Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 63 of 255
Found at i:18191079 original size:82 final size:81
Alignment explanation
Indices: 18190961--18191116 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18190951 TGCTATATAA
* * *
18190961 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
18191026 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18191043 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
18191107 CACTTAGTGC
65 CACTTAGTGC
18191117 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:18194768 original size:31 final size:33
Alignment explanation
Indices: 18194698--18194775 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 33
18194688 TTTAGTTAAT
* *
18194698 GTCATGCATTAT-TGATCTACATATTTTAATTAT
1 GTCATGCATTATGTGATCTACA-ATTTTAATAAA
* *
18194731 GACATGCATTATGTGTTCTAC-A-TTTAATAAA
1 GTCATGCATTATGTGATCTACAATTTTAATAAA
18194762 GTCATGCATTATGT
1 GTCATGCATTATGT
18194776 AACTTCCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 20 0.51
32 1 0.03
33 11 0.28
34 7 0.18
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (33 bp):
GTCATGCATTATGTGATCTACAATTTTAATAAA
Found at i:18196446 original size:17 final size:17
Alignment explanation
Indices: 18196426--18196461 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18196416 AAATCCTAGG
18196426 AAGCATGAAATGTTGAA
1 AAGCATGAAATGTTGAA
*
18196443 AAGCATGAAATGTTTAA
1 AAGCATGAAATGTTGAA
18196460 AA
1 AA
18196462 TGATTTAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (17 bp):
AAGCATGAAATGTTGAA
Found at i:18199044 original size:23 final size:22
Alignment explanation
Indices: 18198992--18199044 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
18198982 TCCACGTCTT
*
18198992 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
18199014 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
18199037 TTTCTTTT
1 TTTCTTTT
18199045 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:18202626 original size:28 final size:27
Alignment explanation
Indices: 18202587--18202653 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
18202577 AAATATGTAA
18202587 TAATTA-TAAAATAATTAAATTTTACT
1 TAATTATTAAAATAATTAAATTTTACT
* *
18202613 TCAATTATTAAAAT-TTTTAATTTTACT
1 T-AATTATTAAAATAATTAAATTTTACT
*
18202640 TAATT-TTATAATAA
1 TAATTATTAAAATAA
18202654 ATTTTGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 6 0.18
26 5 0.15
27 17 0.50
28 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATTATTAAAATAATTAAATTTTACT
Found at i:18204955 original size:47 final size:45
Alignment explanation
Indices: 18204854--18205023 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 45
18204844 ACCCGTAATA
* * * * *
18204854 AACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCATCCATAATG
1 AACTCGGAACACAACTCAACGAGTTCGGATGCTT-TCATTCAT-ATG
* *
18204900 AACACGGAACACAACTCAAAGAGTTCGGATGCTTTCATTCATAGGTG
1 AACTCGGAACACAACTCAACGAGTTCGGATGCTTTCATTCATA--TG
** * *
18204947 AACTCGGAATGCAACTCAACGAGTTCGGATGCCTCATAATTC-TCATG
1 AACTCGGAACACAACTCAACGAGTTCGGATG-CT-TTCATTCAT-ATG
* *
18204994 AACTCGGACCACAACTCAATGAGTTCGGAT
1 AACTCGGAACACAACTCAACGAGTTCGGAT
18205024 CTCAATTTCC
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 32 0.32
47 59 0.58
48 3 0.03
49 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (45 bp):
AACTCGGAACACAACTCAACGAGTTCGGATGCTTTCATTCATATG
Found at i:18209719 original size:43 final size:42
Alignment explanation
Indices: 18209616--18209726 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
18209606 ATAGGATCGC
* * *
18209616 ACGGGTCACACAAGACGACTGTGGACTATTCTGTTAAGGTTG
1 ACGGGTCACACGAGACGATTGTGGACTATTCTGTTAAGGTCG
* *
18209658 ACGGGTCACACGAGACGATTGTGGACTGTTTTGTTAAGGTCG
1 ACGGGTCACACGAGACGATTGTGGACTATTCTGTTAAGGTCG
* *
18209700 TACGGGTCGA-GCGAGACGATTATGGAC
1 -ACGGGTC-ACACGAGACGATTGTGGAC
18209727 CTACTGACAG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 37 0.62
43 22 0.37
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (42 bp):
ACGGGTCACACGAGACGATTGTGGACTATTCTGTTAAGGTCG
Found at i:18209777 original size:22 final size:22
Alignment explanation
Indices: 18209752--18209837 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
18209742 AGCCACTTGA
18209752 TCTGATTATGGCTCTGTGCCAT
1 TCTGATTATGGCTCTGTGCCAT
** * *
18209774 TCTGAAGATGGCTTTGTTCCAT
1 TCTGATTATGGCTCTGTGCCAT
* * *
18209796 CCCGATTATGGCT-TCATGCCA-
1 TCTGATTATGGCTCT-GTGCCAT
*
18209817 TCTTGATCATGGCTCTGTGCC
1 TC-TGATTATGGCTCTGTGCC
18209838 TATCATATTA
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
21 2 0.04
22 44 0.94
23 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (22 bp):
TCTGATTATGGCTCTGTGCCAT
Found at i:18227047 original size:19 final size:19
Alignment explanation
Indices: 18227012--18227049 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18227002 TTGCAATTTA
*
18227012 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
18227031 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
18227050 CTTGACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:18229215 original size:40 final size:40
Alignment explanation
Indices: 18228978--18229201 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
18228968 TGAATGATGT
* * * *
18228978 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
18229018 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
18229058 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
18229096 TCCGGGTTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
18229137 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18229177 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18229202 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:18229223 original size:119 final size:119
Alignment explanation
Indices: 18228977--18229224 Score: 290
Period size: 119 Copynumber: 2.1 Consensus size: 119
18228967 TTGAATGATG
* * *
18228977 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAAGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
18229042 GTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
18229096 TCCGGGTTAAGTCCCGAAAGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAAGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
18229159 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
18229216 TCC-GGTTAA
1 TCCGGGTTAA
18229225 ATTCCGAAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAAGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:18241954 original size:17 final size:18
Alignment explanation
Indices: 18241925--18241960 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18241915 TGAATATTTG
18241925 AATTTGAATAAATCAAAT
1 AATTTGAATAAATCAAAT
*
18241943 AATTTG-ATAAATCGAAT
1 AATTTGAATAAATCAAAT
18241960 A
1 A
18241961 CAAACTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (18 bp):
AATTTGAATAAATCAAAT
Found at i:18251771 original size:35 final size:35
Alignment explanation
Indices: 18251725--18251798 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
18251715 GTTTTTGGCT
18251725 AAGAAAGAAAATATGGGATGTTATGCTTAGAAATG
1 AAGAAAGAAAATATGGGATGTTATGCTTAGAAATG
*
18251760 AAGAAAGAAAATATGGGATGTTATGCTTGGAAATG
1 AAGAAAGAAAATATGGGATGTTATGCTTAGAAATG
18251795 AAGA
1 AAGA
18251799 GAGGAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.46, C:0.03, G:0.27, T:0.24
Consensus pattern (35 bp):
AAGAAAGAAAATATGGGATGTTATGCTTAGAAATG
Found at i:18253492 original size:18 final size:18
Alignment explanation
Indices: 18253455--18253492 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18253445 TAAATGATGA
18253455 ATTTTAAATATTAGTTATT
1 ATTTTAAATATTA-TTATT
18253474 ATTTTAAATTATT-TTATT
1 ATTTTAAA-TATTATTATT
18253492 A
1 A
18253493 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTAAATATTATTATT
Found at i:18255477 original size:56 final size:55
Alignment explanation
Indices: 18255389--18255520 Score: 210
Period size: 56 Copynumber: 2.4 Consensus size: 55
18255379 GACCATGGCA
** * *
18255389 TCGATATATGTGAACGAGTAAGACCATGTTTTATACGTTGGCATCGATATGTGAC
1 TCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCAATATGTGAC
*
18255444 TTTGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCAATATGTGAC
1 -TCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCAATATGTGAC
18255500 TCGATATATGTGTGCGAGTAA
1 TCGATATATGTGTGCGAGTAA
18255521 AACCCTATCT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 20 0.29
56 50 0.71
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (55 bp):
TCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCAATATGTGAC
Found at i:18257938 original size:26 final size:26
Alignment explanation
Indices: 18257909--18257959 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
18257899 CCAGCACACC
*
18257909 AATATCGCAGCAAAGCTACCAGTAAT
1 AATAACGCAGCAAAGCTACCAGTAAT
* *
18257935 AATAACGCAGCATAGCTGCCAGTAA
1 AATAACGCAGCAAAGCTACCAGTAA
18257960 CAGTAAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTACCAGTAAT
Found at i:18269646 original size:28 final size:26
Alignment explanation
Indices: 18269614--18269703 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 26
18269604 CACATACCTG
*
