAA--CG-ACTGA
1 ATCGCAATGCGAAATGA
*
699531 ATCTCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATG--A
*
699551 ATCGCAACGCG--A-GA
1 ATCGCAATGCGAAATGA
*
699565 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
699584 ATCGCAA--CG-AGTGA
1 ATCGCAATGCGAAATGA
699598 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATG--A
*
699618 ATCGCAACGCGAA
1 ATCGCAATGCGAA
699631 CTTAGTTTCG
Statistics
Matches: 129, Mismatches: 13, Indels: 45
0.69 0.07 0.24
Matches are distributed among these distances:
14 32 0.25
16 18 0.14
17 26 0.20
18 7 0.05
19 18 0.14
20 28 0.22
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:699539 original size:33 final size:34
Alignment explanation
Indices: 699495--699626 Score: 198
Period size: 34 Copynumber: 3.9 Consensus size: 34
699485 CAATGCGAAA
699495 TGAATCGCAATGCG-AAATGAAAATCGCAACGAC
1 TGAATCGCAATGCGAAAATGAAAATCGCAACGAC
*
699528 TGAATCTCAATGCGAAAATGAAAATCGCAACG-C
1 TGAATCGCAATGCGAAAATGAAAATCGCAACGAC
* * *
699561 GAGAATCGCAATGTG-AAATGAAAATCGCAACGAG
1 -TGAATCGCAATGCGAAAATGAAAATCGCAACGAC
699595 TGAATCGCAATGCGAAAATGAAAATCGCAACG
1 TGAATCGCAATGCGAAAATGAAAATCGCAACG
699627 CGAACTTAGT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
33 43 0.49
34 45 0.51
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (34 bp):
TGAATCGCAATGCGAAAATGAAAATCGCAACGAC
Found at i:699579 original size:67 final size:67
Alignment explanation
Indices: 699496--699629 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
699486 AATGCGAAAT
*
699496 GAATCGCAATGCGAAATGAAAATCGCAACGACTGAATCTCAATGCGAAAATGAAAATCGCAACGC
1 GAATCGCAATGCGAAATGAAAATCGCAACGACTGAATCGCAATGCGAAAATGAAAATCGCAACGC
699561 GA
66 GA
* *
699563 GAATCGCAATGTGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCGCAACGC
1 GAATCGCAATGCGAAATGAAAATCGCAACGACTGAATCGCAATGCGAAAATGAAAATCGCAACGC
699628 GA
66 GA
699630 ACTTAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.15
Consensus pattern (67 bp):
GAATCGCAATGCGAAATGAAAATCGCAACGACTGAATCGCAATGCGAAAATGAAAATCGCAACGC
GA
Found at i:699698 original size:33 final size:34
Alignment explanation
Indices: 699639--699716 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 34
699629 AACTTAGTTT
*
699639 CGCGTTGCGATTTTTATTTTCGCATTGCGATTCA
1 CGCGTTGCGATTTTCATTTTCGCATTGCGATTCA
* *
699673 CTCGTTGCGATTTTCA-TTTCGCATTGCGATTCT
1 CGCGTTGCGATTTTCATTTTCGCATTGCGATTCA
699706 CGCGTTGCGAT
1 CGCGTTGCGAT
699717 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 26 0.65
34 14 0.35
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (34 bp):
CGCGTTGCGATTTTCATTTTCGCATTGCGATTCA
Found at i:703978 original size:16 final size:16
Alignment explanation
Indices: 703957--703994 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
703947 AAAAATAATT
703957 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
703973 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
703989 T-ATAAA
1 TAATAAA
703995 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:704232 original size:11 final size:11
Alignment explanation
Indices: 704151--704233 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
704141 TTATATACGT
*
704151 TAATAGTAAAA
1 TAATATTAAAA
* *
704162 TAATAATAATA
1 TAATATTAAAA
704173 TAATAATTATAAA
1 TAAT-ATTA-AAA
*
704186 TATATATATATAA
1 TA-ATAT-TAAAA
704199 TAACT-TTAAAA
1 TAA-TATTAAAA
*
704210 -AACATTAAAA
1 TAATATTAAAA
*
704220 TAATATTAGAA
1 TAATATTAAAA
704231 TAA
1 TAA
704234 AATAATTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
10 8 0.14
11 28 0.50
12 5 0.09
13 11 0.20
14 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:704713 original size:35 final size:36
Alignment explanation
Indices: 704643--704738 Score: 131
Period size: 35 Copynumber: 2.6 Consensus size: 36
704633 GTGCTTGTGG
* *
704643 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGCAAAATTCT
*
704680 ATCCTATTTTAGGAG-TTGAATCATAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
*
704715 ATCCTATTTTTGAGAGTTTGAATC
1 ATCCTATTTTAG-GAGTTTGAATC
704739 CTAGTAGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 28 0.53
36 11 0.21
37 14 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
Found at i:705514 original size:106 final size:104
Alignment explanation
Indices: 705203--705968 Score: 701
Period size: 109 Copynumber: 7.4 Consensus size: 104
705193 AATATTGTTC
* * * * *
705203 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTTTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAA-AGGAAAATTGTTTGTTGACA
** * * * *
705268 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
705309 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AACG-AAA-T-CTTGTTGACAAT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAGGAAAATTGTTTGTTGACAAC
**
705370 CAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
705409 CGAGTCCAATATCATTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA--GGAAAATTGTTTGTTGACA
705474 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * ** * *
705515 CGAGTGGCACGATATCCTCCG-TCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAA-GGAAAA-TTGTTTGT
*
705578 TGATAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
705624 CGGGTAGCACGATATCC-TC-CATCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTATTTGT
1 CGAGT--C-CAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCT-GAA-AGGAAAATTGTTTGT
*
705687 TGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * **
705733 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTC-----CG-AAATTGCTTGTCGACAGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAGGAAAATTGTTTGTTGACAAC
* * * **
705792 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTCCTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
705831 TGGGTCCAATATCATTCGTTGTGAAGTTGAAATTAG--CTG---GGAAAATTG-TTGTTGACATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAGGAAAATTGTTTGTTGACA-A
705890 -CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
705929 CGAGTTCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
705969 CCAAGTTATT
Statistics
Matches: 549, Mismatches: 86, Indels: 56
0.79 0.12 0.08
Matches are distributed among these distances:
96 1 0.00
98 150 0.27
99 7 0.01
100 82 0.15
101 3 0.01
102 3 0.01
103 2 0.00
104 4 0.01
105 2 0.00
106 110 0.20
107 4 0.01
108 13 0.02
109 159 0.29
110 9 0.02
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (104 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAGGAAAATTGTTTGTTGACAAC
CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:705854 original size:98 final size:98
Alignment explanation
Indices: 705694--705967 Score: 381
Period size: 98 Copynumber: 2.8 Consensus size: 98
705684 TGTTGACAAC
705694 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
1 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
705759 TTGAGATTGGCTCCG-AAATTGCTTGTCGACAGT-
66 TTGAGATTGGCTCCGAAAATTG-TTGTCGACA-TA
* * ** * * * *
705792 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTCCTGTCTTGGGTCCAATATCATTCGTTGTGAAG
1 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
* * ** *
705857 TTGAAATTAGCTGGGAAAATTGTTGTTGACATA
66 TTGAGATTGGCTCCGAAAATTGTTGTCGACATA
* *
705890 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAG
1 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
705955 TTGAGATTGGCTC
66 TTGAGATTGGCTC
705968 TCCAAGTTAT
Statistics
Matches: 148, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
97 1 0.01
98 141 0.95
99 6 0.04
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (98 bp):
CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
TTGAGATTGGCTCCGAAAATTGTTGTCGACATA
Found at i:705981 original size:98 final size:97
Alignment explanation
Indices: 705676--705982 Score: 366
Period size: 98 Copynumber: 3.1 Consensus size: 97
705666 TGGAATTGGG
705676 AAATTATTTGTTGACA-ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
1 AAATTA-TTGTTGACATA-CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
*
705740 AATATCCTTCGCTGTGAAGTTGAGATTGGCTCCG
64 AATATCCTTCGCTGTGAAGTTGAGATTGGCTCCA
* * * * ** * *
705774 AAATTGCTTGTCGACAGT-CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTCCTGTCTTGGGTCC
1 AAATT-ATTGTTGACA-TACAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
* * * * **
705838 AATATCATTCGTTGTGAAGTTGAAATTAGCTGGGA
64 AATATCCTTCGCTGTGAAGTTGAGATTGGCT-CCA
* * *
705873 AAATTGTTGTTGACATACAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAA
1 AAATTATTGTTGACATACAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
*
705938 TATCCTTCGCTGTGAAGTTGAGATTGGCTCTCC
66 TATCCTTCGCTGTGAAGTTGAGATTGGCTC-CA
*
705971 AAGTTATTGTTG
1 AAATTATTGTTG
705983 CCTTGCCGCC
Statistics
Matches: 169, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
97 1 0.01
98 163 0.96
99 5 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (97 bp):
AAATTATTGTTGACATACAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA
TATCCTTCGCTGTGAAGTTGAGATTGGCTCCA
Found at i:706458 original size:37 final size:37
Alignment explanation
Indices: 706417--706489 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
706407 CTCAAAGATA
** * *
706417 TTTGTTTCAAGGGAAACGGTCTTAAGGGAGATAAAAT
1 TTTGTTTCAAGAAAAACGGTCTCAAGAGAGATAAAAT
* *
706454 TTTGTTTTAAGAAAAACTGTCTCAAGAGAGATAAAA
1 TTTGTTTCAAGAAAAACGGTCTCAAGAGAGATAAAA
706490 CTTAGTTCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (37 bp):
TTTGTTTCAAGAAAAACGGTCTCAAGAGAGATAAAAT
Found at i:706654 original size:103 final size:103
Alignment explanation
Indices: 706462--706696 Score: 244
Period size: 103 Copynumber: 2.3 Consensus size: 103
706452 ATTTTGTTTT
* * * * * *
706462 AAGA-AAAACTGTCTCAAGAGAGATAAAACTTAGTTCCAAAGAAATTGTCTCACGGGGAGATGAA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
706526 ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
66 ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
* * *
706564 AAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCA-AGAGAGACGA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAA-AGAAACTGTCTCACAGAGAGACGA
* * ** * * * * *
706628 AATTCA-TTTCAAGGGAAATGTTTTCAATGTTTATGTTTC
65 AATT-AGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
* *
706667 AAGAG-AAACTATCTCAAGAGAGACGAAATT
1 AAGAGAAAACTGTCTCAAGAGAGACAAAATT
