Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 43
Found at i:6264302 original size:14 final size:14
Alignment explanation
Indices: 6264242--6264303 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
6264232 GCACAATAAG
*
6264242 AATTATTTACACATC
1 AATT-TTTACAAATC
**
6264257 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
6264272 AACTTTTACAAATC
1 AATTTTTACAAATC
*
6264286 AATTTTTATAAATC
1 AATTTTTACAAATC
6264300 AATT
1 AATT
6264304 AAACAAGAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:6266299 original size:18 final size:19
Alignment explanation
Indices: 6266276--6266320 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
6266266 GAAACTTAAA
6266276 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
**
6266294 ATCGCAATGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
6266314 ATCGCAA
1 ATCGCAA
6266321 TTAGCAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:6266382 original size:18 final size:18
Alignment explanation
Indices: 6266359--6266408 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
6266349 TTTACTAAGC
6266359 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
6266377 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
6266395 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
6266409 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:6268817 original size:20 final size:20
Alignment explanation
Indices: 6268787--6268940 Score: 193
Period size: 20 Copynumber: 7.7 Consensus size: 20
6268777 GTGCTTTGAA
6268787 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
6268807 CATCGCTTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAG
*
6268827 AATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
6268847 AATCTCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
*
6268867 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* *
6268887 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* *
6268907 ATTCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
6268927 AATCGCATTGCGAT
1 AATCGCATTGCGAT
6268941 TTACATATTC
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 116 0.98
21 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:6268940 original size:40 final size:40
Alignment explanation
Indices: 6268787--6269022 Score: 208
Period size: 40 Copynumber: 5.8 Consensus size: 40
6268777 GTGCTTTGAA
* * **
6268787 AATCGCATTGCGATAGTCAGCATCGCTTTGCGACAGT-CAG
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGA-TTTACAG
* * * *
6268827 AATCGCGTTGCGATAGTCAGAATCTCGTTGCGATAGT-CAG
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGAT-TTACAG
* *
6268867 AATCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGATTTACAG
* * *
6268907 ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGATTTACAG
* * * * * *
6268947 ATTCTCATTGCGATAGTCGGAAAATCGCAACT-CGAATTTAGAA
1 AATCGCATTGCGATAGTC--AGAATCGC-ATTGCG-ATTTACAG
* *
6268990 AATCGCAATGCGATAGTCAGAATCGCGTTGCGA
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGA
6269023 ATCTGGAAAC
Statistics
Matches: 166, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 124 0.75
41 9 0.05
42 9 0.05
43 23 0.14
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCGCATTGCGATTTACAG
Found at i:6268947 original size:20 final size:20
Alignment explanation
Indices: 6268787--6268964 Score: 189
Period size: 20 Copynumber: 8.9 Consensus size: 20
6268777 GTGCTTTGAA
*
6268787 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
* * * *
6268807 CATCGCTTTGCGACAGTCAG
1 AATCGCATTGCGATAGTCAT
* *
6268827 AATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
* * *
6268847 AATCTCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAT
6268867 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
6268887 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
*
6268907 ATTCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAT
*
6268927 AATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAT
* *
6268947 ATTCTCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
6268965 GGAAAATCGC
Statistics
Matches: 136, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.01
20 132 0.97
21 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAT
Found at i:6271726 original size:20 final size:20
Alignment explanation
Indices: 6271701--6271738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6271691 CCCTATCCAA
*
6271701 CTTAACTTCTAATTATAACC
1 CTTAACATCTAATTATAACC
*
6271721 CTTAACATCTATTTATAA
1 CTTAACATCTAATTATAA
6271739 AAACTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (20 bp):
CTTAACATCTAATTATAACC
Found at i:6273055 original size:17 final size:16
Alignment explanation
Indices: 6273023--6273056 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6273013 AACAAATATG
*
6273023 TTAATTATATTATAAA
1 TTAATTATAATATAAA
6273039 TTAATTAATAATATAAA
1 TTAATT-ATAATATAAA
6273056 T
1 T
6273057 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATTATAATATAAA
Found at i:6280781 original size:14 final size:14
Alignment explanation
Indices: 6280759--6280788 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6280749 AATTTGAGTT
*
6280759 GACTCGAATAACTC
1 GACTAGAATAACTC
6280773 GACTAGAATAACTC
1 GACTAGAATAACTC
6280787 GA
1 GA
6280789 AATTGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (14 bp):
GACTAGAATAACTC
Found at i:6284641 original size:16 final size:16
Alignment explanation
Indices: 6284617--6284647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6284607 TTCTAAATTT
*
6284617 TTTTTGAGTTCAAGTC
1 TTTTCGAGTTCAAGTC
6284633 TTTTCGAGTTCAAGT
1 TTTTCGAGTTCAAGT
6284648 TTCAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTCGAGTTCAAGTC
Found at i:6286037 original size:37 final size:36
Alignment explanation
Indices: 6285987--6286060 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
6285977 CATTAAACCT
*
6285987 TTTTATATTTTAAATATTATAAA-AAAATTATATAAA
1 TTTTATAATTTAAATATTATAAAGAAAA-TATATAAA
* *
6286023 TTTTATGAATTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTAT-AATTTAAATATTATAAAGAAAATATATAAA
6286060 T
1 T
6286061 ATTTTCTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.18
37 23 0.70
38 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTTATAATTTAAATATTATAAAGAAAATATATAAA
Found at i:6293356 original size:37 final size:37
Alignment explanation
Indices: 6293310--6293454 Score: 200
Period size: 37 Copynumber: 3.9 Consensus size: 37
6293300 AACATAACGT
*
6293310 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
*
6293347 TAGAATTTTACTAGGATTCAAACTCATAAAAATATGA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
* * *
6293384 TAAAATTTTACTAGGATTTAAACTTCTAAAAATATGA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
* * * * *
6293421 TAGAGTTCTATTATGATTCAAATTCCTAAAAATA
1 TAGAATTTTACTAGGATTCAAACTCCTAAAAATA
6293455 AGATCCACAA
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (37 bp):
TAGAATTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:6293823 original size:24 final size:23
Alignment explanation
Indices: 6293780--6293825 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6293770 TCATGTAATA
*
6293780 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
6293803 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
6293826 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:6293921 original size:22 final size:23
Alignment explanation
Indices: 6293903--6293965 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
6293893 ATATATTTAC
*
6293903 TATTTTTTATGTATTTATTTATA
1 TATTTTTTATTTATTTATTTATA
*
6293926 TATTCTTTTTCTTTATTT-TTTATA
1 TA-T-TTTTTATTTATTTATTTATA
6293950 TATTTTTTATTTATTT
1 TATTTTTTATTTATTT
6293966 TACTTACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 12 0.34
23 3 0.09
24 9 0.26
25 11 0.31
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TATTTTTTATTTATTTATTTATA
Found at i:6293923 original size:4 final size:4
Alignment explanation
Indices: 6293903--6293965 Score: 51
Period size: 4 Copynumber: 16.2 Consensus size: 4
6293893 ATATATTTAC
* * * * *
6293903 TATT T-TT TATG TATT TATT TATA TATT CTTTT TCTT TATT T-TT TATA
1 TATT TATT TATT TATT TATT TATT TATT -TATT TATT TATT TATT TATT
6293950 TATT T-TT TATT TATT T
1 TATT TATT TATT TATT T
6293966 TACTTACTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
3 9 0.20
4 34 0.74
5 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:6293926 original size:36 final size:36
Alignment explanation
Indices: 6293816--6293978 Score: 92
Period size: 36 Copynumber: 4.5 Consensus size: 36
6293806 TTTACTTTAG
* * *
6293816 TATATATTTTTA-TTTTTTTTA-G-ATTATATATATA
1 TATATATATTTACTATTTTTTATGTATT-TATTTATA
*
6293850 TATATATATGTTA-TTTTTTATTATCTGT-TTTATTAATATA
1 TATATATAT-TTACTATTTT-TTA--TGTATTTATT--TATA
6293890 TATATATATTTACTATTTTTTATGTATTTATTTATA
1 TATATATATTTACTATTTTTTATGTATTTATTTATA
* * * *
6293926 TAT-TCT-TTTTCTTTATTTTTTATATATTT-TTTATT
1 TATATATATTTAC--TATTTTTTATGTATTTATTTATA
* *
6293961 TAT-TTTACTTACTATTTT
1 TATATATATTTACTATTTT
6293979 ATCTTTGCTT
Statistics
Matches: 106, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
34 18 0.17
35 21 0.20
36 28 0.26
37 3 0.03
38 9 0.08
39 9 0.08
40 18 0.17
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (36 bp):
