Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 60 of 161
Found at i:18764821 original size:109 final size:106
Alignment explanation
Indices: 18764490--18764825 Score: 326
Period size: 109 Copynumber: 3.1 Consensus size: 106
18764480 TTTTGAAACG
* *
18764490 AAAAAAAAAGAACTTTTTTTTTAAAATTGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAA
1 AAAAAAAAAGAA-TTTTTTTTTGAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
* *
18764555 TTTTTTATT-TTTATT-TTTTTCGTATACTGA-TAT-CTGATTCTGA
65 TTTTTTATTCTTT-TTCTTTTTTGTATATTGATTATAC--ATT-T-A
* * * *
18764598 CACGAAAAAAATAAATTTTTTTTGAAATTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCCAA
1 -A-AAAAAAAAGAATTTTTTTTTGAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
* * ** * **
18764663 ATTTTTTTTTACTTTTTTCGTATACTG-ATATCTGATTCTGACA-CGA
64 ATTTTTTATT-C-TTTTTC-TTTTTTGTATAT-TGATTAT-ACATTTA
18764709 AAAAAAAAAGAATTTTTTTTTGAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAT
1 AAAAAAAAAGAATTTTTTTTTGAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAT
*
18764773 TTTTTCTTCTTTTTCCTTTTTTGTATATTAGTATTATACAATTTA
66 TTTTTATTCTTTTT-CTTTTTTGTATATT-G-ATTATAC-ATTTA
18764818 AAAAAAAA
1 AAAAAAAA
18764826 TACATGGGTT
Statistics
Matches: 185, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
106 10 0.05
107 9 0.05
108 18 0.10
109 119 0.64
110 10 0.05
111 3 0.02
112 6 0.03
113 6 0.03
114 3 0.02
116 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (106 bp):
AAAAAAAAAGAATTTTTTTTTGAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAT
TTTTTATTCTTTTTCTTTTTTGTATATTGATTATACATTTA
Found at i:18770935 original size:30 final size:30
Alignment explanation
Indices: 18770891--18770959 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
18770881 CTACAAGGGT
* * *
18770891 CACACGGCCGTGTGCGTCACACAACTGAAA
1 CACACGTCCATGTGCCTCACACAACTGAAA
*** *
18770921 CACACGTCCATGTGCCTCACATGGCTGAGA
1 CACACGTCCATGTGCCTCACACAACTGAAA
18770951 CACACGTCC
1 CACACGTCC
18770960 GTGTCTCAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (30 bp):
CACACGTCCATGTGCCTCACACAACTGAAA
Found at i:18774670 original size:15 final size:15
Alignment explanation
Indices: 18774636--18774676 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
18774626 AAAAATCATG
* *
18774636 AAAATAAATA-AGTT
1 AAAATAAAAATAGTA
18774650 AAAATAAAAATAGTA
1 AAAATAAAAATAGTA
18774665 AAAATAAAAATA
1 AAAATAAAAATA
18774677 AAAATAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (15 bp):
AAAATAAAAATAGTA
Found at i:18776196 original size:24 final size:25
Alignment explanation
Indices: 18776169--18776215 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18776159 TCGGTATATT
18776169 CAGAAACAC-GCCAATATAACACGG
1 CAGAAACACTGCCAATATAACACGG
*
18776193 CAGAAACACTGTCAATATAACAC
1 CAGAAACACTGCCAATATAACAC
18776216 AATAGTCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.47, C:0.28, G:0.13, T:0.13
Consensus pattern (25 bp):
CAGAAACACTGCCAATATAACACGG
Found at i:18779646 original size:25 final size:25
Alignment explanation
Indices: 18779591--18779648 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
18779581 ATAGATCTAA
*
18779591 ATTTTAATTTTAGTTATTTTTATTTG
1 ATTTTAATTTTAGTTA-TTTAATTTG
*
18779617 A-TTTAATTTTAAGTTA-TTAATTTT
1 ATTTTAATTTT-AGTTATTTAATTTG
18779641 ATTTTAAT
1 ATTTTAAT
18779649 GTCTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (25 bp):
ATTTTAATTTTAGTTATTTAATTTG
Found at i:18779659 original size:20 final size:18
Alignment explanation
Indices: 18779613--18779661 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
18779603 GTTATTTTTA
*
18779613 TTTGATTTAATTTTAAGT
1 TTTGATTTTATTTTAAGT
*
18779631 TATTAATTTTATTTTAATGT
1 T-TTGATTTTATTTTAA-GT
18779651 CTTTGATTTTA
1 -TTTGATTTTA
18779662 GTGTATGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 10 0.40
21 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTGATTTTATTTTAAGT
Found at i:18781525 original size:20 final size:20
Alignment explanation
Indices: 18781500--18781542 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18781490 AGAGATAAGG
*
18781500 GTGTAACAACCCATTTTTTA
1 GTGTAACAACCCAGTTTTTA
*
18781520 GTGTAACAGCCCAGTTTTTA
1 GTGTAACAACCCAGTTTTTA
18781540 GTG
1 GTG
18781543 GTACCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (20 bp):
GTGTAACAACCCAGTTTTTA
Found at i:18791746 original size:16 final size:17
Alignment explanation
Indices: 18791725--18791756 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18791715 TATTGTGTTA
18791725 TTTAATTGTT-TAATAG
1 TTTAATTGTTGTAATAG
18791741 TTTAATTGTTGTAATA
1 TTTAATTGTTGTAATA
18791757 CAATACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTAATTGTTGTAATAG
Found at i:18807920 original size:7 final size:7
Alignment explanation
Indices: 18807910--18807940 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18807900 AACTAAAAGC
18807910 AAAAATA
1 AAAAATA
18807917 AAAAATA
1 AAAAATA
18807924 AAAAATA
1 AAAAATA
18807931 AAAAATA
1 AAAAATA
18807938 AAA
1 AAA
18807941 TAAAACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:18809608 original size:5 final size:5
Alignment explanation
Indices: 18809572--18809695 Score: 51
Period size: 5 Copynumber: 23.4 Consensus size: 5
18809562 ATGATAATGC
**
18809572 AATAA TAATAA ATATAA ATACTAA ACATAA AATAA AA-GC AATAA AGA-AA
1 AATAA -AATAA A-ATAA A-A-TAA A-ATAA AATAA AATAA AATAA A-ATAA
* * *
18809621 AGA-AA AATAA GATAA AATAA AA-ATA AATAAA AAGAA AAGAA AATAA
1 A-ATAA AATAA AATAA AATAA AATA-A AAT-AA AATAA AATAA AATAA
*
18809667 TATAAA AATAA TAACT-A AATAA AATAA AA
1 AAT-AA AATAA -AA-TAA AATAA AATAA AA
18809696 AAAGGAAGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
4 5 0.05
5 56 0.59
6 27 0.28
7 7 0.07
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:18809642 original size:16 final size:15
Alignment explanation
Indices: 18809611--18809677 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
18809601 AAATAAAAGC
* *
18809611 AATAAAGAAAAGAAA
1 AATAAATAAAATAAA
18809626 AATAAGATAAAATAAA
1 AATAA-ATAAAATAAA
18809642 AATAAATAAAA-AGAA
1 AATAAATAAAATA-AA
* *
18809657 AAGAAAATAATATAAA
1 AA-TAAATAAAATAAA
18809673 AATAA
1 AATAA
18809678 TAACTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 17 0.40
16 24 0.56
17 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AATAAATAAAATAAA
Found at i:18809646 original size:11 final size:11
Alignment explanation
Indices: 18809632--18809696 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
18809622 GAAAAATAAG
18809632 ATAAAATAAAA
1 ATAAAATAAAA
18809643 AT-AAATAAAA
1 ATAAAATAAAA
* *
18809653 AGAAAA-GAAA
1 ATAAAATAAAA
*
18809663 ATAATATAAAA
1 ATAAAATAAAA
18809674 AT--AATAACTAA
1 ATAAAATAA--AA
18809685 ATAAAATAAAA
1 ATAAAATAAAA
18809696 A
1 A
18809697 AAGGAAGGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
9 4 0.10
10 16 0.38
11 17 0.40
13 5 0.12
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:18809661 original size:37 final size:38
Alignment explanation
Indices: 18809614--18809690 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
18809604 TAAAAGCAAT
18809614 AAAGAAAAGAAAAATAAGAT-AAAATAA-AAATAAATAA
1 AAAGAAAAG-AAAATAAGATAAAAATAATAAATAAATAA
* *
18809651 AAAGAAAAGAAAATAATATAAAAATAATAACTAAATAA
1 AAAGAAAAGAAAATAAGATAAAAATAATAAATAAATAA
18809689 AA
1 AA
18809691 TAAAAAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 9 0.25
37 16 0.44
38 11 0.31
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (38 bp):
AAAGAAAAGAAAATAAGATAAAAATAATAAATAAATAA
Found at i:18809672 original size:31 final size:32
Alignment explanation
Indices: 18809618--18809677 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
18809608 AGCAATAAAG
18809618 AAAAGAAAAATAAGATAAAATAAAAATAAATA
1 AAAAGAAAAATAAGATAAAATAAAAATAAATA
*
18809650 AAAAGAAAAGA-AA-ATAATATAAAAATAA
1 AAAAGAAAA-ATAAGATAAAATAAAAATAA
18809678 TAACTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 11 0.42
33 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (32 bp):
AAAAGAAAAATAAGATAAAATAAAAATAAATA
Found at i:18821336 original size:16 final size:16
Alignment explanation
Indices: 18821315--18821349 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18821305 ATAGAATCGA
18821315 ACTTAC-TTCTTTAAAT
1 ACTTACATT-TTTAAAT
18821331 ACTTACATTTTTAAAT
1 ACTTACATTTTTAAAT
18821347 ACT
1 ACT
18821350 AAAGCTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (16 bp):
ACTTACATTTTTAAAT
Found at i:18823914 original size:3 final size:3
Alignment explanation
Indices: 18823906--18823937 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18823896 TAACGAGGGA
18823906 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
18823938 GCCTTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:18830144 original size:47 final size:47
Alignment explanation
Indices: 18830087--18830437 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
18830077 ATTGATGTAC
* * * * *
18830087 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18830134 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18830183 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18830230 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18830277 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18830324 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
18830371 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
18830418 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
18830438 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:18847451 original size:14 final size:15
Alignment explanation
Indices: 18847422--18847454 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18847412 AGAGAGAGCC
*
18847422 TTCTTTTTTCTTTCT
1 TTCTTTCTTCTTTCT
18847437 TTCTTTCTT-TTTCT
1 TTCTTTCTTCTTTCT
18847451 TTCT
1 TTCT
18847455 ATTATTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTCTTCTTTCT
Found at i:18850051 original size:16 final size:17
Alignment explanation
Indices: 18850018--18850050 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18850008 AAAAAGAATC
18850018 AAATAAGGTTAAATTTT
1 AAATAAGGTTAAATTTT
18850035 AAATAA-GTTAACATTT
1 AAATAAGGTTAA-ATTT