706697 CATTTCAAGG
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
102 26 0.24
103 70 0.64
104 13 0.12
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (103 bp):
AAGAGAAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
Found at i:706700 original size:65 final size:65
Alignment explanation
Indices: 706596--706776 Score: 308
Period size: 65 Copynumber: 2.8 Consensus size: 65
706586 GACAAAATTT
706596 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
706661 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
706726 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
706777 CTATCTCAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 95 0.87
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:706812 original size:36 final size:36
Alignment explanation
Indices: 706726--707134 Score: 271
Period size: 36 Copynumber: 11.9 Consensus size: 36
706716 TCAATGTTTA
* *
706726 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
706763 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * *
706799 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* *
706827 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
706865 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
706901 CATTTCAAGGGAAA-TGTTTCCA-A-TG-----TTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
706929 ATGTTTCAAGAGAAACTGTCTCAATG-GTGACAGAATT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATT
* *
706966 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * *
707002 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* * *
707029 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAATT
*
707067 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
707103 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
707135 TGGTAAGCAC
Statistics
Matches: 283, Mismatches: 53, Indels: 73
0.69 0.13 0.18
Matches are distributed among these distances:
27 1 0.00
28 18 0.06
29 28 0.10
30 9 0.03
31 1 0.00
32 3 0.01
33 3 0.01
34 3 0.01
35 10 0.04
36 113 0.40
37 90 0.32
38 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:706851 original size:167 final size:169
Alignment explanation
Indices: 706561--706878 Score: 550
Period size: 167 Copynumber: 1.9 Consensus size: 169
706551 AAGATGATGC
*
706561 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
706626 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
706691 GAAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
706729 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
706793 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
706858 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
706879 CTATCTCAAG
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
167 119 0.84
168 22 0.16
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:707026 original size:101 final size:102
Alignment explanation
Indices: 706661--707116 Score: 781
Period size: 102 Copynumber: 4.5 Consensus size: 102
706651 TCAATGTTTA
* *
706661 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
706726 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
706763 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
706828 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
706865 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
706930 TGTTTCAAGAGAAACTGTCTCAATGGTGACAGAA-TT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
706966 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATG-TTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
707030 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
707067 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
707117 CTGTCTCAAG
Statistics
Matches: 336, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
100 33 0.10
101 108 0.32
102 195 0.58
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:708020 original size:22 final size:22
Alignment explanation
Indices: 707993--708043 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
707983 TTGTGTTTGG
707993 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
708015 TTAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
708037 TCAAAGG
1 TCAAAGG
708044 ATTGATGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:708677 original size:20 final size:19
Alignment explanation
Indices: 708654--708711 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
708644 TTGTCCCCTT
708654 TTTTTTATTTTTGTTCTTTC
1 TTTTTTATTTTTGTT-TTTC
* *
708674 TTTTTTGTTCTTGTTTTT-
1 TTTTTTATTTTTGTTTTTC
*
708692 TTTTCTTTTTTCTTGTTTTT
1 TTTT-TTATTT-TTGTTTTT
708712 TCTTCTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.12
19 7 0.22
20 21 0.66
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.83
Consensus pattern (19 bp):
TTTTTTATTTTTGTTTTTC
Found at i:708684 original size:10 final size:10
Alignment explanation
Indices: 708664--708720 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
708654 TTTTTTATTT
*
708664 TTGTTCTTTC
1 TTGTTTTTTC
708674 TT-TTTTGTTC
1 TTGTTTT-TTC
*
708684 TTGTTTTTTT
1 TTGTTTTTTC
*
708694 TTCTTTTTTC
1 TTGTTTTTTC
708704 TTGTTTTTTC
1 TTGTTTTTTC
*
708714 TTCTTTT
1 TTGTTTT
708721 GCTTCTTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 3 0.08
10 32 0.82
11 4 0.10
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (10 bp):
TTGTTTTTTC
Found at i:708692 original size:27 final size:27
Alignment explanation
Indices: 708661--708743 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
708651 CTTTTTTTTA
708661 TTTTTGTTCTTTCTTTTTTGTTCTTGT
1 TTTTTGTTCTTTCTTTTTTGTTCTTGT
* * * *
708688 TTTTTTTTCTTT-TTTCTTGTTTTTTCT
1 TTTTTGTTCTTTCTTTTTTG-TTCTTGT
708715 TCTTTTGCTTCTTTTCTTTTTTGTTCTTG
1 T-TTTTG-TTC-TTTCTTTTTTGTTCTTG
708744 ATTGGATCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.14
27 17 0.40
28 4 0.09
29 3 0.07
30 7 0.16
31 6 0.14
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.78
Consensus pattern (27 bp):
TTTTTGTTCTTTCTTTTTTGTTCTTGT
Found at i:708712 original size:20 final size:19
Alignment explanation
Indices: 708652--708736 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
708642 TTTTGTCCCC
*
708652 TTTTTTTTATTT-TTGTTCT
1 TTTTTTTTTTTTCTTGTT-T
* *
708671 TTCTTTTTTGTTCTTGTTT
1 TTTTTTTTTTTTCTTGTTT
708690 TTTTTTCTTTTTTCTTGTTT
1 TTTTTT-TTTTTTCTTGTTT
* * * *
708710 TTTCTTCTTTTGCTTCTTT
1 TTTTTTTTTTTTCTTGTTT
708729 TCTTTTTT
1 T-TTTTTT
708737 GTTCTTGATT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
19 26 0.50
20 26 0.50
ACGTcount: A:0.01, C:0.12, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTTTTCTTGTTT
Found at i:709256 original size:19 final size:19
Alignment explanation
Indices: 709232--709269 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
709222 AATGTAGTTA
709232 ATGCATGATAGAATTATTT
1 ATGCATGATAGAATTATTT
709251 ATGCATGATAGAATTATTT
1 ATGCATGATAGAATTATTT
709270 CGGATGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
ATGCATGATAGAATTATTT
Found at i:710106 original size:8 final size:8
Alignment explanation
Indices: 710093--710128 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
710083 GTAGATGAAG
710093 ATGCAAAA
1 ATGCAAAA
710101 ATGCAAAA
1 ATGCAAAA
710109 ATGC-AAA
1 ATGCAAAA
*
710116 ATGCAAGA
1 ATGCAAAA
710124 ATGCA
1 ATGCA
710129 TGAAATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:710118 original size:15 final size:15
Alignment explanation
Indices: 710093--710128 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
710083 GTAGATGAAG
710093 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
710109 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
710124 ATGCA
1 ATGCA
710129 TGAAATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:712509 original size:61 final size:61
Alignment explanation
Indices: 712385--712505 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
712375 GGCTCTAATT
712385 CTTCAAAGTATCCCGGTTTAGGTGCTAAAAAAACGGTACCCGAGTTCTCCTTGCTGGTGCC
1 CTTCAAAGTATCCCGGTTTAGGTGCTAAAAAAACGGTACCCGAGTTCTCCTTGCTGGTGCC
*
712446 CTTCAAAGTCTCCCGGTTTAGGTGCTAAAAAAACGGTACCCGAGTT-T-CTTGCTGGTGCC
1 CTTCAAAGTATCCCGGTTTAGGTGCTAAAAAAACGGTACCCGAGTTCTCCTTGCTGGTGCC
712505 C
1 C
712506 CCTTGGGCTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 13 0.22
60 1 0.02
61 45 0.76
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (61 bp):
CTTCAAAGTATCCCGGTTTAGGTGCTAAAAAAACGGTACCCGAGTTCTCCTTGCTGGTGCC
Found at i:714223 original size:35 final size:36
Alignment explanation
Indices: 714144--714225 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
714134 GTGCTTGTGG
*
714144 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTAAAACATAACAAAATTCT
* * *
714181 ATCCTATTTTAGGAG-TTGAATCATAACAGAATTCT
1 ATCCTATTTTAGGAGTTTAAAACATAACAAAATTCT
*
714216 ATTCTATTTT
1 ATCCTATTTT
714226 TTAGAGTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 25 0.62
36 8 0.20
37 7 0.17
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTAAAACATAACAAAATTCT
Found at i:714336 original size:19 final size:19
Alignment explanation
Indices: 714271--714346 Score: 98
Period size: 20 Copynumber: 3.9 Consensus size: 19
714261 GTTGACAGGT
714271 TGAAATGAAAATCGCAACG
1 TGAAATGAAAATCGCAACG
*
714290 AGAGAATGAAAATCGCAACG
1 TGA-AATGAAAATCGCAACG
* **
714310 CGGAAATGACTATCGCAACG
1 -TGAAATGAAAATCGCAACG
714330 TGAAATGAAAATCGCAA
1 TGAAATGAAAATCGCAA
714347 TGCGATTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.33
20 30 0.62
21 2 0.04
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
TGAAATGAAAATCGCAACG
Found at i:714384 original size:14 final size:14
Alignment explanation
Indices: 714365--714421 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
714355 TAGTTTTTCG
714365 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
714379 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
714398 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
714412 CGTTGCGATT
1 CGTTGCGATT
714422 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:714401 original size:33 final size:33
Alignment explanation
Indices: 714360--714429 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
714350 GATTTTAGTT
714360 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
*
714393 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
