Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 104 of 322
Found at i:33893185 original size:3 final size:3
Alignment explanation
Indices: 33893177--33893238 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
33893167 TCATATCCTT
*
33893177 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33893225 TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TT
33893239 TTTGCCATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:33901698 original size:21 final size:22
Alignment explanation
Indices: 33901659--33901701 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
33901649 GGTCTACTTA
33901659 TTTAAACAAGAATTCAAATATT
1 TTTAAACAAGAATTCAAATATT
* *
33901681 TTTAAA-AATAATTTAAATATT
1 TTTAAACAAGAATTCAAATATT
33901702 ATATGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTAAACAAGAATTCAAATATT
Found at i:33904644 original size:16 final size:15
Alignment explanation
Indices: 33904618--33904647 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33904608 TGACTCTAGG
33904618 TTGATTAATTAAAAT
1 TTGATTAATTAAAAT
33904633 TTGATCTAATTAAAA
1 TTGAT-TAATTAAAA
33904648 CCCTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
TTGATTAATTAAAAT
Found at i:33906695 original size:24 final size:24
Alignment explanation
Indices: 33906664--33906712 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
33906654 TAACAAATAA
*
33906664 AAATAAAACAACTGAAAAT-AAAAT
1 AAATAAAACAAAT-AAAATGAAAAT
33906688 AAATAAAACAAATAAAATGAAAAT
1 AAATAAAACAAATAAAATGAAAAT
33906712 A
1 A
33906713 GATCAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAACAAATAAAATGAAAAT
Found at i:33906990 original size:16 final size:15
Alignment explanation
Indices: 33906969--33907002 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33906959 TAATAGTTAA
33906969 AATAATAAACTAAAAT
1 AATAATAAA-TAAAAT
*
33906985 AATAATAAATATAAT
1 AATAATAAATAAAAT
33907000 AAT
1 AAT
33907003 TGTTATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATAAATAAAAT
Found at i:33909235 original size:12 final size:12
Alignment explanation
Indices: 33909218--33909243 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33909208 CTCTAAATAA
33909218 TAGCTAAATCAT
1 TAGCTAAATCAT
33909230 TAGCTAAATCAT
1 TAGCTAAATCAT
33909242 TA
1 TA
33909244 CTTATGAAAA
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
TAGCTAAATCAT
Found at i:33911721 original size:30 final size:30
Alignment explanation
Indices: 33911637--33911714 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
33911627 GGCACATGGC
* * *
33911637 CGTGTCTCTAGCCCATGTGTCTCACACGGT
1 CGTGTCTCTAGCCCGTGTGTCTCACACAGA
* *
33911667 CGTGTCTCTAACCCGTGTGTCTCACATAGA
1 CGTGTCTCTAGCCCGTGTGTCTCACACAGA
33911697 CGTGTCTCTAGCCCGTGT
1 CGTGTCTCTAGCCCGTGT
33911715 AACTCACTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.31
Consensus pattern (30 bp):
CGTGTCTCTAGCCCGTGTGTCTCACACAGA
Found at i:33919961 original size:6 final size:6
Alignment explanation
Indices: 33919941--33919975 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
33919931 AAGGAATTTT
*
33919941 AAAT-A AAATAG AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
33919976 TAGTAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:33924305 original size:18 final size:19
Alignment explanation
Indices: 33924284--33924324 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33924274 AATGAAATGG
33924284 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
33924302 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
33924321 GAAA
1 GAAA
33924325 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:33926481 original size:41 final size:40
Alignment explanation
Indices: 33926405--33926490 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
33926395 CAAATACATT
*
33926405 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATTATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATAA
* * * * **
33926446 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
33926486 TAAAA
1 TAAAA
33926491 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.22
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:33927448 original size:16 final size:16
Alignment explanation
Indices: 33927427--33927461 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33927417 TTATCATACT
33927427 TTCCTTATTAAATCTA
1 TTCCTTATTAAATCTA
33927443 TTCCTTATTAAATCTA
1 TTCCTTATTAAATCTA
33927459 TTC
1 TTC
33927462 ATTAACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (16 bp):
TTCCTTATTAAATCTA
Found at i:33927738 original size:47 final size:44
Alignment explanation
Indices: 33927637--33927800 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 44
33927627 ATGTGCTAAC
* * *
33927637 GCATGTCCCAGACATGTCTTACACTAGCACGATGCT-TAGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACCAT-CTCTAGGCGAT
* *
33927681 GCATGTCCCAGACACGTCTTACACTGGCTACCATCATCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTGGC-ACCATC-TCTAGGC-GAT
*
33927728 GCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCAC-CATCTCTA-GGCGAT
33927774 GCCATGTCCCAGACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
33927801 AGCTCTCACA
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 27 0.26
45 5 0.05
46 12 0.12
47 50 0.48
48 10 0.10
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTGGCACCATCTCTAGGCGAT
Found at i:33936608 original size:16 final size:15
Alignment explanation
Indices: 33936587--33936621 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
33936577 AATATAAACA
33936587 AAATTGAAATAAAATT
1 AAATTGAAATAAAA-T
*
33936603 AAATTGGAATAAAAT
1 AAATTGAAATAAAAT
33936618 AAAT
1 AAAT
33936622 GGCTAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AAATTGAAATAAAAT
Found at i:33938969 original size:37 final size:37
Alignment explanation
Indices: 33938912--33938987 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
33938902 AGTATGATTG
* *
33938912 GTAAGGTTCGTGACCAATTTAATTACTGTATTTTTAT
1 GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
* * *
33938949 GTAAGATTCGAGACCTATTTAATTATTGTCTTTTTAT
1 GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
33938986 GT
1 GT
33938988 CTTTTCGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (37 bp):
GTAAGATTCGAGACCAATTTAATTACTGTATTTTTAT
Found at i:33939692 original size:18 final size:18
Alignment explanation
Indices: 33939671--33939716 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
33939661 ATATTAAATG
*
33939671 TAAAAATGTGATTTTTAA
1 TAAAAATGTGATTTTAAA
33939689 TAAAAAT-T-ATTTTAAA
1 TAAAAATGTGATTTTAAA
*
33939705 GATAAAATGTGA
1 TA-AAAATGTGA
33939717 AACTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAAAATGTGATTTTAAA
Found at i:33939988 original size:16 final size:16
Alignment explanation
Indices: 33939967--33939997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33939957 GGGGAAAATA
*
33939967 AAAAGTTTTGGGGGAT
1 AAAAGTTTTGAGGGAT
33939983 AAAAGTTTTGAGGGA
1 AAAAGTTTTGAGGGA
33939998 AAGTAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (16 bp):
AAAAGTTTTGAGGGAT
Found at i:33940295 original size:27 final size:27
Alignment explanation
Indices: 33940265--33940316 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33940255 GGATGGAAGG
* *
33940265 GGAGTAAAAGTTTTGAGGGGAAAGTGA
1 GGAGTAAAAGTTTTAAGGGAAAAGTGA
33940292 GGAGTAAAAGTTTTAAGGGAAAAGT
1 GGAGTAAAAGTTTTAAGGGAAAAGT
33940317 AAAAAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (27 bp):
GGAGTAAAAGTTTTAAGGGAAAAGTGA
Found at i:33945526 original size:26 final size:26
Alignment explanation
Indices: 33945497--33945560 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
33945487 AACCAAGATG
*
33945497 GGTCGGAGG-TCTCTTAAGTTTGAGTA
1 GGTCGGAGGACCT-TTAAGTTTGAGTA
* *
33945523 GGTCGGAGGACCTTTGAGTTTGAGTT
1 GGTCGGAGGACCTTTAAGTTTGAGTA
*
33945549 GGTCAGAGGACC
1 GGTCGGAGGACC
33945561 ATGAGCGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 31 0.94
27 2 0.06
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.30
Consensus pattern (26 bp):
GGTCGGAGGACCTTTAAGTTTGAGTA
Found at i:33946475 original size:12 final size:12
Alignment explanation
Indices: 33946458--33946487 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33946448 GGCCACACAC
33946458 GGCCGTGTGCCA
1 GGCCGTGTGCCA
*
33946470 GGCCGTGTGCTA
1 GGCCGTGTGCCA
33946482 GGCCGT
1 GGCCGT
33946488 TCCAAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.43, T:0.20
Consensus pattern (12 bp):
GGCCGTGTGCCA
Found at i:33948298 original size:23 final size:23
Alignment explanation
Indices: 33948267--33948318 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
33948257 TATTTATCTA
*
33948267 ACAACAAGCATGCATTGTCTATC
1 ACAAAAAGCATGCATTGTCTATC
* *
33948290 ACAAAAAGCATGTATTTTCTATC
1 ACAAAAAGCATGCATTGTCTATC
33948313 ATCAAA
1 A-CAAA
33948319 CATCAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
ACAAAAAGCATGCATTGTCTATC
Found at i:33951814 original size:7 final size:7
Alignment explanation
Indices: 33951799--33951856 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
33951789 TGAACCATAT
*
33951799 ACCTCAA
1 ACCTTAA
33951806 ACCTTAA
1 ACCTTAA
33951813 ACAC--AA
1 AC-CTTAA
33951819 ACC-TAA
1 ACCTTAA
*
33951825 ACCCTAA
1 ACCTTAA
*
33951832 ACCTTGA
1 ACCTTAA
*
33951839 ACCTTGA
1 ACCTTAA
33951846 ACCTTAA
1 ACCTTAA
33951853 ACCT
1 ACCT
33951857 CGAATCTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 1 0.02
6 9 0.20
7 33 0.75
8 1 0.02
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.21
Consensus pattern (7 bp):
ACCTTAA
Found at i:33951935 original size:13 final size:13
Alignment explanation
Indices: 33951914--33951939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33951904 CTAGGTTTAA
33951914 AGTTTAGGGTTTG
1 AGTTTAGGGTTTG
33951927 AGTTTAGGGTTTG
1 AGTTTAGGGTTTG
33951940 GGGCCCGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
AGTTTAGGGTTTG
Found at i:33952067 original size:28 final size:27
Alignment explanation
Indices: 33952034--33952094 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
33952024 AGGGTTTAGT
33952034 GTTTAAGGCTCATGGTTTGATGTTTGGG
1 GTTTAAGGCTCATGGTTTGAT-TTTGGG
*
33952062 GTTTAAGGTTCATGGTTTGATTTTGGG
1 GTTTAAGGCTCATGGTTTGATTTTGGG
*
33952089 GCTTAA
1 GTTTAA
33952095 AAAATTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 11 0.35
28 20 0.65
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (27 bp):