TATATATATTTACTATTTTTTATGTATTTATTTATA
Found at i:6293953 original size:11 final size:11
Alignment explanation
Indices: 6293903--6293966 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
6293893 ATATATTTAC
*
6293903 TATTTTTTATG
1 TATTTTTTATA
6293914 TATTTATTTATA
1 TATTT-TTTATA
* *
6293926 TATTCTTTTTCTT
1 TA-T-TTTTTATA
6293939 TATTTTTTATA
1 TATTTTTTATA
*
6293950 TATTTTTTATT
1 TATTTTTTATA
6293961 TATTTT
1 TATTTT
6293967 ACTTACTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
11 27 0.61
12 8 0.18
13 7 0.16
14 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (11 bp):
TATTTTTTATA
Found at i:6294057 original size:27 final size:27
Alignment explanation
Indices: 6293991--6294057 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
6293981 CTTTGCTTTC
* ** *
6293991 TTTATCTTATCTTTTATTTAATTTGTTTT
1 TTTAT-TTAT-TTTAATTTAATTAATTTA
* *
6294020 TTTCTTCATTTTAATTTAATTAATTTA
1 TTTATTTATTTTAATTTAATTAATTTA
6294047 TTTATTTATTT
1 TTTATTTATTT
6294058 CTTACTTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 23 0.77
28 3 0.10
29 4 0.13
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTATTTATTTTAATTTAATTAATTTA
Found at i:6299581 original size:31 final size:31
Alignment explanation
Indices: 6299543--6299727 Score: 318
Period size: 31 Copynumber: 6.0 Consensus size: 31
6299533 CCCGAAGGAC
* *
6299543 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
6299574 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6299605 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6299636 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6299667 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6299698 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
6299728 CCCTCGACCC
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:6299931 original size:23 final size:24
Alignment explanation
Indices: 6299904--6299950 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
6299894 ACATATACTT
*
6299904 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
6299927 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
6299951 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:6300619 original size:21 final size:20
Alignment explanation
Indices: 6300589--6300632 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6300579 TCTTGTTCGT
* *
6300589 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
6300609 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
6300630 TTG
1 TTG
6300633 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:6303375 original size:30 final size:31
Alignment explanation
Indices: 6303220--6303402 Score: 293
Period size: 31 Copynumber: 6.0 Consensus size: 31
6303210 TCCCGAAGGA
* *
6303220 AGTCCATA-GATTCCGAAGAACCTAGGTAATC
1 AGTCCATATG-TTCCGAAGAACATAGGTAAAC
* *
6303251 AGTCCATATG-TCCCAAGGACATA-GTAAAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
6303280 AGTCCATATGTTCCGAAGAACATAGGTAAAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
6303311 AGTCCATATGTTCCGAAGAACATAGGTAAAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
6303342 AGTCCATATGTTCCGAAGAACATAGGT-AAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
6303372 AGTCCATATGTTCCGAAGAACATAGGTAAAC
1 AGTCCATATGTTCCGAAGAACATAGGTAAAC
6303403 CCTCGACCCT
Statistics
Matches: 142, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
29 15 0.11
30 51 0.36
31 75 0.53
32 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
AGTCCATATGTTCCGAAGAACATAGGTAAAC
Found at i:6303400 original size:92 final size:91
Alignment explanation
Indices: 6303220--6303402 Score: 289
Period size: 92 Copynumber: 2.0 Consensus size: 91
6303210 TCCCGAAGGA
* * *
6303220 AGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCAAGGACATAGTAAACAGTCC
1 AGTCCATAGATTCCGAAGAACATAGGTAAACAGTCCATATGTCCCAAGAACATAGTAAACAGTCC
6303285 ATATGTTCCGAAGAACATAGGTAAAC
66 ATATGTTCCGAAGAACATAGGTAAAC
*
6303311 AGTCCATATG-TTCCGAAGAACATAGGTAAACAGTCCATATGTTCCGAAGAACATAGGT-AACAG
1 AGTCCATA-GATTCCGAAGAACATAGGTAAACAGTCCATATG-TCCCAAGAACATA-GTAAACAG
6303374 TCCATATGTTCCGAAGAACATAGGTAAAC
63 TCCATATGTTCCGAAGAACATAGGTAAAC
6303403 CCTCGACCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
91 37 0.44
92 46 0.54
93 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (91 bp):
AGTCCATAGATTCCGAAGAACATAGGTAAACAGTCCATATGTCCCAAGAACATAGTAAACAGTCC
ATATGTTCCGAAGAACATAGGTAAAC
Found at i:6304264 original size:21 final size:20
Alignment explanation
Indices: 6304234--6304277 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6304224 TCTTGTTCGT
* *
6304234 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
6304254 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
6304275 TTG
1 TTG
6304278 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:6306927 original size:31 final size:31
Alignment explanation
Indices: 6306880--6307053 Score: 312
Period size: 31 Copynumber: 5.6 Consensus size: 31
6306870 CCAGTCCAGA
* *
6306880 TTCCGAAGAACCTAGGTAATCAGTCCATATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATG
* *
6306911 TCCCGAAGGACATAGGTAAACAGTCCATATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATG
6306942 TTCCGAAGAACATAGGTAAACAGTCCATATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATG
6306973 TTCCGAAGAACATAGGTAAACAGTCCATATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATG
6307004 TTCCGAAGAACATAGGTAAACAGTCCATATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATG
6307035 TTCCGAAGAACATAGGTAA
1 TTCCGAAGAACATAGGTAA
6307054 CCCTCGACCC
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (31 bp):
TTCCGAAGAACATAGGTAAACAGTCCATATG
Found at i:6307927 original size:21 final size:21
Alignment explanation
Indices: 6307903--6307945 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6307893 TCTTGTTCGT
* *
6307903 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6307924 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6307945 T
1 T
6307946 GCCCAGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6310607 original size:31 final size:31
Alignment explanation
Indices: 6310569--6310753 Score: 318
Period size: 31 Copynumber: 6.0 Consensus size: 31
6310559 CCCGAAGGAC
* *
6310569 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
6310600 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6310631 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6310662 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6310693 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
6310724 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
6310754 CCCTCGACCC
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:6310970 original size:22 final size:23
Alignment explanation
Indices: 6310931--6310975 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6310921 ATATACTTGT
* *
6310931 TTTCACATATATATTTCATATCA
1 TTTCACATATACACTTCATATCA
6310954 TTTCA-ATATACACTTCATATCA
1 TTTCACATATACACTTCATATCA
6310976 CATGCCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTCACATATACACTTCATATCA
Found at i:6311640 original size:21 final size:21
Alignment explanation
Indices: 6311616--6311660 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6311606 TCTTGTTCGT
* *
6311616 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6311637 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6311658 TTG
1 TTG
6311661 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6315434 original size:24 final size:24
Alignment explanation
Indices: 6315407--6315494 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
6315397 TTCTATTATA
*
6315407 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* * *
6315431 ATACTTGACATGGTTTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* *
6315455 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
6315479 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
6315495 GTGTTTTGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:6315623 original size:35 final size:35
Alignment explanation
Indices: 6315577--6315675 Score: 189
Period size: 35 Copynumber: 2.8 Consensus size: 35
6315567 TACCTGGAGG
6315577 CTCCTCGGCTGTGTGCTCAGGGCCTTACTTACCGA
1 CTCCTCGGCTGTGTGCTCAGGGCCTTACTTACCGA
*
6315612 CTCCTCGGCTGTGTGCTTAGGGCCTTACTTACCGA
1 CTCCTCGGCTGTGTGCTCAGGGCCTTACTTACCGA
6315647 CTCCTCGGCTGTGTGCTCAGGGCCTTACT
1 CTCCTCGGCTGTGTGCTCAGGGCCTTACT
6315676 AGACTTGACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.30
Consensus pattern (35 bp):
CTCCTCGGCTGTGTGCTCAGGGCCTTACTTACCGA
Found at i:6318508 original size:37 final size:37
Alignment explanation
Indices: 6318400--6318511 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
6318390 AACATAACGT
*
6318400 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
6318437 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
6318474 TAGAGTTCTACTATGATTCAAACTCTTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
6318511 T
1 T
6318512 CCACAAGCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:6318962 original size:46 final size:46
Alignment explanation
Indices: 6318900--6319017 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
6318890 GATTACATAC
*
