Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 102 of 193
Found at i:32917861 original size:78 final size:76
Alignment explanation
Indices: 32917731--32917946 Score: 281
Period size: 78 Copynumber: 2.8 Consensus size: 76
32917721 TGTTACAGGC
* *
32917731 AGTGACACTGTAAACACTGGCAATGCTATACTAAACTGATAGTGACACTGTAAACACTATAATGC
1 AGTGACACTGTAAACACT-GCAATGCTATACTAAACTGATAGTGACACTGTAAACACTACAAT-A
32917796 T-ATACTGAACCAG
64 TAATACTGAA-CAG
* *
32917809 TAGTGACACTGTAAACACTGCAGTGCTATACTAAACTGCTAGTGACACTGTAAACACTACAATAT
1 -AGTGACACTGTAAACACTGCAATGCTATACTAAACTGATAGTGACACTGTAAACACTACAATAT
*
32917874 AATACTGAACTG
65 AATACTGAACAG
* * * * *
32917886 ACGGTGACACTGTAAACACCGCAATGCTATACTGAGCTGGTAGTGACACTGTAAACCCTAC
1 A--GTGACACTGTAAACACTGCAATGCTATACTAAACTGATAGTGACACTGTAAACACTAC
32917947 CAGGTTGTTA
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.01
77 3 0.02
78 101 0.82
79 18 0.15
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (76 bp):
AGTGACACTGTAAACACTGCAATGCTATACTAAACTGATAGTGACACTGTAAACACTACAATATA
ATACTGAACAG
Found at i:32920775 original size:17 final size:17
Alignment explanation
Indices: 32920753--32920785 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32920743 TGTTAGTAAG
*
32920753 CATTGTCGTTGCATTTT
1 CATTGTCATTGCATTTT
32920770 CATTGTCATTGCATTT
1 CATTGTCATTGCATTT
32920786 AAATGTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:32939003 original size:17 final size:17
Alignment explanation
Indices: 32938973--32939019 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
32938963 ATTGTTTTTC
32938973 TTTTCTTTTCTTTTCCCT
1 TTTTCTTTT-TTTTCCCT
**
32938991 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTCCCT
*
32939008 TTTTATTTTTTT
1 TTTTCTTTTTTT
32939020 CGACTGAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTTTTCCCT
Found at i:32940088 original size:20 final size:21
Alignment explanation
Indices: 32940060--32940102 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
32940050 AAAAAAATTT
32940060 CTTCATTCTCTCCTT-CTTTTC
1 CTTCATTCT-TCCTTCCTTTTC
*
32940081 CTTC-TTCTTTCTTCCTTTTC
1 CTTCATTCTTCCTTCCTTTTC
32940101 CT
1 CT
32940103 CCTCCTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTCATTCTTCCTTCCTTTTC
Found at i:32951516 original size:39 final size:39
Alignment explanation
Indices: 32951472--32951623 Score: 139
Period size: 39 Copynumber: 3.9 Consensus size: 39
32951462 ACATCGAAAG
* * *
32951472 TATACTGAATTGGCAGTGACATTGTAAACACTACAATTC
1 TATACTGAACTGACAGTGACACTGTAAACACTACAATTC
* * * *
32951511 TATACTGAACCGACAGTGTCACTGTAAACAC-AGCAGTGC
1 TATACTGAACTGACAGTGACACTGTAAACACTA-CAATTC
* *
32951550 TATACTGAACT-AGTAGTGACACTATAAACACTACAATAT-
1 TATACTGAACTGA-CAGTGACACTGTAAACACTACAAT-TC
* * * *
32951589 AATACTGAAATGATAGTGACACTGTAAATACTACA
1 TATACTGAACTGACAGTGACACTGTAAACACTACA
32951624 GGTTGTTATT
Statistics
Matches: 91, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
38 2 0.02
39 87 0.96
40 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (39 bp):
TATACTGAACTGACAGTGACACTGTAAACACTACAATTC
Found at i:32951594 original size:78 final size:78
Alignment explanation
Indices: 32951472--32951616 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 78
32951462 ACATCGAAAG
* * * * * * *
32951472 TATACTGAATTGGCAGTGACATTGTAAACACTACAATTCTATACTGAACCGACAGTGTCACTGTA
1 TATACTGAACTAGCAGTGACACTATAAACACTACAATTCAATACTGAAACGACAGTGACACTGTA
32951537 AACACAGCAGTGC
66 AACACAGCAGTGC
* * *
32951550 TATACTGAACTAGTAGTGACACTATAAACACTACAATAT-AATACTGAAATGATAGTGACACTGT
1 TATACTGAACTAGCAGTGACACTATAAACACTACAAT-TCAATACTGAAACGACAGTGACACTGT
32951614 AAA
65 AAA
32951617 TACTACAGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 55 0.98
79 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (78 bp):
TATACTGAACTAGCAGTGACACTATAAACACTACAATTCAATACTGAAACGACAGTGACACTGTA
AACACAGCAGTGC
Found at i:32955485 original size:15 final size:15
Alignment explanation
Indices: 32955448--32955488 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32955438 TTTTCTTTGA
32955448 TTTCACAATTTGAAGC
1 TTTCACAATTT-AAGC
32955464 --T-ACAATTTAAGC
1 TTTCACAATTTAAGC
32955476 TTTCACAATTTAA
1 TTTCACAATTTAA
32955489 AGCCACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 2 0.09
15 9 0.41
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (15 bp):
TTTCACAATTTAAGC
Found at i:32955772 original size:77 final size:80
Alignment explanation
Indices: 32955582--32955804 Score: 234
Period size: 77 Copynumber: 2.9 Consensus size: 80
32955572 ATTCTATAAC
* * * *
32955582 AAAATCAAAATTAATTCTATTAAACGACATGATTAAAT-CCGAAAATAAAATTA---AATTTATT
1 AAAATC-AAATCAATTCTATTGAACGACATGAATAAATCCCG-AAATAAAATTATTCAATTAATT
*
32955643 CTT-TGTTTGAAACCTA
64 CTTATGTTGGAAACCTA
* *
32955659 ATCATAATCAAATCAAATCTGTTGAACGAC-TGGAATAAATCCCGAAATAAAATTATTCAATTAA
1 A--A-AATCAAATCAATTCTATTGAACGACAT-GAATAAATCCCGAAATAAAATTATTCAATTAA
32955723 TTCTTAT-TTGGAAA-C-A
62 TTCTTATGTTGGAAACCTA
* *
32955739 AAAATCAAATCAATTCTATTGAACGACATGAATAAATCCCG-AA-AAAATTATTCAATAAATTAT
1 AAAATCAAATCAATTCTATTGAACGACATGAATAAATCCCGAAATAAAATTATTCAATTAATTCT
32955802 TAT
66 TAT
32955805 AAAATCCAAG
Statistics
Matches: 125, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
75 21 0.17
76 2 0.02
77 36 0.29
78 3 0.02
79 36 0.29
80 9 0.07
81 1 0.01
82 16 0.13
83 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (80 bp):
AAAATCAAATCAATTCTATTGAACGACATGAATAAATCCCGAAATAAAATTATTCAATTAATTCT
TATGTTGGAAACCTA
Found at i:32955929 original size:83 final size:85
Alignment explanation
Indices: 32955816--32956033 Score: 300
Period size: 85 Copynumber: 2.6 Consensus size: 85
32955806 AAATCCAAGT
* * *
32955816 ATAGAAT-AAATCTGTTAAACAG-TAGGAATAAATCTCGAAACAGATTTATTCAGCTT-ATTCTT
1 ATAGAATAAAATCTGTTAAACAGCGA-AAATAAATCTCGAAACAGATTTATTCAACTTAATTCTT
*
32955878 ATTTTGGAAAC-AAAATTAAA
65 ATTTTGGAAACAAAAATCAAA
* * * *
32955898 ATAGAATAAAATCTGTTAAGCGGCGAAAATAAATCTCGAAACAAATTTATTCAACTTAATTCTTG
1 ATAGAATAAAATCTGTTAAACAGCGAAAATAAATCTCGAAACAGATTTATTCAACTTAATTCTTA
32955963 TTTTGGAAACAAAAATCAAA
66 TTTTGGAAACAAAAATCAAA
* **
32955983 ATAGAATCAAATCTGTTAAACAGCGGGAATAAATCTCGAAACAGATTTATT
1 ATAGAATAAAATCTGTTAAACAGCGAAAATAAATCTCGAAACAGATTTATT
32956034 TGATTTTAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
82 7 0.06
83 41 0.35
84 17 0.14
85 53 0.45
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (85 bp):
ATAGAATAAAATCTGTTAAACAGCGAAAATAAATCTCGAAACAGATTTATTCAACTTAATTCTTA
TTTTGGAAACAAAAATCAAA
Found at i:32958058 original size:30 final size:31
Alignment explanation
Indices: 32958007--32958069 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
32957997 TCATTAGCAA
*
32958007 GACACCCCCCCACAATTTCAAGTGGTTGTAG
1 GACACCCCCACACAATTTCAAGTGGTTGTAG
*
32958038 GACA-CCCCACACATTTTCAAGTGGTTGTAG
1 GACACCCCCACACAATTTCAAGTGGTTGTAG
32958068 GA
1 GA
32958070 TGGTTTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (31 bp):
GACACCCCCACACAATTTCAAGTGGTTGTAG
Found at i:32960141 original size:30 final size:30
Alignment explanation
Indices: 32960106--32960372 Score: 205
Period size: 30 Copynumber: 9.0 Consensus size: 30
32960096 ATTTAGAAAG
*
32960106 TATGTTTTGACCCTCAAACTTTCCAAATAT
1 TATGTTTTGACCCTCAAACTTTCCAAAAAT
* *
32960136 TATGTTTTGACCC-CTAGACTTTCCAAATAT
1 TATGTTTTGACCCTC-AAACTTTCCAAAAAT
*
32960166 TATGTTTTGACTCC-CAGACTTTCCAAAAAT
1 TATGTTTTGAC-CCTCAAACTTTCCAAAAAT
* * * *
32960196 TCA-GATTTCACCCTTAAAC-TTCC-AAAGT
1 T-ATGTTTTGACCCTCAAACTTTCCAAAAAT
* *
32960224 TATGTTTTAAGCCC-CGAACTTTCCAAAAAT
1 TATGTTTTGA-CCCTCAAACTTTCCAAAAAT
* * *
32960254 TAAGTTTTGACCCTTAAACTTTCCAAAATT
1 TATGTTTTGACCCTCAAACTTTCCAAAAAT
* * *
32960284 TA-GATTT-AGCCCCCAAACTTCCCAAAAATT
1 TATGTTTTGA-CCCTCAAACTTTCCAAAAA-T
* *
32960314 TAT-ATTTGACCCTCGAACTTTCCAAAAAT
1 TATGTTTTGACCCTCAAACTTTCCAAAAAT
* * *
32960343 T-TAGATTT-AGCCTCTAACTTTCCAAAAAT
1 TAT-GTTTTGACCCTCAAACTTTCCAAAAAT
32960372 T
1 T
32960373 TGAATTTGGC
Statistics
Matches: 195, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 15 0.08
29 58 0.30
30 116 0.59
31 5 0.03
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (30 bp):
TATGTTTTGACCCTCAAACTTTCCAAAAAT
Found at i:32960301 original size:29 final size:30
Alignment explanation
Indices: 32960235--32960394 Score: 141
Period size: 30 Copynumber: 5.4 Consensus size: 30
32960225 ATGTTTTAAG
* * *
32960235 CCCCGAACTTTCCAAAAATTAAG-TTTTGAC
1 CCCCAAACTTTCCAAAAATTTAGATTTAG-C
**
32960265 CCTTAAACTTTCC-AAAATTTAGATTTAGC
1 CCCCAAACTTTCCAAAAATTTAGATTTAGC
* *
32960294 CCCCAAACTTCCCAAAAATTTATATTT-GAC
1 CCCCAAACTTTCCAAAAATTTAGATTTAG-C
* *
32960324 CCTCGAACTTTCCAAAAATTTAGATTTAG-
1 CCCCAAACTTTCCAAAAATTTAGATTTAGC
* * *
32960353 CCTCTAACTTTCCAAAAATTT-GAATTTGGC
1 CCCCAAACTTTCCAAAAATTTAG-ATTTAGC
*
32960383 CCCCAAAATTTC
1 CCCCAAACTTTC
32960395 ATTTTTAGCA
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.01
29 45 0.42
30 59 0.56
31 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
CCCCAAACTTTCCAAAAATTTAGATTTAGC
Found at i:32960311 original size:59 final size:58
Alignment explanation
Indices: 32960120--32960372 Score: 228
Period size: 59 Copynumber: 4.3 Consensus size: 58
32960110 TTTTGACCCT
* * * * *
32960120 CAAACTTTCCAAATATTATGTTTTGACCCCTAGACTTTCCAAATATTATG-TTTTGACTCC
1 CAAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCCAAAT-TTATGATTTAG-C-CC
* * * * * *
32960180 CAGACTTTCCAAAAATTCAGATTTCACCCTTAAAC-TTCCAAAGTTATGTTTTAAGCCC
1 CAAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCCAAATTTATGATTT-AGCCC
*
32960238 CGAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCCAAAATTTA-GATTTAGCCCC
1 CAAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCC-AAATTTATGATTTAG-CCC
* * ** *
32960297 CAAACTTCCCAAAAATTTA-TATTTGACCCTCGAACTTTCCAAAAATTTA-GATTTAGCCT
1 CAAACTTTCCAAAAATTAAGT-TTTGACCCTTAAACTTTCC--AAATTTATGATTTAGCCC
*
32960356 CTAACTTTCCAAAAATT
1 CAAACTTTCCAAAAATT
32960373 TGAATTTGGC
Statistics
Matches: 161, Mismatches: 25, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
58 40 0.25
59 72 0.45
60 49 0.30
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (58 bp):
CAAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCCAAATTTATGATTTAGCCC
Found at i:32960362 original size:118 final size:118
Alignment explanation
Indices: 32960117--32960372 Score: 270
Period size: 118 Copynumber: 2.2 Consensus size: 118
32960107 ATGTTTTGAC
* * * * *
32960117 CCTCAAACTTTCCAAATATTATGTTTTGACCCCTAGACTTTCCAAATATTATGTTTTGACTCCCA
1 CCTCAAACTTTCCAAAAATTAAGTTTTGACCCCTAAACTTTCCAAATATTATGTTTAGACCCCCA
* * * *
32960182 GACTTTCCAAAAATTCAGATTTCACCCTTAAACTTCCAAAGTTATGTTTTAAG
66 AACTTCCCAAAAATTCAGATTTCACCCTCAAACTTCCAAAGTTATGATTTAAG
* * *
32960235 CCCCGAACTTTCCAAAAATTAAGTTTTGACCCTTAAACTTTCCAAA-ATT-TAGATTTAG-CCCC
1 CCTCAAACTTTCCAAAAATTAAGTTTTGACCCCTAAACTTTCCAAATATTAT-G-TTTAGACCCC
* * * * *
32960297 CAAACTTCCCAAAAATTTATATTTGACCCTCGAACTTTCCAAAAATT-TAGATTT-AG
64 CAAACTTCCCAAAAATTCAGATTTCACCCTCAAAC-TTCC-AAAGTTAT-GATTTAAG
*
32960353 CCTCTAACTTTCCAAAAATT
1 CCTCAAACTTTCCAAAAATT
32960373 TGAATTTGGC
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
116 1 0.01
117 35 0.31
118 69 0.61
119 9 0.08
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (118 bp):
CCTCAAACTTTCCAAAAATTAAGTTTTGACCCCTAAACTTTCCAAATATTATGTTTAGACCCCCA
AACTTCCCAAAAATTCAGATTTCACCCTCAAACTTCCAAAGTTATGATTTAAG