GTTTAAGGCTCATGGTTTGATTTTGGG
Found at i:33952850 original size:17 final size:17
Alignment explanation
Indices: 33952828--33952860 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33952818 TTTGATGTAT
33952828 TATATTTAAAAA-AATAA
1 TATA-TTAAAAATAATAA
33952845 TATATTAAAAATAATA
1 TATATTAAAAATAATA
33952861 TAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATATTAAAAATAATAA
Found at i:33952866 original size:12 final size:12
Alignment explanation
Indices: 33952836--33952873 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
33952826 ATTATATTTA
33952836 AAAAAATAATAT
1 AAAAAATAATAT
33952848 ATTAAAAATAATAT
1 A--AAAAATAATAT
33952862 AAAAAATAATAT
1 AAAAAATAATAT
33952874 GGGCTGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:33958197 original size:20 final size:20
Alignment explanation
Indices: 33958172--33958209 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
33958162 TACACATATA
33958172 TATACCATAGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
33958192 TATACCATAGTTAAGACT
1 TATACCATAGTTAAGACT
33958210 ATAATTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
TATACCATAGTTAAGACTTT
Found at i:33959374 original size:20 final size:20
Alignment explanation
Indices: 33959336--33959383 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33959326 CCAACCTTTT
33959336 AAATATAATTTAAAACTAAAG
1 AAATA-AATTTAAAACTAAAG
* * *
33959357 TAATAAATTTGAATCTAAAG
1 AAATAAATTTAAAACTAAAG
33959377 AAATAAA
1 AAATAAA
33959384 AACAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAATTTAAAACTAAAG
Found at i:33961075 original size:20 final size:20
Alignment explanation
Indices: 33961045--33961083 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33961035 AAAATAGTGA
33961045 AAATTTATTTTCTA-AATAT
1 AAATTTATTTTCTAGAATAT
33961064 AAATTATATTTTCTAGAATA
1 AAATT-TATTTTCTAGAATA
33961084 ACAATTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTTATTTTCTAGAATAT
Found at i:33963791 original size:23 final size:23
Alignment explanation
Indices: 33963719--33963802 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 23
33963709 CTCAGGGGCG
* * *
33963719 TTACAGAATGTGCCATACAGGCG
1 TTACAGAATATGCCATATAGGCA
* * * * *
33963742 TCACATAATACGCTATATAGGCT
1 TTACAGAATATGCCATATAGGCA
33963765 TTACAGAATATGCCATATAGGCA
1 TTACAGAATATGCCATATAGGCA
* *
33963788 TTACCGGATATGCCA
1 TTACAGAATATGCCA
33963803 CAAAGACTTT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (23 bp):
TTACAGAATATGCCATATAGGCA
Found at i:33971267 original size:27 final size:27
Alignment explanation
Indices: 33971236--33971413 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33971226 TAAATTGTAC
33971236 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33971263 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33971289 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33971317 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33971345 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33971372 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33971399 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33971414 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33971350 original size:82 final size:81
Alignment explanation
Indices: 33971237--33971392 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33971227 AAATTGTACA
* *
33971237 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33971301 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33971318 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33971383 TGCGAGTTGA
65 TGCGAATTGA
33971393 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33971404 original size:82 final size:81
Alignment explanation
Indices: 33971233--33971413 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33971223 GATTAAATTG
* *
33971233 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33971298 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33971314 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33971378 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33971396 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33971414 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33971424 original size:27 final size:27
Alignment explanation
Indices: 33971318--33971424 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
33971308 TGACCATGCG
* * * *
33971318 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
33971346 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
33971373 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
33971400 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
33971425 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:33979456 original size:27 final size:27
Alignment explanation
Indices: 33979425--33979602 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33979415 TAAATTGTAC
33979425 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33979452 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33979478 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33979506 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33979534 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33979561 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33979588 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33979603 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33979539 original size:82 final size:81
Alignment explanation
Indices: 33979426--33979581 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33979416 AAATTGTACA
* *
33979426 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33979490 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33979507 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33979572 TGCGAGTTGA
65 TGCGAATTGA
33979582 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33979593 original size:82 final size:81
Alignment explanation
Indices: 33979422--33979602 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33979412 GATTAAATTG
* *
33979422 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33979487 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33979503 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33979567 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33979585 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33979603 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33981837 original size:24 final size:24
Alignment explanation
Indices: 33981778--33981837 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
33981768 ACTATTATCC
33981778 ATTTTAAATT-TTATATATTATTT
1 ATTTTAAATTATTATATATTATTT
*
33981801 ATTTTAAACTATTATATATTATTT
1 ATTTTAAATTATTATATATTATTT
*
33981825 ATTTTGAATTATT
1 ATTTTAAATTATT
33981838 TTTTTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAAATTATTATATATTATTT
Found at i:33981988 original size:27 final size:26
Alignment explanation
Indices: 33981859--33982061 Score: 134
Period size: 26 Copynumber: 7.9 Consensus size: 26
33981849 ATCTTTTGTT
* * *
33981859 TTTAAATCGTTTTGTATATTATTTAT
1 TTTAAATTGTTTTATATATTATTTAC
* *
33981885 TTTAAATTTCTTTTTACATATTATTTA-
1 TTTAAA-TT-GTTTTATATATTATTTAC
* * * **
33981912 TCTTGAACTCTTTTATATGCTA--T--
1 T-TTAAATTGTTTTATATATTATTTAC
* * *
33981935 TTTAAAGTGTCTTATATATTATATAC
1 TTTAAATTGTTTTATATATTATTTAC
* *
33981961 TTTAAAATTGCTTTGTATATTATTTAC
1 TTT-AAATTGTTTTATATATTATTTAC
* * *
33981988 TTTAATTTGTTTTACATATTGA-TTAT
1 TTTAAATTGTTTTATATATT-ATTTAC
33982014 TTTAAATTG-TTT-TATATTATTTAC
1 TTTAAATTGTTTTATATATTATTTAC
*
33982038 TTCAAATTGTTTTATATATTATTT
1 TTTAAATTGTTTTATATATTATTT
33982062 TGTTTCGTTT
Statistics
Matches: 135, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
22 14 0.10
23 2 0.01
24 18 0.13
25 6 0.04
26 52 0.39
27 25 0.19
28 18 0.13
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATATATTATTTAC
Found at i:33984006 original size:19 final size:19
Alignment explanation
Indices: 33983982--33984025 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33983972 GCCTCTTTTT
*
33983982 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
*
33984001 TGCATTGTATTTCATCATA
1 TGCATTGCATTTCATCATA
33984020 TGCATT
1 TGCATT
33984026 AAATTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:33984031 original size:19 final size:20
Alignment explanation
Indices: 33983989--33984033 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
33983979 TTTTGCATTC
* **
33983989 ATTTCATGCATCTGCATTGT
1 ATTTCATGCATATGCATTAA
33984009 ATTTCAT-CATATGCATTAA
1 ATTTCATGCATATGCATTAA
33984028 ATTTCA
1 ATTTCA
33984034 CAAAAGGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTTCATGCATATGCATTAA
Found at i:33988218 original size:45 final size:45
Alignment explanation
Indices: 33988114--33988934 Score: 476
Period size: 45 Copynumber: 17.8 Consensus size: 45
33988104 ATAGTGGATT
* * ** * *
33988114 TTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCACTAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAATC
* **
33988158 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAATC
* * * *
33988203 TTATTTCCCTAAAGTTGTAGT-G-G-A-A---CAGATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAATC
** * *
33988241 TTATCTCCCTGAAGTTGCAGTGGAATAG-GTCAGAGA-TAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATTA-CAAATC
* * * * * * *
33988286 TTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAG-CTATAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAATC
* * *
33988330 TTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAG-TTACAACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTAC-A-AA-TC
* * * *
33988377 TTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGA-TAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAATC
* ** *
33988422 TTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATTACAAATC
* * *
33988473 TTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATTACAAATC
* * *
33988524 TTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATTACAAATC
* ** * *
33988575 TCATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGA-AAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAATC
* * *
33988620 TTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGA-TAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAATC
* * * * *
33988665 TTATTTCCCTAAAGTTGCAGTGGATCAAATTAAGGTTACAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATTACAAATC
* * * *
33988716 TCATCTCCGTGAAGTTGCAGTGGAGCAGATTGAAGA-AAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAATC
* *
33988761 TTATCTCCCTGAAGTTGCAGTGGAACA-AGTTGAA-ATTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATTACAAATC
* * * *
33988805 TTATTTTCCTGAAGTTGCAGTGGAACAGATTAGGGCTAAAAATTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G---AAGATTACAAATC
* * * *
33988856 TCATATCCCTGAGGTTGCAGTGGAGCA-AGTTGAA-ATTACCAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATTA-CAAATC
** **
33988901 TTATCTCCCTGAAGTTTTAGTGGAGTGGATTGAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
33988935 ACACTAATTC
Statistics
Matches: 627, Mismatches: 104, Indels: 91
0.76 0.13 0.11
Matches are distributed among these distances:
38 28 0.04
39 1 0.00
41 2 0.00
42 1 0.00
43 1 0.00
44 110 0.18
45 228 0.36
46 9 0.01
47 35 0.06
48 4 0.01
50 5 0.01
51 199 0.32
52 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAATC
Found at i:33988317 original size:83 final size:83
Alignment explanation
Indices: 33988157--33988309 Score: 200
Period size: 83 Copynumber: 1.8 Consensus size: 83
33988147 AGCCACTAAC
* * * * *
33988157 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATCTTATTTCCCTAAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
*
33988222 GTGGAACAGATTACAAAT
66 GTAGAACAGATTACAAAT
* * * *
33988240 CTTATCTCCCTGAAGTTGCAGTGGAATAGGTCAG-AGATAGCAAATCTTATCTCTCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAACA-GACAGAAGATAGCAAATCTTATCTCCCTAAAGTTGC
33988304 AGTAGA
65 AGTAGA
33988310 GTAGATTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 56 0.95
84 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (83 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
GTAGAACAGATTACAAAT
Found at i:33988494 original size:51 final size:49
Alignment explanation
Indices: 33988418--33988879 Score: 379
Period size: 51 Copynumber: 9.6 Consensus size: 49
33988408 AAAGATAGCG
*
33988418 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG-TA-AAATTACA
*
33988469 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG-TA-AAATTACA
*
33988520 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG-TA-AAATTACA
* * ** * * *
33988571 AATCTCATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAG--AAA--GCA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGTAAAATTACA
* * *
33988616 AGTCTTATCTT-CCTGAAGTTGCAGTGGAGCAGACTAAAG----A-TAGCA
1 AATCTTAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGTAAAATTA-CA
* * * *
33988661 AATCTTATTTCCCTAAAGTTGCAGTGGATCAAATTAAGGTTACAAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG-TA-AAATTACA
* * * * * *
33988712 AATCTCATCTCCGTGAAGTTGCAGTGGAGCAGATTGAAG--AAA--GCA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGTAAAATTACA
* *
33988757 AGTCTTATCTCCCTGAAGTTGCAGTGGAACA-AGTT---G--AAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGA-TTAAAGTAAAATTACA
* * **
33988801 AGTCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAGGGCTAAAAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG-T-AAAATTACA
* * *
33988852 AATCTCATATCCCTGAGGTTGCAGTGGA
1 AATCTTATTTCCCTGAAGTTGCAGTGGA
33988880 GCAAGTTGAA
Statistics
Matches: 344, Mismatches: 45, Indels: 44
0.79 0.10 0.10
Matches are distributed among these distances:
42 4 0.01
43 1 0.00
44 36 0.10
45 96 0.28
46 1 0.00
47 7 0.02
51 197 0.57
52 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (49 bp):
AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGTAAAATTACA
Found at i:33988729 original size:96 final size:94
Alignment explanation
Indices: 33988467--33988787 Score: 298
Period size: 96 Copynumber: 3.4 Consensus size: 94
33988457 CTACAAATTA
* *
33988467 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTTATTTCC
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGG-TACAAATTACAAATCTTATCT-C
*
33988532 CTGAAGTTGCAGTGGAACAGATTAAGGCTACAA-ATTA-
64 CTGAAGTTGCAGTGGAGCAG----A--CTA-AAGA-TAG
* ** * * *
33988569 CAAATCTCATCTCTTTGAAGTTGCAGTGGAGCAGATTGAA-G---AAA--GCAAGTCTTATCTTC
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAGGTACAAATTACAAATCTTATC-TC
33988628 CTGAAGTTGCAGTGGAGCAGACTAAAGATAG
64 CTGAAGTTGCAGTGGAGCAGACTAAAGATAG
* * * * *
33988659 CAAATCTTATTTCCCTAAAGTTGCAGTGGATCAAATTAAGGTTACAAATTACAAATCTCATCTCC
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGG-TACAAATTACAAATCTTATCTCC
* * *
33988724 GTGAAGTTGCAGTGGAGCAGATTGAAGAAAG
65 -TGAAGTTGCAGTGGAGCAGACTAAAGATAG
*
33988755 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACA
33988788 AGTTGAAATT
Statistics
Matches: 181, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
89 6 0.03
90 35 0.19
92 1 0.01
94 3 0.02
95 3 0.02
96 94 0.52
97 1 0.01
98 3 0.02
102 33 0.18
103 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (94 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGGTACAAATTACAAATCTTATCTCCT
GAAGTTGCAGTGGAGCAGACTAAAGATAG
Found at i:33988731 original size:141 final size:140
Alignment explanation
Indices: 33988516--33988925 Score: 549
Period size: 141 Copynumber: 2.9 Consensus size: 140
33988506 GGCTACAAAT
33988516 TACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTCATCT
1 TACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTCATCT
** *
33988581 CTTTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTTCCTGAAGTTGCAGTGGAGC
66 CCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
33988646 -AGACT-AAAGA
131 AAG-CTGAAA-A
* * * *
33988656 TAGCAAATCTTATTTCCCTAAAGTTGCAGTGGATCAAATTAAGGTTACAAATTACAAATCTCATC
1 TA-CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTCATC
* *
33988721 TCCGTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAA
65 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* *
33988786 CAAGTTGAAAT
130 CAAGCTGAAAA
* * * * *
33988797 TACAAGTCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAGGGCTAAAAATTACAAATCTCATAT
1 TACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTCATCT
* * * * **
33988862 CCCTGAGGTTGCAGTGGAGCA-AGTTGAA-ATTACCAATTCTTATCTCCCTGAAGTTTTAGTGGA
66 CCCTGAAGTTGCAGTGGAGCAGA-TTGAAGA-AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGA
33988925 G
129 G
33988926 TGGATTGAAA
Statistics
Matches: 238, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
139 2 0.01
140 108 0.45
141 123 0.52
142 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (140 bp):
TACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGGCTACAAATTACAAATCTCATCT
CCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
AAGCTGAAAA
Found at i:33990579 original size:24 final size:23
Alignment explanation
Indices: 33990537--33990588 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
33990527 ACTATTATCC
*
33990537 ATTTTAAATTTTATATATTATTT
1 ATTTTAAATATTATATATTATTT
33990560 ATTTTAAACTATTATATATTATTT
1 ATTTTAAA-TATTATATATTATTT
33990584 ATTTT
1 ATTTT
33990589 GAATTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTAAATATTATATATTATTT
Found at i:33990651 original size:26 final size:25
Alignment explanation
Indices: 33990621--33990823 Score: 121
Period size: 26 Copynumber: 8.0 Consensus size: 25
33990611 TGTCTTTTGT
*
33990621 TTTTAAACCTTTTTGTATATTATTTA
1 TTTTAAA-CTTTTTATATATTATTTA
*
33990647 TTTTAAATTTCTTTTTACATATTATTTA
1 TTTTAAA---CTTTTTATATATTATTTA
* * * **
33990675 TCTTGAACTCTTT-TATA-T-GCTA
1 TTTTAAACTTTTTATATATTATTTA
* *
33990697 TTTTAAAGTGTCTTATATATTATTTA
1 TTTTAAACT-TTTTATATATTATTTA
* *
33990723 CTTTAAA-TTGCTTTGTATATTATTTA
1 TTTTAAACTT--TTTATATATTATTTA
** * *
33990749 TTTTAATTTGTTTTACATATTAATTA
1 TTTTAAACT-TTTTATATATTATTTA
33990775 TTTTAAA-TTGTTT-TATATTATTTA
1 TTTTAAACTT-TTTATATATTATTTA
* *
33990799 CTTTAAATTGTTTTATATATTATTT
1 TTTTAAACT-TTTTATATATTATTT
33990824 TGTTTCGTTT
Statistics
Matches: 135, Mismatches: 28, Indels: 28
0.71 0.15 0.15
Matches are distributed among these distances:
22 8 0.06
23 3 0.02
24 24 0.18
25 15 0.11
26 62 0.46
27 1 0.01
28 22 0.16
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (25 bp):
TTTTAAACTTTTTATATATTATTTA
Found at i:33990742 original size:50 final size:48
Alignment explanation
Indices: 33990641--33990823 Score: 145
Period size: 50 Copynumber: 3.6 Consensus size: 48
33990631 TTTTGTATAT
* * * *
33990641 TATTTATTTTAAATTTCTTTTTACATATTATTTA-TCTTGAACT-CTTTTA
1 TATTTATTTTAAA-TT-GTTTTATATATTATTTACT-TTAAATTGCTTTTA
* * *
33990690 TATGCTATTTTAAAGTGTCTTATATATTATTTACTTTAAATTGCTTTGTATA
1 TAT-TTATTTTAAATTGTTTTATATATTATTTACTTTAAATTGC-TT-T-TA
* * * * *
33990742 TTATTTATTTTAATTTGTTTTACATATTAATTATTTTAAATTGTTTTATA
1 -TATTTATTTTAAATTGTTTTATATATTATTTACTTTAAATTGCTTT-TA
*
33990792 TTATTTACTTTAAATTGTTTTATATATTATTT
1 -TATTTATTTTAAATTGTTTTATATATTATTT
33990824 TGTTTCGTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
48 19 0.18
49 6 0.06
50 43 0.40
51 3 0.03
52 34 0.31
53 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (48 bp):
TATTTATTTTAAATTGTTTTATATATTATTTACTTTAAATTGCTTTTA
Found at i:33990839 original size:102 final size:102
Alignment explanation
Indices: 33990632--33990823 Score: 253
Period size: 102 Copynumber: 1.9 Consensus size: 102
33990622 TTTAAACCTT
* * *
33990632 TTTGTATATTATTTATTTTAAATTTCTTTTTACATATTATTTATCTTGAACTCTTTTATATGCTA
1 TTTGTATATTATTTATTTTAAATTTCGTTTTACATATTAATTATCTTAAACTCTTTTATATGCTA
*
33990697 TTTTAAAGTGTCTTATATATTATTTACTTTAAATTGC
66 CTTTAAAGTGTCTTATATATTATTTACTTTAAATTGC
* * * **
33990734 TTTGTATATTATTTATTTT-AATTT-GTTTTACATATTAATTATTTTAAATTGTTTTATATTATT
1 TTTGTATATTATTTATTTTAAATTTCGTTTTACATATTAATTATCTTAAACTCTTTTATA-T-GC
* *
33990797 TACTTTAAATTGTTTTATATATTATTT
64 TACTTTAAAGTGTCTTATATATTATTT
33990824 TGTTTCGTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 28 0.36
101 6 0.08
102 43 0.56
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (102 bp):
TTTGTATATTATTTATTTTAAATTTCGTTTTACATATTAATTATCTTAAACTCTTTTATATGCTA
CTTTAAAGTGTCTTATATATTATTTACTTTAAATTGC
Found at i:33996892 original size:10 final size:11
Alignment explanation
Indices: 33996865--33996892 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33996855 CGATCTAGTC
33996865 AGAAAAAGTGA
1 AGAAAAAGTGA
33996876 AGAAAAAGTGA
1 AGAAAAAGTGA
33996887 AGAAAA
1 AGAAAA
33996893 TTCTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (11 bp):
AGAAAAAGTGA
Found at i:33998039 original size:60 final size:60
Alignment explanation
Indices: 33997971--33998093 Score: 228