18850051 ATTGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATAAGGTTAAATTTT
Found at i:18851064 original size:43 final size:43
Alignment explanation
Indices: 18851011--18851347 Score: 417
Period size: 43 Copynumber: 7.8 Consensus size: 43
18851001 TTTTTATAAT
* * * *
18851011 AAACGCCGCTATAGACTAGGGTCTTTAGCGGCGTTTAGCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* * *
18851054 AAACGCCGCTATAGATCATGGCCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* * *
18851097 AAACACCGCTATAGACCATGGTCTTTAACGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* * *
18851140 AAACGTCGCTATAGACCATGGTCTTTAGCGGCGCTAACCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* * * *
18851183 AAACGCCGCTATAGCCCATGGCCTTTAGCGGCGTTTACCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* * * *
18851226 AAATGCCGCTATAGATCTTGGTCTTTAGCGGCGCTGA-CCATAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAT-C
* *
18851269 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTAACCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
* *
18851312 AAACACCGCTATAG-CTCATGGTTTTTAGCGGCGCTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
18851348 TTAGAAAAAC
Statistics
Matches: 255, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.02
43 247 0.97
44 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATC
Found at i:18851691 original size:21 final size:21
Alignment explanation
Indices: 18851665--18851719 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
18851655 AGCTATTCTG
*
18851665 CTTCCCTCGTTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
*
18851686 CTTCCCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
* *
18851707 CTTCTCTTGCTGC
1 CTTCCCTCGCTGC
18851720 CGCATCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.35
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:18851791 original size:87 final size:87
Alignment explanation
Indices: 18851686--18851883 Score: 283
Period size: 87 Copynumber: 2.3 Consensus size: 87
18851676 GCAGCCTCTA
* * *
18851686 CTTCCCTCGCTGCAGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTG
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTC
18851750 TTCATAT-TTTCGTTGAACCTCAG
65 TTCATATCTTT-GTTGAACCTCAG
*
18851773 CTTCTCTCGCTGCTGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCT
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
* *
18851838 TTATATCTTTTTTGAACCTCAG
66 TCATATCTTTGTTGAACCTCAG
* * *
18851860 CTTCTCTCGATGTTGCCTCCGCTT
1 CTTCTCTCGCTGCTGCCTCTGCTT
18851884 TAAGTTGTGT
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 96 0.96
88 3 0.03
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (87 bp):
CTTCTCTCGCTGCTGCCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
TCATATCTTTGTTGAACCTCAG
Found at i:18851796 original size:21 final size:21
Alignment explanation
Indices: 18851767--18851817 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18851757 TTTCGTTGAA
* *
18851767 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCCG
*
18851788 CCTCTGCTTCTCTTGCTGCCG
1 CCTCTGCTTCTCTCGCTGCCG
*
18851809 CATCTGCTT
1 CCTCTGCTT
18851818 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCCG
Found at i:18856510 original size:16 final size:16
Alignment explanation
Indices: 18856489--18856519 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18856479 GTAAATGAAG
18856489 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
18856505 TTAGGGATTTCAGAA
1 TTAGGGATTTCAGAA
18856520 GAGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:18871317 original size:15 final size:14
Alignment explanation
Indices: 18871297--18871353 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
18871287 ATTGATACGA
18871297 ATTTTTATTTTAGTT
1 ATTTTTATTTTA-TT
*
18871312 ATTTTTATTTGATTT
1 ATTTTTATTTTA-TT
**
18871327 AATTTTTAGGTTATT
1 -ATTTTTATTTTATT
*
18871342 AATTTTATTTTA
1 ATTTTTATTTTA
18871354 ATTTCCCCGA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.27
15 15 0.45
16 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (14 bp):
ATTTTTATTTTATT
Found at i:18874882 original size:27 final size:28
Alignment explanation
Indices: 18874850--18874910 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
18874840 ATTTCTGTCA
* *
18874850 GAATTTATACTTTAATTA-TAAAATAAT
1 GAATTTACACTTAAATTATTAAAATAAT
* * *
18874877 TAATTTGCACTTAAATTATTAACATAAT
1 GAATTTACACTTAAATTATTAAAATAAT
18874905 GAATTT
1 GAATTT
18874911 TAATTATTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (28 bp):
GAATTTACACTTAAATTATTAAAATAAT
Found at i:18874910 original size:28 final size:27
Alignment explanation
Indices: 18874858--18874910 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
18874848 CAGAATTTAT
* *
18874858 ACTTTAATTATAAAATAATTAATTTGC
1 ACTTAAATTATAAAATAATGAATTTGC
*
18874885 ACTTAAATTATTAACATAATGAATTT
1 ACTTAAATTA-TAAAATAATGAATTT
18874911 TAATTATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (27 bp):
ACTTAAATTATAAAATAATGAATTTGC
Found at i:18875115 original size:14 final size:15
Alignment explanation
Indices: 18875096--18875127 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18875086 TTTGTAATAA
18875096 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
18875110 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
18875125 AAA
1 AAA
18875128 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:18875142 original size:18 final size:19
Alignment explanation
Indices: 18875110--18875159 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
18875100 TTTAAAACTT
*
18875110 AAATTTTGA-AAAC-TTAA
1 AAATTTGGAGAAACTTTAA
18875127 AAATTTGGAGAAACTTTAA
1 AAATTTGGAGAAACTTTAA
*
18875146 AACTTTGGAGAAAC
1 AAATTTGGAGAAAC
18875160 AAGTTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 4 0.14
19 17 0.59
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (19 bp):
AAATTTGGAGAAACTTTAA
Found at i:18878345 original size:21 final size:23
Alignment explanation
Indices: 18878321--18878363 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
18878311 TCAATTTTTT
*
18878321 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
18878342 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
18878364 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:18886296 original size:108 final size:108
Alignment explanation
Indices: 18886102--18886314 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 108
18886092 GAATGCTAAG
18886102 TTGCAGAATGAGATCACTACCTTCCAATAGATGGATGACAAGTCCTTGTATGAGGTGTGAGAAAG
1 TTGCAGAATGAGATCACTACCTTCCAATAGATGGATGACAAGTCCTTGTATGAGGTGTGAGAAAG
18886167 GTATAAAGAATTGTTACGAAAGTGCCCTCATCATGGAATCTCA
66 GTATAAAGAATTGTTACGAAAGTGCCCTCATCATGGAATCTCA
18886210 TTGCAGAATGAGATCACTACCTTCCAATAGATGGATGACAAGTCCTTGTATGAGGTGTGAGAAAG
1 TTGCAGAATGAGATCACTACCTTCCAATAGATGGATGACAAGTCCTTGTATGAGGTGTGAGAAAG
* *
18886275 GTATAAAGAATTGTTATGAAAGTGCCCTCATTATGGAATC
66 GTATAAAGAATTGTTACGAAAGTGCCCTCATCATGGAATC
18886315 CCGCATTGCA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (108 bp):
TTGCAGAATGAGATCACTACCTTCCAATAGATGGATGACAAGTCCTTGTATGAGGTGTGAGAAAG
GTATAAAGAATTGTTACGAAAGTGCCCTCATCATGGAATCTCA
Found at i:18886545 original size:45 final size:45
Alignment explanation
Indices: 18886480--18886571 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
18886470 AACCAATCAA
* *
18886480 CTAGCGCCAGGAAGAGGAGTCGCAGGAATACATGAAGTGGATGCT
1 CTAGCGCCAAGAAGACGAGTCGCAGGAATACATGAAGTGGATGCT
*
18886525 CTAGCGCCAAGAAGACGAGTCGTAGGAATACATGAAGTGGATGCT
1 CTAGCGCCAAGAAGACGAGTCGCAGGAATACATGAAGTGGATGCT
18886570 CT
1 CT
18886572 CACTTCACTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.33, T:0.17
Consensus pattern (45 bp):
CTAGCGCCAAGAAGACGAGTCGCAGGAATACATGAAGTGGATGCT
Found at i:18891571 original size:15 final size:16
Alignment explanation
Indices: 18891551--18891580 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18891541 TAACAACTAA
18891551 TATATAAT-TATATTT
1 TATATAATATATATTT
18891566 TATATAATATATATT
1 TATATAATATATATT
18891581 AATTGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:18902811 original size:13 final size:13
Alignment explanation
Indices: 18902793--18902817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18902783 TAAATTATAT
18902793 ATTTATTTAATGA
1 ATTTATTTAATGA
18902806 ATTTATTTAATG
1 ATTTATTTAATG
18902818 TTTACTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTATTTAATGA
Found at i:18903053 original size:50 final size:50
Alignment explanation
Indices: 18902975--18903109 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
18902965 TATGAGAGGT
* * * **
18902975 CCATATAAGACCATTTCTAGGGCATGGCATTGGCACCGAAATGAGAGGTC
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAAATGAGAACTC
* * * * *
18903025 CCCTGTAATACTATGTCTAGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAAATGAGAACTC
* *
18903075 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCA
18903110 TGTTATTATC
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAAATGAGAACTC
Found at i:18912799 original size:50 final size:50
Alignment explanation
Indices: 18912693--18912880 Score: 160
Period size: 50 Copynumber: 3.6 Consensus size: 50
18912683 GGTGATGCGA
* * *
18912693 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGAACATGGCATGGGCA-C--CGAG---ATGAGAGG
* ** * *
18912749 TCCCATGTAGGACCATGTCTTTAACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAGG
** * * * **
18912799 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
1 TCCCATGTAAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAGG
* * *
18912849 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGAACATGGCAT
18912881 TGACAATACA
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.67
53 3 0.03
55 1 0.01
56 32 0.29
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGAACATGGCATGGGCACCGAGATGAGAGG
Found at i:18920065 original size:27 final size:27
Alignment explanation
Indices: 18920034--18920211 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18920024 TAAATTGTAC
