Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 55 of 117
Found at i:12382951 original size:30 final size:29
Alignment explanation
Indices: 12382892--12382990 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 29
12382882 AATTTAGAAT
*
12382892 TTTTTAAAAAATGTTTTTA-ATTTTCTTAAA
1 TTTTTAAAAAAT-TTTTTAGAATTT-TTAAA
*
12382922 TTTTAAAAAAATTATTTTAGAATTTTTAAAA
1 TTTTTAAAAAATT-TTTTAGAATTTTT-AAA
*
12382953 TTTTTGAAAAA-TTTTTAGAATCTTTTAGAAA
1 TTTTTAAAAAATTTTTTAGAAT-TTTT--AAA
12382984 TTTTTAA
1 TTTTTAA
12382991 TTTTTATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
29 10 0.17
30 23 0.40
31 25 0.43
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTTTAAAAAATTTTTTAGAATTTTTAAA
Found at i:12382954 original size:20 final size:19
Alignment explanation
Indices: 12382929--12383034 Score: 67
Period size: 20 Copynumber: 5.5 Consensus size: 19
12382919 AAATTTTAAA
12382929 AAAATTATTTTAGAATTTTT
1 AAAATT-TTTTAGAATTTTT
* *
12382949 AAAATTTTTGAAAAATTTTT
1 AAAATTTTT-TAGAATTTTT
* *
12382969 AGAATCTTTTAGAAATTTTT
1 AAAATTTTTTAG-AATTTTT
*
12382989 --AA-TTTTTATAATTTTT
1 AAAATTTTTTAGAATTTTT
* *
12383005 AACAA-TTTCTACAAGTTTTT
1 AA-AATTTTTTAGAA-TTTTT
*
12383025 AGAATTTTTT
1 AAAATTTTTT
12383035 TAAACTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
16 7 0.10
17 5 0.07
18 2 0.03
19 15 0.22
20 38 0.57
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (19 bp):
AAAATTTTTTAGAATTTTT
Found at i:12382978 original size:10 final size:9
Alignment explanation
Indices: 12382936--12383033 Score: 74
Period size: 9 Copynumber: 10.4 Consensus size: 9
12382926 AAAAAAATTA
12382936 TTTTAGAAT
1 TTTTAGAAT
*
12382945 TTTTAAAAT
1 TTTTAGAAT
*
12382954 TTTTGAAAAAT
1 TTTT--AGAAT
12382965 TTTTAGAAT
1 TTTTAGAAT
12382974 CTTTTAGAAAT
1 -TTTTAG-AAT
12382985 TTTT--AAT
1 TTTTAGAAT
*
12382992 TTTTATAAT
1 TTTTAGAAT
*
12383001 TTTTAACAAT
1 TTTT-AGAAT
* *
12383011 TTCTACAAGT
1 TTTTAGAA-T
12383021 TTTTAGAAT
1 TTTTAGAAT
12383030 TTTT
1 TTTT
12383034 TTAAACTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
7 7 0.09
9 32 0.43
10 24 0.32
11 12 0.16
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:12383383 original size:9 final size:9
Alignment explanation
Indices: 12383339--12383384 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
12383329 TCACAATCAT
12383339 TTTTTTGTTC
1 TTTTTT-TTC
12383349 TTTTTTTCTC
1 TTTTTTT-TC
*
12383359 TTTTTTTCC
1 TTTTTTTTC
12383368 TTTTTTTTC
1 TTTTTTTTC
12383377 TTTTTTTT
1 TTTTTTTT
12383385 TACATGCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:12383385 original size:10 final size:10
Alignment explanation
Indices: 12383338--12383385 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
12383328 GTCACAATCA
*
12383338 TTTTTTTGTT
1 TTTTTTTCTT
*
12383348 CTTTTTTTCTC
1 -TTTTTTTCTT
*
12383359 TTTTTTTCCT
1 TTTTTTTCTT
12383369 TTTTTTTCTT
1 TTTTTTTCTT
12383379 TTTTTTT
1 TTTTTTT
12383386 ACATGCCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:12386143 original size:23 final size:24
Alignment explanation
Indices: 12386112--12386156 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12386102 GTTTTCTCTT
12386112 AATT-TTTTTATTTTTCAAGAAAA
1 AATTCTTTTTATTTTTCAAGAAAA
12386135 AATTCTTTTTATTTTTCAAGAA
1 AATTCTTTTTATTTTTCAAGAA
12386157 GAAACAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (24 bp):
AATTCTTTTTATTTTTCAAGAAAA
Found at i:12391501 original size:18 final size:18
Alignment explanation
Indices: 12391475--12391563 Score: 97
Period size: 18 Copynumber: 4.9 Consensus size: 18
12391465 GTATAGTTTT
12391475 CATGCATTGCATTCATTA
1 CATGCATTGCATTCATTA
*
12391493 CATGTATTGCATTCATTA
1 CATGCATTGCATTCATTA
* *
12391511 CATGCATTTCATGCATTA
1 CATGCATTGCATTCATTA
* ** *
12391529 TATGCATCACATTCATTT
1 CATGCATTGCATTCATTA
**
12391547 CATGTGTTGCATTCATT
1 CATGCATTGCATTCATT
12391564 GCATATTCTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
CATGCATTGCATTCATTA
Found at i:12391518 original size:27 final size:27
Alignment explanation
Indices: 12391479--12391563 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
12391469 AGTTTTCATG
* *
12391479 CATTGCATTCATTACATGTATTGCATT
1 CATTACATTCATTTCATGTATTGCATT
* * ** *
12391506 CATTACATGCATTTCATGCATTATATG
1 CATTACATTCATTTCATGTATTGCATT
* *
12391533 CATCACATTCATTTCATGTGTTGCATT
1 CATTACATTCATTTCATGTATTGCATT
12391560 CATT
1 CATT
12391564 GCATATTCTT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.44
Consensus pattern (27 bp):
CATTACATTCATTTCATGTATTGCATT
Found at i:12391523 original size:9 final size:9
Alignment explanation
Indices: 12391472--12391550 Score: 52