Period size: 60 Copynumber: 2.0 Consensus size: 60
33997961 GTATTCTAAG
33997971 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
1 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
* *
33998031 TGTTCAACGGGTATGTTAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACATGTA
1 TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
33998091 TGT
1 TGT
33998094 ACGAAAAACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (60 bp):
TGTTCAACGGGTATGTCAAGAACAAGAAAGAGTATGTTAAGTCACGAGTTGGTACAGGTA
Found at i:33999789 original size:20 final size:19
Alignment explanation
Indices: 33999766--33999822 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
33999756 TAGTTTCTCG
33999766 AAATCCATTATTTTTTCCCC
1 AAATCCATTA-TTTTTCCCC
33999786 AAAT--A--A-TTTTCCCC
1 AAATCCATTATTTTTCCCC
*
33999800 AAATCCCTTAGTTTTTCCCC
1 AAATCCATTA-TTTTTCCCC
33999820 AAA
1 AAA
33999823 CGTCTGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
14 12 0.40
16 1 0.03
18 2 0.07
20 15 0.50
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATCCATTATTTTTCCCC
Found at i:33999804 original size:34 final size:34
Alignment explanation
Indices: 33999742--33999822 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
33999732 ATAGCCTTAG
* * * *
33999742 TTTTATCCCCAAATTAGTTTCTCGAAATCCATTA
1 TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
* *
33999776 TTTTTTCCCCAAATAATTTTCCCCAAATCCCTTA
1 TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
*
33999810 GTTTTTCCCCAAA
1 TTTTTTCCCCAAA
33999823 CGTCTGTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.04, T:0.41
Consensus pattern (34 bp):
TTTTTTCCCCAAATAAGTTTCCCCAAATCCATTA
Found at i:34002885 original size:26 final size:26
Alignment explanation
Indices: 34002856--34002965 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
34002846 TGGTACAAAT
34002856 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
34002882 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* * *
34002908 AGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34002934 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
34002960 TGATAA
1 TGATAA
34002966 GAATTTCATG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:34008128 original size:93 final size:94
Alignment explanation
Indices: 34008025--34008214 Score: 260
Period size: 93 Copynumber: 2.0 Consensus size: 94
34008015 AAGAACTAAA
* *
34008025 AGGCTTAAATATG-ATTATTTAATGTTTCT-AAAGGGCTCGAGGGTTAAAATTTT-TGTAATTAG
1 AGGCTTAAATA-GAATTATTTAAT-TTTCTAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAG
* * *
34008087 ATAACCAAAATTGAAATGCTTTAAACGTTAG
64 ATAACCAAAATTGAAATACTCTAAAAGTTAG
* * * *
34008118 AGGCTTAAATAGAATTATTTAATTTTTTAAAAGGGCTTGAAGTTTAAAATTTTCTGCAATTGGAT
1 AGGCTTAAATAGAATTATTTAATTTTCTAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAGAT
34008183 AACCAAAATTGAAATACTCTAAAAGTTAG
66 AACCAAAATTGAAATACTCTAAAAGTTAG
34008212 AGG
1 AGG
34008215 ACCATTGGTG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
92 5 0.06
93 42 0.49
94 38 0.45
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.36
Consensus pattern (94 bp):
AGGCTTAAATAGAATTATTTAATTTTCTAAAAGGGCTCGAAGGTTAAAATTTTCTGCAATTAGAT
AACCAAAATTGAAATACTCTAAAAGTTAG
Found at i:34008991 original size:21 final size:21
Alignment explanation
Indices: 34008967--34009006 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34008957 ACTCTTGGAA
*
34008967 GAGGAAGAGGAGGAGGAAGTG
1 GAGGAAGAAGAGGAGGAAGTG
34008988 GAGGAAGAAGAGGAGGAAG
1 GAGGAAGAAGAGGAGGAAG
34009007 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (21 bp):
GAGGAAGAAGAGGAGGAAGTG
Found at i:34009005 original size:12 final size:12
Alignment explanation
Indices: 34008970--34009007 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
34008960 CTTGGAAGAG
*
34008970 GAAGAGGAGGAG
1 GAAGAGGAGGAA
*
34008982 GAAGTGGAGGAA
1 GAAGAGGAGGAA
34008994 GAAGAGGAGGAA
1 GAAGAGGAGGAA
34009006 GA
1 GA
34009008 GTCGGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (12 bp):
GAAGAGGAGGAA
Found at i:34011178 original size:47 final size:47
Alignment explanation
Indices: 34011127--34011219 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
34011117 CATTAACCTT
* *
34011127 TGTTTTTCTTTTTCAATTTGTTTTTTTTAATAAATTTAATGAAAGTG
1 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGTG
34011174 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGT
1 TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGT
34011220 ATGGTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (47 bp):
TGTTTTTCTTTATCAATTTGTTTTTTCTAATAAATTTAATGAAAGTG
Found at i:34014476 original size:26 final size:26
Alignment explanation
Indices: 34014447--34014499 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34014437 TGAGATCCAT
34014447 TACAAATAACTTTTAAAAGTAATGTA
1 TACAAATAACTTTTAAAAGTAATGTA
34014473 TACAAATAACTTTTAAAAGTAATGTA
1 TACAAATAACTTTTAAAAGTAATGTA
34014499 T
1 T
34014500 TAACCATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (26 bp):
TACAAATAACTTTTAAAAGTAATGTA
Found at i:34016215 original size:21 final size:21
Alignment explanation
Indices: 34016191--34016231 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34016181 AGCCAAAAAT
*
34016191 CTCTAAAAATTCTCTTTAAAG
1 CTCTAAAAATTCTCATTAAAG
* *
34016212 CTCTCAAATTTCTCATTAAA
1 CTCTAAAAATTCTCATTAAA
34016232 TTTCTCAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (21 bp):
CTCTAAAAATTCTCATTAAAG
Found at i:34018542 original size:26 final size:26
Alignment explanation
Indices: 34018513--34018575 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
34018503 TATTGTTTCA
34018513 TTTAATAAAAAAGAATTTTTTA-ATAT
1 TTTAATAAAAAAGAATTTTTTATAT-T
** **
34018539 TTTAATTGTAAATTAATTTTTTATATT
1 TTTAA-TAAAAAAGAATTTTTTATATT
34018566 TTTAATAAAA
1 TTTAATAAAA
34018576 TATAAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 8 0.28
27 19 0.66
28 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TTTAATAAAAAAGAATTTTTTATATT
Found at i:34018583 original size:27 final size:27
Alignment explanation
Indices: 34018513--34018593 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 27
34018503 TATTGTTTCA
34018513 TTTAATAAAA-A-AGAATTTTTTAATAT
1 TTTAATAAAATATA-AATTTTTTAATAT
*
34018539 TTTAATTGTAAAT-T-AATTTTTT-ATATT
1 TTTAA-T-AAAATATAAATTTTTTAATA-T
34018566 TTTAATAAAATATAAATTCTTTTGAATA
1 TTTAATAAAATATAAATT-TTTT-AATA
34018594 AGGCGGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
25 4 0.09
26 10 0.23
27 19 0.44
28 7 0.16
30 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (27 bp):
TTTAATAAAATATAAATTTTTTAATAT
Found at i:34020596 original size:49 final size:49
Alignment explanation
Indices: 34020439--34020615 Score: 187
Period size: 49 Copynumber: 3.6 Consensus size: 49
34020429 GATAAGATGC
* *
34020439 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGT
1 CAATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATCAATGT
* * * * *
34020487 CAATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCAATGC
1 CAATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAATGT
* * * * **
34020536 CGACGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CAATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAATGT
* * *
34020585 TAATGCTATGTCCCAGACGGGTCTTACACTG
1 CAATGCCATGTCCCAGACAGGTCTTACACTG
34020616 ACACACAACA
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 16 0.15
48 18 0.17
49 72 0.68
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
CAATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAATGT
Found at i:34020608 original size:98 final size:91
Alignment explanation
Indices: 34020443--34020657 Score: 225
Period size: 98 Copynumber: 2.3 Consensus size: 91
34020433 AGATGCCAAT
* *
34020443 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCAGATAGG
1 GCCATGTCCCAGATA-GGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCAGACAGG
* *
34020508 TCTTACACTGACTTTCATATATCAATGCCGAC
65 TCTTACACTGAC--ACACA-A-CAA-GCCGAC
** *** * * *
34020540 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGTTAATGCTATGTCCCAGACGG
1 GCCATGTCCCAGATAGGTCTTACACTGGCTAGCA-C-ATCAAAGTCAATGCCATGTCCCAGACAG
*
34020605 GTCTTACACTGACACACAACAAGCTGAC
64 GTCTTACACTGACACACAACAAGCCGAC
*
34020633 GCCAT-TCCCAGATAGGTCTAACACT
1 GCCATGTCCCAGATAGGTCTTACACT
34020658 AGCTTGTATA
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
92 19 0.19
93 10 0.10
94 3 0.03
95 1 0.01
96 20 0.20
97 15 0.15
98 34 0.33
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (91 bp):
GCCATGTCCCAGATAGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCAGACAGGT
CTTACACTGACACACAACAAGCCGAC
Found at i:34020745 original size:46 final size:44
Alignment explanation
Indices: 34020678--34020798 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 44
34020668 TCTCGAGGCT
* *
34020678 GATGTATGTCCCAGACATGTCTTACACT-AGCTCTCGTGTCAATGT-C
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTCT--TAT-AATGTAC
* *
34020724 GATGCATGTCCTAGACGTGTCTTACACTGACTCTTATAATGTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGACTCTTATAATGTA--C
34020770 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
34020799 GCACACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 5 0.08
44 2 0.03
46 57 0.88
47 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTCTTATAATGTAC
Found at i:34026606 original size:12 final size:12
Alignment explanation
Indices: 34026589--34026613 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34026579 CAGAGGCTAT
34026589 TAACAATATTTA
1 TAACAATATTTA
34026601 TAACAATATTTA
1 TAACAATATTTA
34026613 T
1 T
34026614 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:34030307 original size:17 final size:17
Alignment explanation
Indices: 34030285--34030318 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34030275 ATAGATTCGC
*
34030285 TTAGATACACTTAGTAT
1 TTAGATACAATTAGTAT
*
34030302 TTAGATATAATTAGTAT
1 TTAGATACAATTAGTAT
34030319 AATATACGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (17 bp):
TTAGATACAATTAGTAT
Found at i:34031155 original size:31 final size:31
Alignment explanation
Indices: 34031117--34031195 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
34031107 TTTAACGATT
34031117 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
34031148 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
