Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 223 of 320
Found at i:74286368 original size:37 final size:39
Alignment explanation
Indices: 74286284--74286356 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 39
74286274 ATCGGAAAGT
*
74286284 CCGAAGTAAATAGATTGTGCCCAGAACTCATCGGTATAA
1 CCGAAGTAAATAGATTGTGCCCAGAACTCATCGATATAA
*
74286323 CCGAAGTAAA-AG-TTGTG-CCA-CACTCATCGATATA
1 CCGAAGTAAATAGATTGTGCCCAGAACTCATCGATATA
74286357 TAGTCGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 12 0.38
36 3 0.09
37 5 0.16
38 2 0.06
39 10 0.31
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (39 bp):
CCGAAGTAAATAGATTGTGCCCAGAACTCATCGATATAA
Found at i:74287531 original size:10 final size:9
Alignment explanation
Indices: 74287483--74287539 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
74287473 ACAAATAAAT
74287483 AAAAGAAA-
1 AAAAGAAAG
74287491 AAAAGAAAG
1 AAAAGAAAG
*
74287500 ACAAGCAAAACG
1 AAAAG--AAA-G
74287512 AAACAGAAAGG
1 AAA-AGAAA-G
74287523 AAAAGAAAG
1 AAAAGAAAG
74287532 AAAAGAAA
1 AAAAGAAA
74287540 AAGTGAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 8 0.20
9 13 0.32
10 5 0.12
11 10 0.24
12 3 0.07
13 2 0.05
ACGTcount: A:0.74, C:0.07, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:74288584 original size:40 final size:39
Alignment explanation
Indices: 74288461--74288591 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
74288451 GACTTCGAGT
* *
74288461 CGATGAGACACTGGGTGTCAATTCACTACTTCGGATTAAC
1 CGATGAGACACTGGGTGTCAATT-ATTACTTCGAATTAAC
* * * *
74288501 TCGATGAGGCA-TAGGGTGCCAA-T-TTACTTCGATTTAGC
1 -CGATGAGACACT-GGGTGTCAATTATTACTTCGAATTAAC
* *
74288539 TGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTC-AATTATTACTTCGAATTAAC
*
74288579 CGATGAGGCACTG
1 CGATGAGACACTG
74288592 AGTACCAAAC
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
37 14 0.19
38 14 0.19
39 1 0.01
40 26 0.36
41 17 0.24
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGAATTAAC
Found at i:74290077 original size:22 final size:22
Alignment explanation
Indices: 74290037--74290165 Score: 125
Period size: 22 Copynumber: 5.8 Consensus size: 22
74290027 AGCTCGTAAT
* * *
74290037 AGCTTACTGTTTCAGCTCATTGG
1 AGCTTACCG-TTCAGCTCAATAG
* *
74290060 AGCTTACCGTTCATCTCAGTAG
1 AGCTTACCGTTCAGCTCAATAG
74290082 AGCTTACCGTTCTA-CTCAATAG
1 AGCTTACCGTTC-AGCTCAATAG
* * *
74290104 ATCTTACCGTTCAGCTCATTAA
1 AGCTTACCGTTCAGCTCAATAG
* *
74290126 AGCTTACCATTTCAACTCAATAG
1 AGCTTACC-GTTCAGCTCAATAG
*
74290149 AGCTTACTGTTCAGCTC
1 AGCTTACCGTTCAGCTC
74290166 GAAGGAGCTT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
21 1 0.01
22 60 0.69
23 26 0.30
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (22 bp):
AGCTTACCGTTCAGCTCAATAG
Found at i:74290112 original size:44 final size:45
Alignment explanation
Indices: 74290059--74290165 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 45
74290049 CAGCTCATTG
* * *
74290059 GAGCTTACCGTTCATCTCAGTAGAGCTTACC-GTTCTACTCAATA
1 GAGCTTACCGTTCAGCTCAGTAAAGCTTACCAGTTCAACTCAATA
* * *
74290103 GATCTTACCGTTCAGCTCATTAAAGCTTACCATTTCAACTCAATA
1 GAGCTTACCGTTCAGCTCAGTAAAGCTTACCAGTTCAACTCAATA
*
74290148 GAGCTTACTGTTCAGCTC
1 GAGCTTACCGTTCAGCTC
74290166 GAAGGAGCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
44 27 0.50
45 27 0.50
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (45 bp):
GAGCTTACCGTTCAGCTCAGTAAAGCTTACCAGTTCAACTCAATA
Found at i:74290161 original size:45 final size:44
Alignment explanation
Indices: 74290027--74290165 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 44
74290017 AACTCACCAT
* * * *
74290027 AGCTC-GTAATAGCTTACTGTTTCAGCTCATTGGAGCTTACCGTTC
1 AGCTCAGTAA-AGCTTACCG-TTCAACTCAATAGAGCTTACCGTTC
* * * *
74290072 ATCTCAGTAGAGCTTACCGTTCTACTCAATAGATCTTACCGTTC
1 AGCTCAGTAAAGCTTACCGTTCAACTCAATAGAGCTTACCGTTC
* * *
74290116 AGCTCATTAAAGCTTACCATTTCAACTCAATAGAGCTTACTGTTC
1 AGCTCAGTAAAGCTTACC-GTTCAACTCAATAGAGCTTACCGTTC
74290161 AGCTC
1 AGCTC
74290166 GAAGGAGCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.45
45 39 0.51
46 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (44 bp):
AGCTCAGTAAAGCTTACCGTTCAACTCAATAGAGCTTACCGTTC
Found at i:74291796 original size:242 final size:241
Alignment explanation
Indices: 74291350--74291829 Score: 825
Period size: 242 Copynumber: 2.0 Consensus size: 241
74291340 CACGGGCTTG
* *
74291350 TGTCACTTGAAAAGTTGAAAATTTCTAAGTTTCTGAAATTTTTATATGTTATCAATTTAGTACCA
1 TGTCACTTGAAAAATTGAAAATTTCTAAGTTTCTGAAATTTTTATATATTATCAATTTAGTACCA
*
74291415 AATGCATGATTAAGATTTTGTATGAGTAATTTAAGTACATTTTGAATGTGAATGATTGATGGTTA
66 AATGCATGATTAAGACTTTGTATGAGTAATTTAAGTACATTTTGAATGTGAATGATTGATGGTTA
*
74291480 CTGAAATGAGATGGAATTTGTTAAATGAATGTTTTGAATTGAGTTACAGGTCTTGTAATGCCTCT
131 CTGAAATGAGATGGAATTTGTTAAATGAATGTTTTGAATTGAGTTACAGGTCTGGTAATGCCTCT
* *
74291545 TAACCTATTCTGGCGACAGTTACAGGTTAGGGGTGTTACATTTGTT
196 TAACCTATTCCGGCGACAGTTACAGGTTAAGGGTGTTACATTTGTT
*
74291591 TGTCACTTGAAAAATTGAAAACTTTCTAAGTTTTTGAAATTTTTATATATTATCAATTTAGTACC
1 TGTCACTTGAAAAATTGAAAA-TTTCTAAGTTTCTGAAATTTTTATATATTATCAATTTAGTACC
*
74291656 AAATGCATGATTAAGACTTTGTATGATTAATTTAAGTACATTTTGAATGTGAATGATTGATGGTT
65 AAATGCATGATTAAGACTTTGTATGAGTAATTTAAGTACATTTTGAATGTGAATGATTGATGGTT
* *
74291721 ACTGAAATGAGATGGAATTTGTTAAATGAATGTTTTGAATTGTGTTATAGGTCTGGTAATGCCTC
130 ACTGAAATGAGATGGAATTTGTTAAATGAATGTTTTGAATTGAGTTACAGGTCTGGTAATGCCTC
* * * *
74291786 TTGACCTATTCCGGTGATAGTTACGGGTTAAGGGTGTTACATTT
195 TTAACCTATTCCGGCGACAGTTACAGGTTAAGGGTGTTACATTT
74291830 ATTGGTATCA
Statistics
Matches: 224, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
241 20 0.09
242 204 0.91
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (241 bp):
TGTCACTTGAAAAATTGAAAATTTCTAAGTTTCTGAAATTTTTATATATTATCAATTTAGTACCA
AATGCATGATTAAGACTTTGTATGAGTAATTTAAGTACATTTTGAATGTGAATGATTGATGGTTA
CTGAAATGAGATGGAATTTGTTAAATGAATGTTTTGAATTGAGTTACAGGTCTGGTAATGCCTCT
TAACCTATTCCGGCGACAGTTACAGGTTAAGGGTGTTACATTTGTT
Found at i:74297900 original size:22 final size:22
Alignment explanation
Indices: 74297864--74297968 Score: 120
Period size: 22 Copynumber: 4.7 Consensus size: 22
74297854 CTCGTAAGAA
*
74297864 CTTACTGTTTCAGCTCATTTGAG
1 CTTACTG-TTCAGCTCATTAGAG
* * *
74297887 CTTACTGTTCAGCTTAGTAGAA
1 CTTACTGTTCAGCTCATTAGAG
* *
74297909 CTTACCGTTTAGCTCATTAGAG
1 CTTACTGTTCAGCTCATTAGAG
* *
74297931 CTTACCGTTTCAGCTCAATAGAG
1 CTTACTG-TTCAGCTCATTAGAG
74297954 CTTACTGTTCAGCTC
1 CTTACTGTTCAGCTC
74297969 GAAGGAGCTT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
22 43 0.62
23 26 0.38
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (22 bp):
CTTACTGTTCAGCTCATTAGAG
Found at i:74297910 original size:45 final size:46
Alignment explanation
Indices: 74297860--74297968 Score: 143
Period size: 45 Copynumber: 2.4 Consensus size: 46
74297850 ATAGCTCGTA
* * * *
74297860 AGAACTTACTGTTTCAGCTCATTTGAGCTTACTG-TTCAGCTTAGT
1 AGAACTTACTGTTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAT
*
74297905 AGAACTTACCGTTT-AGCTCATTAGAGCTTACCGTTTCAGCTCAAT
1 AGAACTTACTGTTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAT
*
74297950 AGAGCTTACTG-TTCAGCTC
1 AGAACTTACTGTTTCAGCTC
74297969 GAAGGAGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 19 0.35
45 36 0.65
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (46 bp):
AGAACTTACTGTTTCAGCTCATTAGAGCTTACCGTTTCAGCTCAAT
Found at i:74301688 original size:31 final size:30
Alignment explanation
Indices: 74301652--74301723 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 30
74301642 CCTTCTGACA
74301652 TCTTTTTATTTTTTTCTCTTATTTTCATATT
1 TCTTTTT-TTTTTTTCTCTTATTTTCATATT
*
74301683 TCTTTTGTTTTTTTTCTTTTATTTTCATATT
1 TCTTTT-TTTTTTTTCTCTTATTTTCATATT
74301714 TCTTTTTTTT
1 TCTTTTTTTT
74301724 ACTTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 4 0.10
31 34 0.87
32 1 0.03
ACGTcount: A:0.10, C:0.11, G:0.01, T:0.78
Consensus pattern (30 bp):
TCTTTTTTTTTTTTCTCTTATTTTCATATT
Found at i:74301700 original size:14 final size:14
Alignment explanation
Indices: 74301655--74301707 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
74301645 TCTGACATCT
74301655 TTTTA-TTTTTTTC
1 TTTTATTTTTTTTC
*
74301668 TCTTATTTTCATATTTC
1 TTTTATTTT--T-TTTC
*
74301685 TTTTGTTTTTTTTC
1 TTTTATTTTTTTTC
74301699 TTTTATTTT
1 TTTTATTTT
74301708 CATATTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 4 0.12
14 15 0.47
15 1 0.03
16 1 0.03
17 11 0.34
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTTTTC
Found at i:74301777 original size:11 final size:10
Alignment explanation
Indices: 74301757--74301828 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 10
74301747 AAATTTTATC
74301757 TTTTTATTTT
1 TTTTTATTTT
*
74301767 TTTTTA-CTT
1 TTTTTATTTT
*
74301776 TTTTGATTTT
1 TTTTTATTTT
74301786 TTTCTTATTTCATT
1 TTT-TTA-TT--TT
74301800 TTGTTTATTTT
1 TT-TTTATTTT
*
74301811 GTTTTATTTT
1 TTTTTATTTT
*
74301821 TTATTATT
