Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 78
Found at i:10108143 original size:36 final size:36
Alignment explanation
Indices: 10108094--10108165 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
10108084 CGAATGCAAA
10108094 TAGTGTACTGATACACCTATG-AGTGTATCCATACAC
1 TAGTGTACTGATACACC-ATGTAGTGTATCCATACAC
* *
10108130 TAGTGTA-TCGATACACCCTGTAGTGTATTCATACAC
1 TAGTGTACT-GATACACCATGTAGTGTATCCATACAC
10108166 CCTAGCTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 3 0.09
36 29 0.91
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (36 bp):
TAGTGTACTGATACACCATGTAGTGTATCCATACAC
Found at i:10108167 original size:20 final size:20
Alignment explanation
Indices: 10108130--10108168 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10108120 ATCCATACAC
10108130 TAGTGTATCGATACACCCTG
1 TAGTGTATCGATACACCCTG
10108150 TAGTGTATTC-ATACACCCT
1 TAGTGTA-TCGATACACCCT
10108169 AGCTGCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
TAGTGTATCGATACACCCTG
Found at i:10111518 original size:13 final size:13
Alignment explanation
Indices: 10111500--10111524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10111490 TACTGAGTTG
10111500 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
10111513 TTTTTCTTTTTT
1 TTTTTCTTTTTT
10111525 GATAATTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:10112498 original size:76 final size:76
Alignment explanation
Indices: 10112359--10112499 Score: 169
Period size: 76 Copynumber: 1.9 Consensus size: 76
10112349 TTTAATCTTC
* * * * * *
10112359 ATCAATGGCGCTTGCTCCTCCATCATCTCCGATCAGCTTCTTTGCTAGCTCAAGGATATCAACAA
1 ATCAATGGCGCATGCTCCTCCACCATATCCGATCAGCTTCTTTGCTAGCTCAAGAACACCAACAA
10112424 TCCCAAGCTTT
66 TCCCAAGCTTT
* * *
10112435 ATCAATGGTGCATGCTCCTCCGCCATATCCGATCAG-TTCTTCTG-TCAGTTCAAGAACACCAAC
1 ATCAATGGCGCATGCTCCTCCACCATATCCGATCAGCTTCTT-TGCT-AGCTCAAGAACACCAAC
10112498 AA
64 AA
10112500 ATGGCATCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
75 6 0.11
76 48 0.89
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (76 bp):
ATCAATGGCGCATGCTCCTCCACCATATCCGATCAGCTTCTTTGCTAGCTCAAGAACACCAACAA
TCCCAAGCTTT
Found at i:10114507 original size:2 final size:2
Alignment explanation
Indices: 10114500--10114579 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
10114490 TTGGCATGGT
10114500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10114542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10114580 CACTAACTGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10117441 original size:13 final size:13
Alignment explanation
Indices: 10117400--10117443 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
10117390 GGATCAACAT
10117400 TTTTGCATCTGCA
1 TTTTGCATCTGCA
*
10117413 -TTTACATCTTTGCA
1 TTTTGCATC--TGCA
10117427 TTTTGCATCTGCA
1 TTTTGCATCTGCA
10117440 TTTT
1 TTTT
10117444 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 7 0.27
13 8 0.31
14 4 0.15
15 7 0.27
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.52
Consensus pattern (13 bp):
TTTTGCATCTGCA
Found at i:10118750 original size:9 final size:8
Alignment explanation
Indices: 10118714--10118795 Score: 51
Period size: 8 Copynumber: 10.0 Consensus size: 8
10118704 AAATCAAAGC
*
10118714 AAAGAGAA
1 AAAGAAAA
*
10118722 AAAGCAAAG
1 AAAG-AAAA
* *
10118731 AAAGGAGA
1 AAAGAAAA
10118739 AAAGAAATA
1 AAAGAAA-A
10118748 AAA-AAAA
1 AAAGAAAA
*
10118755 ATAG-AAA
1 AAAGAAAA
*
10118762 AAACAAAA
1 AAAGAAAA
10118770 AAAGAAAGA
1 AAAGAAA-A
10118779 AAAGGAAAA
1 AAA-GAAAA
*
10118788 GAAGAAAA
1 AAAGAAAA
10118796 GAGAAAATAA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
7 8 0.14
8 27 0.48
9 17 0.30
10 4 0.07
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:10118794 original size:14 final size:16
Alignment explanation
Indices: 10118709--10118802 Score: 72
Period size: 15 Copynumber: 5.9 Consensus size: 16
10118699 AGATCAAATC
*
10118709 AAAGCAAAGAGAAAAAG
1 AAAGAAAAGAG-AAAAG
*
10118726 CAAAGAAAGGAGAAAAG
1 -AAAGAAAAGAGAAAAG
* *
10118743 AAATAAAA-AAAAATAG
1 AAAGAAAAGAGAAA-AG
*
10118759 AAA-AAACA-AAAAAAG
1 AAAGAAA-AGAGAAAAG
10118774 AAAGAAAAG-GAAAAG
1 AAAGAAAAGAGAAAAG
10118789 -AAGAAAAGAGAAAA
1 AAAGAAAAGAGAAAA
10118803 TAAACAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
14 8 0.12
15 23 0.35
16 20 0.31
17 5 0.08
18 9 0.14
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAGAAAAGAGAAAAG
Found at i:10118801 original size:40 final size:39
Alignment explanation
Indices: 10118714--10118802 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 39
10118704 AAATCAAAGC
* * *
10118714 AAAGAGAAAAAGCAAAGAAAGGAGAAAAGAAATAAAAAA
1 AAAGAGAAAAAACAAAAAAAGAAGAAAAGAAATAAAAAA
* * *
10118753 AAATAGAAAAAACAAAAAAAGAAAGAAAAGGAAA-AGAAGA
1 AAAGAGAAAAAACAAAAAAAG-AAGAAAA-GAAATAAAAAA
10118793 AAAGAGAAAA
1 AAAGAGAAAA
10118803 TAAACAAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 18 0.44
40 19 0.46
41 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.02
Consensus pattern (39 bp):
AAAGAGAAAAAACAAAAAAAGAAGAAAAGAAATAAAAAA
Found at i:10120101 original size:36 final size:37
Alignment explanation
Indices: 10120018--10120103 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
10120008 ACAAAGGGTC
10120018 GTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATTTT
1 GTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATTTT
* * *
10120055 GTCTCTCTTGAGACAA-TTTATC-TCAAAATAAATTTCT
1 GTCTCGCTTGAGACAAGTTT-TCTTAAAAACAAATTT-T
10120092 -TCTCGCTTGAGA
1 GTCTCGCTTGAGA
10120104 TATTTTTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
36 25 0.58
37 18 0.42
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (37 bp):
GTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATTTT
Found at i:10120306 original size:67 final size:67
Alignment explanation
Indices: 10120191--10120446 Score: 269
Period size: 67 Copynumber: 3.9 Consensus size: 67
10120181 AAAACAAACA
* * **
10120191 TTGTCTCACTTGAGACAGTATTC-CTTGAGACA--AA-CTTTGAAATTGTTTCTCTTGAAACAAA
1 TTGTCTCCCTTGAGACAGT-TTCTCTTGAAACATCAATCTTTGAGTTTGTTTCTCTTGAAACAAA
10120252 GTT
65 GTT
* * *
10120255 TTGTCTCCCTT-ATGACGGTTTCCCTTGAAACATCAACCTTTGAGTTTGTTTC-CTTTGAAACAA
1 TTGTCTCCCTTGA-GACAGTTTCTCTTGAAACATCAATCTTTGAGTTTGTTTCTC-TTGAAACAA
10120318 AGTT
64 AGTT
* * * * * *
10120322 TTGTCTCTCTTGAGACAGTTTCTCTTAAAACA-AAAGTCTTTTAGCTTGTTTCTCTTGAAACGAA
1 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATCAA-TCTTTGAGTTTGTTTCTCTTGAAACAAA
10120386 -TT
65 GTT
* * *
10120388 TTGTCTCCCTTGAGACAATTTCTCTTGAAACATC-ATCTTTGAGTCTGTTTCCCTTGAAA
1 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATCAATCTTTGAGTTTGTTTCTCTTGAAA
10120447 TAAATCCATA
Statistics
Matches: 160, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
63 4 0.03
64 23 0.14
65 20 0.12
66 37 0.23
67 74 0.46
68 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (67 bp):
TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATCAATCTTTGAGTTTGTTTCTCTTGAAACAAAG
TT
Found at i:10121004 original size:3 final size:3
Alignment explanation
Indices: 10120996--10121030 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10120986 TAAAAAATTG
* *
10120996 TTA TTA TTA TTA TTA GTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10121031 TTAATTACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:10129175 original size:14 final size:13
Alignment explanation
Indices: 10129150--10129174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10129140 ATCATTTGAA
10129150 CCAAGCAAAAAAT
1 CCAAGCAAAAAAT
10129163 CCAAGCAAAAAA
1 CCAAGCAAAAAA
10129175 AAAGAATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.24, G:0.08, T:0.04
Consensus pattern (13 bp):
CCAAGCAAAAAAT
Found at i:10130648 original size:45 final size:45
Alignment explanation
Indices: 10130599--10130686 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
10130589 AAAATAGCCA
* *
10130599 GAGTGCATCGATGCATGGTTTGCGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTATGCGCATCGATGCATAAAATGCACT
* *
10130644 GAGTGCATCGATGCATGGTATGTGTATCGATGCATAAAATGCA
1 GAGTGCATCGATGCATGGTATGCGCATCGATGCATAAAATGCA
10130687 TTCGATGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (45 bp):
GAGTGCATCGATGCATGGTATGCGCATCGATGCATAAAATGCACT
Found at i:10131205 original size:2 final size:2
Alignment explanation
Indices: 10131198--10131252 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10131188 GCCAATTGAT
10131198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10131240 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
10131253 CTTAAGTTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10131397 original size:2 final size:2
Alignment explanation
Indices: 10131390--10131425 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10131380 ACCAAACCAA
10131390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10131426 TAAGTTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10131491 original size:14 final size:15
Alignment explanation
Indices: 10131472--10131500 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10131462 TCAAACATTT
10131472 AACAATCCA-AAACA
1 AACAATCCAGAAACA
10131486 AACAATCCAGAAACA
1 AACAATCCAGAAACA
10131501 TCAAAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:10133434 original size:23 final size:22
Alignment explanation
Indices: 10133404--10133483 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
10133394 GCATGGCCTT
10133404 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
10133426 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
10133448 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
10133470 ATGCATCGATGCAC
1 GTGCATCGATGCAC
10133484 TGTTAGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:10133458 original size:44 final size:42
Alignment explanation
Indices: 10133382--10133502 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
10133372 AAAACTCGAC
* ** *