34031179 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34031196 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:34031266 original size:42 final size:42
Alignment explanation
Indices: 34031219--34031310 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34031209 TGGCCCTTAG
* ** *
34031219 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34031261 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34031303 GCCCATTT
1 GCCCATTT
34031311 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:34031486 original size:25 final size:25
Alignment explanation
Indices: 34031458--34031527 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
34031448 CTCTTTTAAT
*
34031458 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34031483 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34031508 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34031528 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34032366 original size:27 final size:27
Alignment explanation
Indices: 34032336--34032400 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
34032326 GGGCATATTC
34032336 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
34032363 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
34032390 GTCTTTTTACC
1 GTCATTTTACC
34032401 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:34032567 original size:27 final size:27
Alignment explanation
Indices: 34032434--34032685 Score: 195
Period size: 27 Copynumber: 9.3 Consensus size: 27
34032424 CATCCTACAA
* * * *
34032434 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** ** *
34032461 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
34032488 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-CCAG
** *
34032517 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
**
34032544 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
34032570 AAGGTGTTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* *
34032598 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
34032625 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34032652 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34032679 TGGTATT
1 GGGTATT
34032686 GGGGTATTTT
Statistics
Matches: 182, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 150 0.82
28 15 0.08
29 15 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:34032700 original size:62 final size:62
Alignment explanation
Indices: 34032624--34032747 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
34032614 TTACAAACTA
*
34032624 GGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTAGTAATTTTACAAACCAGTGGTATT
1 GGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTAGTAATTTTACAAACCAATGGTATT
** * * **
34032686 GGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATT
1 GGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACCAATGGTATT
34032748 TTAGTAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 53 0.98
63 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (62 bp):
GGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAACCAATGGTATT
Found at i:34032772 original size:27 final size:27
Alignment explanation
Indices: 34032687--34032772 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
34032677 AGTGGTATTG
*
34032687 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTT-CTAAATCGA
* * *
34032714 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTCTAAATCGA
* * *
34032741 TGGTATTTTAGTAATTTTTTAAATCGA
1 GGGTATTTTGGTAATTTTCTAAATCGA
34032768 GGGTA
1 GGGTA
34032773 AACAGTAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTCTAAATCGA
Found at i:34032816 original size:27 final size:27
Alignment explanation
Indices: 34032750--34032852 Score: 136
Period size: 27 Copynumber: 3.9 Consensus size: 27
34032740 ATGGTATTTT
* *
34032750 AGTAATTTTTTAAATCGAGGGT-AAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
34032776 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
34032803 AATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
34032830 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
34032853 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 19 0.29
27 47 0.71
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:34032863 original size:54 final size:54
Alignment explanation
Indices: 34032724--34032879 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 54
34032714 GGGTATTTTG
* * * * * *
34032724 GTAATTTTGTAAACCAATGGTATTTTAGTAATTTTTTAAATCGAGGGT-AAACA
1 GTAATTCTATAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
* ** * * *
34032777 GTAATTCTGTAAATCAAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
* * * * *
34032831 GTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTA
34032880 TTTCAATAAT
Statistics
Matches: 82, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 39 0.48
54 43 0.52
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (54 bp):
GTAATTCTATAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACA
Found at i:34034241 original size:13 final size:13
Alignment explanation
Indices: 34034223--34034250 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34034213 GTTATTCATA
34034223 ATTAATATGAATT
1 ATTAATATGAATT
34034236 ATTAATATGAATT
1 ATTAATATGAATT
34034249 AT
1 AT
34034251 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:34034563 original size:17 final size:17
Alignment explanation
Indices: 34034541--34034579 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
34034531 CTGACTCCAT
*
34034541 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
34034558 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
34034575 TTTTA
1 TTTTA
34034580 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:34038964 original size:48 final size:48
Alignment explanation
Indices: 34038893--34039057 Score: 174
Period size: 48 Copynumber: 3.5 Consensus size: 48
34038883 AGCTGACGCA
* * * * *
34038893 ATGTCCCAGATAGGTCTAACACTAGCTTGTATATCTTGAGGCCGATGT
1 ATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGCCGATGC
* ** * *
34038941 ATGTCCCAGACATGTCTTACACTAGC-TCT-CGTC-TCAATGCCAATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAA-GCCGATGC
* * *
34038987 ATGTCCTAGAGATGTCTTACACTGGCTTGTATATCTTGAAGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGCCGATGC
*
34039035 ATGTCCCAAACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
34039058 TACTCTCATA
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
45 2 0.02
46 31 0.34
47 4 0.04
48 52 0.57
49 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
ATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGCCGATGC
Found at i:34039081 original size:94 final size:93
Alignment explanation
Indices: 34038906--34039106 Score: 246
Period size: 94 Copynumber: 2.1 Consensus size: 93
34038896 TCCCAGATAG
* * * *
34038906 GTCTAACACTAGCTTGTATATCTTGAGGCCGATGTATGTCCCAGACATGTCTTACACTAGCTCTC
1 GTCTTACACTAGCTTGTATATCTTGAAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC
* *
34038971 GTCTCAATGCCAATGCATGTCCTAGAGAT
66 G-ATCAATGCCAATGCATGTCCTAGACAT
*
34039000 GTCTTACACTGGCTTGTATATCTTGAAGCCGATGCATGTCCCAAACATGTCTTACACTTA-CTCT
1 GTCTTACACTAGCTTGTATATCTTGAAGCCGATGCATGTCCCAAACATGTCTTACAC-TAGCTCT
* * *
34039064 C-AT-AATGTGGTCGATGCATGTCCTTGACAT
65 CGATCAA--T-GCCAATGCATGTCCTAGACAT
34039094 GTCTTACACTAGC
1 GTCTTACACTAGC
34039107 ACACATATCA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 86 0.93
95 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (93 bp):
GTCTTACACTAGCTTGTATATCTTGAAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC
GATCAATGCCAATGCATGTCCTAGACAT
Found at i:34043970 original size:126 final size:124
Alignment explanation
Indices: 34043740--34044111 Score: 494
Period size: 126 Copynumber: 3.0 Consensus size: 124
34043730 CAAGCATGAA
* * * * *
34043740 TACTGTAGAAAAAAGAGCGTCTACGTGAGAGCTTTTTTCAGAAATTTTGCTGGCAGTGCATCCTA
1 TACTGTAG-AAAAAGAGCGTCTACGTGGGAGCTTTTTTCATAAATTTTGCTGACAGTGCATCTTC
* * *
34043805 TTTGAAGCGTTTCTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTATTTTAAGAAC
65 TTT-AAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATT-TTTTAAGAAC
* * * *
34043867 TACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGATAGTGTATCTTGC
1 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCATAAATTTTGCTGACAGTGCATCTT-C
* * *
34043932 TTTAAACCTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAGGAAC
65 TTTAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTTAAGAAC
* * * *
34043993 TACTGTAGAAAAAGAGCGTCTACGTGGGTGCTTTTTTC-TGTAATTTTACTAACAGTGCATCCTT
1 TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCAT-AAATTTTGCTGACAGTGCAT-CTT
*
34044057 CTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
64 CTTTAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
34044112 CAAGGTCAAA
Statistics
Matches: 216, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
125 7 0.03
126 193 0.89
127 16 0.07
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (124 bp):
TACTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTCATAAATTTTGCTGACAGTGCATCTTCT
TTAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTAAGAAC
Found at i:34044211 original size:35 final size:30
Alignment explanation
Indices: 34044170--34044293 Score: 86
Period size: 35 Copynumber: 3.8 Consensus size: 30
34044160 TTAAAAAAAA
34044170 CTAAACCCTAATTTAATTAATTTTAATCGTAAACC
1 CTAAACCCTAATTTAATTAATTTT-A----AAACC
* * *
34044205 CTAAACCTTAATTTTATTTATTTTAAAACC
1 CTAAACCCTAATTTAATTAATTTTAAAACC
* *
34044235 CTAGAACCCTAATTTACTTAATTCATTTAAAAATC
1 CTA-AACCCTAATTTAATTAA-T--TTT-AAAACC
* * *
34044270 ATAAACCCTAATTCAAATAATTTT
1 CTAAACCCTAATTTAATTAATTTT
34044294 TATAAAACAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
30 8 0.11
31 16 0.22
32 1 0.01
33 1 0.01
34 18 0.25
35 28 0.39
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (30 bp):
CTAAACCCTAATTTAATTAATTTTAAAACC
Found at i:34045284 original size:35 final size:30
Alignment explanation
Indices: 34045243--34045366 Score: 86
Period size: 35 Copynumber: 3.8 Consensus size: 30
34045233 TTAAAAAAAA
34045243 CTAAACCCTAATTTAATTAATTTTAATCGTAAACC
1 CTAAACCCTAATTTAATTAATTTT-A----AAACC
* * *
34045278 CTAAACCTTAATTTTATTTATTTTAAAACC
1 CTAAACCCTAATTTAATTAATTTTAAAACC
* *
34045308 CTAGAACCCTAATTTACTTAATTCATTTAAAAATC
1 CTA-AACCCTAATTTAATTAA-T--TTT-AAAACC
* * *
34045343 ATAAACCCTAATTCAAATAATTTT
1 CTAAACCCTAATTTAATTAATTTT
