Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 297 of 297
Found at i:100854712 original size:14 final size:14
Alignment explanation
Indices: 100854686--100854756 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
100854676 AAATATTTAA
100854686 TTATGGTTTAAGGG
1 TTATGGTTTAAGGG
* * *
100854700 TTGTGGTTAAAGGT
1 TTATGGTTTAAGGG
*
100854714 TTATGGTTTAAGGT
1 TTATGGTTTAAGGG
*
100854728 TTAGGGTTT-AGGG
1 TTATGGTTTAAGGG
*
100854741 TTTATGGTTTAGGGG
1 -TTATGGTTTAAGGG
100854756 T
1 T
100854757 AGGGGTTATG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 3 0.07
14 40 0.87
15 3 0.07
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGG
Found at i:100854721 original size:7 final size:7
Alignment explanation
Indices: 100854686--100854751 Score: 60
Period size: 7 Copynumber: 9.4 Consensus size: 7
100854676 AAATATTTAA
100854686 TTATGGT
1 TTATGGT
* *
100854693 TTAAGGG
1 TTATGGT
*
100854700 TTGTGGT
1 TTATGGT
* *
100854707 TAAAGGT
1 TTATGGT
100854714 TTATGGT
1 TTATGGT
*
100854721 TTAAGGT
1 TTATGGT
*
100854728 TTAGGGT
1 TTATGGT
*
100854735 TTAGGGT
1 TTATGGT
100854742 TTATGGT
1 TTATGGT
100854749 TTA
1 TTA
100854752 GGGGTAGGGG
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:100854726 original size:28 final size:28
Alignment explanation
Indices: 100854686--100854760 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
100854676 AAATATTTAA
100854686 TTATGGTTTAAGGGTT-GTGGTTAAAGGT
1 TTATGGTTTAAGGGTTAG-GGTTAAAGGT
* * *
100854714 TTATGGTTTAAGGTTTAGGGTTTAGGGT
1 TTATGGTTTAAGGGTTAGGGTTAAAGGT
*
100854742 TTATGGTTT-AGGGGTAGGG
1 TTATGGTTTAAGGGTTAGGG
100854761 GTTATGATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.20
28 32 0.78
29 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.43
Consensus pattern (28 bp):
TTATGGTTTAAGGGTTAGGGTTAAAGGT
Found at i:100854750 original size:21 final size:21
Alignment explanation
Indices: 100854711--100854754 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
100854701 TGTGGTTAAA
*
100854711 GGTTTATGGTTTAAGGTTTAG
1 GGTTTAGGGTTTAAGGTTTAG
*
100854732 GGTTTAGGGTTTATGGTTTAG
1 GGTTTAGGGTTTAAGGTTTAG
100854753 GG
1 GG
100854755 GTAGGGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGGTTTAG
Found at i:100854763 original size:21 final size:21
Alignment explanation
Indices: 100854718--100854760 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
100854708 AAAGGTTTAT
*
100854718 GGTTTAAGGTTTAGGGTTTAG
1 GGTTTAAGGTTTAGGGTGTAG
*
100854739 GGTTTATGGTTTAGGG-GTAG
1 GGTTTAAGGTTTAGGGTGTAG
100854759 GG
1 GG
100854761 GTTATGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGTGTAG
Found at i:100856298 original size:46 final size:46
Alignment explanation
Indices: 100856231--100856323 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
100856221 GTACTCTACC
100856231 ATGTTCTTGAGTTTATTCCTATTATTAGTCATCCATTAACATATAT
1 ATGTTCTTGAGTTTATTCCTATTATTAGTCATCCATTAACATATAT
100856277 ATGTTCTTGAGTTTATTCCTATTATTAGTCATCCATTAACATATAT
1 ATGTTCTTGAGTTTATTCCTATTATTAGTCATCCATTAACATATAT
100856323 A
1 A
100856324 CTTAAAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (46 bp):
ATGTTCTTGAGTTTATTCCTATTATTAGTCATCCATTAACATATAT
Found at i:100856747 original size:3 final size:3
Alignment explanation
Indices: 100856739--100856767 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100856729 TGATTTGGGT
100856739 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
100856768 TACTGTCTTG
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:100860530 original size:21 final size:21
Alignment explanation
Indices: 100860501--100860547 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
100860491 CAGCTTCTTT
*
100860501 GCAGTGATGACAAACTGTTCC
1 GCAGCGATGACAAACTGTTCC
*
100860522 GCAGCGATGACAAACTGTTCT
1 GCAGCGATGACAAACTGTTCC
100860543 GCAGC
1 GCAGC
100860548 CTTTAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
GCAGCGATGACAAACTGTTCC
Found at i:100860774 original size:42 final size:38
Alignment explanation
Indices: 100860681--100860793 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 38
100860671 GCAAACAACA
* *
100860681 CTATCAACAAACAACAGT-ATGCATTTCTTAAGCCTGCC
1 CTATCAACAAACAACAGTCAT-CAATTCTTAAGCCGGCC
* *
100860719 C-AACAACAGACAACAGTCATCAATTCTTAAGCCAAGGCAC
1 CTATCAACAAACAACAGTCATCAATTCTTAAGCC--GGC-C
*
100860759 CTTATCAACAAACAACAATCATCAATTCTTAAGCC
1 C-TATCAACAAACAACAGTCATCAATTCTTAAGCC
100860794 TAATCCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
37 26 0.42
38 3 0.05
39 2 0.03
40 2 0.03
42 29 0.47
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (38 bp):
CTATCAACAAACAACAGTCATCAATTCTTAAGCCGGCC
Found at i:100861180 original size:38 final size:38
Alignment explanation
Indices: 100861138--100861278 Score: 140
Period size: 38 Copynumber: 4.0 Consensus size: 38
100861128 GCAGAAACTG
100861138 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* *
100861176 GCAAATCGACAGAAAAGAAAAGAAAATAAAC--A--GA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
*
100861210 G------GGCAGAAAAGAAAAGAAAAGAAACGAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* * * * *
100861242 GCAAATTGGAAGAAAAGAACAGAAAATAAACAGAGGG
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGG
100861279 CAGAAAAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
28 22 0.26
30 1 0.01
32 3 0.04
34 3 0.04
36 1 0.01
38 54 0.64
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.04
Consensus pattern (38 bp):
GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
Found at i:100861225 original size:66 final size:66
Alignment explanation
Indices: 100861145--100861294 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
100861135 CTGGCAAATC
100861145 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAA-TCGACAGAAAAGAAAAGAAAATAAACAG
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGA-AGAAAAGAAAAGAAAATAAACAG
100861209 AG
65 AG
* * *
100861211 GGCAGAAAAGAAAAGAAAAGAAACGAAGGGAGCAAATTGGAAGAAAAGAACAGAAAATAAACAGA
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
100861276 G
66 G
100861277 GGCAGAAAAGAAAAGAAA
1 GGCAGAAAAGAAAAGAAA
100861295 CGGAGGGAGC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 77 0.96
67 3 0.04
ACGTcount: A:0.63, C:0.08, G:0.26, T:0.03
Consensus pattern (66 bp):
GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
G
Found at i:100861228 original size:61 final size:62
Alignment explanation
Indices: 100861152--100861315 Score: 224
Period size: 66 Copynumber: 2.6 Consensus size: 62
100861142 ATCGGCAGAA
*
100861152 AAGAAAAGAAAAGAAACAAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
1 AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
* *
100861214 AGAAAAGAAAAGAAAAGAAACGAAGGGAGCAAATTGGA-AGAAAAGAACAGAAAATAAACAGAGG
1 ----AAGAAAAGAAAAGAAACGAAGGGAGCAAA-TCGACAGAAAAGAAAAGAAAATAAACAGAGG
100861278 GC
61 GC
* *
100861280 -AGAAAAGAAAAGAAACGGAGGGAGCAAATCGGCAGA
1 AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGA
100861316 GGTTAGAAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
60 2 0.02
61 30 0.33
66 55 0.61
67 3 0.03
ACGTcount: A:0.60, C:0.09, G:0.27, T:0.04
Consensus pattern (62 bp):
AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
Found at i:100861283 original size:23 final size:23
Alignment explanation
Indices: 100861257--100861301 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
100861247 TTGGAAGAAA
* *
100861257 AGAACAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAACAGAGGGC
*
100861280 AGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAACAGAGGG
100861302 AGCAAATCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.31, T:0.02
Consensus pattern (23 bp):
AGAAAAGAAAAGAAACAGAGGGC
Found at i:100862750 original size:42 final size:43
Alignment explanation
Indices: 100862686--100863009 Score: 361
Period size: 43 Copynumber: 7.6 Consensus size: 43
100862676 ATAATTTTTT
*
100862686 TAAAGGTCATGTTTTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAG-GAAAAGCGCCGC
* * * * *
100862729 TAAAGGT-TTGTTCTATAGCGGCGTTTGT-GGGAAAGTGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
* * * *
100862770 TAAAGGTCATGTT-TTTAGCAGCGTTTCTAGGAAAAGTGCAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
* * * **
100862812 TAAAGGGCATGTTCTTTAGCGACGTTTCTAGGAAAAGCGTTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
* * *
100862855 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGGAATGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
* * *
100862897 TAAAGGTCATGTGCTTTAGCGGGGTTTGTAGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
* * *
100862940 TAAAGGTCATGTTCTTTAGCGACATTTGTAGGAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
** *
100862983 TAAAAATCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
100863010 TTTTCATGAA
Statistics
Matches: 233, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
41 28 0.12
42 80 0.34
43 125 0.54
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGC
Found at i:100862901 original size:85 final size:86
Alignment explanation
Indices: 100862686--100863009 Score: 354
Period size: 85 Copynumber: 3.8 Consensus size: 86
100862676 ATAATTTTTT
* * **
100862686 TAAAGGTCATGTTTTTTAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAA-GGTTTGTTCTATAGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAG-GAAAAGCGCCACTAAAGGGCATGTTCTATAGCG
* *
100862749 GCGTTTGT-GGGAAAGTGTCGC
65 GCGTTTGTAGGAAAAGCGTCGC
* * * *
100862770 TAAAGGTCATGTT-TTTAGCAGCGTTTCTAGGAAAAGTG-CAGCTAAAGGGCATGTTCTTTAGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCA-CTAAAGGGCATGTTCTATAGCG
* * *
100862833 ACGTTTCTAGGAAAAGCGTTGC
65 GCGTTTGTAGGAAAAGCGTCGC
* * * * *
100862855 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGGAATGCGCCACTAAAGGTCATGTGCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGGCATGTTCTATAGCGG
* **
100862919 GGTTTGTAGGAAAAGCACCGC
66 CGTTTGTAGGAAAAGCGTCGC
* * ***
100862940 TAAAGGTCATGTTCTTTAGCGACATTTGTAGGAAAAGCGCCACTAAAAATCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGGCATGTTCTATAGCGG
100863005 CGTTT
66 CGTTT
100863010 TTTTCATGAA
Statistics
Matches: 199, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
82 1 0.01
83 25 0.13
84 33 0.17
85 92 0.46
86 48 0.24
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (86 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGGGCATGTTCTATAGCGG
CGTTTGTAGGAAAAGCGTCGC
Found at i:100866997 original size:37 final size:35
Alignment explanation
Indices: 100866935--100867004 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
100866925 TTCCAAAAAT
*
100866935 AATATTATTTTAATAGTTTAATATTAAATTTAATTG
1 AATATTATTTTAATAATTTAATATT-AATTTAATTG
*
100866971 AATACTTATTTTAATAATATT-TTATTAATTTAAT
1 AATA-TTATTTTAATAAT-TTAATATTAATTTAAT
100867005 ATTAAAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 12 0.40
37 16 0.53
38 2 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