10133382 GGATGCATCGATGCA-TGGCCTTGTGCATCGATGCACATTCAA
1 GGATGCATCGATGCACT-GTCAGGTGTATCGATGCACATTCAA
* *
10133424 GGCGTGCATCGGTGCACCT-TCATGGTGTATCGATGCACATTCAA
1 GG-ATGCATCGATGCA-CTGTCA-GGTGTATCGATGCACATTCAA
*
10133468 GGATGCATCGATGCACTGTTAGGTGTATCGATGCA
1 GGATGCATCGATGCACTGTCAGGTGTATCGATGCA
10133503 TTAAGCACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 18 0.28
43 25 0.38
44 21 0.32
45 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGATGCACTGTCAGGTGTATCGATGCACATTCAA
Found at i:10133499 original size:20 final size:21
Alignment explanation
Indices: 10133408--10133502 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
10133398 GGCCTTGTGC
*
10133408 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* * *
10133431 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
10133452 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
10133474 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
10133494 ATCGATGCA
1 ATCGATGCA
10133503 TTAAGCACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 22 0.37
22 14 0.23
23 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:10135520 original size:12 final size:12
Alignment explanation
Indices: 10135500--10135532 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
10135490 GATGGTTCTC
10135500 CAACGTCATGTT
1 CAACGTCATGTT
*
10135512 CAACATCATGTT
1 CAACGTCATGTT
10135524 CAACGTCAT
1 CAACGTCAT
10135533 TTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (12 bp):
CAACGTCATGTT
Found at i:10139383 original size:45 final size:45
Alignment explanation
Indices: 10139334--10139466 Score: 203
Period size: 45 Copynumber: 3.0 Consensus size: 45
10139324 AAAATAGCCA
* *
10139334 GAGTGCATCGATGCATGGTTTGCGCATCGATGCATCAAATGTACT
1 GAGTGCATCGATGCATGGTTTGAGCATCGATGCATCAAATGCACT
*
10139379 GAGTGCATCGATGCATGGTTTGAACATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTTTGAGCATCGATGCATCAAATGCACT
* * * *
10139424 GAGTGCATCGATGCATGGTATGTGTATCGATGCATAAAATGCA
1 GAGTGCATCGATGCATGGTTTGAGCATCGATGCATCAAATGCA
10139467 TTCGATGTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
GAGTGCATCGATGCATGGTTTGAGCATCGATGCATCAAATGCACT
Found at i:10139388 original size:26 final size:26
Alignment explanation
Indices: 10139357--10139439 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 26
10139347 CATGGTTTGC
10139357 GCATCGATGCATCAAATGTACTGAGT
1 GCATCGATGCATCAAATGTACTGAGT
* *
10139383 GCATCGATGCAT----GGT-TTGA--
1 GCATCGATGCATCAAATGTACTGAGT
* *
10139402 ACATCGATGCATCAAATGCACTGAGT
1 GCATCGATGCATCAAATGTACTGAGT
10139428 GCATCGATGCAT
1 GCATCGATGCAT
10139440 GGTATGTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
19 11 0.26
21 3 0.07
22 2 0.05
23 1 0.02
24 3 0.07
26 23 0.53
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
GCATCGATGCATCAAATGTACTGAGT
Found at i:10147010 original size:21 final size:21
Alignment explanation
Indices: 10146984--10147031 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
10146974 ATCAATATTA
10146984 CGAAACATCATTATAGCTTGT
1 CGAAACATCATTATAGCTTGT
10147005 CGAAACATCATTATAGCTTGT
1 CGAAACATCATTATAGCTTGT
10147026 CGAAAC
1 CGAAAC
10147032 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (21 bp):
CGAAACATCATTATAGCTTGT
Found at i:10150777 original size:41 final size:42
Alignment explanation
Indices: 10150716--10150796 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
10150706 TGATAAAGAC
*
10150716 TATGTTACTCGAGACTCGAGTACAAGTATGTTGTGTTCATTT
1 TATGTTACTCGAGACTCGAGTACAAGTATGTTATGTTCATTT
10150758 TATGTTACTC-AGACTCGAGTACAAGTATGTTATGTTCAT
1 TATGTTACTCGAGACTCGAGTACAAGTATGTTATGTTCAT
10150797 CCCCCCCCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 28 0.74
42 10 0.26
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (42 bp):
TATGTTACTCGAGACTCGAGTACAAGTATGTTATGTTCATTT
Found at i:10151850 original size:4 final size:4
Alignment explanation
Indices: 10151841--10151866 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10151831 ATTTTGATAT
10151841 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
10151867 AATTTGGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:10152773 original size:22 final size:22
Alignment explanation
Indices: 10152748--10152794 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10152738 TTTTGACCAA
* *
10152748 ATCAGCCGCCCCATTTGTTGCC
1 ATCAACCGCCCCATTTGATGCC
*
10152770 ATCAACTGCCCCATTTGATGCC
1 ATCAACCGCCCCATTTGATGCC
10152792 ATC
1 ATC
10152795 TATTTTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.38, G:0.15, T:0.28
Consensus pattern (22 bp):
ATCAACCGCCCCATTTGATGCC
Found at i:10163398 original size:17 final size:17
Alignment explanation
Indices: 10163361--10163395 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10163351 CCAAAAATAC
10163361 TATTATTATATTATTAT
1 TATTATTATATTATTAT
*
10163378 TATTATTTTATTAATTAT
1 TATTATTATATT-ATTAT
10163396 ATTTAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATATTATTAT
Found at i:10163399 original size:14 final size:15
Alignment explanation
Indices: 10163362--10163404 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
10163352 CAAAAATACT
*
10163362 ATTATTATATTATT-
1 ATTATTATTTTATTA
10163376 ATTATTATTTTATTA
1 ATTATTATTTTATTA
*
10163391 ATTA-TATTTAATTA
1 ATTATTATTTTATTA
10163405 CATGTTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTATTA
Found at i:10164036 original size:35 final size:35
Alignment explanation
Indices: 10163975--10164047 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
10163965 TTTTTATATT
10163975 TTTAATTTTGTAAAAAAAATATAAATATTATG-AA
1 TTTAATTTTGTAAAAAAAATATAAATATTATGCAA
*
10164009 TTTAATTTT-TAAAGAAAATATATAAATATTTTGCAA
1 TTTAATTTTGTAAA-AAAA-ATATAAATATTATGCAA
10164045 TTT
1 TTT
10164048 GTAATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 4 0.11
34 13 0.37
35 13 0.37
36 5 0.14
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (35 bp):
TTTAATTTTGTAAAAAAAATATAAATATTATGCAA
Found at i:10165611 original size:31 final size:30
Alignment explanation
Indices: 10165479--10165619 Score: 124
Period size: 30 Copynumber: 4.7 Consensus size: 30
10165469 CTATTAATAT
* * *
10165479 TATTTTAGACCCTTAAGTT-TATGTTTTTAC
1 TATTTTAGTCCTTTAAGTTATA-GTTTTTGC
* * * * *
10165509 TATTTTAGCCCTTTAAATTTTTGTTTGTGC
1 TATTTTAGTCCTTTAAGTTATAGTTTTTGC
* *
10165539 CATTTTAGTCCTTTAAGCTT-TAGTTTTTAC
1 TATTTTAGTCCTTTAAG-TTATAGTTTTTGC
* *
10165569 TCTTTTAGTCCTTTAAGTTATGGGTTTTTGC
1 TATTTTAGTCCTTTAAGTTAT-AGTTTTTGC
*
10165600 TATTTTGGTCCTTTAAGTTA
1 TATTTTAGTCCTTTAAGTTA
10165620 CTATTTTCTC
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
29 2 0.02
30 59 0.66
31 28 0.31
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAGTTATAGTTTTTGC
Found at i:10171484 original size:19 final size:19
Alignment explanation
Indices: 10171440--10171484 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10171430 TGTTTCTCTG
*
10171440 GAAACAAATTTTCGTCCTT
1 GAAACAAATTTTCGTCCTC
10171459 GAAACAAATTTT-GTCTCTC
1 GAAACAAATTTTCGTC-CTC
*
10171478 GAGACAA
1 GAAACAA
10171485 TTTCTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (19 bp):
GAAACAAATTTTCGTCCTC
Found at i:10171561 original size:34 final size:34
Alignment explanation
Indices: 10171499--10171565 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
10171489 TTTTGAGAAT
10171499 ACCTATCTTTGAATATGTTTCCCATGAAACAAAGC
1 ACCTATCTTTGAATA-GTTTCCCATGAAACAAAGC
* *
10171534 ACCTATCTTTGAGTCA-TTTCCCTTGAAACAAA
1 ACCTATCTTTGAAT-AGTTTCCCATGAAACAAA
10171566 TTTTGTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.52
35 13 0.45
36 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (34 bp):
ACCTATCTTTGAATAGTTTCCCATGAAACAAAGC
Found at i:10171849 original size:64 final size:64
Alignment explanation
Indices: 10171725--10171851 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
10171715 ACCCCTGATA
* * * * * **
10171725 ACTAGCCATCCTCATCACGTAGGAACCGTGTTATTATTCCTAAAGATGACTTGATGTCCTCATG
1 ACTAGCCATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATGACCTGACATCCTCATG
*
10171789 ACTAGTCATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGAT-AGCCT-ACCATCCTCAT
1 ACTAGCCATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATGA-CCTGA-CATCCTCAT
10171852 CACATAGGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (64 bp):
ACTAGCCATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATGACCTGACATCCTCATG
Found at i:10171866 original size:48 final size:48
Alignment explanation
Indices: 10171795--10171911 Score: 225
Period size: 48 Copynumber: 2.4 Consensus size: 48
10171785 CATGACTAGT
10171795 CATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATAGCCTAC
1 CATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATAGCCTAC
*
10171843 CATCCTCATCACATAGGAACCCTATTATCATCCCTAAAGATAGCCTAC
1 CATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATAGCCTAC
10171891 CATCCTCATCACGTAGGAACC
1 CATCCTCATCACGTAGGAACC
10171912 ATGTCATCCC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.32, C:0.34, G:0.10, T:0.24
Consensus pattern (48 bp):
CATCCTCATCACGTAGGAACCCTATTATCATCCCTAAAGATAGCCTAC
Found at i:10171900 original size:26 final size:26
Alignment explanation
Indices: 10171822--10171900 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
10171812 AACCCTATTA
10171822 TCATCCCTAAAGATAGCCTACCATCC
1 TCATCCCTAAAGATAGCCTACCATCC
* * * **
10171848 TCATCAC-ATAGGA-A-CC--CTATTA
1 TCATCCCTA-AAGATAGCCTACCATCC
10171870 TCATCCCTAAAGATAGCCTACCATCC
1 TCATCCCTAAAGATAGCCTACCATCC
10171896 TCATC
1 TCATC
10171901 ACGTAGGAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 12 0.32
23 2 0.05
24 4 0.11
25 2 0.05
26 17 0.46
ACGTcount: A:0.32, C:0.35, G:0.08, T:0.25
Consensus pattern (26 bp):
TCATCCCTAAAGATAGCCTACCATCC
Found at i:10171997 original size:43 final size:40
Alignment explanation
Indices: 10171893--10171998 Score: 108
Period size: 43 Copynumber: 2.6 Consensus size: 40