6318900 ATATATATATGT--TATTTTTTATTATCTGT-TTTATTAATATATAT
1 ATATATATATTTACTATTTTTTATTATCTGTATTTATT-ATATATAT
* *
6318944 ATATATATATTTACTATTTTTTA-TATTTTTATTTATTATATATAT
1 ATATATATATTTACTATTTTTTATTATCTGTATTTATTATATATAT
* * *
6318989 ATATGTTATTTTTACTTTTTTATTATTAT
1 ATAT-ATATATTTACTATTTT-TTATTAT
6319018 TATTTGTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
44 11 0.18
45 17 0.27
46 28 0.45
47 3 0.05
48 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (46 bp):
ATATATATATTTACTATTTTTTATTATCTGTATTTATTATATATAT
Found at i:6318987 original size:45 final size:44
Alignment explanation
Indices: 6318900--6319037 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 44
6318890 GATTACATAC
* * *
6318900 ATATATATATGTTATTTTTTATTATCTGT-TTTATTAATATATAT
1 ATATATATATTTTATTTTTTATTATTTTTATTTATT-ATATATAT
6318944 ATATATATATTTACTATTTTTTA-TATTTTTATTTATTATATATAT
1 ATATATATATTT--TATTTTTTATTATTTTTATTTATTATATATAT
* * * * *
6318989 ATATGT-TATTTTTACTTTTTTATTATTATTATTTGTTTTATTTAT
1 ATATATATA-TTTTA-TTTTTTATTATTTTTATTTATTATATATAT
6319034 ATAT
1 ATAT
6319038 TCTTTTTCTT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
43 2 0.03
44 20 0.25
45 43 0.54
46 15 0.19
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (44 bp):
ATATATATATTTTATTTTTTATTATTTTTATTTATTATATATAT
Found at i:6319009 original size:36 final size:37
Alignment explanation
Indices: 6318900--6319017 Score: 107
Period size: 44 Copynumber: 3.0 Consensus size: 37
6318890 GATTACATAC
*
6318900 ATATATATATGTTATTTTTTATTATCTGTTTTATTAATATATAT
1 ATATATATATGTTA--TTTT-TTA-CTTTTTTATT--TAT-TAT
*
6318944 ATATATATATTTACTATTTTTTA-TATTTTTATTTATTAT
1 ATATATATATGT--TATTTTTTACT-TTTTTATTTATTAT
6318983 ATATATATATGTTA-TTTTTACTTTTTTA-TTATTAT
1 ATATATATATGTTATTTTTTACTTTTTTATTTATTAT
6319018 TATTTGTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
35 7 0.10
36 12 0.18
37 3 0.04
39 14 0.21
40 3 0.04
41 1 0.01
42 7 0.10
43 3 0.04
44 15 0.22
46 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (37 bp):
ATATATATATGTTATTTTTTACTTTTTTATTTATTAT
Found at i:6322180 original size:31 final size:30
Alignment explanation
Indices: 6322145--6322225 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
6322135 ATCAGAACAA
*
6322145 AAAGAAAAAAGAGAAAAAATAAAGAAAAAGC
1 AAAGAAAAAAGAGAAAAAAGAAAGAAAAA-C
* * *
6322176 AAAGAGAAAATA-AAAAAGAGAAATAAAAAC
1 AAAGAAAAAAGAGAAAAA-AGAAAGAAAAAC
* *
6322206 AAAGGAAAAAGTGAAGAAAA
1 AAAGAAAAAAGAGAA-AAAA
6322226 AGAAGACAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
30 14 0.36
31 22 0.56
32 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.05
Consensus pattern (30 bp):
AAAGAAAAAAGAGAAAAAAGAAAGAAAAAC
Found at i:6322195 original size:14 final size:13
Alignment explanation
Indices: 6322149--6322204 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
6322139 GAACAAAAAG
6322149 AAAAAAGAGAAA-
1 AAAAAAGAGAAAT
6322161 AAATAAAGA-AAA-
1 AAA-AAAGAGAAAT
**
6322173 AGCAAAGAGAAAAT
1 AAAAAAGAG-AAAT
6322187 AAAAAAGAGAAAT
1 AAAAAAGAGAAAT
6322200 AAAAA
1 AAAAA
6322205 CAAAGGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 5 0.14
12 7 0.19
13 17 0.47
14 7 0.19
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAAAAGAGAAAT
Found at i:6322940 original size:16 final size:16
Alignment explanation
Indices: 6322916--6322952 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
6322906 TGAGACTTTG
*
6322916 TTTCATTGTTTAACCA
1 TTTCCTTGTTTAACCA
6322932 TTTCCTTGTTTAACCA
1 TTTCCTTGTTTAACCA
6322948 TTTCC
1 TTTCC
6322953 CAAAGATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.24, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTCCTTGTTTAACCA
Found at i:6325231 original size:37 final size:37
Alignment explanation
Indices: 6325123--6325234 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
6325113 AACATAACGT
*
6325123 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
6325160 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
6325197 TAGAGTTCTACTATGATTCAAGCTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
6325234 T
1 T
6325235 CCATAAGCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:6325414 original size:38 final size:39
Alignment explanation
Indices: 6325367--6325441 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
6325357 ATAAAAGATA
6325367 ACATATTTTTTACC-TTGATTCGTTCATTTCTCGCAAGT
1 ACATATTTTTTACCTTTGATTCGTTCATTTCTCGCAAGT
* *
6325405 ACATGTTTTTTTCCTTTTGATTCGTTCATTTCTCGCA
1 ACATATTTTTTACC-TTTGATTCGTTCATTTCTCGCA
6325442 TTTGCTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 12 0.36
40 21 0.64
ACGTcount: A:0.17, C:0.21, G:0.11, T:0.51
Consensus pattern (39 bp):
ACATATTTTTTACCTTTGATTCGTTCATTTCTCGCAAGT
Found at i:6325723 original size:60 final size:60
Alignment explanation
Indices: 6325650--6325794 Score: 190
Period size: 59 Copynumber: 2.5 Consensus size: 60
6325640 TATTTAGGGT
* *
6325650 AAAGTATAC-AAATGGTCCCCCAACTATATGATATTGTTTTGTCGAGTC-CTCTGACTATTA
1 AAAGT-TACAAAATGGTCCCCCAACTATATAATATTATTTTGTCGAGTCTCTC-GACTATTA
* * *
6325710 AAAGTTACAAAATGG-CCCCCGACTATATAATATTATTTTGTTGAGTTTCTCGACTATTA
1 AAAGTTACAAAATGGTCCCCCAACTATATAATATTATTTTGTCGAGTCTCTCGACTATTA
*
6325769 AAAGTTACAAAATGGT-CACCAACTAT
1 AAAGTTACAAAATGGTCCCCCAACTAT
6325795 TTATTATGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
59 61 0.81
60 14 0.19
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCCCCAACTATATAATATTATTTTGTCGAGTCTCTCGACTATTA
Found at i:6326095 original size:60 final size:60
Alignment explanation
Indices: 6325972--6326095 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 60
6325962 GTCAAGTGAG
* *
6325972 CTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCTATAGTTAAAGGATCATTTTGTAA
1 CTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCTATAGTCAAAGGATCAATTTGTAA
* * * * * **
6326032 CTTTTGATAGTTGATGGACTCAACAAAGTAATA-CCGTATAGTCATGGGAT-AATTTGTATA
1 CTTTTAATAGTCGAGGGACTCAACAAAGCAACATCC-TATAGTCAAAGGATCAATTTGTA-A
6326092 CTTT
1 CTTT
6326096 ACCCTATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
59 9 0.17
60 44 0.83
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (60 bp):
CTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCTATAGTCAAAGGATCAATTTGTAA
Found at i:6336498 original size:5 final size:5
Alignment explanation
Indices: 6336451--6336565 Score: 101
Period size: 5 Copynumber: 22.8 Consensus size: 5
6336441 TCGTTCTATT
* * *
6336451 TTTTA TTTCA TTTCA TTTTA TTTTCA TTTTA TTTCA -TTT- TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
6336500 TTTTA TTGTAAA CTTTA TTTTCA TTCTA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TT-T-TA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA
* *
6336547 ATTAA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
6336566 CCTCTAAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
4 8 0.09
5 68 0.76
6 11 0.12
7 2 0.02
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:6338149 original size:71 final size:71
Alignment explanation
Indices: 6338033--6338174 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
6338023 ATTGTTACTT
6338033 GAATTCGGAAAATATCATGAACTTAGTTCGATTGGAAGTTTGAGGGATAACATGAAATTGAAGAT
1 GAATTCGGAAAATATCATGAACTTAGTTCGATTGGAAGTTTGAGGGATAACATGAAATTGAAGAT
6338098 GACAAC
66 GACAAC
*
6338104 GAATTCGGAAAATATCATGGACTTAGTTCGATTGGAAGTTTGAGGGATAACATGAAATTGAAGAT
1 GAATTCGGAAAATATCATGAACTTAGTTCGATTGGAAGTTTGAGGGATAACATGAAATTGAAGAT
6338169 GACAAC
66 GACAAC
6338175 TTATGATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.27
Consensus pattern (71 bp):
GAATTCGGAAAATATCATGAACTTAGTTCGATTGGAAGTTTGAGGGATAACATGAAATTGAAGAT
GACAAC
Found at i:6338613 original size:44 final size:42
Alignment explanation
Indices: 6338564--6338690 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 42
6338554 TTAAATATTA
6338564 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAG
1 TATTTTAT-TTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAG
**
6338608 TATTTTAATTAAGTTTTAGG-A---TA--TT--AT--TTTTA-
1 TATTTT-ATTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
6338640 TATTTTATTTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAG
1 TATTTTA-TTTTGTTTTAGGTATTTTAGTTTAAATAGTTTT-AG
*
6338684 TGTTTTA
1 TATTTTA
6338691 ATTAGGATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 28
0.66 0.05 0.29
Matches are distributed among these distances:
31 1 0.02
32 16 0.25
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
42 4 0.06
43 2 0.03
44 21 0.33
45 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.13, T:0.61
Consensus pattern (42 bp):
TATTTTATTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAG
Found at i:6338656 original size:32 final size:32
Alignment explanation
Indices: 6338602--6338663 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
6338592 TTTAAATAGG
6338602 TTTTAGTATTTTAATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTAATTAAGTTTTAGG-TATTAT
* **
6338635 TTTTA-TATTTTATTTTTGTTTTAGGTATT
1 TTTTAGTATTTTAATTAAGTTTTAGGTATT
6338664 TTAGTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 17 0.65
33 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (32 bp):
TTTTAGTATTTTAATTAAGTTTTAGGTATTAT
Found at i:6338722 original size:76 final size:76
Alignment explanation