1 TTTTTATT
74301829 AACTTTAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
9 7 0.14
10 25 0.51
11 5 0.10
12 2 0.04
13 2 0.04
14 7 0.14
15 1 0.02
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:74301801 original size:24 final size:24
Alignment explanation
Indices: 74301774--74301819 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
74301764 TTTTTTTTAC
*
74301774 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
74301798 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
74301820 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:74302006 original size:14 final size:14
Alignment explanation
Indices: 74301989--74302015 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74301979 TTTTTTAAAA
74301989 TTTTAAATATTAAT
1 TTTTAAATATTAAT
74302003 TTTTAAATATTAA
1 TTTTAAATATTAA
74302016 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:74302015 original size:37 final size:37
Alignment explanation
Indices: 74301874--74302015 Score: 129
Period size: 37 Copynumber: 4.0 Consensus size: 37
74301864 TTTATAATAC
* *
74301874 TTTTTTAAAATTTTAATTA-T-TATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * * *
74301908 TTTTTT--AACTTTAGATA-TATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * *
74301942 TTTTTTATATATTTTAAA-AATATATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAATATTATATTTTTAAAATTAA
74301979 TTTTTTAAAATTTTAAATATTA-ATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAA-ATTAA
74302016 CCATATTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
32 9 0.10
33 10 0.12
34 13 0.15
36 18 0.21
37 36 0.42
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (37 bp):
TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
Found at i:74302022 original size:23 final size:23
Alignment explanation
Indices: 74301974--74302015 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
74301964 TATTTTTCAA
*
74301974 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
74301997 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
74302016 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:74302106 original size:21 final size:22
Alignment explanation
Indices: 74302067--74302109 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
74302057 TTGTAAATAC
74302067 AATTTCTTTAATTTCTTTTTAA
1 AATTTCTTTAATTTCTTTTTAA
74302089 AATTT-TTTAACTTT-TTTTTAA
1 AATTTCTTTAA-TTTCTTTTTAA
74302110 TTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (22 bp):
AATTTCTTTAATTTCTTTTTAA
Found at i:74302231 original size:18 final size:19
Alignment explanation
Indices: 74302210--74302251 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
74302200 TTTTTTTACT
74302210 TTTTTATTAAATT-TTGTC
1 TTTTTATTAAATTATTGTC
* * *
74302228 TTTTTCTTAATTTATTTTC
1 TTTTTATTAAATTATTGTC
74302247 TTTTT
1 TTTTT
74302252 TAAGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTAAATTATTGTC
Found at i:74302308 original size:18 final size:17
Alignment explanation
Indices: 74302234--74302304 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
74302224 TGTCTTTTTC
* * *
74302234 TTAATTTATTTTCTTTT
1 TTAATTTATATTATTAT
*
74302251 TTAAGTTTTATATTATTTT
1 TTAA--TTTATATTATTAT
* *
74302270 CTTATTTTATTTTATTTAT
1 -TTAATTTATATTA-TTAT
74302289 TTAATTTATATTATTA
1 TTAATTTATATTATTA
74302305 ATTTTAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.16
18 19 0.44
19 14 0.33
20 3 0.07
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (17 bp):
TTAATTTATATTATTAT
Found at i:74302364 original size:33 final size:34
Alignment explanation
Indices: 74302322--74302458 Score: 106
Period size: 33 Copynumber: 4.0 Consensus size: 34
74302312 AAAATTGTAA
*
74302322 TTTATATTATTAATTTTTACAATT-TTTTTTAAAT
1 TTTATATTATT-ATTTTTAAAATTATTTTTTAAAT
*
74302356 TTTA-ATTATTATTTTTAAAATTATTTTTT-AAC
1 TTTATATTATTATTTTTAAAATTATTTTTTAAAT
* * *
74302388 TTTAGA-TATATATTTGTGAAATTATTTTTTTATAAAT
1 TTTATATTAT-TATTTTTAAAATTA--TTTTT-TAAAT
* * *
74302425 TTTA-AATATATATTTTT-AAATTAATTTTGAAAT
1 TTTATATTAT-TATTTTTAAAATTATTTTTTAAAT
74302458 T
1 T
74302459 ATTAGTTTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
32 20 0.23
33 30 0.34
34 8 0.09
35 5 0.06
36 8 0.09
37 16 0.18
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (34 bp):
TTTATATTATTATTTTTAAAATTATTTTTTAAAT
Found at i:74302476 original size:25 final size:25
Alignment explanation
Indices: 74302397--74302481 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 25
74302387 CTTTAGATAT
74302397 ATATTTGTGAAATTATT-TTTTTATA
1 ATATTT-TGAAATTATTATTTTTATA
74302422 A-ATTTT-AAA-TATATATTTTTA-A
1 ATATTTTGAAATTAT-TATTTTTATA
*
74302444 ATTAATTTTGAAATTATTAGTTTTATA
1 A-T-ATTTTGAAATTATTATTTTTATA
74302471 ATA-TTTGAAAT
1 ATATTTTGAAAT
74302482 GTATGTTTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
21 3 0.06
22 6 0.12
23 7 0.14
24 12 0.24
25 7 0.14
26 11 0.22
27 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
ATATTTTGAAATTATTATTTTTATA
Found at i:74302532 original size:12 final size:14
Alignment explanation
Indices: 74302516--74302548 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
74302506 TGCATACAAT
74302516 TTTTTAAATT-TTA
1 TTTTTAAATTCTTA
74302529 TTTTTAAATTCTT-
1 TTTTTAAATTCTTA
74302542 TTTTTAA
1 TTTTTAA
74302549 CATTAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAAATTCTTA
Found at i:74302691 original size:21 final size:20
Alignment explanation
Indices: 74302670--74302708 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74302660 ATAAATATTA
74302670 AAAAATTAAATATTTTTTTT
1 AAAAATTAAATATTTTTTTT
*
74302690 AAATATTAAATATTTTTTT
1 AAAAATTAAATATTTTTTT
74302709 CCTTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAAATTAAATATTTTTTTT
Found at i:74302876 original size:26 final size:26
Alignment explanation
Indices: 74302844--74302902 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
74302834 TTTTAAATAC
*
74302844 AATTTTTAAATACATTTAAAAAATCAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
74302871 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
74302897 AATTTT
1 AATTTT
74302903 ATTTTGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:74303000 original size:21 final size:21
Alignment explanation
Indices: 74302961--74303004 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
74302951 ATTTAAAATG
74302961 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
74302983 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
74303003 TT
1 TT
74303005 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:74304795 original size:20 final size:20
Alignment explanation
Indices: 74304767--74304813 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
74304757 CAAACTTTTC
74304767 AAAAA-TTAAAAA-AAAGTTA
1 AAAAATTTAAAAAGAAA-TTA
74304786 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAGAAATTA
74304806 AAGAAATT
1 AA-AAATT
74304814 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAGAAATTA
Found at i:74305164 original size:5 final size:5
Alignment explanation
Indices: 74305133--74305210 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
74305123 AACAAAATAA
* *
74305133 AAAAG TAAAA- AAAAG AAATATG AAAAG AAAAG AAAA- AAAAC AAAAA
1 AAAAG -AAAAG AAAAG AAA-A-G AAAAG AAAAG AAAAG AAAAG AAAAG
* *
74305179 AAATATG AAAAT AAAAG AAAAAG AAAAC AAAA
1 AAA-A-G AAAAG AAAAG -AAAAG AAAAG AAAA
74305211 AGGTGTCAGG
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
4 8 0.13
5 32 0.53
6 13 0.22
7 7 0.12
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (5 bp):
AAAAG
Found at i:74305186 original size:31 final size:34
Alignment explanation
Indices: 74305132--74305212 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 34
74305122 GAACAAAATA
*
74305132 AAAAAGTAAA-AAAAAGAAATATGAAAAGAAAAG
1 AAAAAGAAAACAAAAAGAAATATGAAAAGAAAAG
*
74305165 -AAAA-AAAACAAAAA-AAATATGAAAATAAAAG
1 AAAAAGAAAACAAAAAGAAATATGAAAAGAAAAG
74305196 AAAAAGAAAACAAAAAG
1 AAAAAGAAAACAAAAAG
74305213 GTGTCAGGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 19 0.45
32 13 0.31
33 10 0.24
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.07
Consensus pattern (34 bp):
AAAAAGAAAACAAAAAGAAATATGAAAAGAAAAG
Found at i:74318024 original size:3 final size:3
Alignment explanation
Indices: 74318018--74318049 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
74318008 AATAATAATA
*
74318018 ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
74318050 AATTAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:74318451 original size:23 final size:23
Alignment explanation
Indices: 74318425--74318468 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74318415 TAAATATTGT
74318425 TTTATTAATATTTTAATTAGATA
1 TTTATTAATATTTTAATTAGATA
* *
74318448 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTAATTAGA
74318469 AAATGATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTAATTAGATA
Found at i:74324610 original size:67 final size:67