18920034 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18920061 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18920087 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18920115 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18920143 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18920170 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18920197 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18920212 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:18920148 original size:82 final size:81
Alignment explanation
Indices: 18920035--18920190 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18920025 AAATTGTACA
* *
18920035 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18920099 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18920116 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18920181 TGCGAGTTGA
65 TGCGAATTGA
18920191 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:18920202 original size:82 final size:81
Alignment explanation
Indices: 18920031--18920211 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18920021 GATTAAATTG
* *
18920031 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18920096 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18920112 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18920176 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18920194 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18920212 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:18928088 original size:27 final size:27
Alignment explanation
Indices: 18928057--18928234 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18928047 TAAATTGTAC
18928057 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18928084 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18928110 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18928138 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18928166 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18928193 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18928220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18928235 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:18928171 original size:82 final size:81
Alignment explanation
Indices: 18928058--18928213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18928048 AAATTGTACA
* *
18928058 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18928122 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18928139 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18928204 TGCGAGTTGA
65 TGCGAATTGA
18928214 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:18928225 original size:82 final size:81
Alignment explanation
Indices: 18928054--18928234 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18928044 GATTAAATTG
* *
18928054 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18928119 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18928135 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18928199 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18928217 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18928235 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:18932013 original size:466 final size:466
Alignment explanation
Indices: 18931136--18932044 Score: 1611
Period size: 466 Copynumber: 2.0 Consensus size: 466
18931126 GTTTAAAGTT
*
18931136 GAAAAGATATGATCTTGAAAAGAGAAGGAAATAAAAATGGTTGGTTGTATACTTTATAGTCGGTA
1 GAAAAGATATGATCTTGAAAAGAGAAGGAAATAAAAATGGTTGGTTGTATACGTTATAGTCGGTA
* * *
18931201 TAGTGGAGGAGGATTTATAGTGAGTGAAAAGAGGAATATGGAGAGGCGTGTTGTTTTATGGAGAG
66 CAGTGGAAGAGGATTTATAGTGAGTGAAAAGAGGAAGATGGAGAGGCGTGTTGTTTTATGGAGAG
*
18931266 ATATAAAGATGGCGAGAATAGTTGTGTCCAATAGAAATTGTGCCCGCTCAGAAGGATCAAACAGC
131 ATATAAAGATGGCGAGAATAGTTGTGTCCAATAGAAATTGTGCCCACTCAGAAGGATCAAACAGC
* *
18931331 TGAGTGATTTTTGATCCAATGGTGGAATCTGAATTTCCCAAAATTTTAATGAGTTATAAATGGTA
196 TGAGTGATTTTTGATCCAATGATGGAATCTGAAATTCCCAAAATTTTAATGAGTTATAAATGGTA
* * * *
18931396 GTACAAAATTATAGAATGCATTGATAGGAAAATTTTAATGCGTCGACAATGGTACTTAATTATTC
261 GTACAAAATTATAGAATGCATTGATAGCAAAATTTCAATGCGTCAACAATAGTACTTAATTATTC
*
18931461 TGCAAAAAGGAAGGAAAAAAAACTTTAACAAAAACATAAATAAAATAAACTAAAATCACGAAGTA
326 TGCAAAAAGGAAGGAAAAAAAACTTTAACAAAAACATAAATAAAATAAACTAAAATCACAAAGTA
*
18931526 ATAATTAAAACTTAAAACTTTTTGACCAATTTAATGGTCTCTACCTACTTTTGATCACTATTGAC
391 ATAATTAAAAATTAAAACTTTTTGACCAATTTAATGGTCTCTACCTACTTTTGATCACTATTGAC
18931591 CAAAAATGAAG
456 CAAAAATGAAG
* *
18931602 GAAAATATATGATCTTGAGAAGAGAAGGAAATAAAAATGGTTGGTTGTATACGTTATAGTCGGTA
1 GAAAAGATATGATCTTGAAAAGAGAAGGAAATAAAAATGGTTGGTTGTATACGTTATAGTCGGTA
*
18931667 CAGTGGAAGAGGATTTATAGTGAGTGAAAAGAGGAAGATGGAGAGGCGTGTTGTTTTGTGGAGAG
66 CAGTGGAAGAGGATTTATAGTGAGTGAAAAGAGGAAGATGGAGAGGCGTGTTGTTTTATGGAGAG
* *
18931732 ATATAAAGCTGGCGAGAATAGTTGTGTCTAATAGAAATTGTGCCCACTCAGAAGGATCAAACAGC
131 ATATAAAGATGGCGAGAATAGTTGTGTCCAATAGAAATTGTGCCCACTCAGAAGGATCAAACAGC
18931797 TGAGTGATTTTTGATCCAATGATGGAATCTGAAATTCCCAAAATTTTAATGAGTTATAAATGGTA
196 TGAGTGATTTTTGATCCAATGATGGAATCTGAAATTCCCAAAATTTTAATGAGTTATAAATGGTA
* * *
18931862 GTGCAGAATTATAGAATGCATTGATAGCAAAATTTCAATGCGTCAACAATAGTACTTAATTATTT
261 GTACAAAATTATAGAATGCATTGATAGCAAAATTTCAATGCGTCAACAATAGTACTTAATTATTC
*
18931927 TGCAAAAAGGAAGGAAAACAAACTTTAACAAAAACATAAATAAAATAAACTAAAATCACAAAGTA
326 TGCAAAAAGGAAGGAAAAAAAACTTTAACAAAAACATAAATAAAATAAACTAAAATCACAAAGTA
*
18931992 ATAATTAAAAATTAAAACTTTTTGACCAATTTAATGGTCTCTACCTGCTTTTG
391 ATAATTAAAAATTAAAACTTTTTGACCAATTTAATGGTCTCTACCTACTTTTG
18932045 GTAACTGTTG
Statistics
Matches: 420, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
466 420 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (466 bp):
GAAAAGATATGATCTTGAAAAGAGAAGGAAATAAAAATGGTTGGTTGTATACGTTATAGTCGGTA
CAGTGGAAGAGGATTTATAGTGAGTGAAAAGAGGAAGATGGAGAGGCGTGTTGTTTTATGGAGAG
ATATAAAGATGGCGAGAATAGTTGTGTCCAATAGAAATTGTGCCCACTCAGAAGGATCAAACAGC
TGAGTGATTTTTGATCCAATGATGGAATCTGAAATTCCCAAAATTTTAATGAGTTATAAATGGTA
GTACAAAATTATAGAATGCATTGATAGCAAAATTTCAATGCGTCAACAATAGTACTTAATTATTC
TGCAAAAAGGAAGGAAAAAAAACTTTAACAAAAACATAAATAAAATAAACTAAAATCACAAAGTA
ATAATTAAAAATTAAAACTTTTTGACCAATTTAATGGTCTCTACCTACTTTTGATCACTATTGAC
CAAAAATGAAG
Found at i:18932213 original size:15 final size:15
Alignment explanation
Indices: 18932174--18932205 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18932164 CACACTAACG
18932174 TGAATGCAATTTACC
1 TGAATGCAATTTACC
18932189 TGAATGCAATTTACC
1 TGAATGCAATTTACC
18932204 TG
1 TG
18932206 GGTGCAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (15 bp):
TGAATGCAATTTACC
Found at i:18940081 original size:23 final size:23
Alignment explanation
Indices: 18940054--18940104 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
18940044 AGTATGGTTG
*
18940054 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
18940077 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
18940100 AGTAA
1 TGTAA
18940105 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:18947028 original size:19 final size:19
Alignment explanation
Indices: 18946986--18947026 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18946976 GGTTTGGTTA
*
18946986 TTTTACTTAATTTCATTAG
1 TTTTACTTAATTTCAGTAG
*
18947005 TTTTATTTAATTT-AGTAG
1 TTTTACTTAATTTCAGTAG
18947023 TTTT
1 TTTT
18947027 TAATTTCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTACTTAATTTCAGTAG
Found at i:18965678 original size:135 final size:135
Alignment explanation
Indices: 18965436--18965706 Score: 461
Period size: 135 Copynumber: 2.0 Consensus size: 135
18965426 CTTTTTTCAT
* * *
18965436 TAACTCTTTGATTTTCCTCTTGGAATCGGTTTCAATTCAAGAATTCTTTTCTAATATTGAAGTAT
1 TAACTCTTTGATTTTCCTCTTGGAATCAGTTTCAATCCAAAAATTCTTTTCTAATATTGAAGTAT
* * * *
18965501 TTCCATTATCTGCCTTTGTGAGCGACATTATTCATTATTTCGATTGAGAGATTTATTACTCCGTT
66 TTCCATTATCTACCTTTGTGAGCGACATTATTCATTATTTCGATCGAGAGATTTAGTACTCCATT
18965566 CTATA
131 CTATA
* *
18965571 TAACTCTTTGATTTTCCTCTTGGAATCAGTTTCTATCCAAAAATTCTTTTCTAATATTGAATTAT
1 TAACTCTTTGATTTTCCTCTTGGAATCAGTTTCAATCCAAAAATTCTTTTCTAATATTGAAGTAT
18965636 TTCCATTATCTACCTTTGTGAGCGACATTATTCATTATTTCGATCGAGAGATTTAGTACTCCATT
66 TTCCATTATCTACCTTTGTGAGCGACATTATTCATTATTTCGATCGAGAGATTTAGTACTCCATT
18965701 CTATA
131 CTATA
18965706 T
1 T
18965707 TCGACATCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (135 bp):
TAACTCTTTGATTTTCCTCTTGGAATCAGTTTCAATCCAAAAATTCTTTTCTAATATTGAAGTAT
TTCCATTATCTACCTTTGTGAGCGACATTATTCATTATTTCGATCGAGAGATTTAGTACTCCATT
CTATA
Found at i:18966194 original size:16 final size:16
Alignment explanation
Indices: 18966173--18966203 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18966163 TCGATTTAAG
*
18966173 TTGTTTGTTTATTTTC
1 TTGTTTATTTATTTTC
18966189 TTGTTTATTTATTTT
1 TTGTTTATTTATTTT
18966204 AGTTATTTAA
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:0.10, C:0.03, G:0.10, T:0.77
Consensus pattern (16 bp):
TTGTTTATTTATTTTC
Found at i:18988641 original size:39 final size:40
Alignment explanation
Indices: 18988533--18988757 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
18988523 TTGAATGATG
* * * * *
18988533 TCCGGGCTAAGTCCGGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
18988573 TCCGGACTAAGAT-CCGAAGACATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18988613 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18988652 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18988692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18988733 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18988758 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18988771 original size:40 final size:40
Alignment explanation
Indices: 18988614--18988776 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
18988604 GATACTAATT
* ** *
18988614 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* * ** *
18988652 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
18988692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
18988733 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
18988773 CCGG
1 CCGG
18988777 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 10 0.09
40 99 0.89
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:18988775 original size:80 final size:80
Alignment explanation
Indices: 18988572--18988790 Score: 216
Period size: 80 Copynumber: 2.8 Consensus size: 80