Found at i:32960380 original size:59 final size:58
Alignment explanation
Indices: 32960178--32960394 Score: 192
Period size: 59 Copynumber: 3.7 Consensus size: 58
32960168 TGTTTTGACT
* * * * * *
32960178 CCCAGACTTTCCAAAAATTCAGATTTCACCCTTAAAC-TTCC-AAAGTTATGTTTTAAG-C
1 CCCAAACTTTCCAAAAATTTA-ATTTGACCCTCAAACTTTCCAAAATTTA-GATTT-AGCC
* *
32960236 CCCGAACTTTCCAAAAA-TTAAGTTTTGACCCTTAAACTTTCCAAAATTTAGATTTAGCC
1 CCCAAACTTTCCAAAAATTTAA--TTTGACCCTCAAACTTTCCAAAATTTAGATTTAGCC
* *
32960295 CCCAAACTTCCCAAAAATTTATATTTGACCCTCGAACTTTCCAAAAATTTAGATTTAG-C
1 CCCAAACTTTCCAAAAATTTA-ATTTGACCCTCAAACTTTCC-AAAATTTAGATTTAGCC
* * * * *
32960354 CTCTAACTTTCCAAAAATTTGAATTTGGCCCCCAAAATTTC
1 CCCAAACTTTCCAAAAATTT-AATTTGACCCTCAAACTTTC
32960395 ATTTTTAGCA
Statistics
Matches: 133, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 30 0.23
59 74 0.56
60 25 0.19
61 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (58 bp):
CCCAAACTTTCCAAAAATTTAATTTGACCCTCAAACTTTCCAAAATTTAGATTTAGCC
Found at i:32965440 original size:16 final size:15
Alignment explanation
Indices: 32965397--32965462 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
32965387 TTTACTCAAA
*
32965397 AAAGAGAAAAGAGA-G
1 AAAGA-AAAAGAAAGG
*
32965412 AAAGAAAAGGAAAGG
1 AAAGAAAAAGAAAGG
32965427 AAAGGAAAAAGAAA--
1 AAA-GAAAAAGAAAGG
* *
32965441 AAAGAAGAAGAAAAG
1 AAAGAAAAAGAAAGG
32965456 AAA-AAAA
1 AAAGAAAA
32965463 GGAGATGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 9 0.21
14 12 0.29
15 12 0.29
16 9 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAGG
Found at i:32966550 original size:146 final size:146
Alignment explanation
Indices: 32966286--32966560 Score: 365
Period size: 146 Copynumber: 1.9 Consensus size: 146
32966276 GTGAAGGTAA
* * * *
32966286 AGATTGAAGCCGCAACGGTGAATCTCGTACCCTAGGAATGTGAAGGGAAAAATTGAGGCCACAAC
1 AGATTGAAGCCGCAACGGCGAATCTCGAACCCTAAGAATGTGAAGGGAAAAATCGAGGCCACAAC
*
32966351 GACGAATCTTATACCCTAGAGATGTAAAGGGAAATGTTGAGGCCACAACGATGAACCTTATACCT
66 GACGAACCTTATACCCTAGAGATGTAAAGGGAAATGTTGAGGCCACAACGATGAACCTTATACCT
32966416 TAGAAATAAGAAATCT
131 TAGAAATAAGAAATCT
* * * ** **
32966432 AGATTGAAGCTGCAATGGCGAATCTTGAACCCTAA-AGATGTGAAGGGAAAGGTCGAGGCCGTAA
1 AGATTGAAGCCGCAACGGCGAATCTCGAACCCTAAGA-ATGTGAAGGGAAAAATCGAGGCCACAA
** * * *
32966496 CGGTGAACCTTATACCCTAGAGATGTGAAGGGAAA-GATTGAGGTCACAACGATGAATCTTATAC
65 CGACGAACCTTATACCCTAGAGATGTAAAGGGAAATG-TTGAGGCCACAACGATGAACCTTATAC
32966560 C
129 C
32966561 CTGAAGATGA
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
145 2 0.02
146 108 0.98
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (146 bp):
AGATTGAAGCCGCAACGGCGAATCTCGAACCCTAAGAATGTGAAGGGAAAAATCGAGGCCACAAC
GACGAACCTTATACCCTAGAGATGTAAAGGGAAATGTTGAGGCCACAACGATGAACCTTATACCT
TAGAAATAAGAAATCT
Found at i:32966569 original size:49 final size:48
Alignment explanation
Indices: 32966271--32966569 Score: 221
Period size: 49 Copynumber: 6.1 Consensus size: 48
32966261 TAATACTTTA
* * * * **
32966271 AAGATGTGAAGGTAAAGATTGAAGCCGCAACGGTGAATCTCGTACCCT
1 AAGATGTGAAGGGAAAGATTGAGGCCACAACGATGAATCTTATACCCT
* * *
32966319 AGGAATGTGAAGGGAAAAATTGAGGCCACAACGACGAATCTTATACCCT
1 AAG-ATGTGAAGGGAAAGATTGAGGCCACAACGATGAATCTTATACCCT
* *
32966368 AGAGATGTAAAGGGAAATG-TTGAGGCCACAACGATGAACCTTATA-CCT
1 A-AGATGTGAAGGGAAA-GATTGAGGCCACAACGATGAATCTTATACCCT
* ** * * ** * **
32966416 TAGAAAT-AA-GAAATCTAGATTGAAGCTGCAATGGCGAATCTTGA-ACCCT
1 AAGATGTGAAGGGAA---AGATTGAGGCCACAACGATGAATCTT-ATACCCT
* * ** * *
32966465 AAAGATGTGAAGGGAAAGGTCGAGGCCGTAACGGTGAACCTTATACCCT
1 -AAGATGTGAAGGGAAAGATTGAGGCCACAACGATGAATCTTATACCCT
*
32966514 AGAGATGTGAAGGGAAAGATTGAGGTCACAACGATGAATCTTATACCCT
1 A-AGATGTGAAGGGAAAGATTGAGGCCACAACGATGAATCTTATACCCT
32966563 GAAGATG
1 -AAGATG
32966570 AAGTAGACTA
Statistics
Matches: 192, Mismatches: 44, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
45 3 0.02
46 2 0.01
47 5 0.03
48 25 0.13
49 146 0.76
50 6 0.03
51 2 0.01
52 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (48 bp):
AAGATGTGAAGGGAAAGATTGAGGCCACAACGATGAATCTTATACCCT
Found at i:32966938 original size:48 final size:48
Alignment explanation
Indices: 32966845--32966939 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
32966835 ACTTTAAACC
* *
32966845 TCATCTTCTTGATGAGATACAGAGAAGTGGATCAGAATAATGAAGCGG
1 TCATCTTCCTGATGAGATACAGAGAAGTGGATCAGAATAACGAAGCGG
*
32966893 TCATCTTCCTGATGAGATATAGAGAAGTGGA-CTA-AATCAACGAAGCG
1 TCATCTTCCTGATGAGATACAGAGAAGTGGATC-AGAAT-AACGAAGCG
32966940 AAGCTCAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (48 bp):
TCATCTTCCTGATGAGATACAGAGAAGTGGATCAGAATAACGAAGCGG
Found at i:32966979 original size:123 final size:123
Alignment explanation
Indices: 32966749--32967494 Score: 908
Period size: 123 Copynumber: 6.1 Consensus size: 123
32966739 ACAATGGGTC
* * * * * *
32966749 GGATCAAAACAAATGAAGCAGACATCTTCTTGATGAGATATAAAAAAGTGGACCAAATCAACAAA
1 GGATCAAAAC-AATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAA
* * * *
32966814 ACGGAGCTCAATGTGAGTGAAACTTTAAACCTCATCTTCTTGATGAGATACAGAGAAGT
65 GCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
* * * * *
32966873 GGATCAGAATAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTGGACTAAATCAACGAAG
1 GGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAAG
*
32966938 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATTTTCTTGATGAGATACAGAGAAGT
66 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
* * * *
32966996 AGG-TCAAAACAATGAAGTGGTTATCTTCCTAATAAGATACAAAGAAGTGGACCAAATCAACGAA
1 -GGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAA
* * * *
32967060 GCGAAGCTCAATGTGAGTGAAACTTCAAACCCTATCTTCCTAATAAGATACAGAGAAGT
65 GCGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
* * *
32967119 GGATCAAAACAATGAAGCGATCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAAG
1 GGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAAG
* * * * *
32967184 CAAAGCTCAATGTGAGTGAAACTTCAAACCTCATCTT-TCTGATGAAATATAAAGAAGT
66 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCT-TGATGAGATACAGAGAAGT
* ** * * * * * * * *
32967242 GGGTCAAAACAATGAAGTTGT-ATTCTTCTTAATAAGATACAGAGATGTAGACCAAAACAATGAA
1 GGATCAAAACAATGAAGCGGTCA-TCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAA
* *
32967306 GCTAAGCTCAATGCT-AGTGAAACTTCAAA-CCCATCTTCCTGATGAGATACAGAGAAGT
65 GCGAAGCTCAATG-TGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
* * * * * * *
32967364 GGGTTAAAACAATGAAGTGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAAACAATGAAG
1 GGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAAG
* * *
32967429 CGAAGCTCAATGCGAATGAAACTTCAAACCCCATCTTCTTGATGAGATATAGAGAAGT
66 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
*
32967487 GGACCAAA
1 GGATCAAA
32967495 TAAGTAACAA
Statistics
Matches: 537, Mismatches: 76, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
122 107 0.20
123 419 0.78
124 11 0.02
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (123 bp):
GGATCAAAACAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCAACGAAG
CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGT
Found at i:32967164 original size:48 final size:48
Alignment explanation
Indices: 32967093--32967184 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
32967083 TTCAAACCCT
* *
32967093 ATCTTCCTAATAAGATACAGAGAAGTGGATCAAAACAATGAAGCGATC
1 ATCTTCCTAATAAGATACAGAGAAGTGGACCAAAACAACGAAGCGATC
* * * *
32967141 ATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCAACGAAGC
1 ATCTTCCTAATAAGATACAGAGAAGTGGACCAAAACAACGAAGC
32967185 AAAGCTCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (48 bp):
ATCTTCCTAATAAGATACAGAGAAGTGGACCAAAACAACGAAGCGATC
Found at i:32967421 original size:48 final size:48
Alignment explanation
Indices: 32967337--32967428 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
32967327 ACTTCAAACC
* * ***
32967337 CATCTTCCTGATGAGATACAGAGAAGTGGGTTAAAACAATGAAGTGGT
1 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAACAATGAAGTGGT
*
32967385 CATCTTCTTGATGAGATACAAAGAAGTAGACCAAAACAATGAAG
1 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAACAATGAAG
32967429 CGAAGCTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAACAATGAAGTGGT
Found at i:32967630 original size:46 final size:46
Alignment explanation
Indices: 32967564--32967888 Score: 356
Period size: 46 Copynumber: 7.2 Consensus size: 46
32967554 ATTCAGTCTT
* * * * * *
32967564 TTACCCCTAAGTCAATAGGGGCAGATTGAA-ATAATTGTCCAATATT
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGA-CATTATCCAATCTC
* *
32967610 TTACCCCTAAGTTAAGAGGGGCAGATTGAAGACATTATCCAATCTC
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
*
32967656 TTACCCTTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
* * *
32967702 TTACCCTTAAGTCAAGAAGGGCAGATTAAAGACATCATCCAATCTC
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
* * * * *
32967748 TTACCCC-GA-CCATG--GGACAGATTGAAGACATCATCCAATCAT-
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATC-TC
* * * *
32967790 TTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATCATCCAATCTT
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
* ** **
32967836 TTACCCTTAAGTTGAGAAGGGCAGATTGAAGACACCATCCAATCTC
1 TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
32967882 TTACCCC
1 TTACCCC
32967889 GATCATGGGG
Statistics
Matches: 242, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.13
43 2 0.01
44 6 0.02
45 2 0.01
46 200 0.83
47 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (46 bp):
TTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCTC
Found at i:32967812 original size:134 final size:134
Alignment explanation
Indices: 32967631--32967897 Score: 419
Period size: 134 Copynumber: 2.0 Consensus size: 134
32967621 TTAAGAGGGG
* * *
32967631 CAGATTGAAGACATTATCCAATCTCTTACCCTTAAGTCAAGAAGGGCAGATTGAAGACATTATCC
1 CAGATTGAAGACATCATCCAATCTCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATCC
*
32967696 AATCTCTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACATCATCCAATCTCTTACCCCGACCAT
66 AATCTCTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCAT
32967761 GGGA
131 GGGA
* *
32967765 CAGATTGAAGACATCATCCAATCAT-TTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATCATC
1 CAGATTGAAGACATCATCCAATC-TCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATC
* ** * *
32967829 CAATCTTTTACCCTTAAGTTGAGAAGGGCAGATTGAAGACACCATCCAATCTCTTACCCCGATCA
65 CAATCTCTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCA
32967894 TGGG
130 TGGG
32967898 GAAAAGTGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
134 120 0.99
135 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (134 bp):
CAGATTGAAGACATCATCCAATCTCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATCC
AATCTCTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCAT
GGGA
Found at i:32967908 original size:134 final size:134
Alignment explanation
Indices: 32967636--32967927 Score: 405
Period size: 134 Copynumber: 2.2 Consensus size: 134
32967626 AGGGGCAGAT
* * *
32967636 TGAAGACATTATCCAATCTCTTACCCTTAAGTCAAGAAGGGCAGATTGAAGACATTATCCAATCT
1 TGAAGACATCATCCAATCTCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATCCAATCT
*
32967701 CTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACATCATCCAATCTCTTACCCCGACCATGGGAC