Indices: 6338561--6338705 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 76
6338551 ATTTTAAATA
*
6338561 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
*
6338626 GGATATTATTT
66 AGATATTATTT
* * *
6338637 TTATATTTTATTTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTT
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTT
6338701 AAGAT
65 AAGAT
6338706 GTTTTACCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 5 0.08
76 58 0.92
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.59
Consensus pattern (76 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
AGATATTATTT
Found at i:6343289 original size:75 final size:75
Alignment explanation
Indices: 6343164--6343310 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 75
6343154 TGTTGCTATC
*
6343164 TGATACATGCACCGGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCTATCA
1 TGATACATGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCTATCA
6343229 GAAGAACTAA
66 GAAGAACTAA
* * * * *
6343239 TGATACATGTACCAGAGTCCATAATACATGCTTCTTTGGACTAATTTTTCTACTCGGACCTATTA
1 TGATACATGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCTATCA
6343304 GAAGAAC
66 GAAGAAC
6343311 AAAGTCTCGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (75 bp):
TGATACATGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCTATCA
GAAGAACTAA
Found at i:6345453 original size:2 final size:2
Alignment explanation
Indices: 6345446--6345486 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6345436 AAATAATTTA
*
6345446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6345487 ATAATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6345505 original size:18 final size:17
Alignment explanation
Indices: 6345484--6345526 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6345474 ATATATACAT
6345484 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
6345502 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
6345519 ATAA-AATA
1 ATAATAATA
6345527 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:6345934 original size:37 final size:37
Alignment explanation
Indices: 6345884--6345969 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
6345874 GTGCTTGTGG
* * * *
6345884 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTAAATCCTAGAAAAACTCT
* * * *
6345921 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAATTTT
1 ATCCTATTTTTAGGAATTTAAATCCTAGAAAAACTCT
6345958 ATCCTATTTTTA
1 ATCCTATTTTTA
6345970 TGAGTTTGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTAAATCCTAGAAAAACTCT
Found at i:6346738 original size:105 final size:105
Alignment explanation
Indices: 6346530--6347153 Score: 921
Period size: 105 Copynumber: 5.9 Consensus size: 105
6346520 AGCATTGTTC
* * ** *
6346530 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGAGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGAGAAGTTG-TTGTTGAC
* * *
6346594 AACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 AAGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
6346636 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAGATTGGGAAGTTGTTGTTGACAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAA
*
6346701 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGAGTTGTCT
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
6346741 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAA
* *
6346806 GCAACGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
6346846 -GAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACA
1 CG-AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACA
* * *
6346910 AGCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTAT
65 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
6346951 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAGATTGAGAAGTTGTTGTTGACAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAA
*
6347016 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGGTCT
66 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
6347056 GGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTG-TTGTTGACA
* * *
6347121 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
65 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
6347154 GCTCTGGAAC
Statistics
Matches: 474, Mismatches: 39, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
104 2 0.00
105 386 0.81
106 85 0.18
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAA
GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:6347175 original size:63 final size:63
Alignment explanation
Indices: 6347070--6347216 Score: 224
Period size: 63 Copynumber: 2.3 Consensus size: 63
6347060 TCCAATATCT
* ** *
6347070 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCC
1 TTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAGCCGTCCC
* *
6347133 TTCGTTGTGAAGTTGAACTTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCGTCCC
1 TTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAGCCGTCCC
6347196 TTC-TCTGTGAAGTTGAACTTG
1 TTCGT-TGTGAAGTTGAACTTG
6347217 TGTTGTCTCG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
62 1 0.01
63 76 0.99
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (63 bp):
TTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAGCCGTCCC
Found at i:6347198 original size:169 final size:167
Alignment explanation
Indices: 6346963--6347321 Score: 497
Period size: 169 Copynumber: 2.1 Consensus size: 167
6346953 AGTCCAATAT
* * ** * * *
6346963 CCTTCGCTGTGAAGTTGAAATTGACTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCT
1 CCTTCGTTGTGAAGTTGAACTTGACTCTGAGACCGAGAAATTGTTGTTGACAACCAGCCGTCCCT
* * * *
6347028 TCGTC-GTGAAGTTGAACTTGCGTGGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGG
66 TC-TCTGTGAAGTTGAACTTGCGTGGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA
6347092 CTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTC
130 CTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCCGTC
* *
6347131 CCTTCGTTGTGAAGTTGAACTTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAACCAGCCGTCC
1 CCTTCGTTGTGAAGTTGAACTTGACTCTGAG-ACCGAGAAATTG-TTGTTGACAACCAGCCGTCC
* *
6347195 CTTCTCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
64 CTTCTCTGTGAAGTTGAACTTGCGTGGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
* * *
6347260 ACTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTC
129 ACTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCCGTC
*
6347299 CCTTCGTCGTGAAGTTGAACTTG
1 CCTTCGTTGTGAAGTTGAACTTG
6347322 CGTTGTTTGG
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
167 1 0.01
168 75 0.44
169 93 0.55
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (167 bp):
CCTTCGTTGTGAAGTTGAACTTGACTCTGAGACCGAGAAATTGTTGTTGACAACCAGCCGTCCCT
TCTCTGTGAAGTTGAACTTGCGTGGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
TCTGAAATTGAGAAGTTGTTGTTGACAACCAGCCGTC
Found at i:6347214 original size:274 final size:273
Alignment explanation
Indices: 6346858--6347427 Score: 989
Period size: 274 Copynumber: 2.1 Consensus size: 273
6346848 AGTCCAATAT
* ** * * *
6346858 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCT
1 CCTTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTGTTGTTGACAACCAGCCGTCCCT
6346923 TCGTTGTGAAGTTGAACTTGTGTTGTATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
66 TCGTTGTGAAGTTGAACTTGTGTTGTATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
6346988 TCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGG
131 TCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGG
*
6347053 TCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTG
196 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTG
*
6347118 ACAACCAGCCGTC
261 ACAACCAGCCATC
* *
6347131 CCTTCGTTGTGAAGTTGAACTTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCGTCCC
1 CCTTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTG-TTGTTGACAACCAGCCGTCCC
*
6347196 TTC-TCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
65 TTCGT-TGTGAAGTTGAACTTGTGTTGTATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
6347260 ACTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
129 ACTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
* *
6347325 TGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGT
194 GGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGT
6347390 TGACAACCAGCCATC
259 TGACAACCAGCCATC
*
6347405 CCTTCGTTGTGAAGTTAAACTTG
1 CCTTCGTTGTGAAGTTGAACTTG
6347428 TGTTGTCTCG
Statistics
Matches: 281, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
273 38 0.14
274 243 0.86
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (273 bp):
CCTTCGTTGTGAAGTTGAACTTGGCTCTGAAACCGAGAAATTGTTGTTGACAACCAGCCGTCCCT
TCGTTGTGAAGTTGAACTTGTGTTGTATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
TCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTGG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTG
ACAACCAGCCATC
Found at i:6347241 original size:106 final size:107
Alignment explanation
Indices: 6347131--6347440 Score: 441
Period size: 105 Copynumber: 2.9 Consensus size: 107
6347121 ACCAGCCGTC
* ** * *
6347131 CCTTCGTTGTGAAGTTGAACTTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGCCGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCC
6347196 TTC-TCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATAT
66 TTCGTCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATAT
* * * *
6347237 CCTTCGCTGTGAAGTTGAAATTGACTCT-GAGATTGAGAAGTTG-TTGTTGACAAGCAGCGGTCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGGA-ATTGAGAAGTTGTTTGTTGACAACCAGCCGTCC
* * *
6347300 CTTCGTC-GTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATAT
65 CTTCGTCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATAT
* *
6347342 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCATCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCC
*
6347407 TTCGT-TGTGAAGTTAAACTTGTGTTGTCTCGAGT
66 TTCGTCTGTGAAGTTGAACTTGTGTTGTCTCGAGT
6347441 GTCACGATAT
Statistics
Matches: 177, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
105 94 0.53
106 83 0.47
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (107 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCC
TTCGTCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATAT
Found at i:6348168 original size:16 final size:16
Alignment explanation
Indices: 6348143--6348181 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6348133 AATGTTTATG
**
6348143 TTTC-AAGAGAAACTT
1 TTTCAAAGAGAAACGA
6348158 TTTCAAAGAGAAACGA
1 TTTCAAAGAGAAACGA
6348174 TTTCAAAG
1 TTTCAAAG
6348182 GTTTTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (16 bp):
TTTCAAAGAGAAACGA
Found at i:6348230 original size:36 final size:36
Alignment explanation
Indices: 6348177--6348251 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
6348167 GAAACGATTT
* *
6348177 CAAAGGTTTTTCTAAGGGAAATTGTCTCAAGGGAGA
1 CAAAGGTTTTTCTAAGGGAAACTGTCTCAAGAGAGA
*
6348213 CAAAGTTTGTTTC-AAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTT-TTTCTAAGGGAAACTGTCTCAAGAGAGA
6348249 CAA
1 CAA
6348252 TGGTGAGCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (36 bp):
CAAAGGTTTTTCTAAGGGAAACTGTCTCAAGAGAGA
Found at i:6348721 original size:18 final size:18
Alignment explanation
Indices: 6348694--6348729 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6348684 TGTTGAATCC
*
6348694 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
6348712 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
6348730 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:6349167 original size:22 final size:22
Alignment explanation
Indices: 6349141--6349188 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
6349131 TTATGTTTGG
6349141 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
6349163 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
6349185 TCAA
1 TCAA
6349189 CGATTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:6349195 original size:22 final size:22
Alignment explanation
Indices: 6349141--6349195 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
6349131 TTATGTTTGG
*
6349141 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGATTTGGCATTTGATGC
*
6349163 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGATTTGGCATTTGATGC
*
6349185 TCAACGATTTG
1 TCAAAGATTTG
6349196 ATGGGGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGATTTGGCATTTGATGC
Found at i:6349895 original size:172 final size:172
Alignment explanation
Indices: 6349595--6350110 Score: 883
Period size: 172 Copynumber: 3.0 Consensus size: 172
6349585 ATAGGCCCAG
* * * *
6349595 ACAAGTGTTTCAGGGTGTTGATCCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTACTC
1 ACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A--A--TCCTGCTC
* *
6349660 AAAATG-TT-TCTATCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGA
61 AAAATGTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGA
6349723 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTCAA
126 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTCAA
6349770 ACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCCTGCTCAAAAT
1 ACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCCTGCTCAAAAT
*
6349835 GTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTTGAGAATGATTGTG
66 GTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGATTGTG
* *
6349900 CTTGATCAATCTTATAGTTTGAAGCTTGATGCGCCATTTCAA
131 CTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTCAA
*
6349942 ACAAGTGTTTCTGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCCTGCTCAAAAT
1 ACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCCTGCTCAAAAT
6350007 GTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGATTGTG
66 GTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGATTGTG
6350072 CTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
131 CTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
6350111 TTTTAGGGAA
Statistics
Matches: 326, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
170 13 0.04
171 2 0.01
172 263 0.81
174 1 0.00
175 47 0.14
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (172 bp):
ACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTCAATCCTGCTCAAAAT
GTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAGAATGATTGTG
CTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTCAA
Found at i:6350216 original size:16 final size:16
Alignment explanation
Indices: 6350190--6350223 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6350180 TCTTTGTTTT
6350190 TTTTACTTTTTTGCTTC
1 TTTTACTTTTTTG-TTC
6350207 TTTT-CTTTTTTGTTC
1 TTTTACTTTTTTGTTC
6350222 TT
1 TT
6350224 GATTGGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTACTTTTTTGTTC
Found at i:6350217 original size:7 final size:7
Alignment explanation
Indices: 6350144--6350217 Score: 53
Period size: 7 Copynumber: 9.7 Consensus size: 7
6350134 TTTTTATCCC
6350144 TTTTTCT
1 TTTTTCT
6350151 TTTTGAT-T
1 TTTT--TCT
6350159 TTTGTTCT
1 TTT-TTCT
6350167 TCTTTCTCT
1 T-TTT-TCT
6350176 TTTTTCT
1 TTTTTCT
6350183 TTGTTT-T
1 TT-TTTCT
*
6350190 TTTTACT
1 TTTTTCT
6350197 TTTTTGCT
1 TTTTT-CT
6350205 TCTTTTCT
1 T-TTTTCT
6350213 TTTTT
1 TTTTT
6350218 GTTCTTGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 2 0.04
7 22 0.40
8 19 0.35
9 12 0.22
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (7 bp):
TTTTTCT
Found at i:6352701 original size:19 final size:19
Alignment explanation
Indices: 6352668--6352704 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6352658 TTCAGATGAT
6352668 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
6352687 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
6352705 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:6354148 original size:16 final size:15
Alignment explanation
Indices: 6354093--6354145 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
6354083 TTTTAAGAAA
*
6354093 ATAATAATATAATAAT
1 ATAATAA-AAAATAAT
*
6354109 AATGAATAAAAAATGAAA
1 -AT-AATAAAAAAT-AAT
6354127 ATAATAAAAAATAAT
1 ATAATAAAAAATAAT
6354142 ATAA
1 ATAA
6354146 ATATATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.19
16 10 0.32
17 8 0.26
18 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (15 bp):
ATAATAAAAAATAAT
Found at i:6354418 original size:18 final size:17
Alignment explanation
Indices: 6354395--6354437 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6354385 ATTTATACAT
6354395 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
6354413 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
6354430 ATAA-AATA
1 ATAATAATA
6354438 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:6354846 original size:37 final size:37
Alignment explanation
Indices: 6354796--6354900 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
6354786 GTGCTTGTGG
* * * *
6354796 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
6354833 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
6354870 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
6354901 GACGAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:6359254 original size:23 final size:23
Alignment explanation
Indices: 6359221--6359303 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
6359211 CGGCACCCCC
6359221 AAGGGGGTATCGATACCCATTCA
1 AAGGGGGTATCGATACCCATTCA
* * *
6359244 AAGAGGATATCGGTACCC-TT--
1 AAGGGGGTATCGATACCCATTCA
* * *
6359264 ATGGGGGTATCAATACCTATTCA
1 AAGGGGGTATCGATACCCATTCA
6359287 AAGGGGGTATCGATACC
1 AAGGGGGTATCGATACC
6359304 TGTGTTAGGG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 12 0.26
21 2 0.04
22 2 0.04
23 30 0.65
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (23 bp):
AAGGGGGTATCGATACCCATTCA
Found at i:6359256 original size:43 final size:43
Alignment explanation
Indices: 6359208--6359298 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
6359198 CCGTGAAGGG
*
6359208 TATCGGCACCCCCAAGGGGGTATCGATACCCATTCAAAGAGGA
1 TATCGGCACCCCCAAGGGGGTATCAATACCCATTCAAAGAGGA
* ** * * * *
6359251 TATCGGTACCCTTATGGGGGTATCAATACCTATTCAAAGGGGG
1 TATCGGCACCCCCAAGGGGGTATCAATACCCATTCAAAGAGGA
6359294 TATCG
1 TATCG
6359299 ATACCTGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (43 bp):
TATCGGCACCCCCAAGGGGGTATCAATACCCATTCAAAGAGGA
Found at i:6365047 original size:21 final size:21
Alignment explanation
Indices: 6365023--6365120 Score: 137
Period size: 21 Copynumber: 4.6 Consensus size: 21
6365013 CCCATCCATA
*
6365023 GGGTATCGGTGCCTCCTGAGG
