Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014239.1 Kokia drynarioides strain JFW-HI SEQ_129272, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 163769
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 217 characters in sequence are not A, C, G, or T
Found at i:5780 original size:28 final size:28
Alignment explanation
Indices: 5740--5796 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
5730 AAAGAAATTT
5740 TTATTAAAGTCATTCTTCAATCTATTCC
1 TTATTAAAGTCATTCTTCAATCTATTCC
5768 TTATTAAAGTCATTCTTCAATCTATTCC
1 TTATTAAAGTCATTCTTCAATCTATTCC
5796 T
1 T
5797 ACTCATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (28 bp):
TTATTAAAGTCATTCTTCAATCTATTCC
Found at i:12041 original size:2 final size:2
Alignment explanation
Indices: 12036--12066 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12026 TTTTTTTATG
12036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12067 AAAAGAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14580 original size:22 final size:22
Alignment explanation
Indices: 14536--14580 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
14526 TTTTATTTGC
14536 TTTTGTGGCACGCTTTTTCTCTA
1 TTTTGTGGCACGC-TTTTCTCTA
*
14559 TTTTGTGGTACG-TTTTCGTCTA
1 TTTTGTGGCACGCTTTTC-TCTA
14581 CCTTTTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.09, C:0.18, G:0.20, T:0.53
Consensus pattern (22 bp):
TTTTGTGGCACGCTTTTCTCTA
Found at i:24235 original size:2 final size:2
Alignment explanation
Indices: 24228--24261 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24218 TCAAGTTCAA
24228 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
24262 AATGTTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:24641 original size:43 final size:43
Alignment explanation
Indices: 24586--24692 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
24576 GTACGAGTCT
* * * *
24586 ATGCACTT-TGTGTGCCAGTATATTTGCTTTGGCTTGTCCAATG
1 ATGCA-TTATGTGTACCAGTATATTTGCTTCGACTTATCCAATG
* * * *
24629 ATGCATTATGTGTATCAATATATTTGCTTCGATTTATCCGATG
1 ATGCATTATGTGTACCAGTATATTTGCTTCGACTTATCCAATG
*
24672 ATGCACTATGTGTACCAGTAT
1 ATGCATTATGTGTACCAGTAT
24693 GCAATTCGTG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (43 bp):
ATGCATTATGTGTACCAGTATATTTGCTTCGACTTATCCAATG
Found at i:26080 original size:10 final size:10
Alignment explanation
Indices: 26065--26131 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 10
26055 TTGTTTGACC
26065 AATTATTAAT
1 AATTATTAAT
26075 AATTATT-AT
1 AATTATTAAT
* *
26084 -ATGTATTTAG
1 AAT-TATTAAT
26094 AA-TATTAAT
1 AATTATTAAT
26103 AATTATTAAT
1 AATTATTAAT
* *
26113 AATTTTTTAT
1 AATTATTAAT
*
26123 AATTTTTAA
1 AATTATTAA
26132 GGTTCATTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 2 0.04
9 13 0.28
10 31 0.66
11 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
AATTATTAAT
Found at i:26776 original size:23 final size:23
Alignment explanation
Indices: 26734--26804 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
26724 AGTTTAACTA
* *
26734 AAACAAATAAACAGAGTTTAATTT
1 AAACAAATAAACA-AATTTAATTG
26758 AAACAAA-AAACATAATTTAATTG
1 AAACAAATAAACA-AATTTAATTG
26781 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAAA-TTTAATTG
26805 GAAGATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (23 bp):
AAACAAATAAACAAATTTAATTG
Found at i:26804 original size:24 final size:24
Alignment explanation
Indices: 26724--26804 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
26714 GACTAGTAAG
* * *
26724 AGTTTAACTAAAACAAATAAACAG
1 AGTTTAATTGAAACAAATAAACAA
*
26748 AGTTTAATTTAAACAAA-AAACATA
1 AGTTTAATTGAAACAAATAAACA-A
26772 A-TTTAATTGAAACAAATAAACAA
1 AGTTTAATTGAAACAAATAAACAA
26795 AGTTTAATTG
1 AGTTTAATTG
26805 GAAGATTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 21 0.42
24 29 0.58
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (24 bp):
AGTTTAATTGAAACAAATAAACAA
Found at i:34273 original size:24 final size:24
Alignment explanation
Indices: 34187--34269 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
34177 TAGACTAATA
*
34187 AGAGTTTAACTAAAACAAATAAATC
1 AGAGTTTAATTAAAACAAATAAA-C
34212 A-AGTTTAATTAAAACAAATAAAC
1 AGAGTTTAATTAAAACAAATAAAC
* * *
34235 ATAATTTAATTGAAACAAATAAAC
1 AGAGTTTAATTAAAACAAATAAAC
34259 AGAGTTTAATT
1 AGAGTTTAATT
34270 GAAAGATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 2 0.04
24 49 0.94
25 1 0.02
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.29
Consensus pattern (24 bp):
AGAGTTTAATTAAAACAAATAAAC
Found at i:41981 original size:17 final size:17
Alignment explanation
Indices: 41960--41997 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
41950 ATTAAGGTGC
41960 ATTTTTCAAAAAAA-TT
1 ATTTTTCAAAAAAACTT
41976 ATTTTTCAAAAAAACTT
1 ATTTTTCAAAAAAACTT
41993 ATTTT
1 ATTTT
41998 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTTTCAAAAAAACTT
Found at i:42675 original size:7 final size:7
Alignment explanation
Indices: 42663--42822 Score: 83
Period size: 7 Copynumber: 23.1 Consensus size: 7
42653 CTAAATTCAA
42663 AGGGTTT
1 AGGGTTT
42670 AGGGTTT
1 AGGGTTT
*
42677 AGAGTTT
1 AGGGTTT
42684 -GTGGTTT
1 AG-GGTTT
*
42691 ATGGTTT
1 AGGGTTT
*
42698 AGAGTTT
1 AGGGTTT
* *
42705 ATGATTT
1 AGGGTTT
* *
42712 ATGATTT
1 AGGGTTT