34045367 TATAAAACAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
30 8 0.11
31 16 0.22
32 1 0.01
33 1 0.01
34 18 0.25
35 28 0.39
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (30 bp):
CTAAACCCTAATTTAATTAATTTTAAAACC
Found at i:34050394 original size:17 final size:17
Alignment explanation
Indices: 34050372--34050413 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
34050362 ATATACAACT
34050372 GATAGTTTGAAAAGTTG
1 GATAGTTTGAAAAGTTG
34050389 GATAGTTTGAAAAGTTG
1 GATAGTTTGAAAAGTTG
*
34050406 GTTAGTTT
1 GATAGTTT
34050414 ATGTTGACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (17 bp):
GATAGTTTGAAAAGTTG
Found at i:34052553 original size:138 final size:137
Alignment explanation
Indices: 34052303--34053069 Score: 552
Period size: 138 Copynumber: 5.7 Consensus size: 137
34052293 CTTAGTATTA
* * * * ** *
34052303 TATAAAGG-TTTCTCGGTTTATGACCGCAACCTCCAAAACTAGCTAGTGGACCTACACTCCCAAC
1 TATAAAGGTTTTC-CAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGC
* * * * * * * * *
34052367 CATTGTTCTAAGAGCTCGTAAAGTCAAGCTCGA-AACTCCAACACAGCTAGCAGGCCTACTCTCC
65 TAGTATTCTAAGAGCTTGCAGAGTTAAGCTC-ACAGCTCCAACACAGCTAGC-GACCTACTCTCC
*
34052431 CAGCTAGTGT
128 TAGCTAGTGT
* * * * *
34052441 TATAAAGGTTTGCCAATTTATAATCGCAACCTCTAAAAATAACTAGTGGACTTATGCTCCCAGCT
1 TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGCT
* * * * * *
34052506 AGTATTCTAAGAGCTTGCAGAATAAAGCTCACAGCTCCAACATAGCTAACGGATCTA-TGCACCT
66 AGTATTCTAAGAGCTTGCAGAGTTAAGCTCACAGCTCCAACACAGCTAGC-GACCTACT-CTCCT
*
34052570 AGCTAATGT
129 AGCTAGTGT
* * ** * ** * * * *
34052579 TATAATGGTTTTCCAATTTATAATCGCAACCTTTAAAAACAATTAGTGGACCCACGCTCCTAGTT
1 TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGCT
* * *
34052644 AGTATTTTAAGAGC-T-C--------G--CA-A-CTCCAACACAGCTAGCAGACCTACGCTTCTA
66 AGTATTCTAAGAGCTTGCAGAGTTAAGCTCACAGCTCCAACACAGCTAGC-GACCTACTCTCCTA
34052695 GCT-GATGT
130 GCTAG-TGT
* * * *
34052703 TATAAAGGTTTGCCGGTTTACAATTGCAACCTCCAAAAATAGCTAGCT-GACCTATGCTCCCAGC
1 TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAG-TGGACCTATGCTCCCAGC
* * ** * *
34052767 TAGTATTCTAAAAGCTCGCAGAGTTAAGCTTGCAGCTCCAACACAGCTAACGAACCTACACTCCT
65 TAGTATTCTAAGAGCTTGCAGAGTTAAGCTCACAGCTCCAACACAGCTAGCG-ACCTACTCTCCT
34052832 AGCT-GATGT
129 AGCTAG-TGT
* * * * *
34052841 TATAAAGGTTTTTCGGTTTATGATCGCAACCTCCAAAAATAGCTAGCGGACCTATGCTCCCAACT
1 TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGCT
* * ** ** * * * * *
34052906 GGTATTCTAAGAGCTTGTAGAGTTAAGCTTGCAGCTCTTACATAGGTAGTGAACGTA-TGCTCCC
66 AGTATTCTAAGAGCTTGCAGAGTTAAGCTCACAGCTCCAACACAGCTAGCG-ACCTACT-CTCCT
34052970 AGCTTA-TGT
129 AGC-TAGTGT
* * * * * * *
34052979 TATAAAGGTTTTCCAGTTTATGATTGCAACCTCCAAAAACAGCTAGTAGACCTACGCTCCTAACT
1 TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGCT
* * *
34053044 AATATTCTAAGAGCTCGAAGAGTTAA
66 AGTATTCTAAGAGCTTGCAGAGTTAA
34053070 ACTATCAGCT
Statistics
Matches: 501, Mismatches: 103, Indels: 50
0.77 0.16 0.08
Matches are distributed among these distances:
124 89 0.18
125 2 0.00
126 3 0.01
128 1 0.00
134 1 0.00
136 1 0.00
137 5 0.01
138 395 0.79
139 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (137 bp):
TATAAAGGTTTTCCAGTTTATAATCGCAACCTCCAAAAATAGCTAGTGGACCTATGCTCCCAGCT
AGTATTCTAAGAGCTTGCAGAGTTAAGCTCACAGCTCCAACACAGCTAGCGACCTACTCTCCTAG
CTAGTGT
Found at i:34052800 original size:70 final size:68
Alignment explanation
Indices: 34052726--34052938 Score: 155
Period size: 70 Copynumber: 3.1 Consensus size: 68
34052716 CGGTTTACAA
*
34052726 TTGCAACCTCCAAAAATAGCTAGCTGACCTATGCTCCCAGCTAGTATTCTAAAAGCTCGCAGAGT
1 TTGCAACCTCCAAAAATAGCTAGC-GACCTATGCTCCCAGCT-GTATTCTAAAAGCTTGCAGAGT
34052791 TAAGC
64 TAAGC
* * * * ** * * * * * *
34052796 TTGC-AGCTCC-AACACAGCTAACGAACCTACACTCCTAGCTGATGTTATAAAGGTTTTTC-G-G
1 TTGCAACCTCCAAAAATAGCTAGCG-ACCTATGCTCCCAGCTG-TATTCTAAAAG-CTTGCAGAG
* *
34052857 TTTATGA
63 -TTAAGC
* * * *
34052864 TCGCAACCTCCAAAAATAGCTAGCGGACCTATGCTCCCAACTGGTATTCTAAGAGCTTGTAGAGT
1 TTGCAACCTCCAAAAATAGCTAGC-GACCTATGCTCCCAGCT-GTATTCTAAAAGCTTGCAGAGT
34052929 TAAGC
64 TAAGC
34052934 TTGCA
1 TTGCA
34052939 GCTCTTACAT
Statistics
Matches: 99, Mismatches: 34, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
67 3 0.03
68 38 0.38
69 14 0.14
70 41 0.41
71 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (68 bp):
TTGCAACCTCCAAAAATAGCTAGCGACCTATGCTCCCAGCTGTATTCTAAAAGCTTGCAGAGTTA
AGC
Found at i:34052869 original size:262 final size:262
Alignment explanation
Indices: 34052393--34052872 Score: 658
Period size: 262 Copynumber: 1.8 Consensus size: 262
34052383 CGTAAAGTCA
* *
34052393 AGCTCGAAACTCCAACACAGCTAGCAGGCCTACTCTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
1 AGCTCGAAACTCCAACACAGCTAGCAGACCTACGCTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
* * * * *
34052458 TTATAATCGCAACCTCTAAAAATAACTAGTGGACTTATGCTCCCAGCTAGTATTCTAAGAGCTTG
66 TTACAATCGCAACCTCCAAAAATAACTAGTGGACCTATGCTCCCAGCTAGTATTCTAAAAGCTCG
* * * ** *
34052523 CAGAATAAAGCTCACAGCTCCAACATAGCTAACGGATCTATGCACCTAGCTAATGTTATAATGGT
131 CAGAATAAAGCTCACAGCTCCAACACAGCTAACGAACCTACACACCTAGCTAATGTTATAAAGGT
34052588 TTTCCAATTTATAATCGCAACCTTTAAAAACAATTAGTGGACCCACGCTCCTAGTTAGTATTTTA
196 TTTCCAATTTATAATCGCAACCTTTAAAAACAATTAGTGGACCCACGCTCCTAGTTAGTATTTTA
34052653 AG
261 AG
* * * **
34052655 AGCTCGCAACTCCAACACAGCTAGCAGACCTACGCTTCTAGCT-GATGTTATAAAGGTTTGCCGG
1 AGCTCGAAACTCCAACACAGCTAGCAGACCTACGCTCCCAGCTAG-TGTTATAAAGGTTTGCCAA
* *
34052719 TTTACAATTGCAACCTCCAAAAATAGCTAGCT-GACCTATGCTCCCAGCTAGTATTCTAAAAGCT
65 TTTACAATCGCAACCTCCAAAAATAACTAG-TGGACCTATGCTCCCAGCTAGTATTCTAAAAGCT
* * ** * *
34052783 CGCAGAGTTAAGCTTGCAGCTCCAACACAGCTAACGAACCTACACTCCTAGCTGATGTTATAAAG
129 CGCAGAATAAAGCTCACAGCTCCAACACAGCTAACGAACCTACACACCTAGCTAATGTTATAAAG
* ** *
34052848 GTTTTTCGGTTTATGATCGCAACCT
194 GTTTTCCAATTTATAATCGCAACCT
34052873 CCAAAAATAG
Statistics
Matches: 186, Mismatches: 30, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
261 1 0.01
262 184 0.99
263 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (262 bp):
AGCTCGAAACTCCAACACAGCTAGCAGACCTACGCTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
TTACAATCGCAACCTCCAAAAATAACTAGTGGACCTATGCTCCCAGCTAGTATTCTAAAAGCTCG
CAGAATAAAGCTCACAGCTCCAACACAGCTAACGAACCTACACACCTAGCTAATGTTATAAAGGT
TTTCCAATTTATAATCGCAACCTTTAAAAACAATTAGTGGACCCACGCTCCTAGTTAGTATTTTA
AG
Found at i:34053057 original size:400 final size:400
Alignment explanation
Indices: 34052328--34053060 Score: 891
Period size: 400 Copynumber: 1.8 Consensus size: 400
34052318 GTTTATGACC
* * * * *
34052328 GCAACCTCCAAAACTAGCTAGTGGACCTACACTCCCAACCATTGTTCTAAGAGCTCGTAAAGTCA
1 GCAACCTCCAAAAATAGCTAGTGGACCTACACTCCCAACCAGTATTCTAAAAGCTCGCAAAGTCA
* * *
34052393 AGCTCGAAACTCCAACACAGCTAGCAGGCCTACTCTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
66 AGCTCGAAACTCCAACACAGCTAACAGACCTACACTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
* * * *
34052458 TTATAATCGCAACCTCTAAAAATAACTAGTGGACTTATGCTCCCAGCTAGTATTCTAAGAGCTTG
131 TTATAATCGCAACCTCCAAAAATAACTAGCGGACCTATGCTCCCAACTAGTATTCTAAGAGCTTG
* * *
34052523 CAGAATAAAGCTCACAGCTCCAACATAGCTAACGGATCTATGCACCTAGCTAATGTTATAATGGT
196 CAGAATAAAGCTCACAGCTCCAACATAGCTAACGGAACTATGCACCCAGCTAATGTTATAAAGGT
** * * ** * *
34052588 TTTCCAATTTATAATCGCAACCTTTAAAAACAATTAGTGGACCCACGCTCCTAGTTAGTATTTTA
261 TTTCCAATTTATAATCGCAACCTCCAAAAACAACTAGTAGACCCACGCTCCTAACTAATATTCTA
34052653 AGAGCTCGCAACTCCAACACAGCTAGCAGACCTACGCTTCTAGCTGATGTTATAAAGGTTTGCCG
326 AGAGCTCGCAACTCCAACACAGCTAGCAGACCTACGCTTCTAGCTGATGTTATAAAGGTTTGCCG
34052718 GTTTACAATT
391 GTTTACAATT
** * * * *
34052728 GCAACCTCCAAAAATAGCTAGCT-GACCTATGCTCCCAGCTAGTATTCTAAAAGCTCGCAGAGTT
1 GCAACCTCCAAAAATAGCTAG-TGGACCTACACTCCCAACCAGTATTCTAAAAGCTCGCAAAGTC
* * * * **
34052792 AAGCTTGCAGCTCCAACACAGCTAAC-GAACCTACACTCCTAGCT-GATGTTATAAAGGTTTTTC
65 AAGCTCGAAACTCCAACACAGCTAACAG-ACCTACACTCCCAGCTAG-TGTTATAAAGGTTTGCC
** * * *
34052855 GGTTTATGATCGCAACCTCCAAAAATAGCTAGCGGACCTATGCTCCCAACTGGTATTCTAAGAGC
128 AATTTATAATCGCAACCTCCAAAAATAACTAGCGGACCTATGCTCCCAACTAGTATTCTAAGAGC
* * * ** ** * * *
34052920 TTGTAGAGTTAAGCTTGCAGCTCTTACATAGGT-A-GTGAACGTATGCTCCCAGCTTATGTTATA
193 TTGCAGAATAAAGCTCACAGCTCCAACATAGCTAACG-GAAC-TATGCACCCAGCTAATGTTATA
* * * * *
34052983 AAGGTTTTCCAGTTTATGATTGCAACCTCCAAAAACAGCTAGTAGACCTACGCTCCTAACTAATA
256 AAGGTTTTCCAATTTATAATCGCAACCTCCAAAAACAACTAGTAGACCCACGCTCCTAACTAATA
34053048 TTCTAAGAGCTCG
321 TTCTAAGAGCTCG
34053061 AAGAGTTAAA
Statistics
Matches: 273, Mismatches: 55, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
398 1 0.00
399 6 0.02
400 265 0.97
401 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (400 bp):
GCAACCTCCAAAAATAGCTAGTGGACCTACACTCCCAACCAGTATTCTAAAAGCTCGCAAAGTCA
AGCTCGAAACTCCAACACAGCTAACAGACCTACACTCCCAGCTAGTGTTATAAAGGTTTGCCAAT
TTATAATCGCAACCTCCAAAAATAACTAGCGGACCTATGCTCCCAACTAGTATTCTAAGAGCTTG
CAGAATAAAGCTCACAGCTCCAACATAGCTAACGGAACTATGCACCCAGCTAATGTTATAAAGGT
TTTCCAATTTATAATCGCAACCTCCAAAAACAACTAGTAGACCCACGCTCCTAACTAATATTCTA
AGAGCTCGCAACTCCAACACAGCTAGCAGACCTACGCTTCTAGCTGATGTTATAAAGGTTTGCCG
GTTTACAATT
Found at i:34053242 original size:17 final size:16
Alignment explanation
Indices: 34053220--34053345 Score: 83
Period size: 17 Copynumber: 7.4 Consensus size: 16
34053210 AAATCCACCC
*
34053220 AAGTTCAGAACTTGCTT
1 AAGTTCA-AAATTGCTT
*
34053237 AAGTTCAAAATATCCTT
1 AAGTTCAAAAT-TGCTT
*
34053254 AAGTTCAAATTTTGCTT
1 AAGTTCAAA-ATTGCTT
**
34053271 AAGCCCAAAATTTG-TT
1 AAGTTCAAAA-TTGCTT
34053287 GAAAGTTCAAAATTTGCTT
1 --AAGTTCAAAA-TTGCTT
* *
34053306 AAGTTCAAGATTGGATT
1 AAGTTCAAAATT-GCTT
*
34053323 AAATTCAAAAATTGCTT
1 AAGTTC-AAAATTGCTT
*
34053340 GAGTTC
1 AAGTTC
34053346 GTAGAAAGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
16 7 0.08
17 58 0.68
18 18 0.21
19 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (16 bp):
AAGTTCAAAATTGCTT
Found at i:34059606 original size:16 final size:15
Alignment explanation
Indices: 34059566--34059609 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
34059556 TAAAGCATGC
*
34059566 ATTTTAAAAATTATA
1 ATTTTAAAAATTAAA
*
34059581 ATTTAAAAAAATTAAAA
1 ATTT-TAAAAATT-AAA
34059598 ATTTTAAAAATT
1 ATTTTAAAAATT
34059610 TGATGCAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 14 0.58
17 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAAAATTAAA
Found at i:34063826 original size:46 final size:46
Alignment explanation
