Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 68 of 199
Found at i:25616310 original size:17 final size:19
Alignment explanation
Indices: 25616263--25616305 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
25616253 TTCGAAGGAA
25616263 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
25616281 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
25616300 AAAAGA
1 AAAAGA
25616306 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:25616736 original size:8 final size:8
Alignment explanation
Indices: 25616723--25616792 Score: 72
Period size: 8 Copynumber: 8.8 Consensus size: 8
25616713 AGAGAGACAG
25616723 AAAAAAGA
1 AAAAAAGA
25616731 AAAAAAG-
1 AAAAAAGA
*
25616738 AAAGAAGA
1 AAAAAAGA
25616746 AAAAAAG-
1 AAAAAAGA
*
25616753 AAAAGAGA
1 AAAAAAGA
*
25616761 AAAAAGGA
1 AAAAAAGA
*
25616769 AAAAAGGAA
1 AAAAAAG-A
25616778 AAAAGAAGA
1 AAAA-AAGA
25616787 AAAAAA
1 AAAAAA
25616793 AGAGTTTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 12 0.23
8 28 0.54
9 10 0.19
10 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:25616736 original size:23 final size:23
Alignment explanation
Indices: 25616706--25616793 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
25616696 AGCAGGCCAG
*
25616706 GAAAAAAAGAGAGACAG-AAAAAA
1 GAAAAAAAGAAAGA-AGAAAAAAA
25616729 GAAAAAAAGAAAGAAGAAAAAAA
1 GAAAAAAAGAAAGAAGAAAAAAA
* * *
25616752 G-AAAAGAGAAAAAAGGAAAAAA
1 GAAAAAAAGAAAGAAGAAAAAAA
*
25616774 GGAAAAAAG-AAGAA-AAAAAA
1 GAAAAAAAGAAAGAAGAAAAAA
25616794 GAGTTTCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
21 5 0.09
22 25 0.45
23 26 0.46
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAGAAAAAAA
Found at i:25616739 original size:15 final size:15
Alignment explanation
Indices: 25616721--25616793 Score: 94
Period size: 15 Copynumber: 4.9 Consensus size: 15
25616711 AAAGAGAGAC
25616721 AGAAAAAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
25616736 AGAAAGAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
25616751 AGAAAAGAGAAAAAA
1 AGAAAAAAGAAAAAA
* *
25616766 GGAAAAAAGGAAAAA
1 AGAAAAAAGAAAAAA
25616781 AGAAGAAAA-AAAA
1 AGAA-AAAAGAAAA
25616794 GAGTTTCAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
15 45 0.92
16 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAAAA
Found at i:25616765 original size:38 final size:39
Alignment explanation
Indices: 25616706--25616796 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
25616696 AGCAGGCCAG
* * *
25616706 GAAAAAAAG-AGAGACAGAAAAAAGAAAAAAAGAAAGAA
1 GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
* *
25616744 GAAAAAAAGAAAAGAGA-AAAAAGGAAAAAAGGAAAAAA
1 GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
*
25616782 GAAGAAAA-AAAAGAG
1 GAAAAAAAGAAAAGAG
25616797 TTTCAATTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 7 0.15
38 34 0.74
39 5 0.11
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (39 bp):
GAAAAAAAGAAAAGAGAGAAAAAAGAAAAAAAGAAAAAA
Found at i:25617374 original size:20 final size:22
Alignment explanation
Indices: 25617333--25617375 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25617323 AAAATTGTGT
*
25617333 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
25617355 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
25617375 A
1 A
25617376 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:25617445 original size:18 final size:17
Alignment explanation
Indices: 25617371--25617556 Score: 151
Period size: 17 Copynumber: 10.6 Consensus size: 17
25617361 ATCCATTTTC
* *
25617371 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
25617389 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
25617407 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
25617423 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
25617440 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
25617458 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
25617475 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
*
25617493 C-AAAAGTTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
25617510 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
25617528 CAAAAAAAATCTCGTGTTT
1 C--AAAAATTTTCGTGTTT
*
25617547 CATAAATTTT
1 CAAAAATTTT
25617557 GGTTTTAAAA
Statistics
Matches: 134, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
16 15 0.11
17 57 0.43
18 36 0.27
19 16 0.12
20 10 0.07
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:25617476 original size:35 final size:35
Alignment explanation
Indices: 25617392--25617532 Score: 164
Period size: 35 Copynumber: 4.1 Consensus size: 35
25617382 GTGTCTTCTA
25617392 AAAATTTTT-GTGTTTCAAAAATTTTC--GTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* *
25617424 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* ** *
25617459 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* **
25617494 AAAA-GTTTCGGTGTTTTGAAAATTTTCGTGTTTTC
1 AAAATTTTTC-GTGTTTCAAAAATTTTCGTGTTTTC
25617529 AAAA
1 AAAA
25617533 AAAATCTCGT
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
32 7 0.08
33 17 0.19
34 4 0.04
35 62 0.69
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
Found at i:25626135 original size:81 final size:81
Alignment explanation
Indices: 25625995--25626669 Score: 999
Period size: 81 Copynumber: 8.3 Consensus size: 81
25625985 CAAGAAATAT
* **
25625995 TTTTCAATTTCTGTTTTAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
25626060 CACGCTGAGGTATTTC
66 CACGCTGAGGTATTTC
* *
25626076 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGT--
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
25626139 CACGCTGAGGTATTTC
66 CACGCTGAGGTATTTC
* *
25626155 TTTTAAATCTCTGTTTTTCGAAACAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
25626220 GCACGCTGAGGTATTTC
65 GCACGCTGAGGTATTTC
* *
25626237 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCT
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
*
25626302 TACGCTGAGGTATTTC
66 CACGCTGAGGTATTTC
25626318 TTTTAAATTTCTGTCTTTTCAAAAAAAATCAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
1 TTTTAAATTTCTGT-TTTTC---AAAAA--AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
25626383 GGGTCGCACGCTGAGGTATTTC
60 GGGTCGCACGCTGAGGTATTTC
*
25626405 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAG-AGATGAGTTGAGCCTCGGGT-
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGTC
25626468 -CACGCTGAGGTATTTC
65 GCACGCTGAGGTATTTC
*
25626484 TTTTAAATCTCTGTTTTTCGAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
*
25626549 ACACGCTGAGGTATTTC
65 GCACGCTGAGGTATTTC
* ** * * *
25626566 TTTTAAATTTCTATTTTTCAAAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGCCA
1 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
* *
25626631 TACGCCGAGGTA----
66 CACGCTGAGGTATTTC
*
25626643 TTTTCAATTTCTGTTTTTCAAATAAAA
1 TTTTAAATTTCTGTTTTTCAAA-AAAA
25626670 AGAAAATTTT
Statistics
Matches: 549, Mismatches: 30, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
77 20 0.04
78 4 0.01
79 68 0.12
80 83 0.15
81 219 0.40
82 72 0.13
83 5 0.01
85 5 0.01
86 5 0.01
87 68 0.12
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (81 bp):
TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCG
CACGCTGAGGTATTTC
Found at i:25626289 original size:161 final size:162
Alignment explanation
Indices: 25626014--25626645 Score: 1045
Period size: 161 Copynumber: 3.9 Consensus size: 162
25626004 TCTGTTTTAA
25626014 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
*
25626079 TAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGTC-ACG
66 TAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCTACG
25626143 CTGAGGTATTTCTTTTAAATCTCTGTTTTTCG
131 CTGAGGTATTTCTTTTAAATCTCTGTTTTTCG
*
25626175 AAACAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
* *
25626240 TAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCTTAC
66 TAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTC-TAC
* *
25626305 GCTGAGGTATTTCTTTTAAATTTCTGTCTTTTCAAA
130 GCTGAGGTATTTCTTTTAAATCTCTGT-TTTTC--G
25626341 AAAAATCAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
1 AAAAA--AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
25626406 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAG-AGATGAGTTGAGCCTCGGGTC-
64 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAG-TGAGTTGAGCCTCGGGTCT
25626469 ACGCTGAGGTATTTCTTTTAAATCTCTGTTTTTCG
128 ACGCTGAGGTATTTCTTTTAAATCTCTGTTTTTCG
*
25626504 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTCTTT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
* * ** * *
25626569 TAAATTTCTATTTTTCAAAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTCGGGCCATAC
66 TAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTC-TAC
*
25626634 GCCGAGGTATTT
130 GCTGAGGTATTT
25626646 TCAATTTCTG
Statistics
Matches: 441, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
161 234 0.53
162 1 0.00
163 46 0.10
164 5 0.01
165 5 0.01
166 32 0.07
167 2 0.00
168 116 0.26
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (162 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTT
TAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCTACG
CTGAGGTATTTCTTTTAAATCTCTGTTTTTCG
Found at i:25626617 original size:329 final size:327
Alignment explanation
Indices: 25626012--25626645 Score: 1151
Period size: 329 Copynumber: 1.9 Consensus size: 327
25626002 TTTCTGTTTT
25626012 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
1 AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
25626077 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGTCAC
66 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGTCAC
*
25626142 GCTGAGGTATTTCTTTTAAATCTCTGTTTTTCGAAACAAATCAACTCATATTGCGAGAAGTGAGT
131 GCTGAGGTATTTCTTTTAAATCTCTGTTTTTCGAAAAAAATCAACTCATATTGCGAGAAGTGAGT
* *
25626207 TGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCAT
196 TGAGCCTCGGGTCACACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAATCAACTCAT
* * *
25626272 ATTGCGAGAAGTGAGTTGAGCCTCAGGTCTTACGCTGAGGTATTTCTTTTAAATTTCTGTCTTTT
