Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 234 of 349
Found at i:77166353 original size:53 final size:53
Alignment explanation
Indices: 77166272--77166471 Score: 186
Period size: 53 Copynumber: 3.7 Consensus size: 53
77166262 TTTCCTTTTT
* * * **
77166272 GAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTAGCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATA
* * *
77166325 GAACTCACCAATGCCATGCCTTGGCATGGTTTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA
** * * * * *
77166379 GTAACTCGTCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATA
* * * *
77166434 AAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
77166472 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 33 0.28
55 40 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATA
Found at i:77166464 original size:54 final size:55
Alignment explanation
Indices: 77166283--77166485 Score: 189
Period size: 54 Copynumber: 3.7 Consensus size: 55
77166273 AACTTACCAT
* * ** * * * *
77166283 TGCCATGTCTTGACATGGTCTTATGTGGTAGCCTTGCCTTAT-G-AACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
* ** * * *
77166336 TGCCATGCCTTGGCATGGTTTTACATGGGA-CCTTTGCCTTATAGTAACTCGTCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCC-TTACCTTATAGAAACTCATCAA
* * * * *
77166391 TACCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA-AAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
*
77166445 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTA
77166486 CCAAATGCCA
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.27
54 45 0.37
55 40 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (55 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
Found at i:77166574 original size:47 final size:47
Alignment explanation
Indices: 77166458--77166577 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
77166448 CATGCCTTGG
* * *
77166458 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATACCATGTTCCAAA
* *
77166505 CATAGTCTTACATGGTATCCTTGTCTTACTAAATACCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATACCATGTTCCAAA
77166552 CATGGTCTTACATGGTATCCTTGTCT
1 CATGGTCTTACATGGTATCCTTGTCT
77166578 AAGTGCCAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATACCATGTTCCAAA
Found at i:77166768 original size:44 final size:44
Alignment explanation
Indices: 77166718--77166801 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
77166708 ATCATAACTG
* *
77166718 TCAATTCGTCCTTAAATGCCATGTTATCAA-CATGGTCTTTTCTA
1 TCAATTCGTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCTA
* *
77166762 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCGTCCTTAAATGCCATGGTACAACCATGGACTTT
77166802 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCGTCCTTAAATGCCATGGTACAACCATGGACTTTTCTA
Found at i:77169312 original size:31 final size:31
Alignment explanation
Indices: 77169272--77169355 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
77169262 TTAGTCTTGA
77169272 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
77169302 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
77169333 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
77169356 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:77169426 original size:42 final size:42
Alignment explanation
Indices: 77169379--77169512 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
77169369 TGGCCCTTAG
77169379 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
* *
77169421 GCCCATTTCAATATCACATATAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
77169463 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
77169505 GCCCATTT
1 GCCCATTT
77169513 GGGGAGACTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:77169688 original size:25 final size:24
Alignment explanation
Indices: 77169647--77169730 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
77169637 CTGGAGGCCT
77169647 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
77169671 AGCCCTTTCTAATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
77169696 AGCCCTTTTTGGTAAACTGGGGCAG
1 AGCCC-TTTTAATAAACTGGGGCAA
77169721 AGCCCTTTTA
1 AGCCCTTTTA
77169731 GCATTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.08
24 12 0.23
25 34 0.64
26 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:77170601 original size:27 final size:27
Alignment explanation
Indices: 77170539--77170603 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
77170529 GATCGTATTC
77170539 GTCATTTTACCATACAAGGGTATTACA
1 GTCATTTTACCATACAAGGGTATTACA
* * *
77170566 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACA
*
77170593 GTCTTTTTACC
1 GTCATTTTACC
77170604 TATTTGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACA
Found at i:77170687 original size:27 final size:27
Alignment explanation
Indices: 77170634--77170870 Score: 161
Period size: 27 Copynumber: 8.7 Consensus size: 27
77170624 TTTCATCCTA
* * * *
77170634 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
77170661 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
77170688 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* *** ** *
77170717 CAAGGATATTTTTATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * *
77170744 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** *
77170771 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
77170798 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* *
77170825 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
77170852 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
77170871 CTATCCTATA
Statistics
Matches: 171, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 140 0.82
28 15 0.09
29 14 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:77170806 original size:54 final size:54
Alignment explanation
Indices: 77170745--77170903 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 54
77170735 TTTGTAAATT
*
77170745 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACC
* * * * * *
77170799 AGTGGTATTTCGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACC
* ** *
77170853 AGGGGTATTTTGGTAATTCTATCCTATAG-GGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAATAGAGGGTATTTCGGTAATTTCACAA
77170904 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 84 0.97
55 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACC
Found at i:77170887 original size:81 final size:81
Alignment explanation
Indices: 77170745--77170903 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
77170735 TTTGTAAATT
* *
77170745 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
* *
77170810 GGTAATTTTACAAACC
66 AGTAATTTCACAAACC
* ** *
77170826 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATCCTA-TAGGGGTAT
1 AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTAT
77170888 TTCAGTAATTTCACAA
63 TTCAGTAATTTCACAA
77170904 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.04
81 60 0.90
82 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AGTAATTTCACAAACC
Found at i:77170976 original size:54 final size:54
Alignment explanation
Indices: 77170902--77171045 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
77170892 GTAATTTCAC
* *
77170902 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAACGATAATTCTATA
* *
77170956 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
* * * **
77171010 AATCGAGGGCAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
77171046 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
Found at i:77171047 original size:27 final size:27
Alignment explanation
Indices: 77170902--77171045 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
77170892 GTAATTTCAC
* *
77170902 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
77170929 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
77170956 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
77170983 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
77171010 AATCGAGGGCAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
77171037 AATCGAGGG
1 AATCGAGGG
77171046 CATTTCAGTA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 96 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:77171057 original size:81 final size:81
Alignment explanation
Indices: 77170886--77171065 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
77170876 CTATAGGGGT
* * * * *
77170886 ATTTCAGTAA-TTT-CACAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAA
1 ATTTCAGTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGCAAAATGGTAA
* *
77170949 TTCTATAAATCAAGGGT
65 TTCTACAAATCAAGGGC
*** * *
77170966 AAAACGGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTATAAA-TCGAGGGCAAAATGGTAA
1 ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGCAAAATGGTAA
*
77171030 TTCTACAAATCGAGGGC
65 TTCTACAAATCAAGGGC
*
77171047 ATTTCAGTAATTTGGTAAA
1 ATTTCAGTAATTTTGTAAA
77171066 CTAAAGTATT
Statistics
Matches: 79, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
80 7 0.09
81 71 0.90
82 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (81 bp):
ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGCAAAATGGTAAT
TCTACAAATCAAGGGC
Found at i:77176458 original size:43 final size:42
Alignment explanation
Indices: 77176375--77176573 Score: 168
Period size: 43 Copynumber: 4.6 Consensus size: 42
77176365 ATATCGTACA
* * ** * *
77176375 ATGCCAACGTCCTAGACATGGTCTTACATGTAACCTCATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACATAAACACATATCG
* *
77176418 ATGCCACTGTCCCAGATAG-GGTCTTACTCATAAACACATATCG
1 ATGCCAC-GTCCCAGA-CGTGGTCTTACACATAAACACATATCG
* ** * * *
77176461 ATGCAAATTCCCAGACGTGGTCTTACACGTAATCACATATCA
1 ATGCCACGTCCCAGACGTGGTCTTACACATAAACACATATCG
* *
77176503 ATGCCAACATCCTAGACGTGGTCTTACACA-AAATCACATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACATAAA-CACATATCG
* *
77176546 ATGCCAGCGTCCCAAACATGGTCTTACA
1 ATGCCA-CGTCCCAGACGTGGTCTTACA
77176574 TGTAAATATC
Statistics