18269614 TATATGGCCCACTACGCCTAATCACATT
1 TATATGGCCCA-TA-GCCAAATCACATT
18269642 TATATGGCCCATTAGTCCCAAATCACATT
1 TATATGGCCCA-TAG--CCAAATCACATT
*
18269671 TATATGGCCCATCAAGCCCAATTCACATT
1 TATATGGCCCAT--AG-CCAAATCACATT
18269700 TATA
1 TATA
18269704 GTCATGCTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
27 1 0.02
28 14 0.25
29 38 0.69
30 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (26 bp):
TATATGGCCCATAGCCAAATCACATT
Found at i:18269672 original size:29 final size:29
Alignment explanation
Indices: 18269633--18269703 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
18269623 CACTACGCCT
*
18269633 AATCACATTTATATGGCCCAT-TAGTCCCA
1 AATCACATTTATATGGCCCATCAAG-CCCA
18269662 AATCACATTTATATGGCCCATCAAGCCCA
1 AATCACATTTATATGGCCCATCAAGCCCA
*
18269691 ATTCACATTTATA
1 AATCACATTTATA
18269704 GTCATGCTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 37 0.95
30 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATCAAGCCCA
Found at i:18273486 original size:40 final size:39
Alignment explanation
Indices: 18273413--18273490 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
18273403 TGCTTATCTG
**
18273413 CTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCTTCGA
1 CTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCGA
* * *
18273452 CTAAAACTGGCACTTGGTGTGCAATTTGAGATAGCTTCG
1 CTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTTCG
18273491 GTTATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 6 0.18
40 27 0.82
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCGA
Found at i:18273566 original size:28 final size:29
Alignment explanation
Indices: 18273509--18273577 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
18273499 TATAAATGGA
* * * *
18273509 ACTTAGTGTGC-AAAGTATCGAGGATGGC
1 ACTTAGTGTGCGAAAGCATCCAGAATAGC
18273537 ACTTAGTGTGCGAAA-CATCCAGAATAGC
1 ACTTAGTGTGCGAAAGCATCCAGAATAGC
*
18273565 ACTTAGCGTGCGA
1 ACTTAGTGTGCGA
18273578 GGTATCGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (29 bp):
ACTTAGTGTGCGAAAGCATCCAGAATAGC
Found at i:18283972 original size:93 final size:93
Alignment explanation
Indices: 18283860--18284030 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18283850 CGCCCATAAG
*
18283860 CGAACTCGGACTCAACTCAACGACCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGACCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
18283924 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
**
18283953 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18284018 ACGAGTTCAGATG
66 ACGAGTTCAGATG
18284031 TTCAATCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:18284047 original size:46 final size:46
Alignment explanation
Indices: 18283853--18284033 Score: 190
Period size: 46 Copynumber: 3.9 Consensus size: 46
18283843 TGTAACCCGC
* ** *
18283853 CCATAAGCGAACTCGGACTCAACTCAACGACCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* *
18283899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* * * *
18283949 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
*
18283992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTC
18284034 AATCATCCTA
Statistics
Matches: 110, Mismatches: 16, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.56
47 26 0.24
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:18301778 original size:40 final size:39
Alignment explanation
Indices: 18301695--18301877 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
18301685 TTGAATGATG
* * * *
18301695 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18301734 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
18301774 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18301812 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
18301853 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
18301878 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 35 0.28
39 10 0.08
40 70 0.56
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18301829 original size:78 final size:80
Alignment explanation
Indices: 18301695--18301877 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
18301685 TTGAATGATG
*
18301695 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
18301759 GTGCGAGATACTA-A
66 ATGCGAGATACTATA
* * * **
18301773 TTCCGGGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
18301835 TTATGCGAGTTACTATA
64 TTATGCGAGATACTATA
* *
18301852 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
18301878 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 56 0.63
79 19 0.21
80 13 0.15
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGATACTATA
Found at i:18303805 original size:31 final size:31
Alignment explanation
Indices: 18303756--18303818 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
18303746 CTTTCCAAGA
* * *
18303756 AAGACGCTGAATCGAGGTTGATCCGATGGGT
1 AAGACACTAAATCAAGGTTGATCCGATGGGT
18303787 AAGACACTAAATCAAGGTTGATCCGATGGGT
1 AAGACACTAAATCAAGGTTGATCCGATGGGT
18303818 A
1 A
18303819 CTTATATTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
AAGACACTAAATCAAGGTTGATCCGATGGGT
Found at i:18306395 original size:25 final size:26
Alignment explanation
Indices: 18306357--18306410 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
18306347 TTCTCCTAAA
*
18306357 TTTCAAATTTATTGGATTATTTAAT-T
1 TTTCAAATTTATTGAATTA-TTAATAT
18306383 TTTC-AATTTATTGAATTATTAATAT
1 TTTCAAATTTATTGAATTATTAATAT
18306408 TTT
1 TTT
18306411 ATGCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTCAAATTTATTGAATTATTAATAT
Found at i:18311427 original size:29 final size:28
Alignment explanation
Indices: 18311361--18311451 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
18311351 TGAGCATGAC
*
18311361 TATAAATGTGAATTGGGCCTGAT--GACCA
1 TATAAATGTG-ATTGGGCCTAATGGGA-CA
18311389 TATAAATGTGATTTGGGCCTAATGGGACA
1 TATAAATGTGA-TTGGGCCTAATGGGACA
* *
18311418 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGACA
18311446 TATAAA
1 TATAAA
18311452 GGTATGTGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
27 1 0.02
28 41 0.72
29 13 0.23
30 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGACA
Found at i:18318828 original size:57 final size:58
Alignment explanation
Indices: 18318775--18318890 Score: 157
Period size: 58 Copynumber: 2.0 Consensus size: 58
18318765 GAAAATGGTG
* *
18318775 AAATGAGAAT-ATTTGGAAAT-AATTATGGTTTTTTCCAAAATGAAAATGAAAATGGAAA
1 AAATG-GAATCATTTGGAAATGAA-TATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
* *
18318833 AAATGGAATCATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAATGGAAAT-GAAA
1 AAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
18318890 A
1 A
18318891 TGACTTGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 9 0.17
58 41 0.79
59 2 0.04
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (58 bp):
AAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
Found at i:18319124 original size:36 final size:36
Alignment explanation
Indices: 18319079--18319156 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
18319069 AATTGTAAAT
18319079 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
1 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
18319115 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
1 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
18319151 ATATTG
1 ATATTG
18319157 GGTTCAATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.35
Consensus pattern (36 bp):
ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
Found at i:18320852 original size:10 final size:9
Alignment explanation
Indices: 18320805--18320969 Score: 50
Period size: 9 Copynumber: 17.4 Consensus size: 9
18320795 GACATGCGGA
*
18320805 AAAAAATAT
1 AAAAATTAT
18320814 AAAAA--AT
1 AAAAATTAT
*
18320821 AAAAATAAAT
1 AAAAAT-TAT
18320831 AAAAATTAT
1 AAAAATTAT
18320840 AAAAATTAT
1 AAAAATTAT
* *
18320849 -TAAATTTT
1 AAAAATTAT
*
18320857 AATACAAATAT
1 AA-A-AATTAT
*
18320868 AAAAATAAGT
1 AAAAATTA-T
**
18320878 AAATTTTATT
1 AAAAATTA-T
* *
18320888 AAACATTAA
1 AAAAATTAT
18320897 AATATATATATAT
1 AA-A-A-AT-TAT
**
18320910 AAAAATCGT
1 AAAAATTAT
*
18320919 AAAAATATAA
1 AAAAAT-TAT
18320929 AAAAATTA-
1 AAAAATTAT
**
18320937 AAATTTTAT
1 AAAAATTAT
*
18320946 AAAAATCATAA
1 AAAAAT--TAT
18320957 AAAAATTAT
1 AAAAATTAT
18320966 AAAA
1 AAAA
18320970 TGCATCAAAA
Statistics
Matches: 113, Mismatches: 28, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
7 7 0.06
8 12 0.11
9 40 0.35
10 32 0.28
11 15 0.13
12 3 0.03
13 4 0.04
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18320880 original size:28 final size:29
Alignment explanation
Indices: 18320828--18320895 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
18320818 AATAAAAATA
* *
18320828 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATAAGTAAATTTT
*
18320857 AATACAAA-TATAAAAATAAGTAAATTTT
1 AATAAAAATTATAAAAATAAGTAAATTTT
* *
18320885 ATTAAACATTA
1 AATAAAAATTA
18320896 AAATATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
AATAAAAATTATAAAAATAAGTAAATTTT
Found at i:18320957 original size:19 final size:18
Alignment explanation
Indices: 18320904--18320969 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