714426 TTTC
1 TTTC
714430 TCTCGTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
Found at i:714432 original size:21 final size:20
Alignment explanation
Indices: 714376--714484 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
714366 GTTGCGATTA
714376 TCTC-GTTGCGATTTTCATT
1 TCTCTGTTGCGATTTTCATT
*
714395 TCGC-GTTGCGA--TTC---
1 TCTCTGTTGCGATTTTCATT
714409 TCTC-GTTGCGATTTTCATT
1 TCTCTGTTGCGATTTTCATT
**
714428 TCTCTCGTTGCGATAGTCATT
1 TCTCT-GTTGCGATTTTCATT
* *
714449 TTTGTGTTGCGATTTTCATT
1 TCTCTGTTGCGATTTTCATT
714469 T-TCATGTTGCGATTTT
1 TCTC-TGTTGCGATTTT
714485 AAGTTTAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
19 15 0.21
20 26 0.36
21 16 0.22
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.50
Consensus pattern (20 bp):
TCTCTGTTGCGATTTTCATT
Found at i:715072 original size:20 final size:20
Alignment explanation
Indices: 715047--715235 Score: 193
Period size: 20 Copynumber: 9.3 Consensus size: 20
715037 TTAAAAATCA
715047 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
715067 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
715087 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
* * * *
715108 CATTGCGATTTACGTATCCT
1 CGTTGCGATTTACGGATACG
*
715128 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACG
* * *
715148 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
* *
715168 CATTGCGATTTATGGATACG
1 CGTTGCGATTTACGGATACG
* *
715188 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
*
715208 TCGTTGCGATTTACAGATACG
1 -CGTTGCGATTTACGGATACG
715229 CGTTGCG
1 CGTTGCG
715236 CTTTTACTGA
Statistics
Matches: 134, Mismatches: 29, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
20 101 0.75
21 33 0.25
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:715131 original size:40 final size:40
Alignment explanation
Indices: 715047--715235 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
715037 TTAAAAATCA
*
715047 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
715088 CGTTGCGATTTACGGATACGCATTGCGATTTACGTATCCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
715128 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
715168 CATTGCGATTTATGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
*
715209 CGTTGCGATTTACAGATACGCGTTGCG
1 CGTTGCGATTTACGGATACGCGTTGCG
715236 CTTTTACTGA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 72 0.54
41 62 0.46
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:715172 original size:60 final size:60
Alignment explanation
Indices: 715049--715235 Score: 225
Period size: 61 Copynumber: 3.1 Consensus size: 60
715039 AAAAATCACG
*
715049 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCA
1 TTGCGATTTACGGATACGCGTTGCGA-TTTACGTATCGTCGTTGCGATTTACGGATACGCA
* * * * * *
715110 TTGCGATTTACGTATCCTCGTTGCGATTTACAG-ATACG-CGTTGCGATTTACGTATTCTCA
1 TTGCGATTTACGGATACGCGTTGCGATTTAC-GTAT-CGTCGTTGCGATTTACGGATACGCA
* * * *
715170 TTGCGATTTATGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGGATACGCGTTGCGA-TTTACGTATCGTCGTTGCGATTTACGGATACGCA
715231 TTGCG
1 TTGCG
715236 CTTTTACTGA
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
60 50 0.48
61 54 0.52
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (60 bp):
TTGCGATTTACGGATACGCGTTGCGATTTACGTATCGTCGTTGCGATTTACGGATACGCA
Found at i:715201 original size:81 final size:81
Alignment explanation
Indices: 715047--715242 Score: 304
Period size: 81 Copynumber: 2.4 Consensus size: 81
715037 TTAAAAATCA
* * *
715047 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATACGCATT
715112 GCGATTTACGTATCCT
66 GCGATTTACGTATCCT
* *
715128 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCATTGCGATTTATGGATACGCGTT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATACGCATT
**
715192 GCGATTTTACGTATTGT
66 GCGA-TTTACGTATCCT
*
715209 CGTTGCGATTTACAGATACGCGTTGCGCTTTTAC
1 CGTTGCGATTTACAGATACGCGTTGCGATTTTAC
715243 TGATCCTCGT
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
80 36 0.34
81 64 0.61
82 5 0.05
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (81 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATACGCATT
GCGATTTACGTATCCT
Found at i:715293 original size:20 final size:20
Alignment explanation
Indices: 715270--715319 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
715260 GTCAGAATCG
715270 CGTTGCGATTTATATGTTCA
1 CGTTGCGATTTATATGTTCA
*
715290 CGTTGCGATTTATATGTTCG
1 CGTTGCGATTTATATGTTCA
715310 CGTTGCGATT
1 CGTTGCGATT
715320 ATAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTTATATGTTCA
Found at i:715294 original size:81 final size:80
Alignment explanation
Indices: 715044--715301 Score: 272
Period size: 81 Copynumber: 3.2 Consensus size: 80
715034 GCTTTAAAAA
* *
715044 TCACGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCACGTTGCGATTTACAGATACGCGTTGCG-TTTTACGTATTCTCGTTGCGATTTACGGATACGC
* **
715109 ATTGCGATTTACGTAT
65 GTTGCGATTTATATAT
* * * * *
715125 CCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCATTGCGATTTATGGATACGCG
1 TCACGTTGCGATTTACAGATACGCGTTGCGTTTTACGTATTCTCGTTGCGATTTACGGATACGCG
715190 TTGCGATTT-TACGTAT
66 TTGCGATTTATA--TAT
** * * * *
715206 TGTCGTTGCGATTTACAGATACGCGTTGCGCTTTTAC-TGATCCTCGTTGTGATAGT-CAGA-AT
1 TCACGTTGCGATTTACAGATACGCGTTGCG-TTTTACGT-ATTCTCGTTGCGAT-TTACGGATA-
*
715268 CGCGTTGCGATTTATATGT
62 CGCGTTGCGATTTATATAT
715287 TCACGTTGCGATTTA
1 TCACGTTGCGATTTA
715302 TATGTTCGCG
Statistics
Matches: 148, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
80 39 0.26
81 75 0.51
82 31 0.21
83 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (80 bp):
TCACGTTGCGATTTACAGATACGCGTTGCGTTTTACGTATTCTCGTTGCGATTTACGGATACGCG
TTGCGATTTATATAT
Found at i:715418 original size:20 final size:20
Alignment explanation
Indices: 715348--715422 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
715338 AATTTGTACT
** *
715348 ATCGCATTGCGATTCTTCATA
1 ATCGCATTGCGATTCTGGA-G
*
715369 ATCGCGTTGCGATTCTGG-G
1 ATCGCATTGCGATTCTGGAG
*
715388 AACTG-ATTTGCGATTCTGGAG
1 ATC-GCA-TTGCGATTCTGGAG
715409 ATCGCATTGCGATT
1 ATCGCATTGCGATT
715423 TTGTTGGTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 22 0.51
21 19 0.44
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTCTGGAG
Found at i:715781 original size:156 final size:157
Alignment explanation
Indices: 715497--715804 Score: 609
Period size: 156 Copynumber: 2.0 Consensus size: 157
715487 GTCACTGAGG
715497 CGATTTTCTCATAAGAAAAACACTTAATACAAAAACAAGTATATGAACTTTGTCTAAAAAAATAT
1 CGATTTTCTCATAAGAAAAACACTTAATACAAAAACAAGTATATGAACTTTGTCTAAAAAAATAT
715562 TTTAGTGTCTAAAGAATTTTTCGTTAATAATAGGTACATAATATTTCTAAAGTTATAAATTTAGT
66 TTTAGTGTCTAAAGAATTTTTCGTTAATAATAGGTACATAATATTTCTAAAGTTATAAATTTAGT
715627 TGCCCGTCGTT-AAAATCGTCGCGTTA
131 TGCCCGTCGTTAAAAATCGTCGCGTTA
715653 CGATTTTCTCATAAGAAAAACACTTAATACAAAAACAAGTATATGAACTTTGTCTAAAAAAATAT
1 CGATTTTCTCATAAGAAAAACACTTAATACAAAAACAAGTATATGAACTTTGTCTAAAAAAATAT
715718 TTTAGTGTCTAAAGAATTTTTCGTTAATAATAGGTACATAATATTTCTAAAGTTATAAATTTAGT
66 TTTAGTGTCTAAAGAATTTTTCGTTAATAATAGGTACATAATATTTCTAAAGTTATAAATTTAGT
715783 TGCCCGTCGTTAAAAATCGTCG
131 TGCCCGTCGTTAAAAATCGTCG
715805 TTAACTGACC
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 141 0.93
157 10 0.07
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (157 bp):
CGATTTTCTCATAAGAAAAACACTTAATACAAAAACAAGTATATGAACTTTGTCTAAAAAAATAT
TTTAGTGTCTAAAGAATTTTTCGTTAATAATAGGTACATAATATTTCTAAAGTTATAAATTTAGT
TGCCCGTCGTTAAAAATCGTCGCGTTA
Found at i:720389 original size:351 final size:350
Alignment explanation
Indices: 719746--720796 Score: 1700
Period size: 351 Copynumber: 3.0 Consensus size: 350
719736 GGTGATAAAG
* * *
719746 TCACATGCATAAACATTTAAATTAAGGT-AAAAATTAAAATTTGCAAAAATAAAATATTAAAATC
1 TCACATGCATAAACATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGTATTAAAA-C
* * *
719810 AATTTTGACAAAAATTCATTATGATGAACAAATATTTAGAAAAAAAATCATTAAAACTTTAAAAA
65 AATTTTGACCAAAATTCATTATGATGAACAAATATTTA-TAAAAAAATCATTAAAACTTTAGAAA
*
719875 ATGTTCATCACAACACTTATTAACATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAAC
129 ATGTTCATCACAACACTTTTTAACATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAAC
* *
719940 TCATGCATG-TTTAACCAAATGAACAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTT
194 TCATGCATGCTTAAACCAAATGAGCAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTT
* * * *
720004 ACACATTCCTCGTATTGTGTGGCTAGAACATTTGAATATCTTCACTTTCATCAACATTGTTCTCA
259 ACCCATTCCTCATATTGTGTGGCTAGAGCATTTGAATATCTTCACTTTCATCAACATTGCTCTCA
720069 CACACCTACAAGAGACATTCATTTGGA
324 CACACCTACAAGAGACATTCATTTGGA
720096 TCACATGCATAAACATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGTATTAAAACA
1 TCACATGCATAAACATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGTATTAAAAC-
* *
720161 AATTTTGACCAAAATTCATTATGATGAACAAATATTTATAAAAAAATTATTAAAAATTTAGAAAA
65 AATTTTGACCAAAATTCATTATGATGAACAAATATTTATAAAAAAATCATTAAAACTTTAGAAAA
* *
720226 TGCTCATCACAACACTTTTTAACCTTA-ATGAGATAGAAAACATAAAATCATTTAAAATCAAAAC
130 TGTTCATCACAACACTTTTTAA-CATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAAC
** * **
720290 AGATGCATGCTTAAACTAAATGAGCAACTGATAATGTAAAATTAAAAACAATAAGAGTAGAGGTT
194 TCATGCATGCTTAAACCAAATGAGCAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTT
* *
720355 ACCCATTCCTCTTATTGTGTGGCTAGAGCATTTGAATATCTTCACTTTTATCAACATTGCTCTCA
259 ACCCATTCCTCATATTGTGTGGCTAGAGCATTTGAATATCTTCACTTTCATCAACATTGCTCTCA
*
720420 CACACCTACAAGAGTCATTCATTTGGA
324 CACACCTACAAGAGACATTCATTTGGA
* *
720447 TCACATGCATAAATATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGCATTAAAACC
1 TCACATGCATAAACATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGTATTAAAA-C
* *
720512 AATTTTGACCAAAATTCATTATGATGAA-AAACATTTAT-GAAAAATCATTAAAACTTTAGAAAA
65 AATTTTGACCAAAATTCATTATGATGAACAAATATTTATAAAAAAATCATTAAAACTTTAGAAAA
720575 TGTTCATCACAACACTTTTTAACATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAACT
130 TGTTCATCACAACACTTTTTAACATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAACT
*
720640 CATGTATGCTTAAACCAAATGAGCAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTTA
195 CATGCATGCTTAAACCAAATGAGCAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTTA
* *
720705 CCCATTCCTCATATTGTGTGGCTAGAGCATTTGCATATCTTCACATTCATCAACATTGCTCAT-A