Matches: 123, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 36 0.29
43 86 0.70
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACACATAAACACATATCG
Found at i:77187023 original size:40 final size:40
Alignment explanation
Indices: 77186968--77187189 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
77186958 TATTCGAATG
77186968 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
77187008 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
77187048 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
77187088 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
77187128 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
77187168 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
77187190 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 153 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:77192481 original size:43 final size:42
Alignment explanation
Indices: 77192431--77192539 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 42
77192421 CCATATCCCG
* * *
77192431 GATATGGTCTTACATGTAATCTCTTATTGATGCCAATAACCTA
1 GATATGGTCTTACACGTAATCTCATATCGATGCC-ATAACCTA
* * *
77192474 GTTATGGTCTTACACG-AAGCCTCATATCGATGCCATATCCTA
1 GATATGGTCTTACACGTAA-TCTCATATCGATGCCATAACCTA
*
77192516 GATATTGTCTTACACGTAATCTCA
1 GATATGGTCTTACACGTAATCTCA
77192540 GTAATCATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.49
43 28 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (42 bp):
GATATGGTCTTACACGTAATCTCATATCGATGCCATAACCTA
Found at i:77192529 original size:42 final size:42
Alignment explanation
Indices: 77192418--77192539 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
77192408 TACCGTACCA
** * * * *
77192418 ATGCCATATCCCGGATATGGTCTTACATGTAATCTCTTATTG
1 ATGCCATATCCTAGATATGGTCTTACACGTAACCTCATATCG
* *
77192460 ATGCCAATAACCTAGTTATGGTCTTACACG-AAGCCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-CCTCATATCG
* *
77192503 ATGCCATATCCTAGATATTGTCTTACACGTAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGTAACCTCA
77192540 GTAATCATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAACCTCATATCG
Found at i:77192722 original size:23 final size:25
Alignment explanation
Indices: 77192688--77192737 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
77192678 TTATCACTAT
77192688 TATATCAATTAA-GCAT-TTAAACA
1 TATATCAATTAATGCATATTAAACA
*
77192711 TATAT-AATTTAATGCTTATTAAACA
1 TATATCAA-TTAATGCATATTAAACA
77192736 TA
1 TA
77192738 CGAACTTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.09
23 9 0.39
24 3 0.13
25 9 0.39
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TATATCAATTAATGCATATTAAACA
Found at i:77197447 original size:19 final size:19
Alignment explanation
Indices: 77197431--77197476 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
77197421 AAATAAAACT
*
77197431 AACATTAATATTAAAAATA
1 AACATTAAAATTAAAAATA
* *
77197450 AATATTAAAATTAAAATTA
1 AACATTAAAATTAAAAATA
77197469 AA-ATTAAA
1 AACATTAAA
77197477 GACAAAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AACATTAAAATTAAAAATA
Found at i:77197455 original size:13 final size:13
Alignment explanation
Indices: 77197437--77197476 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
77197427 AACTAACATT
*
77197437 AATATTAAAAATA
1 AATATTAAAATTA
77197450 AATATTAAAATTA
1 AATATTAAAATTA
77197463 AA-ATTAAAATTA
1 AATATTAAAATTA
77197475 AA
1 AA
77197477 GACAAAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATTAAAATTA
Found at i:77197468 original size:25 final size:24
Alignment explanation
Indices: 77197421--77197508 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 24
77197411 TTATTAAAAT
* *
77197421 AAATAAAACTAACATTAATATTAA
1 AAATAAAACTAAAATTAAAATTAA
*
77197445 AAATAAATATTAAAATTAAAATTAA
1 AAATAAA-ACTAAAATTAAAATTAA
* * * *
77197470 AATTAAAGAC-AAAGATAAAAATGAG
1 AAATAAA-ACTAAA-ATTAAAATTAA
*
77197495 AAATAAAAATAAAA
1 AAATAAAACTAAAA
77197509 CTAAGAAAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 12 0.24
25 38 0.76
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (24 bp):
AAATAAAACTAAAATTAAAATTAA
Found at i:77201133 original size:28 final size:27
Alignment explanation
Indices: 77201070--77201122 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
77201060 AAAGAGAAAG
77201070 TAATTTAAGTAATGTAAAGGTAATAAA
1 TAATTTAAGTAATGTAAAGGTAATAAA
77201097 TTAATTTAAGTAATGTAAAGGTAATA
1 -TAATTTAAGTAATGTAAAGGTAATA
77201123 CGAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (27 bp):
TAATTTAAGTAATGTAAAGGTAATAAA
Found at i:77204283 original size:57 final size:57
Alignment explanation
Indices: 77204195--77204312 Score: 236
Period size: 57 Copynumber: 2.1 Consensus size: 57
77204185 TTCGTCAAAG
77204195 TGACAGTTTCATATTCACTAAGTCATTTCTTCTTAGACAAGATATCCTTCATAAACT
1 TGACAGTTTCATATTCACTAAGTCATTTCTTCTTAGACAAGATATCCTTCATAAACT
77204252 TGACAGTTTCATATTCACTAAGTCATTTCTTCTTAGACAAGATATCCTTCATAAACT
1 TGACAGTTTCATATTCACTAAGTCATTTCTTCTTAGACAAGATATCCTTCATAAACT
77204309 TGAC
1 TGAC
77204313 GTAATTAAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.38
Consensus pattern (57 bp):
TGACAGTTTCATATTCACTAAGTCATTTCTTCTTAGACAAGATATCCTTCATAAACT
Found at i:77210835 original size:37 final size:37
Alignment explanation
Indices: 77210785--77210863 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
77210775 TTATTACGAA
* *
77210785 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
77210822 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
77210859 GTCTT
1 GTCTT
77210864 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77211099 original size:47 final size:47
Alignment explanation
Indices: 77210982--77211499 Score: 862
Period size: 47 Copynumber: 11.1 Consensus size: 47
77210972 CCCTTCGGGA
* * * * * * *
77210982 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
77211029 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77211075 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211121 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211168 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211215 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211262 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211309 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77211356 CTTATCACACATATACA-TTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211402 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77211449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77211496 CTTA
1 CTTA
77211500 CTATCATTTC
Statistics
Matches: 447, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 128 0.29
47 319 0.71
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77211233 original size:140 final size:141
Alignment explanation
Indices: 77210982--77211499 Score: 871
Period size: 140 Copynumber: 3.7 Consensus size: 141
77210972 CCCTTCGGGA
** * * * * * * **
77210982 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
77211046 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
77211111 -GCCATTAGGC
131 GGCTATTAGGC
* *
77211121 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
77211186 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
77211251 GGCTATTAGGC
131 GGCTATTAGGC
77211262 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
77211327 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA-TTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
77211391 GGCTATTAGGC
131 GGCTATTAGGC
77211402 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
77211467 TTTCACATTCATCACATCGGCCATTAGGCCTTA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA
77211500 CTATCATTTC
Statistics
Matches: 361, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
139 40 0.11
140 204 0.57
141 117 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:77211448 original size:234 final size:234
Alignment explanation
Indices: 77210982--77211499 Score: 860
Period size: 234 Copynumber: 2.2 Consensus size: 234
77210972 CCCTTCGGGA
* * * * * * * ** *
77210982 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
77211046 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
77211111 GCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
131 GCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
77211176 ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77211215 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
77211280 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
77211345 GGCTATTAGGCCTTATCACACATATACA-TTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 -GCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
77211409 CACATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CACATATACACTTTCACATTCATCACATCGGCCATTAGGC
77211449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
77211500 CTATCATTTC
Statistics
Matches: 265, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
233 40 0.15
234 201 0.76
235 24 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77215011 original size:25 final size:25
Alignment explanation
Indices: 77214974--77215025 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
77214964 AAGGAATTCA
77214974 CACACACACAGTGCCTCTAATT-ATT
1 CACACACACAGTG-CTCTAATTCATT
* * *
77214999 CACATACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTAATTCATT
77215024 CA
1 CA
77215026 TTAATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
CACACACACAGTGCTCTAATTCATT
Found at i:77215248 original size:40 final size:40
Alignment explanation
Indices: 77215188--77215341 Score: 254
Period size: 40 Copynumber: 3.9 Consensus size: 40
77215178 CGAATACACG
* * * * *
77215188 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
77215228 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
77215268 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
77215308 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCG
77215342 AATTTAGTAA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:77215423 original size:40 final size:41