18988562 AAGTGACCAT
* * ** * *
18988572 ATCCGGACTAAGAT-CCGAAGACATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
18988634 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* * ** *
18988651 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
18988716 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * *
18988732 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18988791 TACGTGATGT
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.48
80 58 0.49
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:19001368 original size:93 final size:86
Alignment explanation
Indices: 19001263--19001462 Score: 231
Period size: 93 Copynumber: 2.2 Consensus size: 86
19001253 ATTAAATCTC
* * *
19001263 TTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATATATCAAAAAGGC-CTTAAAACATTTTT
1 TTTTTTTCACTCAATTGG-TACTTGAACTGTCAAAATACATCAAAAAGACAC-TAAAACA-TTTT
* * *
19001327 CAAAAAAAAGTAATTAAGCCCTTATTGT
63 C--AAAAAAGCAATTAAGCCCCTA--CT
* * *
19001355 TGTTTTTTCACTCAATTAGGTACTTGAACTGTCAAAATGCATTAAAAAGACACTCAAACATTTTC
1 T-TTTTTTCACTCAATT-GGTACTTGAACTGTCAAAATACATCAAAAAGACACTAAAACATTTTC
19001420 AAAAAAGCAATTAAGCCCCTACT
64 AAAAAAGCAATTAAGCCCCTACT
19001443 TTTTTTTCACTCAATTGGTA
1 TTTTTTTCACTCAATTGGTA
19001463 AAATGCATTC
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
86 4 0.04
87 15 0.16
88 2 0.02
90 19 0.20
92 6 0.06
93 47 0.49
94 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (86 bp):
TTTTTTTCACTCAATTGGTACTTGAACTGTCAAAATACATCAAAAAGACACTAAAACATTTTCAA
AAAAGCAATTAAGCCCCTACT
Found at i:19001609 original size:29 final size:29
Alignment explanation
Indices: 19001573--19001648 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
19001563 AATAATAAAA
19001573 AATAAAAATTAT-AAAATATATTAAATTTT
1 AATAAAAATTATAAAAATAT-TTAAATTTT
* *
19001602 AATAAAAAATATAAGAAATATTTAATTTTT
1 AATAAAAATTATAA-AAATATTTAAATTTT
* *
19001632 ATTAAAAATTAGAAAAA
1 AATAAAAATTATAAAAA
19001649 AAAAATATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.35
30 20 0.50
31 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AATAAAAATTATAAAAATATTTAAATTTT
Found at i:19001620 original size:22 final size:23
Alignment explanation
Indices: 19001585--19001627 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19001575 TAAAAATTAT
**
19001585 AAAATATATTAAAT-TTTAATAA
1 AAAATATAAGAAATATTTAATAA
19001607 AAAATATAAGAAATATTTAAT
1 AAAATATAAGAAATATTTAAT
19001628 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAATATAAGAAATATTTAATAA
Found at i:19001632 original size:30 final size:29
Alignment explanation
Indices: 19001573--19001640 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
19001563 AATAATAAAA
*
19001573 AATAAAAATTATAAAATATATTAAATTTT
1 AATAAAAAATATAAAATATATTAAATTTT
*
19001602 AATAAAAAATATAAGAA-ATATTTAATTTT
1 AATAAAAAATATAA-AATATATTAAATTTT
* *
19001631 TATTAAAAAT
1 AATAAAAAAT
19001641 TAGAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (29 bp):
AATAAAAAATATAAAATATATTAAATTTT
Found at i:19001813 original size:21 final size:21
Alignment explanation
Indices: 19001789--19001859 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
19001779 GCATTTTGTA
*
19001789 ATTTTTCTATAACTTTTATTG
1 ATTTTTTTATAACTTTTATTG
* * * *
19001810 ATTTTTATTTTTTACATTTT-GTA
1 A-TTTT-TTTATAAC-TTTTATTG
19001833 ATTTTTTTATAACTTTTATTG
1 ATTTTTTTATAACTTTTATTG
19001854 ATTTTT
1 ATTTTT
19001860 ATTTTTTATC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
20 4 0.11
21 14 0.38
22 8 0.22
23 7 0.19
24 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.68
Consensus pattern (21 bp):
ATTTTTTTATAACTTTTATTG
Found at i:19001830 original size:44 final size:45
Alignment explanation
Indices: 19001780--19001874 Score: 174
Period size: 44 Copynumber: 2.1 Consensus size: 45
19001770 CCAAAAGAAG
19001780 CATTTTGTAATTTTTCTATAACTTTTATTGATTTTTATTTTTTA-
1 CATTTTGTAATTTTTCTATAACTTTTATTGATTTTTATTTTTTAT
*
19001824 CATTTTGTAATTTTTTTATAACTTTTATTGATTTTTATTTTTTAT
1 CATTTTGTAATTTTTCTATAACTTTTATTGATTTTTATTTTTTAT
19001869 CATTTT
1 CATTTT
19001875 TCGCCACATG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 43 0.88
45 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (45 bp):
CATTTTGTAATTTTTCTATAACTTTTATTGATTTTTATTTTTTAT
Found at i:19005620 original size:43 final size:43
Alignment explanation
Indices: 19005554--19005678 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
19005544 TAGGACCTCT
*
19005554 GATATGTGTTTTTCGTGTAAGACCACGTATGGGACGTTGACATC
1 GATATGTG-TTTACGTGTAAGACCACGTATGGGACGTTGACATC
* * * *
19005598 GATTTGTGTTTACGTGTAAGACC-CTGTCTGGAACAG-TGGCATC
1 GATATGTGTTTACGTGTAAGACCAC-GTATGGGAC-GTTGACATC
* * * *
19005641 GATATGTGATTGCATGTAAGACCACGTTTGGGACGTTG
1 GATATGTGTTTACGTGTAAGACCACGTATGGGACGTTG
19005679 GCATTGTACG
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.03
43 55 0.83
44 9 0.14
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTATGGGACGTTGACATC
Found at i:19009790 original size:25 final size:24
Alignment explanation
Indices: 19009757--19009804 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19009747 TTTTTGTATT
19009757 CTCAATAAAA-TGTAAAAAATAAAAA
1 CTCAATAAAACT-T-AAAAATAAAAA
*
19009782 CTCATTAAAACTTAAAAATAAAA
1 CTCAATAAAACTTAAAAATAAAA
19009805 TAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 10 0.48
26 1 0.05
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (24 bp):
CTCAATAAAACTTAAAAATAAAAA
Found at i:19013030 original size:22 final size:22
Alignment explanation
Indices: 19012989--19013030 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19012979 CTGACTCTTT
*
19012989 TGTCACGACATAGGTCCTGGTG
1 TGTCACGACATAGATCCTGGTG
* *
19013011 TGTCACGACATCGATTCTGG
1 TGTCACGACATAGATCCTGG
19013031 ACTGCAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (22 bp):
TGTCACGACATAGATCCTGGTG
Found at i:19017006 original size:61 final size:61
Alignment explanation
Indices: 19016867--19017009 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
19016857 ATCTTTGTTT
* *** * *
19016867 AAGAATGCCTTTGTGGAAAAGCTTTGGATAGGAAAGCATTTGTGGCAAGTACTGAATGTAA
1 AAGAATGCCTTTGTGGAAAAACTCCAGATAGGAAAGCATCTGTAGCAAGTACTGAATGTAA
* * * * *
19016928 AAGATTGACTTTATGGAAAAACTCCAGATAGGAAAGCCTCTGTAGCGAGTACTGAATGT-A
1 AAGAATGCCTTTGTGGAAAAACTCCAGATAGGAAAGCATCTGTAGCAAGTACTGAATGTAA
19016988 AAGAAATGCCTTTGTGGAAAAA
1 AAG-AATGCCTTTGTGGAAAAA
19017010 ACTTTGGACA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 4 0.06
61 63 0.94
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (61 bp):
AAGAATGCCTTTGTGGAAAAACTCCAGATAGGAAAGCATCTGTAGCAAGTACTGAATGTAA
Found at i:19017139 original size:26 final size:27
Alignment explanation
Indices: 19017109--19017165 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
19017099 ATACAGAATC
*
19017109 GTGGC-GCAATTTAAGGAATAGA-CCTT
1 GTGGCAGCAATTTAA-GAAAAGACCCTT
* *
19017135 GTGGCATCTATTTAAGAAAAGACCCTT
1 GTGGCAGCAATTTAAGAAAAGACCCTT
19017162 GTGG
1 GTGG
19017166 TGAATAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (27 bp):
GTGGCAGCAATTTAAGAAAAGACCCTT
Found at i:19023504 original size:25 final size:25
Alignment explanation
Indices: 19023476--19023529 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
19023466 TATGCCATAG
* * *
19023476 AGGCAACATGCAGAATACGTCACAA
1 AGGCAACATACAGAATAAGCCACAA
19023501 AGGCAACATACAGAATAAGCCACAA
1 AGGCAACATACAGAATAAGCCACAA
19023526 AGGC
1 AGGC
19023530 CAAAAAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.09
Consensus pattern (25 bp):
AGGCAACATACAGAATAAGCCACAA
Found at i:19026961 original size:8 final size:8
Alignment explanation
Indices: 19026948--19026976 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19026938 TATATATACT
19026948 AAATAATA
1 AAATAATA
19026956 AAATAATA
1 AAATAATA
19026964 AAATAATA
1 AAATAATA
19026972 AAATA
1 AAATA
19026977 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:19027488 original size:23 final size:23
Alignment explanation
Indices: 19027457--19027507 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
19027447 ACCTACTTTC
* *
19027457 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
19027480 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19027503 TTACA
1 TTACA
19027508 TTTTTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:19030103 original size:21 final size:21
Alignment explanation
Indices: 19030064--19030105 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19030054 CTGATGTCTT
*
19030064 GATCCAAAGTCAAACAACAAC
1 GATCCAAAGCCAAACAACAAC
19030085 GATCCAAAGCCAAGA-AACAAC
1 GATCCAAAGCCAA-ACAACAAC
19030106 ATTGAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.29, G:0.12, T:0.07
Consensus pattern (21 bp):
GATCCAAAGCCAAACAACAAC
Found at i:19032891 original size:41 final size:41
Alignment explanation
Indices: 19032274--19032876 Score: 1206
Period size: 41 Copynumber: 14.7 Consensus size: 41
19032264 GACTATACGT
19032274 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032315 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032356 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032397 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032438 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032479 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032520 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032561 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032602 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032643 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032684 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032725 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032766 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032807 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19032848 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
19032877 TAAACTATAA
Statistics
Matches: 562, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 562 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
Found at i:19041112 original size:41 final size:41
Alignment explanation
Indices: 19041075--19041343 Score: 459
Period size: 41 Copynumber: 6.6 Consensus size: 41