Alignment explanation
Indices: 74324502--74324634 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
74324492 TGAGCATATG
* *
74324502 TTACAGGGGATTTAGCCTGGACTAGTAATCTTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTACAGGGGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTC
74324567 TC
66 TC
* *
74324569 TTACAGGGGATTTAGCCTGGA-TTGATAATCCTGCTGTAAGAAATGAGGTTCGTGAGAGTGTGCT
1 TTACAGGGGATTTAGCCTGGACTAG-TAATCCTGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCT
74324633 CT
65 CT
74324635 TTGAAAAGGA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 2 0.03
67 59 0.97
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (67 bp):
TTACAGGGGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTC
TC
Found at i:74327040 original size:22 final size:22
Alignment explanation
Indices: 74326997--74327045 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
74326987 CAAATACATA
74326997 AAATTAAAAAAGAAAAACGAAT
1 AAATTAAAAAAGAAAAACGAAT
* * *
74327019 CAATTCAAAAATAATAAA-GAAT
1 AAATTAAAAAAGAA-AAACGAAT
74327041 AAATT
1 AAATT
74327046 TAGTATCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.20
Consensus pattern (22 bp):
AAATTAAAAAAGAAAAACGAAT
Found at i:74333887 original size:92 final size:92
Alignment explanation
Indices: 74333770--74333990 Score: 325
Period size: 92 Copynumber: 2.4 Consensus size: 92
74333760 TTTGACATGA
* * * * * *
74333770 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*
74333835 CATAGTCTTATTCATTTCATGTCACGC
66 CATAGTCTTATTCATTTCATATCACGC
*
74333862 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
* * *
74333927 CATGGTCTTATTCATTTCATATCAGGT
66 CATAGTCTTATTCATTTCATATCACGC
* *
74333954 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
74333991 ATATCAGAGA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 115 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATAGTCTTATTCATTTCATATCACGC
Found at i:74333989 original size:46 final size:46
Alignment explanation
Indices: 74333770--74333997 Score: 287
Period size: 46 Copynumber: 5.0 Consensus size: 46
74333760 TTTGACATGA
* * * * *
74333770 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCAGGT
* * * *
74333816 TGTCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
** *
74333862 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
*
74333908 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
* ** *
74333954 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAG
74333998 AGAGCACACT
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 156 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
Found at i:74338866 original size:26 final size:26
Alignment explanation
Indices: 74338815--74338869 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
74338805 TAATTCATAC
* *
74338815 TATTTTTTCGAATTTTTATTTTATTT
1 TATTTTTTCGAATTTTTATGTAATTT
*
74338841 TATTTTTTTGAATATTTT-TGTAATTT
1 TATTTTTTCGAAT-TTTTATGTAATTT
74338867 TAT
1 TAT
74338870 ATTATTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (26 bp):
TATTTTTTCGAATTTTTATGTAATTT
Found at i:74346027 original size:13 final size:15
Alignment explanation
Indices: 74346003--74346039 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
74345993 AAAATATAAT
*
74346003 AATAACATTAATA-A
1 AATAATATTAATATA
74346017 AAT-ATATTAATATA
1 AATAATATTAATATA
74346031 AATAATATT
1 AATAATATT
74346040 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 8 0.40
14 7 0.35
15 5 0.25
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATTAATATA
Found at i:74346036 original size:22 final size:22
Alignment explanation
Indices: 74345993--74346037 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
74345983 TAGAATACCA
*
74345993 AAAATATAATAATAACATTAAT
1 AAAATATAATAATAACAATAAT
*
74346015 AAAATATATTAATATA-AATAAT
1 AAAATATAATAATA-ACAATAAT
74346037 A
1 A
74346038 TTGAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATAATAATAACAATAAT
Found at i:74347820 original size:85 final size:87
Alignment explanation
Indices: 74347682--74347944 Score: 293
Period size: 87 Copynumber: 3.0 Consensus size: 87
74347672 AAAAGACATT
* * * * *
74347682 AAAAACAGAAATTGAAAATAACTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATGTGA
1 AAAAACAGAAATTGAAAATACCTCA--ACATG-CCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
74347746 GTTGGTTTTTGAAA-CT-TAATTTG
63 GTTGATTTTTGAAAGATATAAATTG
* * ** * *
74347769 GAAAGCAGATTTTGAAAATA-CTGCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCT-CAACATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
74347833 TGATTTTTGAAAGATATAAATTG
65 TGATTTTTGAAAGATATAAATTG
* * *
74347856 AAAAATAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAACATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
74347921 GATTTTTGAAA-ATAGAAATTG
66 GATTTTTGAAAGATATAAATTG
74347942 AAA
1 AAA
74347945 GTAGCTCAGC
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.01
85 43 0.29
86 15 0.10
87 88 0.59
88 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAACATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAGATATAAATTG
Found at i:74347858 original size:14 final size:14
Alignment explanation
Indices: 74347839--74347873 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
74347829 GAGTTGATTT
* *
74347839 TTGAAAGATATAAA
1 TTGAAAAATAGAAA
74347853 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
74347867 TTGAAAA
1 TTGAAAA
74347874 TACCTCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:74347911 original size:87 final size:86
Alignment explanation
Indices: 74347719--74347944 Score: 294
Period size: 87 Copynumber: 2.6 Consensus size: 86
74347709 ACGTGAGCCA
* * * * * * **
74347719 AGGCTCAACTCACCTCTCGCAATGTGAGTTGGTTTTTGAAACT-TAATTTGGAAAGCAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAACAGAAATTG
* *
74347783 AAAATACTGCAGCGTGCCCTG
66 AAAATACTGCAACATGCCCTG
*
74347804 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGATATAAATTGAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATATAAATTGAAAAACAGAAATT
*
74347869 GAAAATACCT-CAACATGTCCTG
65 GAAAATA-CTGCAACATGCCCTG
* *
74347891 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAATAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAA
74347945 GTAGCTCAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
85 39 0.31
86 13 0.10
87 70 0.56
88 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAACAGAAATTG
AAAATACTGCAACATGCCCTG
Found at i:74347935 original size:72 final size:73
Alignment explanation
Indices: 74347857--74348020 Score: 224
Period size: 74 Copynumber: 2.2 Consensus size: 73
74347847 TATAAATTGA
* *
74347857 AAAATAGAAATTGAAAATACCTCA-ACATG-TCCTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAATAGAAATTGAAAATACCTCACACATGAGCC-AAGGCTCAACTCACCTCTCGCAATATAAGT
74347920 TGATTTTTG
65 TGATTTTTG
* * * * *
74347929 AAAATAGAAATTGAAAGTAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATGTGAGT
1 AAAATAGAAATTGAAAATACCTCA-CACATGAGCCAAGGCTCAACTCACCTCTCGCAATATAAGT
74347994 TGATTTTTG
65 TGATTTTTG
74348003 AAAAGTAGAAATTGAAAA
1 AAAA-TAGAAATTGAAAA
74348021 ACAAAAATTG
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
72 22 0.28
74 44 0.55
75 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (73 bp):
AAAATAGAAATTGAAAATACCTCACACATGAGCCAAGGCTCAACTCACCTCTCGCAATATAAGTT
GATTTTTG
Found at i:74348111 original size:163 final size:163
Alignment explanation
Indices: 74347804--74348600 Score: 777
Period size: 163 Copynumber: 4.8 Consensus size: 163
74347794 GCGTGCCCTG
* * *
74347804 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAGATATAAATTGAAAAATAGAAAT
1 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAG-TAGAAATTGAAAAACAGAAAT
* * *
74347868 TGAAAATACCTCAAC--ATGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAA
65 TGAAATTACCTCAACTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
74347931 AATAGAAATTGAAAGTAGCTCAGCACGTGAGCCA
130 AATAGAAATTGAAAGTAGCTCAGCACGTGAGCCA
*
74347965 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAAAAATT
1 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATT
* *
74348030 GAAATTACCCCAACTTATGACCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAA
66 GAAATTACCTCAACTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
74348095 ATAGAAATTGAAAGTAGCTCAGCACGTGAGCCA
131 ATAGAAATTGAAAGTAGCTCAGCACGTGAGCCA
*
74348128 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGCAGAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATT
* **
74348193 GAAATTACCTTAGGTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA
66 GAAATTACCTCAACTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-G-A
* * * *
74348258 GAAACAGAAATTGAAAAACGGAATTTTGAGAATACCTCGGCATGTG-GCCCG
129 -AAATAGAAATTG--AAA--G-----T-AG-----CTCAGCACGTGAG-CCA
* * * * *
74348309 AGGTTCAACTCATCTCTCACAATATGAGTTGATTTTTGAAAAGTATAAA-T-AAAAAC------T