AATATTATTTTAATAATTTAATATTAATTTAATTG
Found at i:100867017 original size:20 final size:18
Alignment explanation
Indices: 100866935--100867044 Score: 57
Period size: 19 Copynumber: 5.9 Consensus size: 18
100866925 TTCCAAAAAT
* *
100866935 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
*
100866954 AATATTAAATTT-A-ATTG
1 AATATT-AATTTAATATTA
* *
100866971 AATACTTATTTTAATAATA
1 AATA-TTAATTTAATATTA
**
100866990 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
100867009 AAGTGATT-ATCTTATTATTA
1 AA-T-ATTAAT-TTAATATTA
100867029 AAT-TTAATTTAATATT
1 AATATTAATTTAATATT
100867045 TATCTTGTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 20
0.68 0.13 0.20
Matches are distributed among these distances:
17 19 0.28
18 6 0.09
19 25 0.36
20 19 0.28
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:100867189 original size:130 final size:127
Alignment explanation
Indices: 100866937--100867165 Score: 290
Period size: 130 Copynumber: 1.8 Consensus size: 127
100866927 CCAAAAATAA
* *
100866937 TATTATTTTAATAGTTTAATATTAAATTTAATTGAATACTTATTTTAATAATATTTTATTAATTT
1 TATTATTTTAATAGTTTAATATTAAATTTAATTGAATACTTATCTTAATAATATTATATTAATTT
* * * * **
100867002 AATATTAAAGTGATTATCTTATTATTAAATTTAATTTAATATTTATCTTGTAAATAAATATTC
66 AATATTAAAGTGA-TATCTAAGTATTAAATATAATTGAATATTTATCTCCTAAATAAATATTC
*
100867065 TATTATTTTAATAAGATTTAATATTAAATTTAATCT-AATATTTATCTTAATAAATATTATATTA
1 TATTATTTTAAT-AG-TTTAATATTAAATTTAAT-TGAATACTTATCTTAAT-AATATTATATTA
100867129 ATTTAATATTAAAGT-A-AT-TAAGT-TT-AATATAATTGAA
62 ATTTAATATTAAAGTGATATCTAAGTATTAAATATAATTGAA
100867166 CTCTTTCAAC
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
125 10 0.11
126 2 0.02
127 3 0.03
128 14 0.16
129 2 0.02
130 32 0.36
131 27 0.30
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (127 bp):
TATTATTTTAATAGTTTAATATTAAATTTAATTGAATACTTATCTTAATAATATTATATTAATTT
AATATTAAAGTGATATCTAAGTATTAAATATAATTGAATATTTATCTCCTAAATAAATATTC
Found at i:100873387 original size:29 final size:27
Alignment explanation
Indices: 100873369--100873438 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
100873359 ATATTAAGTC
100873369 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
100873396 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
100873424 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
100873439 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:100873432 original size:28 final size:28
Alignment explanation
Indices: 100873369--100873466 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
100873359 ATATTAAGTC
*
100873369 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
100873396 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
100873424 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
100873453 CGCACACTTAGTGC
1 CGCACACTTAGTGC
100873467 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:100883402 original size:49 final size:49
Alignment explanation
Indices: 100883342--100883523 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
100883332 AAGCTATCTA
*
100883342 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * * *
100883391 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG
* *
100883442 GTACGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
*
100883491 GTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
100883524 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 71 0.61
50 6 0.05
51 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
Found at i:100883477 original size:100 final size:100
Alignment explanation
Indices: 100883342--100883528 Score: 356
Period size: 100 Copynumber: 1.9 Consensus size: 100
100883332 AAGCTATCTA
100883342 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCT
100883407 GCACTTAGTACTACACACGTGATCGAAGTTATCGG
66 GCACTTAGTACTACACACGTGATCGAAGTTATCGG
* *
100883442 GTACGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCT
100883507 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
100883529 CCTCACAATA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATCGG
Found at i:100886203 original size:13 final size:13
Alignment explanation
Indices: 100886185--100886209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100886175 TCGATAGGGA
100886185 CATGCCCGTGTGT
1 CATGCCCGTGTGT
100886198 CATGCCCGTGTG
1 CATGCCCGTGTG
100886210 AGGTGGCTTA
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:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (13 bp):
CATGCCCGTGTGT
Found at i:100886537 original size:36 final size:36
Alignment explanation
Indices: 100886490--100886566 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
100886480 ATACCCCCAC
* *
100886490 ACTTAAGCGTTTGCTTGTCTTCAAGCAAAATCTTCA
1 ACTTAAGCGTTTGCATGTCTTCAAGCAAAATCCTCA
100886526 ACTTAAGCGTTTGCATGTCTTCAAGCAAAATCCTCA
1 ACTTAAGCGTTTGCATGTCTTCAAGCAAAATCCTCA
100886562 ACTTA
1 ACTTA
100886567 CAAACAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (36 bp):
ACTTAAGCGTTTGCATGTCTTCAAGCAAAATCCTCA
Found at i:100888032 original size:40 final size:39
Alignment explanation
Indices: 100887995--100888086 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
100887985 GCTACTCGTT
*
100887995 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
100888035 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
100888074 CAAATGCCTTCGG
1 CAAATGCCTTCGG
100888087 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:100888066 original size:39 final size:40