260 CCCATTCCTCATATTGTGTGGCTAGAGCATTTGAATATCTTCACTTTCATCAACATTGCTC-TCA
* *
720769 TACACCTACAAGAGATATTCATTTGGA
324 CACACCTACAAGAGACATTCATTTGGA
720796 T
1 T
720797 TTTAGTATCC
Statistics
Matches: 649, Mismatches: 45, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
348 3 0.00
349 223 0.34
350 126 0.19
351 296 0.46
352 1 0.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (350 bp):
TCACATGCATAAACATTTAAATTAAGGTCAAAAATTAAAATTTGTAAAAACAAAGTATTAAAACA
ATTTTGACCAAAATTCATTATGATGAACAAATATTTATAAAAAAATCATTAAAACTTTAGAAAAT
GTTCATCACAACACTTTTTAACATACATGAGATAGAAAACATAAAATCATTTAAAATCAAAACTC
ATGCATGCTTAAACCAAATGAGCAACCAATAATGTAAAATTAAAAACAATAAGAGTAGAGGTTAC
CCATTCCTCATATTGTGTGGCTAGAGCATTTGAATATCTTCACTTTCATCAACATTGCTCTCACA
CACCTACAAGAGACATTCATTTGGA
Found at i:722276 original size:20 final size:20
Alignment explanation
Indices: 722248--722324 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
722238 ACTATTGTCC
722248 AAGGGATCGATCCTTTTTC-
1 AAGGGATCGATCCTTTTTCA
*
722267 AAGTGGATCGATCCTTTGGTCA
1 AAG-GGATCGATCCTTT-TTCA
** * *
722289 AAGGGATCGATTATTTTGCT
1 AAGGGATCGATCCTTTTTCA
722309 AAGGGATCGATCCTTT
1 AAGGGATCGATCCTTT
722325 GAGCCAGAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 3 0.06
20 28 0.60
21 13 0.28
22 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (20 bp):
AAGGGATCGATCCTTTTTCA
Found at i:722316 original size:41 final size:41
Alignment explanation
Indices: 722248--722325 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
722238 ACTATTGTCC
* *
722248 AAGGGATCGATCCTTTTTCAAGTGGATCGATCCTTTGGTCA
1 AAGGGATCGATCATTTTGCAAGTGGATCGATCCTTTGGTCA
*
722289 AAGGGATCGATTATTTTGCTAAG-GGATCGATCCTTTG
1 AAGGGATCGATCATTTTGC-AAGTGGATCGATCCTTTG
722326 AGCCAGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (41 bp):
AAGGGATCGATCATTTTGCAAGTGGATCGATCCTTTGGTCA
Found at i:726205 original size:36 final size:36
Alignment explanation
Indices: 726145--726214 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
726135 TTTGTTCGGT
726145 TCGGGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCAGGTTTTTTAAG-GTGATATTCGGGTCGAG
*
726182 TCGGGTCGGGTTTTTTTAA-GTGATATTCGGGTC
1 TCGGGTCAGG-TTTTTTAAGGTGATATTCGGGTC
726215 TGGTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 14 0.45
37 9 0.29
38 8 0.26
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.40
Consensus pattern (36 bp):
TCGGGTCAGGTTTTTTAAGGTGATATTCGGGTCGAG
Found at i:726219 original size:26 final size:27
Alignment explanation
Indices: 726182--726246 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
726172 TCGGGTCGAG
726182 TCGGGTCGGGTTTTTTTAA-GTGATAT
1 TCGGGTCGGGTTTTTTTAAGGTGATAT
*
726208 TCGGGTCTGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAG-GTGATAT
726236 TCGGGTCGGGT
1 TCGGGTCGGGT
726247 CGGGTTCGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 18 0.51
28 17 0.49
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.45
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTTAAGGTGATAT
Found at i:726831 original size:18 final size:17
Alignment explanation
Indices: 726788--726833 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
726778 TATGGAATTT
* *
726788 GATTCCAATTCCTGATA
1 GATTCCAATTCCTCACA
*
726805 GATTTCAATTCCTTCACA
1 GATTCCAATTCC-TCACA
726823 GATTCCAATTC
1 GATTCCAATTC
726834 TCTTATAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:727133 original size:22 final size:21
Alignment explanation
Indices: 727108--727154 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
727098 ATAATTTGTT
*
727108 TTTATTTTTAATATTTTATAAA
1 TTTATTTCTAA-ATTTTATAAA
727130 TTTA-TTCTAAATTTTATAAA
1 TTTATTTCTAAATTTTATAAA
*
727150 ATTAT
1 TTTAT
727155 CGCATCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 13 0.59
21 5 0.23
22 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTCTAAATTTTATAAA
Found at i:728559 original size:18 final size:18
Alignment explanation
Indices: 728527--728578 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
728517 CCAGAATGTA
* *
728527 AAAATGGTACCGATACCC
1 AAAAGGGTACTGATACCC
*
728545 AAAGGGGTACTGATACCC
1 AAAAGGGTACTGATACCC
728563 AAAAGGGTACTGATAC
1 AAAAGGGTACTGATAC
728579 TACTCTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAAGGGTACTGATACCC
Found at i:732415 original size:18 final size:19
Alignment explanation
Indices: 732386--732422 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
732376 AAAAGTACAC
732386 TGTTTTTATAATATTTTTA
1 TGTTTTTATAATATTTTTA
*
732405 TGTTTTT-TAATTTTTTTA
1 TGTTTTTATAATATTTTTA
732423 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TGTTTTTATAATATTTTTA
Found at i:734589 original size:16 final size:16
Alignment explanation
Indices: 734556--734589 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
734546 TTTACCGGAT
**
734556 AAAAAACCGGTTTGAA
1 AAAAAACCGGTTAAAA
734572 AAAAAACCGGTTAAAA
1 AAAAAACCGGTTAAAA
734588 AA
1 AA
734590 CCGGTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAAAACCGGTTAAAA
Found at i:736941 original size:33 final size:33
Alignment explanation
Indices: 736893--736986 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
736883 TTATAACTTT
736893 AAACTT-GAAGTTTTTAAGTATTTGAATTTATC
1 AAACTTGGAAGTTTTTAAGTATTTGAATTTATC
*
736925 GAACTTGGAAGTTTTTAAGTATTTGAATTTATC
1 AAACTTGGAAGTTTTTAAGTATTTGAATTTATC
* *
736958 AAACTTGGAAGTATTTAAGTATTTCAATT
1 AAACTTGGAAGTTTTTAAGTATTTGAATT
736987 ATGTTGAGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 5 0.09
33 52 0.91
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (33 bp):
AAACTTGGAAGTTTTTAAGTATTTGAATTTATC
Found at i:737381 original size:15 final size:15
Alignment explanation
Indices: 737356--737411 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
737346 ATCTAGAATA
*
737356 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
737371 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
737386 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
737403 TTAAAACCG
1 TTAAAACCG
737412 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:737420 original size:21 final size:18
Alignment explanation
Indices: 737375--737408 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
737365 GTTTTTTTAT
737375 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
737392 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
737409 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:737528 original size:15 final size:17
Alignment explanation
Indices: 737502--737533 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
737492 TTCTATGGGA
737502 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
737518 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
737534 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:743433 original size:20 final size:21
Alignment explanation
Indices: 743408--743449 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
743398 TGATTTACTA
*
743408 AATTG-TAAAAAGAATAAATT
1 AATTGTTAAAAAGAAAAAATT
*
743428 AATTGTTAAAAATAAAAAATT
1 AATTGTTAAAAAGAAAAAATT
743449 A
1 A
743450 GCTTACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AATTGTTAAAAAGAAAAAATT
Found at i:744455 original size:33 final size:33
Alignment explanation
Indices: 744410--744477 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
744400 CCGTTAATAA
*
744410 CTAAGTAGTTTAGATATCCTATAACTCTTATCT
1 CTAAGTAATTTAGATATCCTATAACTCTTATCT
* *
744443 CTAAGTAATTTAGATATTCTATATCTCTTATCT
1 CTAAGTAATTTAGATATCCTATAACTCTTATCT
744476 CT
1 CT
744478 TAATAGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (33 bp):
CTAAGTAATTTAGATATCCTATAACTCTTATCT
Found at i:745107 original size:33 final size:33
Alignment explanation
Indices: 745070--745193 Score: 162
Period size: 33 Copynumber: 3.8 Consensus size: 33
745060 ACATATTATC
* *
745070 ATCTAGAATTGAATTCAATCAAGCACATCTGTT
1 ATCTAGAATTGAATTCAACCAAGCACATCTATT
*
745103 ATCTAGAATTGAATTCAATCAAGCACATCTATT
1 ATCTAGAATTGAATTCAACCAAGCACATCTATT
** *
745136 ATC-A-TCTAGAATTCAACCAAGCACATCTATT
1 ATCTAGAATTGAATTCAACCAAGCACATCTATT
*
745167 AATCTAGAATTCAATTCAACCAAGCAC
1 -ATCTAGAATTGAATTCAACCAAGCAC
745194 GGAAACCCCC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
31 23 0.29
32 4 0.05
33 36 0.46
34 16 0.20
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (33 bp):
ATCTAGAATTGAATTCAACCAAGCACATCTATT
Found at i:746297 original size:60 final size:59
Alignment explanation
Indices: 746233--746361 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 59
746223 ATATATTTTT
* * * *
746233 AAACTATGACCCTAATTTTAAATTAGTCTTTAAAATTTTAAACATTCTAATTTCATCC-C
1 AAACTATGAACCTAATTCTAAATTAGTCCTTAAAATCTTAAACATTCTAA-TTCATCCAC
* * * *
746292 AAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTCTTGAACATTCTAATTCATCCAC
1 -AAACTATGAACCTAATTCTAAATTAGTCCTTAAAATCTTAAACATTCTAATTCATCCAC
746352 AAACTATGAA
1 AAACTATGAA
746362 TATCATTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 17 0.28
60 43 0.72
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (59 bp):
AAACTATGAACCTAATTCTAAATTAGTCCTTAAAATCTTAAACATTCTAATTCATCCAC
Found at i:746374 original size:59 final size:60
Alignment explanation
Indices: 746247--746387 Score: 187
Period size: 59 Copynumber: 2.4 Consensus size: 60
746237 TATGACCCTA
* * *
746247 ATTTTAAATTAGTCTTTAAAATTTTAAACATTCTAATTTCATCCCAAAACTATGAATCTC
1 ATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCAAAACTATGAATATC
* * *
746307 ATTCTAAATTAGTCCTTAAACTCTTGAACATTCTAA-TTCAT-CCACAAACTATGAATATC
1 ATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCA-AAACTATGAATATC
* *
746366 ATTTTAAATTGGTCCTAAAAAT
1 ATTTTAAATTAGTCCTTAAAAT
746388 TTGCATCTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 3 0.04
59 36 0.51
60 31 0.44
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (60 bp):
ATTTTAAATTAGTCCTTAAAATCTTAAACATTCTAATTTCATCCCAAAACTATGAATATC
Found at i:746993 original size:2 final size:2
Alignment explanation
Indices: 746988--747055 Score: 113
Period size: 2 Copynumber: 35.0 Consensus size: 2
746978 ATTATAGATG
746988 AT AT AT AT AT AT 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 AT AT AT AT AT AT
*
747030 AT AT AT AT CT AT AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