261 ATTGCGAGAAGTGAGTTGAGCCTCAGGCCATACGCCGAGGTATTTCTTTTAAATTTCTGTCTTTT
25626337 CA
326 CA
25626339 AAAAAAATCAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTT
1 AAAAAAA--AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTT
*
25626404 CTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTC
64 CTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGTC
25626469 ACGCTGAGGTATTTCTTTTAAATCTCTGTTTTTCGAAAAAAATCAACTCATATTGCGAGAAGTGA
129 ACGCTGAGGTATTTCTTTTAAATCTCTGTTTTTCGAAAAAAATCAACTCATATTGCGAGAAGTGA
25626534 GTTGAGCCTCGGGTCACACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAATCAACTC
194 GTTGAGCCTCGGGTCACACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAATCAACTC
** * *
25626599 ATATTGTTAGAGGTGAGTTGAGCCTCGGGCCATACGCCGAGGTATTT
259 ATATTGCGAGAAGTGAGTTGAGCCTCAGGCCATACGCCGAGGTATTT
25626646 TCAATTTCTG
Statistics
Matches: 294, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
327 7 0.02
329 287 0.98
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (327 bp):
AAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCT
TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCGGGTCAC
GCTGAGGTATTTCTTTTAAATCTCTGTTTTTCGAAAAAAATCAACTCATATTGCGAGAAGTGAGT
TGAGCCTCGGGTCACACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAATCAACTCAT
ATTGCGAGAAGTGAGTTGAGCCTCAGGCCATACGCCGAGGTATTTCTTTTAAATTTCTGTCTTTT
CA
Found at i:25627017 original size:15 final size:15
Alignment explanation
Indices: 25626997--25627094 Score: 92
Period size: 15 Copynumber: 6.5 Consensus size: 15
25626987 CAGGCCAGGA
* *
25626997 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
25627012 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
25627027 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
** *
25627042 AAACGAGAAAAAAGG
1 AAAAAAGAAAAAAAG
*
25627057 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
25627072 AAGACAAA-AAAGAAA-
1 AA-A-AAAGAAAAAAAG
25627087 AAAAAAGA
1 AAAAAAGA
25627095 GTTTCAATTC
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
13 3 0.04
14 2 0.03
15 54 0.79
16 6 0.09
17 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:25627023 original size:8 final size:8
Alignment explanation
Indices: 25626995--25627090 Score: 81
Period size: 8 Copynumber: 12.0 Consensus size: 8
25626985 AGCAGGCCAG
25626995 GAAAAAAA
1 GAAAAAAA
* *
25627003 GAGAGAAA
1 GAAAAAAA
25627011 G-AAAAAA
1 GAAAAAAA
25627018 GAAAAAAA
1 GAAAAAAA
*
25627026 G-AAAGAA
1 GAAAAAAA
25627033 GAAAAAAA
1 GAAAAAAA
**
25627041 G-AAACGA
1 GAAAAAAA
*
25627048 GAAAAAAG
1 GAAAAAAA
*
25627056 GAAAAAAG
1 GAAAAAAA
25627064 GAAAAAAGAA
1 G-AAAAA-AA
25627074 GACAAAAAA
1 GA-AAAAAA
25627083 GAAAAAAA
1 GAAAAAAA
25627091 AAGAGTTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
7 16 0.23
8 38 0.54
9 10 0.14
10 6 0.09
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:25627025 original size:23 final size:22
Alignment explanation
Indices: 25626995--25627095 Score: 82
Period size: 23 Copynumber: 4.6 Consensus size: 22
25626985 AGCAGGCCAG
25626995 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAGAG-AAGAAAAAA
*
25627018 GAAAAAAAGAAAGAAGAAAAAA
1 GAAAAAAAGAGAGAAGAAAAAA
** * *
25627040 -AGAAACGAGAAAAAAGGAAAAAA
1 GA-AAAAAAGAGAGAA-GAAAAAA
* *
25627063 GGAAAAAAGA-AG-ACAAAAAA
1 GAAAAAAAGAGAGAAGAAAAAA
*
25627083 GAAAAAAAAAGAG
1 GAAAAAAAGAGAG
25627096 TTTCAATTCG
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
20 14 0.22
21 4 0.06
22 20 0.32
23 25 0.40
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (22 bp):
GAAAAAAAGAGAGAAGAAAAAA
Found at i:25627068 original size:28 final size:28
Alignment explanation
Indices: 25626997--25627090 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
25626987 CAGGCCAGGA
*
25626997 AAAAAAGAGAGAAAGAAAAAAGA-AAAAAAG
1 AAAAAA-AG-GAAA-AAAGAAGACAAAAAAG
* * *
25627027 -AAAGAAGAAAAAAAGAAACGAGAAAAAAG
1 AAAAAAAGGAAAAAAG-AA-GACAAAAAAG
*
25627056 GAAAAAAGGAAAAAAGAAGACAAAAAAG
1 AAAAAAAGGAAAAAAGAAGACAAAAAAG
25627084 AAAAAAA
1 AAAAAAA
25627091 AAGAGTTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
26 3 0.06
27 5 0.09
28 19 0.36
29 13 0.25
30 13 0.25
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (28 bp):
AAAAAAAGGAAAAAAGAAGACAAAAAAG
Found at i:25627671 original size:20 final size:22
Alignment explanation
Indices: 25627634--25627677 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
25627624 AATTTTGTGT
*
25627634 AAAAAAATCCAGTGTTTTCAAAA
1 AAAAAAATCCAGT-TTTCCAAAA
25627657 AAAAAAATCCA-TTTTCCAAAA
1 AAAAAAATCCAGTTTTCCAAAA
25627678 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAAAATCCAGTTTTCCAAAA
Found at i:25627715 original size:17 final size:16
Alignment explanation
Indices: 25627673--25627835 Score: 105
Period size: 17 Copynumber: 9.4 Consensus size: 16
25627663 ATCCATTTTC
*
25627673 CAAAATTTTTAGTGTCTT
1 CAAAAATTTT-GTGT-TT
25627691 CTAAAAATATTTGTGTTT
1 C-AAAAAT-TTTGTGTTT
25627709 CAAAAATTTTCGT-TTT
1 CAAAAATTTT-GTGTTT
*
25627725 CAAAAATTTCCGTGTTT
1 CAAAAATTT-TGTGTTT
*
25627742 CAAAAATTTCCGTGTTTT
1 CAAAAATTT-TGTG-TTT
* *
25627760 CAAAATTTTTCGTATTT
1 CAAAAATTTT-GTGTTT
25627777 CAAAAATCCTCTTGT-TTT
1 CAAAAAT--T-TTGTGTTT
*
25627795 CAAAAATTTCGGTGTTT
1 CAAAAATTT-TGTGTTT
**
25627812 TGAAAATTTTCGTGTTTT
1 CAAAAATTTT-GTG-TTT
25627830 CAAAAA
1 CAAAAA
25627836 AAAATCTCGT
Statistics
Matches: 119, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
15 1 0.01
16 20 0.17
17 47 0.39
18 34 0.29
19 12 0.10
20 5 0.04
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (16 bp):
CAAAAATTTTGTGTTT
Found at i:25627810 original size:18 final size:17
Alignment explanation
Indices: 25627693--25627835 Score: 125
Period size: 17 Copynumber: 8.3 Consensus size: 17
25627683 AGTGTCTTCT
*
25627693 AAAAATATTTGTG-TTTC
1 AAAAAT-TTCGTGTTTTC
25627710 AAAAATTT--TCGTTTTC
1 AAAAATTTCGT-GTTTTC
25627726 AAAAATTTCCGTG-TTTC
1 AAAAATTT-CGTGTTTTC
25627743 AAAAATTTCCGTGTTTTC
1 AAAAATTT-CGTGTTTTC
* *
25627761 AAAATTTTTCGT-ATTTC
1 AAAA-ATTTCGTGTTTTC
* *
25627778 AAAAATCCTCTTGTTTTC
1 AAAAAT-TTCGTGTTTTC
*
25627796 AAAAATTTCGGTGTTTTG
1 AAAAATTTC-GTGTTTTC
*
25627814 AAAATTTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
25627831 AAAAA
1 AAAAA
25627836 AAAATCTCGT
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
14 1 0.01
15 1 0.01
16 15 0.14
17 47 0.45
18 36 0.35
19 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:25627835 original size:35 final size:34
Alignment explanation
Indices: 25627673--25627835 Score: 159
Period size: 35 Copynumber: 4.7 Consensus size: 34
25627663 ATCCATTTTC
* * * *
25627673 CAAAATTTTTAGTGTCTTCTAAAAATATTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAAT-TTCGTGTTT
25627709 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* * *
25627742 CAAAAATTTCCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
25627777 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
25627812 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
25627836 AAAATCTCGT
Statistics
Matches: 104, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
32 2 0.02
33 22 0.21
34 9 0.09
35 59 0.57
36 12 0.12
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:25627848 original size:38 final size:37
Alignment explanation
Indices: 25627796--25627923 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 37
25627786 TCTTGTTTTC
*
25627796 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAA
1 AAAAATCTC-GTGTTTT-AAAATTTTCGTGTTTTCAAAA
*
25627835 AAAAATCTCGTGTTTCATAAATTTT-G-G-TTT-AAAA
1 AAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAAA
* ** * *
25627869 AAAAATATTATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
25627906 CAAGAAATTCTCGTGTTT
1 -AA-AAA-TCTCGTGTTT
25627924 CAATCGGATC
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
33 6 0.09
34 17 0.25
35 4 0.06
36 4 0.06
37 6 0.09
38 15 0.22
39 11 0.16
40 6 0.09
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (37 bp):
AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
Found at i:25641804 original size:23 final size:25
Alignment explanation
Indices: 25641770--25641822 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
25641760 TATATTTATT
25641770 TATTTCTTTTAT-T-CACATACATA
1 TATTTCTTTTATATGCACATACATA
* *
25641793 TATTT-TTCTTATATGTACATATATA
1 TATTTCTT-TTATATGCACATACATA
25641818 TATTT
1 TATTT
25641823 ATATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.08
23 9 0.36
24 1 0.04
25 13 0.52
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTCTTTTATATGCACATACATA
Found at i:25642088 original size:14 final size:14
Alignment explanation
Indices: 25642066--25642098 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25642056 ACATTTATTC
*
25642066 ATATATCAAATTTA
1 ATATTTCAAATTTA
25642080 ATATTTCAAATTTA
1 ATATTTCAAATTTA
25642094 ATATT
1 ATATT
25642099 ACATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATTTCAAATTTA
Found at i:25643612 original size:116 final size:116
Alignment explanation
Indices: 25643350--25643790 Score: 694
Period size: 115 Copynumber: 3.8 Consensus size: 116
25643340 AGGAATTTTT
***** *
25643350 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAA--AAAAATTTGAATTTTTT-ATT
1 TTTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTT
* *
25643412 TTTTTTTCGTGTCAAAATCAAATATAAATATACGAAAAAAAT-AAAAAAAAA
65 TTTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAAAGTAAAAAAAAAA
* *
25643463 TTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAATAGTAAATTTTTTTTTTGAATTTTTTCTTTT
1 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTTT
*
25643528 TTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAAAAAAAAAA
66 TTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAAAGTAAAAAAAAAA
25643579 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTC-TTT
1 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTTT
*
25643643 TTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAAAAAAAAAA
66 TTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAAAGTAAAAAAAAAA
* * **
25643694 TTTGGGTGCTGGCCTGTCAATGGCCTGCACCCAACAGTAAAAATTTTTTTTGAATTTTTTCTTTT
1 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTTT
25643759 TTTTTTCGTGTCAGAATCAAATATAAATATAC
66 TTTTTTCGTGTCAGAATCAAATATAAATATAC
25643791 AACGATTTTT
Statistics
Matches: 305, Mismatches: 18, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
112 36 0.12
113 3 0.01
114 12 0.04
115 152 0.50
116 102 0.33
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (116 bp):
TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTTT
TTTTTTCGTGTCAGAATCAAATATAAATATACGAAAAAAGTAAAAAAAAAA
Found at i:25643751 original size:231 final size:229
Alignment explanation
Indices: 25643350--25643790 Score: 713
Period size: 231 Copynumber: 1.9 Consensus size: 229
25643340 AGGAATTTTT
25643350 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTGAATTTTTTATTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTGAATTTTTTATTTTT
25643415 TTTTCGTGTCAAAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTAGGTGCTGGCCTGT
66 TTTTCGTGTCAAAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTAGGTGCTGGCCTGT
* **
25643480 CAATGGCCGGCACCCAATAGTAAATTTTTTTTTTGAATTTTTTCTTTTTTTTTTCGTGTCAGAAT
131 CAATGGCCGGCACCCAACAGTAAAAATTTTTTTTGAATTTTTTCTTTTTTTTTTCGTGTCAGAAT
*
25643545 CAGATATAAATATACGAAAAAAGTAAAAAAAAAA
196 CAAATATAAATATACGAAAAAAGTAAAAAAAAAA
***** *
25643579 TTTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAATTTTTTTTTTGAATTTTTTCTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAA--AAAAATTTGAATTTTTTATTT
* * * *
25643643 TTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCC
64 TTTTTTCGTGTCAAAATCAAATATAAATATACGAAAAAAAT-AAAAAAAAATTTAGGTGCTGGCC
*
25643708 TGTCAATGGCCTGCACCCAACAGTAAAAATTTTTTTTGAATTTTTTCTTTTTTTTTTCGTGTCAG
128 TGTCAATGGCCGGCACCCAACAGTAAAAATTTTTTTTGAATTTTTTCTTTTTTTTTTCGTGTCAG
25643773 AATCAAATATAAATATAC
193 AATCAAATATAAATATAC
25643791 AACGATTTTT
Statistics
Matches: 194, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
228 37 0.19
229 4 0.02
230 53 0.27
231 100 0.52
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (229 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTGAATTTTTTATTTTT
TTTTCGTGTCAAAATCAAATATAAATATACGAAAAAAATAAAAAAAAATTTAGGTGCTGGCCTGT
CAATGGCCGGCACCCAACAGTAAAAATTTTTTTTGAATTTTTTCTTTTTTTTTTCGTGTCAGAAT
CAAATATAAATATACGAAAAAAGTAAAAAAAAAA
Found at i:25643923 original size:16 final size:15
Alignment explanation
Indices: 25643899--25643931 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
25643889 GCACCCAAAA
25643899 TTTTTTTTTTCCTTT
1 TTTTTTTTTTCCTTT
25643914 TTTTTCTTTTTCCTTT
1 TTTTT-TTTTTCCTTT
25643930 TT
1 TT
25643932 CGTATATCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTCCTTT
Found at i:25644419 original size:31 final size:30
Alignment explanation
Indices: 25644375--25644436 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
25644365 ATCTTGATAA
25644375 TTTTAAAAGATT-AAATCA-AATTATTATTAT
1 TTTTAAAAGATTAAAAT-ATAATT-TTATTAT
*
25644405 TTTTAAGAGGATTAAAATATAATTTTATTAT
1 TTTTAA-AAGATTAAAATATAATTTTATTAT
25644436 T
1 T
25644437 ACTAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 6 0.21
31 14 0.50
32 8 0.29
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (30 bp):
TTTTAAAAGATTAAAATATAATTTTATTAT
Found at i:25646349 original size:10 final size:10
Alignment explanation
Indices: 25646302--25646374 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
25646292 ATTATTATTC
25646302 TAGAATTTTTT
1 TAGAA-TTTTT
*
25646313 TA-ATTTTTT
1 TAGAATTTTT
*
25646322 TA-AACTTTT
1 TAGAATTTTT
*
25646331 TATGTATTTTT
1 TA-GAATTTTT
25646342 TAGAATTTATT
1 TAGAATTT-TT
25646353 T-GAAATTTTT
1 TAG-AATTTTT
*
25646363 TACAATTTTT
1 TAGAATTTTT
25646373 TA
1 TA
25646375 AAAATATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 14 0.28
10 19 0.38
11 17 0.34
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (10 bp):
TAGAATTTTT
Found at i:25646379 original size:21 final size:21
Alignment explanation
Indices: 25646336--25646377 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25646326 CTTTTTATGT
* *
25646336 ATTTTTTAGAATTTATTTGAA
1 ATTTTTTACAATTTATTTAAA
25646357 ATTTTTTACAATTT-TTTAAA
1 ATTTTTTACAATTTATTTAAA
25646377 A
1 A
25646378 ATATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTTTACAATTTATTTAAA
Found at i:25649405 original size:21 final size:21
Alignment explanation
Indices: 25649372--25649413 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
25649362 AGCTATATAT
*
25649372 ATTAAATGAT-AAAAATTAAA
1 ATTAAATCATAAAAAATTAAA
25649392 ATTAATATCATAAAAAATTAAA
1 ATTAA-ATCATAAAAAATTAAA
25649414 TTATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTAAATCATAAAAAATTAAA
Found at i:25649470 original size:16 final size:16
Alignment explanation
Indices: 25649440--25649504 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
25649430 TTAATATTAG
25649440 TGGGTATTGGGTTTAA
1 TGGGTATTGGGTTTAA
25649456 TGGGT-TTGGGCTTTAA
1 TGGGTATTGGG-TTTAA
* * *
25649472 -GAGTATTAAGTTTTAA
1 TGGGTATT-GGGTTTAA
25649488 TGGGTATTTGGGTTTAA
1 TGGGTA-TTGGGTTTAA
25649505 GATTTAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
15 8 0.21
16 17 0.45
17 11 0.29
18 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.45
Consensus pattern (16 bp):
TGGGTATTGGGTTTAA
Found at i:25650638 original size:5 final size:5
Alignment explanation
Indices: 25650628--25650657 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
25650618 ACTACACTTC
25650628 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
25650658 AAATAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25650754 original size:49 final size:49
Alignment explanation
Indices: 25650659--25650754 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
25650649 TTTATTTTAA
* * * * * *
25650659 AATAAGGTTTTTCAACTTTATTACACTTCATCTATTTGATATTGATTAG
1 AATAAAGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGATTAG
*
25650708 AATAAAGTGTTTCAACCTTACTACACTCCTTCTATTAGA-ATATGATT
1 AATAAAGTGTTTCAACCTTACTACACTCCATCTATTAGATAT-TGATT
25650755 TTACAAGCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.05
49 37 0.95
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (49 bp):
AATAAAGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGATTAG
Found at i:25651544 original size:41 final size:41
Alignment explanation
Indices: 25651486--25651931 Score: 691
Period size: 41 Copynumber: 10.9 Consensus size: 41
25651476 GACTTTTCAG
* * *
25651486 GGGCTTTAGCGGTGTTTTTATGTAAGCGTCGCTAATGTTTT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
25651527 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
25651568 GGGCTTTAGCGGTGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
25651609 GGGCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
25651650 GGGCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * *
25651691 GGGATTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* *
25651732 GGGCTTTAGCGGCG-TTTTATTTAAGCGTCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
*
25651772 GGGCTTTAGCGGCGTTTTTAT-TCAAGCGCCACTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAATGTTCT
25651813 GGGCTTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGC-TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* *
25651855 GGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * *
25651896 AGGCTTTAGCGGCATTTTTAT-TGATGCGCCGCTAAT
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAAT
25651932 TCTCAGGCCT
Statistics
Matches: 378, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
40 41 0.11
41 299 0.79
42 37 0.10
43 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
Found at i:25652006 original size:205 final size:203
Alignment explanation
Indices: 25651490--25652006 Score: 596
Period size: 205 Copynumber: 2.5 Consensus size: 203
25651480 TTTCAGGGGC
** * ** * * *
25651490 TTTAGCGGTGTTTTTA-TGTAAGCGTCGCTAATGTTTTGGGCTTTAGCGGCGTTTTTATGT-AAG
1 TTTAGCGGCATTTTTATTG-AAGCGCCGCTAATGTTCAGGCCTTTAGCGACG-TTTTAT-TAAAA
* ** * *
25651553 CGCCGCTAATGTTCTGGGCTTTAGCGGTGTTTTTATGTAAGCGCCGCTAATGTTCTGGGCTTTAG
63 CGCCGCTAATGCTCT-GGCTTTAGCGGCATTTTTATGAAAGCGCCACTAATGTTCTGGGCTTTAG
* *
25651618 CGGCGTTTTTATCTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTTATCTAAGCGCCGCT
127 CGGCGTTTTTATCTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTAACTAAGCGCCGCT
*
25651683 AATGTTCTGGGA
192 AATGTTCTAGGA
* * * * * * *
25651695 TTTAGCGGCATTTTTATTTAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTTATTTAAGCGT
1 TTTAGCGGCATTTTTATTGAAGCGCCGCTAATGTTCAGGCCTTTAGCGACGTTTTATTAAAACGC
* * **
25651760 CGCTAATGTTCTGGGCTTTAGCGGCGTTTTTATTCAAGCGCCACTAATGTTCTGGGCTTTTAGCG
66 CGCTAATGCTCT-GGCTTTAGCGGCATTTTTATGAAAGCGCCACTAATGTTCTGGGC-TTTAGCG
* *
25651825 GCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAA
129 GCGTTTTTATCTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTAACTAAGCGCCGCTAA
*
25651890 TGTTCTAGGC
194 TGTTCTAGGA
*
25651900 TTTAGCGGCATTTTTATTGATGCGCCGCTAAT-TCTCAGGCCTTTAGCGACGCTTTT-TTAAAAA
1 TTTAGCGGCATTTTTATTGAAGCGCCGCTAATGT-TCAGGCCTTTAGCGACG-TTTTATT--AAA
* *
25651963 ACGCCGCTAATGCTCT-TCATTTAGTGGCATTTTTA-GAAAGCGCC
62 ACGCCGCTAATGCTCTGGC-TTTAGCGGCATTTTTATGAAAGCGCC
25652007 GCAAAAAAAT
Statistics
Matches: 274, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
203 1 0.00
204 65 0.24
205 174 0.64
206 19 0.07
207 15 0.05
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (203 bp):
TTTAGCGGCATTTTTATTGAAGCGCCGCTAATGTTCAGGCCTTTAGCGACGTTTTATTAAAACGC
CGCTAATGCTCTGGCTTTAGCGGCATTTTTATGAAAGCGCCACTAATGTTCTGGGCTTTAGCGGC
GTTTTTATCTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTAACTAAGCGCCGCTAATG
TTCTAGGA
Found at i:25652386 original size:16 final size:16
Alignment explanation
Indices: 25652365--25652434 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
25652355 CTATAGTATG
25652365 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
25652381 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