1 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATT
* * * * * *
74348366 GAAAATGCCTCAGCATGTGAGCC-AAGGCTCAACTCA-C-CTCGCAATATGAGTTGATTTTTGAA
66 GAAATTACCTCAACTTATGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* ** * * *
74348428 AATAGAGATTGAAAAGCAAAAATGAAAATTCATCAGCGT-ACCCTG
130 AATAGAAATTG-AAAG------T---AGCTCAGCA-CGTGAGCC-A
* * * *
74348473 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAATATAAATTGAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATT
* * ** *
74348537 GAAATTACCTCAGCGTAT--CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
66 GAAATTACCTCAACTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
74348600 A
131 A
74348601 ATAAAAACAT
Statistics
Matches: 539, Mismatches: 57, Indels: 70
0.81 0.09 0.11
Matches are distributed among these distances:
161 68 0.13
162 4 0.01
163 214 0.40
164 39 0.07
165 7 0.01
166 14 0.03
167 4 0.01
168 16 0.03
169 13 0.02
170 2 0.00
171 63 0.12
172 1 0.00
173 27 0.05
174 2 0.00
175 1 0.00
176 2 0.00
179 6 0.01
180 2 0.00
181 54 0.10
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (163 bp):
AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATT
GAAATTACCTCAACTTATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ATAGAAATTGAAAGTAGCTCAGCACGTGAGCCA
Found at i:74348182 original size:14 final size:14
Alignment explanation
Indices: 74348163--74348196 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
74348153 GAGTTGATTT
*
74348163 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
74348177 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
74348191 TTGAAA
1 TTGAAA
74348197 TTACCTTAGG
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
Found at i:74348332 original size:92 final size:90
Alignment explanation
Indices: 74348128--74348601 Score: 356
Period size: 85 Copynumber: 5.5 Consensus size: 90
74348118 ACGTGAGCCA
* *
74348128 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTT-GAAAAGCAGAAATTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAGAAATTGAAAAACAGAAAT
* *
74348192 TGAAATTACCTTAGGTTATGACCTG
66 TGAAATTACCTTAGGATATGACCCG
*
74348217 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAGAAACAGAAATTGAAAAACGGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA-AAACAGAAATTGAAAAACAGAA-
* * * *
74348282 TTTGAGAA-TACC-TCGGCATGTGGCCCG
64 ATTGA-AATTACCTTAGG-ATATGACCCG
* * * * * *
74348309 AGGTTCAACTCATCTCTCACAATATGAGTTGATTTTT-G--AAA-AG-TA-T-AAATA-A-AAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAGAAATTGAAAAACAGAAAT
* * * * * * *
74348365 TGAAAATGCCTCAGCATGTGAGCCA
66 TGAAATTACCTTAGGATATGACCCG
* * * *
74348390 AGGCTCAACTCA-C-CTCGCAATATGAGTTGATTTTT-G-AAAATAGAGATTGAAAAGCA-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAGAAATTGAAAAACAGAAAT
* *
74348450 TGAAAATT-CATCAGCG---T-ACCCTG
66 TG-AAATTACCTTAG-GATATGACCC-G
* * *
74348473 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAAATATAAATTGAAAAATAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAGAAATTGAAAAACAGAAAT
* *
74348536 TGAAATTACCTCAGCG-TAT--CCTG
66 TGAAATTACCTTAG-GATATGACCCG
** *
74348559 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT-GAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAA
74348602 TAAAAACATC
Statistics
Matches: 316, Mismatches: 45, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
79 22 0.07
80 6 0.02
81 26 0.08
82 7 0.02
83 14 0.04
84 8 0.03
85 55 0.17
86 52 0.16
87 9 0.03
88 4 0.01
89 36 0.11
90 3 0.01
91 24 0.08
92 48 0.15
93 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAGAAATTGAAAAACAGAAAT
TGAAATTACCTTAGGATATGACCCG
Found at i:74348450 original size:79 final size:83
Alignment explanation
Indices: 74348313--74348604 Score: 242
Period size: 86 Copynumber: 3.5 Consensus size: 83
74348303 GGCCCGAGGT
* * * * *
74348313 TCAACTCATCTCTCACAATATGAGTTGATTTTTGAAAAGTATAAAT-AAAAACTGAAAATG-CCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-TATAATTGAAAAACTAAAAATGAACT
* *
74348376 CAGCA-TGTGAGCC-AAGGC
65 CAGCAGCGT-ACCCTAAGGC
* *
74348394 TCAACTCA-C-CTCGCAATATGAGTTGATTTTTGAAAATAGAGATTGAAAAGC-AAAAATGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATA-ATTGAAAAACTAAAAATG--AA
* * *
74348456 TTCATCAGCGTACCCTGAGGC
63 CTCAGCAGCGTACCCTAAGGC
* *
74348477 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAATATAAATTGAAAAA-TAGAAATTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAT-AATTGAAAAACTA-AAAATG-AA
* ** * *
74348541 TTACCTCAGCGTATCCTGAGGC
63 CT-CAGCAGCGTACCCTAAGGC
** *
74348563 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-ATAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAA
74348605 AAACATCAAA
Statistics
Matches: 177, Mismatches: 21, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.02
79 34 0.19
80 6 0.03
81 8 0.05
82 8 0.05
83 14 0.08
84 3 0.02
85 44 0.25
86 57 0.32
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (83 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAATTGAAAAACTAAAAATGAACTC
AGCAGCGTACCCTAAGGC
Found at i:74348504 original size:85 final size:85
Alignment explanation
Indices: 74348390--74348600 Score: 284
Period size: 86 Copynumber: 2.5 Consensus size: 85
74348380 ATGTGAGCCA
* *
74348390 AGGCTCAACTCAC-CTCGCAATATGAGTTGATTTTTGAAAATAGAGATTGAAAAGCA-AAAATGA
1 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAAACAGAAAATG-
74348453 AAATT-CATCAGCGTACCCTG
65 AAATTACATCAGCGTACCCTG
* * * *
74348473 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAATATAAATTGAAAAATAGAAATTG
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAAACAGAAAATG
* *
74348538 AAATTACCTCAGCGTATCCTG
65 AAATTACATCAGCGTACCCTG
* *
74348559 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAA
74348601 ATAAAAACAT
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
83 12 0.11
84 1 0.01
85 43 0.38
86 56 0.50
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (85 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAAACAGAAAATGA
AATTACATCAGCGTACCCTG
Found at i:74348529 original size:14 final size:14
Alignment explanation
Indices: 74348510--74348540 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74348500 GTTGATTTTT
*
74348510 AAAAATATAAATTG
1 AAAAATAGAAATTG
74348524 AAAAATAGAAATTG
1 AAAAATAGAAATTG
74348538 AAA
1 AAA
74348541 TTACCTCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (14 bp):
AAAAATAGAAATTG
Found at i:74348550 original size:171 final size:175
Alignment explanation
Indices: 74348113--74348600 Score: 472
Period size: 171 Copynumber: 2.8 Consensus size: 175
74348103 TGAAAGTAGC
* * * * *
74348113 TCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAGCAGAAAT
1 TCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAAT
* * * * *
74348178 TGAAAAACAGAAATTGAAATTACCTTAGGTTATGACCTGAGGCTCAACTCACCTCTCGCAATATG
65 TGAAAAATAGAAATTGAAATTACCTCA-GCTGTGACCTGAGGCTCAACTCATC-CTCGCAATATG
* *** * *
74348243 AGTTGATTTTTGGAAGAAACAGAAATTGAAAAACGGAATTTTGAGAATACC
128 AGTTGATTTTT-G-A-AAACAGAAATTGAAAAACGCAAAAATGAAAATACA
* * * * *
74348294 TCGGCATGTGGCCCGAGGTTCAACTCATCTCTCACAATATGAGTTGATTTTTGAAAAGTATAAA-
1 TCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAAT
* *
74348358 T-AAAAACT-G--A---AAA-TGCCTCAGCATGTGAGCC-AAGGCTCAACTCA-CCTCGCAATAT
65 TGAAAAA-TAGAAATTGAAATTACCTCAGC-TGTGA-CCTGAGGCTCAACTCATCCTCGCAATAT
* * *
74348413 GAGTTGATTTTTGAAAATAGAGATTG-AAAA-GCAAAAATGAAAATTCA
127 GAGTTGATTTTTGAAAACAGAAATTGAAAAACGCAAAAATGAAAATACA
*
74348460 TCAGC-GT-ACCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAATATAAAT
1 TCAGCAGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAAT
*
74348522 TGAAAAATAGAAATTGAAATTACCTCAGC-GT-ATCCTGAGGCTCAACTCATTTCTCGCAATATG
65 TGAAAAATAGAAATTGAAATTACCTCAGCTGTGA-CCTGAGGCTCAACTCA-TCCTCGCAATATG
*
74348585 AGTTGAATTTTGAAAA
128 AGTTGATTTTTGAAAA
74348601 ATAAAAACAT
Statistics
Matches: 254, Mismatches: 37, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
163 13 0.05
164 39 0.15
165 6 0.02
166 14 0.06
167 5 0.02
168 13 0.05
169 15 0.06
170 4 0.02
171 56 0.22
172 2 0.01
173 21 0.08
174 5 0.02
177 1 0.00
179 6 0.02
180 1 0.00
181 53 0.21
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (175 bp):
TCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATT
GAAAAATAGAAATTGAAATTACCTCAGCTGTGACCTGAGGCTCAACTCATCCTCGCAATATGAGT
TGATTTTTGAAAACAGAAATTGAAAAACGCAAAAATGAAAATACA
Found at i:74349195 original size:36 final size:36
Alignment explanation
Indices: 74349153--74349224 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
74349143 AAGAACAGTA
* *
74349153 AAAGGTATCATAAAGAGGAAGGGGATTGCATTCAAC
1 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
74349189 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
1 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
74349225 GGCTACAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.18
Consensus pattern (36 bp):
AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