*
42719 AAGGTTT
1 AGGGTTT
* *
42726 ATGATTT
1 AGGGTTT
**
42733 A-AATTT
1 AGGGTTT
42739 AGGGTTT
1 AGGGTTT
* *
42746 ATGATTT
1 AGGGTTT
42753 AGGGTTT
1 AGGGTTT
*
42760 AGAG-TT
1 AGGGTTT
*
42766 AGGGGTT
1 AGGGTTT
*
42773 AGGGTCT
1 AGGGTTT
* *
42780 AAGATTT
1 AGGGTTT
*
42787 AAGGTTT
1 AGGGTTT
*
42794 AAGGTTT
1 AGGGTTT
*
42801 AAGGTTT
1 AGGGTTT
42808 AGGGTTT
1 AGGGTTT
*
42815 AAGGTTT
1 AGGGTTT
42822 A
1 A
42823 AAAGTATTAT
Statistics
Matches: 120, Mismatches: 29, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
6 11 0.09
7 109 0.91
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:42691 original size:21 final size:21
Alignment explanation
Indices: 42667--42765 Score: 103
Period size: 21 Copynumber: 4.8 Consensus size: 21
42657 ATTCAAAGGG
* *
42667 TTTAGGGTTTAGAGTTTGTGG
1 TTTAGGGTTTAGAGTTTATGA
*
42688 TTTATGGTTTAGAGTTTATGA
1 TTTAGGGTTTAGAGTTTATGA
* *
42709 TTTATGATTTA-AGGTTTATGA
1 TTTAGGGTTTAGA-GTTTATGA
** *
42730 TTTA-AATTTAGGGTTTATGA
1 TTTAGGGTTTAGAGTTTATGA
42750 TTTAGGGTTTAGAGTT
1 TTTAGGGTTTAGAGTT
42766 AGGGGTTAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
20 18 0.27
21 48 0.73
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAGAGTTTATGA
Found at i:42744 original size:20 final size:21
Alignment explanation
Indices: 42695--42753 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
42685 TGGTTTATGG
* *
42695 TTTAGAGTTTATGATTTATGA
1 TTTAGGGTTTATGATTTATAA
*
42716 TTTAAGGTTTATGATTTA-AA
1 TTTAGGGTTTATGATTTATAA
42736 TTTAGGGTTTATGATTTA
1 TTTAGGGTTTATGATTTA
42754 GGGTTTAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTATAA
Found at i:45017 original size:29 final size:30
Alignment explanation
Indices: 44984--45321 Score: 143
Period size: 30 Copynumber: 11.4 Consensus size: 30
44974 TTTCGGAGAA
44984 TTTAGGGTTAAAATGTAATTTTGTAAAAA-
1 TTTAGGGTTAAAATGTAATTTTGTAAAAAG
* * *
45013 ATTAGGTGCTAAAATGTAATTCT-TAAAAAG
1 TTTAGG-GTTAAAATGTAATTTTGTAAAAAG
* * *
45043 TTTAGGGCTAAAATATGA-TTT-TAAGAAAG
1 TTTAGGGTTAAAATGTAATTTTGTAA-AAAG
*
45072 TTTAGGGGTTAAAATGTGA-TTT-TAGAAAAG
1 TTTA-GGGTTAAAATGTAATTTTGTA-AAAAG
*
45102 TTTAAGGGTTAAAAATGTAATTTTG-GAAAAG
1 TTT-AGGGTT-AAAATGTAATTTTGTAAAAAG
* **
45133 TTTAGTTGG-TAAAATGTGATTTT-T-GGAAG
1 TTTAG--GGTTAAAATGTAATTTTGTAAAAAG
* * * * **
45162 TTTGAGTGTCAAAATATGATTTT-T-GGAAG
1 TTT-AGGGTTAAAATGTAATTTTGTAAAAAG
* * *
45191 TTTGAGGGTCAAAATGTGATTTTG-GAAAAG
1 TTT-AGGGTTAAAATGTAATTTTGTAAAAAG
* * **
45221 TTTAGGGATTAAAATGTGATTATG--GGAAG
1 TTTAGGG-TTAAAATGTAATTTTGTAAAAAG
* * **
45250 TTTAAGGGTCAAAATGTGATTTTG-GGAAAG
1 TTT-AGGGTTAAAATGTAATTTTGTAAAAAG
* * * *
45280 TTTAGGGGTTAAATTATGATTTTGT-GAAAG
1 TTTA-GGGTTAAAATGTAATTTTGTAAAAAG
*
45310 ATTAGGGTTAAA
1 TTTAGGGTTAAA
45322 TATGATTTTT
Statistics
Matches: 256, Mismatches: 32, Indels: 42
0.78 0.10 0.13
Matches are distributed among these distances:
28 6 0.02
29 107 0.42
30 119 0.46
31 19 0.07
32 5 0.02
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TTTAGGGTTAAAATGTAATTTTGTAAAAAG
Found at i:45055 original size:59 final size:59
Alignment explanation
Indices: 44984--45237 Score: 171
Period size: 59 Copynumber: 4.3 Consensus size: 59
44974 TTTCGGAGAA
*
44984 TTTAGGGTTAAAATGTAATTTTGTAAAAAATTAGGTGCTAAAATGTAATTCTTA-AAAAG
1 TTTAGGGTTAAAATGTAATTTTGTAAAAATTTAGGTGCTAAAATGTAATT-TTAGAAAAG
* * * * * *
45043 TTTAGGGCTAAAATATGA-TTT-TAAGAAAGTTTAGGGGTTAAAATGTGATTTTAGAAAAG
1 TTTAGGGTTAAAATGTAATTTTGTAA-AAA-TTTAGGTGCTAAAATGTAATTTTAGAAAAG
* * * * * * *
45102 TTTAAGGGTTAAAAATGTAATTTTGGAAAAGTTTAGTTGGTAAAATGTGATTTTTG-GAAG
1 TTT-AGGGTT-AAAATGTAATTTTGTAAAAATTTAGGTGCTAAAATGTAATTTTAGAAAAG
* * * * ** * * *
45162 TTTGAGTGTCAAAATATGATTTT-TGGAAGTTTGAGG-G-TCAAAATGTGATTTTGGAAAAG
1 TTT-AGGGTTAAAATGTAATTTTGTAAAAATTT-AGGTGCT-AAAATGTAATTTTAGAAAAG
45221 TTTAGGGATTAAAATGT
1 TTTAGGG-TTAAAATGT
45238 GATTATGGGA
Statistics
Matches: 153, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
57 4 0.03
58 33 0.22
59 66 0.43
60 15 0.10
61 28 0.18
62 5 0.03
63 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (59 bp):
TTTAGGGTTAAAATGTAATTTTGTAAAAATTTAGGTGCTAAAATGTAATTTTAGAAAAG
Found at i:45149 original size:30 final size:28
Alignment explanation
Indices: 44984--45286 Score: 179
Period size: 29 Copynumber: 10.2 Consensus size: 28
44974 TTTCGGAGAA
* *
44984 TTTAGGGTTAAAATGTAATTTTGTAAAAA
1 TTTAGGG-TAAAATGTAATTTTGGAAAAG
* *
45013 ATTAGGTGCTAAAATGTAATTCTT-AAAAAG
1 TTTAGG-G-TAAAATGTAATT-TTGGAAAAG
* * *
45043 TTTAGGGCTAAAATATGATTTT-AAGAAAG
1 TTTAGGG-TAAAATGTAATTTTGGA-AAAG
* *
45072 TTTAGGGGTTAAAATGTGATTTTAGAAAAG
1 TTTA-GGG-TAAAATGTAATTTTGGAAAAG
45102 TTTAAGGGTTAAAAATGTAATTTTGGAAAAG
1 TTT-AGGG-T-AAAATGTAATTTTGGAAAAG
*
45133 TTTAGTTGGTAAAATGTGATTTTTGG--AAG
1 TTTAG--GGTAAAATGT-AATTTTGGAAAAG
* * *
45162 TTTGAGTGTCAAAATATGATTTTTGG--AAG
1 TTT-AGGGT-AAAATGT-AATTTTGGAAAAG
*
45191 TTTGAGGGTCAAAATGTGATTTTGGAAAAG
1 TTT-AGGGT-AAAATGTAATTTTGGAAAAG
* * *
45221 TTTAGGGATTAAAATGTGATTATGG-GAAG
1 TTTAGGG--TAAAATGTAATTTTGGAAAAG
* *
45250 TTTAAGGGTCAAAATGTGATTTTGGGAAAG
1 TTT-AGGGT-AAAATGTAATTTTGGAAAAG
45280 TTTAGGG
1 TTTAGGG
45287 GTTAAATTAT
Statistics
Matches: 232, Mismatches: 23, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
28 13 0.06
29 92 0.40