Alignment explanation
Indices: 100887976--100888139 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
100887966 CGGAATTTAA
** *
100887976 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
100888016 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
100888055 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
100888095 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
100888135 CCGGA
1 CCGGA
100888140 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:100890902 original size:18 final size:19
Alignment explanation
Indices: 100890879--100890925 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
100890869 ATTGAAAAAG
* * *
100890879 ATAAATAAAGATAAAAGTA
1 ATAAATAAAAACAAAAATA
100890898 A-AAATAAAAACAAAAATA
1 ATAAATAAAAACAAAAATA
100890916 ATAAATAAAA
1 ATAAATAAAA
100890926 GTCTTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (19 bp):
ATAAATAAAAACAAAAATA
Found at i:100890907 original size:6 final size:6
Alignment explanation
Indices: 100890881--100890925 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
100890871 TGAAAAAGAT
* * *
100890881 AAATAA AGATAA AAGTAA AAATAA AAACAA AAATAA TAAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AA
100890926 GTCTTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:100892883 original size:16 final size:16
Alignment explanation
Indices: 100892864--100892894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100892854 CTTCTTCACT
100892864 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
100892880 TACTTACTTACTTAA
1 TACTCACTTACTTAA
100892895 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:100892900 original size:20 final size:20
Alignment explanation
Indices: 100892861--100892900 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
100892851 AAACTTCTTC
* *
100892861 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
100892881 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
100892901 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:100893174 original size:53 final size:55
Alignment explanation
Indices: 100893104--100893216 Score: 144
Period size: 53 Copynumber: 2.1 Consensus size: 55
100893094 CTTACAATTT
*
100893104 CCATGTCTTGACATGGTCTTACATG-GTATCC-TTGCCTTAT-G-AACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAACTCACCAATG
* * *
100893157 CCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCACCAATG
100893212 CCATG
1 CCATG
100893217 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
52 2 0.04
53 33 0.63
54 2 0.04
55 15 0.29
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (55 bp):
CCATGCCTTGACATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCACCAATG
Found at i:100897582 original size:56 final size:56
Alignment explanation
Indices: 100897496--100897671 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
100897486 ACAAGGGATG
*
100897496 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
100897552 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
100897608 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
100897664 ATGGGCAA
1 ATGGGCAA
100897672 TGTATATATG
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:100897752 original size:47 final size:47
Alignment explanation
Indices: 100897672--100898064 Score: 585
Period size: 47 Copynumber: 8.4 Consensus size: 47
100897662 GCATGGGCAA
* *
100897672 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
100897719 TGTATATATGTGATAAGGCCGAATGACCAATGTGCTGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
100897766 TGTATATATGTGATAAGGCCGAATGACCAATGTGCTGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
100897813 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
100897860 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AG
* *
100897907 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AG
* *
100897954 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AG
* * * *
100898001 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
100898048 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
100898065 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 325 0.99
48 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
Found at i:100908487 original size:48 final size:47
Alignment explanation
Indices: 100908427--100908587 Score: 216
Period size: 48 Copynumber: 3.4 Consensus size: 47
100908417 TACCATGTCT
*
100908427 CAAACATGGTCTTACACTAGCTCTAATATTAATGCCGATGTCATGTTC
1 CAAACATGGTCTTACACTAGCTCTAATATTAACGCCGATG-CATGTTC
** * * *
100908475 CAAACATGGTCTTACACTAGCTC-ACATATCGAGGCCAATGCATGTCC
1 CAAACATGGTCTTACACTAGCTCTA-ATATTAACGCCGATGCATGTTC
* *
100908522 CAGACATGGTCTTACACTAGCTCTCATATTAACGCCGATGCCATGTTC
1 CAAACATGGTCTTACACTAGCTCTAATATTAACGCCGATG-CATGTTC
100908570 CAAACATGGTCTTACACT
1 CAAACATGGTCTTACACT
100908588 GGCCTATATA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 40 0.41
48 57 0.59
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (47 bp):
CAAACATGGTCTTACACTAGCTCTAATATTAACGCCGATGCATGTTC
Found at i:100911134 original size:6 final size:6
Alignment explanation
Indices: 100911123--100911165 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
100911113 AACCAAAATG
*
100911123 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC A
100911166 ATATTAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 31 0.94
7 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (6 bp):
AGAATC
Found at i:100911150 original size:24 final size:24