18320894 TAAAATATAT
18320904 ATATATAAAAATCGTAAAA
1 ATATATAAAAATC-TAAAA
*
18320923 ATATAAAAAAAT-TAAAA
1 ATATATAAAAATCTAAAA
* *
18320940 TTTTATAAAAATCATAAAA
1 ATATATAAAAATC-TAAAA
*
18320959 AAATTATAAAA
1 ATA-TATAAAA
18320970 TGCATCAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.38
19 16 0.43
20 7 0.19
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATATAAAAATCTAAAA
Found at i:18321233 original size:29 final size:29
Alignment explanation
Indices: 18321201--18321290 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
18321191 TTTCTTACGA
18321201 ATTTATAAAATTTTATAACTTTTTTCTAT
1 ATTTATAAAATTTTATAACTTTTTTCTAT
* * * *
18321230 ATTTCTATATATTTTGT-ACTTTTTTACAAT
1 ATTTATA-AAATTTTATAACTTTTTT-CTAT
* * * *
18321260 TTTTA-AAAATCTTACAA-TTTTTTTTAT
1 ATTTATAAAATTTTATAACTTTTTTCTAT
18321287 ATTT
1 ATTT
18321291 TTTTACTATT
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
27 5 0.11
28 11 0.24
29 16 0.36
30 13 0.29
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTTATAAAATTTTATAACTTTTTTCTAT
Found at i:18321323 original size:58 final size:58
Alignment explanation
Indices: 18321164--18321323 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 58
18321154 TTTTTACAAA
* * *
18321164 TTTTATATTTCTTTAC-ATTTTTTTAATTTTCTTACGAATTTATAAAATTTTATAACTTTT
1 TTTTATATTTCTTTACTATTTTTATAATTTT-TTAC-AATTTA-AAAATCTTACAACTTTT
* * * *
18321224 TTCTATATTTCTATA-TA-TTTTGTACTTTTTTACAATTTTTAAAAATCTTACAA-TTTT
1 TTTTATATTTCTTTACTATTTTTATAATTTTTTACAA--TTTAAAAATCTTACAACTTTT
* *
18321281 TTTTATATTTTTTTACTATTTTTATAATTTTATTATAATTTAA
1 TTTTATATTTCTTTACTATTTTTATAATTTT-TTACAATTTAA
18321324 TTGTTTTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
57 18 0.22
58 21 0.26
59 24 0.29
60 19 0.23
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (58 bp):
TTTTATATTTCTTTACTATTTTTATAATTTTTTACAATTTAAAAATCTTACAACTTTT
Found at i:18321330 original size:19 final size:21
Alignment explanation
Indices: 18321307--18321352 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
18321297 TATTTTTATA
18321307 ATTTTATTAT-AATTTAATTG
1 ATTTTATTATAAATTTAATTG
*
18321327 --TTT-TTATAAATTTTATTG
1 ATTTTATTATAAATTTAATTG
18321345 ATTTTATT
1 ATTTTATT
18321353 TTTTATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
20 3 0.14
21 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTTATTATAAATTTAATTG
Found at i:18323507 original size:80 final size:80
Alignment explanation
Indices: 18323374--18323537 Score: 319
Period size: 80 Copynumber: 2.0 Consensus size: 80
18323364 GTATCTCTTG
*
18323374 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
1 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTATTCTTGAATGGGGGCTATT
18323439 CTAGACCTATTCCAA
66 CTAGACCTATTCCAA
18323454 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTATTCTTGAATGGGGGCTATT
1 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTATTCTTGAATGGGGGCTATT
18323519 CTAGACCTATTCCAA
66 CTAGACCTATTCCAA
18323534 AAAT
1 AAAT
18323538 GAGTTTTCCT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (80 bp):
AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTATTCTTGAATGGGGGCTATT
CTAGACCTATTCCAA
Found at i:18325029 original size:32 final size:33
Alignment explanation
Indices: 18324993--18325056 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
18324983 ACTAAAGGAT
* * * *
18324993 CTAAAATTTTAATT-AAAACTTGAGATTTAAAC
1 CTAAAAATATAATTAAAAACTTAAAATTTAAAC
18325025 CTAAAAATATAATTAAAAACTTAAAATTTAAA
1 CTAAAAATATAATTAAAAACTTAAAATTTAAA
18325057 ATAAAACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (33 bp):
CTAAAAATATAATTAAAAACTTAAAATTTAAAC
Found at i:18325076 original size:20 final size:20
Alignment explanation
Indices: 18325021--18325076 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
18325011 CTTGAGATTT
*
18325021 AAACCTAAAA-ATATAATTAA
1 AAACCTAAAATATA-AAATAA
* *
18325041 AAACTTAAAATTTAAAAT-A
1 AAACCTAAAATATAAAATAA
18325060 AAACCTAAAGATATAAA
1 AAACCTAAA-ATATAAA
18325077 CCTAATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 9 0.31
20 18 0.62
21 2 0.07
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (20 bp):
AAACCTAAAATATAAAATAA
Found at i:18329310 original size:15 final size:16
Alignment explanation
Indices: 18329284--18329313 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18329274 CTAAAACCCC
18329284 AAAATTTAAACCTAAG
1 AAAATTTAAACCTAAG
18329300 AAAATTT-AACCTAA
1 AAAATTTAAACCTAA
18329314 AATCTAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAATTTAAACCTAAG
Found at i:18330643 original size:13 final size:13
Alignment explanation
Indices: 18330625--18330714 Score: 117
Period size: 13 Copynumber: 6.9 Consensus size: 13
18330615 TGTTTGGCAA
18330625 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
18330638 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
18330651 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
18330664 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
18330677 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
18330690 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
18330703 TGCTTTTGAAAA
1 TGCTTTTGAAAA
18330715 TTTTAGGTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 67 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:18332858 original size:73 final size:72
Alignment explanation
Indices: 18332773--18332978 Score: 324
Period size: 72 Copynumber: 2.8 Consensus size: 72
18332763 CTAATTTAGT
*
18332773 ATAAATAAGTAGAACATAAATTCAATATCCCAAAGACCAAACATAAACAACTATTAATAAAAGTA
1 ATAAATAAGTAGAACATAAATTCAATAT-CCAAAAACCAAACATAAACAACTATTAATAAAAGTA
18332838 GATTACAC
65 GATTACAC
* * *
18332846 ATAAATAAGTAGAACATAAATTCAATATTCAAAAACCAAACATAAACAACCATTGATAAAAGTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAAGTAG
18332911 ATTACAC
66 ATTACAC
* * *
18332918 ATAAATAAGTAGAACATAAGTTCAATATCCAAAAACCAAACACAAATAACTA-TAGATAAAA
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTA-ATAAAA
18332979 CTAGTTTAGC
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
71 1 0.01
72 93 0.76
73 28 0.23
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAAGTAG
ATTACAC
Found at i:18334817 original size:40 final size:40
Alignment explanation
Indices: 18334717--18334888 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
18334707 GCTCCTCGTT
* *
18334717 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
18334757 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
18334796 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
18334836 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
18334876 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18334889 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 36 0.30
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:18341962 original size:39 final size:40
Alignment explanation
Indices: 18341917--18342088 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
18341907 GCTCCTCGTT
* * *
18341917 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
18341957 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
18341996 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
18342036 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
18342076 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18342089 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:18342017 original size:40 final size:39
Alignment explanation
Indices: 18341919--18342141 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
18341909 TCCTCGTTCA
* * * *
18341919 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
18341958 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
18341997 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
18342037 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
18342077 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
18342118 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18342142 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:18342101 original size:80 final size:79
Alignment explanation
Indices: 18341917--18342141 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
18341907 GCTCCTCGTT
* * * * *
18341917 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
18341981 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
18341996 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
18342061 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
18342076 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
18342140 GA
63 GA
18342142 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:18342150 original size:41 final size:41
Alignment explanation
Indices: 18342073--18342150 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18342063 TTTGTATCTC
* * *
18342073 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18342114 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18342151 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18343727 original size:18 final size:18
Alignment explanation
Indices: 18343706--18343753 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
18343696 TCCATCAATT