Alignment explanation
Indices: 77215188--77215429 Score: 248
Period size: 40 Copynumber: 6.0 Consensus size: 41
77215178 CGAATACACG
* * * *
77215188 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATAT-A
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
77215228 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
77215268 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
* * *
77215308 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGAAT-TTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
* * ** * **
77215348 GTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGA-CTTAGCCCGGATATCA
* * *
77215389 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACATCA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
77215429 T
1 T
77215430 TCGAATAACC
Statistics
Matches: 172, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 150 0.87
41 19 0.11
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATCA
Found at i:77215768 original size:29 final size:29
Alignment explanation
Indices: 77215729--77215807 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
77215719 CTTAATAATC
*
77215729 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
77215759 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
77215788 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77215808 ATCTCACAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:77215853 original size:43 final size:43
Alignment explanation
Indices: 77215789--77215972 Score: 306
Period size: 43 Copynumber: 4.4 Consensus size: 43
77215779 TGCATTTCAA
**
77215789 GCCCGCACACTTAGTGCCAATCTCACAGTCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
77215832 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77215875 GCCCGCACACTTAGTGCCAATCTCACAACCGTG-ACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77215917 G-CC-CACA--TAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77215956 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
77215973 TGAAAACCAA
Statistics
Matches: 132, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
38 22 0.17
39 10 0.08
40 6 0.05
41 6 0.05
42 10 0.08
43 78 0.59
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:77215955 original size:81 final size:85
Alignment explanation
Indices: 77215789--77215972 Score: 313
Period size: 81 Copynumber: 2.2 Consensus size: 85
77215779 TGCATTTCAA
**
77215789 GCCCGCACACTTAGTGCCAATCTCACAGTCGTGAACACTTATTGCCCACACACTTAGTGCCAATC
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCACACAC-TAGTGCCAATC
77215854 TCACAACCGTGAACACTTATT
65 TCACAACCGTGAACACTTATT
77215875 GCCCGCACACTTAGTGCCAATCTCACAACCGTG-ACACTTATTG-CC-CACA-TAGTGCCAATCT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCACACACTAGTGCCAATCT
77215936 CACAACCGTGAACACTTATT
66 CACAACCGTGAACACTTATT
77215956 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
77215973 TGAAAACCAA
Statistics
Matches: 96, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
81 49 0.51
83 4 0.04
84 2 0.02
85 10 0.10
86 31 0.32
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (85 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCACACACTAGTGCCAATCT
CACAACCGTGAACACTTATT
Found at i:77217893 original size:36 final size:37
Alignment explanation
Indices: 77217821--77217898 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
77217811 TTATTACGAA
* *
77217821 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
77217858 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
77217894 GTCTT
1 GTCTT
77217899 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:77218134 original size:47 final size:47
Alignment explanation
Indices: 77218017--77218562 Score: 796
Period size: 47 Copynumber: 12.0 Consensus size: 47
77218007 CCCTTCGGGA
* * * * * *
77218017 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
77218064 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218110 CTTATCACATATATACACTTTCACATTCATCACATCGGCC-TTA---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218153 --T-T-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77218196 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218243 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218289 CTTATCACATATATACACATTTTAGGCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAC--TTT---CACATTCATCACATCGGCCATTAGGC
*
77218341 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218388 CTTATCAC--ATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218432 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218477 CTTATCACATATATACAC-TTCACATTCAT--CAT----CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218517 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77218563 TTACTATCAT
Statistics
Matches: 460, Mismatches: 14, Indels: 51
0.88 0.03 0.10
Matches are distributed among these distances:
39 50 0.11
40 24 0.05
41 1 0.00
42 3 0.01
44 46 0.10
45 45 0.10
46 86 0.19
47 156 0.34
48 3 0.01
50 3 0.01
51 17 0.04
52 26 0.06
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77218348 original size:98 final size:93
Alignment explanation
Indices: 77218017--77218562 Score: 790
Period size: 86 Copynumber: 6.0 Consensus size: 93
77218007 CCCTTCGGGA
* * * * * * **
77218017 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
77218081 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
77218110 CTTATCACATATATACACTTTCACATTCATCACAT---C----GGCCTTATTACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
77218168 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
77218196 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTATCACATATATACAC
77218261 TTTCACATTCATCACATCGG-CATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
77218289 CTTATCACATATATACACATTTTAGGCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATACAC--TTT---CACATTCATCACATCGG-CATTAGGCCTTATCACATATA
*
77218354 TACACTTTCACATTCATCACATCGGCTATTAGGC
60 TACACTTTCACATTCATCACATCGGCCATTAGGC
77218388 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCAC--ATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
77218449 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
77218477 CTTATCACATATATACAC-TTCACATTCAT--CAT---CATTAGGCC-TATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
77218535 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
77218563 TTACTATCAT
Statistics
Matches: 424, Mismatches: 9, Indels: 47
0.88 0.02 0.10
Matches are distributed among these distances:
84 6 0.01
85 13 0.03
86 114 0.27
88 3 0.01
89 46 0.11
90 11 0.03
91 24 0.06
92 17 0.04
93 58 0.14
94 40 0.09
95 6 0.01
97 8 0.02
98 62 0.15
99 16 0.04
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:77222133 original size:28 final size:27
Alignment explanation
Indices: 77222070--77222221 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
77222060 TTCAAGAGTC
* * *
77222070 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
77222097 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
77222125 CGCACACTTAGTGCTACATAGTCAACG
1 CGCACACTTAGTGCTACATAGTCAACT
77222152 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
77222180 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
77222207 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77222222 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:77222138 original size:55 final size:55
Alignment explanation
Indices: 77222070--77222221 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
77222060 TTCAAGAGTC
* * *
77222070 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
77222125 CGCACACTTAGTGCTACATAGTCAACGCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
77222180 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
77222222 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:77230212 original size:28 final size:27
Alignment explanation
Indices: 77230148--77230300 Score: 243
Period size: 27 Copynumber: 5.6 Consensus size: 27
77230138 CTCAATAGCG
* * *
77230148 TCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACATAGTCAAC
*
77230175 TCGCACACTTAGTGCTACATAATCAAAC
1 TCGCACACTTAGTGCTACATAGTC-AAC
77230203 TCGCACACTTAGTGCTACATAGTCAAC
1 TCGCACACTTAGTGCTACATAGTCAAC
77230230 TCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCTACATAGTC-AAC
*
77230258 TCGCACACTTAGTGCTACATAGTCAAT
1 TCGCACACTTAGTGCTACATAGTCAAC
77230285 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
77230301 GCACAATTTA
Statistics
Matches: 120, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 53 0.44
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAC
Found at i:77230232 original size:55 final size:55
Alignment explanation
Indices: 77230148--77230300 Score: 261
Period size: 55 Copynumber: 2.8 Consensus size: 55
77230138 CTCAATAGCG
* * *
77230148 TCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
1 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
77230203 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
77230258 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
77230301 GCACAATTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:77233075 original size:19 final size:19
Alignment explanation
Indices: 77233044--77233084 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
77233034 TCAACTTTCC
77233044 CTTTCACATTTCTCTTCTT
1 CTTTCACATTTCTCTTCTT
77233063 CTTTC-CATATTCTCTTCTT
1 CTTTCACAT-TTCTCTTCTT
77233082 CTT
1 CTT
77233085 GTAGATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (19 bp):
CTTTCACATTTCTCTTCTT
Found at i:77239843 original size:42 final size:43
Alignment explanation
Indices: 77239735--77239892 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
77239725 AACAAGTACA
* * * * *
77239735 ATGCTGATGTCCCGGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
** * *
77239778 ATGCCTCTGTCTCAGACAGGGTCTTACACG-AAATCAGATAT-G
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCA-ATATCG