Found at i:74361765 original size:13 final size:15
Alignment explanation
Indices: 74361741--74361777 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
74361731 AAAATATAAT
*
74361741 AATAACATTAAT-TA
1 AATAATATTAATATA
74361755 AAT-ATATTAATATA
1 AATAATATTAATATA
74361769 AATAATATT
1 AATAATATT
74361778 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 8 0.40
15 5 0.25
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATTAATATA
Found at i:74361774 original size:22 final size:22
Alignment explanation
Indices: 74361732--74361774 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
74361722 AGAATACCAA
*
74361732 AAATATAATAATAACATTAATT
1 AAATATAATAATAACAATAATT
*
74361754 AAATATATTAATATA-AATAAT
1 AAATATAATAATA-ACAATAAT
74361775 ATTGAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATATAATAATAACAATAATT
Found at i:74362369 original size:14 final size:15
Alignment explanation
Indices: 74362350--74362379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74362340 GGTAAGTTTT
74362350 TTTATTT-TTTTATA
1 TTTATTTGTTTTATA
74362364 TTTATTTGTTTTATA
1 TTTATTTGTTTTATA
74362379 T
1 T
74362380 CTTTCTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTGTTTTATA
Found at i:74369716 original size:25 final size:24
Alignment explanation
Indices: 74369688--74369749 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 24
74369678 TATTAAAAGT
* *
74369688 TTTATTATATATGGATTTTTATTGA
1 TTTA-TATATAAGAATTTTTATTGA
74369713 TTTA-ATATAAGAATTTTTATTGA
1 TTTATATATAAGAATTTTTATTGA
74369736 TTTA-ATATAAGAAT
1 TTTATATATAAGAAT
74369750 GTAGAAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 31 0.89
25 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
TTTATATATAAGAATTTTTATTGA
Found at i:74369720 original size:23 final size:23
Alignment explanation
Indices: 74369702--74369749 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
74369692 TTATATATGG
74369702 ATTTTTATTGATTTAATATAAGA
1 ATTTTTATTGATTTAATATAAGA
74369725 ATTTTTATTGATTTAATATAAGA
1 ATTTTTATTGATTTAATATAAGA
74369748 AT
1 AT
74369750 GTAGAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (23 bp):
ATTTTTATTGATTTAATATAAGA
Found at i:74374790 original size:20 final size:20
Alignment explanation
Indices: 74374737--74374795 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
74374727 AATAAGAAAA
*
74374737 TACGAAAAATAAAAATATA-T
1 TACG-AAAATAAAAATAAATT
74374757 T-CGAAAATGCAAAAATAAATT
1 TACGAAAAT--AAAAATAAATT
74374778 TACGAAAAT-AAAATAAAT
1 TACGAAAATAAAAATAAAT
74374796 GGATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 5 0.15
19 11 0.32
20 9 0.26
21 2 0.06
22 7 0.21
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.24
Consensus pattern (20 bp):
TACGAAAATAAAAATAAATT
Found at i:74378795 original size:150 final size:150
Alignment explanation
Indices: 74378583--74378885 Score: 606
Period size: 150 Copynumber: 2.0 Consensus size: 150
74378573 GTTGTAGCAA
74378583 AATCAAAAATCATTCAATCTTTATCCAACCACTTTTAAAAAAAATCTTCAACCCTTCAATCTTTA
1 AATCAAAAATCATTCAATCTTTATCCAACCACTTTTAAAAAAAATCTTCAACCCTTCAATCTTTA
74378648 TCCAATCATCTTTGAATTTTCAATCTTTCAATCAAGCCCTCCTCTTTGCTTTTTGTTCCAATTTA
66 TCCAATCATCTTTGAATTTTCAATCTTTCAATCAAGCCCTCCTCTTTGCTTTTTGTTCCAATTTA
74378713 GCCATTTTTTTAAGAGTTTG
131 GCCATTTTTTTAAGAGTTTG
74378733 AATCAAAAATCATTCAATCTTTATCCAACCACTTTTAAAAAAAATCTTCAACCCTTCAATCTTTA
1 AATCAAAAATCATTCAATCTTTATCCAACCACTTTTAAAAAAAATCTTCAACCCTTCAATCTTTA
74378798 TCCAATCATCTTTGAATTTTCAATCTTTCAATCAAGCCCTCCTCTTTGCTTTTTGTTCCAATTTA
66 TCCAATCATCTTTGAATTTTCAATCTTTCAATCAAGCCCTCCTCTTTGCTTTTTGTTCCAATTTA
74378863 GCCATTTTTTTAAGAGTTTG
131 GCCATTTTTTTAAGAGTTTG
74378883 AAT
1 AAT
74378886 TCAACACACC
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 153 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (150 bp):
AATCAAAAATCATTCAATCTTTATCCAACCACTTTTAAAAAAAATCTTCAACCCTTCAATCTTTA
TCCAATCATCTTTGAATTTTCAATCTTTCAATCAAGCCCTCCTCTTTGCTTTTTGTTCCAATTTA
GCCATTTTTTTAAGAGTTTG
Found at i:74379820 original size:23 final size:23
Alignment explanation
Indices: 74379793--74379839 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
74379783 GTTAGATTTT
*
74379793 TCCTAAATATTATCACTGAATAA
1 TCCTAAATATTATCACTAAATAA
*
74379816 TCCTAAATATTATCATTAAATAA
1 TCCTAAATATTATCACTAAATAA
74379839 T
1 T
74379840 TCAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:74379846 original size:23 final size:23
Alignment explanation
Indices: 74379797--74379846 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
74379787 GATTTTTCCT
* *
74379797 AAATATTATCACTGAATAATCCT
1 AAATATTATCACTAAATAATCCA
* *
74379820 AAATATTATCATTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
74379843 AAAT
1 AAAT
74379847 TTAAAAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:74382178 original size:22 final size:22
Alignment explanation
Indices: 74382147--74382191 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
74382137 GTTCATGGCA
*
74382147 AGAATGAAGGTCGCATACTTTG
1 AGAATAAAGGTCGCATACTTTG
74382169 AGAATAAAGGTCGCATACTTTG
1 AGAATAAAGGTCGCATACTTTG
74382191 A
1 A
74382192 AAATCAGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (22 bp):
AGAATAAAGGTCGCATACTTTG
Found at i:74384193 original size:25 final size:25
Alignment explanation
Indices: 74384164--74384215 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
74384154 AAGAATAATT
**
74384164 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
74384189 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
74384214 TG
1 TG
74384216 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:74385436 original size:37 final size:36
Alignment explanation
Indices: 74385379--74385471 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 36
74385369 TTAAATTTAA
74385379 TATTAAAATAATTACTTTAATATTAAATT-AATA-AAATAC
1 TATTAAAATAA-TA--TTAAT-TTAAATTCAATATAAAT-C
* *
74385418 TATTAACATAAATATTAATTTTAATTCAATATTAAATC
1 TATTAAAAT-AATATTAATTTAAATTCAATA-TAAATC
74385456 TATTAAAATAATATTA
1 TATTAAAATAATATTA
74385472 TTTTTGAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
36 6 0.13
37 16 0.34
38 9 0.19
39 14 0.30
40 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (36 bp):
TATTAAAATAATATTAATTTAAATTCAATATAAATC
Found at i:74385453 original size:68 final size:71
Alignment explanation
Indices: 74385315--74385453 Score: 176
Period size: 68 Copynumber: 2.0 Consensus size: 71
74385305 TAATTAAACG
* * * * *
74385315 TAATCACTTTAATATTAAATTAATAGAATATTTTTCTACAAGATAAATATTAAATTAAATTTAAT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCTA-AACATAAATATTAAATTAAATTCAAT
74385380 ATTAAAA
65 ATTAAAA
* * *
74385387 TAATTACTTTAATATTAAATTAATAAAATA-CTAT-T-AACATAAATATTAATTTTAATTCAATA
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCTAAACATAAATATTAAATTAAATTCAATA
74385449 TTAAA
66 TTAAA
74385454 TCTATTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 28 0.47
70 1 0.02
71 2 0.03
72 28 0.47
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (71 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATCTAAACATAAATATTAAATTAAATTCAATA
TTAAAA
Found at i:74390117 original size:22 final size:23
Alignment explanation
Indices: 74390078--74390139 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
74390068 ATTCAAATGC
*
74390078 CAAAATGTACAAATAAAC-AA-TA
1 CAAAATTTA-AAATAAACTAATTA
74390100 CAAAATTTAAAATGAAACTAATTA
1 CAAAATTTAAAAT-AAACTAATTA
* *
74390124 TAAAATTCAAAATAAA
1 CAAAATTTAAAATAAA
74390140 AAAAATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
23 5 0.15
24 13 0.38
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.24
Consensus pattern (23 bp):
CAAAATTTAAAATAAACTAATTA
Found at i:74390607 original size:26 final size:26
Alignment explanation
Indices: 74390581--74390638 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
74390571 ATAATAATTA
*
74390581 AATAAAAATATT-TTAATTATATTTT
1 AATAAAAATATTATTAAATATATTTT
* *
74390606 AATATAATTATTATTAAATATATTTT
1 AATAAAAATATTATTAAATATATTTT
74390632 AATAAAA
1 AATAAAA
74390639 TAAAAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAAAAATATTATTAAATATATTTT
Found at i:74390700 original size:25 final size:27
Alignment explanation
Indices: 74390653--74390747 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 27
74390643 AATATATAAT
*
74390653 TTAATAATATTTTTATATTAAATTTTA
1 TTAATAATATTTTTATATTAAATTATA
74390680 TTAA-AATA-TTTTAT-TTAAAATTATA
1 TTAATAATATTTTTATATT-AAATTATA
*
74390705 TTTTGAAATTAA-ATATTTCATATTAAATTATA
1 --TT--AA-TAATAT-TTTTATATTAAATTATA
74390737 TTAA-AATATTT
1 TTAATAATATTT
74390748 CAAATATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 23
0.69 0.03 0.29
Matches are distributed among these distances:
24 2 0.04
25 13 0.24
26 8 0.15
27 8 0.15
28 2 0.04
29 2 0.04
30 3 0.05
31 2 0.04
32 13 0.24
33 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
TTAATAATATTTTTATATTAAATTATA
Found at i:74395095 original size:14 final size:14