66 CTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCATGGGAC
* *
32967766 AGAT
131 AAAG
* *
32967770 TGAAGACATCATCCAATCAT-TTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATCATCCAATC
1 TGAAGACATCATCCAATC-TCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATCCAATC
* ** * *
32967834 TTTTACCCTTAAGTTGAGAAGGGCAGATTGAAGACACCATCCAATCTCTTACCCCGATCATGGGG
65 TCTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCAT-GGG
32967899 A-AAAG
129 ACAAAG
*
32967904 TGAAG-C--CATCCAATCTCATACCCC
1 TGAAGACATCATCCAATCTCTTACCCC
32967928 GACCATGGGC
Statistics
Matches: 141, Mismatches: 14, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
130 1 0.01
131 15 0.11
133 1 0.01
134 119 0.84
135 5 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (134 bp):
TGAAGACATCATCCAATCTCTTACCCCTAAGTCAAGAAGGGCAGATTGAAGACATCATCCAATCT
CTTACCCTTAAGTCAAGAAGGGCAGATTAAAGACACCATCCAATCTCTTACCCCGACCATGGGAC
AAAG
Found at i:32969512 original size:17 final size:18
Alignment explanation
Indices: 32969490--32969525 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32969480 TAAATGAGTT
32969490 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
32969507 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
32969525 A
1 A
32969526 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:32972188 original size:29 final size:29
Alignment explanation
Indices: 32972156--32972293 Score: 118
Period size: 29 Copynumber: 4.7 Consensus size: 29
32972146 TGACCCTCAC
* *
32972156 ACTTTCCAAAAATTCAAATTTAACCCCGA
1 ACTTTCCAAAAATTTAAATTTAACCCCAA
* * *
32972185 ACTTTCC-AAAA-TTATATTTTGACCCTCGA
1 ACTTTCCAAAAATTTA-AATTTAACCC-CAA
* *
32972214 ACTTTCCAAAAATTTAGATTTGACCCCCAA
1 ACTTTCCAAAAATTTAAATTT-AACCCCAA
* * ** *
32972244 ACTTCCCAAAAATTTATATTTGGCCTCAA
1 ACTTTCCAAAAATTTAAATTTAACCCCAA
*
32972273 ACTTTCCAAAAATTTGAATTT
1 ACTTTCCAAAAATTTAAATTT
32972294 GGCCCCCAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.02
28 12 0.14
29 40 0.45
30 28 0.32
31 6 0.07
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (29 bp):
ACTTTCCAAAAATTTAAATTTAACCCCAA
Found at i:32972199 original size:58 final size:57
Alignment explanation
Indices: 32972114--32972286 Score: 172
Period size: 58 Copynumber: 2.9 Consensus size: 57
32972104 GAAATTGTGT
*
32972114 TTTG-ACCCTCAAACTATTCAAAAATTATGTTTTGACCCTCACACTTTCCAAAAATTCAAA
1 TTTGAACCC-CAAACT-TTCCAAAATTAT-TTTTGACCCTCA-ACTTTCCAAAAATTCAAA
* * *
32972174 TTT-AACCCCGAACTTTCCAAAATTATATTTTGACCCTCGAACTTTCCAAAAATTTAGA
1 TTTGAACCCCAAACTTTCCAAAATTAT-TTTTGACCCTC-AACTTTCCAAAAATTCAAA
* * * *
32972232 TTTGACCCCCAAACTTCCCAAAAATTTATATTTG-GCCTCAAACTTTCCAAAAATT
1 TTTGAACCCCAAACTTTCC-AAAA-TTATTTTTGACCCTC-AACTTTCCAAAAATT
32972287 TGAATTTGGC
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
58 41 0.42
59 37 0.38
60 15 0.15
61 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (57 bp):
TTTGAACCCCAAACTTTCCAAAATTATTTTTGACCCTCAACTTTCCAAAAATTCAAA
Found at i:32972276 original size:88 final size:88
Alignment explanation
Indices: 32972113--32972283 Score: 211
Period size: 88 Copynumber: 1.9 Consensus size: 88
32972103 AGAAATTGTG
* * * *
32972113 TTTTGACCCTCAAACTATTCAAAAATTATGTTTTGACCCTCACACTTTCCAAAAATTCAAATTTA
1 TTTTGACCCTCAAACTATTCAAAAATTATGATTTGACCCCCAAACTTCCCAAAAATTCAAATTTA
*
32972178 ACCCCGAACTTTCCAAAATTATA
66 ACCCCAAACTTTCCAAAATTATA
* * *
32972201 TTTTGACCCTCGAACT-TTCCAAAAATT-TAGATTTGACCCCCAAACTTCCCAAAAATTTATATT
1 TTTTGACCCTCAAACTATT-CAAAAATTAT-GATTTGACCCCCAAACTTCCCAAAAATTCAAATT
** *
32972264 TGGCCTCAAACTTTCCAAAA
64 TAACCCCAAACTTTCCAAAA
32972284 ATTTGAATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 3 0.04
88 67 0.96
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (88 bp):
TTTTGACCCTCAAACTATTCAAAAATTATGATTTGACCCCCAAACTTCCCAAAAATTCAAATTTA
ACCCCAAACTTTCCAAAATTATA
Found at i:32972279 original size:59 final size:59
Alignment explanation
Indices: 32972114--32972303 Score: 199
Period size: 59 Copynumber: 3.2 Consensus size: 59
32972104 GAAATTGTGT
* * * * * * *
32972114 TTTGACCCTCAAACTATTCAAAAATTATGTTTTGACCCTCACACTTTCCAAAAATTCAAA
1 TTTGACCCCCAAACT-TCCCAAAATTATATTTTGACCCTCAAACTTTCCAAAAATTTAGA
* * * *
32972174 TTT-AACCCCGAACTTTCCAAAATTATATTTTGACCCTCGAACTTTCCAAAAATTTAGA
1 TTTGACCCCCAAACTTCCCAAAATTATATTTTGACCCTCAAACTTTCCAAAAATTTAGA
*
32972232 TTTGACCCCCAAACTTCCCAAAAATT-TATATTTG-GCCTCAAACTTTCCAAAAATTT-GAA
1 TTTGACCCCCAAACTTCCC-AAAATTATAT-TTTGACCCTCAAACTTTCCAAAAATTTAG-A
*
32972291 TTTGGCCCCCAAA
1 TTTGACCCCCAAA
32972304 ATTTCATTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
58 42 0.38
59 56 0.50
60 13 0.12
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (59 bp):
TTTGACCCCCAAACTTCCCAAAATTATATTTTGACCCTCAAACTTTCCAAAAATTTAGA
Found at i:32972294 original size:29 final size:29
Alignment explanation
Indices: 32972114--32972308 Score: 173
Period size: 30 Copynumber: 6.6 Consensus size: 29
32972104 GAAATTGTGT
**
32972114 TTTGACCCTCAAACTATT-CAAAAATTATGT
1 TTTGACCCTCAAACT-TTCCAAAAATT-TAA
* *
32972144 TTTGACCCTCACACTTTCCAAAAATTCAAA
1 TTTGACCCTCAAACTTTCCAAAAATT-TAA
* * *
32972174 TTTAACCC-CGAACTTTCC-AAAATTATAT
1 TTTGACCCTCAAACTTTCCAAAAATT-TAA
*
32972202 TTTGACCCTCGAACTTTCCAAAAATTTAGA
1 TTTGACCCTCAAACTTTCCAAAAATTTA-A
* *
32972232 TTTGACCCCCAAACTTCCCAAAAATTTATA
1 TTTGACCCTCAAACTTTCCAAAAATTTA-A
*
32972262 TTTG-GCCTCAAACTTTCCAAAAATTTGAA
1 TTTGACCCTCAAACTTTCCAAAAATTT-AA
* * *
32972291 TTTGGCCCCCAAAATTTC
1 TTTGACCCTCAAACTTTC
32972309 ATTTTTAGCC
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
28 14 0.10
29 46 0.34
30 76 0.56
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (29 bp):
TTTGACCCTCAAACTTTCCAAAAATTTAA
Found at i:32972392 original size:29 final size:27
Alignment explanation
Indices: 32972360--32972431 Score: 65
Period size: 29 Copynumber: 2.6 Consensus size: 27
32972350 AAAATTTCCA
32972360 ATTTTATTTTAATTTAATCCTTTATTTAT
1 ATTTTATTTTAATTTAATCC--TATTTAT
* * *
32972389 ATTTCT-TCTAAAATTAATCCTATTTAT
1 ATTT-TATTTTAATTTAATCCTATTTAT
*
32972416 TTATTTATTTTAATTT
1 AT-TTTATTTTAATTT
32972432 TCGATAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
27 9 0.27
28 8 0.24
29 15 0.45
30 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTATTTTAATTTAATCCTATTTAT
Found at i:32973592 original size:23 final size:25
Alignment explanation
Indices: 32973566--32973615 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
32973556 TTAGTTATCC
32973566 TATA-ATAATATTTTTTT-ATTT-AA
1 TATATATAAT-TTTTTTTAATTTGAA
*
32973589 TATATTTAATTTTTTTTAATTTGAA
1 TATATATAATTTTTTTTAATTTGAA
32973614 TA
1 TA
32973616 ACTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 8 0.35
25 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TATATATAATTTTTTTTAATTTGAA
Found at i:32978121 original size:17 final size:17
Alignment explanation
Indices: 32978099--32978135 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
32978089 AGATACAGTT
32978099 ACAGATACAGTCATGCC
1 ACAGATACAGTCATGCC
*
32978116 ACAGATACAGTCATGTC
1 ACAGATACAGTCATGCC
32978133 ACA
1 ACA
32978136 AGTATAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (17 bp):
ACAGATACAGTCATGCC
Found at i:32978805 original size:23 final size:23
Alignment explanation
Indices: 32978774--32978856 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
32978764 AGTGCTGGGG
32978774 AAACAGTAAGCACACACAGTGC-
1 AAACAGTAAGCACACACAGTGCT
* *
32978796 AAATCAGTAAGCACATATAGTGCT
1 AAA-CAGTAAGCACACACAGTGCT
* *
32978820 GAACAGTAAGTACACACAGTGCT
1 AAACAGTAAGCACACACAGTGCT
*
32978843 GAACAGTAACGCAC
1 AAACAGTAA-GCAC
32978857 TAATGTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
22 3 0.06
23 43 0.84
24 5 0.10
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (23 bp):
AAACAGTAAGCACACACAGTGCT
Found at i:32982205 original size:52 final size:52
Alignment explanation
Indices: 32982060--32982246 Score: 275
Period size: 55 Copynumber: 3.5 Consensus size: 52
32982050 TTCTCATTTA
*
32982060 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
*
32982112 ATACTCACGATGATGACACATAGTCATCGGACCTCATAATCCGTAAATGATTCAT
1 ATACTCAC---GATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * * *
32982167 ATACTCACGATGACACGTAGTCATCAGACCTCAAAATCCGTAAAAGATTCAG
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
*
32982219 ATAACTCACGATGACACAAAGTCATCGG
1 AT-ACTCACGATGACACATAGTCATCGG
32982247 GCCTTTTGCA
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
52 49 0.40
53 22 0.18
55 51 0.42
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
Found at i:32984363 original size:13 final size:13
Alignment explanation
Indices: 32984345--32984369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32984335 ATAAGACTCT
32984345 GTAAATATTTAAC
1 GTAAATATTTAAC
32984358 GTAAATATTTAA
1 GTAAATATTTAA
32984370 TAAAAATATT
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:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
GTAAATATTTAAC
Found at i:32984766 original size:40 final size:38
Alignment explanation
Indices: 32984698--32984773 Score: 89
Period size: 40 Copynumber: 1.9 Consensus size: 38
32984688 GTAACCTTGT
* * ***
32984698 AGTGTTTATAGTGTCACTGTCGGTTCAGTTATAATATTGC
1 AGTGTTTACAGTGTCACTGCCAACTCAG-TA-AATATTGC
32984738 AGTGTTTACAGTGTCACTGCCAACTCAGTAAATATT
1 AGTGTTTACAGTGTCACTGCCAACTCAGTAAATATT
32984774 CTCAAGTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 6 0.19
39 2 0.06
40 23 0.74
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (38 bp):
AGTGTTTACAGTGTCACTGCCAACTCAGTAAATATTGC
Found at i:32986467 original size:16 final size:16
Alignment explanation
Indices: 32986446--32986478 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32986436 TTATTATTTT
*
32986446 AATGTTAAAGGACTAA
1 AATGTTAAAGGAATAA
32986462 AATGTTAAAGGAATAA
1 AATGTTAAAGGAATAA
32986478 A
1 A
32986479 TTTGTAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGTTAAAGGAATAA
Found at i:32987539 original size:52 final size:52
Alignment explanation
Indices: 32987462--32987700 Score: 415
Period size: 52 Copynumber: 4.6 Consensus size: 52
32987452 TAAATGCAAA
*
32987462 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
32987514 AGGTCCGATGACTATGTGTCATCGTGAGCATTTGTATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
32987566 AGGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
32987618 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
32987670 AGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
32987701 TAAATGAGAA
Statistics
Matches: 176, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 176 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:32988989 original size:53 final size:53
Alignment explanation
Indices: 32988901--32989054 Score: 168
Period size: 53 Copynumber: 2.9 Consensus size: 53
32988891 TGTACCCATA
* * * *
32988901 CCCATGTGTCAGACC-ATGTTCCCCAAAACAGTATACACACACCTTGACACACG
1 CCCATGTGTCAG-CCTATGTGCCCTAAAACAATATACACACACCCTGACACACG
* * * *
32988954 CCCATGTGTCAGCCTATGTGCCCTACAGCAATATACACACACCCTGACATAGG
1 CCCATGTGTCAGCCTATGTGCCCTAAAACAATATACACACACCCTGACACACG
* * * *
32989007 CCCATGTGCCAG-CTCGTGTGCCTTAGAACAATATACACACACCCTGAC
1 CCCATGTGTCAGCCT-ATGTGCCCTAAAACAATATACACACACCCTGAC
32989055 CCATGCTCGT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 4 0.05
53 82 0.95
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.20