25652396 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
25652412 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
25652428 TAGTTTA
1 TAGTTTA
25652435 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:25652393 original size:23 final size:23
Alignment explanation
Indices: 25652367--25652447 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
25652357 ATAGTATGTA
25652367 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
25652390 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
25652414 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
25652437 GTTT-AGGGTTT
1 GTTTAAGGGTTT
25652448 GTTATATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.25
23 16 0.33
24 12 0.25
25 6 0.12
26 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:25656601 original size:21 final size:22
Alignment explanation
Indices: 25656575--25656636 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 22
25656565 CAACTTCAAG
*
25656575 CAGAGGCGGCAGCGAGGA-AAA
1 CAGAGGCTGCAGCGAGGAGAAA
25656596 CAGAGGCTGCAGCGA-GAGAAA
1 CAGAGGCTGCAGCGAGGAGAAA
25656617 CAGAGGCTGCAGCGA-GAGAA
1 CAGAGGCTGCAGCGAGGAGAA
25656637 GCAAAGCAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.37, C:0.19, G:0.40, T:0.03
Consensus pattern (22 bp):
CAGAGGCTGCAGCGAGGAGAAA
Found at i:25662206 original size:18 final size:19
Alignment explanation
Indices: 25662178--25662213 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
25662168 TTTTGCAATT
25662178 ATTTTTGAAAAATATATAA
1 ATTTTTGAAAAATATATAA
25662197 ATTTTT-AAAAATATATA
1 ATTTTTGAAAAATATATA
25662214 TATTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTTTTGAAAAATATATAA
Found at i:25662212 original size:20 final size:19
Alignment explanation
Indices: 25662178--25662215 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25662168 TTTTGCAATT
*
25662178 ATTTTTGAAAAATATATAA
1 ATTTTTAAAAAATATATAA
25662197 ATTTTTAAAAATATATATA
1 ATTTTTAAAAA-ATATATA
25662216 TTAAATGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTTTAAAAAATATATAA
Found at i:25677095 original size:20 final size:19
Alignment explanation
Indices: 25677047--25677095 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
25677037 CAAAAAAGCA
* *
25677047 TAAATTATTAAAATTATAT
1 TAAAATATTAAAACTATAT
*
25677066 TAAAAGTATTAAAAACTATGT
1 TAAAA-TATT-AAAACTATAT
25677087 TAAAATATT
1 TAAAATATT
25677096 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
TAAAATATTAAAACTATAT
Found at i:25682139 original size:17 final size:18
Alignment explanation
Indices: 25682108--25682142 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25682098 GAAAAAACTA
*
25682108 ATAAAAAGTATAATTTAG
1 ATAAAAAGTAGAATTTAG
25682126 ATAAAAA-TAGAATTTAG
1 ATAAAAAGTAGAATTTAG
25682143 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATAAAAAGTAGAATTTAG
Found at i:25683389 original size:24 final size:24
Alignment explanation
Indices: 25683362--25683413 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25683352 TTAGTAAGTC
*
25683362 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25683386 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25683410 AAAT
1 AAAT
25683414 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25685356 original size:24 final size:24
Alignment explanation
Indices: 25685329--25685380 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25685319 TTAGTAAGTC
*
25685329 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25685353 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25685377 AAAT
1 AAAT
25685381 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25685716 original size:18 final size:17
Alignment explanation
Indices: 25685674--25685716 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
25685664 TTTTTAAGTT
*
25685674 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
25685691 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
25685709 TATAATTT
1 TATAATTT
25685717 AGAACACACT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:25689460 original size:45 final size:41
Alignment explanation
Indices: 25689401--25689510 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
25689391 TTTGGTTCGC
* *
25689401 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
25689443 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
25689486 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
25689511 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:25689677 original size:18 final size:17
Alignment explanation
Indices: 25689656--25689690 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25689646 TTATTATTAA
*
25689656 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25689674 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25689691 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25689827 original size:156 final size:157
Alignment explanation
Indices: 25689543--25689858 Score: 589
Period size: 156 Copynumber: 2.0 Consensus size: 157
25689533 TAGAATACCC
*
25689543 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
25689608 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
25689673 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
25689699 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
25689764 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
25689829 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
25689856 TTA
1 TTA
25689859 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 148 0.95
157 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:25689829 original size:16 final size:16
Alignment explanation
Indices: 25689792--25689833 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25689782 TTAATCATAT
*
25689792 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25689808 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25689823 TTAAAATATAT
1 TTAAAATATAT
25689834 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25689840 original size:14 final size:15
Alignment explanation
Indices: 25689801--25689842 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25689791 TTTAAACATA
*
25689801 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25689816 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25689830 A-TATAATTTAATA
1 ATTATAATTAAATA
25689843 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25689892 original size:61 final size:60
Alignment explanation
Indices: 25689827--25690014 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
25689817 TTATAATTAA
25689827 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATACGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
* * * * * * * *
25689888 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTATTA-AATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTA-TAGAATTTACTCA-AATCA
*
25689946 A
60 T
25689947 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
25690008 AATATAT
1 AATATAT
25690015 GATACTGTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 14 0.15
61 35 0.37
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAGAATTTACTCAAATCAT
Found at i:25689929 original size:120 final size:121
Alignment explanation
Indices: 25689790--25690080 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
25689780 ATTTAATCAT
*
25689790 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
25689855 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
25689912 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
25689975 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * *
25690031 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
25690081 AATAATTTAA
Statistics
Matches: 162, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
119 7 0.04
120 150 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:25689960 original size:14 final size:15
Alignment explanation
Indices: 25689911--25689962 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25689901 GTAAAATATA
25689911 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25689926 TATTAAATATATTAT
1 AATTAAATATATTAT
25689941 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25689954 AATTTAATA
1 AATTAAATA
25689963 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25690174 original size:24 final size:25
Alignment explanation
Indices: 25690128--25690175 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
25690118 TATGAATTTG
25690128 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
25690154 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
25690176 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:25690180 original size:92 final size:92
Alignment explanation
Indices: 25690084--25690310 Score: 239
Period size: 92 Copynumber: 2.5 Consensus size: 92
25690074 GATTTAAAAT
* * *
25690084 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
*
25690146 TTATTACATATAATTTAATAATTAATATTA
64 -TATTAAATATAATTTAATAATTAATATTA
* * * * *
25690176 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
25690241 TTAAATATAATTTAAT-AGTGATA-TA
66 TTAAATATAATTTAATAATTAATATTA
* * * * *
25690266 TAATTTCATAAAATTCTTAATAATAAAATGTTTTATATGAATTTA
1 -AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTA
25690311 CTAAAATCAA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
90 2 0.02
91 45 0.39
92 61 0.53
93 8 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTA
Found at i:25690310 original size:91 final size:92
Alignment explanation
Indices: 25690118--25690310 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
25690108 AATTATATTT
* * * *
25690118 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
25690183 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
25690210 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
25690272 CATAAAATTCTTAATAATAAAATGTT-TTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
25690301 TATGAATTTA
1 TATGAATTTA
25690311 CTAAAATCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
90 2 0.02
91 38 0.42
92 48 0.53