Alignment explanation
Indices: 74395076--74395103 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
74395066 TTGCCTTTAA
74395076 AAATAAGTTAATTC
1 AAATAAGTTAATTC
74395090 AAATAAGTTAATTC
1 AAATAAGTTAATTC
74395104 TTTTTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AAATAAGTTAATTC
Found at i:74396663 original size:41 final size:40
Alignment explanation
Indices: 74396576--74396738 Score: 143
Period size: 41 Copynumber: 4.0 Consensus size: 40
74396566 TTAAACAGAT
** * * * *
74396576 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-AC
*
74396616 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-
1 T-CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
* *
74396658 TCACCGGCATTAAGCTTGCTAGACTTAAAGTCTGAATTAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* * *
74396698 TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTAC
1 -TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
74396739 ATTCAATCAC
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.06
41 88 0.85
42 3 0.03
43 3 0.03
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:74404285 original size:41 final size:42
Alignment explanation
Indices: 74404121--74404290 Score: 161
Period size: 41 Copynumber: 4.1 Consensus size: 42
74404111 ATTTAAACAG
** * * *
74404121 ATTCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATT-C
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
* * * * **
74404161 AGTACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGT
1 A-TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATTAC
*
74404204 A-TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
* *
74404245 -TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTAC
1 ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
74404286 ATTCA
1 ATTCA
74404291 ATCACTTTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
40 3 0.03
41 94 0.89
42 8 0.08
43 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
ATTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTAC
Found at i:74408886 original size:14 final size:14
Alignment explanation
Indices: 74408863--74408902 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
74408853 ACAGAAAAGT
*
74408863 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
74408877 AAATCATTTTACGG
1 AAAACATTTTACAG
74408891 AAAACATTTTAC
1 AAAACATTTTAC
74408903 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:74408888 original size:34 final size:35
Alignment explanation
Indices: 74408828--74408894 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
74408818 CAAACACCAG
* *
74408828 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
74408863 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
74408895 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:74414547 original size:21 final size:22
Alignment explanation
Indices: 74414514--74414554 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
74414504 TTTTATAGAG
*
74414514 AAAATCTTAGGTTTTTACAAGA
1 AAAATCTTAGGTTTTAACAAGA
*
74414536 AAAATC-TGGGTTTTAACAA
1 AAAATCTTAGGTTTTAACAA
74414555 ATCATCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAATCTTAGGTTTTAACAAGA
Found at i:74420377 original size:105 final size:106
Alignment explanation
Indices: 74420249--74420458 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 106
74420239 ATCGACACCA
74420249 TAAAATATTTATCAATACATTTGTTTTGCAAAGAAAACAATAATGAATTTTGGTATCAATTTTCA
1 TAAAATATTTATCAATACATTTGTTTTGCAAAGAAAACAATAATGAATTTTGGTATCAATTTTCA
74420314 AAAAGGTATCGATTCA-ATCGATACCAACTATAGATTTTCT
66 AAAAGGTATCGATTCATATCGATACCAACTATAGATTTTCT
*
74420354 TAAAATATTTATCAATACCTTTGTTTTGCAAAGAAAACAATAATGAATTTTGGTATCAATTTTCA
1 TAAAATATTTATCAATACATTTGTTTTGCAAAGAAAACAATAATGAATTTTGGTATCAATTTTCA
74420419 AAAAGGTATCGATTCATATCGATACCAACTATAGATTTTC
66 AAAAGGTATCGATTCATATCGATACCAACTATAGATTTTC
74420459 ATTATTGACC
Statistics
Matches: 103, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
105 80 0.78
106 23 0.22
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (106 bp):
TAAAATATTTATCAATACATTTGTTTTGCAAAGAAAACAATAATGAATTTTGGTATCAATTTTCA
AAAAGGTATCGATTCATATCGATACCAACTATAGATTTTCT
Found at i:74421242 original size:23 final size:24
Alignment explanation
Indices: 74421216--74421260 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
74421206 TTTTTTTTAA
*
74421216 ATTTTTATGAA-CTTTTTATATTT
1 ATTTTTATGAATATTTTTATATTT
*
74421239 ATTTTTTTGAATATTTTTATAT
1 ATTTTTATGAATATTTTTATAT
74421261 AAATTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTTATGAATATTTTTATATTT
Found at i:74424919 original size:5 final size:5
Alignment explanation
Indices: 74424909--74424938 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
74424899 GAAATTGGGT
74424909 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
74424939 TATGCAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:74428966 original size:23 final size:23
Alignment explanation
Indices: 74428922--74428966 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
74428912 TTATATTAAA
**
74428922 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATAAAAATATG
74428945 ATTAAAAATAAAA-AAAATATAT
1 ATTAAAAATAAAATAAAA-ATAT
74428967 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Found at i:74433111 original size:13 final size:13
Alignment explanation
Indices: 74433093--74433122 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
74433083 CAGAGTATAA
*
74433093 TTTTTATACTTTT
1 TTTTTATAATTTT
74433106 TTTTTATAATTTT
1 TTTTTATAATTTT
74433119 TTTT
1 TTTT
74433123 GTCATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATAATTTT
Found at i:74433154 original size:21 final size:20
Alignment explanation
Indices: 74433108--74433154 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
74433098 ATACTTTTTT
74433108 TTTA-TAATTTTTTTTGTCA
1 TTTATTAATTTTTTTTGTCA
74433127 TTT-TTAATTTTTTTT-TACAA
1 TTTATTAATTTTTTTTGT-C-A
74433147 TTTATTAA
1 TTTATTAA
74433155 AAATTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 4 0.17
21 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTAATTTTTTTTGTCA
Found at i:74434854 original size:16 final size:18
Alignment explanation
Indices: 74434827--74434859 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
74434817 AAGAATTAGG
74434827 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
74434844 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
74434860 GTGATGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:74436031 original size:4 final size:4
Alignment explanation
Indices: 74436022--74436052 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
74436012 TAATTTGATC
74436022 AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
74436053 ATTTACTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:74438180 original size:104 final size:104
Alignment explanation
Indices: 74438000--74438217 Score: 373
Period size: 104 Copynumber: 2.1 Consensus size: 104
74437990 CATGGGTTAT
*
74438000 CCACACGACCATGCTCTTCGGTCACACGGGTGTGTGTCATAGTCACATGGTTGTGCGCCTCCTTT
1 CCACACGACCATGCTCTTCGGTCACACGGGCGTGTGTCATAGTCACATGGTTGTGCGCCTCCTTT
*
74438065 CACACAGGTGTGTGTCTCTTTCATATAGGCGTGTTGACC
66 CACACAGGTGTGTGTCTCATTCATATAGGCGTGTTGACC
* * * *
74438104 CCACACGACCATGTTCTTGGGTTACACGGGCGTGTGTCATAGTCACATGGTTGTGTGCCTCCTTT
1 CCACACGACCATGCTCTTCGGTCACACGGGCGTGTGTCATAGTCACATGGTTGTGCGCCTCCTTT
*
74438169 CACACAGGTGTGTGTCTCATTCATATGGGCGTGTTGACC
66 CACACAGGTGTGTGTCTCATTCATATAGGCGTGTTGACC
74438208 CCACACGACC
1 CCACACGACC
74438218 TAAGCACTTC
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 107 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (104 bp):
CCACACGACCATGCTCTTCGGTCACACGGGCGTGTGTCATAGTCACATGGTTGTGCGCCTCCTTT
CACACAGGTGTGTGTCTCATTCATATAGGCGTGTTGACC
Found at i:74439793 original size:13 final size:13
Alignment explanation
Indices: 74439777--74439828 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
74439767 TTAATATCTA
74439777 AATAAAATAAAAT
1 AATAAAATAAAAT
*
74439790 AATAAGATAAAAT
1 AATAAAATAAAAT
74439803 AACTAAAA-ATAAA-
1 AA-TAAAATA-AAAT
74439816 AATAAAAATAAAA
1 AAT-AAAATAAAA
74439829 ATTGGGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 1 0.03
13 24 0.73
14 8 0.24
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:74439817 original size:6 final size:6
Alignment explanation
Indices: 74439776--74439830 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
74439766 ATTAATATCT
74439776 AAAT-A AAAT-A AAATAA TAAGATAAA ATAACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA -AA-AT-AA A-AA-TAA AAATAA AAATAA AAATAA
74439827 AAAT
1 AAAT
74439831 TGGGTTGCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 9 0.20
6 20 0.45
7 4 0.09
8 7 0.16
9 4 0.09
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:74446251 original size:27 final size:26
Alignment explanation