Indices: 34063764--34063856 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
34063754 GCAATTTGTA
34063764 TTTGTTTACCTCTTTATCAAAGGTTTTAATTTTTTTATTGAAATTT
1 TTTGTTTACCTCTTTATCAAAGGTTTTAATTTTTTTATTGAAATTT
* *
34063810 TTTGTTTACCTCTTTATCGAAGGTTTTAATTTTTTTTTTGAAATTT
1 TTTGTTTACCTCTTTATCAAAGGTTTTAATTTTTTTATTGAAATTT
34063856 T
1 T
34063857 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.60
Consensus pattern (46 bp):
TTTGTTTACCTCTTTATCAAAGGTTTTAATTTTTTTATTGAAATTT
Found at i:34063836 original size:25 final size:25
Alignment explanation
Indices: 34063764--34063836 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 25
34063754 GCAATTTGTA
*
34063764 TTTGTTTACCTCTTTATCAAAGGTT
1 TTTGTTTACCTCTTTATCGAAGGTT
** * **
34063789 TTAATTT---T-TTTATTGAAATTT
1 TTTGTTTACCTCTTTATCGAAGGTT
34063810 TTTGTTTACCTCTTTATCGAAGGTT
1 TTTGTTTACCTCTTTATCGAAGGTT
34063835 TT
1 TT
34063837 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 8
0.63 0.21 0.15
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
24 1 0.03
25 17 0.52
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTGTTTACCTCTTTATCGAAGGTT
Found at i:34064922 original size:17 final size:17
Alignment explanation
Indices: 34064900--34064950 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
34064890 ATTACAAAAT
34064900 CATATCTTCTAAGATAA
1 CATATCTTCTAAGATAA
**
34064917 CATATCATATCTAAGATTC
1 CATATC-T-TCTAAGATAA
*
34064936 CATATCTTCAAAGAT
1 CATATCTTCTAAGAT
34064951 CATGTTTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (17 bp):
CATATCTTCTAAGATAA
Found at i:34070039 original size:22 final size:23
Alignment explanation
Indices: 34070012--34070056 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34070002 GGGTATCTAC
34070012 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
34070034 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
34070057 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:34070061 original size:22 final size:22
Alignment explanation
Indices: 34070009--34070066 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
34069999 AAAGGGTATC
*
34070009 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34070030 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
34070053 TACATATCATATCT
1 TACAAATCATATCT
34070067 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34070069 original size:19 final size:20
Alignment explanation
Indices: 34070022--34070079 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
34070012 AAATCAAATC
*
34070022 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
34070045 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
34070064 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
34070080 TCCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:34085997 original size:8 final size:8
Alignment explanation
Indices: 34085980--34086035 Score: 80
Period size: 8 Copynumber: 7.2 Consensus size: 8
34085970 ATATTAAATA
*
34085980 TTAAAATT
1 TTAAATTT
*
34085988 TTAAGTTT
1 TTAAATTT
34085996 TT-AATTT
1 TTAAATTT
34086003 TTAAATTT
1 TTAAATTT
34086011 TT-AATTT
1 TTAAATTT
34086018 TTAAATTT
1 TTAAATTT
34086026 TTAAATTT
1 TTAAATTT
34086034 TT
1 TT
34086036 TGAAGATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
7 13 0.30
8 30 0.70
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:34086004 original size:15 final size:15
Alignment explanation
Indices: 34085986--34086035 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
34085976 AATATTAAAA
*
34085986 TTTTAAGTTTTTAAT
1 TTTTAAATTTTTAAT
34086001 TTTTAAATTTTTAAT
1 TTTTAAATTTTTAAT
34086016 TTTTAAATTTTTAAAT
1 TTTTAAATTTTT-AAT
34086032 TTTT
1 TTTT
34086036 TGAAGATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 26 0.79
16 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTAAATTTTTAAT
Found at i:34086035 original size:23 final size:23
Alignment explanation
Indices: 34085980--34086035 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
34085970 ATATTAAATA
*
34085980 TTAAAATTTTAAGTTTTTAATTT
1 TTAAATTTTTAAGTTTTTAATTT
34086003 TTAAATTTTTAA-TTTTTAAATTT
1 TTAAATTTTTAAGTTTTT-AATTT
34086026 TTAAATTTTT
1 TTAAATTTTT
34086036 TGAAGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTAAATTTTTAAGTTTTTAATTT
Found at i:34086466 original size:21 final size:21
Alignment explanation
Indices: 34086442--34086484 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34086432 CACTAAAAAT
34086442 TAAATCCC-AAATCCTAAACCA
1 TAAA-CCCTAAATCCTAAACCA
*
34086463 TAAACCCTAAATCCTAGACCA
1 TAAACCCTAAATCCTAAACCA
34086484 T
1 T
34086485 GAACATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAATCCTAAACCA
Found at i:34086542 original size:14 final size:15
Alignment explanation
Indices: 34086525--34086584 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 15
34086515 AAATTTATTT
34086525 TTTA-GATTTTAGGG
1 TTTATGATTTTAGGG
* *
34086539 TTTATGATTTAAGAG
1 TTTATGATTTTAGGG
*
34086554 TTTATGA-TTTATGG
1 TTTATGATTTTAGGG
*
34086568 TTTAT-AGTTTAGGG
1 TTTATGATTTTAGGG
34086582 TTT
1 TTT
34086585 GGGATTTATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
13 1 0.03
14 22 0.58
15 15 0.39
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (15 bp):
TTTATGATTTTAGGG
Found at i:34086556 original size:15 final size:15
Alignment explanation
Indices: 34086525--34086564 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34086515 AAATTTATTT
* *
34086525 TTTA-GATTTTAGGG
1 TTTATGATTTAAGAG
34086539 TTTATGATTTAAGAG
1 TTTATGATTTAAGAG
34086554 TTTATGATTTA
1 TTTATGATTTA
34086565 TGGTTTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TTTATGATTTAAGAG
Found at i:34086642 original size:36 final size:35
Alignment explanation
Indices: 34086538--34086635 Score: 88
Period size: 36 Copynumber: 2.7 Consensus size: 35
34086528 AGATTTTAGG
* * * * *
34086538 GTTTATGATTTAAGAGTTTATGATTTATGGTTTATA
1 GTTTAGGATTTGAGA-TTTAGGATCTATAGTTTATA
* * *
34086574 GTTTAGGGTTTGGGATTTATGATCTATAGTTTATGA
1 GTTTAGGATTTGAGATTTAGGATCTATAGTTTAT-A
* *
34086610 GTTTATGATTTGAGATTTAGGGTCTA
1 GTTTAGGATTTGAGATTTAGGATCTA
34086636 GTGTTTAAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 17 0.34
36 33 0.66
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (35 bp):
GTTTAGGATTTGAGATTTAGGATCTATAGTTTATA
Found at i:34086691 original size:66 final size:66
Alignment explanation
Indices: 34086610--34086822 Score: 182
Period size: 66 Copynumber: 3.4 Consensus size: 66
34086600 TAGTTTATGA
*
34086610 GTTTATGATTTGAGATTTAGGGTCTAGTGTTTAAAGAGTTATTGATCAGTGTTTTTAGTTTTAGG
1 GTTTATGATTAGAGATTTAGGGTCTAGTGTTTAAAGAGTTATTGATCAGTGTTTTTAGTTTTAGG
34086675 G
66 G
* * * * * * * ** * * *
34086676 GTTTATGATTAGAGA-TTA-GTTTTAAG-GCTT--GGGGTTTAGTGGTTGGAGTTTTAAGAGTTT
1 GTTTATGATTAGAGATTTAGGGTCT-AGTGTTTAAAGAG-TTATTGATCAGTGTTTTTAG-TTTT
34086736 A---
63 AGGG
*
34086737 -----TGATTTGAGATTTAGGGTCTAGTGTTTAAAGAGTTATTGATCAGTGTTTTTAGTTTTAGG
1 GTTTATGATTAGAGATTTAGGGTCTAGTGTTTAAAGAGTTATTGATCAGTGTTTTTAGTTTTAGG
34086797 G
66 G
34086798 GTTTATGATTAGAGATTTAGGGTCT
1 GTTTATGATTAGAGATTTAGGGTCT
34086823 GAGGGCTAAA
Statistics
Matches: 104, Mismatches: 27, Indels: 32
0.64 0.17 0.20
Matches are distributed among these distances:
56 9 0.09
57 5 0.05
58 10 0.10
59 14 0.13
60 2 0.02
62 2 0.02
63 14 0.13
64 10 0.10
65 5 0.05
66 33 0.32
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (66 bp):
GTTTATGATTAGAGATTTAGGGTCTAGTGTTTAAAGAGTTATTGATCAGTGTTTTTAGTTTTAGG
G
Found at i:34087333 original size:41 final size:41
Alignment explanation
Indices: 34087288--34087520 Score: 185
Period size: 40 Copynumber: 5.9 Consensus size: 41
34087278 TCTAAACCCT
* * * *
34087288 AAACCTCAATCTATAACGGCGTTTTTCTAAAAGCACCGCTA
1 AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCGCCGCTA
* * * *
34087329 AAACCTCGATCTATAGCAGTGTTTTTCCAAAAGCGCCGCTA
1 AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCGCCGCTA
* * * * * **
34087370 AAAACT-AAGCAATAGCAGCGTTTTTCCAAAAGTACCGCTA
1 AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCGCCGCTA
* *
34087410 AAACCTCGA--TATATA--GCG-GTTTCCAAAAGCGCTGCTA
1 AAACCTCGAGCTATA-ACGGCGTTTTTCCAAAAGCGCCGCTA
* * * * ** *
34087447 AAAACT-GAGCAATAGCGGCATTTTTGGAAAAACGCCGCTA
1 AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCGCCGCTA
34087487 AAACCTCGAGCTATAACGGCGTTTTT-CAAAAGCG
1 AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCG
34087521 TCGATATTGT
Statistics
Matches: 148, Mismatches: 36, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
36 2 0.01
37 20 0.14
38 6 0.04
39 5 0.03
40 58 0.39
41 57 0.39
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
AAACCTCGAGCTATAACGGCGTTTTTCCAAAAGCGCCGCTA
Found at i:34087471 original size:77 final size:80
Alignment explanation
Indices: 34087304--34087495 Score: 255
Period size: 77 Copynumber: 2.4 Consensus size: 80
34087294 CAATCTATAA
* *
34087304 CGGCGTTTTTCTAAAAGCACCGCTAAAACCTCGATCTATAGCAGTGTTTTTCCAAAAGCGCCGCT
1 CGGCGTTTTTCCAAAAGCACCGCTAAAACCTCGATATATAGCAGTG-TTTTCCAAAAGCGCCGCT
34087369 AAAAACTAAGCAATAG
65 AAAAACTAAGCAATAG
* * *
34087385 CAGCGTTTTTCCAAAAGTACCGCTAAAACCTCGATATATAGC-G-G-TTTCCAAAAGCGCTGCTA
1 CGGCGTTTTTCCAAAAGCACCGCTAAAACCTCGATATATAGCAGTGTTTTCCAAAAGCGCCGCTA
*
34087447 AAAACTGAGCAATAG
66 AAAACTAAGCAATAG
* ** * *
34087462 CGGCATTTTTGGAAAAACGCCGCTAAAACCTCGA
1 CGGCGTTTTTCCAAAAGCACCGCTAAAACCTCGA
34087496 GCTATAACGG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
77 58 0.59
79 1 0.01
80 1 0.01
81 38 0.39
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (80 bp):
CGGCGTTTTTCCAAAAGCACCGCTAAAACCTCGATATATAGCAGTGTTTTCCAAAAGCGCCGCTA
AAAACTAAGCAATAG
Found at i:34087577 original size:42 final size:42
Alignment explanation
Indices: 34087525--34087622 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 42
34087515 AAAGCGTCGA
* * **
34087525 TATTGTTTAGTTTTTTCGCGGCGTTTGGATGAAAAACGCCGC
1 TATTGCTTAGTTTTTTAGCGGCGTTTGGACCAAAAACGCCGC
*
34087567 TATTGCTTAG-TTTTTAGCGGCGTTTGGACCAAAAATGCCGC
1 TATTGCTTAGTTTTTTAGCGGCGTTTGGACCAAAAACGCCGC
*
34087608 TATTGCTCAGTTTTT
1 TATTGCTTAGTTTTT
34087623 GCGTGTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 36 0.73
42 13 0.27
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (42 bp):
TATTGCTTAGTTTTTTAGCGGCGTTTGGACCAAAAACGCCGC
Found at i:34091269 original size:14 final size:14
Alignment explanation