19041065 GACTATACGT
19041075 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19041116 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19041157 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19041198 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
19041239 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
* * ** *
19041280 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
* *
19041321 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
19041344 TCTGTTTAAA
Statistics
Matches: 220, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 1 0.00
41 219 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
Found at i:19047247 original size:293 final size:291
Alignment explanation
Indices: 19046651--19047215 Score: 812
Period size: 293 Copynumber: 1.9 Consensus size: 291
19046641 TTGTGATTCT
19046651 AGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTTAAGAATCAACCTATCATGCCAGAAAAAG
1 AGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTTAAGAATCAACCTATCATGCCAGAAAAAG
* * *
19046716 GTTTCAACTTGGAAAGCAATGATAAGATGATTGTGCCTTTGCTGATTTGAAAGACGATTGATGCC
66 GTTTCAACTTGGAAAGCAATGATAAGATGATTGTGCCTTTGCTGATTCGAAACACAATTGATGCC
* * ** *
19046781 CTCAATTGGAATTATTTTTGCGATGCATAATGATTACCCAATGAGGAGTTAGTTTTAGAGTTCTA
131 CTCAATTGGAATTATTTTTGCGATGCACAATGATTACCCAATGAGAAGTTAGTTCGAAAGTTCTA
* * * *
19046846 TGCCAATTTGACTAAGCCAGATGCTACTGAAGTTCTTGTTGGCAAGAAGAAGGTACCCCTAACTT
196 TGCCAATTTGACTAAGCCAGATGCTACCGAAGTTCTTCTTGGAAAAAAGAAGGTACCCCTAACTT
* * ** *
19046911 TTAAGACCTTTGCCGAAAATACCATTGTGTTTA
261 CTAAGACCATTAACGAAAATACCATCGTG--TA
*
19046944 AGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTTAAGAATCAACCTATGATGCC-GAAAAAA
1 AGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTTAAGAATCAACCTATCATGCCAG-AAAAA
* *
19047008 GGTTTCAACTTGGAAAGCAATGATAAGATGGTTGTGTCTTTG-TCGATTCGAAACACAATTGATG
65 GGTTTCAACTTGGAAAGCAATGATAAGATGATTGTGCCTTTGCT-GATTCGAAACACAATTGATG
* * * *
19047072 CCCTCAATTGGAATTA-TTTTGTGATGCACGATTATTACCCGATGAGAAGTTAGTTCGAAAGTTC
129 CCCTCAATTGGAATTATTTTTGCGATGCACAATGATTACCCAATGAGAAGTTAGTTCGAAAGTTC
* * * *
19047136 TATGCGAGTTTGACTAAGCCAGATGCTACCGGAGTTCTTCTTGGAAAAAAGAAGGTACCCTTAAC
194 TATGCCAATTTGACTAAGCCAGATGCTACCGAAGTTCTTCTTGGAAAAAAGAAGGTACCCCTAAC
*
19047201 TTCTAAGTCCATTAA
259 TTCTAAGACCATTAA
19047216 GGATTTGTTT
Statistics
Matches: 242, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
292 108 0.45
293 134 0.55
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (291 bp):
AGATGAAGAAGTGAAAGAGAGGTTTGATTCAATCTTTAAGAATCAACCTATCATGCCAGAAAAAG
GTTTCAACTTGGAAAGCAATGATAAGATGATTGTGCCTTTGCTGATTCGAAACACAATTGATGCC
CTCAATTGGAATTATTTTTGCGATGCACAATGATTACCCAATGAGAAGTTAGTTCGAAAGTTCTA
TGCCAATTTGACTAAGCCAGATGCTACCGAAGTTCTTCTTGGAAAAAAGAAGGTACCCCTAACTT
CTAAGACCATTAACGAAAATACCATCGTGTA
Found at i:19048220 original size:25 final size:25
Alignment explanation
Indices: 19048173--19048220 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
19048163 AATTCTTTTC
*
19048173 GTTTAGTTTTAATTTCTTTTTAGGT
1 GTTTAGTTTTAATTTCTTGTTAGGT
*
19048198 GTTTA-TTTTTATTTCTTAGTTAG
1 GTTTAGTTTTAATTTCTT-GTTAG
19048221 AATTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.17, C:0.04, G:0.15, T:0.65
Consensus pattern (25 bp):
GTTTAGTTTTAATTTCTTGTTAGGT
Found at i:19057072 original size:25 final size:25
Alignment explanation
Indices: 19057005--19057074 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
19056995 CTGTACCTGT
*
19057005 ATGCTCACACGAGCTATGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
* *
19057030 ATGCTCACATGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAAA
*
19057055 ATGCTCACACGAGTTGTGAA
1 ATGCTCACACGAGCTGTGAA
19057075 AATGGGCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAAA
Found at i:19080595 original size:27 final size:27
Alignment explanation
Indices: 19080541--19080600 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19080531 ATTGCAAGCT
* *
19080541 GGGTTCGCTAGTTGGTTTGGCGAGCTG
1 GGGTTCGCTAGTTGGTTTAGCGAACTG
* *
19080568 GGGTTCGCTAGTTGGTTTATCTAACTG
1 GGGTTCGCTAGTTGGTTTAGCGAACTG
19080595 GGGTTC
1 GGGTTC
19080601 TGTAACATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.15, G:0.38, T:0.37
Consensus pattern (27 bp):
GGGTTCGCTAGTTGGTTTAGCGAACTG
Found at i:19081133 original size:23 final size:23
Alignment explanation
Indices: 19081104--19081158 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
19081094 CCCTCTCCTC
19081104 CTCTCTTTCTTGTTTTACAATTT
1 CTCTCTTTCTTGTTTTACAATTT
19081127 CTCTCTTTCTTGTTTTACAATTT
1 CTCTCTTTCTTGTTTTACAATTT
19081150 -T-TCTTTCTT
1 CTCTCTTTCTT
19081159 CCTCTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.25
22 1 0.03
23 23 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.64
Consensus pattern (23 bp):
CTCTCTTTCTTGTTTTACAATTT
Found at i:19084235 original size:13 final size:14
Alignment explanation
Indices: 19084217--19084246 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
19084207 TAAAATTTTG
19084217 TTTTTAAGTTAT-T
1 TTTTTAAGTTATGT
19084230 TTTTTAAGTTATGT
1 TTTTTAAGTTATGT
19084244 TTT
1 TTT
19084247 ATGTTTGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (14 bp):
TTTTTAAGTTATGT
Found at i:19085288 original size:46 final size:46
Alignment explanation
Indices: 19085212--19085303 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
19085202 ATGCTATGAT
*
19085212 TAATGTACTACCTTAGGTGTCGTGACATAGCCAAGGAATGTCGCGA
1 TAATGTACTACCTTAGGTGTCATGACATAGCCAAGGAATGTCGCGA
* * *
19085258 TAATGTACTACCTTGGGTTTCATGATATAGCCAAGGAATGTCGCGA
1 TAATGTACTACCTTAGGTGTCATGACATAGCCAAGGAATGTCGCGA
19085304 CAGACCCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (46 bp):
TAATGTACTACCTTAGGTGTCATGACATAGCCAAGGAATGTCGCGA
Found at i:19089332 original size:21 final size:22
Alignment explanation
Indices: 19089306--19089347 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19089296 TCGATTCCTT
19089306 TATTTGCAC-ACGGTGCCTCTA
1 TATTTGCACTACGGTGCCTCTA
19089327 TATTTGCACTACGGTGCCTCT
1 TATTTGCACTACGGTGCCTCT
19089348 GTTAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (22 bp):
TATTTGCACTACGGTGCCTCTA
Found at i:19091332 original size:20 final size:20
Alignment explanation
Indices: 19091303--19091393 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
19091293 TATTTGTATT
*
19091303 TCGGTACCCCTGAATGCACA
1 TCGGTGCCCCTGAATGCACA
* * *
19091323 TCTGTGCCCCTGATTGCACT
1 TCGGTGCCCCTGAATGCACA
*
19091343 TCGGTGCCCCT-AATCACACA
1 TCGGTGCCCCTGAAT-GCACA
* * *
19091363 TTC-GTGCTCCTGATTGCACT
1 -TCGGTGCCCCTGAATGCACA
*
19091383 TTGGTGCCCCT
1 TCGGTGCCCCT
19091394 ATTATGCATC
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
19 3 0.06
20 46 0.87
21 4 0.08
ACGTcount: A:0.15, C:0.35, G:0.20, T:0.30
Consensus pattern (20 bp):
TCGGTGCCCCTGAATGCACA
Found at i:19092161 original size:82 final size:82
Alignment explanation
Indices: 19092024--19092185 Score: 306
Period size: 82 Copynumber: 2.0 Consensus size: 82
19092014 ATATGTTCAG
*
19092024 TAGTTAGGTTACCTTTATACGAACTTACTAAGCATTATTGCTTACGTTAGTTGTTTTCTTTTCCT
1 TAGTTAGGTTACCTTTATACGAACTTACTAACCATTATTGCTTACGTTAGTTGTTTTCTTTTCCT
19092089 GTAGGTCATCGAAAATC
66 GTAGGTCATCGAAAATC
*
19092106 TAGTTAGGTTACCTTTATACGAACTTATTAACCATTATTGCTTACGTTAGTTGTTTTCTTTTCCT
1 TAGTTAGGTTACCTTTATACGAACTTACTAACCATTATTGCTTACGTTAGTTGTTTTCTTTTCCT
19092171 GTAGGTCATCGAAAA
66 GTAGGTCATCGAAAA
19092186 GCTCGATTGG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (82 bp):
TAGTTAGGTTACCTTTATACGAACTTACTAACCATTATTGCTTACGTTAGTTGTTTTCTTTTCCT
GTAGGTCATCGAAAATC
Found at i:19093234 original size:13 final size:13
Alignment explanation
Indices: 19093216--19093243 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19093206 ATTGGAAATG
19093216 TATGTTTTTACGA
1 TATGTTTTTACGA
19093229 TATGTTTTTACGA
1 TATGTTTTTACGA
19093242 TA
1 TA
19093244 ACGCTCTATA
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:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (13 bp):
TATGTTTTTACGA
Found at i:19095667 original size:21 final size:21
Alignment explanation
Indices: 19095643--19095687 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19095633 TTTGTTTTTA
19095643 TTTTCCCTCATTTTCTTCCCT
1 TTTTCCCTCATTTTCTTCCCT
** * *
19095664 TTTTCTTTCCTTTTCTTCTCT
1 TTTTCCCTCATTTTCTTCCCT
19095685 TTT
1 TTT
19095688 CTTAATTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCCCTCATTTTCTTCCCT
Found at i:19096391 original size:215 final size:215
Alignment explanation
Indices: 19095896--19096560 Score: 786
Period size: 215 Copynumber: 3.0 Consensus size: 215
19095886 TTCTCTTAAG
* * * * *
19095896 CTTTTTTGGCTTCCTAGAAAATCT-GAGTTTTCTTCTTTCCCTCATTTTTTTCTTTTTTTATTCT
1 CTTTTTTGGCTTCCTAGAAAATATGGA-CTTTCTTC-CTCCCTCATTTTTTTCTTTTCTTATTAT
* *
19095960 TATATTTTTCTCGCTAGCCAAACAAGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATC
64 T-T-TTTTCCTCGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATC
* * *
19096025 ATATTTTTTAGTTCTTTTGGAAAGAAAAGAAACCTTTTTCATCAACTGAAAACTCATGAGAAACC
127 ATATTTTTTAGTTC-TTTGGAAAGAAAAGAAACCCTCTTCATCAACTGAAAACTCA-AAGAAACC
* *
19096090 ATGAATGAGATGGAAAAGAATATGCTCTT
190 ATGAATGAGATGGAAAAGAACAAG--C-T
* * * * *
19096119 CTAGGAAGATTGTTTGGCTTCCTAGAAAATTTGG-GTTTTTTCCTTCCCACTTTTTTTTCTTTTC
1 CT-------TT-TTTGGCTTCCTAGAAAATATGGACTTTCTTCC-TCCCTCATTTTTTTCTTTTC
* * *
19096183 TCATTGTTTTTTTCCTCACTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCA
57 TTATTATTTTTTTCCTCGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCA
* *
19096248 TCATC-TATATTTTAGTTCTTTGGAAAAGAAAAG-AACCCTCTTCATCAACTGAAAACTCAAAAA
122 TCATCATATTTTTTAGTTCTTTGG-AAAGAAAAGAAACCCTCTTCATCAACTGAAAACTCAAAGA
*
19096311 AAGCCATGAATGAGATGGAAAAGAACAAGGT
186 AA-CCATGAATGAGATGGAAAAGAACAAGCT
* *
19096342 CTTTTTTGGCTTCCTAGAAAATATGGACTTTCTTCCTCGCCTC-TTTTTTTCGTTTCTTGTTATT
1 CTTTTTTGGCTTCCTAGAAAATATGGACTTTCTTCCTC-CCTCATTTTTTTCTTTTCTTATTATT
* * * * *
19096406 TTTTTCCTTGCTAGCCAAATAGGCTTTCACTAGTCCTCTTTTTCTTTATGTTATGCATCATCGTA
65 TTTTTCCTCGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATCATA
*
19096471 TTTTTTAGTTCTTTGGGAAAGAAAAGAAACCC-CTTCAAT-AACTGAAAACTCAAGAGAAACTAT
130 TTTTTTAGTTCTTT-GGAAAGAAAAGAAACCCTCTTC-ATCAACTGAAAACTCAA-AGAAACCAT