30 91 0.39
31 34 0.15
32 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (28 bp):
TTTAGGGTAAAATGTAATTTTGGAAAAG
Found at i:45241 original size:59 final size:57
Alignment explanation
Indices: 45038--45330 Score: 263
Period size: 59 Copynumber: 5.0 Consensus size: 57
45028 GTAATTCTTA
* * * * *
45038 AAAAGTTTAGGGCTAAAATATGATTTTAAGAAAGTTTAGGGGTTAAAATGTGATTTTAG
1 AAAAGTTTAGGGTTAAAATATGATTTT-TGGAAGTTTA-GGGTCAAAATGTGATTTTGG
*
45097 AAAAGTTTAAGGGTTAAAA-ATGTAATTTTGGAAAAGTTTAGTTGGT-AAAATGTGATTTTTGG
1 AAAAGTTT-AGGGTTAAAATATG-ATTTTTGG--AAGTTTAG--GGTCAAAATGTGA-TTTTGG
* *
45159 --AAGTTTGAGTGTCAAAATATGATTTTTGGAAGTTTGAGGGTCAAAATGTGATTTTGG
1 AAAAGTTT-AGGGTTAAAATATGATTTTTGGAAGTTT-AGGGTCAAAATGTGATTTTGG
* * *
45216 AAAAGTTTAGGGATTAAAATGTGATTATGGGAAGTTTAAGGGTCAAAATGTGATTTTGG
1 AAAAGTTTAGGG-TTAAAATATGATTTTTGGAAGTTT-AGGGTCAAAATGTGATTTTGG
* * * * * *
45275 GAAAGTTTAGGGGTTAAATTATGATTTTGTGAAAGATTAGGGT-TAAATATGATTTT
1 AAAAGTTTA-GGGTTAAAATATGATTTT-TGGAAGTTTAGGGTCAAAATGTGATTTT
45331 TAGGTAAAAT
Statistics
Matches: 195, Mismatches: 24, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
57 9 0.05
58 29 0.15
59 86 0.44
60 44 0.23
61 19 0.10
62 8 0.04
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (57 bp):
AAAAGTTTAGGGTTAAAATATGATTTTTGGAAGTTTAGGGTCAAAATGTGATTTTGG
Found at i:45300 original size:30 final size:30
Alignment explanation
Indices: 45039--45330 Score: 235
Period size: 30 Copynumber: 9.9 Consensus size: 30
45029 TAATTCTTAA
* **
45039 AAAGTTTA-GGGCTAAAATATGATTTTAAG
1 AAAGTTTAGGGGTTAAAATATGATTTTGGG
* * *
45068 AAAGTTTAGGGGTTAAAATGTGATTTTAGA
1 AAAGTTTAGGGGTTAAAATATGATTTTGGG
* *
45098 AAAGTTTAAGGGTTAAAA-ATGTAATTTTGGA
1 AAAGTTTAGGGGTTAAAATATG--ATTTTGGG
* * *
45129 AAAGTTTAGTTGG-TAAAATGTGATTTTTGG
1 AAAGTTTAG-GGGTTAAAATATGATTTTGGG
* * *
45159 -AAGTTT-GAGTGTCAAAATATGATTTTTGG
1 AAAGTTTAG-GGGTTAAAATATGATTTTGGG
* * *
45188 -AAGTTT-GAGGGTCAAAATGTGATTTTGGA
1 AAAGTTTAG-GGGTTAAAATATGATTTTGGG
* * *
45217 AAAGTTTAGGGATTAAAATGTGATTATGGG
1 AAAGTTTAGGGGTTAAAATATGATTTTGGG
* * *
45247 -AAGTTTAAGGGTCAAAATGTGATTTTGGG
1 AAAGTTTAGGGGTTAAAATATGATTTTGGG
* *
45276 AAAGTTTAGGGGTTAAATTATGATTTTGTG
1 AAAGTTTAGGGGTTAAAATATGATTTTGGG
*
45306 AAAGATTA-GGGTT-AAATATGATTTT
1 AAAGTTTAGGGGTTAAAATATGATTTT
45331 TAGGTAAAAT
Statistics
Matches: 218, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
28 13 0.06
29 86 0.39
30 94 0.43
31 21 0.10
32 4 0.02
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
AAAGTTTAGGGGTTAAAATATGATTTTGGG
Found at i:45331 original size:29 final size:29
Alignment explanation
Indices: 45039--45330 Score: 119
Period size: 29 Copynumber: 9.9 Consensus size: 29
45029 TAATTCTTAA
* * * **
45039 AAAGTTTAGGGCTAAAATATGATTTTAAG
1 AAAGATTAGGGGTTAAATATGATTTTGGG
* * * *
45068 AAAGTTTAGGGGTTAAAATGTGATTTTAGA
1 AAAGATTAGGGGTT-AAATATGATTTTGGG
* * * *
45098 AAAGTTTAAGGGTTAAAAATGTAATTTTGGA
1 AAAGATTAGGGGTTAAATATG--ATTTTGGG
* * * * *
45129 AAAGTTTAGTTGGTAAAATGTGATTTTTGG
1 AAAGATTAG-GGGTTAAATATGATTTTGGG
* * * *
45159 -AAG-TTTGAGTGTCAAAATATGATTTTTGG
1 AAAGATTAG-GGGT-TAAATATGATTTTGGG
* * * *
45188 -AAG-TTTGAGGGTCAAAATGTGATTTTGGA
1 AAAGATTAG-GGGT-TAAATATGATTTTGGG
* * * *
45217 AAAGTTTAGGGATTAAAATGTGATTATGGG
1 AAAGATTAGGGGTT-AAATATGATTTTGGG
* * * *
45247 -AAGTTTAAGGGTCAAAATGTGATTTTGGG
1 AAAGATTAGGGGT-TAAATATGATTTTGGG
* *
45276 AAAGTTTAGGGGTTAAATTATGATTTTGTG
1 AAAGATTAGGGGTTAAA-TATGATTTTGGG
45306 AAAGATTA-GGGTTAAATATGATTTT
1 AAAGATTAGGGGTTAAATATGATTTT
45331 TAGGTAAAAT
Statistics
Matches: 213, Mismatches: 39, Indels: 23
0.77 0.14 0.08
Matches are distributed among these distances:
28 14 0.07
29 95 0.45
30 78 0.37
31 18 0.08
32 8 0.04
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (29 bp):
AAAGATTAGGGGTTAAATATGATTTTGGG
Found at i:46151 original size:15 final size:15
Alignment explanation
Indices: 46113--46151 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
46103 TAAAATCAAT
*
46113 TTTTTTGTTTTTATA
1 TTTTTTGTTTTAATA
* *
46128 TATTCTGTTTTAATA
1 TTTTTTGTTTTAATA
46143 TTTTTTGTT
1 TTTTTTGTT
46152 ATTTCTTTCC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTTTGTTTTAATA
Found at i:47542 original size:18 final size:18
Alignment explanation
Indices: 47519--47583 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
47509 CGGAAGAAAT
47519 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCGTTTG
*
47537 AGCATACTGGCTCATTTG
1 AGCATACTGGCTCGTTTG
* *
47555 AGCAT-CTTGGCTTGTTTA
1 AGCATAC-TGGCTCGTTTG
47573 AGCATACTGGC
1 AGCATACTGGC
47584 ACATAAGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (18 bp):
AGCATACTGGCTCGTTTG
Found at i:49741 original size:24 final size:24
Alignment explanation
Indices: 49683--49755 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
49673 CTTATATTTT
*
49683 AGATTAACAAATAATTCAAAAATTATA
1 AGATTAA-AAATAAATC-AAAA-TATA
*
49710 A-AAT-AAAATAAATCAAAATATA
1 AGATTAAAAATAAATCAAAATATA
*
49732 AGATTAAAAATAAAATAAAAATAT
1 AGATTAAAAAT-AAATCAAAATAT
49756 CATAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 5 0.13
23 6 0.15
24 13 0.33
25 12 0.31
26 2 0.05
27 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (24 bp):
AGATTAAAAATAAATCAAAATATA
Found at i:49760 original size:28 final size:28