*
18343706 TGAACGTCATTTGAAATG
1 TGAACATCATTTGAAATG
18343724 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
18343742 TGAACATCATTT
1 TGAACATCATTT
18343754 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:18348445 original size:26 final size:26
Alignment explanation
Indices: 18348416--18348471 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18348406 TGATAAAAAT
18348416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18348442 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18348468 TGAT
1 TGAT
18348472 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18348914 original size:26 final size:26
Alignment explanation
Indices: 18348884--18348939 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18348874 TGAAATGCCC
18348884 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18348910 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18348936 ATCA
1 ATCA
18348940 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18356292 original size:21 final size:21
Alignment explanation
Indices: 18356268--18356330 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 21
18356258 GTCTTGAATT
18356268 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
18356289 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
*
18356314 TATTAGATATTGAATTT
1 TGTTAGATATTGAATTT
18356331 GTTTGGTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 11 0.33
22 2 0.06
23 4 0.12
24 2 0.06
25 14 0.42
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:18357584 original size:28 final size:28
Alignment explanation
Indices: 18357546--18357602 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
18357536 CAATATATGT
* * *
18357546 AAAAATAATTTAAAGTATAAATTTATTA
1 AAAAACAATTTAAAATACAAATTTATTA
18357574 AAAAACAATTTAAAATACAAATTTATTA
1 AAAAACAATTTAAAATACAAATTTATTA
18357602 A
1 A
18357603 TATATGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAACAATTTAAAATACAAATTTATTA
Found at i:18357712 original size:19 final size:20
Alignment explanation
Indices: 18357688--18357733 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
18357678 CATCCAAACA
18357688 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
18357707 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
18357727 CCAGAAA
1 CCAGAAA
18357734 TCATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:18357736 original size:14 final size:14
Alignment explanation
Indices: 18357717--18357747 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18357707 CCAGAAAAGT
18357717 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
18357731 AAATCATTTTCCGG
1 AAATCATTTTCCAG
18357745 AAA
1 AAA
18357748 AGATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:18363860 original size:25 final size:25
Alignment explanation
Indices: 18363832--18363880 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18363822 TTTAAGTGAC
18363832 TGATTGGGGTTTTAATTAATCAATT
1 TGATTGGGGTTTTAATTAATCAATT
*
18363857 TGATTGGGGTTTTAATTGATCAAT
1 TGATTGGGGTTTTAATTAATCAAT
18363881 ATTAGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (25 bp):
TGATTGGGGTTTTAATTAATCAATT
Found at i:18389334 original size:40 final size:40
Alignment explanation
Indices: 18389256--18389439 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
18389246 ACCCAAGTAT
* *
18389256 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
18389295 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
18389335 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
18389375 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
*
18389418 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
18389440 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 12 0.09
40 85 0.66
41 1 0.01
43 30 0.23
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:18395357 original size:46 final size:46
Alignment explanation
Indices: 18395307--18395482 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
18395297 TGGTTGAGCA
18395307 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18395353 TCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
18395398 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18395446 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18395483 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 59 0.54
47 25 0.23
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18395463 original size:93 final size:93
Alignment explanation
Indices: 18395304--18395473 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
18395294 GGATGGTTGA
* *
18395304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
18395369 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
18395397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18395462 TGAGTCCGAGTT
66 TGAGTCCGAGTT
18395474 CGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:18400209 original size:40 final size:40
Alignment explanation
Indices: 18400131--18400314 Score: 239
Period size: 40 Copynumber: 4.5 Consensus size: 40
18400121 ACCCAAGTAT
* *
18400131 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
18400170 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
18400210 CTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
18400250 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
18400293 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
18400315 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 12 0.09
40 83 0.65
41 1 0.01
43 31 0.24
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:18407853 original size:18 final size:17
Alignment explanation
Indices: 18407817--18407855 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18407807 TTTTTTCACA
*
18407817 CTTTTTTTCCTTCATTT
1 CTTTTTTTCCTTCAATT
*
18407834 CTTTTTTTCTTTCAAATT
1 CTTTTTTTCCTTC-AATT
18407852 CTTT
1 CTTT
18407856 CTCACATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTTTTTTCCTTCAATT
Found at i:18415743 original size:17 final size:17
Alignment explanation
Indices: 18415699--18415743 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
18415689 GATTTGTACA
*
18415699 AAGATCTTCTATTTTGAT
1 AAGAT-TTCTATTTTCAT
18415717 AAGA-TTCTATTTTCAT
1 AAGATTTCTATTTTCAT
*
18415733 GAGATTTCTAT
1 AAGATTTCTAT
18415744 GAAGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.58
17 6 0.25
18 4 0.17
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (17 bp):
AAGATTTCTATTTTCAT
Found at i:18420657 original size:13 final size:13
Alignment explanation
Indices: 18420635--18420665 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18420625 TGACTTATGC
*
18420635 CACACGTCCAAGT
1 CACACATCCAAGT
18420648 CACACATCCAAGT
1 CACACATCCAAGT
18420661 CACAC
1 CACAC
18420666 GCCCGTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.42, G:0.10, T:0.13
Consensus pattern (13 bp):
CACACATCCAAGT
Found at i:18424590 original size:17 final size:18
Alignment explanation
Indices: 18424549--18424591 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
18424539 TGTATTTGCT
18424549 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
18424567 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
18424584 TATTATAT
1 TATTATAT
18424592 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:18431457 original size:28 final size:28
Alignment explanation
Indices: 18431393--18431491 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 28
18431383 ATATATTAAG
*
18431393 TCGCACACTCAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTATATAATCAAAC
18431420 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* *
18431448 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 TCGCACACTTAGTGCT-ATATAA-TCAAAC
*
18431477 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
18431492 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 23 0.35
28 22 0.34
29 20 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:18439250 original size:26 final size:29
Alignment explanation
Indices: 18439206--18439273 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 29
18439196 ATTAAGTCCA
*
18439206 CACACTCAGTGCTATATAATC-AA-CTCG
1 CACACTTAGTGCTATATAATCAAACCTCG
18439233 CACACTT-GTGCTATATAATCAAACCTCG
1 CACACTTAGTGCTATATAATCAAACCTCG
18439261 CACACTTAGTGCT
1 CACACTTAGTGCT
18439274 GGACATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 13 0.35
27 8 0.22
28 11 0.30
29 5 0.14
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCTATATAATCAAACCTCG
Found at i:18468865 original size:40 final size:41
Alignment explanation
Indices: 18468806--18469077 Score: 358
Period size: 40 Copynumber: 6.8 Consensus size: 41
18468796 CATTTGAATG
* * *
18468806 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
18468846 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
18468886 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
18468926 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
18468966 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
18469006 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
18469046 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
18469078 TTGTGGTTAT
Statistics