10171883 TAGCCTACCA
* *
10171893 TCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGACC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
* *
10171933 TCCTCATCACGTAAGAGCCGTGTCA-CCCCTAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCC-AG---ACCAGACC
*
10171975 GTCCTCATCGCGTAGGAACCGTGT
1 -TCCTCATCACGTAGGAACCGTGT
10171999 TATCACCCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
39 4 0.07
40 23 0.43
42 2 0.04
43 25 0.46
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.20
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
Found at i:10172303 original size:3 final size:3
Alignment explanation
Indices: 10172295--10172323 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10172285 AAAAATACTA
10172295 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10172324 ATTACATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10173660 original size:18 final size:18
Alignment explanation
Indices: 10173621--10173661 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
10173611 GTATTGTAAG
*
10173621 TTATTTTTGGGTTATTTA
1 TTATTTTTGGGTTATGTA
10173639 -TATTTTT-GGTGTATGTA
1 TTATTTTTGGGT-TATGTA
10173656 TTATTT
1 TTATTT
10173662 AATATTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (18 bp):
TTATTTTTGGGTTATGTA
Found at i:10173794 original size:60 final size:61
Alignment explanation
Indices: 10173730--10173877 Score: 174
Period size: 60 Copynumber: 2.4 Consensus size: 61
10173720 ATGTTATTAT
* *
10173730 CATTTTAGACCCTTAAGTTTCTATTTTTACTGTCTTAGCCCTTTAAGTTTCAATTTGTT-C
1 CATTTTAGACCTTTAAGTTTCTATTTTTACTATCTTAGCCCTTTAAGTTTCAATTTGTTGC
* * * * * * *
10173790 CATTTTAGTCCTTTAAGCTTCGATTTTTGCTATTTTAGTCCTTTAAGTTTCAATTTTTTGC
1 CATTTTAGACCTTTAAGTTTCTATTTTTACTATCTTAGCCCTTTAAGTTTCAATTTGTTGC
* *
10173851 TATTTT-GATCCTTTAAGTTGCTATTTT
1 CATTTTAGA-CCTTTAAGTTTCTATTTT
10173878 CTCATTTTGG
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
60 51 0.71
61 21 0.29
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (61 bp):
CATTTTAGACCTTTAAGTTTCTATTTTTACTATCTTAGCCCTTTAAGTTTCAATTTGTTGC
Found at i:10173851 original size:31 final size:30
Alignment explanation
Indices: 10173731--10173869 Score: 147
Period size: 30 Copynumber: 4.6 Consensus size: 30
10173721 TGTTATTATC
* * * *
10173731 ATTTTAGACCCTTAAGTTTCTATTTTTACT
1 ATTTTAGTCCTTTAAGTTTCAATTTTTGCT
* * * *
10173761 GTCTTAGCCCTTTAAGTTTCAATTTGTT-CC
1 ATTTTAGTCCTTTAAGTTTCAATTT-TTGCT
* *
10173791 ATTTTAGTCCTTTAAGCTTCGATTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCAATTTTTGCT
10173821 ATTTTAGTCCTTTAAGTTTCAATTTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCAA-TTTTTGCT
10173852 ATTTT-GATCCTTTAAGTT
1 ATTTTAG-TCCTTTAAGTT
10173870 GCTATTTTCT
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.02
30 63 0.69
31 26 0.29
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (30 bp):
ATTTTAGTCCTTTAAGTTTCAATTTTTGCT
Found at i:10178817 original size:39 final size:39
Alignment explanation
Indices: 10178763--10178856 Score: 170
Period size: 39 Copynumber: 2.4 Consensus size: 39
10178753 TATGCTTAAC
*
10178763 AATCACATTTAAACAAGTTTCATCTTTCAAGCTTATTATT
1 AATCA-ATTTCAACAAGTTTCATCTTTCAAGCTTATTATT
10178803 AATCAATTTCAACAAGTTTCATCTTTCAAGCTTATTATT
1 AATCAATTTCAACAAGTTTCATCTTTCAAGCTTATTATT
10178842 AATCAATTTCAACAA
1 AATCAATTTCAACAA
10178857 TCTTAGATTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 48 0.91
40 5 0.09
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.40
Consensus pattern (39 bp):
AATCAATTTCAACAAGTTTCATCTTTCAAGCTTATTATT
Found at i:10178851 original size:22 final size:22
Alignment explanation
Indices: 10178787--10178853 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
10178777 AAGTTTCATC
10178787 TTTCAAGCTTATTATTAATCAA
1 TTTCAAGCTTATTATTAATCAA
* * *
10178809 TTTCAA-C-AAGT-TTCATC--
1 TTTCAAGCTTATTATTAATCAA
10178826 TTTCAAGCTTATTATTAATCAA
1 TTTCAAGCTTATTATTAATCAA
10178848 TTTCAA
1 TTTCAA
10178854 CAATCTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 6 0.18
18 1 0.03
19 7 0.21
20 7 0.21
21 1 0.03
22 12 0.35
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTCAAGCTTATTATTAATCAA
Found at i:10179068 original size:21 final size:21
Alignment explanation
Indices: 10179042--10179083 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10179032 CCCCTACTAA
*
10179042 GGTATCGATA-CTACCCTCAAG
1 GGTATCAATACCT-CCCTCAAG
10179063 GGTATCAATACCTCCCTCAAG
1 GGTATCAATACCTCCCTCAAG
10179084 TATTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (21 bp):
GGTATCAATACCTCCCTCAAG
Found at i:10186987 original size:220 final size:224
Alignment explanation
Indices: 10186596--10187047 Score: 718
Period size: 220 Copynumber: 2.0 Consensus size: 224
10186586 ATATACCAGT
10186596 ATTGAAAATCCACGGGACATGACTGAGTATTTTACTTTATCACCTCCCACCCCCCCCCTTTTTTT
1 ATTGAAAATCCACGGGACATGACTGAGTATTTTACTTTATCACCT------CCCCCCCTTTTTTT
* *
10186661 TGTGGAGGGTGGTTGGCTGTAGTTATTCCATTCATTCTTGGAAGATACAATTACTTCTCTGCAAC
60 TGGGGAGGGTGGTTGGCTGTAGTTATTCCATTCATTCTTGGAAGATACAATCACTTCTCTGCAAC
* * *
10186726 TAAGCAAGTTGAATAACTAATTCAGCGTCTTCAACTAATATATCGTGTGCAGAAATCAGACATAT
125 TAAGCAAGTTGAATAACTAATTCAGCATCTTCAACTAATATATAGTATGCAGAAATCAGACATAT
*
10186791 GGATATAATT-TTTTTAGAGCAATTAGAACTTATA
190 GGATATAATTCTTTTTAGAGAAATTAGAACTTATA
*
10186825 ATTGAAAATCCACGGGACATGACTCG-GTATTTTAC-TTGTCACCT-CCCCCC-TTTTTTTGGGG
1 ATTGAAAATCCACGGGACATGACT-GAGTATTTTACTTTATCACCTCCCCCCCTTTTTTTTGGGG
*
10186886 AGGG-GGTTTGGCTGTAGTTATTCCATTCATTCTTGGAAGATACAATCACTTCTCTGTAACTAAG
65 AGGGTGG-TTGGCTGTAGTTATTCCATTCATTCTTGGAAGATACAATCACTTCTCTGCAACTAAG
10186950 CAAGTTGAATAACTAATTCAGCATCTTCAACTAATATATAGTATGCAGAAATCAGACATATGGAT
129 CAAGTTGAATAACTAATTCAGCATCTTCAACTAATATATAGTATGCAGAAATCAGACATATGGAT
10187015 ATAATTCTTTTTAGAGAAATTAGAACTTATA
194 ATAATTCTTTTTAGAGAAATTAGAACTTATA
10187046 AT
1 AT
10187048 GGAATCAAGC
Statistics
Matches: 212, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
219 2 0.01
220 137 0.65
221 31 0.15
228 8 0.04
229 33 0.16
230 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (224 bp):
ATTGAAAATCCACGGGACATGACTGAGTATTTTACTTTATCACCTCCCCCCCTTTTTTTTGGGGA
GGGTGGTTGGCTGTAGTTATTCCATTCATTCTTGGAAGATACAATCACTTCTCTGCAACTAAGCA
AGTTGAATAACTAATTCAGCATCTTCAACTAATATATAGTATGCAGAAATCAGACATATGGATAT
AATTCTTTTTAGAGAAATTAGAACTTATA
Found at i:10188550 original size:75 final size:76
Alignment explanation
Indices: 10188453--10188605 Score: 281
Period size: 75 Copynumber: 2.0 Consensus size: 76
10188443 TCAAGGATAT
* *
10188453 AGAAGACGACCATACAAGGCAATTAGCCCAAATATTCTTTCTATCAAGTGACGAAAACTAAGCTT
1 AGAAGACGACCATACAAAGCAATTAGCCCAAATATCCTTTCTATCAAGTGACGAAAACTAAGCTT
10188518 CCCAGGAGCAA
66 CCCAGGAGCAA
10188529 AGAA-ACGACCATACAAAGCAATTAGCCCAAATATCCTTTCTATCAAGTGACGAAAACTAAGCTT
1 AGAAGACGACCATACAAAGCAATTAGCCCAAATATCCTTTCTATCAAGTGACGAAAACTAAGCTT
10188593 CCCAGGAGCAA
66 CCCAGGAGCAA
10188604 AG
1 AG
10188606 CAAGTCAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 71 0.95
76 4 0.05
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (76 bp):
AGAAGACGACCATACAAAGCAATTAGCCCAAATATCCTTTCTATCAAGTGACGAAAACTAAGCTT
CCCAGGAGCAA
Found at i:10192376 original size:3 final size:3
Alignment explanation
Indices: 10192363--10192410 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
10192353 GTAATCATTC
10192363 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10192410 A
1 A
10192411 CTTAGGATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10194612 original size:45 final size:45
Alignment explanation
Indices: 10194523--10194818 Score: 427
Period size: 45 Copynumber: 6.6 Consensus size: 45
10194513 CCTCCATTCA
* *
10194523 TGTTTATAATGCA-CCATTATGCATTTTTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
* *
10194569 TGTTAACAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
10194614 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
10194659 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
10194704 TGTAGATAATGCACCCATATGCATTTCAACTATAGCATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
10194749 TGTTGATAATGCACCCATATTCATTCCAACTAT-GACAT-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTTC
* **
10194793 AAGACGATAATGCACCCATATGCATT
1 -TGTTGATAATGCACCCATATGCATT
10194819 ATTATTTTCA
Statistics
Matches: 231, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
44 5 0.02
45 206 0.89
46 17 0.07
47 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:10195398 original size:95 final size:97
Alignment explanation
Indices: 10195242--10195451 Score: 300
Period size: 96 Copynumber: 2.2 Consensus size: 97
10195232 TTGATACTAC
* * **
10195242 TACCATAGTATCGATACTTCAAATACCATGGTACCGATACTTCCTTCAGGTATCGATACCAAAAT
1 TACCATGGTATCGATACTACAAATACCATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAT
*
10195307 TAGGTTCGATG-TTGCCTGGTATCGATACCCT
66 TAGATTCGATGTTTGCCTGGTATCGATACCCT
* * *
10195338 TACCATGGTATCGATACTAC-CATACTATGGTACTGATACCCCCTTACA-GTATCGATACCAAAA
1 TACCATGGTATCGATACTACAAATACCATGGTACCGATACCCCCTT-CAGGTATCGATACCAAAA
*
10195401 TTAGATTCGATGTTTGCTTGGTATCGATACCCT
65 TTAGATTCGATGTTTGCCTGGTATCGATACCCT
*
10195434 TACAATGGTATCGATACT
1 TACCATGGTATCGATACT
10195452 GCCTCAATGG
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 46 0.45
96 56 0.55
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (97 bp):
TACCATGGTATCGATACTACAAATACCATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAT
TAGATTCGATGTTTGCCTGGTATCGATACCCT
Found at i:10195459 original size:20 final size:22
Alignment explanation
Indices: 10195419--10195472 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
10195409 GATGTTTGCT
10195419 TGGTATCGATAC--CCTTACAA
1 TGGTATCGATACTGCCTTACAA
10195439 TGGTATCGATACTGCC-T-CAA
1 TGGTATCGATACTGCCTTACAA
*
10195459 TGGTATCAATACTG
1 TGGTATCGATACTG
10195473 ATAGAATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 28 0.90
21 1 0.03
22 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACTGCCTTACAA
Found at i:10200817 original size:3 final size:3
Alignment explanation
Indices: 10200809--10200834 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10200799 AATAAAACAT
10200809 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
10200835 CCATTAGTAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10201516 original size:45 final size:45
Alignment explanation
Indices: 10201426--10201721 Score: 344
Period size: 45 Copynumber: 6.6 Consensus size: 45
10201416 CCTCCATTCA
* * * *
10201426 TGTTTATAATGTA-CCATTATGCATTTTTAACTATAACATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
** * * * *
10201472 TGTTGGCAATTCACCCATATACATTTTAACTATAGCATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *** * *
10201517 TATTGATAATGCACCCATACATATTTCAACTATATCATACTTTCC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
10201562 TGTTGATAATGCACCCATATGCATTTTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
10201607 TGTTGATAATGCACCCATATGCATTTCAACTATGGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
10201652 TATTGATAATGCACCCATATGCATTTCAACTATGGCAT-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
**
10201696 ATGCCGATAATGCACCCATATGCATT
1 -TGTTGATAATGCACCCATATGCATT
10201722 ATTATTTTCA
Statistics
Matches: 216, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
44 5 0.02
45 195 0.90
46 13 0.06
47 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:10201607 original size:135 final size:135
Alignment explanation
Indices: 10201422--10201721 Score: 404
Period size: 135 Copynumber: 2.2 Consensus size: 135
10201412 GTAACCTCCA
* * * *
10201422 TTCATGTTTATAATGTA-CCATTATGCATTTTTAACTATAACATACTTTTCTGTTGGCAATTCAC
1 TTCATGTTGATAATGCACCCA-TATGCA-TTTTAACTATAACATACTTTTCTGTTGACAATGCAC
* * *
10201486 CCATATACATTTTAACTATAGCATATTTTTCTATTGATAATGCACCCATACATATTTCAACTATA
64 CCATATACATTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATACACATTTCAACTATA
*
10201551 TCATACT
129 GCATACT
* * *
10201558 TTCCTGTTGATAATGCACCCATATGCATTTTAACTATAGCATACTTTTCTGTTGATAATGCACCC
1 TTCATGTTGATAATGCACCCATATGCATTTTAACTATAACATACTTTTCTGTTGACAATGCACCC
* * ** *
10201623 ATATGCATTTCAACTATGGCATACTTTTCTATTGATAATGCACCCATATGCATTTCAACTATGGC
66 ATATACATTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATACACATTTCAACTATAGC
*
10201688 ATCCT
131 ATACT
**
10201693 TTCATGCCGATAATGCACCCATATGCATT
1 TTCATGTTGATAATGCACCCATATGCATT
10201722 ATTATTTTCA
Statistics
Matches: 143, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
135 120 0.84
136 20 0.14
137 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (135 bp):
TTCATGTTGATAATGCACCCATATGCATTTTAACTATAACATACTTTTCTGTTGACAATGCACCC
ATATACATTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATACACATTTCAACTATAGC
ATACT
Found at i:10202180 original size:22 final size:22
Alignment explanation
Indices: 10202155--10202207 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
10202145 ACCCTAGTAT
*
10202155 CGATACTTCAGTACCATGGTAC
1 CGATACTTCAATACCATGGTAC
*
10202177 CGATACTTCAATACTATGGTAC
1 CGATACTTCAATACCATGGTAC
*
10202199 TGATACTTC
1 CGATACTTC
10202208 CTCCGGGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (22 bp):
CGATACTTCAATACCATGGTAC
Found at i:10202295 original size:75 final size:76
Alignment explanation
Indices: 10202171--10202333 Score: 204
Period size: 75 Copynumber: 2.2 Consensus size: 76
10202161 TTCAGTACCA
* * * * * ** *
10202171 TGGTACCGATACTTCAATACTATGGTACTGATACTTCCTCCGGGTATCGATACCAAAATTAGGTT
1 TGGTATCGATACTACAATACTATGGTACCGATACTCCCTACGGAAATCGATACCAAAATTAGATT
10202236 CGATGTTT-CT
66 CGATGTTTGCT
* *
10202246 TGGTATCGATACTACCATACTATGGTACCGATACTCCCTTAC-GAAATCGATACTAAAATTAGAT
1 TGGTATCGATACTACAATACTATGGTACCGATACTCCC-TACGGAAATCGATACCAAAATTAGAT
*
10202310 TCGATGTTTGTT
65 TCGATGTTTGCT
10202322 TGGTATCGATAC
1 TGGTATCGATAC
10202334 CCTTATAATA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
75 60 0.80
76 15 0.20
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (76 bp):
TGGTATCGATACTACAATACTATGGTACCGATACTCCCTACGGAAATCGATACCAAAATTAGATT
CGATGTTTGCT
Found at i:10203343 original size:34 final size:34
Alignment explanation
Indices: 10203300--10203368 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10203290 TTGCTTGCCT
10203300 TAGCATATACATTTCCTAACGTCGCTGTCAGAGA
1 TAGCATATACATTTCCTAACGTCGCTGTCAGAGA
10203334 TAGCATATACATTTCCTAACGTCGCTGTCAGAGA
1 TAGCATATACATTTCCTAACGTCGCTGTCAGAGA
10203368 T
1 T
10203369 TGGCAACTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (34 bp):
TAGCATATACATTTCCTAACGTCGCTGTCAGAGA
Found at i:10213864 original size:134 final size:134
Alignment explanation
Indices: 10213619--10214071 Score: 545
Period size: 134 Copynumber: 3.4 Consensus size: 134
10213609 TCAAGAAATG
* * * * * *
10213619 TTGACTCATTCCACTGTTCTTCAGGGAAGATCGAACCGGGGTAGATTTGTTCCACTGTCACTCAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGTTAGACTTGTTCCACTGTCACTCAG
* * * * * * * **
10213684 GGAATATCAAGTCTTGAAAGAGAAGGATTTGTTCCGCTTATTCTTGAAGGAAAATAAGATATTTG
66 GGAATATCAAATCTTGAAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATAATATATGGG
10213749 GACT
131 GACT
* * * *
10213753 TTGATTCATTCTACTGTTCTTCAGGGAAGATTGAATTGAGTTAGACTTGTTCCGCTTTCACTCAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGTTAGACTTGTTCCACTGTCACTCAG
*
10213818 GGAATATCAAATCTTGAAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATCATA-ACTGG
66 GGAATATCAAATCTTGAAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATAATATA-TGG
10213882 GGACT
130 GGACT
* * * *
10213887 TTAATTCATTCCACTATTCTTC-GGAGAAGATTGAATCGATTTAGACTTTTTCCACTGTCACTCA
1 TTGATTCATTCCACTGTTCTTCAGG-GAAGATTGAATCGAGTTAGACTTGTTCCACTGTCACTCA
* *
10213951 GGGAATATCAAATCTTGAAAGAAAATGATCTGTT-TCGCTTCTTCTTGAGGGAAAA-ACATATAT
65 GGGAATATCAAATCTTGAAAGAGAATGATATGTTCT-GCTTCTTCTTGAGGGAAAATA-ATATAT
*
10214014 GGGGACA
128 GGGGACT
* * * * * *
10214021 TTGATTCATTCCACTGTTCATCAAGGAAAATTGAATCAAGTTTGATTTGTT
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGTTAGACTTGTT
10214072 TTTCTTGTCC
Statistics
Matches: 271, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
133 4 0.01
134 265 0.98
135 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (134 bp):
TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGTTAGACTTGTTCCACTGTCACTCAG
GGAATATCAAATCTTGAAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATAATATATGGG
GACT
Found at i:10215317 original size:19 final size:18
Alignment explanation
Indices: 10215293--10215345 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
10215283 TTTTTTCCAT
10215293 TATTTATTTTCTTCTTTTC
1 TATTTATTTTCTT-TTTTC
*
10215312 TATTTATTTTATTTATTTC
1 TATTTATTTTCTTT-TTTC
10215331 T-TTTATTTTCTTTTT
1 TATTTATTTTCTTTTT
10215346 CTTTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 17 0.55
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTATTTTCTTTTTTC
Found at i:10215357 original size:7 final size:6
Alignment explanation
Indices: 10215336--10215367 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
10215326 ATTTCTTTTA
10215336 TTTTCT TTTTCT TTTTCTT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT T
10215368 CGGGAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:10215357 original size:13 final size:13
Alignment explanation
Indices: 10215336--10215367 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10215326 ATTTCTTTTA
10215336 TTTTC-TTTTTCT
1 TTTTCTTTTTTCT
10215348 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
10215361 TTTTCTT
1 TTTTCTT
10215368 CGGGAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:10216830 original size:18 final size:18
Alignment explanation
Indices: 10216807--10216850 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
10216797 AAGCTCCAGG
*
10216807 ACCAACTTATGATATTCC
1 ACCAACTTACGATATTCC
10216825 ACCAACTTACGATATTCC
1 ACCAACTTACGATATTCC
10216843 ACCAACTT
1 ACCAACTT
10216851 GGAGTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.30
Consensus pattern (18 bp):
ACCAACTTACGATATTCC
Found at i:10224836 original size:21 final size:21
Alignment explanation
Indices: 10224811--10224870 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
10224801 GGTTACATAT
*
10224811 GTCCTTCGAGACATAGATGAC
1 GTCCTTCGGGACATAGATGAC
*
10224832 GTCCTTTGGGACATAGATGAC
1 GTCCTTCGGGACATAGATGAC
10224853 GTCCTTCGGGACATAGAT
1 GTCCTTCGGGACATAGAT
10224871 TTCAATGACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (21 bp):
GTCCTTCGGGACATAGATGAC
Found at i:10227539 original size:11 final size:11
Alignment explanation
Indices: 10227523--10227547 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10227513 AACAGTGCAA
10227523 AAAAAAAAAAC
1 AAAAAAAAAAC
10227534 AAAAAAAAAAC
1 AAAAAAAAAAC
10227545 AAA
1 AAA
10227548 TTATGTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:10229238 original size:19 final size:18
Alignment explanation
Indices: 10229188--10229229 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
10229178 CCAAAACAAT
10229188 ATAAATTACAAAATTTCA
1 ATAAATTACAAAATTTCA
10229206 ATAAATTACAAAATTTCA
1 ATAAATTACAAAATTTCA
10229224 ATAAAT
1 ATAAAT
10229230 AGCCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAATTACAAAATTTCA
Found at i:10229722 original size:17 final size:17
Alignment explanation
Indices: 10229694--10229744 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
10229684 TGTTCGGTTG
*
10229694 TTTCCTTTTCTTTTTTC
1 TTTCCGTTTCTTTTTTC
*
10229711 TTTTCGTTTCTTTTTTC
1 TTTCCGTTTCTTTTTTC
*
10229728 TTTCCTTTTACTTTTTT
1 TTTCCGTTT-CTTTTTT
10229745 GTATTTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTCCGTTTCTTTTTTC
Found at i:10230325 original size:3 final size:3
Alignment explanation
Indices: 10230317--10230352 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10230307 TGATAATATT
10230317 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10230353 CCCAGGACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10231200 original size:24 final size:24