93 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:25695145 original size:13 final size:13
Alignment explanation
Indices: 25695127--25695153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25695117 TAAAAACAAC
25695127 TATATTGTTTAAA
1 TATATTGTTTAAA
25695140 TATATTGTTTAAA
1 TATATTGTTTAAA
25695153 T
1 T
25695154 TAAACCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:25701847 original size:30 final size:31
Alignment explanation
Indices: 25701806--25701867 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
25701796 AAATTTTATA
*
25701806 TATTATTTTTTTAACAATATTT-TT-TATTTT
1 TATTATATTTTTAA-AATATTTATTATATTTT
*
25701836 TATTATATTTTTAAATTATTTATTATATTTT
1 TATTATATTTTTAAAATATTTATTATATTTT
25701867 T
1 T
25701868 TAAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 15 0.54
31 7 0.25
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (31 bp):
TATTATATTTTTAAAATATTTATTATATTTT
Found at i:25701859 original size:20 final size:18
Alignment explanation
Indices: 25701822--25701867 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
25701812 TTTTTTAACA
*
25701822 ATATTTTTTATTTTTATT
1 ATATTTTTAATTTTTATT
25701840 ATATTTTTAAATTATTTATT
1 ATATTTTT-AATT-TTTATT
25701860 ATATTTTT
1 ATATTTTT
25701868 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 14 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATATTTTTAATTTTTATT
Found at i:25706930 original size:30 final size:28
Alignment explanation
Indices: 25706891--25706952 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
25706881 ATGGATTTAA
* *
25706891 ATTACTTATTATTTAAGTACATATATATTT
1 ATTACTTATTA-TTAAGTA-AAAGATATTT
*
25706921 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
25706949 ATTA
1 ATTA
25706953 ATTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 7 0.24
30 10 0.34
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:25707094 original size:19 final size:20
Alignment explanation
Indices: 25707061--25707099 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25707051 ACATGTGTAA
25707061 TAATAATAAATATATGTATT
1 TAATAATAAATATATGTATT
25707081 TAATAATAAA-ATATGTATT
1 TAATAATAAATATATGTATT
25707100 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATAATAAATATATGTATT
Found at i:25708926 original size:18 final size:18
Alignment explanation
Indices: 25708903--25708938 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25708893 AAAAAGGTTT
*
25708903 AAAAAGTTAGATTTGTAA
1 AAAAAGTTAAATTTGTAA
25708921 AAAAAGTTAAATTTGTAA
1 AAAAAGTTAAATTTGTAA
25708939 TGTTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (18 bp):
AAAAAGTTAAATTTGTAA
Found at i:25709364 original size:20 final size:18
Alignment explanation
Indices: 25709322--25709370 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
25709312 TATTGAAAAA
*
25709322 TATATATTTTTATAAATT
1 TATATATTTTTAAAAATT
25709340 T-TATACTTTTTAAATAATT
1 TATATA-TTTTTAAA-AATT
25709359 TATATAATTTTT
1 TATAT-ATTTTT
25709371 TTGAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 5 0.19
20 8 0.31
21 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATATTTTTAAAAATT
Found at i:25710769 original size:72 final size:72
Alignment explanation
Indices: 25710652--25710796 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
25710642 AAGATTTTTT
25710652 TAAGTATTTTGATTAAATACTCGTATTTAAATCTTGTGATGGCATCTTTAACGAAAAAATATATA
1 TAAGTATTTTGATTAAATACTCGTATTTAAATCTTGTGATGGCATCTTTAACGAAAAAATATATA
25710717 TCAATTG
66 TCAATTG
*
25710724 TAAGTATTTTGATTAAATACTCGTATTTAAATCTTGTGATGGCATCTTTAACGAAAATATATATA
1 TAAGTATTTTGATTAAATACTCGTATTTAAATCTTGTGATGGCATCTTTAACGAAAAAATATATA
*
25710789 TCAGTTG
66 TCAATTG
25710796 T
1 T
25710797 GCCAAAAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (72 bp):
TAAGTATTTTGATTAAATACTCGTATTTAAATCTTGTGATGGCATCTTTAACGAAAAAATATATA
TCAATTG
Found at i:25714583 original size:15 final size:15
Alignment explanation
Indices: 25714563--25714593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25714553 GCTAAAACTC
*
25714563 TTTTAATAATGTTTT
1 TTTTAATAATATTTT
25714578 TTTTAATAATATTTT
1 TTTTAATAATATTTT
25714593 T
1 T
25714594 AACATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTAATAATATTTT
Found at i:25717855 original size:15 final size:15
Alignment explanation
Indices: 25717837--25717875 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 15
25717827 CAAAATATAC
25717837 AAATTTAAAAATAAA
1 AAATTTAAAAATAAA
25717852 AAATAATTAAAAATAAA
1 AAAT--TTAAAAATAAA
25717869 ATAATTT
1 A-AATTT
25717876 CTTTTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.19
16 2 0.10
17 12 0.57
18 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTTAAAAATAAA
Found at i:25719357 original size:21 final size:21
Alignment explanation
Indices: 25719330--25719372 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
25719320 AATTTACTAT
* *
25719330 AATTTTTAAAAAATATTATTGA
1 AATTTTCAAAAAA-AGTATTGA
25719352 AATTTTCAAAAAAAGTATTGA
1 AATTTTCAAAAAAAGTATTGA
25719373 TTGTCGATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTTCAAAAAAAGTATTGA
Found at i:25720458 original size:7 final size:7
Alignment explanation
Indices: 25720446--25720478 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
25720436 GACTTACAAA
25720446 AAAAATT
1 AAAAATT
25720453 AAAAATT
1 AAAAATT
25720460 AAAAATT
1 AAAAATT
25720467 AAAAATT
1 AAAAATT
25720474 AAAAA
1 AAAAA
25720479 ATAATAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:25721652 original size:24 final size:23
Alignment explanation
Indices: 25721583--25721652 Score: 56
Period size: 24 Copynumber: 3.1 Consensus size: 23
25721573 TTATAATTAT
* *
25721583 TTTTAAATGTATAATTATCAAAA
1 TTTTAAATGTATAATTATCTAAC
* * *
25721606 TTTT-TAT-TA-AATTATAATTAC
1 TTTTAAATGTATAATTAT-CTAAC
25721627 TTTTAAATGTATAATTATCGTAAC
1 TTTTAAATGTATAATTATC-TAAC
25721651 TT
1 TT
25721653 ATATTTTATG
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 4 0.12
23 6 0.18
24 11 0.32
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAAATGTATAATTATCTAAC
Found at i:25721668 original size:44 final size:44
Alignment explanation
Indices: 25721569--25721657 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
25721559 AATGTAAATG
* * *
25721569 TAAATTATAATTATTTTTAAATGTATAATTATCAAAATTTTTAT
1 TAAATTATAATTACTTTTAAATGTATAATTATCAAAACTTATAT
**
25721613 TAAATTATAATTACTTTTAAATGTATAATTATCGTAACTTATAT
1 TAAATTATAATTACTTTTAAATGTATAATTATCAAAACTTATAT
25721657 T
1 T
25721658 TTATGTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (44 bp):
TAAATTATAATTACTTTTAAATGTATAATTATCAAAACTTATAT
Found at i:25722539 original size:125 final size:125
Alignment explanation
Indices: 25722316--25722653 Score: 606
Period size: 125 Copynumber: 2.7 Consensus size: 125
25722306 CGCCTCTGGT
* * *
25722316 CAAATAGTATAAAATAGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
25722381 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATGATTTTTTTCTGAT-TTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTT-TGAG
*
25722441 TAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
25722506 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTTTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTTTGAG
25722566 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
25722631 TGAACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
25722654 CAAGTTTGGG
Statistics
Matches: 205, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 201 0.98
126 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTCTGATGTTTTTGAG
Found at i:25724025 original size:188 final size:188
Alignment explanation
Indices: 25723708--25724084 Score: 754
Period size: 188 Copynumber: 2.0 Consensus size: 188
25723698 ACCAACAAGG
25723708 ATAGTTTTATTGGTGCTTTGAAACAGCATAGCATCAAAAATGGCGTTAATTACCACGTCGTTAAA
1 ATAGTTTTATTGGTGCTTTGAAACAGCATAGCATCAAAAATGGCGTTAATTACCACGTCGTTAAA
25723773 TCAAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCATATGTTCATGGAAAATCGT
66 TCAAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCATATGTTCATGGAAAATCGT
25723838 CGCCTCGTTAAGGAAAAGGACGGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCACAT
131 CGCCTCGTTAAGGAAAAGGACGGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCACAT
25723896 ATAGTTTTATTGGTGCTTTGAAACAGCATAGCATCAAAAATGGCGTTAATTACCACGTCGTTAAA
1 ATAGTTTTATTGGTGCTTTGAAACAGCATAGCATCAAAAATGGCGTTAATTACCACGTCGTTAAA
25723961 TCAAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCATATGTTCATGGAAAATCGT
66 TCAAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCATATGTTCATGGAAAATCGT
25724026 CGCCTCGTTAAGGAAAAGGACGGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCACAT
131 CGCCTCGTTAAGGAAAAGGACGGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCACAT
25724084 A
1 A
25724085 CATGTTTTGT
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (188 bp):
ATAGTTTTATTGGTGCTTTGAAACAGCATAGCATCAAAAATGGCGTTAATTACCACGTCGTTAAA
TCAAAATCTGATAAGTTTGAGGCGAAGTGTGCGGTGCAAGACGGCATATGTTCATGGAAAATCGT
CGCCTCGTTAAGGAAAAGGACGGGGTTGTGGGAGATAAAAAAGTACAAAGGTCCACAT
Found at i:25726080 original size:55 final size:56
Alignment explanation
Indices: 25725954--25726087 Score: 146
Period size: 56 Copynumber: 2.4 Consensus size: 56
25725944 ATCTAATATT
* * *
25725954 ATGTAAAATTATTAAGCCAAAAATTTTTCTTAATGGTTAGAAAAATTTATCAAATA
1 ATGTAAAATTATTAAGCCAAAAATTTGTCTTAATGGTTAGAAAAATGTATCAAAAA
* * * * ** *
25726010 ATCTCAAATTTTTAAGTCCAAAAA-TTGTGTTAATGGTTATTAAAGTGT-TCAAAAA
1 ATGTAAAATTATTAAG-CCAAAAATTTGTCTTAATGGTTAGAAAAATGTATCAAAAA
*
25726065 ATGTAAAATTATTAAGCAAAAAA
1 ATGTAAAATTATTAAGCCAAAAA
25726088 AATATGTAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
54 6 0.10
55 19 0.30
56 31 0.49
57 7 0.11
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (56 bp):
ATGTAAAATTATTAAGCCAAAAATTTGTCTTAATGGTTAGAAAAATGTATCAAAAA
Found at i:25726096 original size:26 final size:26
Alignment explanation
Indices: 25726060--25726116 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
25726050 TAAAGTGTTC
25726060 AAAAA-ATGTAAAATTATTAAGCAAA