Alignment explanation
Indices: 49701--49769 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
49691 AAATAATTCA
49701 AAAATTATAAAATAAAATAAATCAAAATAT
1 AAAATTA-AAAATAAAATAAA-CAAAATAT
* *
49731 AAGATTAAAAATAAAATAAA-AATATCAT
1 AAAATTAAAAATAAAATAAACAAAAT-AT
49759 AAAATTAAAAA
1 AAAATTAAAAA
49770 AATAGGATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.11
28 12 0.34
29 13 0.37
30 6 0.17
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (28 bp):
AAAATTAAAAATAAAATAAACAAAATAT
Found at i:58909 original size:24 final size:24
Alignment explanation
Indices: 58881--58937 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
58871 TAGACTAATA
*
58881 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAT
* * *
58905 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTCAAACAAATAAAT
*
58929 AAAGTTTAA
1 AGAGTTTAA
58938 TTGAAAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAT
Found at i:58938 original size:24 final size:24
Alignment explanation
Indices: 58893--58943 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
58883 AGTTTGACTC
*
58893 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAATAAAGTTTAATTG
*
58917 AAACAATTAAATAAAGTTTAATTG
1 AAACAAATAAATAAAGTTTAATTG
58941 AAA
1 AAA
58944 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (24 bp):
AAACAAATAAATAAAGTTTAATTG
Found at i:59497 original size:22 final size:22
Alignment explanation
Indices: 59469--59522 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
59459 AAAAAAGCAT
59469 GAATTTCTACAGATAGAAGTCC
1 GAATTTCTACAGATAGAAGTCC
59491 GAATTTCTACAGATAGAAGTCC
1 GAATTTCTACAGATAGAAGTCC
* *
59513 AAACTTCTAC
1 GAATTTCTAC
59523 CAAGACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (22 bp):
GAATTTCTACAGATAGAAGTCC
Found at i:59604 original size:6 final size:6
Alignment explanation
Indices: 59593--59620 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59583 TTAGTTTTTT
59593 AACTCA AACTCA AACTCA AACTCA AACT
1 AACTCA AACTCA AACTCA AACTCA AACT
59621 TAGCCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (6 bp):
AACTCA
Found at i:62698 original size:25 final size:25
Alignment explanation
Indices: 62648--62699 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
62638 GGCTTGGCTA
* * *
62648 TTTTTTAATTTTATAATGTATTATT
1 TTTTTTAATTATATAATATATAATT
*
62673 TTTTTTAATTATATATTATATAATT
1 TTTTTTAATTATATAATATATAATT
62698 TT
1 TT
62700 ATAATGTATT
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:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTAATTATATAATATATAATT
Found at i:62709 original size:20 final size:19
Alignment explanation
Indices: 62652--62709 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
62642 TGGCTATTTT
62652 TTAATTTTATAATGTATTA
1 TTAATTTTATAATGTATTA
** * *
62671 TTTTTTTTAATTATATATTA
1 TTAATTTT-ATAATGTATTA
62691 TATAATTTTATAATGTATT
1 T-TAATTTTATAATGTATT
62710 TTTCTTTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 6 0.21
20 18 0.62
21 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTAATTTTATAATGTATTA
Found at i:66333 original size:56 final size:56
Alignment explanation
Indices: 66269--66375 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
66259 ATTTGGCTTC
*
66269 TGAGCATGAAAGGTATGCAAGTCTTTTTAATTATTTCTTCTACCTGCTTTAAATGT
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTAAATGT
*
66325 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTGTTTCTTCTACCTGCTTTA
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTA
66376 GATGCGGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (56 bp):
TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTAAATGT
Found at i:72428 original size:17 final size:16
Alignment explanation
Indices: 72408--72446 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
72398 TATTTTGAGT
72408 TTAAATTTATTTTAAAA
1 TTAAATTTATTTT-AAA
72425 TTAAAATTTATTTTAAA
1 TT-AAATTTATTTTAAA
72442 TTAAA
1 TTAAA
72447 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 7 0.33
18 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATTTATTTTAAA
Found at i:72447 original size:17 final size:17
Alignment explanation
Indices: 72396--72449 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
72386 TTATTTAAGT
* * *
72396 TTTATTTTGAGTTTAAA
1 TTTATTTTAAATTAAAA
72413 TTTATTTTAAAATTAAAA
1 TTTATTTT-AAATTAAAA
72431 TTTATTTTAAATTAAAA
1 TTTATTTTAAATTAAAA
72448 TT
1 TT
72450 AAAATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 19 0.58
18 14 0.42
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTATTTTAAATTAAAA
Found at i:73437 original size:30 final size:30
Alignment explanation
Indices: 73380--73437 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
73370 CTCCAGAGAG
*
73380 AAAAGAAAAAAAAAAGAAATCTGTTTTTTA
1 AAAAGAAAAAAAAAAGAAATATGTTTTTTA
73410 AAAAGAAAAGAAAAAATGAAA-AT-TTTTT
1 AAAAGAAAA-AAAAAA-GAAATATGTTTTT
73438 GATGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 14 0.56
31 7 0.28
32 4 0.16
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (30 bp):
AAAAGAAAAAAAAAAGAAATATGTTTTTTA
Found at i:73863 original size:29 final size:30
Alignment explanation
Indices: 73831--74050 Score: 158
Period size: 29 Copynumber: 7.5 Consensus size: 30