Alignment explanation
Indices: 100911123--100911168 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
100911113 AACCAAAATG
100911123 AGAATCAGAATCAGAATCAATAAC
1 AGAATCAGAATCAGAATCAATAAC
100911147 AGAATCAGAATCAGAATCAATA
1 AGAATCAGAATCAGAATCAATA
100911169 TTAGTAACAN
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:0.54, C:0.15, G:0.13, T:0.17
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAATAAC
Found at i:100925296 original size:145 final size:145
Alignment explanation
Indices: 100925114--100925390 Score: 527
Period size: 145 Copynumber: 1.9 Consensus size: 145
100925104 TGTTGAACTA
100925114 GATTATGTGCGATATTGATAGCAGACTTATTATCGCAATACAACTTCATTGGACCTTCCCACTTG
1 GATTATGTGCGATATTGATAGCAGACTTATTATCGCAATACAACTTCATTGGACCTTCCCACTTG
* *
100925179 ATCTTCAAGTCTTCTAATATAATCTTTAGTCATAACAACTCACAAACTCCAAGAGCCATTGCCCT
66 ATCTTCAAGTCTTCCAATATAATCTTTAGCCATAACAACTCACAAACTCCAAGAGCCATTGCCCT
100925244 AATCACGTTGAGGTG
131 AATCACGTTGAGGTG
*
100925259 GATTATGTGTGATATTGATAGCAGACTTATTATCGCAATACAACTTCATTGGACCTTCCCACTTG
1 GATTATGTGCGATATTGATAGCAGACTTATTATCGCAATACAACTTCATTGGACCTTCCCACTTG
100925324 ATCTTCAAGTCTTCCAATATAATCTTTAGCCATAACAACTCACAAACTCCAAGAGCCATTGCCCT
66 ATCTTCAAGTCTTCCAATATAATCTTTAGCCATAACAACTCACAAACTCCAAGAGCCATTGCCCT
100925389 AA
131 AA
100925391 ATTCAGCTTC
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 129 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (145 bp):
GATTATGTGCGATATTGATAGCAGACTTATTATCGCAATACAACTTCATTGGACCTTCCCACTTG
ATCTTCAAGTCTTCCAATATAATCTTTAGCCATAACAACTCACAAACTCCAAGAGCCATTGCCCT
AATCACGTTGAGGTG
Found at i:100927007 original size:21 final size:21
Alignment explanation
Indices: 100926978--100927018 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100926968 TGCTGGACAG
*
100926978 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
100926999 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
100927019 GGTTGCTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Found at i:100930334 original size:17 final size:16
Alignment explanation
Indices: 100930312--100930343 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
100930302 TTCAGGACAA
100930312 ATGTTGTTCAAGAATAG
1 ATGTTGTTC-AGAATAG
100930329 ATGTTGTTCAGAATA
1 ATGTTGTTCAGAATA
100930344 ACCTCTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
ATGTTGTTCAGAATAG
Found at i:100934070 original size:67 final size:65
Alignment explanation
Indices: 100933955--100934086 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 65
100933945 TTGGAAACTC
* * **
100933955 AATCAAGATAAATACTAAACTGTAATTATGACAAAAAGTCATTTAAATCTTACACTCACATTTTC
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACA--CACATTTTC
100934020 TT
64 TT
* * *
100934022 AATCAAGAAAAATATTAAACTGTAATTTTGGCAAAAAGCCATACAAATCTTACACACATTTTCTT
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
100934087 TCTGCAAGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 11 0.19
67 47 0.81
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (65 bp):
AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
Found at i:100936338 original size:16 final size:17
Alignment explanation
Indices: 100936317--100936348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100936307 CACCTTCTTT
100936317 TTTTTCT-TTTTTTTTC
1 TTTTTCTCTTTTTTTTC
100936333 TTTTTCTCTTTTTTTT
1 TTTTTCTCTTTTTTTT
100936349 TTCTTAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:100936342 original size:18 final size:18
Alignment explanation
Indices: 100936315--100936349 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100936305 AACACCTTCT
*
100936315 TTTTTTTCTTTTTTTTTC
1 TTTTTCTCTTTTTTTTTC
100936333 TTTTTCTCTTTTTTTTT
1 TTTTTCTCTTTTTTTTT
100936350 TCTTAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTCTCTTTTTTTTTC
Found at i:100939560 original size:57 final size:58
Alignment explanation
Indices: 100939476--100939590 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 58
100939466 TTTGCATGAA
*
100939476 TTACTAGGTAAAAAGTACAGTAGATAACTTTATATTTTAGAGTTATCATTTGGTTCAT
1 TTACTAGGTAAAAAGTACAGTAGATAACTCTATATTTTAGAGTTATCATTTGGTTCAT
* *
100939534 TTACTA-GTTAAAAGTACCGTAGATAACTCTATATTTTAGAGTTATCATTTGGTTCAT
1 TTACTAGGTAAAAAGTACAGTAGATAACTCTATATTTTAGAGTTATCATTTGGTTCAT
100939591 GTTGTTCAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 48 0.89
58 6 0.11
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (58 bp):
TTACTAGGTAAAAAGTACAGTAGATAACTCTATATTTTAGAGTTATCATTTGGTTCAT
Found at i:100941613 original size:22 final size:22
Alignment explanation
Indices: 100941587--100941628 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
100941577 ACCATGTAGA
**
100941587 AGGAGACACACGGTCGTGTTGG
1 AGGAGACACACAATCGTGTTGG
100941609 AGGAGACACACAATCGTGTT
1 AGGAGACACACAATCGTGTT
100941629 CTAAGACCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.33, T:0.19
Consensus pattern (22 bp):
AGGAGACACACAATCGTGTTGG
Found at i:100941862 original size:21 final size:21
Alignment explanation
Indices: 100941836--100941875 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100941826 TAAAAACACA
*
100941836 TCAAAAGTATGCCAAATCATG
1 TCAAAAGTATACCAAATCATG
*
100941857 TCAAAATTATACCAAATCA
1 TCAAAAGTATACCAAATCA
100941876 CAATCAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
TCAAAAGTATACCAAATCATG
Found at i:100945669 original size:17 final size:18
Alignment explanation