1 AAAAATATGTAAAATTATTAAGCAAA
*
25726085 AAAAATATGTAAAATTATTAAGCCAA
1 AAAAATATGTAAAATTATTAAGCAAA
25726111 AAAAAT
1 AAAAAT
25726117 TTAGGTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (26 bp):
AAAAATATGTAAAATTATTAAGCAAA
Found at i:25726165 original size:28 final size:27
Alignment explanation
Indices: 25726114--25726555 Score: 533
Period size: 28 Copynumber: 15.4 Consensus size: 27
25726104 AAGCCAAAAA
* *
25726114 AATTTAGGTTAGTTTTGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTAATT
*
25726142 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGG-TTTTAATT
25726171 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
* *
25726199 AATTTAGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAG-GGTTTTAATT
25726227 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTAATT
25726255 AATTTAGGTTAGAGTTAGGGTTTTAAATT
1 AATTTAGGTTAGA-TTAGGGTTTT-AATT
*
25726284 AATTTAGGTTAGATTAGAGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
* *
25726312 AATTTAGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAG-GGTTTTAATT
25726340 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTAATT
* *
25726368 AATTTAGTTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTT-AATT
25726397 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTT-AATT
*
25726425 AATTTAGGTTAAGGTTAGATTAGGGTTTTTAGTT
1 AA--T---TT-AGGTTAGATTAGGG-TTTTAATT
25726459 AATTTAGGTTAGATTTAGGGTTTTTAATT
1 AATTTAGGTTAGA-TTAGGG-TTTTAATT
* *
25726488 AATTTAGGTCAGGGTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGG-TTTTAATT
*
25726517 AATTTAGGTTAGATCAGGGTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTAATT
25726544 AATTTAGGTTAG
1 AATTTAGGTTAG
25726556 GGTTAGGTTA
Statistics
Matches: 372, Mismatches: 23, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
27 26 0.07
28 187 0.50
29 131 0.35
30 2 0.01
32 1 0.00
33 2 0.01
34 19 0.05
35 4 0.01
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (27 bp):
AATTTAGGTTAGATTAGGGTTTTAATT
Found at i:25726259 original size:113 final size:113
Alignment explanation
Indices: 25726114--25726555 Score: 715
Period size: 113 Copynumber: 3.9 Consensus size: 113
25726104 AAGCCAAAAA
* * * *
25726114 AATTTAGGTTAGTTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
25726179 TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
66 TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
*
25726227 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGAGTTAGGGTTTTAAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
*
25726292 TTAGATTAGAGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
66 TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
*
25726340 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGTTTAGGGTTAGGGTTTTAAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
*
25726405 TTAGATTAGGGTTTTAAATTAATTTAGGTTAAGGTTAGATTAGGGTTTTTAGTT
66 TTAGATTAGGGTTTTAAATTAA--T---TT-AGGTTAGATTAGAGTTTTTAGTT
* *
25726459 AATTTAGGTTAGATTTAGGGTTTTTAATTAATTTAGGTCAGGGTTAGGGTTTTTAATTAATTTAG
1 AATTTAGGTTAGA-TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAG
*
25726524 GTTAGATCAGGGTTTT-AATTAATTTAGGTTAG
65 GTTAGATTAGGGTTTTAAATTAATTTAGGTTAG
25726556 GGTTAGGTTA
Statistics
Matches: 308, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
113 198 0.64
114 2 0.01
115 1 0.00
117 1 0.00
118 2 0.01
119 41 0.13
120 63 0.20
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (113 bp):
AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
TTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTT
Found at i:25726273 original size:85 final size:84
Alignment explanation
Indices: 25726114--25726555 Score: 607
Period size: 85 Copynumber: 5.1 Consensus size: 84
25726104 AAGCCAAAAA
* * *
25726114 AATTTAGGTTAGTTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
25726179 TTAGATTAGGGTTTTAAATT
65 TTAGATTAGGGTTTTAAATT
* *
25726199 AATTTAGGTTAGATTAGAGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
25726264 TAGAGTTAGGGTTTTAAATT
66 TAGA-TTAGGGTTTTAAATT
* * * *
25726284 AATTTAGGTTAGATTAGAGTTTTAAATTAATTTAGGTTAGATTAGAGTTTTTAGTTAATTTAGGT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
*
25726349 TAGATTAGGGTTTTTAATT
66 TAGATTAGGGTTTTAAATT
* * * *
25726368 AATTTAGTTTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGG
1 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAA--T---
* *
25726433 TTAAGGTTAGATTAGGGTTTTTAGTT
60 TT-AGGTTAGATTAGGGTTTTAAATT
* *
25726459 AATTTAGGTTAGATTTAGGGTTTTTAATTAATTTAGGTCAGGGTTAGGGTTTTTAATTAATTTAG
1 AATTTAGGTTAGA-TTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAG
*
25726524 GTTAGATCAGGGTTTT-AATT
64 GTTAGATTAGGGTTTTAAATT
25726544 AATTTAGGTTAG
1 AATTTAGGTTAG
25726556 GGTTAGGTTA
Statistics
Matches: 322, Mismatches: 25, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
84 53 0.16
85 172 0.53
86 17 0.05
87 3 0.01
90 4 0.01
91 56 0.17
92 17 0.05
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (84 bp):
AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
TAGATTAGGGTTTTAAATT
Found at i:25726664 original size:26 final size:25
Alignment explanation
Indices: 25726633--25726681 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
25726623 CTTAAAAAAT
25726633 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
25726659 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
25726682 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:25726822 original size:24 final size:24
Alignment explanation
Indices: 25726795--25726847 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
25726785 GGCGGTTGTT
*
25726795 CTTCCTCTGGTGGTGATTGTGGTC
1 CTTCCTCCGGTGGTGATTGTGGTC
* *
25726819 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTC
25726843 CTTCC
1 CTTCC
25726848 GGTTCCGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.02, C:0.25, G:0.32, T:0.42
Consensus pattern (24 bp):
CTTCCTCCGGTGGTGATTGTGGTC
Found at i:25728915 original size:10 final size:10
Alignment explanation
Indices: 25728896--25728945 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
25728886 ACCACTAATG
25728896 AAAATATAAA
1 AAAATATAAA
*
25728906 AAAATTTAAA
1 AAAATATAAA
* * *
25728916 ATTATTTTAAA
1 A-AAATATAAA
25728927 AAAATATAAA
1 AAAATATAAA
25728937 AAAATATAA
1 AAAATATAA
25728946 TTATTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATATAAA
Found at i:25728931 original size:31 final size:29
Alignment explanation
Indices: 25728896--25728955 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
25728886 ACCACTAATG
25728896 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAA--TAAAATTATTTTAAA
*
25728927 AAAATATAAAAAAATATAATTATTTTAAA
1 AAAATATAAAAAAATAAAATTATTTTAAA
25728956 TAATGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 14 0.50
31 14 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAAAAAATAAAATTATTTTAAA
Found at i:25729029 original size:22 final size:22
Alignment explanation
Indices: 25729004--25729054 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
25728994 AAATATGAGT
* *
25729004 TTGAGAGAATTTTGGAAGGAAG
1 TTGAGAGAATTTTAGAAGGAAA
25729026 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
25729048 TTGAGAG
1 TTGAGAG
25729055 GATTAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:25730702 original size:23 final size:24
Alignment explanation
Indices: 25730655--25730700 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25730645 GAAAAATATT
25730655 AAATATATATATTTTGTATTTTTA
1 AAATATATATATTTTGTATTTTTA
*
25730679 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTGTATTTT
25730701 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AAATATATATATTTTGTATTTTTA
Found at i:25730830 original size:59 final size:59
Alignment explanation
Indices: 25730767--25730943 Score: 255
Period size: 66 Copynumber: 2.9 Consensus size: 59
25730757 TCAAGTTTGT
*
25730767 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
25730826 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAA-T--T--AA-T-ACAATTAATAATTTGATAA
25730891 A
59 A
* * *
25730892 TTTACTAATTAAATGTTAGATTTTATTATAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
25730944 AATAATTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
59 45 0.42
60 2 0.02
61 2 0.02
62 1 0.01
63 1 0.01
64 2 0.02
65 2 0.02
66 52 0.49
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:25730880 original size:66 final size:66
Alignment explanation
Indices: 25730797--25730965 Score: 293
Period size: 66 Copynumber: 2.5 Consensus size: 66
25730787 TTTTGTTACA
25730797 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATT-A-ACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
25730862 AAT
64 AAT
* *
25730865 ACAATTAACAATTAATAATTTGATAAATTTACTAATTAAATGTTAGATTTTATTATAACAATTAA
1 ACAATTAACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAA
25730930 T
66 T
*
25730931 ACAATTAACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAACAATTAATAATTTGATAAATTTACTAA
25730966 CAATTAATTT
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
66 91 0.93
67 1 0.01
68 6 0.06
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (66 bp):
ACAATTAACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAA
T
Found at i:25730975 original size:16 final size:16
Alignment explanation
Indices: 25730954--25730995 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
25730944 AATAATTTGA
*
25730954 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
25730970 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
25730986 TAGTTTTAAT
1 TAATTTTAAT
25730996 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:25730979 original size:22 final size:23
Alignment explanation
Indices: 25730969--25731024 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
25730959 TTACTAACAA
* * *
25730969 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
25730991 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
25731014 TTAATTTTAAT
1 TTAATTTTAAT