* *
77239820 ATGTCGATGTCCCAGACATGGTCTTATACGTAAATTTC-A-ATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA--TCAATATCG
* * *
77239863 AGGCCTG-TGTCCCAAACACGGTCTTACACG
1 ATGCC-GATGTCCCAGACATGGTCTTACACG
77239893 ATGTCTCAGA
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
42 32 0.36
43 54 0.61
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
Found at i:77244060 original size:14 final size:14
Alignment explanation
Indices: 77244041--77244069 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77244031 TGAGGGTTAG
77244041 TTTGTAAAATGCTC
1 TTTGTAAAATGCTC
77244055 TTTGTAAAATGCTC
1 TTTGTAAAATGCTC
77244069 T
1 T
77244070 AAATATGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTTGTAAAATGCTC
Found at i:77245931 original size:174 final size:174
Alignment explanation
Indices: 77245633--77245996 Score: 539
Period size: 174 Copynumber: 2.1 Consensus size: 174
77245623 CAGTTTTGAT
* * * **
77245633 ACGGCCTAGACATACGGATGTGTCTATCGGTCGTGTGTCGCACATGGGCTGGCACATGGGCGTGT
1 ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
* * *
77245698 GGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGTACACGGGCGTGT
66 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
* *
77245763 CTTATGGCCATGTGGACAAGTCAGTATGTATGCCCTATTTTGCC
131 CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
* * * * *
77245807 ATGGCCTAGACACACGGGTGTGTCTATAGGTCTTGGGTGGCACACAGGTTGGCACATGGGCGTGT
1 ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
* * *
77245872 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCTCTAATTTTCACACGGCCTGGCACACGGGCATGT
66 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
* *
77245937 CTTGTAGCCGTGTGGACAACTCAGTATGTATGCCCTATTTTGCC
131 CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
*
77245981 ACAGCCTAGACACACG
1 ACGGCCTAGACACACG
77245997 AGCATGTCTC
Statistics
Matches: 168, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
174 168 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (174 bp):
ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
Found at i:77257551 original size:42 final size:40
Alignment explanation
Indices: 77257489--77257610 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 40
77257479 GATTTGAGAT
*
77257489 TTACATGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
1 TTACATGTAAGACC-CGTCTGGGACAT-GGCATTGTATTTGA
* **
77257531 TT-CTATGTAAGACCCGGTCTGCGACAGTGGCATCAATATTTGA
1 TTAC-ATGTAAGACCC-GTCTGGGACA-TGGCAT-TGTATTTGA
77257574 TTACATGTAAGACCACGTCTGGGACATTGGCATTGTA
1 TTACATGTAAGACC-CGTCTGGGACA-TGGCATTGTA
77257611 CGAGCTTTCC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 28 0.42
43 35 0.53
44 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
TTACATGTAAGACCCGTCTGGGACATGGCATTGTATTTGA
Found at i:77261707 original size:20 final size:18
Alignment explanation
Indices: 77261660--77261708 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
77261650 CAAGATAAAC
77261660 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
77261677 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
77261697 ATTAAATTAATA
1 ATTAAATTAATA
77261709 AAAATACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:77271948 original size:15 final size:15
Alignment explanation
Indices: 77271928--77271960 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
77271918 CTGTTATTTA
77271928 TTATTTTTATCTTTT
1 TTATTTTTATCTTTT
77271943 TTATTTTTATCTTTT
1 TTATTTTTATCTTTT
77271958 TTA
1 TTA
77271961 AACTACTTTT
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:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATCTTTT
Found at i:77274943 original size:71 final size:67
Alignment explanation
Indices: 77274864--77275005 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
77274854 TCACTAAATA
* * * *
77274864 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCTACCAGATTGAAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGAAGCGA
77274929 GGCTAC
62 GGCTAC
* * *
77274935 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
77275000 AC
66 AC
77275002 CAGA
1 CAGA
77275006 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
AC
Found at i:77274964 original size:26 final size:27
Alignment explanation
Indices: 77274935--77274986 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
77274925 GCGAGGCTAC
*
77274935 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
77274961 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
77274987 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:77275613 original size:26 final size:27
Alignment explanation
Indices: 77275584--77275637 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
77275574 TCACACAAGT
*
77275584 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
77275610 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
77275637 T
1 T
77275638 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:77275705 original size:27 final size:27
Alignment explanation
Indices: 77275639--77275784 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
77275629 GGGCAAAATG
* * * * **
77275639 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
77275666 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
77275693 GTAATTCTACCCTATAGGGGTATTTTCA
1 GTAATTCTACCCTACAGGGGTATTTT-A
* *
77275721 ATAATTATACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
77275748 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
77275775 GTAATTCTAC
1 GTAATTCTAC
77275785 AACTTATCCA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:77275741 original size:55 final size:54
Alignment explanation
Indices: 77275639--77275780 Score: 176
Period size: 55 Copynumber: 2.6 Consensus size: 54
77275629 GGGCAAAATG
* * * * ** * *
77275639 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCAATAATTATACCCTACAGGGGTATTTTA
*
77275693 GTAATTCTACCCTATAGGGGTATTTTCAATAATTATACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTA-TTTCAATAATTATACCCTACAGGGGTATTTTA
* *
77275748 GTAATTCTACCTTACAGGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAGGGGTATTTCAATAATT
77275781 CTACAACTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
54 28 0.37
55 47 0.63
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCAATAATTATACCCTACAGGGGTATTTTA
Found at i:77278053 original size:40 final size:40
Alignment explanation
Indices: 77277983--77278240 Score: 403
Period size: 40 Copynumber: 6.5 Consensus size: 40
77277973 AAGCCAAGTA
* * * *
77277983 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
77278022 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
77278062 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
77278102 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
77278142 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
77278182 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
77278222 CCTTCGGGACTTACCCCGG
1 CCTTCGGGACTTAGCCCGG
77278241 TTATCATCCA
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 11 0.05
40 192 0.95
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:77289107 original size:30 final size:30
Alignment explanation
Indices: 77289071--77289131 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
77289061 CCTACCATAT
77289071 TTTCACATATTTTCACTTTGACCCCTAAAC
1 TTTCACATATTTTCACTTTGACCCCTAAAC
* *
77289101 TTTCACATATTTTCACTTTGGCCCTTAAAC
1 TTTCACATATTTTCACTTTGACCCCTAAAC
77289131 T
1 T
77289132 CGTAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTCACATATTTTCACTTTGACCCCTAAAC
Found at i:77289813 original size:42 final size:43
Alignment explanation
Indices: 77289729--77289814 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
77289719 TGCAATTTCA
77289729 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
1 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
77289772 TGCTTAAAACTTCTAGAATGCAAG-TTTGCACTTTATTCAATT
1 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
77289814 T
1 T
77289815 TGTCTCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 19 0.44
43 24 0.56
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (43 bp):
TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
Found at i:77294242 original size:40 final size:40
Alignment explanation
Indices: 77294079--77294230 Score: 268
Period size: 40 Copynumber: 3.8 Consensus size: 40
77294069 CGGATGATAA
* *
77294079 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
77294119 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
*
77294159 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
*
77294199 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
77294231 AGCTATATCC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
Found at i:77299940 original size:49 final size:48
Alignment explanation
Indices: 77299829--77300191 Score: 229
Period size: 49 Copynumber: 7.7 Consensus size: 48
77299819 GGGATAAGAT
* * * * * *
77299829 GCCGATGCCATGTCCTAGACATGGTTTTACACTGGC-T-AGTACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTCA-TATATCGAG
* * *
77299877 GTCAATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCGAG
* *
77299926 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCGAG
* * * * *
77299974 TGTCGATGCCATGTCCCAAACAGGTCTTACACTGAC-ACACA-A-C-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
* * * *
77300019 GCTGATGCCATGTCCCAGACAAGTATTACACT-AGCTT-GTATATCCCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATATAT--CGAG
* * * *
77300068 GCCGATG-CATGTCCCAGACATGTCTTACACT-AGC-TC-TAGTCTCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATA-TATCGAG
* * * * *
77300114 GCCGATG-CATGTCCTAGACATGTCTTACACTGGC-TCACATAAT-GTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATAT-ATCGAG
* *
77300160 GCCGATG-CATGTCCCAAACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
77300192 GCTCACATGC
Statistics
Matches: 252, Mismatches: 45, Indels: 38
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 2 0.01