Matches: 205, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
39 2 0.01
40 197 0.96
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:18469028 original size:120 final size:120
Alignment explanation
Indices: 18468810--18469097 Score: 488
Period size: 120 Copynumber: 2.4 Consensus size: 120
18468800 TGAATGATAT
* * * *
18468810 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
* *
18468875 TGCGAGTTGATATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAC
18468930 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
18468995 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAC
* * *
18469050 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
18469098 ATTCCGAAGA
Statistics
Matches: 159, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 6 0.04
120 153 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATAC
Found at i:18482074 original size:33 final size:33
Alignment explanation
Indices: 18482032--18482099 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
18482022 TTATGTATGG
18482032 TAATGTGTAACACCCCAAACCCGGCCTAGAAGT
1 TAATGTGTAACACCCCAAACCCGGCCTAGAAGT
18482065 TAATGTGTAACACCCCAAACCCGGCCTAGAAGT
1 TAATGTGTAACACCCCAAACCCGGCCTAGAAGT
18482098 TA
1 TA
18482100 GGCTCGAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (33 bp):
TAATGTGTAACACCCCAAACCCGGCCTAGAAGT
Found at i:18483251 original size:27 final size:27
Alignment explanation
Indices: 18483221--18483272 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18483211 AAGGGCAAAA
* *
18483221 CAGTCATTTTACCCTATAAGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
18483248 CAGTCATTTTACACTACAAGGGTAT
1 CAGTCATTTTACACTACAAGGGTAT
18483273 TTTGGTAATT
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:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:18483283 original size:27 final size:27
Alignment explanation
Indices: 18483221--18483287 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
18483211 AAGGGCAAAA
* * *
18483221 CAGTCATTTTACCCTATAAGGGTATGT
1 CAGTAATTTTACACTACAAGGGTATGT
* *
18483248 CAGTCATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATGT
**
18483275 TGGTAATTTTACA
1 CAGTAATTTTACA
18483288 AATCGAGGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATGT
Found at i:18483296 original size:27 final size:27
Alignment explanation
Indices: 18483266--18483409 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
18483256 TTACACTACA
* *
18483266 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
18483293 AGGGTGTTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
18483320 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
18483347 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
18483374 GGGGTATTTCGATAATTTTACAATTCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
18483401 AGAGTATTT
1 AGGGTATTT
18483410 TAGTAATTTC
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:18483297 original size:54 final size:54
Alignment explanation
Indices: 18483239--18483407 Score: 162
Period size: 54 Copynumber: 3.1 Consensus size: 54
18483229 TTACCCTATA
* * * *
18483239 AGGGTATGTC-AGTCATTTTAC-ACTACAAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATGTCGA-TAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATCG
* * * *
18483293 AGGGTGTTTCGATAATTTTACAAATCAAGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATGTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
* * * * ** *
18483347 AGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCGATAATTTTACAATTCG
1 AGGGTATGTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
*
18483401 AGAGTAT
1 AGGGTAT
18483408 TTTAGTAATT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 93 0.97
55 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (54 bp):
AGGGTATGTCGATAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
Found at i:18483417 original size:81 final size:81
Alignment explanation
Indices: 18483266--18483418 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
18483256 TTACACTACA
* * * * *
18483266 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCAAGGGTGTTTCG
1 AGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGATAATTTTACAAATCAAGAGTGTTTAG
18483331 ATAATTTTACAAATTG
66 ATAATTTTACAAATTG
* * * * *
18483347 AGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTCGATAATTTTACAATTCGAGAGTATTTTA
1 AGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGATAATTTTACAAATCAAGAGT-GTTTA
18483412 G-TAATTT
65 GATAATTT
18483419 CTCTTTATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 57 0.93
82 4 0.07
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGATAATTTTACAAATCAAGAGTGTTTAG
ATAATTTTACAAATTG
Found at i:18483772 original size:28 final size:28
Alignment explanation
Indices: 18483719--18483881 Score: 143
Period size: 28 Copynumber: 5.8 Consensus size: 28
18483709 TCCACACTTA
* *
18483719 TTCATTTGGCCCTTTTAGGCCCAATCTCG
1 TTCACTTGGCCC-ATTAGGCCCAATCTCG
* *
18483748 TTCACTTGGCCCTTTAGGCCCAATCTCA
1 TTCACTTGGCCCATTAGGCCCAATCTCG
* * *
18483776 TTCA-TATGGCCCATCAGGCCCAATCACA
1 TTCACT-TGGCCCATTAGGCCCAATCTCG
* *
18483804 TTCA-TATGGTCCA-TCGGCCCAATCTCG
1 TTCACT-TGGCCCATTAGGCCCAATCTCG
* *
18483831 TTCACATGGCCCATCAGGCCCAATCTCG
1 TTCACTTGGCCCATTAGGCCCAATCTCG
* * * *
18483859 TTTACATGGCCGATCAGGCCCAA
1 TTCACTTGGCCCATTAGGCCCAA
18483882 CTACTTCCCA
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
27 21 0.18
28 83 0.72
29 11 0.10
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (28 bp):
TTCACTTGGCCCATTAGGCCCAATCTCG
Found at i:18486166 original size:43 final size:42
Alignment explanation
Indices: 18486010--18486164 Score: 179
Period size: 43 Copynumber: 3.7 Consensus size: 42
18486000 TGTGTTCTAC
*
18486010 TGTAAGACCACGCCTGGGACATTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATT-CG
* * * * *
18486053 TATAAGACCATGTCTGGGACATCGGCGTCG-TATTTGATTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCG
* * * *
18486094 TGTAAGACC-CTGTCTGGGATAGTGGCATTGATATGTGATTGCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATT-CG
18486137 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
18486165 TGTATAATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 24 0.26
42 16 0.18
43 50 0.55
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCG
Found at i:18489204 original size:25 final size:25
Alignment explanation
Indices: 18489170--18489218 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18489160 CTCTTCACAT
18489170 TGCTTGAACAAACTAGGCAAATTAG
1 TGCTTGAACAAACTAGGCAAATTAG
*
18489195 TGCTTGAACAAACTAGGCGAATTA
1 TGCTTGAACAAACTAGGCAAATTA
18489219 TACCTTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
TGCTTGAACAAACTAGGCAAATTAG
Found at i:18495144 original size:22 final size:23
Alignment explanation
Indices: 18495106--18495151 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
18495096 ATCAAAAAGG
18495106 AAAATAATGAAAGTAAAACTAGA
1 AAAATAATGAAAGTAAAACTAGA
*
18495129 AAAATAAAT-AAA-TAAAATTAGA
1 AAAAT-AATGAAAGTAAAACTAGA
18495151 A
1 A
18495152 CACTATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 8 0.38
24 3 0.14
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAATAATGAAAGTAAAACTAGA
Found at i:18495921 original size:18 final size:18
Alignment explanation
Indices: 18495884--18495922 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18495874 TTGAAAATCA
*
18495884 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
18495902 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
18495920 AAA
1 AAA
18495923 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:18513858 original size:23 final size:23
Alignment explanation
Indices: 18513814--18513917 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
18513804 ATCACAGCGT
**
18513814 AGCTGCTAATAGTAACATAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
18513837 TA-CTGCTAATAGTAACGCAGCAA
1 -AGCTGCTAATAGTAACGCAGCAA
* * * *
18513860 TGTTGCTAACAGTAATGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
* * *
18513883 AGTTACTAATAGTAACGTAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
18513906 AGCTGCTAATAG
1 AGCTGCTAATAG
18513918 CGGTAAGCGT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.24
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAGCAA
Found at i:18516529 original size:45 final size:45
Alignment explanation
Indices: 18516480--18516601 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
18516470 GATGTCGATG
* * *
18516480 TCCCAGATGTGGTCTTACATGAAATCAAATATATCGATGCCAACA
1 TCCCAGATGTGGTCTTACACGAAATCACATATATAGATGCCAACA
* ** *
18516525 TCCCAAACATGGTCTTACACAAAATCACATATATAGATGCCAACA
1 TCCCAGATGTGGTCTTACACGAAATCACATATATAGATGCCAACA
18516570 TCCCAGATGTGGTCTTACACGAAATCACATAT
1 TCCCAGATGTGGTCTTACACGAAATCACATAT
18516602 CGAAATCCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
TCCCAGATGTGGTCTTACACGAAATCACATATATAGATGCCAACA
Found at i:18517692 original size:14 final size:16
Alignment explanation
Indices: 18517666--18517698 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18517656 CAAAGCACGA
18517666 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