Indices: 74446221--74446283 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
74446211 AGATAATTAA
74446221 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
74446248 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
74446275 AATATAAAT
1 AATA-AAAT
74446284 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:74446270 original size:15 final size:15
Alignment explanation
Indices: 74446250--74446279 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74446240 ATAATCCTAA
*
74446250 TAATTATCTTAATAT
1 TAATTATCCTAATAT
74446265 TAATTATCCTAATAT
1 TAATTATCCTAATAT
74446280 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:74447865 original size:51 final size:53
Alignment explanation
Indices: 74447787--74447904 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 53
74447777 AAGTGTCGCC
* * * * *
74447787 TTACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTC-TGTACC-TTATTG
1 TTACTGTTACTGTCCCAGATTCATTCCGAAGAGGTACTCGTGTACCGCTACTG
* *
74447838 TTACTGTTACTGTCCCAGATTTATTCCGATGAGGTACTCTGTGTACCGCTACTG
1 TTACTGTTACTGTCCCAGATTCATTCCGAAGAGGTACTC-GTGTACCGCTACTG
74447892 TTACTGTTACTGT
1 TTACTGTTACTGT
74447905 TACCGTTACA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 34 0.60
53 6 0.11
54 17 0.30
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (53 bp):
TTACTGTTACTGTCCCAGATTCATTCCGAAGAGGTACTCGTGTACCGCTACTG
Found at i:74448060 original size:18 final size:18
Alignment explanation
Indices: 74448025--74448083 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
74448015 TAAAAGTACC
* **
74448025 GAATAACTGAATATTACT
1 GAATAACTGACTGCTACT
*
74448043 GGATAACTGACTGCTACT
1 GAATAACTGACTGCTACT
* * *
74448061 AAATAATTGACTGTTACT
1 GAATAACTGACTGCTACT
74448079 GAATA
1 GAATA
74448084 GTTTATTATT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (18 bp):
GAATAACTGACTGCTACT
Found at i:74448165 original size:18 final size:18
Alignment explanation
Indices: 74448118--74448174 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
74448108 TGTTAAAGAT
*
74448118 TGACTGAATATTATTGAA
1 TGACTGAATGTTATTGAA
*
74448136 CGACT-AATTGTTATTGAA
1 TGACTGAA-TGTTATTGAA
* *
74448154 TGATTGAATGTTACTGAA
1 TGACTGAATGTTATTGAA
74448172 TGA
1 TGA
74448175 AACTGATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (18 bp):
TGACTGAATGTTATTGAA
Found at i:74450275 original size:20 final size:20
Alignment explanation
Indices: 74450250--74450288 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74450240 GACCACACGG
*
74450250 CCAAGCCACACGGGCGTGTC
1 CCAAGCCACACAGGCGTGTC
74450270 CCAAGCCACACAGGCGTGT
1 CCAAGCCACACAGGCGTGT
74450289 GACTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.10
Consensus pattern (20 bp):
CCAAGCCACACAGGCGTGTC
Found at i:74456163 original size:20 final size:20
Alignment explanation
Indices: 74456108--74456172 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
74456098 TAATGCAAAT
* * *
74456108 AGGAGCATGAATATGCCATC
1 AGGAGCACGAATGTGCTATC
* *
74456128 AGGAGCACTGTA-GTGCTAAC
1 AGGAGCAC-GAATGTGCTATC
74456148 AGGAGCACGAATGTGCTATC
1 AGGAGCACGAATGTGCTATC
74456168 AGGAG
1 AGGAG
74456173 GAATTATTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.18
Consensus pattern (20 bp):
AGGAGCACGAATGTGCTATC
Found at i:74462600 original size:21 final size:21
Alignment explanation
Indices: 74462574--74462614 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
74462564 AAGCCCAAAG
*
74462574 GCTAAACATAAACACATAAGT
1 GCTAAACAGAAACACATAAGT
*
74462595 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
74462615 GGTTGAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.22, G:0.12, T:0.15
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:74462647 original size:42 final size:42
Alignment explanation
Indices: 74462599--74462731 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 42
74462589 ATAAGTGCTA
**
74462599 AACAGAAACCCATAAGGGTTGAATGGAAGCTCATAAGAGTTG
1 AACAGAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGTTG
*** * * * *
74462641 AACAGAAACCCATAACTATTAAACAGAAGCTTAAAAGAGCTG
1 AACAGAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGTTG
* * * * *
74462683 AACGGAAACCCATTAGGGTTGAACAGAAACTCATATGAGTTA
1 AACAGAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGTTG
74462725 AACAGAA
1 AACAGAA
74462732 GCACGTAAGA
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTGAACAGAAGCTCATAAGAGTTG
Found at i:74462654 original size:21 final size:21
Alignment explanation
Indices: 74462599--74462731 Score: 88
Period size: 21 Copynumber: 6.3 Consensus size: 21
74462589 ATAAGTGCTA
*
74462599 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGAGTTG
** * *
74462620 AATGGAAGCTCATAAGAGTTG
1 AACAGAAACCCATAAGAGTTG
* *
74462641 AACAGAAACCCATAACTA-TTA
1 AACAGAAACCCATAA-GAGTTG
* ** * *
74462662 AACAGAAGCTTAAAAGAGCTG
1 AACAGAAACCCATAAGAGTTG
* * *
74462683 AACGGAAACCCATTAGGGTTG
1 AACAGAAACCCATAAGAGTTG
* * *
74462704 AACAGAAACTCATATGAGTTA
1 AACAGAAACCCATAAGAGTTG
74462725 AACAGAA
1 AACAGAA
74462732 GCACGTAAGA
Statistics
Matches: 78, Mismatches: 32, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
20 1 0.01
21 76 0.97
22 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (21 bp):
AACAGAAACCCATAAGAGTTG
Found at i:74463978 original size:5 final size:5
Alignment explanation
Indices: 74463970--74464019 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
74463960 ATTATTAAGT
74463970 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
74464020 AAGAAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:74464105 original size:13 final size:13
Alignment explanation
Indices: 74464087--74464111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74464077 AGAAGGAATG
74464087 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
74464100 AAAGAAAGAAAG
1 AAAGAAAGAAAG
74464112 GGAAAATATG
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:74464704 original size:30 final size:30
Alignment explanation
Indices: 74464670--74464732 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
74464660 ACTTAACAAG
74464670 CAAAT-ACTTCTAAAATAATAAAAAAATTAA
1 CAAATGACTT-TAAAATAATAAAAAAATTAA
* *
74464700 CAAATGTCTTTAAAATAATAAGAAAATTAA
1 CAAATGACTTTAAAATAATAAAAAAATTAA
74464730 CAA
1 CAA
74464733 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAAAAAAATTAA
Found at i:74474584 original size:17 final size:17
Alignment explanation
Indices: 74474562--74474595 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74474552 GAATTGAGCA
*
74474562 GTGTGGGCCACATGGGT
1 GTGTGGGCAACATGGGT
74474579 GTGTGGGCAACATGGGT
1 GTGTGGGCAACATGGGT
74474596 AGTCCACACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.47, T:0.24
Consensus pattern (17 bp):
GTGTGGGCAACATGGGT
Found at i:74474686 original size:17 final size:18
Alignment explanation
Indices: 74474664--74474699 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
74474654 CAATATAGGC
74474664 CGTGTGGGC-CACACGGG
1 CGTGTGGGCACACACGGG
74474681 CGTGTGGGCACACACGGG
1 CGTGTGGGCACACACGGG
74474699 C
1 C
74474700 ATGCCACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.14, C:0.31, G:0.44, T:0.11
Consensus pattern (18 bp):
CGTGTGGGCACACACGGG
Found at i:74474706 original size:31 final size:31
Alignment explanation
Indices: 74474671--74474748 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
74474661 GGCCGTGTGG
*
74474671 GCCACACGGGCGTGTGGGCACACACGGGCAT
1 GCCACACGGGCATGTGGGCACACACGGGCAT
** *
74474702 GCCACATTGGCATGTGGGCCCACACGGGCAT
1 GCCACACGGGCATGTGGGCACACACGGGCAT
* *
74474733 GCCATATGGGCATGTG
1 GCCACACGGGCATGTG
74474749 AGTCTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.15
Consensus pattern (31 bp):
GCCACACGGGCATGTGGGCACACACGGGCAT
Found at i:74474731 original size:18 final size:17
Alignment explanation
Indices: 74474666--74474733 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
74474656 ATATAGGCCG
*
74474666 TGTGGGCCACACGGGCG
1 TGTGGGCCACACGGGCA
74474683 TGTGGGCACACACGGGCA
1 TGTGGGC-CACACGGGCA
**
74474701 --T--GCCACATTGGCA
1 TGTGGGCCACACGGGCA
74474714 TGTGGGCCCACACGGGCA
1 TGTGGG-CCACACGGGCA
74474732 TG
1 TG
74474734 CCATATGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 1 0.03
16 1 0.03
17 8 0.20
18 20 0.50
ACGTcount: A:0.18, C:0.29, G:0.38, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCA
Found at i:74477893 original size:18 final size:17
Alignment explanation
Indices: 74477861--74477894 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
74477851 AGTAACCAAA
*
74477861 CAAAAATACACATCTAC
1 CAAAAATACAAATCTAC
74477878 CAAAAATACCAAATCTA
1 CAAAAATA-CAAATCTA
74477895 AAGGAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (17 bp):
CAAAAATACAAATCTAC
Found at i:74489929 original size:27 final size:27
Alignment explanation
Indices: 74489891--74489946 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
74489881 TATTTTGGGC
74489891 TTTGCTCTTTGGTTTTTGTGTTGTTTG