46 67 0.27
47 19 0.08
48 47 0.19
49 86 0.34
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
Found at i:77300135 original size:46 final size:45
Alignment explanation
Indices: 77300067--77300199 Score: 173
Period size: 46 Copynumber: 2.9 Consensus size: 45
77300057 TATATCCCGA
*
77300067 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAGTC-TCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC-A--CAT-AAGT
*
77300114 -GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCACATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAA-GT
*
77300159 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCACAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACAT
77300200 GCCACGCAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 72 0.92
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAAGT
Found at i:77301555 original size:35 final size:35
Alignment explanation
Indices: 77301487--77301782 Score: 328
Period size: 35 Copynumber: 8.5 Consensus size: 35
77301477 CATTGAAATA
* * * ** *
77301487 CCATACCTACATTTCATA-CTCGGTATGGAAAATA
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
* * ** *
77301521 CCATACCTACGTTTCATAACTCAGTATGGAAAATA
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
* *
77301556 CCATACCTACGTTTCATAACTCAGTATGGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
* * *
77301591 CCATACCTACATGTCATAGCTCAGTATTGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
77301626 CCATACCTACGTATCATAGCTCAGTATGGACGATG
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
* * *
77301661 CCATACCTACGTATCATAGCTAAGTATGGCCGACG
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
77301696 CCATACCTACGTATCATAGCTCAGTAT-GATCGATG
1 CCATACCTACGTATCATAGCTCAGTATGGA-CGATG
* * ** ** *
77301731 TCATACCTACTTATCA-AGCTTGGTATGGTTGATA
1 CCATACCTACGTATCATAGCTCAGTATGGACGATG
77301765 CCATACCTACGTATCATA
1 CCATACCTACGTATCATA
77301783 ACTTTGCCAC
Statistics
Matches: 231, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
34 43 0.19
35 188 0.81
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (35 bp):
CCATACCTACGTATCATAGCTCAGTATGGACGATG
Found at i:77308733 original size:20 final size:20
Alignment explanation
Indices: 77308687--77308725 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77308677 CATTGATAAA
*
77308687 AAATCATGTAATTATCGCTT
1 AAATCATGTAAATATCGCTT
77308707 AAATCATGTAAATAT-GCTT
1 AAATCATGTAAATATCGCTT
77308726 TTAATCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATCATGTAAATATCGCTT
Found at i:77310527 original size:22 final size:23
Alignment explanation
Indices: 77310502--77310544 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
77310492 TTTAGTGGCC
*
77310502 CAATTTTAATTTGGTT-GGATTT
1 CAATTATAATTTGGTTAGGATTT
*
77310524 CAATTATAGTTTGGTTAGGAT
1 CAATTATAATTTGGTTAGGAT
77310545 AGAACTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (23 bp):
CAATTATAATTTGGTTAGGATTT
Found at i:77310945 original size:22 final size:22
Alignment explanation
Indices: 77310917--77310960 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
77310907 AGAGTTGGAC
77310917 ATCTTTAGCTTACCCAATAAAT
1 ATCTTTAGCTTACCCAATAAAT
*
77310939 ATCTTTAGCTTAGCCAATAAAT
1 ATCTTTAGCTTACCCAATAAAT
77310961 GCTTGTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
ATCTTTAGCTTACCCAATAAAT
Found at i:77311822 original size:27 final size:27
Alignment explanation
Indices: 77311791--77311892 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
77311781 AGTTTGTAAG
77311791 GATAGTAAACACGAGGTAGTCCATCAA
1 GATAGTAAACACGAGGTAGTCCATCAA
* * *
77311818 TATAGTAAACACGAGGTAGTCTATCAG
1 GATAGTAAACACGAGGTAGTCCATCAA
* * * **
77311845 GACAGTAAACACGGGGTAGTCCGTTGA
1 GATAGTAAACACGAGGTAGTCCATCAA
77311872 GATAGTAAACAC-AGAGTAGTC
1 GATAGTAAACACGAG-GTAGTC
77311893 TACTAGGACG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
GATAGTAAACACGAGGTAGTCCATCAA
Found at i:77311877 original size:54 final size:53
Alignment explanation
Indices: 77311789--77311938 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 53
77311779 ATAGTTTGTA
* * * * *
77311789 AGGATAGTAAACACGAGGTAGTCCATCAATATAGTAAACACGAGGTAGTCTA-T
1 AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACAC-AGGTAGTCTACT
*
77311842 CAGGACAGTAAACACGGGGTAGTCCGTTGAGATAGTAAACACAGAGTAGTCTACT
1 -AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACACAG-GTAGTCTACT
* * * *
77311897 AGGAC-GATAAACACAGGGTAGTCTGTCGGGACAGTAAACACA
1 AGGACAG-TAAACACGGGGTAGTCCGTCGAGATAGTAAACACA
77311939 AGGTTACATT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.04
54 78 0.95
55 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.19
Consensus pattern (53 bp):
AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACACAGGTAGTCTACT
Found at i:77315986 original size:6 final size:6
Alignment explanation
Indices: 77315977--77316014 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
77315967 TTGAAATGAG
77315977 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
77316015 GATAAGAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:77321382 original size:13 final size:13
Alignment explanation
Indices: 77321364--77321396 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77321354 GGTTGTTTAT
77321364 TAAACTAATTAAC
1 TAAACTAATTAAC
*
77321377 TAAACTAATTATC
1 TAAACTAATTAAC
77321390 T-AACTAA
1 TAAACTAA
77321397 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:77327648 original size:39 final size:39
Alignment explanation
Indices: 77327552--77327886 Score: 482
Period size: 39 Copynumber: 8.6 Consensus size: 39
77327542 ACAAAGCATG
* *
77327552 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCC-T
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
77327591 -GGAGACTTTAG-CCGGATATAACACCAGCACGAATGCCTT
1 CGG-GAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
77327630 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
77327669 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
77327708 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
77327747 CGGGACTTTGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
** *
77327786 AAGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
77327825 CAGGACTTAGCCCGGATAT-ACAACCAACATGAATGCCTT
1 CGGGACTTAGCCCGGATATAAC-ACCAGCACGAATGCCTT
77327864 CGGGACTTAGCCCGGATATAACA
1 CGGGACTTAGCCCGGATATAACA
77327887 GCATTATAAA
Statistics
Matches: 275, Mismatches: 14, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
37 18 0.07
38 15 0.05
39 238 0.87
40 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:77328041 original size:28 final size:28
Alignment explanation
Indices: 77327960--77328041 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
77327950 TATTTAATCA
77327960 TTCAATATTT--TCACACTAAGTGTCATT
1 TTCAATATTTCGT-ACACTAAGTGTCATT
* * * *
77327987 CTCAATATCTCGCACATTAAGTGTCATT
1 TTCAATATTTCGTACACTAAGTGTCATT
* *
77328015 TTCAATATTTCGTACACTGAGTATCAT
1 TTCAATATTTCGTACACTAAGTGTCAT
77328042 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
27 8 0.19
28 35 0.81
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (28 bp):
TTCAATATTTCGTACACTAAGTGTCATT
Found at i:77334199 original size:39 final size:39
Alignment explanation
Indices: 77334132--77334431 Score: 442
Period size: 39 Copynumber: 7.7 Consensus size: 39
77334122 ACAAAGCATG
* * *
77334132 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
77334172 CGAGACTTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
77334212 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
77334251 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
77334290 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
77334329 CGGGACTTAGCCCGGATATAACGCCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * * *
77334368 CAGGACTTAGCTCGGATA-AACACCAACACGATTGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
77334406 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
77334432 TTATAAAGTC
Statistics
Matches: 238, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
38 32 0.13
39 188 0.79
40 18 0.08
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:77334537 original size:28 final size:28
Alignment explanation
Indices: 77334504--77334585 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
77334494 ATTTAATCAT
* *
77334504 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
77334532 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * * *
77334560 TCATTATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
77334586 ATTTTATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:77339177 original size:38 final size:38
Alignment explanation
Indices: 77339095--77339260 Score: 190
Period size: 38 Copynumber: 4.3 Consensus size: 38
77339085 AAACCCAAAC
* * * * *
77339095 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGAGA-TTT-AACCCGGAT
* *
77339135 ATAATACCAGCACTAGGCCTGCGAGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGAT
*
77339173 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGAT
* * *
77339211 ATATTACCAGCACGAAGCCTG-TAGGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCGA-GATTTAACCCGGAT
*
77339249 ATAATTCCAGCA
1 ATAATACCAGCA
77339261 TATAGCCTGC
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
38 85 0.78
39 3 0.03
40 21 0.19
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGAGATTTAACCCGGAT
Found at i:77339239 original size:76 final size:76
Alignment explanation
Indices: 77339086--77339289 Score: 214
Period size: 76 Copynumber: 2.6 Consensus size: 76
77339076 CGAGGTATAA
* * * * * * * *
77339086 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATACCAGCACGAA
*
77339151 GCCTGCGAGATTT
64 GCCTGAGAGATTT
* *
77339164 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGC
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGC
77339229 CTGTAG-GATTT
66 CTG-AGAGATTT
* * *