18517681 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
18517696 AAA
1 AAA
18517699 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:18520826 original size:22 final size:22
Alignment explanation
Indices: 18520778--18520826 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
18520768 AGATCATTAG
*
18520778 ATTCAATCCGAATAATCTCATC
1 ATTCTATCCGAATAATCTCATC
18520800 ATTCTATCCGAATAATCTCATC
1 ATTCTATCCGAATAATCTCATC
18520822 ATTCT
1 ATTCT
18520827 GGCACCGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTCTATCCGAATAATCTCATC
Found at i:18524238 original size:45 final size:45
Alignment explanation
Indices: 18524184--18524350 Score: 219
Period size: 45 Copynumber: 3.7 Consensus size: 45
18524174 AATGTCGATG
* * * *
18524184 TCCCAGACATGGTCTTACACTTAACCATATATATGGATGCCAACA
1 TCCCAGACATGGTCTTACACTAAATCACATATATCGATGCCAACA
* * * *
18524229 TCCCAGACATGGACTTACACGAAATCACATATATCGATGCTAACG
1 TCCCAGACATGGTCTTACACTAAATCACATATATCGATGCCAACA
*
18524274 TCCTAGACATGGTCTTACA-TGAAATCACATATATCGATGCCAACA
1 TCCCAGACATGGTCTTACACT-AAATCACATATATCGATGCCAACA
* *
18524319 TCCCAGACGTGGTCTTACACAAAATCACATAT
1 TCCCAGACATGGTCTTACACTAAATCACATAT
18524351 CAGAATCCTA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 104 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (45 bp):
TCCCAGACATGGTCTTACACTAAATCACATATATCGATGCCAACA
Found at i:18524306 original size:90 final size:90
Alignment explanation
Indices: 18524183--18524350 Score: 248
Period size: 90 Copynumber: 1.9 Consensus size: 90
18524173 CAATGTCGAT
* * *
18524183 GTCCCAGACATGGTCTTACACTTAACCATATATATGGATGCCAACATCCCAGACATGGACTTACA
1 GTCCCAGACATGGTCTTACACTAAACCACATATATCGATGCCAACATCCCAGACATGGACTTACA
*
18524248 CGAAATCACATATATCGATGCTAAC
66 CAAAATCACATATATCGATGCTAAC
* * * *
18524273 GTCCTAGACATGGTCTTACA-TGAAATCACATATATCGATGCCAACATCCCAGACGTGGTCTTAC
1 GTCCCAGACATGGTCTTACACT-AAACCACATATATCGATGCCAACATCCCAGACATGGACTTAC
18524337 ACAAAATCACATAT
65 ACAAAATCACATAT
18524351 CAGAATCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 1 0.01
90 68 0.99
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (90 bp):
GTCCCAGACATGGTCTTACACTAAACCACATATATCGATGCCAACATCCCAGACATGGACTTACA
CAAAATCACATATATCGATGCTAAC
Found at i:18526589 original size:39 final size:40
Alignment explanation
Indices: 18526472--18526656 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
18526462 GCTACTCGTT
*
18526472 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18526512 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18526552 CAAATGCCTTCGGG-CTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
18526591 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18526632 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18526657 CATCATTCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18526591 original size:79 final size:82
Alignment explanation
Indices: 18526472--18526656 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
18526462 GCTACTCGTT
* *
18526472 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
18526535 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
18526552 CAAATGCCTTCGGG-CTTAGTCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
18526615 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
18526632 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18526657 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:18530439 original size:11 final size:11
Alignment explanation
Indices: 18530423--18530477 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18530413 CATGATTGAT
18530423 ATGATATGCAC
1 ATGATATGCAC
18530434 ATGATATG---
1 ATGATATGCAC
18530442 ATGATATGCAC
1 ATGATATGCAC
*
18530453 ATGATATG--T
1 ATGATATGCAC
*
18530462 ATGAAATGCAC
1 ATGATATGCAC
18530473 ATGAT
1 ATGAT
18530478 GTATTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 8 0.23
9 7 0.20
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18530447 original size:19 final size:20
Alignment explanation
Indices: 18530404--18530477 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
18530394 ATACGTGGGA
18530404 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
18530421 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
18530442 -ATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
18530461 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
18530478 GTATTCATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.16
19 19 0.37
20 22 0.43
21 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:18530457 original size:39 final size:37
Alignment explanation
Indices: 18530405--18530477 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
18530395 TACGTGGGAT
*
18530405 ATGATATACATGAT-TGATATGATATGCACATGATATG
1 ATGATATACATGATATG-TATGAAATGCACATGATATG
18530442 ATGATATGCACATGATATGTATGAAATGCACATGAT
1 ATGATAT--ACATGATATGTATGAAATGCACATGAT
18530478 GTATTCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 7 0.22
39 23 0.72
40 2 0.06
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (37 bp):
ATGATATACATGATATGTATGAAATGCACATGATATG
Found at i:18530598 original size:25 final size:26
Alignment explanation
Indices: 18530527--18530671 Score: 206
Period size: 26 Copynumber: 5.7 Consensus size: 26
18530517 GAGGAAGTGC
*
18530527 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
18530553 AAAAGGGTTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
18530579 AAAAGGGCTT-TGCCCCAGTTCATCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
18530604 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
18530630 AAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
18530655 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
18530672 ATTATTAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
25 52 0.49
26 54 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:18530598 original size:51 final size:51
Alignment explanation
Indices: 18530527--18530671 Score: 211
Period size: 51 Copynumber: 2.8 Consensus size: 51
18530517 GAGGAAGTGC
* *
18530527 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTATGCCCCAGTTTATCG
1 AAAAGGGCTT-TGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTATCG
* * *
18530579 AAAAGGGCTTTGCCCCAGTTCATCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTATCG
* *
18530630 AAAAGGACTTTGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTATGCCCCA
18530672 ATTATTAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
50 7 0.08
51 67 0.80
52 10 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTATCG
Found at i:18532727 original size:6 final size:6
Alignment explanation
Indices: 18532718--18532790 Score: 62
Period size: 6 Copynumber: 11.8 Consensus size: 6
18532708 TATTAGAACT
* *
18532718 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
18532767 AGGTAA-C AGAATC A-ATATC AGAAT
1 A-G-AATC AGAATC AGA-ATC AGAAT
18532791 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
5 4 0.07
6 42 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:18532751 original size:25 final size:25
Alignment explanation
Indices: 18532723--18532790 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
18532713 GAACTAGAAT
*
18532723 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
18532748 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
18532773 CAGAATCA-ATATCAGAAT
1 CAGAATCAGA-ATCAGAAT
18532791 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:18533055 original size:27 final size:26
Alignment explanation
Indices: 18533007--18533058 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18532997 GCGAGGCTGC
*
18533007 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
18533033 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
18533059 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18533325 original size:27 final size:27
Alignment explanation
Indices: 18533295--18533570 Score: 293
Period size: 27 Copynumber: 10.2 Consensus size: 27
18533285 AACACCCTAG
* *
18533295 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
18533322 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
18533349 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * * *
18533376 GGGTAAAACAATAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
18533403 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
18533430 GGGTAAAATAGTAATTTTGTAAATCTA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
18533457 GGGTAAAACT-GTAATTCTGTAAATCGA
1 GGGTAAAA-TAGTAATTTTGTAAATCGA
* * * * *
18533484 GGGTAAAACAATAATTCTATAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * **
18533511 GGGTAAAACGGTAATTTTATAAATTAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
18533538 GGGTAAAACAATAATTTTTTTAATTCGA
1 GGGTAAAATAGTAA-TTTTGTAAATCGA
18533566 GGGTA
1 GGGTA
18533571 CTTTGATAAT
Statistics
Matches: 213, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
27 198 0.93
28 15 0.07
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:18533377 original size:54 final size:54
Alignment explanation
Indices: 18533295--18533553 Score: 340
Period size: 54 Copynumber: 4.8 Consensus size: 54
18533285 AACACCCTAG