Indices: 34091234--34091263 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34091224 GACCACTTTT
34091234 TCATAATTAATTAA
1 TCATAATTAATTAA
*
34091248 TCATAATTTATTAA
1 TCATAATTAATTAA
34091262 TC
1 TC
34091264 CAAATTAAAT
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:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
TCATAATTAATTAA
Found at i:34091438 original size:20 final size:20
Alignment explanation
Indices: 34091410--34091447 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34091400 TCCTTTGTGC
*
34091410 AAATCTATCGAAAATAATCA
1 AAATCTATCAAAAATAATCA
*
34091430 AAATTTATCAAAAATAAT
1 AAATCTATCAAAAATAAT
34091448 TATGAAATTA
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:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (20 bp):
AAATCTATCAAAAATAATCA
Found at i:34097990 original size:70 final size:70
Alignment explanation
Indices: 34097910--34098049 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
34097900 GGAAATAAAT
*
34097910 CCTAAAGAAATATTATATGAGTTAATATCATAAACAGATTCTGATTCAGATGAAGAGGAATATAT
1 CCTAAAGAAATATTATATGAGTTAATATCAGAAACAGATTCTGATTCAGATGAAGAGGAATATAT
34097975 ATTTA
66 ATTTA
34097980 CCTAAAGAAATATTATATGAGTTAATATCAGAAACAGATTCTGATTCAGATGAAGAGGAATATAT
1 CCTAAAGAAATATTATATGAGTTAATATCAGAAACAGATTCTGATTCAGATGAAGAGGAATATAT
34098045 ATTTA
66 ATTTA
34098050 AGTTTTCTGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (70 bp):
CCTAAAGAAATATTATATGAGTTAATATCAGAAACAGATTCTGATTCAGATGAAGAGGAATATAT
ATTTA
Found at i:34100947 original size:41 final size:40
Alignment explanation
Indices: 34100894--34101063 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
34100884 AGTCCGACTC
*
34100894 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
34100933 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
34100973 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTTGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
34101018 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
34101057 TTTAGAC
1 -TTAGAC
34101064 CCCGATTAGC
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 50 0.48
42 18 0.17
43 10 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:34108559 original size:20 final size:18
Alignment explanation
Indices: 34108550--34108609 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
34108540 TAATGTAAAT
34108550 TATAATATAAAAATATAA
1 TATAATATAAAAATATAA
*
34108568 TATAATATAAAAA-ATAT
1 TATAATATAAAAATATAA
34108585 TATGATATATAGTAAAATATAA
1 TAT-A-ATATA--AAAATATAA
34108607 TAT
1 TAT
34108610 GTAATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.17
18 14 0.40
19 5 0.14
21 4 0.11
22 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TATAATATAAAAATATAA
Found at i:34108600 original size:22 final size:20
Alignment explanation
Indices: 34108551--34108615 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 20
34108541 AATGTAAATT
*
34108551 ATAATAT-AAAAATATAAT-
1 ATAATATAAAAAATATTATG
34108569 ATAATATAAAAAATATTATG
1 ATAATATAAAAAATATTATG
* *
34108589 ATATATAGTAAAATATAATATG
1 ATA-ATA-TAAAAAATATTATG
34108611 -TAATA
1 ATAATA
34108616 AATATATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.17
19 10 0.25
20 6 0.15
21 5 0.12
22 12 0.30
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAATATAAAAAATATTATG
Found at i:34110974 original size:177 final size:176
Alignment explanation
Indices: 34110567--34111136 Score: 881
Period size: 176 Copynumber: 3.2 Consensus size: 176
34110557 GCTTCAGCGT
* * * * * *
34110567 AAACATGTGAAAGCCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATACCAAAT
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAAT
* *
34110632 CATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCG
66 CATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCG
*
34110697 AATATGGAGACGCCAGATTTGTTATCTTGGATCTGCTTTGATGTGA
131 AATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
* * * *
34110743 AAACATCTAAAAGTCAGATCTGCTATGTCTTTGATTTACTTCTTGTAAACACAAGAACGCCAAAT
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAAT
* * * * * *
34110808 CATCTTGGATATGCTTCAGTAAAAATATATGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTT
66 CATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCC-GTC
* *
34110873 GAATATGGAGATGCCAGATCTGTTATCTTGGATCTACTTTGATGTGA
130 GAATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
* * *
34110920 GAACATCCGAAAGTCAGATCTGCTATGT-TTTCGATTTGCTCCTTGTAGACACAAGAATGCCAAA
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTT-GATTTGCTCCTTGTAAACACAAGAATGCCAAA
34110984 TCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTC
65 TCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTC
*
34111049 GAATATGGAGACGCCAGATCTGTTATCTTGGATCTGTTTTGATGTGA
130 GAATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
*
34111096 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTTGATTTGCTC
34111137 TCCGTCGAAG
Statistics
Matches: 351, Mismatches: 40, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
176 193 0.55
177 158 0.45
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (176 bp):
AAACATCTGAAAGTCAGATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAAT
CATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCG
AATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
Found at i:34111161 original size:177 final size:176
Alignment explanation
Indices: 34110567--34111215 Score: 810
Period size: 176 Copynumber: 3.6 Consensus size: 176
34110557 GCTTCAGCGT
* * * * * *
34110567 AAACATGTGAAAGCCAAATCTGCTATGTCTTTGATTTGTTC-CTTGTAAACACA-AGGATA-CCA
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCTTGTGAACA-AGA-GA-AGCCA
* *
34110629 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCG
63 AATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCG
*
34110694 TCGAATATGGAGACGCCAGATTTGTTATCTTGGATCTGCTTTGATGTGA
128 TCGAATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
* * * *
34110743 AAACATCTAAAAGTCAGATCTGCTATGTCTTTGATTTACT-TCTTGTAAACACA-AGAACGCCAA
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCTTGTGAACA-AGAGAA-GCCAA
* * * * *
34110806 ATCATCTTGGATATGCTTCAGTAAAAATATATGAAGGTTAGATCTGCTATGTATCTGCTCTCCAT
64 ATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCC-G
* * *
34110871 TTGAATATGGAGATGCCAGATCTGTTATCTTGGATCTACTTTGATGTGA
128 TCGAATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
* * * *
34110920 GAACATCCGAAAGTCAGATCTGCTATGTTTTCGATTTGCTC-CTTGTAGACACAAGA-ATGCCAA
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCTTGT-GA-ACAAGAGAAGCCAA
34110983 ATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGT
64 ATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGT
*
34111048 CGAATATGGAGACGCCAGATCTGTTATCTTGGATCTGTTTTGATGTGA
129 CGAATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
* *
34111096 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTC-CGTCGAAGATAGAGAAGCCAA
1 AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCTTGT-GAACA-AGAGAAGCCAA
** * **
34111160 ATCTTGTTATCTTGGATCTGCTTCAGTGTAAACATGTGAAGGCCAGATCTGCTATG
64 ATC-----ATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATG
34111216 CTTTGGTCTG
Statistics
Matches: 411, Mismatches: 46, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
174 1 0.00
175 4 0.01
176 198 0.48
177 158 0.38
178 3 0.01
179 4 0.01
182 43 0.10
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (176 bp):
AAACATCTGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCTCTTGTGAACAAGAGAAGCCAAAT
CATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCG
AATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGA
Found at i:34122049 original size:46 final size:46
Alignment explanation
Indices: 34121999--34122174 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
34121989 TGTTTGAGCA
34121999 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34122045 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34122090 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34122138 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34122175 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34122155 original size:93 final size:93
Alignment explanation
Indices: 34121996--34122166 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34121986 GGATGTTTGA
* *
34121996 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34122061 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34122089 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34122154 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34122167 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34133396 original size:5 final size:5
Alignment explanation
Indices: 34133377--34133450 Score: 59
Period size: 5 Copynumber: 15.6 Consensus size: 5
34133367 TAATGTAAAT
* *
34133377 TATAA TATAA -A-AA TATAA TATAA TGT-A TATAA TATAA TATAA -AAAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
34133423 TATTA TGAT-A TATAG TAAAA TATAA TAT
1 TATAA T-ATAA TATAA TATAA TATAA TAT
34133451 GCAATAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
3 2 0.04
4 10 0.19
5 40 0.74
6 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:34133418 original size:32 final size:30
Alignment explanation
Indices: 34133353--34133464 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
34133343 TAATTTACAA
*
34133353 ATAAAAATATATAATAATGTAAATTATAAT
1 ATAAAAATATATAATAATGTAAAATATAAT
34133383 ATAAAAATATA-ATATAATGTATATAATATAAT
1 ATAAAAATATATA-ATAATGTA-A-AATATAAT
*
34133415 ATAAAAAATATTATGATATATAGTAAAATATAAT
1 AT-AAAAATA-TATAATA-AT-GTAAAATATAAT
34133449 ATGCAATAAATATATA
1 AT--AA-AAATATATA
34133465 CAAATAGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
29 1 0.01
30 19 0.28
31 1 0.01
32 9 0.13
33 7 0.10
34 15 0.22
35 8 0.12
36 8 0.12
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (30 bp):
ATAAAAATATATAATAATGTAAAATATAAT
Found at i:34133425 original size:19 final size:19
Alignment explanation
Indices: 34133388--34133450 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
34133378 ATAATATAAA
***
34133388 AATATAATATAATGTATAT
1 AATATAATATAAAAAATAT
34133407 AATATAATATAAAAAATAT
1 AATATAATATAAAAAATAT
* *
34133426 TATGAT-ATATAGTAAAATAT
1 AAT-ATAATATA-AAAAATAT
34133446 AATAT
1 AATAT
34133451 GCAATAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 25 0.69
20 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AATATAATATAAAAAATAT
Done.