Indices: 100945622--100945675 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
100945612 ATAGCTCATC
* *
100945622 AGAATTGTGAGCCCACCA
1 AGAACTGTGAGCTCACCA
*
100945640 AGAACTATGAGCTCACCA
1 AGAACTGTGAGCTCACCA
*
100945658 AGATC-GTGAGCTCACCA
1 AGAACTGTGAGCTCACCA
100945675 A
1 A
100945676 CACTGCAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (18 bp):
AGAACTGTGAGCTCACCA
Found at i:100945703 original size:17 final size:18
Alignment explanation
Indices: 100945665--100945707 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
100945655 CCAAGATCGT
100945665 GAGCTCACCAACACTGCA
1 GAGCTCACCAACACTGCA
100945683 -AGCTCACCAA-ACATG-A
1 GAGCTCACCAACAC-TGCA
100945699 GAGCTCACC
1 GAGCTCACC
100945708 TACGAGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.35, C:0.37, G:0.16, T:0.12
Consensus pattern (18 bp):
GAGCTCACCAACACTGCA
Found at i:100953495 original size:14 final size:14
Alignment explanation
Indices: 100953476--100953504 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100953466 TCTCATAATC
100953476 TATAAATTTTGAGG
1 TATAAATTTTGAGG
100953490 TATAAATTTTGAGG
1 TATAAATTTTGAGG
100953504 T
1 T
100953505 GTATCTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TATAAATTTTGAGG
Found at i:100956624 original size:38 final size:38
Alignment explanation
Indices: 100956576--100956774 Score: 353
Period size: 38 Copynumber: 5.2 Consensus size: 38
100956566 GGCTCAAAGG
* * *
100956576 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
100956614 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
100956652 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
100956690 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
100956728 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
100956766 CCCGGATAT
1 CCCGGATAT
100956775 CCATCGAATA
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 157 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:100958643 original size:117 final size:117
Alignment explanation
Indices: 100958437--100958669 Score: 421
Period size: 117 Copynumber: 2.0 Consensus size: 117
100958427 AAAAACAGAA
* *
100958437 CAGAGGATCTAGAAGTCATTCTGACCCTGTCTCACATCACTTCAAATATCTCATTATTGGAAATT
1 CAGAGGATCTAGAAGTCATTCTGACCCTGTCACACATCACTTCAAATATCTCATTATCGGAAATT
*
100958502 TCTTTTCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAAC
66 TCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAAC
*
100958554 CAGAGGATCTAGAAGTCATTCTGACCCTGTCACACATCACTTCAAATATCTCATTATCGGCAATT
1 CAGAGGATCTAGAAGTCATTCTGACCCTGTCACACATCACTTCAAATATCTCATTATCGGAAATT
*
100958619 TCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGCTTTAA
66 TCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAA
100958670 TTCCATAATT
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (117 bp):
CAGAGGATCTAGAAGTCATTCTGACCCTGTCACACATCACTTCAAATATCTCATTATCGGAAATT
TCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCATTAAGATTTAAC
Found at i:100959866 original size:3 final size:3
Alignment explanation
Indices: 100959858--100959902 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
100959848 TCACTCATCT
100959858 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
100959903 TAATAATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:100960882 original size:32 final size:30
Alignment explanation
Indices: 100960845--100960926 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
100960835 ATTATTTAAT
*
100960845 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATTT-ACTT-A-AATAATAAA
100960877 TAATAAATATCTATTTACTTAAATAATAAA
1 TAATAAATATCTATTTACTTAAATAATAAA
*
100960907 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
100960927 AATTATATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 20 0.44
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAATAAA
Found at i:100963350 original size:17 final size:18
Alignment explanation
Indices: 100963330--100963371 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
100963320 CAAAATAGTA
100963330 AGCTCACCTA-AACTGCG
1 AGCTCACCTATAACTGCG
100963347 AGCTCA-CTATAACTGCG
1 AGCTCACCTATAACTGCG
100963364 AGCTCACC
1 AGCTCACC
100963372 AAAATGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 19 0.83
18 1 0.04
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (18 bp):
AGCTCACCTATAACTGCG
Found at i:100973336 original size:2 final size:2
Alignment explanation
Indices: 100973324--100973356 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
100973314 AAGCCACTCA
*
100973324 TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
100973357 TGGGTGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
TC
Found at i:100983968 original size:25 final size:25
Alignment explanation
Indices: 100983939--100983988 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100983929 TATATAAAAG
100983939 TTAACTTTAATGTATGTATATTATA
1 TTAACTTTAATGTATGTATATTATA
100983964 TTAACTTTAATGTATGTATATTATA
1 TTAACTTTAATGTATGTATATTATA
100983989 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (25 bp):
TTAACTTTAATGTATGTATATTATA
Found at i:100985251 original size:20 final size:19
Alignment explanation
Indices: 100985196--100985243 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
100985186 ATGTCAGAGT
* *
100985196 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
100985214 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
100985233 TGATGAAATGA
1 TGA-GAAATGA
100985244 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:100986633 original size:45 final size:45