* *** *
18533295 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
* *
18533349 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATCAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
* * * * *
18533403 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCTA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
* *
18533457 GGGTAAAACT-GTAATTCTGTAAATCGAGGGTAAAACAATAATTCTATAAATCAA
1 GGGTAAAA-TGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
* * **
18533511 GGGTAAAACGGTAATTTTATAAATTAAGGGTAAAACAATAATT
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATT
18533554 TTTTTAATTC
Statistics
Matches: 178, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
54 177 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (54 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
Found at i:18533430 original size:81 final size:81
Alignment explanation
Indices: 18533306--18533553 Score: 343
Period size: 81 Copynumber: 3.1 Consensus size: 81
18533296 GGTAAAATGG
*
18533306 TAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
*
18533371 ATCGAGGGTAAAACAA
66 ATCAAGGGTAAAACAA
* *
18533387 TAATTCTATCAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
* **
18533452 ATCTAGGGTAAAACTG
66 ATCAAGGGTAAAACAA
* *** * * ** *
18533468 TAATTCTGTAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAA
1 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
*
18533533 ATTAAGGGTAAAACAA
66 ATCAAGGGTAAAACAA
18533549 TAATT
1 TAATT
18533554 TTTTTAATTC
Statistics
Matches: 146, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (81 bp):
TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAA
ATCAAGGGTAAAACAA
Found at i:18533592 original size:27 final size:25
Alignment explanation
Indices: 18533555--18533610 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
18533545 ACAATAATTT
*
18533555 TTTTAATTCGAGGGTACTTTGA-TAA
1 TTTTAATTCGAGGGTA-TTTCAGTAA
18533580 TTTTACATGTCGAGGGTATTTCAGTAA
1 TTTTA-AT-TCGAGGGTATTTCAGTAA
18533607 TTTT
1 TTTT
18533611 GCAAACTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 16 0.59
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (25 bp):
TTTTAATTCGAGGGTATTTCAGTAA
Found at i:18533647 original size:54 final size:55
Alignment explanation
Indices: 18533567--18533724 Score: 162
Period size: 54 Copynumber: 2.9 Consensus size: 55
18533557 TTAATTCGAG
* * ** *
18533567 GGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAACTTAG-
1 GGTACTTTGGTAATTTTAAAAATCGAGGGTATTTCAGTAATTTTGTAAACTTAGA
* ** * *
18533621 GGTA-TTTCGGTAATTTTAAAAATCGAGGATATTTGGGTAATTTTATAAA-TTGGA
1 GGTACTTT-GGTAATTTTAAAAATCGAGGGTATTTCAGTAATTTTGTAAACTTAGA
* * *
18533675 GGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTTTGTAAACT
1 GGTACTTTGGTAATTTTAAAAATCGAGGGTATTTCAGTAATTTTGTAAACT
18533725 AAAGTATTCT
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
53 26 0.31
54 54 0.65
55 3 0.04
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (55 bp):
GGTACTTTGGTAATTTTAAAAATCGAGGGTATTTCAGTAATTTTGTAAACTTAGA
Found at i:18533713 original size:26 final size:26
Alignment explanation
Indices: 18533591--18533717 Score: 105
Period size: 27 Copynumber: 4.8 Consensus size: 26
18533581 TTTACATGTC
* *
18533591 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTT-AAAACT
* *
18533618 TAGGGTATTTCGGTAATTTTAAAAAT
1 GAGGGTATTTCGGTAATTTTAAAACT
* * *
18533644 CGAGGATATTTGGGTAATTTTATAAATT
1 -GAGGGTATTTCGGTAATTTTA-AAACT
*
18533672 G-GAGGTACTTT-GGTAATTTTACAACT
1 GAG-GGTA-TTTCGGTAATTTTAAAACT
* *
18533698 GGGGGTATTTCAGTAATTTT
1 GAGGGTATTTCGGTAATTTT
18533718 GTAAACTAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.04
26 21 0.26
27 51 0.62
28 7 0.09
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (26 bp):
GAGGGTATTTCGGTAATTTTAAAACT
Found at i:18535716 original size:31 final size:31
Alignment explanation
Indices: 18535675--18535741 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
18535665 TATCAGAACT
* * *
18535675 AGAATCAGAATTAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAAGTAAC
* *
18535706 AGAATTAGAATCAGAATCAATATCAAGTAAC
1 AGAATCAGAATCAGAATCAAAATCAAGTAAC
18535737 AGAAT
1 AGAAT
18535742 GAATATCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAAGTAAC
Found at i:18535722 original size:12 final size:12
Alignment explanation
Indices: 18535666--18535722 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
18535656 AAGAAACATT
*
18535666 ATCAGAACTAGA
1 ATCAGAATTAGA
18535678 ATCAGAATTAGA
1 ATCAGAATTAGA
* *
18535690 ATCAAAATCAG-
1 ATCAGAATTAGA
*
18535701 GTGACAGAATTAGA
1 AT--CAGAATTAGA
18535715 ATCAGAAT
1 ATCAGAAT
18535723 CAATATCAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 1 0.03
12 26 0.74
13 7 0.20
14 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (12 bp):
ATCAGAATTAGA
Found at i:18535750 original size:31 final size:31
Alignment explanation
Indices: 18535675--18535753 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
18535665 TATCAGAACT
* * * *
18535675 AGAATCAGAATTAGAATCAAAATCAGGTGAC
1 AGAATGAGAATCAGAATCAAAATCAAGTAAC
* *
18535706 AGAATTAGAATCAGAATCAATATCAAGTAAC
1 AGAATGAGAATCAGAATCAAAATCAAGTAAC
18535737 AGAATGA-ATATCAGAAT
1 AGAATGAGA-ATCAGAAT
18535754 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (31 bp):
AGAATGAGAATCAGAATCAAAATCAAGTAAC
Found at i:18535920 original size:27 final size:26
Alignment explanation
Indices: 18535872--18535931 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
18535862 GCGAGGCTAC
*
18535872 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* *
18535899 CAGATATTGTGGCTAAGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
18535925 CAGATAT
1 CAGATAT
18535932 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:18536287 original size:27 final size:27
Alignment explanation
Indices: 18536257--18536505 Score: 279
Period size: 27 Copynumber: 9.2 Consensus size: 27
18536247 TAACACCCTA
** * *
18536257 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
18536284 AGGGTAAAACGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
18536311 AGGGTAAAATAGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
18536338 AGGGTAAAACAGTAATTCTGTCAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
18536365 AGGGTAAAACAGTAATTCTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
18536392 AGGGT-AAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
18536418 ATGGTAAAATAGTAATTCTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
18536445 AGGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
*
18536472 AGGGTAAAACAGTAATT-TTTATAATTCG
1 AGGGTAAAACAGTAATTCTGTA-AA-TCG
18536500 AGGGTA
1 AGGGTA
18536506 CTTTGATAAT
Statistics
Matches: 192, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.14
27 156 0.81
28 10 0.05
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:18536435 original size:80 final size:80
Alignment explanation
Indices: 18536257--18536505 Score: 347
Period size: 80 Copynumber: 3.1 Consensus size: 80
18536247 TAACACCCTA
* * * * *
18536257 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATA
1 AGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAAC-GTAATTCTGTAAATTGAGGGTAAAATA
18536322 GTAATTTTATAAATCG
65 GTAATTTTATAAATCG
* *
18536338 AGGGTAAAACAGTAATTCTGTCAATCAAGGGTAAAACAGTAATTCTGTAAATTGAGGGT-AAATA
1 AGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAAC-GTAATTCTGTAAATTGAGGGTAAAATA
*
18536402 GTAATTTTGTAAATCG
65 GTAATTTTATAAATCG
* * *
18536418 ATGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACA
1 AGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAACG-TAATTCTGTAAATTGAGGGTAAAATA
*
18536483 GTAATTTTTATAATTCG
65 GTAA-TTTTATAAATCG
18536500 AGGGTA
1 AGGGTA
18536506 CTTTGATAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 73 0.49
81 59 0.40
82 15 0.10
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (80 bp):
AGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAACGTAATTCTGTAAATTGAGGGTAAAATAG
TAATTTTATAAATCG
Found at i:18536574 original size:54 final size:54
Alignment explanation
Indices: 18536499--18536651 Score: 175
Period size: 54 Copynumber: 2.9 Consensus size: 54
18536489 TTTATAATTC
** * *
18536499 GAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTTAGTAATTTTGCAAACT
1 GAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT
* ** *
18536553 GAGGGTA-TTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACT
1 GAGGGTACTTT-GATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT
* * * *
18536607 GGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 GAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTT
18536652 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 18 0.22
54 62 0.75
55 3 0.04
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (54 bp):
GAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT
Found at i:18536637 original size:27 final size:25
Alignment explanation
Indices: 18536499--18536651 Score: 108
Period size: 27 Copynumber: 5.7 Consensus size: 25
18536489 TTTATAATTC
* **
18536499 GAGGGTACTTTGATAATTTTACATGT
1 GAGGGTA-TTTGGTAATTTTACAACT
* *