77339240 AACCCAGATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 AACCCAGATATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
77339290 CACATCAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 59 0.55
77 9 0.08
78 38 0.36
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (76 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGC
CTGAGAGATTT
Found at i:77346194 original size:49 final size:48
Alignment explanation
Indices: 77346083--77346445 Score: 238
Period size: 49 Copynumber: 7.7 Consensus size: 48
77346073 GGGATAAGAT
* * * * * *
77346083 GCCGATGCCATGTCCTAGACATGGTTTTACACTGGC-T-AGTACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTCA-TATATCGAG
* * *
77346131 GTCAATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCGAG
* *
77346180 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCGAG
* * * * *
77346228 TGTCGATGCCATGTCCCAAACAGGTCTTACACTGAC-ACACA-A-C-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
* * * *
77346273 GCTGATGCCATGTCCCAGACAAGTATTACACT-AGCTT-GTATATCCCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATATAT--CGAG
* * * *
77346322 GCCGATG-CATGTCCCAGACATGTCTTACACT-AGC-TC-TAGTCTCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATA-TATCGAG
* * * *
77346368 GCCGATG-CATGTCCTAGACATGTCTTACACTGGCTCTCATA-AT-GTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCGAG
* *
77346414 GCCGATG-CATGTCCCAAACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
77346446 GCTCACATGC
Statistics
Matches: 252, Mismatches: 44, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 2 0.01
46 64 0.25
47 18 0.07
48 49 0.19
49 88 0.35
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
Found at i:77346418 original size:46 final size:45
Alignment explanation
Indices: 77346179--77346449 Score: 171
Period size: 46 Copynumber: 5.8 Consensus size: 45
77346169 CATATATCGA
* *
77346179 GGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATCTAT
1 GGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTAC-TCAAT
* * * * * *
77346225 CGGTGTCGATGCCATGTCCCAAACAGGTCTTACACTGACAC-ACAACAA-
1 --G-GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTAC-TCAAT
* * * * * * *
77346273 -GCTGATGCCATGTCCCAGACAAGTATTACACTAGCTTGTATATCCCGA-
1 GGCCGATG-CATGTCCCAGACATGTCTTACACTGGC---TCTA-CTCAAT
*
77346321 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTA--CTCAAT
*
77346368 -GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT-CAT-AATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTAC-TCAA--T
*
77346413 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
77346450 ACATGCCACC
Statistics
Matches: 182, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.02
44 29 0.16
45 4 0.02
46 73 0.40
48 29 0.16
49 44 0.24
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACTCAAT
Found at i:77347810 original size:35 final size:35
Alignment explanation
Indices: 77347739--77348037 Score: 309
Period size: 35 Copynumber: 8.6 Consensus size: 35
77347729 CCTCATTGAA
* * * **
77347739 ATACCATACCTACATTTCATA-CTCGGTATGGAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * **
77347773 ATACCATACCTACGTTTCATAACTCAGTATGGAAA
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* *
77347808 ATACCATACCTACGTTTCATAACTCAGTATGGACG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
* * * *
77347843 ATGCCATACCTACATGTCATAGCTCAGTATTGACG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
77347878 ATGA-CATACCTACGTATCATAGCTCAGTATGGACG
1 AT-ACCATACCTACGTATCATAGCTCAGTATGGACG
* * *
77347913 ATGCCATACCTACGTATCATAGCTAAGTATGGTCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
**
77347948 ACGCCATACCTACGTATCATAGCTCAGTAT-GATCG
1 ATACCATACCTACGTATCATAGCTCAGTATGGA-CG
** * ** **
77347983 ATGTCATACCTACTTATCA-AGCTTGGTATGGTTG
1 ATACCATACCTACGTATCATAGCTCAGTATGGACG
77348017 ATACCATACCTACGTATCATA
1 ATACCATACCTACGTATCATA
77348038 ACTTTGCCAC
Statistics
Matches: 230, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
34 46 0.20
35 184 0.80
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACGTATCATAGCTCAGTATGGACG
Found at i:77347923 original size:105 final size:105
Alignment explanation
Indices: 77347742--77348040 Score: 345
Period size: 105 Copynumber: 2.9 Consensus size: 105
77347732 CATTGAAATA
* * * ** * *
77347742 CCATACCTACATTTCATA-CTCGGTATGGAAAAT-ACCATACCTACGTTTCATAACTCAGTATGG
1 CCATACCTACATATCATAGCTCAGTATTGACGATGA-CATACCTACGTATCATAGCTCAGTATGG
* * * *
77347805 AAAATACCATACCTACGTTTCATAACTCAGTATGGACGATG
65 AAGATACCATACCTACGTATCATAACTAAGTATGGACGACG
*
77347846 CCATACCTACATGTCATAGCTCAGTATTGACGATGACATACCTACGTATCATAGCTCAGTATGGA
1 CCATACCTACATATCATAGCTCAGTATTGACGATGACATACCTACGTATCATAGCTCAGTATGGA
* * * *
77347911 CGATGCCATACCTACGTATCATAGCTAAGTATGGTCGACG
66 AGATACCATACCTACGTATCATAACTAAGTATGGACGACG
* * * **
77347951 CCATACCTACGTATCATAGCTCAGTA-TGATCGATGTCATACCTACTTATCA-AGCTTGGTATGG
1 CCATACCTACATATCATAGCTCAGTATTGA-CGATGACATACCTACGTATCATAGCTCAGTATGG
**
77348014 TTGATACCATACCTACGTATCATAACT
65 AAGATACCATACCTACGTATCATAACT
77348041 TTGCCACGGG
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
104 53 0.32
105 113 0.68
106 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (105 bp):
CCATACCTACATATCATAGCTCAGTATTGACGATGACATACCTACGTATCATAGCTCAGTATGGA
AGATACCATACCTACGTATCATAACTAAGTATGGACGACG
Found at i:77348082 original size:12 final size:12
Alignment explanation
Indices: 77348065--77348091 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
77348055 CCATGGTCTT
77348065 ATCCGTCAATTC
1 ATCCGTCAATTC
77348077 ATCCGTCAATTC
1 ATCCGTCAATTC
77348089 ATC
1 ATC
77348092 ACTGACACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (12 bp):
ATCCGTCAATTC
Found at i:77355023 original size:20 final size:20
Alignment explanation
Indices: 77354977--77355015 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77354967 CATTGATAAA
*
77354977 AAATCATGTAATTATCGCTT
1 AAATCATGTAAATATCGCTT
77354997 AAATCATGTAAATAT-GCTT
1 AAATCATGTAAATATCGCTT
77355016 TTAATCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATCATGTAAATATCGCTT
Found at i:77359084 original size:6 final size:6
Alignment explanation
Indices: 77359075--77359112 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
77359065 TTGAAATGAG
77359075 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
77359113 GATAAGAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:77364495 original size:13 final size:13
Alignment explanation
Indices: 77364477--77364509 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77364467 GGTTGTTTAT
77364477 TAAACTAATTAAC
1 TAAACTAATTAAC
*
77364490 TAAACTAATTATC
1 TAAACTAATTAAC
77364503 T-AACTAA
1 TAAACTAA
77364510 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:77368855 original size:22 final size:22
Alignment explanation
Indices: 77368814--77368855 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
77368804 GTTTTATGCA
77368814 TAAACATTTTAAAACATCTATT
1 TAAACATTTTAAAACATCTATT
77368836 TAAACAGTTTTAAAAC-TCTA
1 TAAACA-TTTTAAAACATCTA
77368856 ATGTCATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAACATTTTAAAACATCTATT
Found at i:77378250 original size:40 final size:40
Alignment explanation
Indices: 77378166--77378349 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
77378156 TTGAATGCTG
* * * *
77378166 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
77378205 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
77378246 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
77378286 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
77378326 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
77378350 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:77378303 original size:80 final size:81
Alignment explanation
Indices: 77378166--77378346 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
77378156 TTGAATGCTG
* *
77378166 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
77378230 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
77378246 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
77378307 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
77378326 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
77378347 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:77386180 original size:40 final size:40
Alignment explanation
Indices: 77386096--77386279 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
77386086 TTGAATGCTG
* * * *
77386096 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
77386135 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
77386176 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
77386216 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
77386256 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
77386280 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:77386233 original size:80 final size:81
Alignment explanation
Indices: 77386096--77386276 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
77386086 TTGAATGCTG
* *
77386096 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
77386160 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
77386176 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
77386237 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
77386256 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
77386277 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:77390690 original size:8 final size:8
Alignment explanation
Indices: 77390677--77390724 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
77390667 GCATCTCATT
77390677 TTTTTCTC
1 TTTTTCTC
77390685 TTTTTCTC
1 TTTTTCTC
*
77390693 TTCTTCT-
1 TTTTTCTC
77390700 TTTTT-TC
1 TTTTTCTC
77390707 TTTTAT-TC
1 TTTT-TCTC
77390715 TTTTTCTC
1 TTTTTCTC
77390723 TT
1 TT
77390725 CTTAAACCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 9 0.26
8 25 0.71
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCTC
Found at i:77390724 original size:24 final size:23
Alignment explanation