Consensus pattern (53 bp):
CCCATGTGTCAGCCTATGTGCCCTAAAACAATATACACACACCCTGACACACG
Found at i:32989125 original size:55 final size:55
Alignment explanation
Indices: 32989062--32989236 Score: 224
Period size: 55 Copynumber: 3.2 Consensus size: 55
32989052 GACCCATGCT
* * **
32989062 CGTGTGCCTCCAAACAGTCTAGACACACACCCTGACACATGCCCGTGTGCCAGCC
1 CGTGTGCCTCCAAATAGTATAGACACACACCCTGACACACACCCGTGTGCCAGCC
* **
32989117 CGTGTGCCTCCAAATAGTATAAACACACACCCTGACACACACCTATGTGCCAGCC
1 CGTGTGCCTCCAAATAGTATAGACACACACCCTGACACACACCCGTGTGCCAGCC
* * * * *
32989172 CGTGTGCCTCCAAATAATATAGACATACACCCTAGACACACCCCCGTATGCCAACC
1 CGTGTGCCTCCAAATAGTATAGACACACACCCT-GACACACACCCGTGTGCCAGCC
*
32989228 TGTGTGCCT
1 CGTGTGCCT
32989237 TCGGAAAACA
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
55 78 0.76
56 25 0.24
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.19
Consensus pattern (55 bp):
CGTGTGCCTCCAAATAGTATAGACACACACCCTGACACACACCCGTGTGCCAGCC
Found at i:32991314 original size:29 final size:29
Alignment explanation
Indices: 32991282--32991349 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
32991272 AATAATATAA
* *
32991282 ATACAGTTACAGATATAGTCATGCCACAG
1 ATACAGTTACAGATACAGTCACGCCACAG
* * *
32991311 ATACAGTCAGAGATACAGTCACGTCACAG
1 ATACAGTTACAGATACAGTCACGCCACAG
*
32991340 GTACAGTTAC
1 ATACAGTTAC
32991350 GGATGCAGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (29 bp):
ATACAGTTACAGATACAGTCACGCCACAG
Found at i:32991541 original size:40 final size:40
Alignment explanation
Indices: 32991461--32991552 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
32991451 GACATGTTGT
* * *
32991461 AGTGTTTACAGTGCCACTGCCAGTTTAGTGGTAACCTTGC
1 AGTGTTTACAGTGCCACTGCCAGTTCAGTGATAACATTGC
* * * *
32991501 AGTGTTTATAGTGTCACTGCCAGTTCAGTTATAATATTGC
1 AGTGTTTACAGTGCCACTGCCAGTTCAGTGATAACATTGC
*
32991541 AGAGTTTACAGT
1 AGTGTTTACAGT
32991553 CTGTCACTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
AGTGTTTACAGTGCCACTGCCAGTTCAGTGATAACATTGC
Found at i:32992100 original size:53 final size:53
Alignment explanation
Indices: 32992012--32992115 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
32992002 TGTACCCATA
* * *
32992012 CCCATGTGTCAGCCCATGTTCCCCAGAACAGTATACACACACCCTGGCACACG
1 CCCATGTGTCAGCCCATGTACCCCAGAACAATATACACACACCCTGACACACG
* * *
32992065 CCCATGTGTCAGCCCGTGTACCCTAGAGCAATATACACACACCCTGACACA
1 CCCATGTGTCAGCCCATGTACCCCAGAACAATATACACACACCCTGACACA
32992116 TGTTTGTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.17
Consensus pattern (53 bp):
CCCATGTGTCAGCCCATGTACCCCAGAACAATATACACACACCCTGACACACG
Found at i:32992169 original size:41 final size:41
Alignment explanation
Indices: 32992093--32992188 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
32992083 TACCCTAGAG
* * ** *
32992093 CAATATACACACACCCTGACACATGTTTGTGTGCCT-CAGAA
1 CAATATACACACACCCTGACACACGCTCATATGCCTCCA-AA
*
32992134 CAATATACACACACCCTGACCCACGCTCATATGCCTCCAAA
1 CAATATACACACACCCTGACACACGCTCATATGCCTCCAAA
* *
32992175 CAGTATAGACACAC
1 CAATATACACACAC
32992189 ACTTGTGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (41 bp):
CAATATACACACACCCTGACACACGCTCATATGCCTCCAAA
Found at i:32994516 original size:358 final size:354
Alignment explanation
Indices: 32993840--32994654 Score: 1258
Period size: 358 Copynumber: 2.3 Consensus size: 354
32993830 GGAAAAGTGA
* * * * *
32993840 TTTTAATTGGACGTGATTTTCTGAATTTTCTTTTTAAAACGACATTAGCTTAGCACGTTTTATTA
1 TTTTAGTTGGACGTGATTTTCTGAGTTTTC--TCTAAAACGACATTAGCTTAACACGTTTTAGTA
* * * *
32993905 AAATCGGTCAGTTTTCGTCAATTTTAACAAAAGTGACCTATTTTCATAATTTTTATAAAAGATGC
64 AAATCGGTCAATTTTCGTCAATTTTAACAAAAGTGACCCATTTTCATAATTTATATAAAAAATGC
*
32993970 ATTTTGTTTTTGTAAATTGATCTAAATTATAAATCCAAATCAAACCATAACGTGAACTTCAGTCC
129 ATTTTGTTTTTGTAAATTGATCTAAATTATAAATCCAAATCAAACCATAACGAGAACTTCAGTCC
* * *
32994035 TCACTAGACAGCTTCTCTGGGGTTTCTACTTTTTATATTAATTAATTTTAAATAAAGGGACAAAT
194 CCACTAGACAACTTCTCTGGGGTTTCTACTTTCTATATTAATTAATTTTAAATAAAGGGACAAAT
* *
32994100 AACATGGGTTGTTTTTTTGTCGTTCAATTATAAAATTTTTTAAATTGGTCACTTAATTAGTTGAT
259 AACATGGGTTGTTTTTTTGTCGTCCAATTATAAAATTTTTTAAATTGGTCACTTAATTAGTTGAG
*
32994165 ATTTTTATTTTGGTCATTTTCCATTAATGGC
324 ATTTTTATTTTGGTCATTTTCCATTAATGAC
* *
32994196 TTTTAGTTGGACGTGATTTTTTGAGTTTTCTCTAAAACCGACATTAGCTTAACACATTTTAGTAA
1 TTTTAGTTGGACGTGATTTTCTGAGTTTTCTCTAAAA-CGACATTAGCTTAACACGTTTTAGTAA
* * *
32994261 AATCAGTTAATTTTCGTCAATTTTAACTAAAGTGACCCATTTTCATAATTTATATAAAAAATG-A
65 AATCGGTCAATTTTCGTCAATTTTAACAAAAGTGACCCATTTTCATAATTTATATAAAAAATGCA
* *
32994325 GGTTTT-TTTTTGGTAAATTGATCTGAATTATAAATCCAAATCAAACCATAATGAGAACTTCAGT
130 --TTTTGTTTTT-GTAAATTGATCTAAATTATAAATCCAAATCAAACCATAACGAGAACTTCAGT
*
32994389 CCCCACTGGACAACTTCTCTGGGGTTTCTACTTTCTATTAATTAATTAATTTTAAATAAAGGGAC
192 CCCCACTAGACAACTTCTCTGGGGTTTCTACTTTCTA-T-ATTAATTAATTTTAAATAAAGGGAC
32994454 AAATAACATGGGTTGTTTTTTTGTCGTCCAATTATAAAGA-TTTTTAAATTGGTCACTTAATTAG
255 AAATAACATGGGTTGTTTTTTTGTCGTCCAATTATAAA-ATTTTTTAAATTGGTCACTTAATTAG
* * *
32994518 TTGCGATTTTTATTTTGTTCATTTTTCATTAATGAC
319 TTGAGATTTTTATTTTGGTCATTTTCCATTAATGAC
* *
32994554 TTTTAGTTGGACGTGCTTTTCTGAGTTTTCTCTGAAAATGACATTAGCTTAACACGTTTTAGTAA
1 TTTTAGTTGGACGTGATTTTCTGAGTTTTCTCT-AAAACGACATTAGCTTAACACGTTTTAGTAA
32994619 AATCGGTCAATTTTCGTCAATTTTAACAAAAGTGAC
65 AATCGGTCAATTTTCGTCAATTTTAACAAAAGTGAC
32994655 ATTAGCTTCC
Statistics
Matches: 417, Mismatches: 34, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
354 7 0.02
355 85 0.20
356 113 0.27
357 1 0.00
358 206 0.49
359 5 0.01
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (354 bp):
TTTTAGTTGGACGTGATTTTCTGAGTTTTCTCTAAAACGACATTAGCTTAACACGTTTTAGTAAA
ATCGGTCAATTTTCGTCAATTTTAACAAAAGTGACCCATTTTCATAATTTATATAAAAAATGCAT
TTTGTTTTTGTAAATTGATCTAAATTATAAATCCAAATCAAACCATAACGAGAACTTCAGTCCCC
ACTAGACAACTTCTCTGGGGTTTCTACTTTCTATATTAATTAATTTTAAATAAAGGGACAAATAA
CATGGGTTGTTTTTTTGTCGTCCAATTATAAAATTTTTTAAATTGGTCACTTAATTAGTTGAGAT
TTTTATTTTGGTCATTTTCCATTAATGAC
Found at i:32999177 original size:17 final size:19
Alignment explanation
Indices: 32999143--32999180 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
32999133 TTATAATGAC
32999143 AAAAGAATGAAAAGTAAAA
1 AAAAGAATGAAAAGTAAAA
*
32999162 AAAAG-ATGAAGA-TAAAA
1 AAAAGAATGAAAAGTAAAA
32999179 AA
1 AA
32999181 TAAACCCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAAGAATGAAAAGTAAAA
Found at i:32999891 original size:88 final size:87
Alignment explanation
Indices: 32999783--33000068 Score: 314
Period size: 87 Copynumber: 3.3 Consensus size: 87
32999773 AAATACCTGC
*
32999783 AAAATAAAAGT-AGGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTCTTTTTATGCATTTTGA
1 AAAATAAAA-TCAAGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTCTTTTTATGCATTTTGA
32999847 AAGTTCAAATATCCAAGTGAGCGT
65 AAGTT-AAATATCCAAGTGAGCGT
* **
32999871 AAAATAAAATCAGGGGCTTAATTGCGTTTTTTT----AAGTTTGAAAGTCTTTTTGATGCATTTT
1 AAAATAAAATCAAGGGCTTAATT--GTTTTTTTGAAAAAGTTTGAGGGTCTTTTT-ATGCATTTT
* * * *
32999932 GAAAGTTTAAGTACCCAATTGAGTGT
63 GAAAG-TTAAATATCCAAGTGAGCGT
* * * * *
32999958 AAAATAAAAGCAAGAGCTTAATTGCTTTTTTGAAAAAGTTTGAGGATTTTTTTATGCATTTTGAA
1 AAAATAAAATCAAGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTCTTTTTATGCATTTTGAA
* * *
33000023 AATTAAATATCCAAGT-AACTGC
66 AGTTAAATATCCAAGTGAGC-GT
*
33000045 AAAATAAAATCAATGGCTTAATTG
1 AAAATAAAATCAAGGGCTTAATTG
33000069 CTTCTTCTTT
Statistics
Matches: 164, Mismatches: 24, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
85 7 0.04
86 17 0.10
87 82 0.50
88 36 0.22
89 14 0.09
90 8 0.05
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (87 bp):
AAAATAAAATCAAGGGCTTAATTGTTTTTTTGAAAAAGTTTGAGGGTCTTTTTATGCATTTTGAA
AGTTAAATATCCAAGTGAGCGT
Found at i:33004454 original size:138 final size:138
Alignment explanation
Indices: 33004206--33004470 Score: 467
Period size: 138 Copynumber: 1.9 Consensus size: 138
33004196 CTGTTTTTTG
* * *
33004206 AGACAAAATCAACATAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
1 AGACAAAATCAACAAAAGCAACTGGAAAAATCCTACTTGAAGTAAGTCTAAACAAACATAAAGAT
*
33004271 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAATAAAATCAAGCTTCTGTTAATAGAGAAAAC
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAATAAAATCAAGCTTCGGTTAATAGAGAAAAC
33004336 ATTCTATA
131 ATTCTATA
*
33004344 AGACAAAATCAACAAAAGCAACTGGAAAAATCTTACTTGAAGTAAGTCTAAACAAACATAAAGAT
1 AGACAAAATCAACAAAAGCAACTGGAAAAATCCTACTTGAAGTAAGTCTAAACAAACATAAAGAT
* *
33004409 CAGCATCCGTTTACAAGCTTTTTGACAGTAAACAATAAAATCAAGCTTCGGTTAATAGAGAA
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAATAAAATCAAGCTTCGGTTAATAGAGAA
33004471 TCATCCTATA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 120 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (138 bp):
AGACAAAATCAACAAAAGCAACTGGAAAAATCCTACTTGAAGTAAGTCTAAACAAACATAAAGAT
CAGCATCCATTTACAAGCTTTTTAACAGTAAACAATAAAATCAAGCTTCGGTTAATAGAGAAAAC
ATTCTATA
Found at i:33016329 original size:22 final size:23
Alignment explanation
Indices: 33016283--33016332 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
33016273 TTAAAAAGTA
* *
33016283 AGAAAATTCAAAAATTTATTGAT
1 AGAAAATTCAAAAAGTTATTAAT
33016306 AGAAAATTCAAAAAGTT-TTAAT
1 AGAAAATTCAAAAAGTTATTAAT
33016328 AGAAA
1 AGAAA
33016333 CTTTGCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (23 bp):
AGAAAATTCAAAAAGTTATTAAT
Found at i:33017920 original size:11 final size:11
Alignment explanation
Indices: 33017904--33017928 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33017894 AAATATCATA
33017904 ATTTAATAATT
1 ATTTAATAATT
33017915 ATTTAATAATT
1 ATTTAATAATT
33017926 ATT
1 ATT
33017929 ATTTCAAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTAATAATT
Found at i:33017969 original size:30 final size:30
Alignment explanation
Indices: 33017916--33017987 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
33017906 TTAATAATTA
*
33017916 TTTAATAATTAT-TATTTCAAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAAATAAT
**
33017945 TTTAATAATTTTATATTTTTAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAAATAAT
33017975 TTTAATAATTTTA
1 TTTAATAATTTTA
33017988 AAATCATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 11 0.28
30 28 0.72
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAATAATTTTATATTTCAAAAAAATAAT
Found at i:33017972 original size:21 final size:22
Alignment explanation
Indices: 33017948--33017990 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33017938 AAATAATTTT
*
33017948 AATAATTTT-ATATTTTTAAAA
1 AATAATTTTAATAATTTTAAAA
33017969 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
33017991 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:33019199 original size:21 final size:22
Alignment explanation
Indices: 33019164--33019206 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
33019154 GGAACCCATT
33019164 TTTAAATTGTAAATTTAATTTA
1 TTTAAATTGTAAATTTAATTTA
* *
33019186 TTTAAGTT-TAAATTTATTTTA
1 TTTAAATTGTAAATTTAATTTA
33019207 AATTTAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTAAATTGTAAATTTAATTTA
Found at i:33019201 original size:6 final size:6
Alignment explanation
Indices: 33019164--33019255 Score: 52
Period size: 6 Copynumber: 15.8 Consensus size: 6
33019154 GGAACCCATT
* *
33019164 TTTAAA TTGTAAA TTT-AA TTT--A TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