25731025 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:25731545 original size:19 final size:19
Alignment explanation
Indices: 25731523--25731559 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25731513 AGAAATTGAT
25731523 AAGAAG-AAAAG--AAAGA
1 AAGAAGAAAAAGAAAAAGA
25731539 AAGAAGAAAAAGAAAAAGA
1 AAGAAGAAAAAGAAAAAGA
25731558 AA
1 AA
25731560 AAAGTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
19 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAGAAAAAGAAAAAGA
Found at i:25751188 original size:17 final size:18
Alignment explanation
Indices: 25751111--25751202 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
25751101 CCCAACTACT
*
25751111 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
25751129 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
25751147 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
25751165 ATATACGTAAATAGT-GC
1 GTATACGTGAATAGTACC
25751182 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
25751200 GTA
1 GTA
25751203 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
17 14 0.22
18 50 0.78
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:25765737 original size:59 final size:59
Alignment explanation
Indices: 25765674--25765820 Score: 188
Period size: 59 Copynumber: 2.5 Consensus size: 59
25765664 CAAAAAGCTT
*
25765674 AGTTTAGATACTTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGACGCT-A
1 AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGA-GCTCA
* * * * * *
25765733 AGTTTAGATACCCAATCGGATAAAAAAAGGTTTAAGTATCAAATTGAACCTTGAGGTCA
1 AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGAGCTCA
** *
25765792 AGTTTAGGCACCTAATTAGACAAAAAAAA
1 AGTTTAGATACCTAATTGGACAAAAAAAA
25765821 AAAACACATT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
58 2 0.03
59 71 0.97
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (59 bp):
AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGAGCTCA
Found at i:25766245 original size:20 final size:20
Alignment explanation
Indices: 25766198--25766246 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
25766188 TAAACTAATT
*
25766198 TTTAATTAATACTTATATAA
1 TTTAATAAATACTTATATAA
*
25766218 TTAAAATAAATA-TTATATAAA
1 TT-TAATAAATACTTATAT-AA
25766239 TTTAATAA
1 TTTAATAA
25766247 TCGGACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATAAATACTTATATAA
Found at i:25766733 original size:25 final size:26
Alignment explanation
Indices: 25766701--25766765 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
25766691 TTTATAAATA
*
25766701 AATTTATTTAAAATTAGTGTTTT-TT
1 AATTTATTTAAAATTAATGTTTTGTT
*
25766726 ATTTTATTT-AAATTAATGTTTTGTT
1 AATTTATTTAAAATTAATGTTTTGTT
25766751 AATTTATTTATAAAT
1 AATTTATTTA-AAAT
25766766 AATAAATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.35
25 18 0.53
27 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
AATTTATTTAAAATTAATGTTTTGTT
Found at i:25767992 original size:19 final size:20
Alignment explanation
Indices: 25767960--25767997 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25767950 AACCTATAAA
*
25767960 TATAGAAAATTATATAAAAG
1 TATAGAAAAATATATAAAAG
25767980 TATA-AAAAATATATAAAA
1 TATAGAAAAATATATAAAA
25767998 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TATAGAAAAATATATAAAAG
Found at i:25768034 original size:12 final size:11
Alignment explanation
Indices: 25768012--25768061 Score: 75
Period size: 12 Copynumber: 4.5 Consensus size: 11
25768002 TTAAAATGAT
25768012 GAAAATTATAA
1 GAAAATTATAA
25768023 GAAAATTTATAA
1 GAAAA-TTATAA
25768035 GAAAATATATAA
1 GAAAAT-TATAA
25768047 GAAAATTAT-A
1 GAAAATTATAA
25768057 GAAAA
1 GAAAA
25768062 GTTTGTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.16
11 9 0.24
12 22 0.59
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (11 bp):
GAAAATTATAA
Found at i:25768059 original size:10 final size:10
Alignment explanation
Indices: 25767960--25768061 Score: 75
Period size: 10 Copynumber: 9.9 Consensus size: 10
25767950 AACCTATAAA
25767960 TATAGAAAAT
1 TATAGAAAAT
* *
25767970 TATATAAAAG
1 TATAGAAAAT
*
25767980 TATAAAAAAT
1 TATAGAAAAT
25767990 ATATA-AAAAT
1 -TATAGAAAAT
* *
25768000 AAT-TAAAAT
1 TATAGAAAAT
*
25768009 GAT-GAAAAT
1 TATAGAAAAT
25768018 TATAAGAAAATT
1 TAT-AGAAAA-T
25768030 TATAAGAAAAT
1 TAT-AGAAAAT
25768041 ATATAAGAAAAT
1 -TAT-AGAAAAT
25768053 TATAGAAAA
1 TATAGAAAA
25768062 GTTTGTTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
9 16 0.21
10 27 0.35
11 13 0.17
12 22 0.28
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (10 bp):
TATAGAAAAT
Found at i:25769016 original size:4 final size:4
Alignment explanation
Indices: 25769007--25769043 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
25768997 TTTAGTGTTA
25769007 AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT ATAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AA
25769044 TTTTACTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 4 0.13
4 22 0.73
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:25787088 original size:125 final size:125
Alignment explanation
Indices: 25786864--25787242 Score: 614
Period size: 125 Copynumber: 3.0 Consensus size: 125
25786854 GATAAAATCA
* *
25786864 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACATGGACGCGCTTTTGCTACATT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
25786929 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
25786989 AGGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
25787054 AGGTCCTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT--AAAAAACGCTTC
*
25787116 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * ** * *
25787181 TGGTCCTAAAAAAATAATTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
25787241 AA
1 AA
25787243 TCGACTAGCT
Statistics
Matches: 235, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
125 120 0.51
127 115 0.49
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:25787172 original size:127 final size:127
Alignment explanation
Indices: 25786864--25787234 Score: 611
Period size: 127 Copynumber: 2.9 Consensus size: 127
25786854 GATAAAATCA
* *
25786864 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACATGGACGCGCTTTTGCTACATT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
25786929 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAT--AAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
* *
25786989 AGGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
25787054 AGGTCCTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
*
25787116 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * ** *
25787181 TGGTCCTAAAAAAATAATTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAAAA
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAA
25787235 CACTTCAATC
Statistics
Matches: 228, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
125 107 0.47
127 121 0.53
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (127 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
Found at i:25787905 original size:51 final size:51
Alignment explanation
Indices: 25787834--25787930 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
25787824 AGTAATTAAC
*
25787834 AATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGGGCAAATTGAAATTA
1 AATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATTA
* * *
25787885 AATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
25787931 GAGGAAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATTA
Found at i:25787919 original size:22 final size:22
Alignment explanation
Indices: 25787894--25787947 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
25787884 AAATATGGAT
25787894 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
25787916 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
25787938 TTGAGA-AAAT
1 TTGAGAGAAAT
25787948 AATTGAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:25791694 original size:25 final size:23
Alignment explanation
Indices: 25791660--25791710 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
25791650 ATTATTTACG
*
25791660 ATTTTAATATTTAATTTTAAAAGTT
1 ATTTTAATA-TAAATTTTAAAA-TT
*
25791685 ATTTTGATATAAATTTTAAAATT
1 ATTTTAATATAAATTTTAAAATT
25791708 ATT
1 ATT
25791711 AAGTCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTAATATAAATTTTAAAATT
Found at i:25795536 original size:11 final size:13
Alignment explanation
Indices: 25795512--25795543 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25795502 TAGTTTATTA
25795512 ATATTTTAATATG
1 ATATTTTAATATG
25795525 AT-TTTTAA-ATG
1 ATATTTTAATATG
25795536 ATATTTTA
1 ATATTTTA
25795544 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:25797358 original size:3 final size:3
Alignment explanation
Indices: 25797350--25797375 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25797340 TTACAAATAA
25797350 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
25797376 AGTTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:25799609 original size:25 final size:24
Alignment explanation
Indices: 25799570--25799635 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 24
25799560 GGGTCACCGA
* *
25799570 TTTCAGCTCTTATGAGCTTCCTGT
1 TTTCAGCTCATATGAGCTTACTGT
*
25799594 TATTCAGCTCACATGAGCTTACTGT
1 T-TTCAGCTCATATGAGCTTACTGT
*
25799619 TTACAGCTCATATGAGC
1 TTTCAGCTCATATGAGC
25799636 ATACATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 15 0.42
25 21 0.58
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (24 bp):
TTTCAGCTCATATGAGCTTACTGT
Found at i:25801127 original size:25 final size:24
Alignment explanation
Indices: 25801078--25801130 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
25801068 GTCATTAGGG
* * *
25801078 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAACTCGTATGAGC
25801102 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACT-AACTCGTATGAGC
25801127 TTAC
1 TTAC
25801131 TGTTATTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (24 bp):
TTACCGATACTAACTCGTATGAGC
Found at i:25801620 original size:23 final size:23