1 TTTGCTCTTTGGTTTTTGTGTTGTTTG
74489918 TTTGCTCTTTGGTTTTTGTGTTGTTTG
1 TTTGCTCTTTGGTTTTTGTGTTGTTTG
74489945 TT
1 TT
74489947 GAATTTTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.00, C:0.07, G:0.25, T:0.68
Consensus pattern (27 bp):
TTTGCTCTTTGGTTTTTGTGTTGTTTG
Found at i:74491208 original size:24 final size:24
Alignment explanation
Indices: 74491180--74491225 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
74491170 TAATTGTTAT
74491180 TATTATTATGATT-TTATATTAAAC
1 TATTATTATGATTATTAT-TTAAAC
*
74491204 TATTATTATTATTATTATTTAA
1 TATTATTATGATTATTATTTAA
74491226 TAGGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTATTATGATTATTATTTAAAC
Found at i:74491663 original size:11 final size:12
Alignment explanation
Indices: 74491633--74491666 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
74491623 GTATGTTTAC
74491633 TTATTATATAAG
1 TTATTATATAAG
74491645 TATATTAT-TAAG
1 T-TATTATATAAG
74491657 TTATTATATA
1 TTATTATATA
74491667 TATATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:74491739 original size:18 final size:18
Alignment explanation
Indices: 74491716--74491752 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74491706 GGTACAAGTG
74491716 TTAAATAAATATTTATTA
1 TTAAATAAATATTTATTA
* *
74491734 TTAAATAGATTTTTATTA
1 TTAAATAAATATTTATTA
74491752 T
1 T
74491753 AGTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATAAATATTTATTA
Found at i:74493134 original size:13 final size:13
Alignment explanation
Indices: 74493112--74493151 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
74493102 TTGAGCTATT
74493112 GAAA-TGAATTGA
1 GAAATTGAATTGA
74493124 GAAATTGAATTGA
1 GAAATTGAATTGA
74493137 G-AATTGAAATTGA
1 GAAATTG-AATTGA
74493150 GA
1 GA
74493152 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (13 bp):
GAAATTGAATTGA
Found at i:74493145 original size:18 final size:19
Alignment explanation
Indices: 74493124--74493164 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
74493114 AATGAATTGA
74493124 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
74493142 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
74493161 GAAA
1 GAAA
74493165 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:74496951 original size:6 final size:6
Alignment explanation
Indices: 74496925--74496958 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
74496915 CGAAAATAGA
74496925 TTTTA- TTTTAT TTTCTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTT
74496959 CCTAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:74499667 original size:19 final size:19
Alignment explanation
Indices: 74499640--74499685 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
74499630 AGTGTAAATG
74499640 GGCCCAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
*
74499659 GGCCTAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
74499678 GGCCCAAG
1 GGCCCAAG
74499686 TGGGCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.39, G:0.24, T:0.15
Consensus pattern (19 bp):
GGCCCAAGGCCCATTACTC
Found at i:74506165 original size:27 final size:26
Alignment explanation
Indices: 74506135--74506195 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
74506125 CAAAGCTGCC
74506135 AGTATCAATATATGTGGCAAAGCCACT
1 AGTAT-AATATATGTGGCAAAGCCACT
* *
74506162 AGTAATAGTATATGTGGCGAAGCCACT
1 AGT-ATAATATATGTGGCAAAGCCACT
74506189 AGTATAA
1 AGTATAA
74506196 AACACTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.10
27 25 0.83
28 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (26 bp):
AGTATAATATATGTGGCAAAGCCACT
Found at i:74506292 original size:26 final size:28
Alignment explanation
Indices: 74506254--74506307 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
74506244 ATCATAGCAC
* *
74506254 AAATCAGTTA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
74506281 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
74506308 TTTTGGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:74506733 original size:8 final size:8
Alignment explanation
Indices: 74506722--74506748 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
74506712 AAGGCCATTC
74506722 TTTCGGCT
1 TTTCGGCT
74506730 TTTCGGCT
1 TTTCGGCT
74506738 TTTCGGCT
1 TTTCGGCT
74506746 TTT
1 TTT
74506749 GCCGTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:74509560 original size:6 final size:6
Alignment explanation
Indices: 74509527--74509573 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
74509517 CAAAAATAGA
74509527 TTTTA- TTTTAT TTTCTAT TTTCTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTT
74509574 CCCAAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.12
6 22 0.55
7 13 0.32
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:74510319 original size:18 final size:18
Alignment explanation
Indices: 74510291--74510336 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
74510281 CAACCTATGT
**
74510291 GTGTGGG-CCACATGGGC
1 GTGTGGGCCCACAAAGGC
*
74510308 GTGTGGGCCCACAAAGGT
1 GTGTGGGCCCACAAAGGC
74510326 GTGTGGGCCCA
1 GTGTGGGCCCA
74510337 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.15, C:0.24, G:0.43, T:0.17
Consensus pattern (18 bp):
GTGTGGGCCCACAAAGGC
Found at i:74512423 original size:17 final size:17
Alignment explanation
Indices: 74512401--74512435 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
74512391 TATCACAATC
*
74512401 GCAAAATTTCAAGTCAT
1 GCAAAAATTCAAGTCAT
*
74512418 GCAAAAATTCAATTCAT
1 GCAAAAATTCAAGTCAT
74512435 G
1 G
74512436 AAACATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (17 bp):
GCAAAAATTCAAGTCAT
Found at i:74513359 original size:22 final size:22
Alignment explanation
Indices: 74513334--74513384 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
74513324 AAAAATACCA
*
74513334 GAGCACATAAGTGCTAAA-TCTG
1 GAGCACA-AAGTGCTAAATTCAG
*
74513356 GAGCACCAAAGTGTTAAATTCAG
1 GAGCA-CAAAGTGCTAAATTCAG
74513379 GAGCAC
1 GAGCAC
74513385 CGGAGTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
GAGCACAAAGTGCTAAATTCAG
Found at i:74513385 original size:23 final size:23
Alignment explanation
Indices: 74513334--74513399 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
74513324 AAAAATACCA
* *
74513334 GAGCA-CATAAGTGCTAAA-TCTG
1 GAGCACCA-AAGTGTTAAATTCAG
74513356 GAGCACCAAAGTGTTAAATTCAG
1 GAGCACCAAAGTGTTAAATTCAG
**
74513379 GAGCACCGGAGTGTTAAATTC
1 GAGCACCAAAGTGTTAAATTC
74513400 TCAAGTGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 14 0.37
23 24 0.63
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (23 bp):
GAGCACCAAAGTGTTAAATTCAG
Found at i:74517353 original size:23 final size:23
Alignment explanation
Indices: 74517325--74517370 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74517315 GCAAGTACTC
74517325 CTCTCAACTTCCTCGGAAATCTA
1 CTCTCAACTTCCTCGGAAATCTA
74517348 CTCTCAACTTCCTCGGAAATCTA
1 CTCTCAACTTCCTCGGAAATCTA
74517371 TAACACAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.09, T:0.30
Consensus pattern (23 bp):
CTCTCAACTTCCTCGGAAATCTA
Found at i:74521291 original size:20 final size:19
Alignment explanation
Indices: 74521246--74521293 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
74521236 AATTTATCTA
*
74521246 TATTAACAGTTTTATGCAT
1 TATTAACAGTTTTATACAT
**
74521265 TAGTTAACAGTTTTGATATTT
1 TA-TTAACAGTTTT-ATACAT
74521286 TATTAACA
1 TATTAACA
74521294 AATATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
TATTAACAGTTTTATACAT
Found at i:74526621 original size:25 final size:25
Alignment explanation
Indices: 74526593--74526715 Score: 133
Period size: 25 Copynumber: 5.0 Consensus size: 25
74526583 CACAGTTCAT
*
74526593 ATGAGCTTCCCGTTATACAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
** *
74526618 ATGAGCTTCTTGATATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
* * *
74526643 ATGAGCTTTCAGATATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
* *
74526668 ATGAGCTTCCCATTATTCAGCTCGG
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
74526693 A-GAAGCTTCCCGTT-TACAGCTCG
1 ATG-AGCTTCCCGTTATTCAGCTCG
74526716 TTTGAATATG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
24 9 0.11
25 74 0.89
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:74526813 original size:25 final size:25
Alignment explanation
Indices: 74526785--74526908 Score: 137
Period size: 25 Copynumber: 5.0 Consensus size: 25
74526775 CACAGCTCAT
* *
74526785 ATGAGCTTTCCGTTATACAGCTCGC
1 ATGAGCTTTCCGATATTCAGCTCGC
* *
74526810 ATGAGC-TTCTTGATATTCAGCTTGC
1 ATGAGCTTTC-CGATATTCAGCTCGC
*
74526835 ATGAGCTTTCAGATATTCAGCTCGC
1 ATGAGCTTTCCGATATTCAGCTCGC
*
74526860 ATGAGC-TTCCAGATATTCAGCTCGT
1 ATGAGCTTTCC-GATATTCAGCTCGC
*
74526885 ATGAGC-TTCCCATTATTCAGCTCG
1 ATGAGCTTTCCGA-TATTCAGCTCG
74526909 GAGAAGCTTC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
24 7 0.08
25 76 0.88
26 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
ATGAGCTTTCCGATATTCAGCTCGC
Done.