Alignment explanation
Indices: 100986583--100986676 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
100986573 GCTTATTGTT
* *
100986583 TTCAGCTC-ATTAAAGCTTACCGTTTTAGCTCA-TATGAGATTACTG
1 TTCAGCTCGA-TAAAGCTTACCATTTCAGCTCATTA-GAGATTACTG
* * *
100986628 TTCAGCTCGATAGAGCTTACCATTTCATCTCATTAGAGCTTACTG
1 TTCAGCTCGATAAAGCTTACCATTTCAGCTCATTAGAGATTACTG
100986673 TTCA
1 TTCA
100986677 TCAACTCAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 39 0.93
46 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (45 bp):
TTCAGCTCGATAAAGCTTACCATTTCAGCTCATTAGAGATTACTG
Found at i:101002225 original size:47 final size:48
Alignment explanation
Indices: 101002080--101002225 Score: 147
Period size: 46 Copynumber: 3.1 Consensus size: 48
101002070 ACTAGCTTGT
* * *
101002080 ATATCGCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
1 ATATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCAC
* * * * * * *
101002128 --GTCTCAATG-TCGATGCATGTCCCAGACATGTCTTACATTGGCTTAA
1 ATATCTCGAGGCT-GATGCATGTCCCAGACATGTCTTACACTAGCTCAC
* *
101002174 ATATCTCGAGGCTGATG-ATGTCCCAGACATGTCTGACACTAGCACAC
1 ATATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCAC
101002221 ATATC
1 ATATC
101002226 ACCCATTATC
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
46 35 0.47
47 29 0.39
48 10 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
ATATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCAC
Found at i:101007832 original size:55 final size:53
Alignment explanation
Indices: 101007680--101007883 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 53
101007670 CTTTTTAAAC
*
101007680 TTATCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAAT
1 TTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAT
* * * * * * * *
101007733 TCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGT
1 TTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AAT
* * * * * * *
101007788 TTATCAATGCCATGTCTTGACATGGTCTTTCATGATTTCCTTGCCTTGTAAAAA
1 TTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAAT
* * * * *
101007842 TTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
101007884 AAAGCCTAAT
Statistics
Matches: 117, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 41 0.35
54 37 0.32
55 39 0.33
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (53 bp):
TTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAT
Found at i:101011138 original size:22 final size:22
Alignment explanation
Indices: 101011087--101011130 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
101011077 TCAATCCATT
101011087 CAAACTTGACATCTTTCTGTAG
1 CAAACTTGACATCTTTCTGTAG
101011109 CAAACTTGACATCTTTCTGTAG
1 CAAACTTGACATCTTTCTGTAG
101011131 AATTCTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
CAAACTTGACATCTTTCTGTAG
Found at i:101023545 original size:28 final size:29
Alignment explanation
Indices: 101023491--101023548 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
101023481 ACAGGGGTTT
* *
101023491 TTCACATGGCCAGGCACACGCCCGTGTCC
1 TTCACACGGCCACGCACACGCCCGTGTCC
*
101023520 TTCACACGGCCACG-ACACGCTCGTGTCC
1 TTCACACGGCCACGCACACGCCCGTGTCC
101023548 T
1 T
101023549 AGCCCGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (29 bp):
TTCACACGGCCACGCACACGCCCGTGTCC
Found at i:101024567 original size:47 final size:48
Alignment explanation
Indices: 101024498--101024760 Score: 258
Period size: 47 Copynumber: 5.6 Consensus size: 48
101024488 GTAAGGTGCT
* *
101024498 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCC
* * * *
101024545 GATGCCATGTCCTAGACATGGTCTTACATTGACT-ATCATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTC-AAGGCC
* * *
101024593 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCC
* * * * * *
101024639 GATG-CATATCCTAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCC
* * **
101024685 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAAGGCC
101024733 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
101024761 AGCCAACAAC
Statistics
Matches: 182, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 73 0.40
47 76 0.42
48 31 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCC
Found at i:101024694 original size:93 final size:95
Alignment explanation
Indices: 101024498--101024719 Score: 303
Period size: 93 Copynumber: 2.4 Consensus size: 95
101024488 GTAAGGTGCT
*
101024498 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAAGTCGATGCCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAAGTCGATGCCATATCCTAGACA
* *
101024563 TGGTCTTACATTGACTATCATCTCGTAGCC
66 TGGTCTTACATAGACTATCATCTCATAGCC
* * *
101024593 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGTCGATG-CATATCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAA-GTCGATGCCATATCCTAGAC
* *
101024655 AT-GTCTTACACTAG-CTCTCGTCTCA-ATGCC
65 ATGGTCTTACA-TAGACTATCATCTCATA-GCC
101024685 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
101024720 TCATAATGTG
Statistics
Matches: 113, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
91 1 0.01
92 23 0.20
93 50 0.44
94 35 0.31
95 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAAGTCGATGCCATATCCTAGACA
TGGTCTTACATAGACTATCATCTCATAGCC
Found at i:101024736 original size:94 final size:93
Alignment explanation
Indices: 101024498--101024763 Score: 298
Period size: 94 Copynumber: 2.8 Consensus size: 93
101024488 GTAAGGTGCT
*