73821 TAAACTTTTC
*
73831 AAAAATACCATTTT-ACCCTTGAATTTCCA
1 AAAAATACCATTTTGACCCTCGAATTTCCA
*
73860 AAAACT-CCATTTTTGA-CCTCGAATTTCC-
1 AAAAATACCA-TTTTGACCCTCGAATTTCCA
* *
73888 AAAAATTCCATTTTCAACCC-CGAACTTTCC-
1 AAAAATACCATTTT-GACCCTCGAA-TTTCCA
* *
73918 AAAAATTCCATTTTTGA-CATCGAACTTTCCA
1 AAAAATACCA-TTTTGACCCTCGAA-TTTCCA
* *
73949 AAAATTACCATTTT-ACCCTCAAATTTCC-
1 AAAAATACCATTTTGACCCTCGAATTTCCA
* *
73977 TAAAATTCCATTTTTGA-CCTCGAACTTTCCA
1 AAAAATACCA-TTTTGACCCTCGAA-TTTCCA
* *
74008 AAAATTACCATTTT-ACCCCTC-AATATCCA
1 AAAAATACCATTTTGA-CCCTCGAATTTCCA
* *
74037 AAAATTACTATTTT
1 AAAAATACCATTTT
74051 CTTTTCATGT
Statistics
Matches: 156, Mismatches: 19, Indels: 32
0.75 0.09 0.15
Matches are distributed among these distances:
28 19 0.12
29 64 0.41
30 50 0.32
31 23 0.15
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAAATACCATTTTGACCCTCGAATTTCCA
Found at i:73919 original size:30 final size:30
Alignment explanation
Indices: 73760--74021 Score: 208
Period size: 29 Copynumber: 8.9 Consensus size: 30
73750 CCCAGAAGGT
*
73760 CCCCAAAC-TTCCAAAAA-T-CATGTTTTGA
1 CCCCGAACTTTCCAAAAATTCCAT-TTTTGA
* * *
73788 CCCCCATACTTTCC-AAAATT--ATAATTTAA
1 CCCCGA-ACTTTCCAAAAATTCCAT-TTTTGA
* * *
73817 CCCCTAAACTTTTCAAAAATACCA-TTTT-A
1 CCCC-GAACTTTCCAAAAATTCCATTTTTGA
* *
73846 CCCTTGAA-TTTCCAAAAACTCCATTTTTGA
1 CCC-CGAACTTTCCAAAAATTCCATTTTTGA
* **
73876 CCTCGAA-TTTCCAAAAATTCCATTTTCAA
1 CCCCGAACTTTCCAAAAATTCCATTTTTGA
73905 CCCCGAACTTTCCAAAAATTCCATTTTTGA
1 CCCCGAACTTTCCAAAAATTCCATTTTTGA
**
73935 CATCGAACTTTCCAAAAATTACCA-TTTT-A
1 CCCCGAACTTTCCAAAAATT-CCATTTTTGA
* *
73964 CCCTC-AAATTTCCTAAAATTCCATTTTTGA
1 CCC-CGAACTTTCCAAAAATTCCATTTTTGA
*
73994 CCTCGAACTTTCCAAAAATTACCATTTT
1 CCCCGAACTTTCCAAAAATT-CCATTTT
74022 ACCCCTCAAT
Statistics
Matches: 187, Mismatches: 30, Indels: 31
0.75 0.12 0.12
Matches are distributed among these distances:
28 20 0.11
29 80 0.43
30 76 0.41
31 10 0.05
32 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
CCCCGAACTTTCCAAAAATTCCATTTTTGA
Found at i:73928 original size:59 final size:59
Alignment explanation
Indices: 73823--74042 Score: 306
Period size: 59 Copynumber: 3.7 Consensus size: 59
73813 TTAACCCCTA
* * *
73823 AACTTTTCAAAAA-TACCATTTTACCCTTGAATTTCCAAAAACTCCATTTTTGACCTCG
1 AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTTGACCTCG
*
73881 AA-TTTCCAAAAATT-CCATTTTCAACCC-CGAACTTTCCAAAAATTCCATTTTTGACATCG
1 AACTTTCCAAAAATTACCATTTT--ACCCTCGAA-TTTCCAAAAATTCCATTTTTGACCTCG
* *
73940 AACTTTCCAAAAATTACCATTTTACCCTCAAATTTCCTAAAATTCCATTTTTGACCTCG
1 AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTTGACCTCG
*
73999 AACTTTCCAAAAATTACCATTTTACCCCTC-AATATCCAAAAATT
1 AACTTTCCAAAAATTACCATTTTA-CCCTCGAATTTCCAAAAATT
74043 ACTATTTTCT
Statistics
Matches: 145, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
57 16 0.11
58 6 0.04
59 96 0.66
60 20 0.14
61 7 0.05
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (59 bp):
AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTTGACCTCG
Found at i:73982 original size:89 final size:90
Alignment explanation
Indices: 73854--74021 Score: 243
Period size: 89 Copynumber: 1.9 Consensus size: 90
73844 TACCCTTGAA
*
73854 TTTCCAAAAACTCCATTTTTGACCTCGAATTTCCAAAAATTCCATTTTCAACCCCGAACTTTCCA
1 TTTCCAAAAACTCCATTTTTGACCTCAAATTTCCAAAAATTCCATTTTCAACCCCGAACTTTCCA
73919 AAAATT-CCATTTTTGACATCGAAC
66 AAAATTACCATTTTTGACATCGAAC
* * ** *
73943 TTTCCAAAAATTACCA-TTTT-ACCCTCAAATTTCCTAAAATTCCATTTTTGACCTCGAACTTTC
1 TTTCCAAAAACT-CCATTTTTGA-CCTCAAATTTCCAAAAATTCCATTTTCAACCCCGAACTTTC
74006 CAAAAATTACCATTTT
64 CAAAAATTACCATTTT
74022 ACCCCTCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
88 1 0.01
89 59 0.84
90 10 0.14
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (90 bp):
TTTCCAAAAACTCCATTTTTGACCTCAAATTTCCAAAAATTCCATTTTCAACCCCGAACTTTCCA
AAAATTACCATTTTTGACATCGAAC
Found at i:77305 original size:24 final size:24
Alignment explanation
Indices: 77273--77359 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
77263 ATAAGTTGAT
*
77273 GAGCGTAAACGTGTGCAAGCTGGC
1 GAGCGTAAACGTGTGCAAGCTGAC
* * *
77297 GAGCGTAAATGCATATGAATAAGCTGAC
1 GAGCGTAAA--CGTGTG--CAAGCTGAC
77325 GAGCGTAAACGTGTGCAAGCTGAC
1 GAGCGTAAACGTGTGCAAGCTGAC
*
77349 GAACGTAAACG
1 GAGCGTAAACG
77360 CATATGTACA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
24 27 0.53
26 8 0.16
28 16 0.31
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.17
Consensus pattern (24 bp):
GAGCGTAAACGTGTGCAAGCTGAC
Found at i:77312 original size:52 final size:52
Alignment explanation
Indices: 77237--77443 Score: 198
Period size: 52 Copynumber: 3.9 Consensus size: 52
77227 ACACAAGTAT
* * * * *
77237 AAGCTAGCGAGCATAAACACATATGAATAAGTTGATGAGCGTAAACGTGTGC
1 AAGCTGGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACGTGTGC
*
77289 AAGCTGGCGAGCGTAAATGCATATGAATAAGCTGACGAGCGTAAACGTGTGC
1 AAGCTGGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACGTGTGC
* * * * * * *
77341 AAGCTGACGAACGTAAACGCATATGTACAAGCTGGCGAGCATAAACGCACATGTGT
1 AAGCTGGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACG----TGTGC
* * ** * * *
77397 AAACTGACGAGCGTAAATACATATGTATAAGCTGACAAGTGTAAACG
1 AAGCTGGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACG
77444 CATGATTATA
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
52 86 0.67
56 42 0.33
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (52 bp):
AAGCTGGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACGTGTGC
Found at i:77329 original size:28 final size:28
Alignment explanation
Indices: 77233--77454 Score: 149
Period size: 28 Copynumber: 8.2 Consensus size: 28
77223 AAACACACAA
* *
77233 GTATAAGCT-AGCGAGCATAAACACATAT
1 GTATAAGCTGA-CGAGCGTAAACGCATAT
* * *
77261 GAATAAGTTGATGAGCGTAAACG----T
1 GTATAAGCTGACGAGCGTAAACGCATAT
** * *
77285 GTGCAAGCTGGCGAGCGTAAATGCATAT
1 GTATAAGCTGACGAGCGTAAACGCATAT
*
77313 GAATAAGCTGACGAGCGTAAACG----T
1 GTATAAGCTGACGAGCGTAAACGCATAT
** *
77337 GTGCAAGCTGACGAACGTAAACGCATAT
1 GTATAAGCTGACGAGCGTAAACGCATAT
* * * *
77365 GTACAAGCTGGCGAGCATAAACGCACAT
1 GTATAAGCTGACGAGCGTAAACGCATAT
* * **
77393 GTGTAAACTGACGAGCGTAAATACATAT
1 GTATAAGCTGACGAGCGTAAACGCATAT
* *
77421 GTATAAGCTGACAAGTGTAAACGCATGAT
1 GTATAAGCTGACGAGCGTAAACGCAT-AT
77450 -TATAA
1 GTATAA
77455 TTATTCCCTC
Statistics
Matches: 144, Mismatches: 40, Indels: 20
0.71 0.20 0.10
Matches are distributed among these distances:
24 37 0.26
28 104 0.72
29 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (28 bp):
GTATAAGCTGACGAGCGTAAACGCATAT
Found at i:81514 original size:2 final size:2
Alignment explanation
Indices: 81507--81543 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
81497 GCACATTATG
81507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
81544 CCACAGGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93343 original size:28 final size:28
Alignment explanation
Indices: 93290--93343 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
93280 TATAAAAATT
* *
93290 ATTTTTTAATTTTTTAATAATGTTAATA
1 ATTTTTAAATTTTTTAACAATGTTAATA
* *
93318 ATTTTTAAATTTTTTTACAATTTTAA
1 ATTTTTAAATTTTTTAACAATGTTAA
93344 ATATTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTTAAATTTTTTAACAATGTTAATA
Found at i:98522 original size:18 final size:17
Alignment explanation
Indices: 98499--98533 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
98489 AGGATGTTAC
98499 AACATAATATATAAAAAT
1 AACATAATATA-AAAAAT
98517 AACATAATATAAAAAAT
1 AACATAATATAAAAAAT
98534 TATAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AACATAATATAAAAAAT
Found at i:100208 original size:174 final size:174
Alignment explanation
Indices: 99924--100600 Score: 903
Period size: 174 Copynumber: 3.9 Consensus size: 174
99914 GCTGGCTCAA
* * * * ** *
99924 AGGACACTGTAGTTTTAAGAGTGGAACCTCTTCGTAAATCTGAAGGAGAGCCCTTTGTCTTATGA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAAT-T--TGGAGAGGCAGTTGTCCTATGA
** *
99989 G-AAAAACCAGTGCTTGAGTGAGCCTTTGAACTTGTTTCT-GGAAGATCTTCATCAGAACCACTA
63 GAAAAAACCA-TGCTTGAACGAGCCTTTGAACTTGTTT-TAGGAAGATCTTCATCAGAATCACTA
* *
100052 TTTCCTGGACCTAAATATGGCATGGGGTCAGAAACTACCTTTGATTCAG
126 TTTCCTGGACCAAAATATGGCATGGGGTCAGAAACTACCTTCGATTCAG
* * *
100101 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGCATTTGGAGAGGCAGTTGTCCTACGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAGAA
*
100166 AAAATCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
66 AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
**
100231 TGGACCAAAATGCGGCATGGGGTCAGAAACTACCTTCGATTCAG
131 TGGACCAAAATATGGCATGGGGTCAGAAACTACCTTCGATTCAG
*
100275 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGCATTTGGAGAGGCAGTTGTCCTATGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAGAA
* ** *
100340 AAGATTATGCTTGGACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
66 AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
* * * * * *
100405 TGGACCAAAATGTGGTATGGGGTTAGAAACTAGCGTCGATTCGG
131 TGGACCAAAATATGGCATGGGGTCAGAAACTACCTTCGATTCAG
* * * * **
100449 AGGAAACTGTAGCTTTAAGAGTGGAAGCTTTTCCTGAATTCAGAGAGGCAGTTGTCC-AGTGAG-
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTA-TGAGA
* * *
100512 AAAAACCAATGCTTGAATGAGCCTTTGAACCTGTTTTAGGAAGATCTTCATCGGAATCACTATTT
65 AAAAACC-ATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTT
* *
100577 CCTGAATCAAAATATGGCATGGGG
129 CCTGGACCAAAATATGGCATGGGG
100601 ATCCTTGAGG
Statistics
Matches: 449, Mismatches: 47, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
173 6 0.01
174 400 0.89
175 7 0.02
176 1 0.00
177 35 0.08
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (174 bp):
AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAGAA
AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
TGGACCAAAATATGGCATGGGGTCAGAAACTACCTTCGATTCAG
Found at i:104199 original size:3 final size:3
Alignment explanation
Indices: 104191--104217 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
104181 ACCTGAAAAT
104191 CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC
104218 ATTACAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:108821 original size:21 final size:21
Alignment explanation
Indices: 108797--108852 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 21
108787 ACTAATTATT
108797 TATAAAATTTTA-TATATGAAA
1 TATAAAATTTTAGTATAT-AAA
108818 TATAAAATTACTTAGTATATAAA
1 TATAAAATT--TTAGTATATAAA
108841 TAATTAAAATTT
1 T-A-TAAAATTT
108853 GCTATTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 9 0.30