Alignment explanation
Indices: 10231173--10231218 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
10231163 TCGTGAACGA
10231173 TCGGTTATGTTCGTTTATGTTCGT
1 TCGGTTATGTTCGTTTATGTTCGT
10231197 TCGGTTATGTTCGTTTATGTTC
1 TCGGTTATGTTCGTTTATGTTC
10231219 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.54
Consensus pattern (24 bp):
TCGGTTATGTTCGTTTATGTTCGT
Found at i:10231204 original size:14 final size:14
Alignment explanation
Indices: 10231181--10231211 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10231171 GATCGGTTAT
*
10231181 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
10231195 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
10231209 GTT
1 GTT
10231212 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:10231228 original size:24 final size:24
Alignment explanation
Indices: 10231176--10231231 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
10231166 TGAACGATCG
* *
10231176 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
10231200 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
10231224 TTTATGTT
1 GTTATGTT
10231232 TAACCCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:10232263 original size:10 final size:10
Alignment explanation
Indices: 10232248--10232338 Score: 60
Period size: 10 Copynumber: 8.7 Consensus size: 10
10232238 GGGTCTCCAG
10232248 CGTTTATGTT
1 CGTTTATGTT
10232258 CGTTTATGTT
1 CGTTTATGTT
10232268 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
10232279 ATGTTCGTGTT
1 -CGTTTATGTT
10232290 CGTTTATGTT
1 CGTTTATGTT
*
10232300 CGTGTT-CGTTT
1 CGT-TTATG-TT
* *
10232311 ATGTTTGTGTT
1 -CGTTTATGTT
10232322 CGTTTATGTT
1 CGTTTATGTT
10232332 CGTTTAT
1 CGTTTAT
10232339 TTATTAAATG
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
10 40 0.65
11 15 0.24
12 7 0.11
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:10232279 original size:16 final size:16
Alignment explanation
Indices: 10232254--10232334 Score: 144
Period size: 16 Copynumber: 5.1 Consensus size: 16
10232244 CCAGCGTTTA
10232254 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
10232270 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
10232286 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
10232302 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
10232318 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10232334 T
1 T
10232335 TTATTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.07, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:10232425 original size:16 final size:16
Alignment explanation
Indices: 10232404--10232434 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10232394 AAAAAAATTT
10232404 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10232420 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
10232435 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:10232665 original size:19 final size:19
Alignment explanation
Indices: 10232641--10232677 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10232631 AATTTTAGAG
10232641 ATATAAAAT-TAAATAATTA
1 ATATAAAATATAAA-AATTA
10232660 ATATAAAATATAAAAATT
1 ATATAAAATATAAAAATT
10232678 TAAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAAATATAAAAATTA
Found at i:10236582 original size:133 final size:133
Alignment explanation
Indices: 10236383--10236775 Score: 416
Period size: 133 Copynumber: 3.0 Consensus size: 133
10236373 ATGTTTTGGA
* * * *
10236383 TGACTCATTCATCGTGAAGTTGAGTCAATCTCGGATGAC-TCAATCTTGATATCCTTCATCGTGA
1 TGACTCATTCATCGTGAAGTTGAGTCGATCTTGGATGACTTGAA-CTTGATATCCTTTATCGTGA
* *
10236447 AGTTAAAATCT-GACTCAAAATATAGGTTAAAAAATAGCTCAT-AGTTGTTGAGTTAAGCTAAAT
65 AGTTAAAATCTAG-CTCAAAATATAGGATAAAAAATAACTCATCA-TTGTTGAGTTAAGCTAAAT
10236510 TGAGGT
128 TGAGGT
* * * * * *
10236516 TGACTCATTCCTCGTCAAGTTGAGTTGATCTTGGATGACTTGAACATGATAACCTTTGTCGTGAA
1 TGACTCATTCATCGTGAAGTTGAGTCGATCTTGGATGACTTGAACTTGATATCCTTTATCGTGAA
* * * * * * *
10236581 GTTGAAATCTAGCTCAAAGTCTATGATGAAAAATAACTCCTCATTGTTGAGTTAAGCTAAATTGT
66 GTTAAAATCTAGCTCAAAATATAGGATAAAAAATAACTCATCATTGTTGAGTTAAGCTAAATTGA
*
10236646 TGT
131 GGT
** * * * *
10236649 TGACTCATTCGGCGTGATGTTGAATCGATCTTGGATGACTCGAGCTTGATATCCTTTATCGTGAA
1 TGACTCATTCATCGTGAAGTTGAGTCGATCTTGGATGACTTGAACTTGATATCCTTTATCGTGAA
* * *** * * *
10236714 GTTAAAATCTAGCTCGAAATCT-GGACTGGGAAATAACTCCTCGTTGTTGAATTAAGCTAAAT
66 GTTAAAATCTAGCTCAAAATATAGGA-TAAAAAATAACTCATCATTGTTGAGTTAAGCTAAAT
10236776 CACAGTTTAT
Statistics
Matches: 217, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
132 2 0.01
133 210 0.97
134 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (133 bp):
TGACTCATTCATCGTGAAGTTGAGTCGATCTTGGATGACTTGAACTTGATATCCTTTATCGTGAA
GTTAAAATCTAGCTCAAAATATAGGATAAAAAATAACTCATCATTGTTGAGTTAAGCTAAATTGA
GGT
Found at i:10237044 original size:244 final size:245
Alignment explanation
Indices: 10236607--10237151 Score: 658
Period size: 244 Copynumber: 2.3 Consensus size: 245
10236597 AAGTCTATGA
* * * * * * * *
10236607 TGAAAAATAACTCCTCATTGTTGAGTTAAGCTAAATTGTTGTTGACTCATTCGGCGTGATGTTGA
1 TGAAAAATAGCTCCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCATTCGTCATGAAGTTGA
*** * *
10236672 ATCGATCTTGGATGACTCGAGCTTGATATCCTTTATCGTGAAGTTAAAATCTAGCTCGAAATCTG
66 ATCGATCACAGATGACTCGAGCATGATATCCTTTATCGTGAAGTTAAAATCTAGCTCGAAATCTA
* * * *
10236737 GACTGGGAAATAACTCCTCGTTGTTGAATTAAGCTAAATCACAGTTTATTTTGAGTATTCTTTTA
131 GACTAGGAAATAACTCATCGTTGTTGAATTAAGCTAAATCACAATTGATTTTGAGTATTCTTTTA
* * *
10236802 GTCCAATATCCTTCGTCGTGAAGTTGAAATTCGACTTGAAGACCTAGG-T
196 GTCCAATATCATTCGTCGTAAAGTTGAAATTCGACTTAAAGACCTAGGTT
*
10236851 TGAAAAATAGCTCATCGTTGTTGAGTTAAGCTAAATTATGGATGACTCATTCGTCATGAAGTTGA
1 TGAAAAATAGCTCCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCATTCGTCATGAAGTTGA
* * * * *
10236916 GTCGATCACAGATGACTTGAGCATGATATCCTTTGTTGTGAAGTTGAAATCTAGCTCGAAATCTA
66 ATCGATCACAGATGACTCGAGCATGATATCCTTTATCGTGAAGTTAAAATCTAGCTCGAAATCTA
* * * * * ** * *
10236981 GACTAGGAAGTAGCTTAT-GATTGTTGAGTTAAGCTAATTTGCAATTGATTTTGGGTTTTCTTTT
131 GACTAGGAAATAACTCATCG-TTGTTGAATTAAGCTAAATCACAATTGATTTTGAGTATTCTTTT
*
10237045 AGTCCAATATCATTCGTCGTAAAGTTGAAATTCGACTTAAAGACCTTGGTT
195 AGTCCAATATCATTCGTCGTAAAGTTGAAATTCGACTTAAAGACCTAGGTT
* * *
10237096 TG-AAATTAGCTCCTCGTCGTTGAGCTT----T--ATTTTGGATGACTCATTCGTCATGAAGT
1 TGAAAAATAGCTCCTCGTTGTTGAG-TTAAGCTAAATTATGGATGACTCATTCGTCATGAAGT
10237152 AGTTTCGATC
Statistics
Matches: 258, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
239 27 0.10
241 1 0.00
243 1 0.00
244 224 0.87
245 5 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (245 bp):
TGAAAAATAGCTCCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCATTCGTCATGAAGTTGA
ATCGATCACAGATGACTCGAGCATGATATCCTTTATCGTGAAGTTAAAATCTAGCTCGAAATCTA
GACTAGGAAATAACTCATCGTTGTTGAATTAAGCTAAATCACAATTGATTTTGAGTATTCTTTTA
GTCCAATATCATTCGTCGTAAAGTTGAAATTCGACTTAAAGACCTAGGTT
Found at i:10241485 original size:89 final size:89
Alignment explanation
Indices: 10241300--10241834 Score: 553
Period size: 89 Copynumber: 6.0 Consensus size: 89
10241290 AAGATTGGTT
* * * * * * *
10241300 ATCTGAAATAAGAATAATATGTTCCTCTACTC-T-CAGGGA-GATCAGACTCGAGATTGATTTGC
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCA-TGATGATCAGACTCAAGGTTGATTTGA
* * *
10241362 TTCGTTAC-TCTTTCGGGAAGACCAA
65 TTCGCTGCTTC-TTCAGGAAGACCAA
* * * ** *
10241387 TTCTGAAATAGGAAGAATATGTTCCTTTACTCTTCCATGATGATCATACTCAAGGTTGATTTGAT
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCATGATGATCAGACTCAAGGTTGATTTGAT
10241452 TCGCTGCTTCTTCAGGAAGACCAA
66 TCGCTGCTTCTTCAGGAAGACCAA
* * * * * *
10241476 ATCTAAAATAAGAAGAATCTACTCCACTATTCTTCAATGGTGATCAGACTCAAGGTTGATTTGAT
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCATGATGATCAGACTCAAGGTTGATTTGAT
*
10241541 TCGCTGCTTCTTTAGGAAGACCAA
66 TCGCTGCTTCTTCAGGAAGACCAA
* * * * *
10241565 ATTTGAAATAAGAAGAATATGTTCCACTACTCTTTCGTGGA-GATCAGACTC-GGGATTGATTTG
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCAT-GATGATCAGACTCAAGG-TTGATTTG
* * * *
10241628 TTTTGCTAC-TCTTTCGGGAAGACCAA
64 ATTCGCTGCTTC-TTCAGGAAGACCAA
* * * * *
10241654 ATCTGAAATAAGAAGAGTTTATTCCTCTACTCTTCCATGGTGATCAGACTCAAAGTTGATTTGAT
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCATGATGATCAGACTCAAGGTTGATTTGAT
* *
10241719 TCGTTGCTTCCTCAGGAAGACCAA
66 TCGCTGCTTCTTCAGGAAGACCAA
* * * * * *
10241743 ATATGAAATAAGAAGAATATACTCCACTACTCTTCCGTGGTGATCAAACTCAAGGTTGATTTCAT
1 ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCATGATGATCAGACTCAAGGTTGATTTGAT
* *
10241808 TCACTGCTTCTTCAAGAAGACCAA
66 TCGCTGCTTCTTCAGGAAGACCAA
10241832 ATC
1 ATC
10241835 GAACCTAATT
Statistics
Matches: 367, Mismatches: 71, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
87 28 0.08
88 8 0.02
89 325 0.89
90 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (89 bp):
ATCTGAAATAAGAAGAATATATTCCACTACTCTTCCATGATGATCAGACTCAAGGTTGATTTGAT
TCGCTGCTTCTTCAGGAAGACCAA
Found at i:10241817 original size:267 final size:265
Alignment explanation
Indices: 10241303--10241833 Score: 776
Period size: 267 Copynumber: 2.0 Consensus size: 265
10241293 ATTGGTTATC
* * *
10241303 TGAAATAAGAATAATATGTTCCTCTACTCTCAGGGAGATCAGACTCGAGATTGATTTGCTTCGTT
1 TGAAATAAGAAGAATATGTTCCACTACTCTCAGGGAGATCAGACTCGAGATTGATTTGCTTCGCT
* * * *
10241368 ACTCTTTCGGGAAGACCAATTCTGAAATAGGAAGAATATGTTCCTTTACTCTTCCATGATGATCA
66 ACTCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATATATTCCTCTACTCTTCCATGATGATCA
* * * * *
10241433 TACTCAAGGTTGATTTGATTCGCTGCTTCTTCAGGAAGACCAAATCTAAAATAAGAAGAATCTAC
131 GACTCAAAGTTGATTTGATTCGCTGCTTCCTCAGGAAGACCAAATATAAAATAAGAAGAATATAC
* * * * * *
10241498 TCCACTATTCTTCAATGGTGATCAGACTCAAGGTTGATTTGATTCGCTGCTTCTTTAGGAAGACC
196 TCCACTACTCTTCAATGGTGATCAAACTCAAGGTTGATTTCATTCACTGCTTCTTCAAGAAGACC
10241563 AAATT
261 AAATT
* * *
10241568 TGAAATAAGAAGAATATGTTCCACTACTCTTTC-GTGGAGATCAGACTCGGGATTGATTTGTTTT