19096534 GAATGAGATGGAAAAGAACAAGCT
192 GAATGAGATGGAAAAGAACAAGCT
19096558 CTT
1 CTT
19096561 CTAGGAAGCT
Statistics
Matches: 386, Mismatches: 37, Indels: 45
0.82 0.08 0.10
Matches are distributed among these distances:
215 97 0.25
216 83 0.22
217 13 0.03
223 5 0.01
225 4 0.01
226 53 0.14
227 21 0.05
228 58 0.15
229 1 0.00
230 31 0.08
231 19 0.05
232 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (215 bp):
CTTTTTTGGCTTCCTAGAAAATATGGACTTTCTTCCTCCCTCATTTTTTTCTTTTCTTATTATTT
TTTTCCTCGCTAGCCAAACAGGCTTTCACCAGTCCTCTTTTTCTTTTTGTTATGCATCATCATAT
TTTTTAGTTCTTTGGAAAGAAAAGAAACCCTCTTCATCAACTGAAAACTCAAAGAAACCATGAAT
GAGATGGAAAAGAACAAGCT
Found at i:19096639 original size:18 final size:17
Alignment explanation
Indices: 19096596--19096640 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
19096586 ACAATTTGGG
*
19096596 TTTTCTTCCTTCTTTTT
1 TTTTCTCCCTTCTTTTT
19096613 TCTTT-TCCCGTTCTTTTT
1 T-TTTCTCCC-TTCTTTTT
19096631 TTTTCTCCCT
1 TTTTCTCCCT
19096641 AGCCAAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTCTCCCTTCTTTTT
Found at i:19097112 original size:19 final size:19
Alignment explanation
Indices: 19097077--19097128 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
19097067 TAGAGAAACG
*
19097077 GAAGAAATAAGAAGGAA-GCA
1 GAAGAAA-AAAAAGGAATG-A
19097097 GAAGAAAAAAAAGGAATGA
1 GAAGAAAAAAAAGGAATGA
19097116 GAAGAAGAAAAAA
1 GAAGAA-AAAAAA
19097129 ATAAGGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (19 bp):
GAAGAAAAAAAAGGAATGA
Found at i:19100136 original size:27 final size:28
Alignment explanation
Indices: 19100077--19100144 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
19100067 TTGCAAAATA
*
19100077 AAAAAAAACATTATAATTTTATTTACAT
1 AAAAAAACCATTATAATTTTATTTACAT
*
19100105 AAAAAAACCGTTATAATTTTATTTACAT
1 AAAAAAACCATTATAATTTTATTTACAT
19100133 -AAAAAACCATTA
1 AAAAAAACCATTA
19100145 AATATGAGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAAAACCATTATAATTTTATTTACAT
Found at i:19102232 original size:37 final size:38
Alignment explanation
Indices: 19102190--19102270 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 38
19102180 AAAAAGTCAG
*
19102190 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTT
1 TTATAATTAAACTTTTAATAAAATGATATTTAATTTTT
19102227 TTATAATTAAACTTTTAATAAAATGATATTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATATTTAATTTTT
19102265 TTATAA
1 TTATAA
19102271 ACTTTATATG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 32 0.76
38 10 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATATTTAATTTTT
Found at i:19102441 original size:21 final size:21
Alignment explanation
Indices: 19102410--19102651 Score: 112
Period size: 19 Copynumber: 11.2 Consensus size: 21
19102400 AATTAATTAT
19102410 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
19102432 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
19102458 TCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
19102479 --AAAATTACAATATTCAT--
1 AAAAAATTACAATATTCATAC
* *
19102496 ATAAAATTATAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
19102521 ATACAAAAAAATTACAATATTCATAC
1 --A-AAAA--ATTACAATATTCATAC
19102547 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
* * *
19102568 --AAAA-TACTA-ATCCAAAAC
1 AAAAAATTACAATATTC-ATAC
* * * *
19102586 TATAAA-TACAA-ATTTAATTAT
1 AAAAAATTACAATA-TTCA-TAC
19102607 AAAATAATTACAATATTCAT--
1 AAAA-AATTACAATATTCATAC
19102627 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
19102648 AAAA
1 AAAA
19102652 TTCTAATCCA
Statistics
Matches: 171, Mismatches: 21, Indels: 57
0.69 0.08 0.23
Matches are distributed among these distances:
17 3 0.02
18 7 0.04
19 47 0.27
20 14 0.08
21 39 0.23
22 11 0.06
23 12 0.07
24 2 0.01
25 4 0.02
26 14 0.08
27 1 0.01
28 6 0.04
29 1 0.01
30 10 0.06
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:19102487 original size:19 final size:19
Alignment explanation
Indices: 19102463--19102653 Score: 127
Period size: 19 Copynumber: 10.2 Consensus size: 19
19102453 ATATCTCGAC
19102463 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
19102482 ATTACAATATTCATATAAA
1 ATTACAATATTCATACAAA
* *
19102501 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
19102517 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
19102531 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
19102552 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
19102571 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
19102591 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
19102613 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
19102632 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
19102651 ATT
1 ATT
19102654 CTAATCCAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
14 9 0.07
15 1 0.01
16 10 0.07
17 3 0.02
18 10 0.07
19 57 0.42
20 13 0.10
21 21 0.15
22 5 0.04
23 5 0.04
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:19102512 original size:27 final size:22
Alignment explanation
Indices: 19102463--19102571 Score: 109
Period size: 21 Copynumber: 4.9 Consensus size: 22
19102453 ATATCTCGAC
*
19102463 ATTACAATATTCAT---ACAAA
1 ATTACAATATTCATAAAAAAAA
19102482 ATTACAATATTCATATAAAATTATAA
1 ATTACAATATTCATA-AAAA--A-AA
*
19102508 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATAAAAAAAA
*
19102531 ATTACAATATTCAT-ACAAAAA
1 ATTACAATATTCATAAAAAAAA
*
19102552 ATTACAATATTCATACAAAA
1 ATTACAATATTCATAAAAAA
19102572 TACTAATCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
19 14 0.19
21 19 0.25
22 17 0.23
23 3 0.04
24 1 0.01
25 1 0.01
26 5 0.07
27 15 0.20
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATAAAAAAAA
Found at i:19102595 original size:70 final size:68
Alignment explanation
Indices: 19102463--19102597 Score: 166
Period size: 70 Copynumber: 2.0 Consensus size: 68
19102453 ATATCTCGAC
* ** * **
19102463 ATTACAATATTCATACAAAATTACAATATTCATATAAAATTATAATATTACAATATTCATACAAA
1 ATTACAATATTCATACAAAATTACAATATTCATACAAAATTATAATACCAAAATATAAATACAAA
19102528 AAA
66 AAA
19102531 ATTACAATATTCATACAAAAAATTACAATATTCATACAAAA-TACTAAT-CCAAAACTATAAATA
1 ATTACAATATTCATAC--AAAATTACAATATTCATACAAAATTA-TAATACCAAAA-TATAAATA
19102594 CAAA
62 CAAA
19102598 TTTAATTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
68 16 0.28
69 5 0.09
70 36 0.63
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (68 bp):
ATTACAATATTCATACAAAATTACAATATTCATACAAAATTATAATACCAAAATATAAATACAAA
AAA
Found at i:19102694 original size:80 final size:81
Alignment explanation
Indices: 19102525--19102687 Score: 240
Period size: 80 Copynumber: 2.0 Consensus size: 81
19102515 ATATTCATAC
*
19102525 AAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATA
1 AAAATAATTACAATATTCATA-AAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATA
* * *
19102590 AATACAAATTTAATTAT
65 AACACAAATATAATAAT
*
19102607 AAAATAATTACAATATTCAT-AAAAAATTACAATATTCATACAAAATTCTAATCC-AAACTATAA
1 AAAATAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAA
19102670 ACACTAAATATAGATAAT
66 ACAC-AAATATA-ATAAT
19102688 TTATAATCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
79 12 0.16
80 39 0.53
81 4 0.05
82 19 0.26
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.29
Consensus pattern (81 bp):
AAAATAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAA
ACACAAATATAATAAT
Found at i:19102814 original size:3 final size:3
Alignment explanation
Indices: 19102808--19102856 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
19102798 TTTTTTTTCT
*
19102808 TTC TTC TTC TTC -TC TTC TTC TTC TTC TT- TTC TTC TCC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
19102853 TTC T
1 TTC T
19102857 CCTTTCTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:19102825 original size:11 final size:11
Alignment explanation
Indices: 19102804--19102853 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
19102794 ACCTTTTTTT
19102804 TTCTT-TCTTC
1 TTCTTCTCTTC
19102814 TTCTTCTCTTC
1 TTCTTCTCTTC
19102825 TTCTTCTTCTT-
1 TTCTTC-TCTTC
19102836 TTCTTCTCCTTC
1 TTCTTCT-CTTC
19102848 -TCTTCT
1 TTCTTCT
19102854 TCTCCTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.17
11 26 0.72
12 4 0.11
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
TTCTTCTCTTC
Found at i:19102868 original size:14 final size:14
Alignment explanation
Indices: 19102804--19102865 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
19102794 ACCTTTTTTT
*
19102804 TTCT-TTCTTCTTC
1 TTCTCTTCTTCTCC
*
19102817 TTCTCTTCTTCTTC
1 TTCTCTTCTTCTCC
*
19102831 TTCTTTTCTTCTCC
1 TTCTCTTCTTCTCC
19102845 TTCTCTTCTTCTCC
1 TTCTCTTCTTCTCC
19102859 TTTCTCT
1 -TTCTCT
19102866 CTTTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
13 4 0.09
14 34 0.77
15 6 0.14
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTCTTCTTCTCC
Found at i:19107606 original size:13 final size:14
Alignment explanation
Indices: 19107587--19107619 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19107577 TAAGACTGTT
19107587 AGAAAATT-AAATA
1 AGAAAATTGAAATA
*
19107600 GGAAAATTGAAATA
1 AGAAAATTGAAATA
19107614 AGAAAA
1 AGAAAA
19107620 ATAAGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (14 bp):
AGAAAATTGAAATA
Found at i:19116223 original size:21 final size:21
Alignment explanation
Indices: 19116199--19116241 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19116189 TTATAGGCCG
* *
19116199 AAAAAGAGAAAGAAAATAAAT
1 AAAAAAAGAAAGAAAAAAAAT
*
19116220 AAAAAAAGAAGGAAAAAAAAT
1 AAAAAAAGAAAGAAAAAAAAT
19116241 A
1 A
19116242 TTGCTTGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAAAGAAAGAAAAAAAAT
Found at i:19117051 original size:89 final size:89
Alignment explanation
Indices: 19116793--19117932 Score: 1611
Period size: 89 Copynumber: 12.7 Consensus size: 89
19116783 ACCAGTATGG
* * * * *
19116793 GAAGACAAGATCCGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCGGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* *
19116858 TTGATCTACTTCACGCCAATACAT
66 CTGATCTACTTCACGCCAGTACAT
* * * * * **** * *
19116882 GAAGACAAGATCTGTTTTCTTCGATCTACTTC-ACGCCAATACATTAAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* *
19116946 TTGATCTACTTTACGCCAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
* *
19116970 GAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* * *
19117035 TTGATATACTTCACGCCAGTATAT
66 CTGATCTACTTCACGCCAGTACAT
* * *
19117059 GAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATTTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
*
19117124 CTGATCTACTTCATGCCAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
* * *
19117148 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCATGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
*
19117213 CTGATCTACTTCACGCTAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
*
19117237 GAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCATGATCTGTTA
1 GAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
*
19117302 TCTCTGATCTACTTCACGCTAGTACAT
63 TCTCTGATCTACTTCACGCCAGTACAT
* *
19117329 GAAGACAAGATCTGCTTTCATT-GATCTGCTTCGCCACTAGTATGGGAAGGCAAGATCTGGTATC
1 GAAGACAAGATCTGCTTTC-TTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATC
19117393 TCTGATCTACTTCACGCCAGTACAT
65 TCTGATCTACTTCACGCCAGTACAT
* * * *
19117418 GAAGAAAAGATCTGCTTTTTCCTTCGATCTGTTTCGCCACTAGTATGGGAAGGCAAGATCTGGTA
1 GAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
19117483 TCTCTGATCTACTTCACGCCAGTACAT
63 TCTCTGATCTACTTCACGCCAGTACAT
* * *
19117510 GAAGAAAAGATCTGCTTTTTCCTTCGATCTGTTTCGCCACTAGTATGGGAAGGCAAGATCTGTTA
1 GAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
*
19117575 TCTCTGATCTACTTCACTCCAGTACAT
63 TCTCTGATCTACTTCACGCCAGTACAT
* * *
19117602 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATC-GGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
*
19117666 CTGATCTACTTCACACCAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
* * *
19117690 GAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGTAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
19117755 CTGATCTACTTCACGCCAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
* * * *
19117779 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGTAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
19117844 CTGATCTACTTCACGCCAGTACAT
66 CTGATCTACTTCACGCCAGTACAT
* * * * * *
19117868 GAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
19117933 TTTCAACCTG
Statistics
Matches: 968, Mismatches: 73, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
88 157 0.16
89 540 0.56
90 8 0.01
91 8 0.01
92 255 0.26
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
CTGATCTACTTCACGCCAGTACAT
Found at i:19117338 original size:181 final size:179
Alignment explanation
Indices: 19116793--19117932 Score: 1610
Period size: 181 Copynumber: 6.4 Consensus size: 179
19116783 ACCAGTATGG
* * * * *
19116793 GAAGACAAGATCCGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCGGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* * * * * *
19116858 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTTCTTCGATCTACTTC-ACGCCAA
66 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTGCTTCGCCACCAG
**** * * *
19116921 TACATTAAGACAAGATCTGGTATCTTTGATCTACTTTACGCCAGTACAT
131 TATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* *
19116970 GAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* * * * *
19117035 TTGATATACTTCACGCCAGTATATGAAGACAAGATCTTC-TTTCTTTGATCTGCTTCGCCACCAG
66 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTGCTTCGCCACCAG
* * *
19117099 TATGGGAAGGCAAGATTTGTTATCTCTGATCTACTTCATGCCAGTACAT
131 TATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* * *
19117148 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCATGATCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
*
19117213 CTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACC
66 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT-CTTCGATCTGCTTCGCCACC
* * *
19117278 AGTATGGGAAGGCATGATCTGTTATCTCTGATCTACTTCACGCTAGTACAT
129 AGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* *
19117329 GAAGACAAGATCTGCTTTCATT-GATCTGCTTCGCCACTAGTATGGGAAGGCAAGATCTGGTATC
1 GAAGACAAGATCTGCTTTC-TTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATC
* *
19117393 TCTGATCTACTTCACGCCAGTACATGAAGAAAAGATCTGCTTTTTCCTTCGATCTGTTTCGCCAC
65 TCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT-CTTCGATCTGCTTCGCCAC
*
19117458 TAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
128 CAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* * *
19117510 GAAGAAAAGATCTGCTTTTTCCTTCGATCTGTTTCGCCACTAGTATGGGAAGGCAAGATCTGTTA
1 GAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
* * *
19117575 TCTCTGATCTACTTCACTCCAGTACATGAAGACAAGATCTAC-TTTCTTTGATCTGCTTCGCCAC
63 TCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTGCTTCGCCAC
*
19117639 CAGTATGGGAAGGCAAGATC-GGTATCTCTGATCTACTTCACACCAGTACAT
128 CAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* * *
19117690 GAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGTAAGATCTATTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
* *
19117755 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC-TTTCTTTGATCTGCTTCGCCACCAG
66 CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTGCTTCGCCACCAG
* **
19117819 TATGGGAAGGTAAGATCTATTATCTCTGATCTACTTCACGCCAGTACAT
131 TATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
* * * * * *
19117868 GAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
19117933 TTTCAACCTG
Statistics
Matches: 872, Mismatches: 80, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
177 231 0.26
178 224 0.26
180 46 0.05
181 283 0.32
182 5 0.01
183 5 0.01
184 78 0.09
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (179 bp):
GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT
CTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTGCTTCGCCACCAG
TATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
Found at i:19119222 original size:14 final size:15
Alignment explanation
Indices: 19119205--19119237 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
19119195 TCTATTTTAC
19119205 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
19119219 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
19119233 TTTTT
1 TTTTT
19119238 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:19119240 original size:8 final size:7
Alignment explanation
Indices: 19119205--19119237 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
19119195 TCTATTTTAC
19119205 TTTTTCA
1 TTTTTCA
19119212 TTTTTCA
1 TTTTTCA
19119219 -TTTTCA
1 TTTTTCA
19119225 TCTTTTCA
1 T-TTTTCA
19119233 TTTTT
1 TTTTT
19119238 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:19124649 original size:21 final size:22
Alignment explanation
Indices: 19124615--19124655 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19124605 TATAGGCCGA
*
19124615 AAAAGAGAAAGAAAATAAATCG
1 AAAAGAGAAAGAAAAAAAATCG
*
19124637 AAAA-AGAAGGAAAAAAAAT
1 AAAAGAGAAAGAAAAAAAAT
19124656 ATTGCTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (22 bp):
AAAAGAGAAAGAAAAAAAATCG
Found at i:19125269 original size:32 final size:32
Alignment explanation
Indices: 19125223--19125284 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
19125213 CTCTCCATCG
* *
19125223 AATGATTTCTATTATTCTCAAACCCTCAATAA
1 AATGATCTCCATTATTCTCAAACCCTCAATAA
* *
19125255 AATGATCTCCATTATTTTCTAACCCTCAAT
1 AATGATCTCCATTATTCTCAAACCCTCAAT
19125285 CGTTAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (32 bp):
AATGATCTCCATTATTCTCAAACCCTCAATAA
Found at i:19128842 original size:16 final size:17
Alignment explanation
Indices: 19128805--19128844 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
19128795 CGTTTGGTTC
19128805 GCTGTAATGGAATAGAT
1 GCTGTAATGGAATAGAT
19128822 G-TGTAATGGAATAGA-
1 GCTGTAATGGAATAGAT
19128837 GCTGTAAT
1 GCTGTAAT
19128845 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (17 bp):
GCTGTAATGGAATAGAT
Found at i:19128877 original size:45 final size:44
Alignment explanation
Indices: 19128826--19128918 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
19128816 ATAGATGTGT
*
19128826 AATGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
* *
19128871 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTTGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
19128915 AATG
1 AATG
19128919 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:19129147 original size:56 final size:56
Alignment explanation
Indices: 19129032--19129160 Score: 136
Period size: 56 Copynumber: 2.3 Consensus size: 56
19129022 AATAAGATTA
* * *
19129032 TTAATATAAATAATAAATATTTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
19129090 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
19129146 TTACTAAAATCATAA
1 TTAATAAAATAATAA
19129161 TATATAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.07
56 28 0.47
57 21 0.36
58 6 0.10
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (56 bp):
TTAATAAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:19135631 original size:53 final size:48
Alignment explanation
Indices: 19135514--19135646 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 48
19135504 TGGGGGGACG
* * *
19135514 CTTATGGAAGGTAATGAAATGACCCTACTCCCAAACTCATAGAGGGAGA
1 CTTATGGAAGGTAAT-AAATGACCCTACTCCCAAACTAATAGAGGCAAA
* * *
19135563 CTTATGAAAGGTAATAAGGTGACCCTGCTCCCAAACACATAATAGGAGGCAAA
1 CTTATGGAAGGTAATAA-ATGACCCTACTCCC-AA-AC-TAATA-GAGGCAAA
*
19135616 CTTATGGAAGGTAATAAA-GGCCCTACTCCCA
1 CTTATGGAAGGTAATAAATGACCCTACTCCCA
19135647 GATGCATGGG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
48 2 0.03
49 26 0.38
50 3 0.04
51 12 0.17
52 4 0.06
53 22 0.32
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (48 bp):
CTTATGGAAGGTAATAAATGACCCTACTCCCAAACTAATAGAGGCAAA
Found at i:19135690 original size:50 final size:48
Alignment explanation
Indices: 19135636--19135751 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
19135626 GTAATAAAGG
19135636 CCCTACTCCCAGATGCATGGGAAGAGGCTTAC-GGAATGTGGTAATGATGA
1 CCCTACTCCCAGATGCATGGG--GAGGCTT-CTGGAATGTGGTAATGATGA
* ** * *
19135686 CCCTACTCCCAGACGCGCGGGGAGGCTTCTGGAATGTGGTAATTATGG
1 CCCTACTCCCAGATGCATGGGGAGGCTTCTGGAATGTGGTAATGATGA
*
19135734 TCCTACTCCCAGATGCAT
1 CCCTACTCCCAGATGCAT