747056 TTTTTTTATA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:750451 original size:75 final size:73
Alignment explanation
Indices: 750328--750476 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 73
750318 TACAATGAAT
750328 GCGATCGGACAATCATCGGAGCAAATATTCGGAGATCGGTTCACAGGCTGAGAGAATTTCTTGAC
1 GCGATCGGACAATCATCGGAGCAAATATTCGGAGATCGGTTCACAGGCT--GAGAATTTCTTGAC
750393 CTGTTCTGAG
64 CTGTTCTGAG
750403 GCGATCGGACAATCATCGGAGCAAATATTCGGAGATCGGTTCACAGGCTGAGAATTTCTTGACCT
1 GCGATCGGACAATCATCGGAGCAAATATTCGGAGATCGGTTCACAGGCTGAGAATTTCTTGACCT
750468 GTTCTGAG
66 GTTCTGAG
750476 G
1 G
750477 TTGAACCCCA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 25 0.34
75 49 0.66
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (73 bp):
GCGATCGGACAATCATCGGAGCAAATATTCGGAGATCGGTTCACAGGCTGAGAATTTCTTGACCT
GTTCTGAG
Found at i:751006 original size:19 final size:19
Alignment explanation
Indices: 750982--751020 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
750972 TCTTTATGGC
750982 ATGTTTTTTTTTTCTGTTT
1 ATGTTTTTTTTTTCTGTTT
751001 ATGTTTTTTTTTTCTGTTT
1 ATGTTTTTTTTTTCTGTTT
751020 A
1 A
751021 AACACGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.08, C:0.05, G:0.10, T:0.77
Consensus pattern (19 bp):
ATGTTTTTTTTTTCTGTTT
Found at i:751971 original size:19 final size:19
Alignment explanation
Indices: 751947--751983 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
751937 AAACTCAAAA
751947 AAATAACATTCTATAACTG
1 AAATAACATTCTATAACTG
* *
751966 AAATAATATTTTATAACT
1 AAATAACATTCTATAACT
751984 TTTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATAACATTCTATAACTG
Found at i:752918 original size:7 final size:7
Alignment explanation
Indices: 752908--752932 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
752898 TTTATTTGGA
752908 AAATAAT
1 AAATAAT
752915 AAATAAT
1 AAATAAT
752922 AAATAAT
1 AAATAAT
752929 AAAT
1 AAAT
752933 TACACGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:761277 original size:10 final size:10
Alignment explanation
Indices: 761262--761336 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
761252 GGGTCTCCAA
761262 CGTTTATGTT
1 CGTTTATGTT
761272 CGTTTATGTT
1 CGTTTATGTT
761282 CG----TGTT
1 CGTTTATGTT
*
761288 CATTTATGTT
1 CGTTTATGTT
*
761298 CGTGTT-CGTTT
1 CGT-TTATG-TT
* *
761309 ATGTTTGTGTT
1 -CGTTTATGTT
761320 CGTTTATGTT
1 CGTTTATGTT
761330 CGTTTAT
1 CGTTTAT
761337 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 34 0.68
11 8 0.16
12 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:761293 original size:16 final size:16
Alignment explanation
Indices: 761268--761332 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
761258 CCAACGTTTA
761268 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
761284 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
761300 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
761316 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
761332 T
1 T
761333 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:761423 original size:16 final size:16
Alignment explanation
Indices: 761402--761433 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
761392 AAAAAAATTT
761402 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
761418 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
761434 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:762780 original size:24 final size:24
Alignment explanation
Indices: 762746--762912 Score: 142
Period size: 24 Copynumber: 6.9 Consensus size: 24
762736 TAGAGCATTA
* *
762746 TATGTGTAATTCTACGTGACACTT
1 TATGTGAAATTCTACGTGGCACTT
* *
762770 TATGTGAAATTCTACGTAGTACTT
1 TATGTGAAATTCTACGTGGCACTT
* *
762794 TATGTGCAACTTCTACGTGGCACTA
1 TATGTG-AAATTCTACGTGGCACTT
* *
762819 TATGTGCAAA-TCTATGTGGCATTT
1 TATGTG-AAATTCTACGTGGCACTT
* * * *
762843 TATGTGAAAATCTATGGGGTA-TT
1 TATGTGAAATTCTACGTGGCACTT
*
762866 ATATGT-ACAATTCTACGTGGCACTA
1 -TATGTGA-AATTCTACGTGGCACTT
* *
762891 TATGTGCAATTCTATGTGGCAC
1 TATGTGAAATTCTACGTGGCAC
762913 GAGTCTGACG
Statistics
Matches: 116, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
23 6 0.05
24 86 0.74
25 24 0.21
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (24 bp):
TATGTGAAATTCTACGTGGCACTT
Found at i:766923 original size:17 final size:17
Alignment explanation
Indices: 766903--766937 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
766893 TATATATTTA
766903 AAAATTAAAATTATTAT
1 AAAATTAAAATTATTAT
**
766920 AAAATTAATTTTATTAT
1 AAAATTAAAATTATTAT
766937 A
1 A
766938 TGACACGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTAAAATTATTAT
Found at i:768048 original size:21 final size:21
Alignment explanation
Indices: 768024--768068 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
768014 TGGTAAAAAA
*
768024 TTACTTAAAATATAATTATTT
1 TTACTTAAAACATAATTATTT
*
768045 TTACTTAAAACATTATTATTT
1 TTACTTAAAACATAATTATTT
768066 TTA
1 TTA
768069 ATATTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TTACTTAAAACATAATTATTT
Found at i:770639 original size:22 final size:21
Alignment explanation
Indices: 770605--770655 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
770595 TTTTTAGTAA
*
770605 ATTTTCAAATTTACTTT-TTAT
1 ATTTTTAAATTTA-TTTATTAT
*
770626 CATTTTTAATTTTATTTATTAT
1 -ATTTTTAAATTTATTTATTAT
770648 ATTATTTA
1 ATT-TTTA
770656 GATGATGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTAAATTTATTTATTAT
Found at i:770783 original size:22 final size:22
Alignment explanation
Indices: 770755--770819 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
770745 GTAAATCTTA
*
770755 TTTTAGTAATTTTTTATTTTAT
1 TTTTAGTAATTTTTAATTTTAT
* *
770777 TTTTAGTAAAATTTTAAATTTAT
1 TTTTAGT-AATTTTTAATTTTAT
* *
770800 TTTTATTTATTTTTAATTTT
1 TTTTAGTAATTTTTAATTTT
770820 TTATATCTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTTAGTAATTTTTAATTTTAT
Found at i:770798 original size:23 final size:22
Alignment explanation
Indices: 770746--770804 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
770736 TGACATTAGG
*
770746 TAAATCTTA-TTTTAGTAATTTT
1 TAAAT-TTATTTTTAGTAAATTT
* *
770768 TTATTTTATTTTTAGTAAAATTT
1 TAAATTTATTTTTAGT-AAATTT
770791 TAAATTTATTTTTA
1 TAAATTTATTTTTA
770805 TTTATTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.10
22 10 0.33
23 17 0.57
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (22 bp):
TAAATTTATTTTTAGTAAATTT
Found at i:771361 original size:43 final size:43
Alignment explanation
Indices: 771302--771654 Score: 237
Period size: 43 Copynumber: 8.2 Consensus size: 43
771292 TGAGAACAAA
* * *
771302 AAACGCCACAATAGGTCAATATCTATTA-CGGCGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCAATATCTA-TAGCGGCGTTTTTAGAAC
* * *
771345 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAAT
1 AAACGCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTAGAAC
* * * * *
771388 AAACGCCGCAAAAAGT-TATGATATATAGCGGCGTTTCTAGAAAA
1 AAACGCCGCAAAAGGTCAAT-ATCTATAGCGGCGTTTTTAG-AAC
*
771432 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTT-GTATAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTAG-A-AC
* *
771475 AAACGCCGCAAAAGAT-AAGA-CTTATA-CTGGCGTTTTTAGAAC
1 AAACGCCGCAAAAGGTCAATATC-TATAGC-GGCGTTTTTAGAAC
* * * * ** *
771517 AAACGCCGTAAAAGGTC-AGACCTATAGTGGTATTTTTGGACAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTAGA-AC
* ** * *
771560 AAACGTCGCAAAATATC-AGA-CATATAACGGCGTTTTT-GAACAC
1 AAACGCCGCAAAAGGTCAATATC-TATAGCGGCGTTTTTAG-A-AC
* * *
771603 AAACGCCGCAAAAAGTC-AGA-CATATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAATATC-TATAGCGGCGTTTTTAGA-AC
771646 AAACGCCGC
1 AAACGCCGC
771655 TAATTACCTT
Statistics
Matches: 257, Mismatches: 37, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
42 42 0.16
43 195 0.76
44 20 0.08
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAATATCTATAGCGGCGTTTTTAGAAC
Found at i:771455 original size:86 final size:84
Alignment explanation
Indices: 771328--771654 Score: 335
Period size: 86 Copynumber: 3.8 Consensus size: 84
771318 CAATATCTAT
* * *
771328 TACGGCGTTTTTTG-AACAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ATAAA
1 TACGGCG-TTTTAGAAACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATACAAA
771391 CGCCGCAAAAAGTTATGATATA
64 CGCCGCAAAAAGTTA-GATATA
* *
771413 TAGCGGCGTTTCTAGAAAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGTATACAAA
1 TA-CGGCGTTT-TAGAAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAA
*
771478 CGCCGC-AAAAGATAAGACT-TA
64 CGCCGCAAAAAG-TTAGA-TATA
* * * ** *
771499 TACTGGCGTTTTTAG-AACAAACGCCGTAAAAGGTCAGACCTATAGTGGTATTTTTGGACACAAA
1 TAC-GGCG-TTTTAGAAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAA
* * *
771563 CGTCGCAAAATA-TCAGACATA
64 CGCCGCAAAA-AGTTAGATATA
* *
771584 TAACGGCGTTTTTGAACACAAACGCCGCAAAAAGTCAGA-CATATAGCGGCGTTTTTGGATACAA
1 T-ACGGCGTTTTAGAA-ACAAACGCCGCAAAAGGTCAGATC-TATAGCGGCGTTTTTGGATACAA
771648 ACGCCGC
63 ACGCCGC
771655 TAATTACCTT
Statistics
Matches: 202, Mismatches: 25, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
84 5 0.02
85 65 0.32
86 96 0.48
87 36 0.18
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (84 bp):
TACGGCGTTTTAGAAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACG
CCGCAAAAAGTTAGATATA
Found at i:771631 original size:171 final size:172
Alignment explanation
Indices: 771331--771654 Score: 433
Period size: 171 Copynumber: 1.9 Consensus size: 172
771321 TATCTATTAC
* * * * *
771331 GGCGTTTTTTGAACAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAATAAACGCCG
1 GGCGTTTTTAGAACAAACGCCGCAAAAGGTCGAGACCTATAGCGGCATTTTTGGAACAAACGCCG
* * * *
771396 CAAAAAGTTATGATATATAGCGGCGTTTCTAGAAAAAAACGCCGCAAAAGGTCAGATCTATAGCG
66 CAAAAAGTCATGACATATAACGGCGTTTCTAGAAAAAAACGCCGCAAAAAGTCAGATCTATAGCG
*
771461 GCGTTTTTGTATACAAACGCCGCAAAAGATAAGACTTATACT
131 GCGTTTTTGGATACAAACGCCGCAAAAGATAAGACTTATACT
* * * *
771503 GGCGTTTTTAGAACAAACGCCGTAAAAGGTC-AGACCTATAGTGGTATTTTTGGACACAAACGTC
1 GGCGTTTTTAGAACAAACGCCGCAAAAGGTCGAGACCTATAGCGGCATTTTTGGA-ACAAACGCC
* *
771567 GCAAAATA-TCA-GACATATAACGGCGTTT-TTGAACACAAACGCCGCAAAAAGTCAGA-CATAT
65 GCAAAA-AGTCATGACATATAACGGCGTTTCTAGAA-AAAAACGCCGCAAAAAGTCAGATC-TAT
771628 AGCGGCGTTTTTGGATACAAACGCCGC
127 AGCGGCGTTTTTGGATACAAACGCCGC
771655 TAATTACCTT