1 GGGTATCGGTACCTCCTGAGG
6365044 GGGTATCGGTACCTCCTGAGG
1 GGGTATCGGTACCTCCTGAGG
6365065 GGGTATCGGTACCATTTCCTGA--
1 GGGTATCGGTACC---TCCTGAGG
6365087 GGGTATCGGTACCTCCTGAGG
1 GGGTATCGGTACCTCCTGAGG
*
6365108 GGGTATCTGTACC
1 GGGTATCGGTACC
6365121 ATCCGAGCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
19 6 0.09
21 45 0.64
22 13 0.19
24 6 0.09
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (21 bp):
GGGTATCGGTACCTCCTGAGG
Found at i:6367524 original size:75 final size:75
Alignment explanation
Indices: 6367433--6367581 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
6367423 GAAGTGGGGG
* * *
6367433 AATGATACATGTACCAGAGTCCATAATGCATGCTTCTTTGGACTAATATTTCTAATCGAACCTAT
1 AATGATACATGCACCAGAGTCCATAATACATGATTCTTTGGACTAATATTTCTAATCGAACCTAT
*
6367498 TATAAGAACT
66 TAGAAGAACT
* * *
6367508 AATGATACATGCACCAGAGTCCATAATATATGATTCTTTGGACTAATGTTTCTACTCGAACCTAT
1 AATGATACATGCACCAGAGTCCATAATACATGATTCTTTGGACTAATATTTCTAATCGAACCTAT
6367573 TAGAAGAAC
66 TAGAAGAAC
6367582 AAAGTCTCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (75 bp):
AATGATACATGCACCAGAGTCCATAATACATGATTCTTTGGACTAATATTTCTAATCGAACCTAT
TAGAAGAACT
Found at i:6368178 original size:43 final size:45
Alignment explanation
Indices: 6368083--6368186 Score: 117
Period size: 48 Copynumber: 2.3 Consensus size: 45
6368073 TTAGGATTAT
*
6368083 TTATTATTTTATTAGGAATTAAGGTGAGTTAAACATTAATTTTAGTTA
1 TTATTATTTTATTAGGAATTAA-G-GAGTTAAACATT-AGTTTAGTTA
*
6368131 TTATTATTTTATTAGGAATT-A-GAGTTAAGACA-T-GTTTAGTTTG
1 TTATTATTTTATTAGGAATTAAGGAGTTAA-ACATTAGTTTAG-TTA
6368174 TTATTATTTTATT
1 TTATTATTTTATT
6368187 CATTAATTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
42 5 0.10
43 15 0.29
44 8 0.15
45 3 0.06
47 1 0.02
48 20 0.38
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (45 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAACATTAGTTTAGTTA
Found at i:6370103 original size:90 final size:89
Alignment explanation
Indices: 6369995--6370162 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 89
6369985 AATTTCAATT
* * *
6369995 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATTTTCAATATGATTAGGGTAACTT
1 AATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAACTCT-AATATGATTAGGGTAACTT
*
6370060 GGATATAAGAGGATTATTAAATTCC
65 GGATATAAAAGGATTATTAAATTCC
*
6370085 AATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAACTCTAATATGATTAGGGTAATTTG
1 AATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAACTCTAATATGATTAGGGTAACTTG
*
6370150 GCTATAAAAGGAT
66 GATATAAAAGGAT
6370163 GTGTTAGGTC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 30 0.42
90 42 0.58
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (89 bp):
AATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAACTCTAATATGATTAGGGTAACTTG
GATATAAAAGGATTATTAAATTCC
Found at i:6373886 original size:44 final size:45
Alignment explanation
Indices: 6373833--6373927 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
6373823 TTAATTTTGT
6373833 TTATTTA-TTTATTACTTTTGTTTCAAGTAACTGCAATTTTCTGC
1 TTATTTATTTTATTACTTTTGTTTCAAGTAACTGCAATTTTCTGC
*
6373877 TTATTTATTTTATTACTTTTGTTTCAAGTAACTGCAATTTTCTGT
1 TTATTTATTTTATTACTTTTGTTTCAAGTAACTGCAATTTTCTGC
6373922 TTATTT
1 TTATTT
6373928 GTTCACCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 7 0.14
45 42 0.86
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (45 bp):
TTATTTATTTTATTACTTTTGTTTCAAGTAACTGCAATTTTCTGC
Found at i:6381367 original size:212 final size:214
Alignment explanation
Indices: 6381000--6381425 Score: 838
Period size: 212 Copynumber: 2.0 Consensus size: 214
6380990 CATATTTATT
6381000 AACTATTCATAAACTTAAGCATTCAAGTCATAGTATATCCTAACTATTTTGCCTATATAAAACAA
1 AACTATTCATAAACTTAAGCATTCAAGTCATAGTATATCCTAACTATTTTGCCTATATAAAACAA
6381065 TTATATTTGATTATGGGATTTATTTGGGCTTGTCAGCAGTTGATGGTTCATTCTTTTTTAAGTGG
66 TTATATTTGATTATGGGATTTATTTGGGCTTGTCAGCAGTTGATGGTTCATTCTTTTTTAAGTGG
6381130 ACGAAAAATCGAAGTTGGTGAGACAAAGACCG-TGATTGGTGCTTTTCCGTAAGAAAGAT-AAAT
131 ACGAAAAATCGAAGTTGGTGAGACAAAGACCGTTGATTGGTGCTTTTCCGTAAGAAAGATAAAAT
6381193 CATAAGAAAAATAACGAGA
196 CATAAGAAAAATAACGAGA
6381212 AACTATTCATAAACTTAAGCATTCAAGTCATAGTATATCCTAACTATTTTGCCTATATAAAACAA
1 AACTATTCATAAACTTAAGCATTCAAGTCATAGTATATCCTAACTATTTTGCCTATATAAAACAA
6381277 TTATATTTGATTATGGGATTTATTTGGGCTTGTCAGCAGTTGATGGTTCATTCTTTTTTAAGTGG
66 TTATATTTGATTATGGGATTTATTTGGGCTTGTCAGCAGTTGATGGTTCATTCTTTTTTAAGTGG
6381342 ACGAAAAATCGAAGTTGGTGAGACAAAGACCGTTGATTGGTGCTTTTCCGTAAGAAAGATAAAAT
131 ACGAAAAATCGAAGTTGGTGAGACAAAGACCGTTGATTGGTGCTTTTCCGTAAGAAAGATAAAAT
6381407 CATAAGAAAAATAACGAGA
196 CATAAGAAAAATAACGAGA
6381426 GTCAAGATGG
Statistics
Matches: 212, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
212 162 0.76
213 27 0.13
214 23 0.11
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (214 bp):
AACTATTCATAAACTTAAGCATTCAAGTCATAGTATATCCTAACTATTTTGCCTATATAAAACAA
TTATATTTGATTATGGGATTTATTTGGGCTTGTCAGCAGTTGATGGTTCATTCTTTTTTAAGTGG
ACGAAAAATCGAAGTTGGTGAGACAAAGACCGTTGATTGGTGCTTTTCCGTAAGAAAGATAAAAT
CATAAGAAAAATAACGAGA
Found at i:6384214 original size:18 final size:18
Alignment explanation
Indices: 6384173--6384213 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6384163 TATAATTTTG
*
6384173 AATTTTGAATTTTTCGAT
1 AATTTTGAATTTATCGAT
6384191 AATTTTGAATTTAT-GAT
1 AATTTTGAATTTATCGAT
*
6384208 TATTTT
1 AATTTT
6384214 TTATTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (18 bp):
AATTTTGAATTTATCGAT
Found at i:6388375 original size:20 final size:20
Alignment explanation
Indices: 6388310--6388381 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
6388300 ATATAATTTT
6388310 GTATCGATACC--GGTAGGG
1 GTATCGATACCATGGTAGGG
**
6388328 GTATCGATACCATAATAGGG
1 GTATCGATACCATGGTAGGG
*
6388348 TAGTATCGATACCATGGTAAGG
1 --GTATCGATACCATGGTAGGG
6388370 GTATCGATACCA
1 GTATCGATACCA
6388382 GGCAACATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 11 0.24
20 17 0.38
22 17 0.38
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATGGTAGGG
Found at i:6388422 original size:94 final size:95
Alignment explanation
Indices: 6388252--6388436 Score: 221
Period size: 94 Copynumber: 2.0 Consensus size: 95
6388242 ATACCGATGA
* * * * * *
6388252 GGTAGTATTGTTACCATGATAAGGAGTATCGTTACTAAGCAACTTCGAATATAATTTTGTATCGA
1 GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGCAACATCGAACATAATTTTGTATCGA
***
6388317 TACCGGTA-GGGGTATCGATACCATAATAG
66 TACCCAAAGGGGGTATCGATACCATAATAG
* * * *
6388346 GGTAGTATCGATACCATGGTAAGG-GTATCGATACCAGGCAACATCGAACCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGCAACATCGAACATAATTTT-GTATCG
*
6388410 ATACCCAAAGGGGGTATCGGTACCATA
65 ATACCCAAAGGGGGTATCGATACCATA
6388437 GTATAGAAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
93 26 0.35
94 33 0.44
95 16 0.21
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGCAACATCGAACATAATTTTGTATCGA
TACCCAAAGGGGGTATCGATACCATAATAG
Found at i:6388456 original size:95 final size:93
Alignment explanation
Indices: 6388263--6388474 Score: 210
Period size: 95 Copynumber: 2.2 Consensus size: 93
6388253 GTAGTATTGT
* * * * * ***
6388263 TACCATGATAAGGAGTATCGTTACTAAGCAACTTCGAATATAATTTTGTATCGATACCGGTAGGG
1 TACCATGGTAAGG-GTATCGATACCAAGCAACATCGAACATAATTTTGTATCGATACCCAAAGGG
* *
6388328 GTATCGATACCATAATAGGGTAGTATCGA
65 GTATCGATACCATAATAGAGAAGTATCGA
* * *
6388357 TACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTATTTTTGGTATCGATACCCAAAGGG
1 TACCATGGTAAGGGTATCGATACCAAGCAACATCGAACATAATTTT-GTATCGATACCCAAA-GG
* * * *
6388422 GGTATCGGTACCATAGTATAGAAGTATCGG
64 GGTATCGATACCATAATAGAGAAGTATCGA
* *
6388452 TACCAGGGT-AGTAGTATCGATAC
1 TACCATGGTAAG-GGTATCGATAC
6388475 TATATAGACA
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
93 26 0.27
94 26 0.27
95 44 0.46
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
TACCATGGTAAGGGTATCGATACCAAGCAACATCGAACATAATTTTGTATCGATACCCAAAGGGG
TATCGATACCATAATAGAGAAGTATCGA
Found at i:6389301 original size:21 final size:19
Alignment explanation
Indices: 6389272--6389310 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
6389262 GCAATTGTCA
6389272 TCATCTAATTAGAGATTAAAT
1 TCATCTAATT-GA-ATTAAAT
*
6389293 TCATTTAATTGAATTAAA
1 TCATCTAATTGAATTAAA
6389311 ATTAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
TCATCTAATTGAATTAAAT
Found at i:6391043 original size:23 final size:23
Alignment explanation
Indices: 6391000--6391060 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
6390990 TTATCAATAA
6391000 TAAAAATTAAATAAAATTTAAGATT
1 TAAAAATTAAATAAAATTT-A-ATT
6391025 TAAAAA-T-AATAAGAA-TTAATT
1 TAAAAATTAAATAA-AATTTAATT
6391046 T-AAAATTAAATAAAA
1 TAAAAATTAAATAAAA
6391061 GTTTTTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
20 4 0.12
21 7 0.21
22 6 0.18
23 7 0.21
24 3 0.09
25 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
TAAAAATTAAATAAAATTTAATT
Found at i:6392067 original size:21 final size:22
Alignment explanation
Indices: 6392028--6392069 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
6392018 AATCTAGAAG
6392028 ATAAAAATAAATTATTAAAAAAT
1 ATAAAAATAAA-TATTAAAAAAT
6392051 ATAAAAATAAA-ATTAAAAA
1 ATAAAAATAAATATTAAAAA
6392070 TATGATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAATAAATATTAAAAAAT
Found at i:6393129 original size:2 final size:2
Alignment explanation
Indices: 6393122--6393170 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6393112 CAAGTACGGA
6393122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6393164 AT AT AT A
1 AT AT AT A
6393171 GTTTCTCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6395263 original size:60 final size:60
Alignment explanation
Indices: 6395193--6395345 Score: 175
Period size: 59 Copynumber: 2.6 Consensus size: 60
6395183 TGTCCTAAAC
* * * * *
6395193 TGACTATCATTTTAAATTAGTCCTTAAACTTTTAAATATTCCAATTTCATATATAAA-TAA
1 TGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATACACAAACT-A
* * * * *
6395253 TGACTCTCATTCTAAATTAG-CCTTAAAATTTTTAACATTCGAATTTCATCCCCAAACTA
1 TGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATACACAAACTA
* *
6395312 TGAATCTCATTCTAAATTAGTCCCTAAACTTTTA
1 TGACTCTCATTCTAAATTAGTCCTTAAACTTTTA
6395346 TCCCAAATTC
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 48 0.62
60 29 0.38
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (60 bp):
TGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCCAATTTCATACACAAACTA
Found at i:6395478 original size:43 final size:42
Alignment explanation
Indices: 6395395--6395481 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
6395385 GTTTAACCTT
* **
6395395 TTTTTTTTAAACATATAATAATATAGTTTAGCCTAAATTTTA
1 TTTTTTTTAAAAATATAATAATATAACTTAGCCTAAATTTTA
6395437 TTTTTTTTAAAAATATAATAATATAACTT-GCCTAATGATTTTA
1 TTTTTTTTAAAAATATAATAATATAACTTAGCCTAA--ATTTTA
6395480 TT
1 TT
6395482 AACAATAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 6 0.15
42 26 0.65
43 8 0.20
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (42 bp):
TTTTTTTTAAAAATATAATAATATAACTTAGCCTAAATTTTA
Found at i:6396478 original size:47 final size:48
Alignment explanation
Indices: 6396394--6396488 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
6396384 ATCCCAGCTC
6396394 TTCTTAAACATATGTGAATTGAAGCAGCAGTACCAAAACTCGAGCTAA
1 TTCTTAAACATATGTGAATTGAAGCAGCAGTACCAAAACTCGAGCTAA
6396442 TTCTTAAACATATGTGAA-TGAAGCAGCAGTACCAAAACTCGAGCTAA
1 TTCTTAAACATATGTGAATTGAAGCAGCAGTACCAAAACTCGAGCTAA
6396489 AATTTCCGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 29 0.62
48 18 0.38
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (48 bp):
TTCTTAAACATATGTGAATTGAAGCAGCAGTACCAAAACTCGAGCTAA
Found at i:6404783 original size:19 final size:18
Alignment explanation
Indices: 6404748--6404782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6404738 AGTATGCTCG
6404748 GGGGAACCGATTCCCCCA
1 GGGGAACCGATTCCCCCA
*
6404766 GGGGTACCGATTCCCCC
1 GGGGAACCGATTCCCCC
6404783 CTTGTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (18 bp):
GGGGAACCGATTCCCCCA
Found at i:6410590 original size:23 final size:20
Alignment explanation
Indices: 6410539--6410598 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 20
6410529 TTTTGGTGCA
*
6410539 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
6410558 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
6410579 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
6410599 CCACAGGGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 3 0.08
22 1 0.03
23 16 0.44
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:6417200 original size:15 final size:15
Alignment explanation
Indices: 6417180--6417211 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6417170 AAAATATTTC
*
6417180 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
6417195 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
6417210 TT
1 TT
6417212 CGATCTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Found at i:6419187 original size:16 final size:16
Alignment explanation
Indices: 6419125--6419180 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
6419115 AATTATAATT
6419125 GAACCGAAGTCAACCC
1 GAACCGAAGTCAACCC
*
6419141 GAACCGAAGTCAACTC
1 GAACCGAAGTCAACCC
6419157 GAACCGAAGTCAACCC
1 GAACCGAAGTCAACCC
6419173 GAACCGAA
1 GAACCGAA
6419181 ATTAACCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.39, C:0.34, G:0.20, T:0.07
Consensus pattern (16 bp):
GAACCGAAGTCAACCC
Found at i:6419311 original size:3 final size:3
Alignment explanation
Indices: 6419298--6419345 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
6419288 AAGTGAATGA
*
6419298 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATCT ATT TTT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
6419345 A
1 A
6419346 ATTAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6420858 original size:39 final size:40
Alignment explanation
Indices: 6420814--6420893 Score: 153
Period size: 39 Copynumber: 2.0 Consensus size: 40
6420804 CGTTTATTAC
6420814 GGTTGCGGACATAACGGATGTCATTAC-GGTATCGCGGCT
1 GGTTGCGGACATAACGGATGTCATTACGGGTATCGCGGCT
6420853 GGTTGCGGACATAACGGATGTCATTACGGGTATCGCGGCT
1 GGTTGCGGACATAACGGATGTCATTACGGGTATCGCGGCT
6420893 G
1 G
6420894 TGAATATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 27 0.68
40 13 0.32
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (40 bp):
GGTTGCGGACATAACGGATGTCATTACGGGTATCGCGGCT
Found at i:6421160 original size:22 final size:22
Alignment explanation
Indices: 6421129--6421170 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6421119 AGAAATAAAT
6421129 CTCCCCTTCCCGACCTTTCTTC
1 CTCCCCTTCCCGACCTTTCTTC
* * *
6421151 CTCCCTTTCCTGATCTTTCT
1 CTCCCCTTCCCGACCTTTCT
6421171 GGTTTTGCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.48, G:0.05, T:0.43
Consensus pattern (22 bp):
CTCCCCTTCCCGACCTTTCTTC
Found at i:6423513 original size:12 final size:12
Alignment explanation
Indices: 6423498--6423523 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6423488 TTTAATTATT
6423498 ATTATAATAATA
1 ATTATAATAATA
6423510 ATTATAATAATA
1 ATTATAATAATA
6423522 AT
1 AT
6423524 AATTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTATAATAATA
Found at i:6423513 original size:15 final size:15
Alignment explanation
Indices: 6423490--6423527 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6423480 ATATTTTTTT
* *
6423490 TAATTATTATTATAA
1 TAATAATTATAATAA
6423505 TAATAATTATAATAA
1 TAATAATTATAATAA
6423520 TAATAATT
1 TAATAATT
6423528 TTTAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATTATAATAA
Found at i:6431028 original size:104 final size:104
Alignment explanation
Indices: 6430843--6431051 Score: 400
Period size: 104 Copynumber: 2.0 Consensus size: 104
6430833 TTGGAAGGGC
*
6430843 GTCAGAAACTTAAGCTTTGGAGGAGAGGAATGCTATATTTAGTTCTCTCCGAATTTTTCAAGAAA
1 GTCAAAAACTTAAGCTTTGGAGGAGAGGAATGCTATATTTAGTTCTCTCCGAATTTTTCAAGAAA
6430908 AATTGTTGGCTCACCAAAGGAAGCCTCGTTGATTGTAGG
66 AATTGTTGGCTCACCAAAGGAAGCCTCGTTGATTGTAGG
*
6430947 GTCAAAAACTTAAGTTTTGGAGGAGAGGAATGCTATATTTAGTTCTCTCCGAATTTTTCAAGAAA
1 GTCAAAAACTTAAGCTTTGGAGGAGAGGAATGCTATATTTAGTTCTCTCCGAATTTTTCAAGAAA
6431012 AATTGTTGGCTCACCAAAGGAAGCCTCGTTGATTGTAGG
66 AATTGTTGGCTCACCAAAGGAAGCCTCGTTGATTGTAGG
6431051 G
1 G
6431052 AGCACGTGGT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (104 bp):
GTCAAAAACTTAAGCTTTGGAGGAGAGGAATGCTATATTTAGTTCTCTCCGAATTTTTCAAGAAA
AATTGTTGGCTCACCAAAGGAAGCCTCGTTGATTGTAGG
Found at i:6432281 original size:21 final size:21
Alignment explanation
Indices: 6432255--6432295 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6432245 CAGTGTATCG
*
6432255 GTATAATATTAAGGTGCATCA
1 GTATAATATCAAGGTGCATCA
6432276 GTATAATATCAAGGTGCATC
1 GTATAATATCAAGGTGCATC
6432296 GATACCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (21 bp):
GTATAATATCAAGGTGCATCA
Found at i:6435261 original size:16 final size:16
Alignment explanation
Indices: 6435240--6435277 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6435230 TTTTAACGGG
6435240 AGATGCGCGAACATTT
1 AGATGCGCGAACATTT
**
6435256 AGATGCGCGAATGTTT
1 AGATGCGCGAACATTT
6435272 AGATGC
1 AGATGC
6435278 ACTCACACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (16 bp):
AGATGCGCGAACATTT
Found at i:6449023 original size:18 final size:19
Alignment explanation
Indices: 6449002--6449049 Score: 89
Period size: 18 Copynumber: 2.6 Consensus size: 19
6448992 ATAAAAAAAT
6449002 AAAAAAATTAAATTTTG-A
1 AAAAAAATTAAATTTTGAA
6449020 AAAAAAATTAAATTTTGAA
1 AAAAAAATTAAATTTTGAA
6449039 AAAAAAATTAA
1 AAAAAAATTAA
6449050 TTCACATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAAATTAAATTTTGAA
Found at i:6450071 original size:9 final size:10
Alignment explanation
Indices: 6450046--6450098 Score: 51
Period size: 9 Copynumber: 5.7 Consensus size: 10
6450036 AAAACAAAAC
6450046 ATAAA-AATA
1 ATAAATAATA
*
6450055 AGAAATAA-A
1 ATAAATAATA
6450064 ATAAATAATA
1 ATAAATAATA
6450074 AT-AATAATA
1 ATAAATAATA
* *
6450083 ATATATTATA
1 ATAAATAATA
6450093 A-AAATA
1 ATAAATA
6450099 TTTTCAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 24 0.69
10 11 0.31
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
ATAAATAATA
Found at i:6450167 original size:23 final size:24
Alignment explanation
Indices: 6450140--6450189 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
6450130 AAAAATGTTT
*
6450140 TTTTTAAAAACTATATAATATATA
1 TTTTAAAAAACTATATAATATATA
6450164 TTTTCAAAAAACTATATAATATATA
1 TTTT-AAAAAACTATATAATATATA
6450189 T
1 T