19135752 AAGGAGAGGC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 1 0.02
48 37 0.66
50 18 0.32
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (48 bp):
CCCTACTCCCAGATGCATGGGGAGGCTTCTGGAATGTGGTAATGATGA
Found at i:19148695 original size:7 final size:7
Alignment explanation
Indices: 19148680--19148711 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
19148670 TTGTTGATAA
*
19148680 TTTTATT
1 TTTTGTT
19148687 TTTTGTT
1 TTTTGTT
19148694 TTTTGTT
1 TTTTGTT
19148701 TTTTGTT
1 TTTTGTT
19148708 TTTT
1 TTTT
19148712 AAGTTTGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:19149420 original size:68 final size:68
Alignment explanation
Indices: 19149318--19149454 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
19149308 GAGGTCTCGC
* *
19149318 AAGGGAAGTTCGCGGTCCCAATTTGCGTACACCAAGGAACTTGCATGTGGGGGGCTACGAGGTCC
1 AAGGGAAGTTCGCGGTCCCAATTTGCGTACACCAAGGAACTCGCATGTGGGGGGCTACAAGGTCC
19149383 AGT
66 AGT
* * * *
19149386 AAGGGAAGTTCGTGGTCCCAGTTCT-CGTATACCAAGGAGCTCGCATGTGGGGGGCTACAAGGTC
1 AAGGGAAGTTCGCGGTCCCAATT-TGCGTACACCAAGGAACTCGCATGTGGGGGGCTACAAGGTC
19149450 CAGT
65 CAGT
19149454 A
1 A
19149455 GGCAGACCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
68 61 0.98
69 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.21
Consensus pattern (68 bp):
AAGGGAAGTTCGCGGTCCCAATTTGCGTACACCAAGGAACTCGCATGTGGGGGGCTACAAGGTCC
AGT
Found at i:19158941 original size:21 final size:21
Alignment explanation
Indices: 19158903--19158942 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19158893 TTAATTTAAT
*
19158903 ATTATATTTTATAGTATAGTA
1 ATTATATTGTATAGTATAGTA
19158924 ATTATATATGTATA-TATAG
1 ATTATAT-TGTATAGTATAG
19158943 GATAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTATATTGTATAGTATAGTA
Found at i:19159799 original size:24 final size:24
Alignment explanation
Indices: 19159772--19159817 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19159762 TTATCATCAT
*
19159772 TATGCATAAGTGGAATT-CATAATG
1 TATGCACAAGT-GAATTACATAATG
*
19159796 TATGTACAAGTGAATTACATAA
1 TATGCACAAGTGAATTACATAA
19159818 ATATGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (24 bp):
TATGCACAAGTGAATTACATAATG
Found at i:19166345 original size:21 final size:20
Alignment explanation
Indices: 19166303--19166345 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
19166293 ATATAATTTA
*
19166303 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAATATTATT
* *
19166323 ATAATAAATTAAATTCTTATT
1 ATAAT-AATTAAAATATTATT
19166344 AT
1 AT
19166346 TTTTAATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATAATTAAAATATTATT
Found at i:19174119 original size:132 final size:132
Alignment explanation
Indices: 19173890--19174240 Score: 549
Period size: 132 Copynumber: 2.7 Consensus size: 132
19173880 TTGAAGATAA
* *
19173890 CGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACGTCCCTGAACA
1 CGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACA
* *
19173955 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
66 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAGTGGAACAGATCGAAGAT
19174020 GG
131 GG
* * * *
19174022 CGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATTTTCCTGGACA
1 CGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACA
* *
19174087 ACAGTGGAATATATTGAAGATTTCAGGTCTTATCTCCCAAAGCAGTAGTGGAACAGATCGAAGAT
66 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAGTGGAACAGATCGAAGAT
19174152 GG
131 GG
* * * * * *
19174154 TGCATTTTACCTCCCTGTGGTTACAGCGGAGTACATTAAATCCAGTAATTCTACTTCCCTGGGCA
1 CGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACA
*
19174219 GCAGTGGAATAGATTGAAGATT
66 ACAGTGGAATAGATTGAAGATT
19174241 GTGAATCCTA
Statistics
Matches: 197, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 197 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (132 bp):
CGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACA
ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCAAAGCAGTAGTGGAACAGATCGAAGAT
GG
Found at i:19174273 original size:44 final size:44
Alignment explanation
Indices: 19174217--19174324 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
19174207 CTTCCCTGGG
* * *
19174217 CAGCAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTT-GT
1 CAGCAATGGAATAGGTTGAAGATTGAGAATCCTATCT-CCTTGGT
* *
19174261 CAGTATTGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGT
1 CAGCAATGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGT
19174305 CAGCAATGGAATAGGTTGAA
1 CAGCAATGGAATAGGTTGAA
19174325 AGTAAACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 4 0.07
44 53 0.93
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (44 bp):
CAGCAATGGAATAGGTTGAAGATTGAGAATCCTATCTCCTTGGT
Found at i:19175852 original size:28 final size:27
Alignment explanation
Indices: 19175787--19175856 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
19175777 TTTAATAGTA
*
19175787 ACAGTACAGTATGGGCCTTAGCCCATT
1 ACAGTACAGTATGGGCCTAAGCCCATT
* * *
19175814 ACAGAAACAGTGTGGGCCTAAGCCTGA-T
1 ACAG-TACAGTATGGGCCTAAGCC-CATT
19175842 ACAGTATCAGTATGG
1 ACAGTA-CAGTATGG
19175857 TGCAAGTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.15
28 28 0.82
29 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (27 bp):
ACAGTACAGTATGGGCCTAAGCCCATT
Found at i:19176092 original size:32 final size:32
Alignment explanation
Indices: 19176052--19176236 Score: 255
Period size: 32 Copynumber: 5.8 Consensus size: 32
19176042 ATAAGTACAG
* *
19176052 TAATATGATTGGCACAAAGCCATCAGTAGC-A
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* * * *
19176083 GTGATATGATCGGCACACAGCCATCAGTAATGG
1 -TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
19176116 TAATATGATCGGTACAAAGCCATCAATAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
*
19176148 TAATATGATCGGCACAAAACCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
19176180 TAATATGATCGGCACAAAGCCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
19176212 TATTATGATCGACACAAAGCCATCA
1 TAATATGATCGGCACAAAGCCATCA
19176237 ATAGCATCGC
Statistics
Matches: 134, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
32 134 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGA
Found at i:19176442 original size:24 final size:23
Alignment explanation
Indices: 19176415--19176469 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
19176405 GCTCAGAATT
*
19176415 AGTCATTCAAATCACAGATAAATC
1 AGTCATTCAAA-CACAGACAAATC
*
19176439 AGTCATACCAAACACAGACAAATC
1 AGTCAT-TCAAACACAGACAAATC
19176463 AGTCATT
1 AGTCATT
19176470 TGACCTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (23 bp):
AGTCATTCAAACACAGACAAATC
Found at i:19176539 original size:27 final size:27
Alignment explanation
Indices: 19176505--19176874 Score: 447
Period size: 27 Copynumber: 13.7 Consensus size: 27
19176495 TTATCTACCA
*
19176505 GGGCATTACAGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
19176532 GGGTATTACGGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAG
* * **
19176559 GAGTATTACGGTCATTTTACAGTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
19176586 GGGCATTACGGTCATTTTACCATATA-
1 GGGCATTACGGTCATTTTACCCTACAG
** * *
19176612 GGTTATTACAGTTATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
19176639 GGGCACTATGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
19176666 GGGCATTACGGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAG
* * * * *
19176693 GGGTATTATGATTATTTTACCTTACA-
1 GGGCATTACGGTCATTTTACCCTACAG
*
19176719 TGGCTATTACGGTCATTTTACCCTACAG
1 GGGC-ATTACGGTCATTTTACCCTACAG
*
19176747 GGGCATTATGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
19176774 GGGCATTATGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
19176801 GGGCATTACGGTCATTTTACCTTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
19176828 GGGCATTACGGTCATTTTACCTTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
19176855 GGGTATTACGGTTATTTTAC
1 GGGCATTACGGTCATTTTAC
19176875 AACATTTTCG
Statistics
Matches: 293, Mismatches: 47, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 22 0.08
27 268 0.91
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTACAG
Found at i:19182239 original size:115 final size:115
Alignment explanation
Indices: 19182037--19182269 Score: 466
Period size: 115 Copynumber: 2.0 Consensus size: 115
19182027 TGACATGTCT
19182037 GTATGATGCATTGCATTGGGTTGGGGATTCATATTGATTGGAGGAAGTGTATTGAAAGGCCTCGA
1 GTATGATGCATTGCATTGGGTTGGGGATTCATATTGATTGGAGGAAGTGTATTGAAAGGCCTCGA
19182102 GCCTAACTTACTGGTAGCTCAACTGCAACTACTGTCCAGTGCCGCATTCG
66 GCCTAACTTACTGGTAGCTCAACTGCAACTACTGTCCAGTGCCGCATTCG
19182152 GTATGATGCATTGCATTGGGTTGGGGATTCATATTGATTGGAGGAAGTGTATTGAAAGGCCTCGA
1 GTATGATGCATTGCATTGGGTTGGGGATTCATATTGATTGGAGGAAGTGTATTGAAAGGCCTCGA
19182217 GCCTAACTTACTGGTAGCTCAACTGCAACTACTGTCCAGTGCCGCATTCG
66 GCCTAACTTACTGGTAGCTCAACTGCAACTACTGTCCAGTGCCGCATTCG
19182267 GTA
1 GTA
19182270 CTAACTGGAG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 118 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (115 bp):
GTATGATGCATTGCATTGGGTTGGGGATTCATATTGATTGGAGGAAGTGTATTGAAAGGCCTCGA
GCCTAACTTACTGGTAGCTCAACTGCAACTACTGTCCAGTGCCGCATTCG
Found at i:19188030 original size:26 final size:23
Alignment explanation
Indices: 19187992--19188067 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 23
19187982 TATAGTAAAA
*
19187992 TTTATTTATATAAATATGACATAT
1 TTTAATTATATAAATATGA-ATAT
*
19188016 TTTAACTTAGTATAAAATTATGAATGT
1 TTTAA-TTA-TAT-AAA-TATGAATAT
19188043 TTTAATTATATAAATAT-AAGTAT
1 TTTAATTATATAAATATGAA-TAT
19188066 TT
1 TT
19188068 GTTTAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 7 0.16
25 6 0.14
26 6 0.14
27 11 0.25
28 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTAATTATATAAATATGAATAT
Found at i:19188542 original size:28 final size:28
Alignment explanation
Indices: 19188502--19188561 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
19188492 AAAAATTAAG
19188502 TTATTTTCTAGAAATTATTTTTCGAAAA
1 TTATTTTCTAGAAATTATTTTTCGAAAA
*
19188530 TTATTTTCTAGAAATTATTTTTCGAAAG
1 TTATTTTCTAGAAATTATTTTTCGAAAA
19188558 TTAT
1 TTAT
19188562 ATTCAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (28 bp):
TTATTTTCTAGAAATTATTTTTCGAAAA
Done.