Alignment explanation
Indices: 25801594--25801644 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
25801584 GAAAGGTATG
25801594 TGTAATATCCC-GAAAATTACTAC
1 TGTAATA-CCCTGAAAATTACTAC
*
25801617 TGTAATACCCTGAAAATTGCTAC
1 TGTAATACCCTGAAAATTACTAC
*
25801640 AGTAA
1 TGTAA
25801645 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (23 bp):
TGTAATACCCTGAAAATTACTAC
Found at i:25807776 original size:38 final size:39
Alignment explanation
Indices: 25807698--25807786 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 39
25807688 CGACTTTGAG
*
25807698 TCGATAAGACACTGGGTGTCAATTTACTACTTCGGATTAA
1 TCGATAAGACACTGGGTGCCAATTTA-TACTTCGGATTAA
* *
25807738 TTCGATAAGGCACTGGGTGCCAA-TT-TACTTCGGTTTAA
1 -TCGATAAGACACTGGGTGCCAATTTATACTTCGGATTAA
*
25807776 TCGATGAGACA
1 TCGATAAGACA
25807787 TTGTGTGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 9 0.21
38 12 0.28
40 2 0.05
41 20 0.47
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (39 bp):
TCGATAAGACACTGGGTGCCAATTTATACTTCGGATTAA
Found at i:25810602 original size:13 final size:15
Alignment explanation
Indices: 25810571--25810606 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
25810561 GAAAAGAGAA
25810571 AAAAATA-AAGAAAG
1 AAAAATAGAAGAAAG
25810585 AAAAATAGAA-AAAG
1 AAAAATAGAAGAAAG
25810599 -AAAATAGA
1 AAAAATAGA
25810607 TATACCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAGAAAG
Found at i:25811522 original size:95 final size:95
Alignment explanation
Indices: 25811405--25811598 Score: 289
Period size: 95 Copynumber: 2.0 Consensus size: 95
25811395 AAGATCTGAA
**
25811405 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTCAATATACTCCACTGTA
*
25811470 GTCACAGGGAGGTAAAATCTGTCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTTG
** * * * *
25811500 ATCTTCAATCTATTCTTCTGCCAATCAGGGAGATAGAATTATCAGCTTCACTGTACTCTACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTCAATATACTCCACTGTA
**
25811565 GTCGTAGGGAGGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTTG
25811595 ATCT
1 ATCT
25811599 ACTCCGCTGC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCAGCTTCAATATACTCCACTGTA
GTCACAGGGAGGTAAAATCTGCCATCTTTG
Found at i:25811770 original size:67 final size:67
Alignment explanation
Indices: 25811661--25811786 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
25811651 GCCAGTGCAG
* * *
25811661 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTCAAGGC
1 GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTCAAGGC
25811726 AA
66 AA
* *
25811728 GAAGGCAAGATCTATTGTCTTCAACTAGCTCCACCACTACCGAGAGAGGCAAGGTTTGT
1 GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGT
25811787 GTCTTCGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (67 bp):
GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTCAAGGC
AA
Found at i:25811822 original size:44 final size:43
Alignment explanation
Indices: 25811774--25812014 Score: 179
Period size: 44 Copynumber: 5.5 Consensus size: 43
25811764 CTACCGAGAG
* * *
25811774 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCAACCAGCTTC-CTGTCAATGCAGGA
* * * * *
25811818 AGGCAAGATCTGTTGTCTTCAACCAGC-TCC-ATCACA-ACCGAGA
1 AGGCAAGGTTTG-TGTCTTCAACCAGCTTCCTGTCA-ATGCAG-GA
*
25811861 GAGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCAACCAGCTTC-CTGTCAATGCAGGA
* * * * *
25811906 AGGCAAGATCTTTTGTCTTCAACCAGC-TCC-ATCACA-ACCGAGA
1 AGGCAAGGT-TTGTGTCTTCAACCAGCTTCCTGTCA-ATGCAG-GA
*
25811949 GAGGCAAGGTTTGTGTCTTCGACCAGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCAACCAGCTTC-CTGTCAATGCAGGA
* *
25811994 AGGCAAGATCTGTTGTCTTCA
1 AGGCAAGGTTTG-TGTCTTCA
25812015 CTGATCTATT
Statistics
Matches: 151, Mismatches: 29, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
42 10 0.07
43 36 0.24
44 54 0.36
45 41 0.27
46 10 0.07
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (43 bp):
AGGCAAGGTTTGTGTCTTCAACCAGCTTCCTGTCAATGCAGGA
Found at i:25811866 original size:88 final size:88
Alignment explanation
Indices: 25811717--25812014 Score: 497
Period size: 88 Copynumber: 3.4 Consensus size: 88
25811707 AGGCAAGGTT
* * * * * *
25811717 TGTCAAGGCAAGAAGGCAAGATCTATTGTCTTCAACTAGCTCCACCACTACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
25811782 TTTGTGTCTTCGATCTGCTTCGC
66 TTTGTGTCTTCGACCTGCTTCGC
25811805 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
* *
25811870 TTTGTGTCTTCAACCTGCTTCAC
66 TTTGTGTCTTCGACCTGCTTCGC
*
25811893 TGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
25811958 TTTGTGTCTTCGACCAGCTTCGC
66 TTTGTGTCTTCGACCTGCTTCGC
25811981 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
25812015 CTGATCTATT
Statistics
Matches: 196, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 196 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (88 bp):
TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
TTTGTGTCTTCGACCTGCTTCGC
Found at i:25813118 original size:21 final size:21
Alignment explanation
Indices: 25813092--25813138 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25813082 GGTAGAGCAA
25813092 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
25813113 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
25813134 GATCA
1 GATCA
25813139 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:25814095 original size:198 final size:198
Alignment explanation
Indices: 25813752--25814146 Score: 772
Period size: 198 Copynumber: 2.0 Consensus size: 198
25813742 TCATGCCAGT
*
25813752 CCTTATTCACCTCTAGGTAATTCGGTGACAAAATGTGGTGTCTGCTTCTGAATTGATTTCAGACC
1 CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTGAATTGATTTCAGACC
25813817 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
66 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
25813882 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
131 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
25813947 AGC
196 AGC
*
25813950 CCTTGTTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTGAATTGATTTCAGACC
1 CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTGAATTGATTTCAGACC
25814015 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
66 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
25814080 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
131 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
25814145 AG
196 AG
25814147 TCTTTGGTAA
Statistics
Matches: 195, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (198 bp):
CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTGAATTGATTTCAGACC
TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
AGC
Found at i:25814281 original size:6 final size:6
Alignment explanation
Indices: 25814270--25814311 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
25814260 TTAACCTCTC
*
25814270 CTTTTT CTTTTT CTTTTT CTTTTT -TCTTT -TTTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT
25814312 CCTATTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:25814356 original size:29 final size:29
Alignment explanation
Indices: 25814324--25814381 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
25814314 TATTTTTGAC
*
25814324 TTTGATTTTTTT-TTATTTTTTGATTTTTT
1 TTTGATTTTTTTGAT-TTTTTTGATTTTTT
25814353 TTTGATTTTTTTGATTTTTTTGATTTTTT
1 TTTGATTTTTTTGATTTTTTTGATTTTTT
25814382 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.10, C:0.00, G:0.09, T:0.81
Consensus pattern (29 bp):
TTTGATTTTTTTGATTTTTTTGATTTTTT
Found at i:25814361 original size:18 final size:19
Alignment explanation
Indices: 25814324--25814394 Score: 103
Period size: 18 Copynumber: 3.8 Consensus size: 19
25814314 TATTTTTGAC
25814324 TTTGATTTTTTTTT-ATTT
1 TTTGATTTTTTTTTGATTT
25814342 TTTGATTTTTTTTTGATTTT
1 TTTGATTTTTTTTTGA-TTT
25814362 TTTGA--TTTTTTTGATTT
1 TTTGATTTTTTTTTGATTT
*
25814379 TTTGAATTTTTTTTGA
1 TTTGATTTTTTTTTGA
25814395 GTCTGAACTC
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.16
18 23 0.47
19 10 0.20
20 8 0.16
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (19 bp):
TTTGATTTTTTTTTGATTT
Found at i:25814394 original size:11 final size:9
Alignment explanation
Indices: 25814324--25814391 Score: 77
Period size: 9 Copynumber: 7.3 Consensus size: 9
25814314 TATTTTTGAC
25814324 TTTGATTTT
1 TTTGATTTT
*
25814333 TTT-TTATTT
1 TTTGAT-TTT
25814342 TTTGATTTTTT
1 TTTGA--TTTT
25814353 TTTGATTTT
1 TTTGATTTT
25814362 TTTGATTTT
1 TTTGATTTT
25814371 TTTGA-TTT
1 TTTGATTTT
25814379 TTTGAATTTT
1 TTTG-ATTTT
25814389 TTT
1 TTT
25814392 TGAGTCTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
8 8 0.16
9 28 0.55
10 6 0.12
11 8 0.16
12 1 0.02
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:25815116 original size:21 final size:22
Alignment explanation
Indices: 25815083--25815123 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25815073 TATGTACAAT
*
25815083 ATGATTATGAATGAATGAATGA
1 ATGATTATGAATGAAAGAATGA
25815105 ATGATT-TGAATGAAAGAAT
1 ATGATTATGAATGAAAGAAT
25815124 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGATTATGAATGAAAGAATGA
Found at i:25818816 original size:45 final size:43
Alignment explanation
Indices: 25818730--25818820 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 43
25818720 ATACAGTAAG
25818730 ATAATATATATATATAAAAACTAAAAAACTAAAAATATATATAAT
1 ATAATATATATATATAAAAACTAAAAAACT--AAATATATATAAT
*
25818775 ATAATATA-ATATATAAAAAGCTAATGCAAAACT-AATTTATATAAT
1 ATAATATATATATATAAAAA-CTAA---AAAACTAAATATATATAAT
25818820 A
1 A
25818821 ATGATGAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
44 11 0.27
45 24 0.59
48 6 0.15
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.32
Consensus pattern (43 bp):
ATAATATATATATATAAAAACTAAAAAACTAAATATATATAAT
Found at i:25819595 original size:13 final size:15
Alignment explanation
Indices: 25819564--25819599 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
25819554 GAAAAGAGAA
25819564 AAAAATA-AAGAAAG
1 AAAAATAGAAGAAAG
25819578 AAAAATAGAA-AAAG
1 AAAAATAGAAGAAAG
25819592 -AAAATAGA
1 AAAAATAGA
25819600 TATACCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAGAAAG
Done.