Indices: 77390670--77390724 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
77390660 ATTGGAGGCA
77390670 TCTCATTTTTTTCTCTTTTTCTCT
1 TCTC-TTTTTTTCTCTTTTTCTCT
*
77390694 TCTTCTTTTTTTCT-TTTATTCTTTT
1 TC-TCTTTTTTTCTCTTT-TTC-TCT
77390719 TCTCTT
1 TCTCTT
77390725 CTTAAACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (23 bp):
TCTCTTTTTTTCTCTTTTTCTCT
Found at i:77401809 original size:198 final size:199
Alignment explanation
Indices: 77401470--77401869 Score: 775
Period size: 198 Copynumber: 2.0 Consensus size: 199
77401460 TTTTTAAGAT
77401470 ACAGGGGACACATACCGCCAAACCACACACCCGTGAGCATGGCCGTGTGCCACAGTTAAGACACA
1 ACAGGGGACACATACCGCCAAACCACACACCCGTGAGCATGGCCGTGTGCCACAGTTAAGACACA
77401535 CGCCCGTGTGTATACCCGTATGGACAAAATAAGACCATTTTCCAAGCCTTATTTCTTACCCTTTT
66 CGCCCGTGTGTATACCCGTATGGACAAAATAAGACCATTTTCCAAGCCTTATTTCTTACCCTTTT
77401600 TACCTTGCACCTACATCAACATTTAATCATTTTCAACAACCAATTCAAGACAACTTATCCAAGCC
131 TACCTTGCACCTACATCAACATTTAATCATTTTCAACAACCAATTCAAGACAACTTATCCAAGCC
77401665 AAAC
196 AAAC
*
77401669 ACAGGGGACACATACTGCCAAACCACACACCC-TGAGCATGGCCGTGTGCCACAGTTAAGACACA
1 ACAGGGGACACATACCGCCAAACCACACACCCGTGAGCATGGCCGTGTGCCACAGTTAAGACACA
*
77401733 CGCCCGTGTGTCTACCCGTATGGACAAAATAAGACCATTTTCCAAGCCTTATTTCTTACCCTTTT
66 CGCCCGTGTGTATACCCGTATGGACAAAATAAGACCATTTTCCAAGCCTTATTTCTTACCCTTTT
77401798 TACCTTGCACCTACATCAACATTTAATCATTTTCAACAACCAATTCAAGACAACTTATCCAAGCC
131 TACCTTGCACCTACATCAACATTTAATCATTTTCAACAACCAATTCAAGACAACTTATCCAAGCC
77401863 AAAC
196 AAAC
77401867 ACA
1 ACA
77401870 AGAGTTATAT
Statistics
Matches: 199, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
198 168 0.84
199 31 0.16
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (199 bp):
ACAGGGGACACATACCGCCAAACCACACACCCGTGAGCATGGCCGTGTGCCACAGTTAAGACACA
CGCCCGTGTGTATACCCGTATGGACAAAATAAGACCATTTTCCAAGCCTTATTTCTTACCCTTTT
TACCTTGCACCTACATCAACATTTAATCATTTTCAACAACCAATTCAAGACAACTTATCCAAGCC
AAAC
Found at i:77404484 original size:13 final size:13
Alignment explanation
Indices: 77404466--77404490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77404456 TAATGGTATA
77404466 TTGAATCCATGAC
1 TTGAATCCATGAC
77404479 TTGAATCCATGA
1 TTGAATCCATGA
77404491 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:77405071 original size:27 final size:27
Alignment explanation
Indices: 77405036--77405214 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
77405026 TTAAATTGTA
77405036 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
77405063 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
77405090 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
77405117 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
77405145 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
77405172 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
77405199 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
77405215 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:77405152 original size:82 final size:81
Alignment explanation
Indices: 77405038--77405193 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
77405028 AAATTGTATA
* *
77405038 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77405102 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
77405119 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77405184 TGCGAGTTGA
65 TGCGAATTGA
77405194 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77405205 original size:82 final size:81
Alignment explanation
Indices: 77405034--77405214 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
77405024 GATTAAATTG
* *
77405034 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77405099 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
77405115 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77405179 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
77405197 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
77405215 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77411759 original size:23 final size:24
Alignment explanation
Indices: 77411718--77411764 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
77411708 TAAGTAGATT
77411718 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
*
77411743 AGAAAA-AAAAGGA-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
77411765 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 6 0.29
25 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:77412526 original size:13 final size:13
Alignment explanation
Indices: 77412508--77412532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77412498 TAATGGTATA
77412508 TTGAATCCATGAC
1 TTGAATCCATGAC
77412521 TTGAATCCATGA
1 TTGAATCCATGA
77412533 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:77413117 original size:27 final size:27
Alignment explanation
Indices: 77413082--77413262 Score: 170
Period size: 27 Copynumber: 6.6 Consensus size: 27
77413072 TTAAATTGTA
77413082 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
77413109 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
77413136 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
77413163 CCGGGCACTAAGTGTGCGAGTTTGACTATG
1 --TAGCACTAAGTGTGCGA-TATGACTATG
* * *
77413193 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
77413220 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
77413247 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
77413263 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 91 0.70
28 16 0.12
29 15 0.12
30 7 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:77413207 original size:84 final size:83
Alignment explanation
Indices: 77413084--77413241 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 83
77413074 AAATTGTATA
* *
77413084 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77413148 TGCGAATTGACCATGCCGG
65 TGCGAATTGACCATGCCGG
* ** *
77413167 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77413232 TGCGAGTTGA
65 TGCGAATTGA
77413242 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
83 15 0.23
84 50 0.76
85 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (83 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCCGG
Found at i:77413273 original size:27 final size:27
Alignment explanation
Indices: 77413167--77413273 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
77413157 ACCATGCCGG
* * * *
77413167 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
77413195 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
77413222 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
77413249 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
77413274 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:77415284 original size:47 final size:47
Alignment explanation
Indices: 77415213--77415474 Score: 425
Period size: 47 Copynumber: 5.6 Consensus size: 47
77415203 CCCTTCGGGA
* * * * * *
77415213 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
77415260 CCTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77415307 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77415354 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77415401 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77415448 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
77415475 TATTCAAATA
Statistics
Matches: 204, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 204 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77415291 original size:25 final size:25
Alignment explanation
Indices: 77415263--77415341 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
77415253 ACTCGGCCCT
77415263 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * * *
77415288 ATCAC-T-T-TGGC-CATTCGGCCTT-
1 ATCACATATAT-ACACTTTC-ACATTC
77415310 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
77415335 ATCACAT
1 ATCACAT
77415342 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 6 0.15
25 17 0.44
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:77424883 original size:68 final size:66
Alignment explanation
Indices: 77424811--77424957 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
77424801 CATCATGTGT
* * * *
77424811 ACAAGAGAGCTACAAGAAATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAAA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
77424874 TGTAG
62 TGTAG
** * *
77424879 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
77424944 AG
65 AG
77424946 ACAAGAGAGCTA
1 ACAAGAGAGCTA
77424958 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:77424916 original size:64 final size:64
Alignment explanation
Indices: 77424835--77425018 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
77424825 AGAAATTATG
* * *
77424835 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
77424899 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77424964 AA
63 AA
* * *
77424966 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
77425019 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:77429983 original size:68 final size:66
Alignment explanation
Indices: 77429911--77430086 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 66
77429901 CATCATGTGT
* * *
77429911 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCA
77429974 TGTAG
62 TGTAG
** * * *
77429979 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGT
77430044 AG
65 AG
* * * *
77430046 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTG
77430087 GTACTGAGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
64 24 0.26
65 3 0.03
66 20 0.22
67 32 0.35
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:77430016 original size:64 final size:64
Alignment explanation
Indices: 77429935--77430119 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
77429925 AGACATTATG
* * *
77429935 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
77429999 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77430064 AA
63 AA
* * * *