1 TGAAATAAGAAGAATATGTTCCACTACTC--TCAG-GGAGATCAGACTCGAGATTGATTTGCTTC
* * *
10241632 GCTACTCTTTCGGGAAGACCAAATCTGAAATAAGAAGAGTTTATTCCTCTACTCTTCCATGGTGA
63 GCTACTCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATATATTCCTCTACTCTTCCATGATGA
* *
10241697 TCAGACTCAAAGTTGATTTGATTCGTTGCTTCCTCAGGAAGACCAAATATGAAATAAGAAGAATA
128 TCAGACTCAAAGTTGATTTGATTCGCTGCTTCCTCAGGAAGACCAAATATAAAATAAGAAGAATA
**
10241762 TACTCCACTACTCTTCCGTGGTGATCAAACTCAAGGTTGATTTCATTCACTGCTTCTTCAAGAAG
193 TACTCCACTACTCTTCAATGGTGATCAAACTCAAGGTTGATTTCATTCACTGCTTCTTCAAGAAG
10241827 ACCAAAT
258 ACCAAAT
10241834 CGAACCTAAT
Statistics
Matches: 235, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
265 27 0.11
266 1 0.00
267 207 0.88
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (265 bp):
TGAAATAAGAAGAATATGTTCCACTACTCTCAGGGAGATCAGACTCGAGATTGATTTGCTTCGCT
ACTCTTTCGGGAAGACCAAATCTGAAATAAGAAGAATATATTCCTCTACTCTTCCATGATGATCA
GACTCAAAGTTGATTTGATTCGCTGCTTCCTCAGGAAGACCAAATATAAAATAAGAAGAATATAC
TCCACTACTCTTCAATGGTGATCAAACTCAAGGTTGATTTCATTCACTGCTTCTTCAAGAAGACC
AAATT
Found at i:10242176 original size:40 final size:38
Alignment explanation
Indices: 10242092--10242185 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 38
10242082 TGATTCTACT
* *
10242092 AGGAAGTTAAGAATAAAAAAGATTGACTTCTCTTCATG
1 AGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACG
* * *
10242130 AAGAAGTCAAGAATAAAAAA-ATTGACTTTTTTTTTTCACG
1 AGGAAGTCAAGAATAAAAAAGATTGAC---TTCTCTTCACG
*
10242170 AGGAAGTCAATAATAA
1 AGGAAGTCAAGAATAA
10242186 CAAGGATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.13
38 18 0.39
40 22 0.48
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (38 bp):
AGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACG
Found at i:10244209 original size:97 final size:97
Alignment explanation
Indices: 10244090--10244304 Score: 333
Period size: 97 Copynumber: 2.2 Consensus size: 97
10244080 TGAATTCAGG
*
10244090 TTTATTGTATATATATTATAATCACCTTTATCAGGCTAGCTAAATGCTATCCATAAAGCCAGGGC
1 TTTATTG--TATATATTATAATCACCTTTATCAGGCTAGCTAAATACTATCCATAAAGCCAGGGC
10244155 GTTTAACCAATTGCTCTAGAGCGACAACTCAAGC
64 GTTTAACCAATTGCTCTAGAGCGACAACTCAAGC
* * * * *
10244189 TTTATTGTATATATTATAATCACCTTTATTAGGCTAGCTGAATATTATCCATAAAGTCGGGGCGT
1 TTTATTGTATATATTATAATCACCTTTATCAGGCTAGCTAAATACTATCCATAAAGCCAGGGCGT
*
10244254 TTAACCAATTGCTCTAGAGGGACAACTCAAGC
66 TTAACCAATTGCTCTAGAGCGACAACTCAAGC
*
10244286 TTTATTGTATACA-TATAAT
1 TTTATTGTATATATTATAAT
10244305 ATTATATTAT
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
96 6 0.06
97 95 0.88
99 7 0.06
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (97 bp):
TTTATTGTATATATTATAATCACCTTTATCAGGCTAGCTAAATACTATCCATAAAGCCAGGGCGT
TTAACCAATTGCTCTAGAGCGACAACTCAAGC
Found at i:10249199 original size:12 final size:12
Alignment explanation
Indices: 10249184--10249223 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
10249174 CTAATATCTA
10249184 AAAATATATTTT
1 AAAATATATTTT
10249196 AAAATA-ATTTT
1 AAAATATATTTT
*
10249207 AAAAAATAATTTT
1 AAAATAT-ATTTT
10249220 AAAA
1 AAAA
10249224 GATAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 6 0.24
13 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATATATTTT
Found at i:10249212 original size:13 final size:13
Alignment explanation
Indices: 10249183--10249228 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
10249173 TCTAATATCT
10249183 AAAAATATATTTT-
1 AAAAATA-ATTTTA
10249196 -AAAATAATTTTA
1 AAAAATAATTTTA
10249208 AAAAATAATTTTA
1 AAAAATAATTTTA
*
10249221 AAAGATAA
1 AAAAATAA
10249229 AAAATTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 19 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:10249577 original size:29 final size:28
Alignment explanation
Indices: 10249540--10249595 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
10249530 TATTAACAAA
*
10249540 TATGTAAA-TAATGGATTAAAATAATAAC
1 TATGTAAATTAAGGGATT-AAATAATAAC
*
10249568 TATGATAAATTTAGGGATTAAATAATAA
1 TATG-TAAATTAAGGGATTAAATAATAA
10249596 AATTACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (28 bp):
TATGTAAATTAAGGGATTAAATAATAAC
Found at i:10250823 original size:19 final size:19
Alignment explanation
Indices: 10250799--10250848 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
10250789 GGCAACTCAT
10250799 AACCCTAGGGTTATGATGA
1 AACCCTAGGGTTATGATGA
10250818 AACCCTAGGGTTATGATGA
1 AACCCTAGGGTTATGATGA
10250837 AACCCTAGGGTT
1 AACCCTAGGGTT
10250849 TCTGGATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (19 bp):
AACCCTAGGGTTATGATGA
Found at i:10251075 original size:3 final size:3
Alignment explanation
Indices: 10251069--10251105 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
10251059 AATTATTATT
10251069 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10251106 GTAGGACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10251086 original size:14 final size:14
Alignment explanation
Indices: 10251069--10251105 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
10251059 AATTATTATT
10251069 TAATAATAATAATA
1 TAATAATAATAATA
10251083 TAATAATAATAATA
1 TAATAATAATAATA
10251097 -ATATAATAA
1 TA-ATAATAA
10251106 GTAGGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:10251089 original size:17 final size:17
Alignment explanation
Indices: 10251069--10251105 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
10251059 AATTATTATT
10251069 TAATAATAATAATATAA
1 TAATAATAATAATATAA
10251086 TAATAATAATAATATAA
1 TAATAATAATAATATAA
10251103 TAA
1 TAA
10251106 GTAGGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAATAATAATATAA
Found at i:10254246 original size:22 final size:22
Alignment explanation
Indices: 10254204--10254245 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10254194 TCACTAACTT
*
10254204 TTTTCTTTTCCTTTCATTTTTG
1 TTTTCTTTTACTTTCATTTTTG
10254226 TTTTCTTTTACTTT-ATTTTT
1 TTTTCTTTTACTTTCATTTTT
10254246 TATTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTCTTTTACTTTCATTTTTG
Found at i:10258468 original size:35 final size:35
Alignment explanation
Indices: 10258420--10258490 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
10258410 ATTTTTATTA
* *
10258420 TTTCTTTTGAACTCAATTTTCTTTCATTCAATACT
1 TTTCTTTTAAACTCAACTTTCTTTCATTCAATACT
* *
10258455 TTTCTTTTAAACTCAACTTTCTTTCGTTCAGTACT
1 TTTCTTTTAAACTCAACTTTCTTTCATTCAATACT
10258490 T
1 T
10258491 CATTTTATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (35 bp):
TTTCTTTTAAACTCAACTTTCTTTCATTCAATACT
Found at i:10263068 original size:123 final size:124
Alignment explanation
Indices: 10262848--10263078 Score: 376
Period size: 123 Copynumber: 1.9 Consensus size: 124
10262838 TTGATAGAGT
10262848 CAATTTCAACTTCACAATGAAAGATATTGAACTCGAAAGCGATACAATTTACAAGAGTGGATTTC
1 CAATTTCAACTTCACAATGAAAGATATTGAACTCGAAAGCGATACAATTTACAAGAGTGGATTTC
*
10262913 AACTTCGCAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGCAAAGGAGCCATCCA
66 AACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGCAAAGGAGCCATCCA
* * * *
10262972 CAATTTCAACTTCACAGTGAAAGATATT-ATTCTC-AAAGCGATTCAATTTACAAGATTGGATTT
1 CAATTTCAACTTCACAATGAAAGATATTGA-ACTCGAAAGCGATACAATTTACAAGAGTGGATTT
* *
10263035 CAACTTCACAATGAAGGACTTCCAATTTAAAGCTCAACTTCACA
65 CAACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACA
10263079 ATGAGTGAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
123 69 0.70
124 30 0.30
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (124 bp):
CAATTTCAACTTCACAATGAAAGATATTGAACTCGAAAGCGATACAATTTACAAGAGTGGATTTC
AACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGCAAAGGAGCCATCCA
Found at i:10263833 original size:44 final size:43
Alignment explanation
Indices: 10263777--10263874 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 43
10263767 TGTGACTTAT
10263777 TTATATTATATGGTATATACATA-TCACATATTTATGATGTATAC
1 TTATATTATATGGTATATACATATTCA-ATATTTATGATGT-TAC
* * *
10263821 TTATGTTATATGGTATATACGTATTGAATATTTATGATGTTAC
1 TTATATTATATGGTATATACATATTCAATATTTATGATGTTAC
*
10263864 TTACATTATAT
1 TTATATTATAT
10263875 ATTATGCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 12 0.25
44 34 0.71
45 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (43 bp):
TTATATTATATGGTATATACATATTCAATATTTATGATGTTAC
Found at i:10265028 original size:24 final size:23
Alignment explanation
Indices: 10264980--10265030 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
10264970 CATTCTTTTG
*
10264980 TTTTTTTATTTGTTTTTTATGTC
1 TTTTTTTATTTGTTTTTAATGTC
*
10265003 TTTTATTTATTT-TTATTTAATTTC
1 TTTT-TTTATTTGTT-TTTAATGTC
10265027 TTTT
1 TTTT
10265031 CTTTCCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTTATTTGTTTTTAATGTC
Found at i:10268526 original size:45 final size:45
Alignment explanation
Indices: 10268471--10268557 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
10268461 TTTACGTTTG
10268471 AACTCATTTTATGTGAACTTGTGATTTTAATCATCCTTATGTCCA
1 AACTCATTTTATGTGAACTTGTGATTTTAATCATCCTTATGTCCA
* * *
10268516 AACTCGTTTTATGTGAACTTGTGATTTTAATCGTCTTTATGT
1 AACTCATTTTATGTGAACTTGTGATTTTAATCATCCTTATGT
10268558 TTGAACCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (45 bp):
AACTCATTTTATGTGAACTTGTGATTTTAATCATCCTTATGTCCA
Found at i:10269871 original size:83 final size:83
Alignment explanation
Indices: 10269781--10270176 Score: 356
Period size: 82 Copynumber: 4.8 Consensus size: 83
10269771 CCGCGATTGC
* * * * *
10269781 GTAGTACTTTAGCAGCGTATATATAAAAACGCCGCAATTGGGTTCATTTATAGTGGCATTTTTTC
1 GTAGTACTTTAGCGGCGTTTATATAAAAACGACGCAATAGGGTTCATCTATAGTGGCATTTTTTC
*
10269846 AACAAACACCGTAACAGA
66 AACAAACACCGCAACAGA
* * * * * *
10269864 GTAGTACTTTAGCGGCGTTTCTATACAAACGACACAATA-GGTTCATCCATAGTGGC-GTTTCTC
1 GTAGTACTTTAGCGGCGTTTATATAAAAACGACGCAATAGGGTTCATCTATAGTGGCATTTTTTC
*
10269927 AACAAACACCGTGAA-AGA
66 AACAAACACCG-CAACAGA
** * * * *
10269945 AAAGTACTTTAGCGGCGTTTGTATAAAAATGACGTAATAGGGTTCATCTATAGTGACATTTTTTC