33019209 TTTAAA CTT-AT TTTGAG TTTATTAT TTTAAA -TTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAA
33019256 TTAAAAATGT
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
4 4 0.06
5 17 0.25
6 35 0.52
7 6 0.09
8 5 0.07
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:33019212 original size:17 final size:17
Alignment explanation
Indices: 33019173--33019248 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 17
33019163 TTTTAAATTG
33019173 TAAATTT-AATTTA-TT
1 TAAATTTAAATTTATTT
*
33019188 TAAGTTTAAATTTATTT
1 TAAATTTAAATTTATTT
*
33019205 TAAATTTAAACTTATTT
1 TAAATTTAAATTTATTT
* *
33019222 TGAGTTT--A-TTATTT
1 TAAATTTAAATTTATTT
33019236 TAAA-TTAAATTTA
1 TAAATTTAAATTTA
33019249 AATTTAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
13 2 0.04
14 8 0.16
15 8 0.16
16 9 0.18
17 22 0.45
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:33019829 original size:7 final size:7
Alignment explanation
Indices: 33019806--33019860 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
33019796 GAAAACGTAT
33019806 TAAATAA
1 TAAATAA
*
33019813 GTACATAA
1 -TAAATAA
33019821 TAAATAA
1 TAAATAA
*
33019828 TAAATAT
1 TAAATAA
33019835 TAAATAA
1 TAAATAA
*
33019842 TAATTAA
1 TAAATAA
33019849 TAAA-AA
1 TAAATAA
33019855 -AAATAA
1 TAAATAA
33019861 AACGAAAGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 3 0.08
6 4 0.10
7 27 0.68
8 6 0.15
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAATAA
Found at i:33020911 original size:29 final size:29
Alignment explanation
Indices: 33020879--33021110 Score: 165
Period size: 29 Copynumber: 8.0 Consensus size: 29
33020869 TCACGTTAAG
* *
33020879 ACCCCTAAACTTTCCAAAATTATATTTTT
1 ACCCCTAAACTTTCAAAAATTACATTTTT
* *
33020908 ACCCTTAAACTTCTCAAAAATTACATTTTC
1 ACCCCTAAACTT-TCAAAAATTACATTTTT
* *
33020938 A-CCTTCAAA-TTCCTCCAAAATTACA--TTT
1 ACCCCT-AAACTT--TCAAAAATTACATTTTT
* * *
33020966 GCCCCCAAACTTTTAAAAATTACATTTTT
1 ACCCCTAAACTTTCAAAAATTACATTTTT
* * *
33020995 A-CCCTCGAGCTTTCAAAAATCACATTTTT
1 ACCCCT-AAACTTTCAAAAATTACATTTTT
* * *
33021024 ACCCCAAAAC-TTCAAAAAATCACATTTTG
1 ACCCCTAAACTTTC-AAAAATTACATTTTT
* * *
33021053 AACCC-AAACTTCACAAAAATTACATTTTG
1 ACCCCTAAACTT-TCAAAAATTACATTTTT
33021082 ACCCC-AAACTTCTCAAAAATTACCATTTT
1 ACCCCTAAACTT-TCAAAAATTA-CATTTT
33021111 GCCCCAAATA
Statistics
Matches: 164, Mismatches: 26, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
27 10 0.06
28 15 0.09
29 99 0.60
30 40 0.24
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.34
Consensus pattern (29 bp):
ACCCCTAAACTTTCAAAAATTACATTTTT
Found at i:33021115 original size:29 final size:28
Alignment explanation
Indices: 33020914--33021143 Score: 170
Period size: 29 Copynumber: 8.0 Consensus size: 28
33020904 TTTTACCCTT
33020914 AAACTTCTCAAAAATTACATTTT-CACCTTC
1 AAACTTCTCAAAAATTACATTTTGC-CC--C
*
33020944 AAA-TTCCTCCAAAATTACA-TTTGCCCCC
1 AAACTT-CTCAAAAATTACATTTTG-CCCC
* *
33020972 AAACTT-TTAAAAATTACATTTTTACCCTC
1 AAACTTCTCAAAAATTACA-TTTTGCCC-C
* * * *
33021001 GAGCTT-TCAAAAATCACATTTTTACCCC
1 AAACTTCTCAAAAATTACA-TTTTGCCCC
* * *
33021029 AAAACTTC-AAAAAATCACATTTTGAACCC
1 -AAACTTCTCAAAAATTACATTTTG-CCCC
*
33021058 AAACTTCACAAAAATTACATTTTGACCCC
1 AAACTTCTCAAAAATTACATTTTG-CCCC
33021087 AAACTTCTCAAAAATTACCATTTTGCCCC
1 AAACTTCTCAAAAATTA-CATTTTGCCCC
*
33021116 AAA-TAT-TTAAAAATTACCATTTTGCCCC
1 AAACT-TCTCAAAAATTA-CATTTTGCCCC
33021144 CGAATATCCT
Statistics
Matches: 169, Mismatches: 18, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
27 10 0.06
28 41 0.24
29 93 0.55
30 24 0.14
31 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (28 bp):
AAACTTCTCAAAAATTACATTTTGCCCC
Found at i:33021117 original size:58 final size:58
Alignment explanation
Indices: 33020881--33021144 Score: 192
Period size: 58 Copynumber: 4.6 Consensus size: 58
33020871 ACGTTAAGAC
* * * *
33020881 CCCT-AAACTT-TCCAAAATTATATTTTTACCCTTAAACTTCTCAAAAATTACATTTT-
1 CCCTCAAACTTCTCAAAAATTACATTTTGACCC-CAAACTTCTCAAAAATTACATTTTG
* * * *
33020937 CACCTTCAAA-TTCCTCCAAAATTACA-TTTGCCCCCAAACTT-TTAAAAATTACATTTTTA
1 C-CC-TCAAACTT-CTCAAAAATTACATTTTGACCCCAAACTTCTCAAAAATTACA-TTTTG
* * * * * *
33020996 CCCTCGAGCTT-TCAAAAATCACATTTTTACCCCAAAACTTC-AAAAAATCACATTTTG
1 CCCTCAAACTTCTCAAAAATTACATTTTGACCCC-AAACTTCTCAAAAATTACATTTTG
* *
33021053 AACC-CAAACTTCACAAAAATTACATTTTGACCCCAAACTTCTCAAAAATTACCATTTTG
1 -CCCTCAAACTTCTCAAAAATTACATTTTGACCCCAAACTTCTCAAAAATTA-CATTTTG
* *
33021112 CCC-CAAA-TAT-TTAAAAATTACCATTTTGCCCCC
1 CCCTCAAACT-TCTCAAAAATTA-CATTTTGACCCC
33021145 GAATATCCTA
Statistics
Matches: 165, Mismatches: 26, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
56 11 0.07
57 48 0.29
58 78 0.47
59 17 0.10
60 11 0.07
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (58 bp):
CCCTCAAACTTCTCAAAAATTACATTTTGACCCCAAACTTCTCAAAAATTACATTTTG
Found at i:33021134 original size:28 final size:30
Alignment explanation
Indices: 33021009--33021171 Score: 123
Period size: 29 Copynumber: 5.7 Consensus size: 30
33020999 TCGAGCTTTC
* *
33021009 AAAAATCA-CATTTTTACCCCAAA-A-CTT
1 AAAAATTACCATTTTGACCCCAAATATCTT
* * **
33021036 CAAAAAAT-CACATTTTGAACCCAAACT-TCAC
1 -AAAAATTAC-CATTTTGACCCCAAA-TATCTT
*
33021067 AAAAATTA-CATTTTGACCCCAAACT-TCTC
1 AAAAATTACCATTTTGACCCCAAA-TATCTT
33021096 AAAAATTACCATTTTG-CCCCAAATAT-TT
1 AAAAATTACCATTTTGACCCCAAATATCTT
* * *
33021124 AAAAATTACCATTTTGCCCCCGAATATCCT
1 AAAAATTACCATTTTGACCCCAAATATCTT
33021154 -AAAATTACCATTTT-ACCC
1 AAAAATTACCATTTTGACCC
33021172 TCGAAGATCC
Statistics
Matches: 112, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
28 26 0.23
29 71 0.63
30 14 0.12
31 1 0.01
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAAATTACCATTTTGACCCCAAATATCTT
Found at i:33021176 original size:29 final size:28
Alignment explanation
Indices: 33021097--33021198 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 28
33021087 AAACTTCTCA
* *
33021097 AAAATTACCATTTTGCCCCAAATAT-TT
1 AAAATTACCATTTTGCCCCGAATATCCT
33021124 AAAAATTACCATTTTGCCCCCGAATATCCT
1 -AAAATTACCATTTTG-CCCCGAATATCCT
* * *
33021154 AAAATTACCATTTTACCCTCGAAGATCCA
1 AAAATTACCATTTTGCCC-CGAATATCCT
33021183 AAAATTACC--TTTGCCC
1 AAAATTACCATTTTGCCC
33021199 TTAAATTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
27 6 0.09
28 18 0.28
29 40 0.62
30 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCGAATATCCT
Found at i:33023870 original size:35 final size:35
Alignment explanation
Indices: 33023824--33023985 Score: 216
Period size: 35 Copynumber: 4.6 Consensus size: 35
33023814 TGAGCAACAT
33023824 ATTACTAGGAATCTTGAAGAACTCGTATGAGTTAA
1 ATTACTAGGAATCTTGAAGAACTCGTATGAGTTAA
* *
33023859 TTTACTGGGAATCTTGAAGAACTCGTATGAGTTAA
1 ATTACTAGGAATCTTGAAGAACTCGTATGAGTTAA
* * * * *
33023894 TTTACTGGGAATCTTGTAGAGCTCGTATGAGCTGAA
1 ATTACTAGGAATCTTGAAGAACTCGTATGAG-TTAA
* * *
33023930 ATTACTAGGAAACTTGAAGAGCTCGTATGAGATAA
1 ATTACTAGGAATCTTGAAGAACTCGTATGAGTTAA
*
33023965 ATTACTAGGAAACTTGAAGAA
1 ATTACTAGGAATCTTGAAGAA
33023986 AATGTTGAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 84 0.74
36 30 0.26
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (35 bp):
ATTACTAGGAATCTTGAAGAACTCGTATGAGTTAA
Found at i:33023970 original size:71 final size:70
Alignment explanation
Indices: 33023806--33023985 Score: 218
Period size: 71 Copynumber: 2.5 Consensus size: 70
33023796 TTTCTGATAT
* * *
33023806 AGCTCGTATGAGCA-ACATATTACTAGGAATCTTGAAGAACTCGTATGAGTTAATTTACTGGGAA
1 AGCTCGTATGAG-ATA-A-ATTACTAGGAATCTTGAAGAACTCGTATGAGTGAAATTACTAGGAA
*
33023870 TCTTGAAG
63 ACTTGAAG
* * * * * *
33023878 AACTCGTATGAGTTAATTTACTGGGAATCTTGTAGAGCTCGTATGAGCTGAAATTACTAGGAAAC
1 AGCTCGTATGAGATAAATTACTAGGAATCTTGAAGAACTCGTATGAG-TGAAATTACTAGGAAAC
33023943 TTGAAG
65 TTGAAG
*
33023949 AGCTCGTATGAGATAAATTACTAGGAAACTTGAAGAA
1 AGCTCGTATGAGATAAATTACTAGGAATCTTGAAGAA
33023986 AATGTTGAGA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
70 27 0.30
71 50 0.56
72 12 0.13
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (70 bp):
AGCTCGTATGAGATAAATTACTAGGAATCTTGAAGAACTCGTATGAGTGAAATTACTAGGAAACT
TGAAG
Found at i:33026274 original size:13 final size:13
Alignment explanation
Indices: 33026256--33026280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33026246 ATAGCGTTAA
33026256 ATGATTTAATTAT
1 ATGATTTAATTAT
33026269 ATGATTTAATTA
1 ATGATTTAATTA
33026281 AGGAAATTTG
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATGATTTAATTAT
Found at i:33026717 original size:52 final size:52
Alignment explanation
Indices: 33026535--33026718 Score: 244
Period size: 52 Copynumber: 3.5 Consensus size: 52
33026525 ATGAAAAAGT
* * *
33026535 GTCCGATGACTATGTGTCATCGTGAG-AATATGAATCCTTTAAGGATTATGAG
1 GTCCGATGACTATGTGTCATCATGAGTAA-ATGAATCCTTTACGAATTATGAG
* * *
33026587 GTCCGATGAATATGTGTCATCATGAGTAAATGAATCCTATACGAATTGTGAG
1 GTCCGATGACTATGTGTCATCATGAGTAAATGAATCCTTTACGAATTATGAG
* * ** * *
33026639 GTCTGATGACTATGTGTCATCGTGAGTACGTAAATCCTTTACGAACTATGAG
1 GTCCGATGACTATGTGTCATCATGAGTAAATGAATCCTTTACGAATTATGAG
33026691 GTCCGATGACTATGTGTCATCATGAGTA
1 GTCCGATGACTATGTGTCATCATGAGTA
33026719 TTAAATGAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
52 112 0.98
53 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (52 bp):
GTCCGATGACTATGTGTCATCATGAGTAAATGAATCCTTTACGAATTATGAG
Found at i:33029124 original size:19 final size:19
Alignment explanation
Indices: 33029084--33029128 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33029074 TTTTATTAGG
33029084 ATTTAATATTTAAGATATT
1 ATTTAATATTTAAGATATT
* *
33029103 ATTTATTATTTAA-ATTTGT
1 ATTTAATATTTAAGATAT-T
33029122 ATTTAAT
1 ATTTAAT
33029129 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAGATATT
Found at i:33029932 original size:22 final size:21
Alignment explanation
Indices: 33029902--33029942 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33029892 ATTTCAACAC
*
33029902 TTCTATTTTCTATTTCTTTTAA
1 TTCTATTTTCT-TTTATTTTAA
*
33029924 TTCTGTTTTCTTTTATTTT
1 TTCTATTTTCTTTTATTTT
33029943 TATTGTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (21 bp):
TTCTATTTTCTTTTATTTTAA
Found at i:33031449 original size:20 final size:20
Alignment explanation
Indices: 33031436--33031474 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33031426 TTAAATAGGT
*
33031436 TTAATTAAAGTTAAAAATGG
1 TTAATTAAACTTAAAAATGG
*
33031456 TTAATTAAACTTAATAATG
1 TTAATTAAACTTAAAAATG
33031475 AAAGTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTAAACTTAAAAATGG
Found at i:33036735 original size:13 final size:13
Alignment explanation
Indices: 33036701--33036742 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
33036691 GGTAAAATGT
*
33036701 AATGTTTAGATGA
1 AATGTTTATATGA
*
33036714 AAT-TATTATACGA
1 AATGT-TTATATGA
33036727 AATGTTTATATGA
1 AATGTTTATATGA
33036740 AAT
1 AAT
33036743 TGATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (13 bp):
AATGTTTATATGA
Found at i:33037508 original size:21 final size:21
Alignment explanation
Indices: 33037482--33037578 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
33037472 GTACCCTAAT
*
33037482 TGTATCGGTAGAAGTCATAAG
1 TGTATCGGTAGAACTCATAAG
* * *
33037503 TGTATCGATAGAACTCCTAAT
1 TGTATCGGTAGAACTCATAAG
*
33037524 TGTATCGGTAGAAGTCATAAG
1 TGTATCGGTAGAACTCATAAG
* *
33037545 TGTATCGATAGAACTCCT-AG
1 TGTATCGGTAGAACTCATAAG
33037565 TTGTATCGGTAGAA