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
170 5 0.04
171 82 0.62
172 44 0.33
173 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (172 bp):
GGCGTTTTTAGAACAAACGCCGCAAAAGGTCGAGACCTATAGCGGCATTTTTGGAACAAACGCCG
CAAAAAGTCATGACATATAACGGCGTTTCTAGAAAAAAACGCCGCAAAAAGTCAGATCTATAGCG
GCGTTTTTGGATACAAACGCCGCAAAAGATAAGACTTATACT
Found at i:774592 original size:17 final size:17
Alignment explanation
Indices: 774570--774608 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
774560 CATGCTTTTT
774570 TATCTAAGACAAATCGA
1 TATCTAAGACAAATCGA
774587 TATCTAAGACAAATCGA
1 TATCTAAGACAAATCGA
774604 TATCT
1 TATCT
774609 GTTCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (17 bp):
TATCTAAGACAAATCGA
Found at i:775596 original size:41 final size:41
Alignment explanation
Indices: 775551--775935 Score: 317
Period size: 41 Copynumber: 9.3 Consensus size: 41
775541 TTGTAAACAC
* *
775551 AAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
* * *
775592 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
* * * * *
775633 AAATGCCACTAAATTACGAGTCTTTAGCGACGTTTGTAA-ACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTG-AATA-A
* * * *
775675 CAAACGCCACTATAGTACAAGTGTATAACGGCGTTTAAATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
* ** * *
775717 AAATGCCACTAAAGTACGCGTCTTTAGCGGAGTTTGTAA-ACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTG-AATA-A
* * * * *
775759 CAAACGCCACTATAGTACATGTGTATAACGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
* * *
775801 AAATGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
*** * ** * *
775842 AAATATCACTAAATTATGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
* * * * *
775883 AAACGCCACTAAAGTACTACTCTTTTGCGGCGTTTG-TTGAAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAAT--AA
775925 AAACGCCACTA
1 AAACGCCACTA
775936 TATATGAACC
Statistics
Matches: 276, Mismatches: 58, Indels: 19
0.78 0.16 0.05
Matches are distributed among these distances:
40 1 0.00
41 195 0.71
42 23 0.08
43 57 0.21
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAA
Found at i:775682 original size:84 final size:82
Alignment explanation
Indices: 775555--775935 Score: 363
Period size: 84 Copynumber: 4.6 Consensus size: 82
775545 AAACACAAAC
* * * * * * *
775555 GCCACTATAGTACAAGTGTATAGCGGCGTTTG-AATAAAAACGCCACTAAAGTACGAGTCTTTAG
1 GCCACTAAAGTACGAGTCTTTAGCGACGTTTGTAA-AAAAACGCCACTAAAGTACGAGTCTATAA
775619 CGGCGTTTGTATAAAAAT
65 CGGCGTTTGTATAAAAAT
* * * *
775637 GCCACTAAATTACGAGTCTTTAGCGACGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCCACTAAAGTACGAGTCTTTAGCGACGTTTGTAAA-A-AAACGCCACTAAAGTACGAGTCTATA
**
775702 ACGGCGTTTAAATAAAAAT
64 ACGGCGTTTGTATAAAAAT
* * *
775721 GCCACTAAAGTACGCGTCTTTAGCGGA-GTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTA
1 GCCACTAAAGTACGAGTCTTTAGC-GACGTTTGTAAA-A-AAACGCCACTAAAGTACGA-GTCTA
775784 TAACGGCGTTTGTATAAAAAT
62 TAACGGCGTTTGTATAAAAAT
* * * * * *** * * * *
775805 GCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATATCACTAAATTATGAGTCTTTAGC
1 GCCACTAAAGTACGAGTCTTTAGCGACGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAAC
*
775870 GGCGTTTGTATAAAAAC
66 GGCGTTTGTATAAAAAT
* * * * *
775887 GCCACTAAAGTACTACTCTTTTGCGGCGTTTGTTGAAAAAACGCCACTA
1 GCCACTAAAGTACGAGTCTTTAGCGACGTTTG-TAAAAAAACGCCACTA
775936 TATATGAACC
Statistics
Matches: 249, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
82 88 0.35
83 18 0.07
84 141 0.57
85 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (82 bp):
GCCACTAAAGTACGAGTCTTTAGCGACGTTTGTAAAAAAACGCCACTAAAGTACGAGTCTATAAC
GGCGTTTGTATAAAAAT
Found at i:775809 original size:125 final size:125
Alignment explanation
Indices: 775540--775899 Score: 465
Period size: 125 Copynumber: 2.9 Consensus size: 125
775530 ACTTGCGGCA
*
775540 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAACGCCACTAAA
1 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCCACTAAA
* * * *
775605 GTACGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTAGCGACG
66 GTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAACGACG
* *
775665 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTAAATAAAAATGCCACTAAA
1 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCCACTAAA
* * * * * *
775730 GTACGCGTCTTTAGCGGAGTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTATAACGGCG
66 GTACGAGTCTTTAGCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGA-GTCTATAACGACG
* * * * * * **
775792 TTTGTATA-A-AAATGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATATCACTAAA
1 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCCACTAAA
* *
775855 TTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
66 GTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC
775900 TACTCTTTTG
Statistics
Matches: 203, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
123 16 0.08
124 1 0.00
125 153 0.75
126 3 0.01
127 30 0.15
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (125 bp):
TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAAATGCCACTAAA
GTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAACGACG
Found at i:778969 original size:162 final size:165
Alignment explanation
Indices: 778687--779017 Score: 607
Period size: 162 Copynumber: 2.0 Consensus size: 165
778677 GATTGATTTA
778687 TAAAATTATTCAAATTTGTTAAAAACAGTTGAATTTGATTTCGTTATTTTAGTCCACTTAAAATT
1 TAAAATTATTCAAATTTGTTAAAAACAGTTGAATTTGATTTCGTTATTTTAGTCCACTTAAAATT
778752 TACTATGAATTATTGAATAAATTGATTGTACTGACATTTATTTAGTGCCGGAAGTTTTTAGTTTG
66 TACTATGAA-TATT-AATAAATTGATTGTACTGACATTTATTTAGTGCCGGAAGTTTTTAGTTTG
778817 GAGCATAAATAAAAAAGGTTTAAACATATAATTAAATG
129 GAGCATAAATAAAAAAGG-TTAAACATATAATTAAATG
778855 TAAAATTATTCAAATTTGTTAAAAACAGTTGAATTTGA-TTCGTTATTTTAGTCCACTTAAAATT
1 TAAAATTATTCAAATTTGTTAAAAACAGTTGAATTTGATTTCGTTATTTTAGTCCACTTAAAATT
778919 TACTATG-A-ATT-ATAAATTGATTGTACTGACATTTATTTAGTGCCGGAAGTTTTTAGTTTGGA
66 TACTATGAATATTAATAAATTGATTGTACTGACATTTATTTAGTGCCGGAAGTTTTTAGTTTGGA
778981 GCATAAATAAAAAAGGTTAAACATATAATTAAATG
131 GCATAAATAAAAAAGGTTAAACATATAATTAAATG
779016 TA
1 TA
779018 TGCATATGTA
Statistics
Matches: 163, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
161 21 0.13
162 67 0.41
164 3 0.02
166 1 0.01
167 33 0.20
168 38 0.23
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (165 bp):
TAAAATTATTCAAATTTGTTAAAAACAGTTGAATTTGATTTCGTTATTTTAGTCCACTTAAAATT
TACTATGAATATTAATAAATTGATTGTACTGACATTTATTTAGTGCCGGAAGTTTTTAGTTTGGA
GCATAAATAAAAAAGGTTAAACATATAATTAAATG
Found at i:781191 original size:31 final size:31
Alignment explanation
Indices: 781155--781219 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
781145 GTCTGAGAAT
** * * *
781155 CTAAAATGGTAACGGAGAAAACGTTAGACGC
1 CTAAAATAATAACAGAGAAAAAGTTAGACAC
781186 CTAAAATAATAACAGAGAAAAAGTTAGACAC
1 CTAAAATAATAACAGAGAAAAAGTTAGACAC
781217 CTA
1 CTA
781220 TTTTTAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.17
Consensus pattern (31 bp):
CTAAAATAATAACAGAGAAAAAGTTAGACAC
Found at i:781822 original size:27 final size:28
Alignment explanation
Indices: 781792--781878 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 28
781782 AAAAATCGAG
*
781792 TTCGGGTCAAG-TTTTTTAAGTTTGATA
1 TTCGGGTCAAGTTTTTTTAAGTGTGATA
**
781819 TTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCAAGTTTTTTTAAGTGTGATA
781847 TTCGGGT-AATGTTTTTTTAAGTGTGATA
1 TTCGGGTCAA-GTTTTTTTAAGTGTGATA
781875 TTCG
1 TTCG
781879 AGTCGGTTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
27 9 0.17
28 44 0.83
ACGTcount: A:0.18, C:0.07, G:0.26, T:0.48
Consensus pattern (28 bp):
TTCGGGTCAAGTTTTTTTAAGTGTGATA
Found at i:782195 original size:16 final size:16
Alignment explanation
Indices: 782174--782204 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
782164 GTTTCAGATT
782174 TAGATTCCAATTCCTA
1 TAGATTCCAATTCCTA
*
782190 TAGATTTCAATTCCT
1 TAGATTCCAATTCCT
782205 TCACATATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (16 bp):
TAGATTCCAATTCCTA
Found at i:784127 original size:34 final size:30
Alignment explanation
Indices: 784087--784166 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 30
784077 ACTTACATAA
**
784087 TTTTTTGGTCAAAATAAATATTTAAAGTTATTT
1 TTTTTTGGTCAAAATAAATATCAAAAG-TA--T
* *
784120 TCTTTTTGGACAAAATAGATATCAAAAGTAT
1 T-TTTTTGGTCAAAATAAATATCAAAAGTAT
784151 TTTTTTGGTCAAAATA
1 TTTTTTGGTCAAAATA
784167 TGTACTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 14 0.34
31 2 0.05
33 3 0.07
34 22 0.54
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (30 bp):
TTTTTTGGTCAAAATAAATATCAAAAGTAT
Found at i:784178 original size:30 final size:28
Alignment explanation
Indices: 784087--784182 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 28
784077 ACTTACATAA
*
784087 TTTTTTGGTCAAAATAAATATTTAAAGTTATTT
1 TTTTTTGGTCAAAAT-AGTA-TTAAAG-TA--T
* *
784120 TCTTTTTGGACAAAATAGATATCAAAAGTAT
1 T-TTTTTGGTCAAAATAG-TAT-TAAAGTAT
784151 TTTTTTGGTCAAAATATGTACTTAAAGTAT
1 TTTTTTGGTCAAAATA-GTA-TTAAAGTAT
784181 TT
1 TT
784183 AATTTTTCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
30 25 0.47
31 4 0.08
33 5 0.09
34 19 0.36
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (28 bp):
TTTTTTGGTCAAAATAGTATTAAAGTAT
Found at i:784299 original size:28 final size:28
Alignment explanation
Indices: 784263--784364 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
784253 AAAATGTTTG
* *
784263 AATAGTTTAGGTACCTATTTTGACATAA
1 AATACTTTAGGTACCTATTTTGACAAAA
784291 AATACTTTAGGTACCTATTTTGACTAAAAA
1 AATACTTTAGGTACCTATTTTGAC--AAAA
* * **
784321 AATAATTTTAAGTATTTATTTTGACCAAAA
1 AAT-ACTTTAGGTACCTATTTTGA-CAAAA
784351 AATACTTTAGGTAC
1 AATACTTTAGGTAC
784365 TTAAACGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 23 0.38
29 8 0.13
30 13 0.21
31 16 0.26
32 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (28 bp):
AATACTTTAGGTACCTATTTTGACAAAA
Found at i:786150 original size:2 final size:2
Alignment explanation
Indices: 786143--786172 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
786133 TAACTCCGGC
786143 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
786173 CCTGTATAAC
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:790357 original size:20 final size:19
Alignment explanation