1 GTAGTACTTTAGCGGCGTTTATATAAAAACGACGCAATAGGGTTCATCTATAGTGGCATTTTTTC
* * *
10270010 AACAAACGCTGCAAAAGA
66 AACAAACACCGCAACAGA
* * * ** * * * *
10270028 GTATTACTTTAACAGTTTTTTTATACAAAC-ATCGTAATAGGGTTCATATATAGTGGCA-TTTTT
1 GTAGTACTTTAGCGGCGTTTATATAAAAACGA-CGCAATAGGGTTCATCTATAGTGGCATTTTTT
**
10270091 CAACAAACGTCGCAACAGA
65 CAACAAACACCGCAACAGA
* * * * *
10270110 GTAGTACTTTAGCGGCGTTT-TCATACAAAC-ACCGCAATAGAGTTAATCTATAATGGCGTTGTT
1 GTAGTACTTTAGCGGCGTTTAT-ATAAAAACGA-CGCAATAGGGTTCATCTATAGTGGCATT-TT
10270173 TTCA
63 TTCA
10270177 GAAAATGCCT
Statistics
Matches: 252, Mismatches: 53, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
81 52 0.21
82 100 0.40
83 94 0.37
84 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (83 bp):
GTAGTACTTTAGCGGCGTTTATATAAAAACGACGCAATAGGGTTCATCTATAGTGGCATTTTTTC
AACAAACACCGCAACAGA
Found at i:10271073 original size:15 final size:15
Alignment explanation
Indices: 10271054--10271091 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10271044 TGGTTTTACT
10271054 CGACCCGGATTGACC
1 CGACCCGGATTGACC
*
10271069 TGACCCGGATTGACC
1 CGACCCGGATTGACC
10271084 CGACCCGG
1 CGACCCGG
10271092 TCCAGTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.39, G:0.29, T:0.13
Consensus pattern (15 bp):
CGACCCGGATTGACC
Found at i:10271122 original size:17 final size:18
Alignment explanation
Indices: 10271100--10271133 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10271090 GGTCCAGTCT
10271100 GACCCGA-CCGTTGATCA
1 GACCCGACCCGTTGATCA
10271117 GACCCGACCCGTTGATC
1 GACCCGACCCGTTGATC
10271134 GTTGACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GACCCGACCCGTTGATCA
Found at i:10271155 original size:17 final size:18
Alignment explanation
Indices: 10271130--10271163 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10271120 CCGACCCGTT
*
10271130 GATCGTTGACT-TTGACC
1 GATCATTGACTGTTGACC
10271147 GATCATTGACTGTTGAC
1 GATCATTGACTGTTGAC
10271164 TTTAACCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (18 bp):
GATCATTGACTGTTGACC
Found at i:10273702 original size:32 final size:31
Alignment explanation
Indices: 10273627--10273702 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
10273617 CTAATGAGAC
* * *
10273627 TCTTAGGTAGGCTCTGCGGCCTTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
10273658 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
10273690 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
10273703 TCGTAGCCCC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:10284126 original size:85 final size:85
Alignment explanation
Indices: 10283996--10284298 Score: 304
Period size: 85 Copynumber: 3.6 Consensus size: 85
10283986 AGGTAATTAG
* * * *
10283996 CGGCGTTTGTATCTAAAAACGCCGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAAACGT
1 CGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTTGTTCCAAAAACGC
10284060 TGCTATAAATATGACCTTTTA
65 TGCTATAAATATGACCTTTTA
* * * * *
10284081 CGGCGTTTGTTCCAAAAACACCGCTATAGATCTCAACCATTTGCGGTGTTTGTTCCAAAACCGCC
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTTGTTCCAAAAACGCT
* *
10284146 GCTATAGATATGACCTTTTG
66 GCTATAAATATGACCTTTTA
* ** * * * *
10284166 TGATGTTTGTTCCAAAAACGCCACTATAGATCTCAACCTTTTGTGGCGTTTGTCCCAAAAATGCT
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTTGTTCCAAAAACGCT
* * * *
10284231 GCTATATATCTTGAACTTTTG
66 GCTATAAAT-ATGACCTTTTA
** * * * * * *
10284252 TAGCATTAGTTCC-AAAATGCCGCTATAGATATCGACCTTTAGCGGCG
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCAACCTTTTGCGGCG
10284299 CTGGTATAGC
Statistics
Matches: 179, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
84 20 0.11
85 142 0.79
86 17 0.09
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (85 bp):
CGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTTGTTCCAAAAACGCT
GCTATAAATATGACCTTTTA
Found at i:10284148 original size:43 final size:42
Alignment explanation
Indices: 10283995--10284298 Score: 286
Period size: 42 Copynumber: 7.1 Consensus size: 42
10283985 AAGGTAATTA
*
10283995 GCGGCGTTTGTATCTAAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTT
** *
10284038 GCGGCGTTTGTTCCAAAAACGTTGCTATAAATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTT
* * * * *
10284080 ACGGCGTTTGTTCCAAAAACACCGCTATAGATCTCAACCATTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTT
* *
10284123 GCGGTGTTTGTTCCAAAACCGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTT
* ** * * *
10284165 GTGATGTTTGTTCCAAAAACGCCACTATAGATCTCAACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTT
* * * * * * *
10284208 GTGGCGTTTGTCCCAAAAATGCTGCTATATATCTTGAACTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGAT-ATGACCTTTT
** * * * *
10284251 GTAGCATTAGTTCC-AAAATGCCGCTATAGATATCGACCTTTA
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTT
10284293 GCGGCG
1 GCGGCG
10284299 CTGGTATAGC
Statistics
Matches: 210, Mismatches: 47, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.00
42 114 0.54
43 94 0.45
44 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTT
Found at i:10286260 original size:38 final size:38
Alignment explanation
Indices: 10286157--10286263 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
10286147 AACGAGCTTC
* * * *
10286157 TAAACAAGATTGTTAATGAACATAAACAAACGAGTTAA
1 TAAATAAGATTGTTCATGAACATAAACGAACAAGTTAA
* *
10286195 TAAATGAGATTGTTCATGAACATAAACGGACAAGTTAA
1 TAAATAAGATTGTTCATGAACATAAACGAACAAGTTAA
*
10286233 TAAATAAGCA-TGTTCGTGAACATAAACGAAC
1 TAAATAAG-ATTGTTCATGAACATAAACGAAC
10286264 CGAACACACC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 58 0.98
39 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (38 bp):
TAAATAAGATTGTTCATGAACATAAACGAACAAGTTAA
Found at i:10287939 original size:5 final size:5
Alignment explanation
Indices: 10287929--10288023 Score: 52
Period size: 5 Copynumber: 18.2 Consensus size: 5
10287919 ATAGGGAAAC
* *
10287929 AAATA AAAT- AAATA AAATA AAGATAA AAATG ACATAA AAATAA AAATA
1 AAATA AAATA AAATA AAATA AA-AT-A AAATA AAAT-A AAAT-A AAATA
* * * *
10287977 AAA-A ATAA-A AAATA ATAATA TAATA TAATA TAAGA AAATA ATAATA
1 AAATA A-AATA AAATA A-AATA AAATA AAATA AAATA AAATA A-AATA
10288023 A
1 A
10288024 TATATACCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
4 8 0.11
5 41 0.55
6 22 0.30
7 3 0.04
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:10287971 original size:6 final size:6
Alignment explanation
Indices: 10287938--10287987 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
10287928 CAAATAAAAT
* * *
10287938 AAAT-A AAATAA AGATAA AAAT-G ACATAA AAATAA AAATAAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA
10287985 AAA
1 AAA
10287988 ATAATAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
5 7 0.19
6 23 0.64
7 6 0.17
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:10287993 original size:23 final size:22
Alignment explanation
Indices: 10287933--10288142 Score: 75
Period size: 23 Copynumber: 9.1 Consensus size: 22
10287923 GGAAACAAAT
* *
10287933 AAAATAAATAAAATAAAGAT-A
1 AAAATAAAAAAAATAAAAATAA
*
10287954 AAAATGACATAAAAATAAAAATAA
1 AAAAT-A-AAAAAAATAAAAATAA
*
10287978 AAAATAAAAAATAAT-AATATAA
1 AAAATAAAAAA-AATAAAAATAA
* * *
10288000 TATAATATAAGAAAATAATAATAA
1 -AAAATA-AAAAAAATAAAAATAA
* * ** *
10288024 TATATACCATAAATAAATAAATGAGA
1 AAAATAAAAAAAAT-AA-AAAT-A-A
* *
10288050 ACAAGAATAAAAAATAAAAATAA
1 AAAATAA-AAAAAATAAAAATAA
** * *
10288073 ATAAAGGAATAAAATAAATATAA
1 A-AAATAAAAAAAATAAAAATAA
***
10288096 AGGCTAAAAAAAAGTAAAAATATA
1 AAAATAAAAAAAA-TAAAAATA-A
* *
10288120 AAAAT-ATAAAAATATAAATAA
1 AAAATAAAAAAAATAAAAATAA
10288141 AA
1 AA
10288143 TAAAGAGAGA
Statistics
Matches: 134, Mismatches: 40, Indels: 30
0.66 0.20 0.15
Matches are distributed among these distances:
21 8 0.06
22 28 0.21
23 57 0.43
24 26 0.19
25 5 0.04
26 5 0.04
27 5 0.04
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAATAAAAAAAATAAAAATAA
Found at i:10287996 original size:13 final size:13
Alignment explanation
Indices: 10287970--10288023 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
10287960 ACATAAAAAT
*
10287970 AAAAATAAAAAATA
1 AAAAAT-AATAATA
10287984 AAAAATAATAATA
1 AAAAATAATAATA
* *
10287997 TAATATAAT-ATA
1 AAAAATAATAATA
10288009 AGAAAATAATAATA
1 A-AAAATAATAATA
10288023 A
1 A
10288024 TATATACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 3 0.09
13 20 0.61
14 10 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAAATAATAATA
Found at i:10288121 original size:8 final size:8
Alignment explanation
Indices: 10288110--10288137 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10288100 TAAAAAAAAG
10288110 TAAAAATA
1 TAAAAATA
10288118 TAAAAATA
1 TAAAAATA
10288126 TAAAAATA
1 TAAAAATA
10288134 TAAA
1 TAAA
10288138 TAAAATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:10288394 original size:5 final size:5
Alignment explanation
Indices: 10288386--10288415 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
10288376 AGGATAAAAC
10288386 AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
10288416 CATATATATG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:10288496 original size:4 final size:4
Alignment explanation
Indices: 10288487--10288526 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
10288477 AAAAAGATAA
* *
10288487 AAAT AAAT AAAAT AAAT AAAT AAAT ATAT AAAT ATAT AAA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10288527 AAGTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:10288570 original size:2 final size:2
Alignment explanation
Indices: 10288559--10288594 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10288549 AAAAGGTAAA
*
10288559 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10288595 GTAATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10288728 original size:44 final size:45
Alignment explanation
Indices: 10288633--10288740 Score: 107
Period size: 44 Copynumber: 2.4 Consensus size: 45
10288623 GAAATAATCA