1 -TGTATCGGTAGAA
33037579 TTCTGCAGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
20 2 0.03
21 61 0.97
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (21 bp):
TGTATCGGTAGAACTCATAAG
Found at i:33037533 original size:42 final size:42
Alignment explanation
Indices: 33037463--33037578 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
33037453 AATCCTAAAA
*
33037463 GTATCGATAGTAC-CCTAATTGTATCGGTAGAAGTCATAAGT
1 GTATCGATAGAACTCCTAATTGTATCGGTAGAAGTCATAAGT
33037504 GTATCGATAGAACTCCTAATTGTATCGGTAGAAGTCATAAGT
1 GTATCGATAGAACTCCTAATTGTATCGGTAGAAGTCATAAGT
*
33037546 GTATCGATAGAACTCCTAGTTGTATCGGTAGAA
1 GTATCGATAGAACTCCTAATTGTATCGGTAGAA
33037579 TTCTGCAGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 12 0.17
42 60 0.83
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
GTATCGATAGAACTCCTAATTGTATCGGTAGAAGTCATAAGT
Found at i:33039669 original size:11 final size:12
Alignment explanation
Indices: 33039640--33039672 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
33039630 ATGCCTCCTG
33039640 CCACGTCAGCAT
1 CCACGTCAGCAT
33039652 CCACGTCAGCAT
1 CCACGTCAGCAT
33039664 -CACGTCAGC
1 CCACGTCAGC
33039673 CATGTGACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.15
Consensus pattern (12 bp):
CCACGTCAGCAT
Found at i:33039763 original size:16 final size:18
Alignment explanation
Indices: 33039727--33039764 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33039717 ACTCTTCTGT
*
33039727 TGCCCAAGGTCGTTCCTC
1 TGCCCAAGGTCCTTCCTC
33039745 TGCCCAAGG-CCTT-CTC
1 TGCCCAAGGTCCTTCCTC
33039761 TGCC
1 TGCC
33039765 GCCTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.11, C:0.42, G:0.21, T:0.26
Consensus pattern (18 bp):
TGCCCAAGGTCCTTCCTC
Found at i:33043501 original size:19 final size:18
Alignment explanation
Indices: 33043473--33043525 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
33043463 AATATATTTT
* *
33043473 TAAATCATAAAAAAATTA
1 TAAATTATAAAAAAATCA
33043491 TAAAATTATAATAAAAA-CA
1 T-AAATTATAA-AAAAATCA
*
33043510 TATATTATAAAAAAAT
1 TAAATTATAAAAAAAT
33043526 AAATTACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 10 0.34
20 5 0.17
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAATTATAAAAAAATCA
Found at i:33043645 original size:21 final size:22
Alignment explanation
Indices: 33043621--33043661 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
33043611 ATGCTATATA
33043621 TTATAAAAAAAA-TATAATTAT
1 TTATAAAAAAAATTATAATTAT
33043642 TTATAAAAAAAATTATAATT
1 TTATAAAAAAAATTATAATT
33043662 TTTTGTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTATAAAAAAAATTATAATTAT
Found at i:33054897 original size:32 final size:31
Alignment explanation
Indices: 33054861--33054927 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
33054851 AAAAAAATAT
*
33054861 AAATAGATA-AGAAAATTA-TAGAAAACTATTAA
1 AAATAGATACA-AAAATTATTA-AAAA-TATAAA
*
33054893 AAATATATACAAAAATTATTAAAAATATAAA
1 AAATAGATACAAAAATTATTAAAAATATAAA
33054924 AAAT
1 AAAT
33054928 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 9 0.29
32 19 0.61
33 3 0.10
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (31 bp):
AAATAGATACAAAAATTATTAAAAATATAAA
Found at i:33054926 original size:10 final size:10
Alignment explanation
Indices: 33054774--33054926 Score: 53
Period size: 10 Copynumber: 14.9 Consensus size: 10
33054764 TAATAATAAT
33054774 TATAAAAAAA
1 TATAAAAAAA
* * *
33054784 TCTAGAAAAT
1 TATAAAAAAA
*
33054794 TTTAAAAAAA
1 TATAAAAAAA
33054804 T-TAAAAAACA
1 TATAAAAAA-A
33054814 TATAAATAAAA
1 TATAAA-AAAA
*
33054825 TATTTAAAATTAA
1 TA--TAAAA-AAA
**
33054838 T-TAAAAATT
1 TATAAAAAAA
*
33054847 TAGAAAAAAAA
1 TA-TAAAAAAA
* *
33054858 TATAAATAGA
1 TATAAAAAAA
* *
33054868 TA-AGAAAAT
1 TATAAAAAAA
* *
33054877 TATAGAAAAC
1 TATAAAAAAA
*
33054887 TATTAAAAATA
1 TA-TAAAAAAA
*
33054898 TATACAAAAA
1 TATAAAAAAA
*
33054908 T-TATTAAAAA
1 TATA-AAAAAA
33054918 TATAAAAAA
1 TATAAAAAA
33054927 TTCAATTTTT
Statistics
Matches: 103, Mismatches: 28, Indels: 24
0.66 0.18 0.15
Matches are distributed among these distances:
9 15 0.15
10 54 0.52
11 23 0.22
12 4 0.04
13 7 0.07
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:33055036 original size:20 final size:20
Alignment explanation
Indices: 33055011--33055068 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
33055001 AAAAATGTAG
33055011 AAATATATAAATTTTATTAA
1 AAATATATAAATTTTATTAA
33055031 AAATAT-TAAAATTTTATTAA
1 AAATATAT-AAATTTTATTAA
* * *
33055051 AAACATAAAAATTATATT
1 AAATATATAAATTTTATT
33055069 TTTTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATATAAATTTTATTAA
Found at i:33057235 original size:6 final size:6
Alignment explanation
Indices: 33057190--33057218 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
33057180 TTCATTTAGG
33057190 TTTATT TTTATT TTT-TT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
33057219 GTTGGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTATT
Found at i:33060296 original size:16 final size:16
Alignment explanation
Indices: 33060277--33060309 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33060267 AATCATAAAT
33060277 ATAAATAAACATGAAA
1 ATAAATAAACATGAAA
*
33060293 ATAAATAAAGATGAAA
1 ATAAATAAACATGAAA
33060309 A
1 A
33060310 AAGAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.18
Consensus pattern (16 bp):
ATAAATAAACATGAAA
Found at i:33060316 original size:17 final size:16
Alignment explanation
Indices: 33060279--33060318 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
33060269 TCATAAATAT
*
33060279 AAATAAACATGAAAAT
1 AAATAAACATGAAAAA
*
33060295 AAATAAAGATGAAAAA
1 AAATAAACATGAAAAA
33060311 AGAATAAA
1 A-AATAAA
33060319 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (16 bp):
AAATAAACATGAAAAA
Found at i:33061139 original size:31 final size:32
Alignment explanation
Indices: 33061081--33061140 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
33061071 CTATTTTTAA
*
33061081 AAAAAAATCAAAACTTTTATTTCAAAATTGTT
1 AAAAAAATCAAAACTTTTATTTAAAAATTGTT
*
33061113 AAAAAAATCAAAAC-TTTGTTTAAAAATT
1 AAAAAAATCAAAACTTTTATTTAAAAATT
33061141 TGAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAAAAATCAAAACTTTTATTTAAAAATTGTT
Found at i:33061201 original size:149 final size:147
Alignment explanation
Indices: 33061023--33061422 Score: 483
Period size: 149 Copynumber: 2.7 Consensus size: 147
33061013 TTTTTATAAC
* * * *
33061023 AGATTTTTA-TTTTAAAATTTTAAATTTTCTTATTTTTAAAGAAAATCACTATTTTTAAAAAAAA
1 AGATTTTTATTTTTAAAA-TCTAAACTTTCTT-TTTTTAAAGAAAATAACTATTTTT---TAAAA
* * *
33061087 ATCAAAACTTTTATTTCAAAATTGTT-AAAAAAATCAAAACTTTGTTTAAAAATTTGAATTTTTT
61 ATCAAAACTTTTATTTCGAAATTGTTAAAAAAAATCAAAACTTTATTTAAAAATTTGAAATTTTT
*
33061151 TCTTTAAAATGACTAAAAA-AT
126 TCTTTAAAATAACTAAAAACAT
* *
33061172 AGATTTTTATTTTTTAAATCTAAACTTTCTTTTTTTTAAAGAAAATTACTATTTTCCTTAAAAAT
1 AGATTTTTATTTTTAAAATCTAAACTTTC-TTTTTTTAAAGAAAATAACTATTTT--TTAAAAAT
* * * *
33061237 CTAAATTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTTTAAATTTTTTC
63 CAAAACTTTTATTTCGAAATTGTTAAAAAAAATCAAAACTTTATTTAAAAATTTGAAATTTTTTC
33061302 TTTAAAATAACTAAAAACAT
128 TTTAAAATAACTAAAAACAT
* * *
33061322 --ATCTTCATTTTTAAAAATCTAAAC--T-TTTTTTTAAAGAAAATAACTATTTTCTTAGAAATC
1 AGATTTTTATTTTT-AAAATCTAAACTTTCTTTTTTTAAAGAAAATAACTATTTT-TTAAAAATC
* *
33061382 CAAACTTTTATTTCGAAATTATTAAAAAAAATCAAAACTTT
64 AAAACTTTTATTTCGAAATTGTTAAAAAAAATCAAAACTTT
33061423 TTCCAAGATC
Statistics
Matches: 222, Mismatches: 22, Indels: 19
0.84 0.08 0.07
Matches are distributed among these distances:
144 46 0.21
145 24 0.11
147 1 0.00
148 36 0.16
149 103 0.46
150 11 0.05
151 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (147 bp):
AGATTTTTATTTTTAAAATCTAAACTTTCTTTTTTTAAAGAAAATAACTATTTTTTAAAAATCAA
AACTTTTATTTCGAAATTGTTAAAAAAAATCAAAACTTTATTTAAAAATTTGAAATTTTTTCTTT
AAAATAACTAAAAACAT
Found at i:33061867 original size:13 final size:13
Alignment explanation
Indices: 33061849--33061883 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33061839 AAACCCTAAA
*
33061849 AATAATAAAATTT
1 AATAATAAAATAT
*
33061862 AATAATAATATAT
1 AATAATAAAATAT
33061875 AATAATAAA
1 AATAATAAA
33061884 TAATAACAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATAATAAAATAT
Found at i:33061899 original size:9 final size:9
Alignment explanation
Indices: 33061885--33061919 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
33061875 AATAATAAAT
33061885 AATAACAAC
1 AATAACAAC
33061894 AATAACAAC
1 AATAACAAC
*
33061903 AACAACAAC
1 AATAACAAC
33061912 AATAACAA
1 AATAACAA
33061920 TAATTGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (9 bp):
AATAACAAC
Found at i:33063180 original size:42 final size:42
Alignment explanation
Indices: 33063029--33063224 Score: 191
Period size: 42 Copynumber: 4.6 Consensus size: 42
33063019 GGATTACTTG
* * * * * *
33063029 ATGTATAAATGGAAGACTCGTGTCTTGGGATGAGCATGAGAGT
1 ATGTTTAAA-GGAAGACTCGTGACTCGGAAAGAGCATGAGATT
* * * * *
33063072 AT-ATTAAAAGAAGACTCAT-ATCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCGTGA-CTCGGAAAGAGCATGAGATT
33063113 ATGTTTAAAAGGAAGACTCGTGACTCGGAAAGAGCATGAGATT
1 ATGTTT-AAAGGAAGACTCGTGACTCGGAAAGAGCATGAGATT
* **
33063156 ATGTTTTAAGGAAGACTCGTGACTC-GAAAGGAGCACAAGATT
1 ATGTTTAAAGGAAGACTCGTGACTCGGAAA-GAGCATGAGATT
* *
33063198 ATGTTTTAAGGAAGACTCGTGAATCGG
1 ATGTTTAAAGGAAGACTCGTGACTCGG
33063225 GATGAACATA
Statistics
Matches: 131, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
41 33 0.25
42 58 0.44
43 39 0.30
44 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCGTGACTCGGAAAGAGCATGAGATT
Found at i:33063263 original size:84 final size:85
Alignment explanation
Indices: 33063108--33063263 Score: 190
Period size: 84 Copynumber: 1.8 Consensus size: 85
33063098 GATGAGCATG
* * * ** *
33063108 AGATTATGTTTAAAAGGAAGACTCGTGACTCGGAAAGAGCATGAGATTATGTTTTAAGGAAGACT
1 AGATTATGTTTAAAAGGAAGACTCGTGAATCGGAAAGAACATAAGATTACATTTAAAGGAAGACT
*
33063173 CGTGACTCGAAAGGAGCACA
66 CATGACTCGAAAGGAGCACA
* * *
33063193 AGATTATGTTT-TAAGGAAGACTCGTGAATCGGGATGAACATAA-AGTTACATTTAAAGGAAGAC
1 AGATTATGTTTAAAAGGAAGACTCGTGAATCGGAAAGAACATAAGA-TTACATTTAAAGGAAGAC
*
33063256 TTATGACT
65 TCATGACT
33063264 TGGTTATTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 1 0.02
84 47 0.80
85 11 0.19
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (85 bp):
AGATTATGTTTAAAAGGAAGACTCGTGAATCGGAAAGAACATAAGATTACATTTAAAGGAAGACT
CATGACTCGAAAGGAGCACA
Found at i:33065012 original size:59 final size:58
Alignment explanation
Indices: 33064927--33065059 Score: 144
Period size: 59 Copynumber: 2.3 Consensus size: 58
33064917 AGTTTTGGCT
* * *
33064927 CCTAAACTTTCCAAAAATTCAAATTTAACCCT-CAAACTTTCTAAAAATTTCATTTTGACC
1 CCTAAACTTT-CTAAAATTCAAATTTAA-CCTACAAACTTTCTAAAAATTGCATTTT-AAC
* * * * *
33064987 GCCTGAACTTTCTAAAATT-ACATTTAACCTATAAACTTTTTGAAAATTGCATTTTAAC
1 -CCTAAACTTTCTAAAATTCAAATTTAACCTACAAACTTTCTAAAAATTGCATTTTAAC
33065045 CCTAAACTTTCTAAA
1 CCTAAACTTTCTAAA
33065060 TTTTAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
57 14 0.23
58 5 0.08
59 27 0.44
60 7 0.11
61 9 0.15
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.37
Consensus pattern (58 bp):
CCTAAACTTTCTAAAATTCAAATTTAACCTACAAACTTTCTAAAAATTGCATTTTAAC
Found at i:33065044 original size:30 final size:27
Alignment explanation