Indices: 790312--790358 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
790302 AATTTTGATC
*
790312 AAATTAAATTTTATTTTCG
1 AAATTAAATTTTAATTTCG
*
790331 AATTTAAATATTTAATTT-G
1 AAATTAAAT-TTTAATTTCG
790350 AAAATTAAA
1 -AAATTAAA
790359 AAATCTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
AAATTAAATTTTAATTTCG
Found at i:791440 original size:24 final size:26
Alignment explanation
Indices: 791396--791443 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
791386 ATTTTCGGTA
791396 AAAAATTACTTAAATTATTTTTTATC
1 AAAAATTACTTAAATTATTTTTTATC
791422 AAAAA-TA-TTAATATT-TTTTTTA
1 AAAAATTACTTAA-ATTATTTTTTA
791444 ATATTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 5 0.24
26 5 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAAATTACTTAAATTATTTTTTATC
Found at i:791764 original size:52 final size:52
Alignment explanation
Indices: 791686--791784 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
791676 ATGAGATAGT
791686 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
1 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
*
791738 AAACATACTACCGTCGTTATATTTCATTATCCTTTGATTTGATCTTT
1 AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTT
791785 TCATGCATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.46
Consensus pattern (52 bp):
AAACATACTACCGTCCTTATATTTCATTATCCTTTGATTTGATCTTTGATTC
Found at i:792027 original size:32 final size:32
Alignment explanation
Indices: 791991--792068 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
791981 ATATAATGTT
* * * *
791991 TCATGTCTTTATTTATGTGTACGTAATATATA
1 TCATGTCATTATTTATATATACATAATATATA
* *
792023 TCATGTCATCATTTATATATACATAATATGTA
1 TCATGTCATTATTTATATATACATAATATATA
*
792055 TCATATCATTATTT
1 TCATGTCATTATTT
792069 TAAATATATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (32 bp):
TCATGTCATTATTTATATATACATAATATATA
Found at i:793593 original size:22 final size:20
Alignment explanation
Indices: 793549--793586 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
793539 AGTTTTGAGG
793549 TTATTTAAAAATATATATTT
1 TTATTTAAAAATATATATTT
793569 TTATTTAAAAATATATAT
1 TTATTTAAAAATATATAT
793587 AATTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTTAAAAATATATATTT
Found at i:793602 original size:22 final size:21
Alignment explanation
Indices: 793552--793603 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
793542 TTTGAGGTTA
* *
793552 TTTAAAAATATATATTTTTAT
1 TTTAAATATATATATTTTAAT
*
793573 TTAAAAATATATATAATTTTAAT
1 TT-TAAATATATAT-ATTTTAAT
793596 TTTAAATA
1 TTTAAATA
793604 AAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 14 0.56
23 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAAATATATATATTTTAAT
Found at i:796839 original size:25 final size:25
Alignment explanation
Indices: 796811--796862 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
796801 AGACATCTCC
796811 ACCCGTACA-ACGAGAGAAACTCGAG
1 ACCCGTA-AGACGAGAGAAACTCGAG
* *
796836 ACCCGTAAGGCGAGAGAAGCTCGAG
1 ACCCGTAAGACGAGAGAAACTCGAG
796861 AC
1 AC
796863 AATGTTAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.37, C:0.27, G:0.29, T:0.08
Consensus pattern (25 bp):
ACCCGTAAGACGAGAGAAACTCGAG
Found at i:800992 original size:20 final size:20
Alignment explanation
Indices: 800949--801010 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
800939 TGTTAATATC
*
800949 AAAAATATTCATTTTAAGTAA
1 AAAAATAAT-ATTTTAAGTAA
*
800970 AAAAATTAATATTTTCAGTAA
1 AAAAA-TAATATTTTAAGTAA
800991 AAAAATAATATTTTAAGTAA
1 AAAAATAATATTTTAAGTAA
801011 CACTATACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.38
21 20 0.54
22 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAAATAATATTTTAAGTAA
Found at i:802628 original size:15 final size:15
Alignment explanation
Indices: 802603--802656 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
802593 TTTACCCATT
*
802603 TTATTAGTATTATAA
1 TTATTATTATTATAA
*
802618 TTATAATTATTATAA
1 TTATTATTATTATAA
802633 TTATTA-TA-TAT-A
1 TTATTATTATTATAA
802645 TTATTATTATTA
1 TTATTATTATTA
802657 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 7 0.21
13 5 0.15
14 4 0.12
15 18 0.53
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTATTATTATTATAA
Found at i:802629 original size:9 final size:9
Alignment explanation
Indices: 802617--802656 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
802607 TAGTATTATA
802617 ATTATAATT
1 ATTATAATT
802626 ATTATAATT
1 ATTATAATT
802635 ATTAT-ATAT
1 ATTATAAT-T
*
802644 ATTATTATT
1 ATTATAATT
802653 ATTA
1 ATTA
802657 AAAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 25 0.86
10 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTATAATT
Found at i:802638 original size:18 final size:18
Alignment explanation
Indices: 802610--802656 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
802600 ATTTTATTAG
802610 TATTATAATTA-TA-AT-
1 TATTATAATTATTATATA
802625 TATTATAATTATTATATA
1 TATTATAATTATTATATA
*
802643 TATTATTATTATTA
1 TATTATAATTATTA
802657 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 2 0.07
18 13 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTATAATTATTATATA
Found at i:802652 original size:6 final size:6
Alignment explanation
Indices: 802603--802656 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
802593 TTTACCCATT
* * * *
802603 TTATTA GTATTA TAATTA TAATTA TTATAA TTATTA -TATATA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTAT-TA TTATTA
802651 TTATTA
1 TTATTA
802657 AAAAAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 3 0.08
6 34 0.85
7 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (6 bp):
TTATTA
Found at i:804028 original size:14 final size:14
Alignment explanation
Indices: 804009--804044 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
803999 CTAATTGTAT
804009 TTTTATTATTTTAA
1 TTTTATTATTTTAA
*
804023 TTTTATTTGTTTTAA
1 TTTTA-TTATTTTAA
804038 TTTTATT
1 TTTTATT
804045 TGTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTATTATTTTAA
Found at i:804035 original size:15 final size:15
Alignment explanation
Indices: 804017--804049 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
804007 ATTTTTATTA
804017 TTTTAATTTTATTTG
1 TTTTAATTTTATTTG
804032 TTTTAATTTTATTTG
1 TTTTAATTTTATTTG
804047 TTT
1 TTT
804050 ATATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTAATTTTATTTG
Found at i:804260 original size:23 final size:22
Alignment explanation
Indices: 804214--804258 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
804204 ATTTATAAAA
804214 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
804236 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
804259 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:808292 original size:3 final size:3
Alignment explanation
Indices: 808284--808337 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
808274 TTTACCCATT
* *
808284 TTA TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
808329 TTA TTA TTA
1 TTA TTA TTA
808338 AAAAAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:809738 original size:19 final size:20
Alignment explanation
Indices: 809711--809749 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
809701 GTTTTAATTT
809711 TATTGTTTATATATT-TAAA
1 TATTGTTTATATATTATAAA
* *
809730 TATTTTTTATGTATTATAAA
1 TATTGTTTATATATTATAAA
809750 ATAATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATTGTTTATATATTATAAA
Found at i:809912 original size:23 final size:22
Alignment explanation
Indices: 809876--809924 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
809866 ATATTATAAA
809876 AAATTATAATTTAAT-TTTATTT
1 AAATTATAATTTAATATTTA-TT
*
809898 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAATATTTATT
809921 AAAT
1 AAAT
809925 ATCGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATTATAATTTAATATTTATT
Found at i:822120 original size:93 final size:93
Alignment explanation
Indices: 821960--822530 Score: 914
Period size: 93 Copynumber: 6.1 Consensus size: 93
821950 ACAAGTGCCG
821960 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCC-A
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCCTA
*
822024 AAACCCCATCATTGGATTTGAAAGATGAA
65 AAACCCAATCATTGGATTTGAAAGATGAA
*
822053 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTTGTTTGGTATGAACCCTAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAA
* * *
822118 AACCCAATCAATGGATTTGAAATATAAA
66 AACCCAATCATTGGATTTGAAAGATGAA
* * *
822146 TGTGCTCATAGCATCTTCTGGAAGTATTCTTTGCGTTATCTGATCTGGTTTGGTATGAACCCAAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAA
* * *
822211 AACCCCATCATTAGACTTGAAAGATGAA
66 AACCCAATCATTGGATTTGAAAGATGAA
*
822239 TATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCT-A
822304 AGAA-CCAATCATTGGATTTGAAAGATGAA
65 A-AACCCAATCATTGGATTTGAAAGATGAA
*
822333 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAA
* *
822398 AACCCCATCATTGGATTTTAAAGATGAA
66 AACCCAATCATTGGATTTGAAAGATGAA
* *
822426 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCTA
*
822491 AGAA-CCAATCATTGAATTTGAAAGATGAA
65 A-AACCCAATCATTGGATTTGAAAGATGAA
822520 TGTGCTCATAG
1 TGTGCTCATAG
822531 TACAAATAAA
Statistics
Matches: 441, Mismatches: 31, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
92 7 0.02
93 307 0.70
94 123 0.28
95 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAA
AACCCAATCATTGGATTTGAAAGATGAA
Found at i:822402 original size:187 final size:187
Alignment explanation
Indices: 821960--822530 Score: 984
Period size: 187 Copynumber: 3.1 Consensus size: 187
821950 ACAAGTGCCG
*
821960 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
822025 AACCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AACCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* * * *
822090 ATCTGATCTTGTTTGGTATGAACCCT-AA-AACCCAATCAATGGATTTGAAATATAAA
131 ATCTGATCTGGTTTGGTATGAACCCTGAAGAA-CCAATCATTGGATTTGAAAGATGAA
* * *
822146 TGTGCTCATAGCATCTTCTGGAAGTATTCTTTGCGTTATCTGATCTGGTTTGGTATGAACCCAAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
* * *
822211 AACCCCATCATTAGACTTGAAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AACCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
822276 ATCTGATCTGGTTTGGTATGAACCCTGAAGAACCAATCATTGGATTTGAAAGATGAA
131 ATCTGATCTGGTTTGGTATGAACCCTGAAGAACCAATCATTGGATTTGAAAGATGAA