6450190 ATGTTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTTAAAAAACTATATAATATATA
Found at i:6450225 original size:36 final size:38
Alignment explanation
Indices: 6450170--6450301 Score: 162
Period size: 38 Copynumber: 3.5 Consensus size: 38
6450160 TATATTTTCA
6450170 AAAAACTATATAATATATATATGTTTTCAAAATGTTTT
1 AAAAACTATATAATATATATATGTTTTCAAAATGTTTT
* * *
6450208 AAAAGCTATATATTATATTTAT-TTTT-AAAATGTTTT
1 AAAAACTATATAATATATATATGTTTTCAAAATGTTTT
* * * *
6450244 AAAAACAATATAATATATAAACGCTTTCAAACATGTTTT
1 AAAAACTATATAATATATATATGTTTTCAAA-ATGTTTT
*
6450283 -CAAACTATATAATATATAT
1 AAAAACTATATAATATATAT
6450302 GTATGTGTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
36 26 0.33
37 7 0.09
38 38 0.49
39 7 0.09
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (38 bp):
AAAAACTATATAATATATATATGTTTTCAAAATGTTTT
Found at i:6461417 original size:18 final size:18
Alignment explanation
Indices: 6461394--6461429 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6461384 TTACCCCAGC
*
6461394 TCCTCTTGCATTTCCTCT
1 TCCTCTTGCATGTCCTCT
*
6461412 TCCTCTTTCATGTCCTCT
1 TCCTCTTGCATGTCCTCT
6461430 ATAACCATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.06, T:0.50
Consensus pattern (18 bp):
TCCTCTTGCATGTCCTCT
Found at i:6461761 original size:25 final size:25
Alignment explanation
Indices: 6461727--6461775 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6461717 ACCTTTTGGG
* *
6461727 CAACATAGGAAGAAATAGGTAATGA
1 CAACATAGGAAGAAACAAGTAATGA
6461752 CAACATAGGAAGAAACAAGTAATG
1 CAACATAGGAAGAAACAAGTAATG
6461776 GCAATAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.14
Consensus pattern (25 bp):
CAACATAGGAAGAAACAAGTAATGA
Found at i:6463010 original size:20 final size:20
Alignment explanation
Indices: 6462985--6463023 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6462975 AATCTTACTT
*
6462985 GGGGGTATCAGTACTCTCTA
1 GGGGGTATCAGTACCCTCTA
*
6463005 GGGGGTATCGGTACCCTCT
1 GGGGGTATCAGTACCCTCT
6463024 GGACAATCTA
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:0.15, C:0.23, G:0.33, T:0.28
Consensus pattern (20 bp):
GGGGGTATCAGTACCCTCTA
Found at i:6465235 original size:13 final size:13
Alignment explanation
Indices: 6465217--6465250 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6465207 ATGGGCAATT
6465217 TTTGAAAACCAA-G
1 TTTGAAAA-CAAGG
6465230 TTTGAAAACAAGG
1 TTTGAAAACAAGG
6465243 TTTGAAAA
1 TTTGAAAA
6465251 TCAATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (13 bp):
TTTGAAAACAAGG
Found at i:6469451 original size:20 final size:21
Alignment explanation
Indices: 6469412--6469451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6469402 GAAGCTTTAA
* *
6469412 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
6469433 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
6469452 AAGTAAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:6471612 original size:20 final size:20
Alignment explanation
Indices: 6471587--6471625 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6471577 AATCTTACAT
*
6471587 GGGGTATCGGTACCCTCTGA
1 GGGGTATCAGTACCCTCTGA
6471607 GGGGTATCAGTACCCTCTG
1 GGGGTATCAGTACCCTCTG
6471626 GACAATCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGGTATCAGTACCCTCTGA
Found at i:6476285 original size:21 final size:22
Alignment explanation
Indices: 6476238--6476294 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
6476228 CTTTTTTAAT
*
6476238 TAATTAATTT-AATAATATATA
1 TAATTAATTTAAATAATATAAA
6476259 TAATTAATTTGAAATAATA-AAA
1 TAATTAATTT-AAATAATATAAA
*
6476281 T-ATTAAATTAAATA
1 TAATTAATTTAAATA
6476295 GTATTTACGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 17 0.53
22 3 0.09
23 7 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTAATTTAAATAATATAAA
Found at i:6482432 original size:28 final size:28
Alignment explanation
Indices: 6482397--6482464 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
6482387 AAGAGAGTGC
6482397 AATTGATAGAGGGAGAAATTGCAAAGAA
1 AATTGATAGAGGGAGAAATTGCAAAGAA
* * *
6482425 AATTGATAGAGCGAGCAATTGCAAAGGA
1 AATTGATAGAGGGAGAAATTGCAAAGAA
6482453 AATTGATAGAGG
1 AATTGATAGAGG
6482465 AACATTTCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (28 bp):
AATTGATAGAGGGAGAAATTGCAAAGAA
Found at i:6496015 original size:14 final size:14
Alignment explanation
Indices: 6495975--6496007 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6495965 TTTGATGCTT
*
6495975 TCTCTTTGATTCTC
1 TCTCATTGATTCTC
6495989 TCTCATTGATTCTC
1 TCTCATTGATTCTC
6496003 TCTCA
1 TCTCA
6496008 ATTCTTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.06, T:0.52
Consensus pattern (14 bp):
TCTCATTGATTCTC
Found at i:6496254 original size:19 final size:19
Alignment explanation
Indices: 6496226--6496280 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
6496216 TATAAGACTT
6496226 AGTGCATCGGTACACTAGG
1 AGTGCATCGGTACACTAGG
*
6496245 AGTTCATCGGTACACTAGG
1 AGTGCATCGGTACACTAGG
*
6496264 GGTGCATCGGTACACTA
1 AGTGCATCGGTACACTA
6496281 ATTACATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (19 bp):
AGTGCATCGGTACACTAGG
Found at i:6496956 original size:2 final size:2
Alignment explanation
Indices: 6496949--6497028 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
6496939 AACCAAACAA
6496949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6496991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6497029 TAAGTTCAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6502909 original size:22 final size:21
Alignment explanation
Indices: 6502867--6502906 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6502857 AAGACTATTT
6502867 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
6502888 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
6502907 ATAAAGTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:6504353 original size:15 final size:15
Alignment explanation
Indices: 6504333--6504405 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
6504323 TAATAAGGTT
6504333 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
6504348 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
*
6504367 TTGATTTATTTTTAAATA
1 ---ATTTATTTTAAAATA
6504385 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
6504399 ATTTATT
1 ATTTATT
6504406 AGTATGGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
14 12 0.25
15 16 0.33
16 4 0.08
17 2 0.04
18 1 0.02
19 1 0.02
20 2 0.04
21 3 0.06
22 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:6504383 original size:22 final size:22
Alignment explanation
Indices: 6504348--6504489 Score: 158
Period size: 22 Copynumber: 6.3 Consensus size: 22
6504338 TTTTAAAATA
*
6504348 ATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* ** *
6504370 ATTTATTTTTAAATAATTTATTTT
1 ATTTATTTTAAAAT-ATGGA-TTG
** * * *
6504394 AAATAATTTATTAGTATGGATTG
1 ATTTATTTTA-AAATATGGATTG
*
6504417 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
6504439 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
6504461 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
6504483 ATTTATT
1 ATTTATT
6504490 ATTGTAGTTG
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
22 71 0.74
23 12 0.12
24 11 0.11
25 2 0.02
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:6504395 original size:14 final size:14
Alignment explanation
Indices: 6504370--6504405 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
6504360 ATATGGATTG
6504370 ATTTATTTTTAAATA
1 ATTTA-TTTTAAATA
6504385 ATTTATTTTAAATA
1 ATTTATTTTAAATA
6504399 ATTTATT
1 ATTTATT
6504406 AGTATGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:6504420 original size:47 final size:51
Alignment explanation
Indices: 6504333--6504431 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 51
6504323 TAATAAGGTT
*
6504333 ATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTTAAATA
1 ATTTATTTTAAAATAATTTATTAT-AAATATGGATTGATTTATTTTAAAATA
*
6504385 ATTTATTTT-AAATAATTTA-T-T-AGTATGGATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAATATGGATTGATTTATTTTAAAATA
6504432 TGAATTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
47 24 0.53
49 1 0.02
50 1 0.02
51 10 0.22
52 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (51 bp):
ATTTATTTTAAAATAATTTATTATAAATATGGATTGATTTATTTTAAAATA
Found at i:6504540 original size:32 final size:32
Alignment explanation
Indices: 6504499--6504691 Score: 212
Period size: 32 Copynumber: 6.7 Consensus size: 32
6504489 TATTGTAGTT
6504499 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
6504531 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
6504554 -TATGGATTGATTTATTTTATATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
6504585 GTATGGATTGATTTA-TTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
6504616 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
6504639 -TATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
6504670 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
6504692 ATATGGATTG
Statistics
Matches: 137, Mismatches: 4, Indels: 40
0.76 0.02 0.22
Matches are distributed among these distances:
22 28 0.20
23 7 0.05
25 2 0.01
26 6 0.04
28 6 0.04
29 2 0.01
31 36 0.26
32 50 0.36
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Done.