Indices: 33064929--33065059 Score: 82
Period size: 30 Copynumber: 4.5 Consensus size: 27
33064919 TTTTGGCTCC
* * *
33064929 TAAACTTTCCAAAAATTCAAATTTAACCC
1 TAAACTTT-CTAAAATT-ACATTTAACCA
* * *
33064958 TCAAACTTTCTAAAAATTTCATTTTGACCGCC
1 T-AAACTTTCT-AAAATTACA-TTT-AAC-CA
*
33064990 TGAACTTTCTAAAATTACATTTAACCTA
1 TAAACTTTCTAAAATTACATTTAACC-A
* * *
33065018 TAAACTTTTTGAAAATTGCATTTTAACCC
1 TAAACTTTCT-AAAATTACA-TTTAACCA
33065047 TAAACTTTCTAAA
1 TAAACTTTCTAAA
33065060 TTTTAATTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 13 0.16
29 23 0.28
30 31 0.38
31 10 0.12
32 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (27 bp):
TAAACTTTCTAAAATTACATTTAACCA
Found at i:33065102 original size:16 final size:16
Alignment explanation
Indices: 33065059--33065095 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
33065049 AACTTTCTAA
33065059 ATTTTAATTTTACCCC
1 ATTTTAATTTTACCCC
33065075 ATTTTAATTTTACCCC
1 ATTTTAATTTTACCCC
33065091 ATTTT
1 ATTTT
33065096 CCTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTTTACCCC
Found at i:33068675 original size:11 final size:11
Alignment explanation
Indices: 33068654--33068684 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33068644 ATGCATACAT
33068654 GCATT-CATTA
1 GCATTGCATTA
33068664 GCATTGCATTA
1 GCATTGCATTA
33068675 GCATTGCATT
1 GCATTGCATT
33068685 TTATTACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (11 bp):
GCATTGCATTA
Found at i:33069677 original size:13 final size:13
Alignment explanation
Indices: 33069656--33069703 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
33069646 ACATCTTTTT
33069656 AAAAA-AAAAAAG
1 AAAAAGAAAAAAG
33069668 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
33069681 AAAAGAGAAGAAAA-
1 AAAA-AGAA-AAAAG
33069695 AAAGAAGAA
1 AAA-AAGAA
33069704 GGTCAAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.16
13 11 0.34
14 11 0.34
15 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:33069700 original size:18 final size:17
Alignment explanation
Indices: 33069656--33069697 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
33069646 ACATCTTTTT
33069656 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAG-AAAAG
* *
33069674 AAAAAAGAAAAGAGAAG
1 AAAAAAAAAAAGAAAAG
33069691 AAAAAAA
1 AAAAAAA
33069698 GAAGAAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAG
Found at i:33070601 original size:21 final size:21
Alignment explanation
Indices: 33070576--33070628 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
33070566 CCCAAAACAT
*
33070576 AAAAAGAGAAAGAAAGAAAAAA
1 AAAAAAAGAAA-AAAGAAAAAA
33070598 AAAAAAAGAAAAAAGAAAAGAA
1 AAAAAAAGAAAAAAGAAAA-AA
33070620 AAGAAAAAG
1 AA-AAAAAG
33070629 GAGAGGTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.29
22 14 0.50
23 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAAGAAAAAA
Found at i:33071095 original size:112 final size:112
Alignment explanation
Indices: 33070940--33071152 Score: 354
Period size: 112 Copynumber: 1.9 Consensus size: 112
33070930 TTTGTCATTG
* * * * *
33070940 TTAATCTTTTCATTCATGTGAGCTTTGCCTCCAATAATATTCAATTTTATCCACCTTACAACCCT
1 TTAATCTTTTCAATCATGCGAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAACCCT
* *
33071005 GTTCAAGCATTCTTGCATTGAAATGACGGTTAGTGGACTACTAATTT
66 GTTCAAACATTCTTGCATTGAAATAACGGTTAGTGGACTACTAATTT
33071052 TTAATCTTTTCAATCATGCGAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAACCCT
1 TTAATCTTTTCAATCATGCGAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAACCCT
*
33071117 GTTCAAACATTTTTGCATTGAAATAACGGTTAGTGG
66 GTTCAAACATTCTTGCATTGAAATAACGGTTAGTGG
33071153 TCTAACGATA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (112 bp):
TTAATCTTTTCAATCATGCGAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAACCCT
GTTCAAACATTCTTGCATTGAAATAACGGTTAGTGGACTACTAATTT
Found at i:33074112 original size:49 final size:49
Alignment explanation
Indices: 33074010--33074344 Score: 246
Period size: 49 Copynumber: 6.9 Consensus size: 49
33074000 ATAGGTTTCA
* ** * * * **
33074010 AGGG-AAGGTTGAAGTCGCAACGGTGAACCTTATACCTTAGAGACGT-G
1 AGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
* * *
33074057 ATGGGAAAGATTGAAGCCGCAACGACGAATCTAGTACCATGGAGATATGG
1 A-GGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
* * * * * * *
33074107 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAAAAT-A
1 AGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
** * * *
33074155 ATGGGAAATTTTGAAGCCGTAACGACGAATCTTGTATCATAAAGATATGG
1 A-GGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
* * * * * * * **
33074205 AGGGAAAGGTTGAAGCCGTAATGGCAAACCTTGTACCTTATAGACGT-G
1 AGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
* * *
33074253 ATGGGAAAGATTAAAGCCGTAACGACGAATCTTGTACCATAGAGATATGG
1 A-GGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
* * * * * *
33074303 AGAGAAAGGTTAAAGCCGCAATGGCGAACCTTGTACCTTAGA
1 AGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGA
33074345 ATGGGAAAGA
Statistics
Matches: 220, Mismatches: 61, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
47 1 0.00
48 6 0.03
49 208 0.95
50 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (49 bp):
AGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCATAGAGATATGG
Found at i:33074183 original size:98 final size:98
Alignment explanation
Indices: 33074010--33074345 Score: 449
Period size: 98 Copynumber: 3.4 Consensus size: 98
33074000 ATAGGTTTCA
* * *
33074010 AGGG-AAGGTTGAAGTCGCAACGGTGAACCTTATACCTTAGAGACGTGATGGGAAAGATTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAACGTGATGGGAAAGATTGAAGC
* * *
33074074 CGCAACGACGAATCTAGTACCATGGAGATATGG
66 CGTAACGACGAATCTTGTACCATAGAGATATGG
** * **
33074107 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAAAATAATGGGAAATTTTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAACGTGATGGGAAAGATTGAAGC
* *
33074172 CGTAACGACGAATCTTGTATCATAAAGATATGG
66 CGTAACGACGAATCTTGTACCATAGAGATATGG
* * * * * * *
33074205 AGGGAAAGGTTGAAGCCGTAATGGCAAACCTTGTACCTTATAGACGTGATGGGAAAGATTAAAGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAACGTGATGGGAAAGATTGAAGC
33074270 CGTAACGACGAATCTTGTACCATAGAGATATGG
66 CGTAACGACGAATCTTGTACCATAGAGATATGG
* * * *
33074303 AGAGAAAGGTTAAAGCCGCAATGGCGAACCTTGTACCTTAGAA
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAA
33074346 TGGGAAAGAT
Statistics
Matches: 205, Mismatches: 33, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
97 4 0.02
98 201 0.98
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (98 bp):
AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAAACGTGATGGGAAAGATTGAAGC
CGTAACGACGAATCTTGTACCATAGAGATATGG
Found at i:33074726 original size:46 final size:46
Alignment explanation
Indices: 33074655--33074844 Score: 258
Period size: 46 Copynumber: 4.2 Consensus size: 46
33074645 AAAGTTACAT
*
33074655 CACCATCCAATCTTTTACCCATAAGTCAAGAGGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGC
33074701 CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCTA-ATTGAAGC
1 CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGC-AGATTGAAGC
* * *
33074747 CATCATCCAATCTTTTACCCCTAA-TCAAGAAGGGCACATTGAAGC
1 CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGC
** * * * *
33074792 CACTGTTCGATCTTTTACCGCTAAATCAAGAGGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGC
*
33074838 TACCATC
1 CACCATC
33074845 TCACAGAAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 36 0.29
46 88 0.70
47 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (46 bp):
CACCATCCAATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGC
Found at i:33074821 original size:91 final size:92
Alignment explanation
Indices: 33074658--33074837 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 92
33074648 GTTACATCAC
* *
33074658 CATCCAATCTTTTACCCATAAGTCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCT
1 CATCCAATCTTTTACCCATAAGTCAAGAAGGGCACATTGAAGCCACCATCCAATCTTTTACCCCT
*
33074723 AAGTCAAGAGGGGCTA-ATTGAAGCCAT
66 AAATCAAGAGGGGC-AGATTGAAGCCAT
* ** * * *
33074750 CATCCAATCTTTTACCCCTAA-TCAAGAAGGGCACATTGAAGCCACTGTTCGATCTTTTACCGCT
1 CATCCAATCTTTTACCCATAAGTCAAGAAGGGCACATTGAAGCCACCATCCAATCTTTTACCCCT
33074814 AAATCAAGAGGGGCAGATTGAAGC
66 AAATCAAGAGGGGCAGATTGAAGC
33074838 TACCATCTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 57 0.73
92 20 0.26
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (92 bp):
CATCCAATCTTTTACCCATAAGTCAAGAAGGGCACATTGAAGCCACCATCCAATCTTTTACCCCT
AAATCAAGAGGGGCAGATTGAAGCCAT
Found at i:33075298 original size:20 final size:19
Alignment explanation
Indices: 33075270--33075322 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
33075260 TCATCTGACC
*
33075270 CAAAATAAAACAAACCAAAA
1 CAAAATAAAA-AAAACAAAA
*
33075290 CAAACTAAAAAAAACAAAAA
1 CAAAATAAAAAAAAC-AAAA
*
33075310 TAAAAATAAAAAA
1 -CAAAATAAAAAA
33075323 TCAAAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.08
Consensus pattern (19 bp):
CAAAATAAAAAAAACAAAA
Found at i:33076666 original size:31 final size:30
Alignment explanation
Indices: 33076596--33076796 Score: 167
Period size: 30 Copynumber: 6.7 Consensus size: 30
33076586 TTCGACTCCC
* * * * *
33076596 AAAC-TTCCAAAAATTTAAATTTGACCCCT
1 AAACTTTCTAAAAATTTCATTTTAACCTCT
*
33076625 AAA-TTTCTAAAAAATTTCATTTTAGCCTCT
1 AAACTTTCT-AAAAATTTCATTTTAACCTCT
* *
33076655 AAACTTTCTAAAAGTTTCATTTTGACC-CT
1 AAACTTTCTAAAAATTTCATTTTAACCTCT
*
33076684 CAAACTTTCTAAAAATTTCATTTTAACCCCT
1 -AAACTTTCTAAAAATTTCATTTTAACCTCT
* * * * *
33076715 AAAGTTTTTGAAAATTACATTTTAACCTCC
1 AAACTTTCTAAAAATTTCATTTTAACCTCT
* * *
33076745 AATACTTTCTAAAAATTACA-TTTGACCCCT
1 AA-ACTTTCTAAAAATTTCATTTTAACCTCT
* * *
33076775 AAACTTTCCAAAATTTTAATTT
1 AAACTTTCTAAAAATTTCATTT
33076797 ACCCTATTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
29 21 0.15
30 96 0.70
31 21 0.15
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (30 bp):
AAACTTTCTAAAAATTTCATTTTAACCTCT
Found at i:33076698 original size:60 final size:58
Alignment explanation
Indices: 33076596--33076790 Score: 189
Period size: 60 Copynumber: 3.3 Consensus size: 58
33076586 TTCGACTCCC
* * * * *
33076596 AAACTTCCAAAAATTTAAATTTGACCC-CTAAA-TTTCTAAAAAATTTCATTTTAGCCTCT
1 AAACTTTCTAAAATTTCATTTTGACCCTC-AAACTTTCT-AAAAATTTCATTTTA-CCCCT
33076655 AAACTTTCTAAAAGTTTCATTTTGACCCTCAAACTTTCTAAAAATTTCATTTTAACCCCT
1 AAACTTTCTAAAA-TTTCATTTTGACCCTCAAACTTTCTAAAAATTTCATTTT-ACCCCT
* * * * * *
33076715 AAAGTTTTTGAAAATTACATTTT-AACCTCCAATACTTTCTAAAAATTACATTTGACCCCT
1 AAACTTTCT-AAAATTTCATTTTGACCCT-CAA-ACTTTCTAAAAATTTCATTTTACCCCT
*
33076775 AAACTTTCCAAAATTT
1 AAACTTTCTAAAATTT
33076791 TAATTTACCC
Statistics
Matches: 114, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
59 21 0.18
60 63 0.55
61 30 0.26
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (58 bp):
AAACTTTCTAAAATTTCATTTTGACCCTCAAACTTTCTAAAAATTTCATTTTACCCCT
Found at i:33076716 original size:90 final size:89
Alignment explanation
Indices: 33076593--33076796 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 89
33076583 TGTTTCGACT
* * * * *
33076593 CCCAAAC-TTCCAAAAATTTAAATTTGACCCCTAAA-TTTCTAAAAAATTTCATTTTAGCCTCTA
1 CCCAAACTTTCCAAAAATTTAATTTTAACCCCTAAAGTTT-TAAAAAATTACATTTTAACCTCCA
* *
33076656 A-ACTTTCTAAAAGTTTCATTTTGAC
65 ATACTTTCTAAAAATTACA-TTTGAC
* * **
33076681 CCTCAAACTTTCTAAAAATTTCATTTTAACCCCTAAAGTTTTTGAAAATTACATTTTAACCTCCA