822333 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
822398 AACCCCATCATTGGATTTTAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AACCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* * *
822463 ATCTGATCTGATTTGGTATGAACCCCGAAGAACCAATCATTGAATTTGAAAGATGAA
131 ATCTGATCTGGTTTGGTATGAACCCTGAAGAACCAATCATTGGATTTGAAAGATGAA
822520 TGTGCTCATAG
1 TGTGCTCATAG
822531 TACAAATAAA
Statistics
Matches: 362, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
186 148 0.41
187 212 0.59
188 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (187 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AACCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTTGGTATGAACCCTGAAGAACCAATCATTGGATTTGAAAGATGAA
Found at i:822466 original size:280 final size:280
Alignment explanation
Indices: 821962--822530 Score: 923
Period size: 280 Copynumber: 2.0 Consensus size: 280
821952 AAGTGCCGTG
821962 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCCAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCCAAAA
*
822027 CCCCATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 CCCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * *
822092 CTGATCTTGTTTGGTATGAACCCTAAAACCCAATCAATGGATTTGAAATATAAATGTGCTCATAG
131 CTGATCTGGTTTGGTATGAACCCCAAAACCCAATCAATGGATTTGAAAGATAAATGTGCTCATAG
* * *
822157 CATCTTCTGGAAGTATTCTTTGCGTTATCTGATCTGGTTTGGTATGAA-CCC-AAAAACCCCATC
196 CATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGAAAAA-CCAATC
822220 ATT-AGACTTGAAAGATGAATA
260 ATTGA-ACTTGAAAGATGAATA
822241 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCCTGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCC--AA
822305 GAA-CCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
64 -AACCCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* * * *
822369 TATCTGATCTGGTTTGGTATGAACCCCAAAACCCCATCATTGGATTTTAAAGATGAATGTGCTCA
128 TATCTGATCTGGTTTGGTATGAACCCCAAAACCCAATCAATGGATTTGAAAGATAAATGTGCTCA
* *
822434 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGAAGAACCAA
193 TAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGAAAAACCAA
* *
822499 TCATTGAATTTGAAAGATGAATG
258 TCATTGAACTTGAAAGATGAATA
822522 TGCTCATAG
1 TGCTCATAG
822531 TACAAATAAA
Statistics
Matches: 269, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
278 5 0.02
279 55 0.20
280 168 0.62
281 36 0.13
282 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (280 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCCAAAA
CCCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTTGGTATGAACCCCAAAACCCAATCAATGGATTTGAAAGATAAATGTGCTCATAG
CATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGAAAAACCAATCA
TTGAACTTGAAAGATGAATA
Found at i:822788 original size:115 final size:115
Alignment explanation
Indices: 822437--822864 Score: 700
Period size: 116 Copynumber: 3.7 Consensus size: 115
822427 GTGCTCATAG
* *
822437 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCGAAGAACCAATCA
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC-AAGAACCAATCA
822502 TTGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAA
65 TTGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAA
* * *
822553 CATCTTCTGGAAGTGTTCTTTGAGTTAACTGATCTGGTTTGGTATGAACCCCGAAAAACCAATCA
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAC-AAGAACCAATCA
*
822618 TTGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAG
65 TTGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAA
822669 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCAC-AGAACCAATCA
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAAGAACCAATCA
* * *
822733 TTGGATTTGAAAGATGAATGTGCTCATAGTACAAATAAAAAGACCCGATAA
65 TTGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAA
*
822784 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACCAC-AGAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAGAACCAATCAT
*
822848 TGGAA-TTAAAAGATGAA
66 T-GAATTTGAAAGATGAA
822865 CTGCATGATC
Statistics
Matches: 296, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
114 30 0.10
115 104 0.35
116 157 0.53
117 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (115 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAGAACCAATCAT
TGAATTTGAAAGATGAATGTGCTCATAGTACAAATAAAGAGACCCAATAA
Found at i:823824 original size:113 final size:113
Alignment explanation
Indices: 823704--824095 Score: 606
Period size: 113 Copynumber: 3.5 Consensus size: 113
823694 GAAGAACTCA
823704 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
1 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
* *
823769 TCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAATAAC
66 TCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAAC
* *
823817 TCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCA
1 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
823882 TCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAAC
66 TCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAAC
* * * *
823930 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTCAAATTCA
1 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
* **** *
823995 TCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAAC
66 TCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAAC
* * * **
824043 TTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTT
1 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
824096 ACATAATTCT
Statistics
Matches: 260, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
112 39 0.15
113 221 0.85
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (113 bp):
TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
TCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAAC
Found at i:824218 original size:236 final size:226
Alignment explanation
Indices: 823693--824220 Score: 585
Period size: 226 Copynumber: 2.3 Consensus size: 226
823683 ATTGCCAGGT
*
823693 AGAAGAACTCATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
1 AGAAGAACTCATC-TC--AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
* * **** * *
823758 GCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAATAACTCATCT
63 GCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCT
* * * * * *
823823 GAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTT
128 GAAGAAAGAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCAGCAATT
* * ****
823888 GATGGATCAACTTTTCCAGTTCGAGTTCATAATG
193 GATGCATCAACCTTTCCAGAGAAAGTTCATAATG
* * *
823922 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTT
1 AGAAGAACTCATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
* *
823987 CAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAA
66 CAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAA
* * *
824052 G-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTACAT-AATTCTATCACAGAA
131 GAAAGAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTAC-TCAA----ATC-C---A
824115 GCAGATAT-ATTAGCATCAACCTTTCCAGAGAAAGTTCATAATG
187 GCA-AT-TGA-T-GCATCAACCTTTCCAGAGAAAGTTCATAATG
* * ** *
824158 AGAAGAACTCATCTCAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
1 AGAAGAACTCATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
824221 AACGACTATA
Statistics
Matches: 250, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
225 40 0.16
226 104 0.42
228 1 0.00
229 16 0.06
230 1 0.00
233 3 0.01
234 2 0.01
235 2 0.01
236 81 0.32
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (226 bp):
AGAAGAACTCATCTCAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
CAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAA
GAAAGAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCAGCAATTGAT
GCATCAACCTTTCCAGAGAAAGTTCATAATG
Found at i:824233 original size:124 final size:123
Alignment explanation
Indices: 824006--824308 Score: 337
Period size: 124 Copynumber: 2.5 Consensus size: 123
823996 CACTTGATGG
* * * * *
824006 ATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACA
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTCAAGAGAAAGAAGAAGTTCACA
* * * * * * * * *
824071 ATGAGAAGAGCTTGTTCAACCTTTTACATAATTCTATCACAGAAGCAGATATATTAGC
66 ATGAGAAGAGCTTATTCAACCTTTTACACAACTATATCACAAAAGCAAATAGATCAAC
*
824129 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTCAAGGAGAAAGAAGAAGTTCAT
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTCAA-GAGAAAGAAGAAGTTCAC
* * *
824194 AATGAGAAGAGCTTATTCAACCTTTTGA-ACGACTATATCACAAAAGGAAATAGGTCAAC
65 AATGAGAAGAGCTTATTCAACCTTTT-ACACAACTATATCACAAAAGCAAATAGATCAAC
* * * *
824253 ATCATCC---CCAGCGAAAAGTTCATAATGAGAAGAACTCATATGAAGA-AAGAGAAGAA
1 ATCAACCTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTCAAGAGAA-AGAAGAA
824309 TTTATTCAAC
Statistics
Matches: 154, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
120 2 0.01
121 14 0.09
122 28 0.18
123 42 0.27
124 67 0.44
125 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (123 bp):
ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTCAAGAGAAAGAAGAAGTTCACA
ATGAGAAGAGCTTATTCAACCTTTTACACAACTATATCACAAAAGCAAATAGATCAAC
Found at i:824452 original size:3 final size:3
Alignment explanation
Indices: 824444--824497 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
824434 TTTACCCATT
* *
824444 TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
824489 TTA TTA TTA
1 TTA TTA TTA
824498 AAAAAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:824464 original size:15 final size:15
Alignment explanation
Indices: 824444--824497 Score: 87
Period size: 15 Copynumber: 3.8 Consensus size: 15
824434 TTTACCCATT
824444 TTATTATTATTATAA
1 TTATTATTATTATAA
824459 TTATTATTATTATAA
1 TTATTATTATTATAA
824474 TTATTA-TA-TAT-A
1 TTATTATTATTATAA
824486 TTATTATTATTA
1 TTATTATTATTA
824498 AAAAAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.19
13 5 0.14
14 4 0.11
15 21 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATAA
Found at i:826067 original size:23 final size:22
Alignment explanation
Indices: 826021--826065 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
826011 ATATTATAAA
826021 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
826043 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
826066 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Done.