101024498 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCGCAAGT--CGATGCCATGTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--CAAGTGGCGATG-CATGTCCTAGA
* *
101024561 CATGGTCTTACA-TTGACTATCATCTCGTAGCC
63 CAT-GTCTTACACTAG-CTATCATCTCATAGCC
* *
101024593 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TCAAG-GTCGATGCATATCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-C-TCATCAAGTGGCGATGCATGTCCTAGA
* *
101024654 CATGTCTTACACTAGCTCTCGTCTCA-ATGCC
63 CATGTCTTACACTAGCTATCATCTCATA-GCC
*
101024685 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAA-GTGG-CGATGCATGTCCTAGAC
101024749 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
101024764 CAACAACAAC
Statistics
Matches: 149, Mismatches: 9, Indels: 27
0.81 0.05 0.15
Matches are distributed among these distances:
91 5 0.03
92 26 0.17
93 48 0.32
94 63 0.42
95 6 0.04
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGTGGCGATGCATGTCCTAGACAT
GTCTTACACTAGCTATCATCTCATAGCC
Found at i:101034362 original size:18 final size:18
Alignment explanation
Indices: 101034336--101034396 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
101034326 CAAGGTCACG
101034336 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
* * *
101034354 ATAAATAGCATCACTAGC
1 ATCAATAGCGTCACTATC
*
101034372 ATCAATATCGTCACTATC
1 ATCAATAGCGTCACTATC
101034390 ATCAATA
1 ATCAATA
101034397 AGAAAACCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:101039392 original size:26 final size:26
Alignment explanation
Indices: 101039363--101039414 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
101039353 GAACAAGTTA
*
101039363 AATGAATAAATTGTCCGATTTGGAGT
1 AATGAATAAATTGTCCGATTCGGAGT
101039389 AATGAATAAATTGTCCGATTCGGAGT
1 AATGAATAAATTGTCCGATTCGGAGT
101039415 CAAATTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (26 bp):
AATGAATAAATTGTCCGATTCGGAGT
Found at i:101044690 original size:22 final size:21
Alignment explanation
Indices: 101044616--101044691 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 21
101044606 TTAAAAACTT
*
101044616 TTATTTATTATTTTATGTT-T-
1 TTATTT-TTATTTTATTTTATA
* *
101044636 TTACTTTTATTTTATTTTAAGA
1 TTATTTTTATTTTATTTT-ATA
*
101044658 CTACTTTTTATTTTATTTTCATA
1 TTA-TTTTTATTTTATTTT-ATA
101044681 TTATTTTTATT
1 TTATTTTTATT
101044692 AGGATTTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 11 0.25
20 5 0.11
22 10 0.23
23 18 0.41
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTTTTATTTTATTTTATA
Found at i:101049646 original size:19 final size:20
Alignment explanation
Indices: 101049609--101049648 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
101049599 TCTCTCTCCT
* *
101049609 TCTTTTTCTTCTTTTATTCA
1 TCTTTTTCTTCATTAATTCA
101049629 TCTTTTTCTT-ATTAATTCA
1 TCTTTTTCTTCATTAATTCA
101049648 T
1 T
101049649 TTTATTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
TCTTTTTCTTCATTAATTCA
Found at i:101050206 original size:26 final size:26
Alignment explanation
Indices: 101050170--101050229 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
101050160 GAACAAGTTA
101050170 AATGAATAAATTGTCCGATTCAGAGT
1 AATGAATAAATTGTCCGATTCAGAGT
*
101050196 AATGAATAAATTGTCCGATTCGGAGT
1 AATGAATAAATTGTCCGATTCAGAGT
*
101050222 CA-GAATAA
1 AATGAATAA
101050230 CAAGTGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (26 bp):
AATGAATAAATTGTCCGATTCAGAGT
Found at i:101054694 original size:16 final size:17
Alignment explanation
Indices: 101054673--101054705 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
101054663 CACATTGAAG
101054673 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
101054689 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
101054706 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:101057209 original size:27 final size:27
Alignment explanation
Indices: 101057178--101057355 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
101057168 TAAATTGTAC
101057178 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
101057205 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
101057231 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
101057259 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
101057287 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
101057314 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
101057341 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
101057356 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:101057292 original size:82 final size:81
Alignment explanation
Indices: 101057179--101057334 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
101057169 AAATTGTACA
*
101057179 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
101057243 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
101057260 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
101057325 TGCGAGTTGA
65 TGCGAATTGA
101057335 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:101057346 original size:82 final size:81
Alignment explanation
Indices: 101057175--101057355 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
101057165 GATTAAATTG
*
101057175 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
101057240 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
101057256 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
101057320 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
101057338 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
101057356 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Done.