23 8 0.27
24 6 0.20
25 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TATAAAATTTTAGTATATAAA
Found at i:108931 original size:16 final size:17
Alignment explanation
Indices: 108910--108942 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
108900 ATGGAAACAT
108910 AATAATTTAA-ATAAAA
1 AATAATTTAATATAAAA
108926 AATAATTTAATATAAAA
1 AATAATTTAATATAAAA
108943 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATTTAATATAAAA
Found at i:109087 original size:16 final size:15
Alignment explanation
Indices: 109053--109085 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
109043 TAAACGTAAT
109053 AAATTTTATAAATAA
1 AAATTTTATAAATAA
109068 AAATATTTA-AAATAA
1 AAAT-TTTATAAATAA
109083 AAA
1 AAA
109086 ATTCAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTTTATAAATAA
Found at i:127874 original size:10 final size:11
Alignment explanation
Indices: 127853--127890 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
127843 TTTGATTTTA
127853 AAATTAGGTTT
1 AAATTAGGTTT
127864 AAATT-GGTTT
1 AAATTAGGTTT
*
127874 AAATTTAGTTTT
1 AAA-TTAGGTTT
127886 AAATT
1 AAATT
127891 TGAATTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.33
11 9 0.38
12 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (11 bp):
AAATTAGGTTT
Found at i:127881 original size:22 final size:22
Alignment explanation
Indices: 127849--127890 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
127839 AAGCTTTGAT
127849 TTTAAAATTAGGTTTAAATTGG
1 TTTAAAATTAGGTTTAAATTGG
* *
127871 TTTAAATTTAGTTTTAAATT
1 TTTAAAATTAGGTTTAAATT
127891 TGAATTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TTTAAAATTAGGTTTAAATTGG
Found at i:127889 original size:12 final size:12
Alignment explanation
Indices: 127849--127891 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
127839 AAGCTTTGAT
*
127849 TTTAAAATTAGG
1 TTTAAATTTAGG
127861 TTTAAA-TT-GG
1 TTTAAATTTAGG
*
127871 TTTAAATTTAGT
1 TTTAAATTTAGG
127883 TTTAAATTT
1 TTTAAATTT
127892 GAATTTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 8 0.29
11 4 0.14
12 16 0.57
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (12 bp):
TTTAAATTTAGG
Found at i:127912 original size:6 final size:6
Alignment explanation
Indices: 127871--127936 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
127861 TTTAAATTGG
** * ** *
127871 TTTAAA TTTAGT TTTAAA TTTGAA TTTATCTT TTTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
127920 TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
127937 TCAAATTTGA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
5 4 0.09
6 37 0.82
8 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:128792 original size:15 final size:16
Alignment explanation
Indices: 128767--128800 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
128757 AGTTATAACC
128767 TAATAAATATTATTAA
1 TAATAAATATTATTAA
128783 TAAT-AATATTATTAA
1 TAATAAATATTATTAA
128798 TAA
1 TAA
128801 CAGTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAAATATTATTAA
Found at i:128792 original size:36 final size:38
Alignment explanation
Indices: 128744--128829 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 38
128734 GCATTAATAG
128744 TAAT-ATATATATTAGTT-ATAAC-CTAAT-A-AATATTAT
1 TAATAATA-ATATTA-TTAATAACACTAATAATAAT-TTAT
*
128780 TAATAATAATATTATTAATAACAGTAATAATGAATTTAT
1 TAATAATAATATTATTAATAACACTAATAAT-AATTTAT
128819 TAATAATAATA
1 TAATAATAATA
128830 AATAAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
35 2 0.05
36 15 0.35
37 7 0.16
38 1 0.02
39 15 0.35
40 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
TAATAATAATATTATTAATAACACTAATAATAATTTAT
Found at i:129943 original size:29 final size:30
Alignment explanation
Indices: 129890--129972 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
129880 AAAAATTTTG
* * * * *
129890 AAAATTACATTTTTGATCCCAAAACTTTCA
1 AAAATTACATTTTTAACCCCCAAACATCCA
* *
129920 AAAATTATATTTTT-ACCCTCAAACATCCA
1 AAAATTACATTTTTAACCCCCAAACATCCA
129949 AAAATTACATTTTTAACCCCCAAA
1 AAAATTACATTTTTAACCCCCAAA
129973 AATTACATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 23 0.52
30 21 0.48
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTACATTTTTAACCCCCAAACATCCA
Found at i:129973 original size:21 final size:21
Alignment explanation
Indices: 129946--129990 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
129936 CCTCAAACAT
129946 CCAAAAATTACATTTTTAACCC
1 CCAAAAATTACATTTTT-ACCC
129968 CCAAAAATTACATTTTTACCC
1 CCAAAAATTACATTTTTACCC
129989 CC
1 CC
129991 GAACCTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (21 bp):
CCAAAAATTACATTTTTACCC
Found at i:130005 original size:29 final size:28
Alignment explanation
Indices: 129963--130062 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 28
129953 TTACATTTTT
*
129963 AACCCCCAAAAATTACATTTTTACCCCCG
1 AACCTCCAAAAATTACA-TTTTACCCCCG
* * **
129992 AACCTCCAAAAATTCCATTTGA-CCCTA
1 AACCTCCAAAAATTACATTTTACCCCCG
*
130019 AAACTCTCAAAAATTACCATTTTACCCCCG
1 AACCTC-CAAAAATTA-CATTTTACCCCCG
**
130049 AATGTCCAAAAATT
1 AACCTCCAAAAATT
130063 TCGATTTTGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 8 0.14
28 12 0.21
29 29 0.52
30 7 0.12
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.26