* * * * *
10288633 AATA-AAAATAATTAAAATATATATATATATTAATAATAGGTATAT
1 AATATAAAAT-ATTAAAAAATATACATATATTAACAATAGATAAAT
10288678 AA-ATAAAATATTAAAAAATATACATATATGTAACAA-A-ATAAAT
1 AATATAAAATATTAAAAAATATACATATAT-TAACAATAGATAAAT
*
10288721 AATATAAAATAATAATAAAA
1 AATATAAAATATTAA-AAAA
10288741 ATAATAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.11
44 31 0.58
45 16 0.30
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (45 bp):
AATATAAAATATTAAAAAATATACATATATTAACAATAGATAAAT
Found at i:10289852 original size:19 final size:20
Alignment explanation
Indices: 10289816--10289853 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10289806 TCTTATAATA
*
10289816 TATAGTATAATATATTTATG
1 TATAGTATAACATATTTATG
*
10289836 TATA-TATAACATGTTTAT
1 TATAGTATAACATATTTAT
10289854 TAACACTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (20 bp):
TATAGTATAACATATTTATG
Found at i:10290793 original size:161 final size:161
Alignment explanation
Indices: 10290597--10290921 Score: 488
Period size: 161 Copynumber: 2.0 Consensus size: 161
10290587 AGGTCTTTGG
* * * * *
10290597 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGCTCCTTTGAGATGAATGGAAT
1 TTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATGCGCCTTTAAGATGAATGAAAT
* *
10290662 CAAACTCTAAGGTCTCTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTGCCCT
66 CAAACTCTAAGGTCTCTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCT
* * *
10290727 TGAAACTGAGTGTAATCGAACTCGAGGGTCT
131 CGAAACTGAGTGTAATCGAACTCGAAGGTAT
* * *
10290758 TTGGCAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGCGCCTTTAAGCTGAATGAAAT
1 TTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATGCGCCTTTAAGATGAATGAAAT
* * *
10290823 CGAATTCTAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCT
66 CAAACTCTAAGGTCTCTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCT
* *
10290888 CGAAGCTGAGTGTAGTCGAACTCGAAGGTAT
131 CGAAACTGAGTGTAATCGAACTCGAAGGTAT
10290919 TTG
1 TTG
10290922 TGTTTCAAGA
Statistics
Matches: 146, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
161 146 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (161 bp):
TTGGCAGATAACCCTTCTAGCCTTAAGCTATGCTGCAAATGATGCGCCTTTAAGATGAATGAAAT
CAAACTCTAAGGTCTCTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCT
CGAAACTGAGTGTAATCGAACTCGAAGGTAT
Found at i:10290795 original size:81 final size:80
Alignment explanation
Indices: 10290431--10290921 Score: 439
Period size: 80 Copynumber: 6.0 Consensus size: 80
10290421 ATTTTGTTGA
* * * * *
10290431 CAGATAGCCCTTCTTGCCTTGAGTTATGTTGTAAATTTGATTTGCCTCTG-AGCTGAGTGTAATC
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGCCT-TGAAGCTGAGTGTAATC
10290495 GAACTCGAAGGTCTTTGGTTGG
63 GAACTCGAAGGTC--T--TTGG
* * * * * * ** ** * * * *
10290517 CAGATAACCCATCTCGACTTAAGCTATACTATAAATGATGTGCCTTTCAGCTAAGCGTAGTCTAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
*
10290582 CCCGAAGGTCTTTGGTTGG
66 CTCGAAGGTC--T--TTGG
* * * *
10290601 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGCT-CCTTTG-AGATGAATGGAATCA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG-TGCC-TTGAAGCTGAGTGTAATCG
* *
10290664 AACTCTAAGGTCTCTGG
64 AACTCGAAGGTCTTTGG
* *
10290681 CAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTGCCCTTGAAACTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGA
*
10290746 ACTCGAGGGTCTTTGG
65 ACTCGAAGGTCTTTGG
* * * * * * * *
10290762 CAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGCGCCTTTAAGCTGAATGAAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
* *
10290827 TTCTAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * *
10290842 CAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGA
*
10290907 ACTCGAAGGTATTTG
65 ACTCGAAGGTCTTTG
10290922 TGTTTCAAGA
Statistics
Matches: 327, Mismatches: 71, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
79 1 0.00
80 112 0.34
81 91 0.28
82 1 0.00
83 1 0.00
84 92 0.28
85 3 0.01
86 26 0.08
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (80 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGG
Found at i:10290957 original size:35 final size:34
Alignment explanation
Indices: 10290918--10291036 Score: 188
Period size: 33 Copynumber: 3.5 Consensus size: 34
10290908 CTCGAAGGTA
10290918 TTTGTGTTTCAAGAGAAAC-ATTTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACGA-TTTCAAAGG-TTTT
*
10290953 TTTGTGTTTCAAGATAAACGATTTCAAAGG-TTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTT
*
10290986 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTGTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTT
10291020 TTTGTGTTTCAAGAGAA
1 TTTGTGTTTCAAGAGAA
10291037 GCTGTCTCCA
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
33 32 0.41
34 19 0.24
35 27 0.34
36 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (34 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTT
Found at i:10291096 original size:67 final size:70
Alignment explanation
Indices: 10290990--10291140 Score: 188
Period size: 67 Copynumber: 2.2 Consensus size: 70
10290980 AGGTTTTTTG
* * * *
10290990 TGTTTCAAGAGAAACGATTTCAAAGGTGTTTTTGTGTTTCAAGAGAAGCTGTCTCCACG-GAGGC
1 TGTTTCAAGAGAAACGATTTCAAAGGTG-TTTGGTGTTTCAAGAGAAACTGTCT-CAAGAGAGAC
*
10291054 AAAATTT
64 AAAACTT
10291061 TGTTTCAAGAGAAAC-ATATTCAAA-G-G-TTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
10291122 AAACTT
65 AAACTT
10291128 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
10291141 ACTATCTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
66 7 0.10
67 41 0.56
69 1 0.01
70 3 0.04
71 21 0.29
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (70 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTGTTTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
AACTT
Found at i:10291143 original size:37 final size:37
Alignment explanation
Indices: 10291091--10291177 Score: 133
Period size: 37 Copynumber: 2.4 Consensus size: 37
10291081 CAAAGGTTGG
*
10291091 TGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGAGAAACTATCTCAAGAGAGACAAAA-TT
10291128 TGTTTCAAGGA-AAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGAGAAACTATCTCAAGAGAGACAAAATT
10291164 TGTTTCAAGAGAGA
1 TGTTTCAAG-GAGA
10291178 CAAAACTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 11 0.24
37 32 0.70
38 3 0.07
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGGAGAAACTATCTCAAGAGAGACAAAATT
Found at i:10291184 original size:58 final size:58
Alignment explanation
Indices: 10291110--10291295 Score: 167
Period size: 58 Copynumber: 3.1 Consensus size: 58
10291100 AGAAACTGTC
*
10291110 TCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTT
* * * * * * *
10291168 TCAAGAGAGACAAAACTTAGTTCCAA-AATAAATTGTCTCAAGGGACACGAAATTTGTT
1 TCAAGAGAGACAAAACTTTGTTTCAAGGA-AAACTGTCTCAAGAGAGACAAAATTTGTT
* * * * * *
10291226 TCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATATGTT
1 TCAA-G---AGAGA--CAAA-ACTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTT
10291291 TCAAG
1 TCAAG
10291296 GGAAACTATC
Statistics
Matches: 98, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.01
58 52 0.53
59 1 0.01
62 3 0.03
64 5 0.05
65 36 0.37
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (58 bp):
TCAAGAGAGACAAAACTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTT
Found at i:10291298 original size:36 final size:36
Alignment explanation
Indices: 10291251--10291327 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
10291241 TCAAAGATTT
* *
10291251 TGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATA
*
10291287 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATA
10291323 TGTTT
1 TGTTT
10291328 TGAGTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATA
Found at i:10291814 original size:32 final size:36
Alignment explanation
Indices: 10291769--10291855 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 36
10291759 TGCACGTTTT
*
10291769 CCTTCGTCATGAAGTTGAAACCGTGG-A-T-GAC-C
1 CCTTCGTCGTGAAGTTGAAACCGTGGAATTGGACAC
* * *
10291801 CCTTCGTTGTGAAGTTG-AGCCGTGGAATTGGACAT
1 CCTTCGTCGTGAAGTTGAAACCGTGGAATTGGACAC
10291836 CCTTCGTCGTGAAGTTGAAA
1 CCTTCGTCGTGAAGTTGAAA
10291856 TCCAATGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 7 0.16
32 16 0.36
33 1 0.02
34 3 0.07
35 16 0.36
36 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (36 bp):
CCTTCGTCGTGAAGTTGAAACCGTGGAATTGGACAC
Found at i:10291848 original size:35 final size:31
Alignment explanation
Indices: 10291768--10291854 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 31
10291758 GTGCACGTTT
*
10291768 TCCTTCGTCATGAAGTTGAAACCGTGGATGAC
1 TCCTTCGTCGTGAAGTTG-AACCGTGGATGAC
* * *
10291800 CCCTTCGTTGTGAAGTTGAGCCGTGGAATTGGAC
1 TCCTTCGTCGTGAAGTTGAACCGTGG-A-T-GAC
10291834 ATCCTTCGTCGTGAAGTTGAA
1 -TCCTTCGTCGTGAAGTTGAA
10291855 ATCCAATGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
31 7 0.16
32 16 0.36
33 1 0.02
34 3 0.07
35 17 0.39
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (31 bp):
TCCTTCGTCGTGAAGTTGAACCGTGGATGAC
Found at i:10293138 original size:95 final size:94
Alignment explanation
Indices: 10292970--10293152 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 94
10292960 TGTAAACACA
* * *
10292970 TTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGATA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGATA
* *
10293035 GCTCAAGCTTTATTGTATAGTATAATCACC
66 ACTAAAGCTTTATTGTATA-TATAATCACC
* * *
10293065 TTTATTAGGCTAGTTGAATATTATCCATAAAGCCGAGGTGTTTAACCAATTG-CTCTAGAGGGAT
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCT-TAGAGGGAT
10293129 AACTAAAGCTTTATTGTATATATA
65 AACTAAAGCTTTATTGTATATATA
10293153 TAATATTATA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 6 0.08
95 73 0.92
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (94 bp):
TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGAGGCGTTTAACCAATTGCCTTAGAGGGATA
ACTAAAGCTTTATTGTATATATAATCACC
Done.