77430066 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTAAAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
77430120 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:77440460 original size:40 final size:40
Alignment explanation
Indices: 77440401--77440592 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
77440391 CGGATGATAA
*
77440401 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
77440441 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
77440481 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATT
* * *
77440522 -CGGGCTAAGTTCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
77440561 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
77440593 AGCTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 129 0.94
41 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:77445561 original size:28 final size:27
Alignment explanation
Indices: 77445497--77445648 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
77445487 TTATTAAGTC
* *
77445497 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
77445524 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
77445552 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
77445579 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
77445607 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
77445634 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77445649 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77445581 original size:55 final size:55
Alignment explanation
Indices: 77445497--77445673 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
77445487 TTATTAAGTC
* * *
77445497 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
77445552 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
77445607 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
77445663 CGCACACTTAG
1 CGCACACTTAG
77445674 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:77453691 original size:28 final size:27
Alignment explanation
Indices: 77453627--77453778 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
77453617 TTATTAAGTC
* *
77453627 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
77453654 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
77453682 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
77453709 TGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* * *
77453737 CGTACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
77453764 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77453779 GCACAATTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 64 0.56
28 50 0.44
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77453714 original size:55 final size:55
Alignment explanation
Indices: 77453627--77453803 Score: 221
Period size: 55 Copynumber: 3.2 Consensus size: 55
77453617 TTATTAAGTC
* * * *
77453627 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTTGCACACTTAGTGCTACATAATCAAACT
* *
77453682 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTTGCACACTTAGTGCTACATAATCAAACT
* * * * * *
77453737 CGTACACTTAGTGCTACATATTCAA-TTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTT-GCACACTTAGTGCTACATAA-TCAAACT
77453793 CGCACACTTAG
1 CGCACACTTAG
77453804 CGCCAATCTC
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
54 2 0.02
55 89 0.84
56 15 0.14
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTTGCACACTTAGTGCTACATAATCAAACT
Found at i:77459999 original size:40 final size:40
Alignment explanation
Indices: 77459944--77460093 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
77459934 GATGATAACT
77459944 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
77459984 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
77460024 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* * *
77460064 GGGCTATGTCCTGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
77460094 AGCTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 98 0.99
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:77461668 original size:29 final size:27
Alignment explanation
Indices: 77461634--77461690 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
77461624 ACCTATTACA
*
77461634 ATACTACATGGATATATACCTATATATAT
1 ATACTACA--GATATATACCTACATATAT
* *
77461663 ATACTAGAGATATATACGTACATATAT
1 ATACTACAGATATATACCTACATATAT
77461690 A
1 A
77461691 AAACATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
29 7 0.28
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (27 bp):
ATACTACAGATATATACCTACATATAT
Found at i:77462018 original size:28 final size:27
Alignment explanation
Indices: 77461968--77462033 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 27
77461958 TAGATAGCTA
*
77461968 ATAATATT-AAAACATATACATAATAAT
1 ATAATATTAAAAACATACACATAAT-AT
*
77461995 ATAATATTAAAAACATACATATAATAT
1 ATAATATTAAAAACATACACATAATAT
*
77462022 -TAATATGAAAAA
1 ATAATATTAAAAA
77462034 TGCATGTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.31
27 10 0.29
28 14 0.40
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ATAATATTAAAAACATACACATAATAT
Found at i:77462025 original size:26 final size:26
Alignment explanation
Indices: 77461968--77462033 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
77461958 TAGATAGCTA
*
77461968 ATAATATTAAAACATATACATAATAAT
1 ATAATATTAAAA-ACATACATAATAAT
77461995 ATAATATTAAAAACATACAT-ATAAT
1 ATAATATTAAAAACATACATAATAAT
*
77462020 ATTAATATGAAAAA
1 A-TAATATTAAAAA
77462034 TGCATGTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 6 0.17
26 18 0.50
27 12 0.33
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATATTAAAAACATACATAATAAT
Found at i:77464234 original size:75 final size:75
Alignment explanation
Indices: 77464111--77464254 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 75
77464101 ATAAACTAAA
* * *
77464111 AAACAGAAACTGAAAATAGCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAACTGAAAATACCTCAGCATGTGAGCCAAAGCTCAACTCACCTCTCGCAATATAAGTT
77464176 GATTCTTGAC
66 GATTCTTGAC
*
77464186 AAACAGAAACAT-AAAATACCTCAGCGTGTGAGCCAAAGCTCAACTCACCTCTCGCAATATAAGT
1 AAACAGAAAC-TGAAAATACCTCAGCATGTGAGCCAAAGCTCAACTCACCTCTCGCAATATAAGT
77464250 TGATT
65 TGATT
77464255 TTTTTGAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 63 0.98
76 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (75 bp):
AAACAGAAACTGAAAATACCTCAGCATGTGAGCCAAAGCTCAACTCACCTCTCGCAATATAAGTT
GATTCTTGAC
Found at i:77464277 original size:14 final size:14
Alignment explanation
Indices: 77464258--77464291 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
77464248 GTTGATTTTT
*
77464258 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
77464272 TTGAAAAATAGAAA
1 TTGAAAAACAGAAA
77464286 TTGAAA
1 TTGAAA
77464292 TTACCTCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:77464391 original size:70 final size:70
Alignment explanation
Indices: 77464278--77464413 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 70
77464268 GAAATTGAAA
* * * * *
77464278 AATAGAAATTGAAATTACCTCGGTATGCGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AATAGAAATTGAAACTACCTCAGCATGCGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTG
77464343 AAAAG
66 AAAAG
* **
77464348 AATAGAAATTGAAAACT-CCTCAGCATGTGAGCCGGGGCTCAACTCACCTCTCACAATATGAGTT
1 AATAGAAATTG-AAACTACCTCAGCATGCGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTT
77464412 GA
65 GA
77464414 TTTTTTTGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (70 bp):
AATAGAAATTGAAACTACCTCAGCATGCGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTTG
AAAAG
Found at i:77464501 original size:89 final size:90
Alignment explanation
Indices: 77464351--77464595 Score: 311
Period size: 89 Copynumber: 2.7 Consensus size: 90
77464341 TGAAAAGAAT
* * *
77464351 AGAAATTGAAAACT-CCTCAGCATGTGAGCCGGGGCTCAACTCACCTCTCACAATATGAGTTGAT
1 AGAAACTGAAAA-TACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
77464415 TTTTTTGAAAAGCAGAAA-TTAAAAAAT
64 TTTTTTGAAAA-CAGAAATTTAAAAAAC
* * ** * *
77464442 AGAAATTGAAATTACCTCAGC-GTGTTCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGA--T
1 AGAAACTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
77464504 TTTTGAAAACAGAAATTTCAAAAAC
66 TTTTGAAAACAGAAATTTAAAAAAC
*
77464529 AGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCTCCTCTCGCAATATGAGTTGATT
1 AGAAACTGAAAATACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
77464594 TT
65 TT
77464596 CTATAAATTG
Statistics
Matches: 132, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
86 6 0.05
87 36 0.27
89 69 0.52
90 1 0.01
91 20 0.15
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (90 bp):
AGAAACTGAAAATACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGAAAACAGAAATTTAAAAAAC
Found at i:77464678 original size:13 final size:14
Alignment explanation
Indices: 77464660--77464703 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
77464650 TTGATTTTTG
77464660 AAAACAGAAATT-A
1 AAAACAGAAATTGA
*
77464673 AAAACAGAATTTGA
1 AAAACAGAAATTGA
* *
77464687 AAGACAGAATTTGA
1 AAAACAGAAATTGA
77464701 AAA
1 AAA
77464704 TACCTTAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:77464695 original size:14 final size:13
Alignment explanation
Indices: 77464656--77464703 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
77464646 TGAGTTGATT
77464656 TTTGAAAACAGAA
1 TTTGAAAACAGAA
* *
77464669 ATTAAAAACAGAA
1 TTTGAAAACAGAA
77464682 TTTGAAAGACAGAA
1 TTTGAAA-ACAGAA
77464696 TTTGAAAA
1 TTTGAAAA
77464704 TACCTTAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:77464937 original size:14 final size:14
Alignment explanation
Indices: 77464920--77464953 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
77464910 ATTGATTTTT
*
77464920 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
77464934 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
77464948 TTGAAA
1 TTGAAA
77464954 TTACCTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Done.