Consensus pattern (28 bp):
AACCTCCAAAAATTACATTTTACCCCCG
Found at i:130133 original size:29 final size:30
Alignment explanation
Indices: 130101--130189 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 30
130091 TTACCGTTTA
* *
130101 ACCCTCGAA-TGACTAAAATTCCATTTTTT
1 ACCCTCAAACTGACAAAAATTCCATTTTTT
**
130130 ACCCTCAAACTTCCAAAAATTCCATTTTTTT
1 ACCCTCAAACTGACAAAAATTCCA-TTTTTT
*
130161 ATCCC-GAAACTTG-CAAAAATTACCATTTT
1 A-CCCTCAAAC-TGACAAAAATT-CCATTTT
130190 ACCCCCGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
29 8 0.16
30 11 0.22
31 23 0.47
32 7 0.14
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (30 bp):
ACCCTCAAACTGACAAAAATTCCATTTTTT
Found at i:130171 original size:31 final size:31
Alignment explanation
Indices: 130115--130189 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
130105 TCGAATGACT
130115 AAAATTCCA-TTTTTTACCCTCAAACTTCCA
1 AAAATTCCATTTTTTTACCCTCAAACTTCCA
* *
130145 AAAATTCCATTTTTTTATCCC-GAAACTTGCA
1 AAAATTCCATTTTTTTA-CCCTCAAACTTCCA
130176 AAAATTACCATTTT
1 AAAATT-CCATTTT
130190 ACCCCCGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 9 0.22
31 21 0.52
32 10 0.25
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (31 bp):
AAAATTCCATTTTTTTACCCTCAAACTTCCA
Found at i:130206 original size:29 final size:29
Alignment explanation
Indices: 129968--130208 Score: 92
Period size: 29 Copynumber: 8.2 Consensus size: 29
129958 TTTTTAACCC
**
129968 CCAAAAATTA-CATTTTTACCCCCGAACCT
1 CCAAAAATTACCA-TTTTACCCCCGAATAT
* * *
129997 CCAAAAATT-CCATTTGA--CCCTAAAACT
1 CCAAAAATTACCATTTTACCCCCGAATA-T
*
130024 CTCAAAAATTACCATTTTACCCCCGAATGT
1 C-CAAAAATTACCATTTTACCCCCGAATAT
* * * * *
130054 CCAAAAATTTCGATTTTGA-TCCCGATTTTT
1 CCAAAAATTACCATTTT-ACCCCCGA-ATAT
* * * *
130084 CTAAAAATTACCGTTTAACCCTCGAATGA-
1 CCAAAAATTACCATTTTACCCCCGAAT-AT
* * *
130113 -CTAAAATT-CCATTTTTTACCCTCAAACT-T
1 CCAAAAATTACCA--TTTTACCCCCGAA-TAT
*
130142 CCAAAAATT-CCATTTTTTTA-TCCCGAA-ACTT
1 CCAAAAATTACCA---TTTTACCCCCGAATA--T
*
130173 GCAAAAATTACCATTTTACCCCCGAATAT
1 CCAAAAATTACCATTTTACCCCCGAATAT
130202 CCAAAAA
1 CCAAAAA
130209 GTCTCATTTT
Statistics
Matches: 156, Mismatches: 34, Indels: 44
0.67 0.15 0.19
Matches are distributed among these distances:
26 5 0.03
27 4 0.03
28 18 0.12
29 62 0.40
30 42 0.27
31 22 0.14
32 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (29 bp):
CCAAAAATTACCATTTTACCCCCGAATAT
Found at i:144941 original size:30 final size:26
Alignment explanation
Indices: 144884--144944 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 26
144874 TATTAATAAT
*
144884 TTTAAAATTATGTTTGTATTTGTTTA
1 TTTAAAATTATGTGTGTATTTGTTTA
144910 TTTAAAATTATGTGTGTTCATGTTCGTTTA
1 TTTAAAATTATGTGTG-T-AT-TT-GTTTA
144940 TTTAA
1 TTTAA
144945 GTTAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 15 0.50
27 1 0.03
28 2 0.07
29 2 0.07
30 10 0.33
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.57
Consensus pattern (26 bp):
TTTAAAATTATGTGTGTATTTGTTTA
Found at i:152465 original size:25 final size:24
Alignment explanation
Indices: 152434--152553 Score: 105
Period size: 25 Copynumber: 4.8 Consensus size: 24
152424 TAACACCACA
* *
152434 AAGGCTTTCCAAAGAATTCTCCAT
1 AAGGCTTTCTAAAGAATTCACCAT
*
152458 AAGCGCTTTCTAAGGAATTCACCAT
1 AAG-GCTTTCTAAAGAATTCACCAT
** * *
152483 AAAGGCTTTCTAGGGAATTCGCCACA
1 -AAGGCTTTCTAAAGAATTCACCA-T
* * *
152509 AAGGCTTTCCAAAGAATACACCAC
1 AAGGCTTTCTAAAGAATTCACCAT
*
152533 AAGGGCTTTCTAGAGAATTCA
1 AA-GGCTTTCTAAAGAATTCA
152554 TGTTTATTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
24 5 0.06
25 69 0.90
26 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (24 bp):
AAGGCTTTCTAAAGAATTCACCAT
Found at i:152502 original size:50 final size:50
Alignment explanation
Indices: 152426--152552 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
152416 TTCGCAAATA
* * * * * *
152426 ACACCACAAAGGCTTTCCAAAGAATTCTCCA-TAAGCGCTTTCTAAGGAAT
1 ACACCACAAAGGCTTTCTAGAGAATTCGCCACAAAG-GCTTTCCAAAGAAT
* * *
152476 TCACCATAAAGGCTTTCTAGGGAATTCGCCACAAAGGCTTTCCAAAGAAT
1 ACACCACAAAGGCTTTCTAGAGAATTCGCCACAAAGGCTTTCCAAAGAAT
*
152526 ACACCACAAGGGCTTTCTAGAGAATTC
1 ACACCACAAAGGCTTTCTAGAGAATTC
152553 ATGTTTATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 60 0.95
51 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (50 bp):
ACACCACAAAGGCTTTCTAGAGAATTCGCCACAAAGGCTTTCCAAAGAAT
Found at i:154378 original size:33 final size:33
Alignment explanation
Indices: 154341--154406 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
154331 AGGTAAAAAT
154341 GAGGTTGAAGATAAGGAAGATATGAACAGATGA
1 GAGGTTGAAGATAAGGAAGATATGAACAGATGA
*
154374 GAGGTTGAAGATAAGGAAGATATGAATAGATGA
1 GAGGTTGAAGATAAGGAAGATATGAACAGATGA
154407 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.02, G:0.33, T:0.20
Consensus pattern (33 bp):
GAGGTTGAAGATAAGGAAGATATGAACAGATGA
Found at i:159127 original size:6 final size:6
Alignment explanation
Indices: 159118--159161 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
159108 ATAAAGAAAA
159118 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TG
1 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TG
159162 TTTACAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (6 bp):
TGGTTT
Done.