1 CC-CAAACTTTCCAAAAATTTAATTTTAACCCCTAAAGTTTTAAAAAATTACATTTTAACCTCCA
33076746 ATACTTTCTAAAAATTACATTTGAC
65 ATACTTTCTAAAAATTACATTTGAC
*
33076771 CCCTAAACTTTCCAAAATTTTAATTT
1 CCC-AAACTTTCCAAAAATTTAATTT
33076797 ACCCTATTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
88 2 0.02
89 6 0.06
90 71 0.73
91 18 0.19
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (89 bp):
CCCAAACTTTCCAAAAATTTAATTTTAACCCCTAAAGTTTTAAAAAATTACATTTTAACCTCCAA
TACTTTCTAAAAATTACATTTGAC
Found at i:33077407 original size:93 final size:92
Alignment explanation
Indices: 33077303--33077503 Score: 393
Period size: 93 Copynumber: 2.2 Consensus size: 92
33077293 TTTCCTAGTG
33077303 AAGGAAAAAGAGTACACATATCTATAATAGGCATAAAATGTTGCCTCATTAAAAACCTTACCAGG
1 AAGGAAAAAGAGTACACATATCTATAATAGGCATAAAATGTTGCCTCATTAAAAACCTTACCAGG
33077368 AAAACCCAATAGGACAAAACCTCGGTTA
66 AAAACCCAATAGGAC-AAACCTCGGTTA
33077396 AAGGAAAAAGAGTACACATATCTATAATAGGCATAAAATGTTGCCTCATTAAAAACCTTACCAGG
1 AAGGAAAAAGAGTACACATATCTATAATAGGCATAAAATGTTGCCTCATTAAAAACCTTACCAGG
33077461 AAAACCCAATAGGACAAACCTCGGTTA
66 AAAACCCAATAGGACAAACCTCGGTTA
33077488 AAGGAAAAAGAGTACA
1 AAGGAAAAAGAGTACA
33077504 ACGCGTATTT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 28 0.26
93 80 0.74
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.19
Consensus pattern (92 bp):
AAGGAAAAAGAGTACACATATCTATAATAGGCATAAAATGTTGCCTCATTAAAAACCTTACCAGG
AAAACCCAATAGGACAAACCTCGGTTA
Found at i:33079590 original size:17 final size:18
Alignment explanation
Indices: 33079560--33079593 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33079550 GCTTCAGAGA
*
33079560 ATATGCCAAGATCTTCAC
1 ATATGCCAAAATCTTCAC
33079578 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATCTTCA
33079594 GGTGCATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (18 bp):
ATATGCCAAAATCTTCAC
Found at i:33083039 original size:24 final size:23
Alignment explanation
Indices: 33083001--33083048 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
33082991 TAATTTAATT
33083001 TCACATTTTGCATTTTGATGTTAC
1 TCACATTTTGCATTTT-ATGTTAC
** *
33083025 TCACATTTTTTATTTTTTGTTAC
1 TCACATTTTGCATTTTATGTTAC
33083048 T
1 T
33083049 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (23 bp):
TCACATTTTGCATTTTATGTTAC
Found at i:33084258 original size:21 final size:21
Alignment explanation
Indices: 33084206--33084259 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
33084196 GGAATTTTTA
**
33084206 GTATCGGTAGAAGCATGTCTT
1 GTATCGGTAGAAGCAACTCTT
* ** *
33084227 GTTTCTATAGAAGTAACTCTT
1 GTATCGGTAGAAGCAACTCTT
33084248 GTATCGGTAGAA
1 GTATCGGTAGAA
33084260 CCATCTCAAC
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGCAACTCTT
Found at i:33086083 original size:27 final size:27
Alignment explanation
Indices: 33086029--33086083 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
33086019 AGCTCAGAAA
* * *
33086029 GTATGGTTTTCATGATGAACTTCGAAG
1 GTATGGTTTTCAAGATGAACTCCAAAG
33086056 GTATGGTTTTCAAGATGAACTCCAAAG
1 GTATGGTTTTCAAGATGAACTCCAAAG
33086083 G
1 G
33086084 AATCGTATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
GTATGGTTTTCAAGATGAACTCCAAAG
Found at i:33088288 original size:10 final size:11
Alignment explanation
Indices: 33088271--33088299 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
33088261 TATCTATATA
33088271 TCTCTTTTCTT
1 TCTCTTTTCTT
33088282 T-TCTTTTCTT
1 TCTCTTTTCTT
33088292 TCTCTTTT
1 TCTCTTTT
33088300 TTTATGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTCTTTTCTT
Found at i:33088997 original size:14 final size:14
Alignment explanation
Indices: 33088978--33089004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33088968 ACGACGGTTC
33088978 TTTTCTCCTCCTTT
1 TTTTCTCCTCCTTT
33088992 TTTTCTCCTCCTT
1 TTTTCTCCTCCTT
33089005 ATTACGCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCTCCTCCTTT
Found at i:33093275 original size:29 final size:29
Alignment explanation
Indices: 33093243--33093343 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 29
33093233 ACTCGATGGT
*
33093243 AAAATGGTAATTTTTAAAGGCTCGGGTTCA
1 AAAATGGTAATTTTTAAAGGTTCGGGTT-A
* ** **
33093273 AAAATGG-AATTTTTAGACATTCGAGG-GG
1 AAAATGGTAATTTTTAAAGGTTCG-GGTTA
33093301 AAAATGGTAATTTTTAGAAGGTTCGGGTTA
1 AAAATGGTAATTTTTA-AAGGTTCGGGTTA
33093331 AAAAT--TAATTTTT
1 AAAATGGTAATTTTT
33093344 TAGACATCCG
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
28 15 0.27
29 22 0.39
30 19 0.34
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAATGGTAATTTTTAAAGGTTCGGGTTA
Found at i:33093306 original size:58 final size:57
Alignment explanation
Indices: 33093225--33093549 Score: 305
Period size: 58 Copynumber: 5.6 Consensus size: 57
33093215 AAAACGGTAA
* * * *
33093225 TTTTGGACACTCGATGGTAAAATGGTAATTTTTAAAGGCTCGGGTTCAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAAAGGTTCGGGTT-AAAAATGGAAT
* *
33093283 TTTTAGACATTCGAGGGGAAAATGGTAATTTTTAGAAGGTTCGGGTTAAAAAT-TAATT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTA-AAGGTTCGGGTTAAAAATGGAA-T
* * * * *
33093341 TTTTAGACATCCGAGGGTAAAATGATAATTTTTGAAGTTTTAGGGTTAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAAAG-GTTCGGGTTAAAAATGGAAT
* * * * * *
33093399 TTTTGGACATCCGAGGGTACAATGGTAATTTTTGGAA-TTTTGAGGTTAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTT-AAAGGTTCG-GGTTAAAAATGGAAT
** * * * *
33093457 TTTTAGATGTTCGAGGGTAAAATGATAATTTTTGAAAGTTTCAAGGTTAAAAGTGGAA-
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTT-AAAGGTTC-GGGTTAAAAATGGAAT
* * * *
33093515 TTTTGGAAAGTTTGAGGGTAAAATGGTGATTTTTA
1 TTTTAGACA-TTCGAGGGTAAAATGGTAATTTTTA
33093550 GAAAAATCGA
Statistics
Matches: 225, Mismatches: 33, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
57 9 0.04
58 163 0.72
59 53 0.24
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (57 bp):
TTTTAGACATTCGAGGGTAAAATGGTAATTTTTAAAGGTTCGGGTTAAAAATGGAAT
Found at i:33093372 original size:29 final size:28
Alignment explanation
Indices: 33093280--33093489 Score: 117
Period size: 29 Copynumber: 7.2 Consensus size: 28
33093270 TCAAAAATGG
* *
33093280 AATTTTTAGACATTCGAGGGGAAAATGGT
1 AATTTTTAGA-ATTCGAGGGTAAAATGAT
*
33093309 AATTTTTAGAAGGTTCG-GGTTAAAA--ATT
1 AATTTTTAGAA--TTCGAGGGTAAAATGA-T
*
33093337 AATTTTTTAGACATCCGAGGGTAAAATGAT
1 AA-TTTTTAGA-ATTCGAGGGTAAAATGAT
** *
33093367 AATTTTT-GAAGTTTTAGGGTTAAAAATG-G
1 AATTTTTAGAA-TTCGAGGG-T-AAAATGAT
* * * *
33093396 AATTTTTGGACATCCGAGGGTACAATGGT
1 AATTTTTAGA-ATTCGAGGGTAAAATGAT
* * * *
33093425 AATTTTTGGAATTTTGAGGTTAAAAATG-G
1 AATTTTTAGAA-TTCGAGGGT-AAAATGAT
*
33093454 AATTTTTAGATGTTCGAGGGTAAAATGAT
1 AATTTTTAGA-ATTCGAGGGTAAAATGAT
33093483 AATTTTT
1 AATTTTT
33093490 GAAAGTTTCA
Statistics
Matches: 139, Mismatches: 24, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
27 1 0.01
28 26 0.19
29 84 0.60
30 26 0.19
31 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (28 bp):
AATTTTTAGAATTCGAGGGTAAAATGAT
Found at i:33093392 original size:116 final size:116
Alignment explanation
Indices: 33093240--33093577 Score: 360
Period size: 116 Copynumber: 2.9 Consensus size: 116
33093230 GACACTCGAT
* * ** * * *
33093240 GGTAAAATGGTAATTTTTAAAG-GCTCGGGTTCAAAAATGGAATTTTTAGACATTCGAGGGGAAA
1 GGTAAAATGATAATTTTTGAAGTTTTAGGGTT-AAAAATGGAATTTTTGGACATTCGAGGGTAAA
*
33093304 ATGGTAATTTTTAGAAGGTTCG-GGTTAAAAAT-TAATTTTTTAGACATCCGAG
65 ATGGTAATTTTTAGAA-GTTCGAGGTTAAAAATGGAA-TTTTTAGACATCCGAG
* *
33093356 GGTAAAATGATAATTTTTGAAGTTTTAGGGTTAAAAATGGAATTTTTGGACATCCGAGGGTACAA
1 GGTAAAATGATAATTTTTGAAGTTTTAGGGTTAAAAATGGAATTTTTGGACATTCGAGGGTAAAA
* * * ** *
33093421 TGGTAATTTTTGGAATTTTGAGGTTAAAAATGGAATTTTTAGATGTTCGAG
66 TGGTAATTTTTAGAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCGAG
* * * * *
33093472 GGTAAAATGATAATTTTTGAAAGTTTCAAGGTTAAAAGTGGAA-TTTTGGAAAGTTTGAGGGTAA
1 GGTAAAATGATAATTTTTG-AAGTTTTAGGGTTAAAAATGGAATTTTTGGACA-TTCGAGGGTAA
* ** * *
33093536 AATGGTGATTTTTAGAAAAATCGAGGTCAAAAATAGAATTTT
64 AATGGTAATTTTTAG-AAGTTCGAGGTTAAAAATGGAATTTT
33093578 GAAAAGTTCG
Statistics
Matches: 186, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
115 3 0.02
116 113 0.61
117 49 0.26
118 21 0.11
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (116 bp):
GGTAAAATGATAATTTTTGAAGTTTTAGGGTTAAAAATGGAATTTTTGGACATTCGAGGGTAAAA
TGGTAATTTTTAGAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCGAG
Found at i:33093536 original size:29 final size:28
Alignment explanation
Indices: 33093353--33093540 Score: 105
Period size: 29 Copynumber: 6.5 Consensus size: 28
33093343 TTAGACATCC
* *
33093353 GAGGGTAAAATGATAATTTTTG-AAGTTT
1 GAGGGTAAAATG-GAATTTTGGAAAGTTT
* * **
33093381 TAGGGTTAAAAATGGAATTTTTGGACA-TCC
1 GAGGG-T-AAAATGGAA-TTTTGGAAAGTTT
* *
33093411 GAGGGTACAATGGTAATTTTTGG-AATTTT
1 GAGGGTAAAATGG-AA-TTTTGGAAAGTTT
* * * *
33093440 GAGGTTAAAAATGGAATTTT-TAGATGTTC
1 GAGGGT-AAAATGGAATTTTGGA-AAGTTT
* *
33093469 GAGGGTAAAATGATAATTTTTGAAAGTTT
1 GAGGGTAAAATG-GAATTTTGGAAAGTTT
* *
33093498 CAAGGTTAAAAGTGGAATTTTGGAAAGTTT
1 -GAGGGTAAAA-TGGAATTTTGGAAAGTTT
33093528 GAGGGTAAAATGG
1 GAGGGTAAAATGG
33093541 TGATTTTTAG
Statistics
Matches: 119, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
28 24 0.20
29 47 0.39
30 45 0.38
31 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (28 bp):
GAGGGTAAAATGGAATTTTGGAAAGTTT
Found at i:33093546 original size:29 final size:30
Alignment explanation
Indices: 33093352--33093613 Score: 110
Period size: 30 Copynumber: 9.0 Consensus size: 30
33093342 TTTAGACATC
* *
33093352 CGAGGGTAAAATGATAATTTTTG-AAGTTT
1 CGAGGGTAAAATGGTAATTTTGGAAAGTTT
* * *
33093381 -TAGGGTTAAAAATGG-AATTTTTGGACA--TC
1 CGAGGG-T-AAAATGGTAA-TTTTGGAAAGTTT
*
33093410 CGAGGGTACAATGGTAATTTTTGG-AA-TTT
1 CGAGGGTAAAATGGTAA-TTTTGGAAAGTTT
* * * *
33093439 TGAGGTTAAAAATGG-AATTTT-TAGA-TGTT
1 CGAGGGT-AAAATGGTAATTTTGGAAAGT-TT
* *
33093468 CGAGGGTAAAATGATAATTTTTGAAAGTTT
1 CGAGGGTAAAATGGTAATTTTGGAAAGTTT
* *
33093498 CAAGGTTAAAAGTGG-AATTTTGGAAAGTTT
1 CGAGGGTAAAA-TGGTAATTTTGGAAAGTTT
* * **
33093528 -GAGGGTAAAATGGTGATTTTTAGAAA-AAT
1 CGAGGGTAAAATGGT-AATTTTGGAAAGTTT
* *
33093557 CGA-GGTCAAAAATAG-AATTTTGAAAAG-TT
1 CGAGGGT--AAAATGGTAATTTTGGAAAGTTT
* *
33093586 CGGGGGTAAAATGGT--TTTTGGACAGTTT
1 CGAGGGTAAAATGGTAATTTTGGAAAGTTT
33093614 AAGGACTTAC
Statistics
Matches: 172, Mismatches: 38, Indels: 47
0.67 0.15 0.18
Matches are distributed among these distances:
27 8 0.05
28 34 0.20
29 58 0.34
30 62 0.36
31 10 0.06
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
CGAGGGTAAAATGGTAATTTTGGAAAGTTT
Found at i:33094778 original size:15 final size:15
Alignment explanation
Indices: 33094758--33094792 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33094748 TTATTACCGT
33094758 TTATTATTAT-ATTTA
1 TTATTATTATCA-TTA
33094773 TTATTATTATCATTA
1 TTATTATTATCATTA
33094788 TTATT
1 TTATT
33094793 GCTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATTATCATTA
Found at i:33095469 original size:17 final size:18
Alignment explanation
Indices: 33095439--33095477 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
33095429 ATAACAATTT
33095439 TAAATTTGAAAATAAATC
1 TAAATTTGAAAATAAATC
*
33095457 TAAATTT-AAAATAAATT
1 TAAATTTGAAAATAAATC
33095474 TAAA
1 TAAA
33095478 AGGGGCTCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAATTTGAAAATAAATC
Done.