18536525 CGAGGGTATTTTAGTAATTTTGCAAACT
1 -GAGGGTA-TTTGGTAATTTTAC-AACT
* *
18536553 GAGGGTATTTCGATAATTTTACAAAT
1 GAGGGTATTT-GGTAATTTTACAACT
* *
18536579 CGAGGATATTTGGGTAATTTTATAAACT
1 -GAGGGTATTT-GGTAATTTTA-CAACT
*
18536607 GGGGGTACTTTGGTAATTTTACAACT
1 GAGGGTA-TTTGGTAATTTTACAACT
* *
18536633 GGGGGTATTTCAGTAATTT
1 GAGGGTATTT-GGTAATTT
18536652 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.03
26 24 0.24
27 66 0.65
28 8 0.08
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (25 bp):
GAGGGTATTTGGTAATTTTACAACT
Found at i:18536648 original size:26 final size:26
Alignment explanation
Indices: 18536481--18536651 Score: 105
Period size: 27 Copynumber: 6.3 Consensus size: 26
18536471 GAGGGTAAAA
* *
18536481 CAGTAATTTTTATAATTCGAGGGTACTTT
1 CAGTAA-TTTTACAACT-GAGGGTA-TTT
* **
18536510 GA-TAATTTTACATGTCGAGGGTATTT
1 CAGTAATTTTACAACT-GAGGGTATTT
* *
18536536 TAGTAATTTTGCAAACTGAGGGTATTT
1 CAGTAATTTTAC-AACTGAGGGTATTT
* *
18536563 C-GATAATTTTACAAATCGAGGATATTT
1 CAG-TAATTTTACAACT-GAGGGTATTT
** * *
18536590 GGGTAATTTTATAAACTGGGGGTACTTT
1 CAGTAATTTTA-CAACTGAGGGTA-TTT
* *
18536618 -GGTAATTTTACAACTGGGGGTATTT
1 CAGTAATTTTACAACTGAGGGTATTT
18536643 CAGTAATTT
1 CAGTAATTT
18536652 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
25 3 0.03
26 26 0.23
27 73 0.63
28 12 0.10
29 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
CAGTAATTTTACAACTGAGGGTATTT
Found at i:18536659 original size:27 final size:25
Alignment explanation
Indices: 18536592--18536651 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
18536582 GGATATTTGG
*
18536592 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAA-TTT-TAAACTGGGGGTACTTTA
18536619 GTAATTTTACAACTGGGGGTA-TTTCA
1 GTAATTTTA-AACTGGGGGTACTTT-A
18536645 GTAATTT
1 GTAATTT
18536652 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
GTAATTTTAAACTGGGGGTACTTTA
Found at i:18539555 original size:28 final size:28
Alignment explanation
Indices: 18539515--18539586 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
18539505 TTTAAATTGC
18539515 ATAGCACTAAGTGTGCAAGTTTGATTAT
1 ATAGCACTAAGTGTGCAAGTTTGATTAT
*
18539543 ATAGCACTAAGTGTGCGAGTTTGATTAT
1 ATAGCACTAAGTGTGCAAGTTTGATTAT
* *
18539571 GTAACACTAAGTGTGC
1 ATAGCACTAAGTGTGC
18539587 GGACTTACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (28 bp):
ATAGCACTAAGTGTGCAAGTTTGATTAT
Found at i:18539587 original size:28 final size:28
Alignment explanation
Indices: 18539490--18539587 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
18539480 ATGAGATTGG
* * ** *
18539490 CACTAAGTGTGCGGGTTTAAATTGCATAG
1 CACTAAGTGTGCGAGTTT-GATTATATAA
* *
18539519 CACTAAGTGTGCAAGTTTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATATAA
*
18539547 CACTAAGTGTGCGAGTTTGATTATGTAA
1 CACTAAGTGTGCGAGTTTGATTATATAA
18539575 CACTAAGTGTGCG
1 CACTAAGTGTGCG
18539588 GACTTACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
28 45 0.74
29 16 0.26
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATATAA
Found at i:18544285 original size:46 final size:46
Alignment explanation
Indices: 18544218--18544388 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
18544208 CGCCCCTAAG
* * *
18544218 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
* * * **
18544264 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-AAA
* ** * *
18544311 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
* *
18544357 TGAACTCAGACTCAACTCAACGAGTTCAGATG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG
18544389 CTCAACCATC
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 63 0.64
47 36 0.36
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
Found at i:18544378 original size:93 final size:93
Alignment explanation
Indices: 18544219--18544389 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
18544209 GCCCCTAAGT
*** *
18544219 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
18544284 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
18544312 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
18544377 CGAGTTCAGATGC
66 CGAGTTCAGATGC
18544390 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:18545334 original size:21 final size:22
Alignment explanation
Indices: 18545308--18545366 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
18545298 GTTTTAAGAA
*
18545308 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
18545329 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
18545351 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
18545367 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:18545383 original size:26 final size:24
Alignment explanation
Indices: 18545337--18545386 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
18545327 ATTTGTTTTA
* *
18545337 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATCTTTAAAT
18545361 ATATTTGATTTATTATATCTTTAAAT
1 ATATTTG-TTT-TTATATCTTTAAAT
18545387 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATCTTTAAAT
Found at i:18554055 original size:44 final size:43
Alignment explanation
Indices: 18553970--18554057 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
18553960 ATGTGTTATC
* *
18553970 GTGTAAGACCACATCTGGGACGTTGGCATCGAATTCTATTTTGT
1 GTGTAAGACCACATCTAGGACATTGGCATCG-ATTCTATTTTGT
*
18554014 GTGTAAGACCATATCTAGGACATTGGCATCG-TGTCTAATTTTGT
1 GTGTAAGACCACATCTAGGACATTGGCATCGAT-TCT-ATTTTGT
18554058 ATAGGACTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 3 0.08
44 35 0.90
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCACATCTAGGACATTGGCATCGATTCTATTTTGT
Found at i:18556084 original size:29 final size:29
Alignment explanation
Indices: 18556049--18556122 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
18556039 GTTGTGAGAT
* *
18556049 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18556078 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18556107 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18556123 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18562521 original size:27 final size:27
Alignment explanation
Indices: 18562438--18562698 Score: 199
Period size: 27 Copynumber: 9.7 Consensus size: 27
18562428 CTCCTGTAGG
* ***
18562438 GTAAAATTACTGAAATACCCTTGGTTT
1 GTAAAATTACCGAAATACCCTCAATTT
** * **
18562465 ACAAAATTACTG-AATACCCT-GGTTT
1 GTAAAATTACCGAAATACCCTCAATTT
18562490 GTAAAATTACCGAAATACCCTCAATTT
1 GTAAAATTACCGAAATACCCTCAATTT
*
18562517 GTAAAATTACCAAAATACCC-CTAATTT
1 GTAAAATTACCGAAATACCCTC-AATTT
* * * * * **
18562544 GTGAAATTATCAAAACACCCTCGACCT
1 GTAAAATTACCGAAATACCCTCAATTT
* * *
18562571 GTAAAATTATCGAAATACCCCCAACTT
1 GTAAAATTACCGAAATACCCTCAATTT
* * *
18562598 ATAAAATTACCAAAATACCCTCGATTT
1 GTAAAATTACCGAAATACCCTCAATTT
* * *
18562625 GTAAAGTTACCAAAATACCC-CTTATTT
1 GTAAAATTACCGAAATACCCTC-AATTT
*
18562652 GGAAAATTACCGAAATACCCT-AGATTT
1 GTAAAATTACCGAAATACCCTCA-ATTT
* *
18562679 GGAAAATTACAGAAATACCC
1 GTAAAATTACCGAAATACCC
18562699 CTGATTTACA
Statistics
Matches: 193, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
25 14 0.07
26 18 0.09
27 160 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCAATTT
Found at i:18562564 original size:54 final size:54
Alignment explanation
Indices: 18562487--18562724 Score: 246
Period size: 54 Copynumber: 4.4 Consensus size: 54
18562477 AATACCCTGG
*
18562487 TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
* * * * ** * * *
18562541 TTTGTGAAATTATCAAAACACCCTCGACCTGTAAAATTATCGAAATACCCCCAA
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
* * * * *
18562595 CTTATAAAATTACCAAAATACCCTCGATTTGTAAAGTTACCAAAATACCCCTTA
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
* * * *
18562649 TTTGGAAAATTACCGAAATACCCT-AGATTTGGAAAATTA-CAGAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCTCA-ATTTGTAAAATTACCA-AAATACCCCTAA
** *
18562703 TTTACAAAATTACAAAAATACC
1 TTTGTAAAATTACCAAAATACC
18562725 ATTGACTTTC
Statistics
Matches: 148, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.01
54 146 0.99
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
Found at i:18562685 original size:81 final size:80
Alignment explanation
Indices: 18562487--18562724 Score: 241
Period size: 81 Copynumber: 2.9 Consensus size: 80
18562477 AATACCCTGG
*
18562487 TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATT
1 TTTGTAAAATTACCGAAATACCCT-AATTTGTAAAATTACCAAAATACCCCTGATTTGT-AAATT
* *
18562552 ATCAAAACA-CCCTCGA
64 ACCAAAATACCCCTCGA
** * * * *
18562568 CCTGTAAAATTATCGAAATACCCCCAACTTATAAAATTACCAAAATA-CCCTCGATTTGTAAAGT
1 TTTGTAAAATTACCGAAATA-CCCTAATTTGTAAAATTACCAAAATACCCCT-GATTTGTAAA-T
*
18562632 TACCAAAATACCCCT-TA
63 TACCAAAATACCCCTCGA
* * **
18562649 TTTGGAAAATTACCGAAATACCCTAGATTTGGAAAATTA-CAGAAATACCCCTGATTTACAAAAT
1 TTTGTAAAATTACCGAAATACCCTA-ATTTGTAAAATTACCA-AAATACCCCTGATTT-GTAAAT
*
18562713 TACAAAAATACC
63 TACCAAAATACC
18562725 ATTGACTTTC
Statistics
Matches: 128, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
80 13 0.10
81 101 0.79
82 14 0.11
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (80 bp):
TTTGTAAAATTACCGAAATACCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGTAAATTAC
CAAAATACCCCTCGA
Done.