Period size: 9 Copynumber: 8.8 Consensus size: 9
12391462 ATGGTATAGT
12391472 TTTCATGCA
1 TTTCATGCA
* *
12391481 TTGCATTCA
1 TTTCATGCA
* *
12391490 TTACATGTA
1 TTTCATGCA
* *
12391499 TTGCATTCA
1 TTTCATGCA
*
12391508 TTACATGCA
1 TTTCATGCA
12391517 TTTCATGCA
1 TTTCATGCA
12391526 TTAT-ATGCA
1 TT-TCATGCA
** *
12391535 TCACATTCA
1 TTTCATGCA
12391544 TTTCATG
1 TTTCATG
12391551 TGTTGCATTC
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
9 50 0.98
10 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (9 bp):
TTTCATGCA
Found at i:12391730 original size:23 final size:23
Alignment explanation
Indices: 12391695--12391739 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12391685 ATCAGTTTTG
12391695 AAAACCTCTAGGTA-ATACTTCTT
1 AAAACCTCTAGGTATAT-CTTCTT
12391718 AAAACCT-TCAGGTATATCTTCT
1 AAAACCTCT-AGGTATATCTTCT
12391740 AAGTTTTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 17 0.85
24 2 0.10
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAACCTCTAGGTATATCTTCTT
Found at i:12391937 original size:22 final size:23
Alignment explanation
Indices: 12391886--12391939 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
12391876 GTTTACTTTG
* *
12391886 TAAAACCTCTAGGTATAATCTCA
1 TAAAACCTCTAGGCACAATCTCA
*
12391909 -AAGACCTCTAGGCACAATCT-A
1 TAAAACCTCTAGGCACAATCTCA
12391930 TAAAACCTCT
1 TAAAACCTCT
12391940 GAGCATGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (23 bp):
TAAAACCTCTAGGCACAATCTCA
Found at i:12391950 original size:22 final size:22
Alignment explanation
Indices: 12391925--12392028 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
12391915 TCTAGGCACA
*
12391925 ATCTATAAAACCTCTGAGCATG
1 ATCTTTAAAACCTCTGAGCATG
* *
12391947 ATCTTTTAAATCCTCT-AGACGTG
1 ATC-TTTAAAACCTCTGAG-CATG
* ** * *
12391970 ATCTTTTAAGTCTTTCGAACATG
1 ATCTTTAAAACCTCT-GAGCATG
* * **
12391993 ATCTATAAGACCTCCAAGCATG
1 ATCTTTAAAACCTCTGAGCATG
12392015 ATCTTTAAAACCTC
1 ATCTTTAAAACCTC
12392029 CTAGTACCTT
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
22 30 0.52
23 27 0.47
24 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCTTTAAAACCTCTGAGCATG
Found at i:12391961 original size:23 final size:23
Alignment explanation
Indices: 12391930--12391978 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
12391920 GCACAATCTA
12391930 TAAAACCTCT-GAGCATGATCTTT
1 TAAAACCTCTAGA-CATGATCTTT
* *
12391953 TAAATCCTCTAGACGTGATCTTT
1 TAAAACCTCTAGACATGATCTTT
12391976 TAA
1 TAA
12391979 GTCTTTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (23 bp):
TAAAACCTCTAGACATGATCTTT
Found at i:12392684 original size:22 final size:24
Alignment explanation
Indices: 12392640--12392694 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
12392630 CAATTATTGA
* *
12392640 ATTTTTATTCATTTTTATTTTTAT
1 ATTTTTATTCATTTTCATGTTTAT
*
12392664 TTTTTTATT-A-TTTCATGTTTAT
1 ATTTTTATTCATTTTCATGTTTAT
*
12392686 ACTTTTATT
1 ATTTTTATT
12392695 GAATTTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.65
23 1 0.04
24 8 0.31
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTTATTCATTTTCATGTTTAT
Found at i:12392719 original size:17 final size:17
Alignment explanation
Indices: 12392699--12392737 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12392689 TTTATTGAAT
12392699 TTATTTAT-ATATTTATC
1 TTATTTATCATATTTA-C
*
12392716 TTATTTATCCTATTTAC
1 TTATTTATCATATTTAC
12392733 TTATT
1 TTATT
12392738 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTATCATATTTAC
Found at i:12401136 original size:13 final size:13
Alignment explanation
Indices: 12401118--12401159 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
12401108 ATAATGGAAT
12401118 TTTTAAATTTTTA
1 TTTTAAATTTTTA
*
12401131 TTTTAAATTTTCA
1 TTTTAAATTTTTA
12401144 TTATT--ATTTTTA
1 TT-TTAAATTTTTA
12401156 TTTT
1 TTTT
12401160 TATTATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 8 0.31
13 14 0.54
14 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAAATTTTTA
Found at i:12401152 original size:12 final size:12
Alignment explanation
Indices: 12401137--12401175 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12401127 TTTATTTTAA
12401137 ATTTTCATTATT
1 ATTTTCATTATT
* *
12401149 ATTTTTATTTTT
1 ATTTTCATTATT
*
12401161 ATTATCATTATT
1 ATTTTCATTATT
12401173 ATT
1 ATT
12401176 AAATGTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTCATTATT
Found at i:12401164 original size:18 final size:18
Alignment explanation
Indices: 12401137--12401175 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12401127 TTTATTTTAA
* *
12401137 ATTTTCATTATTATTTTT
1 ATTTTCATTATCATTATT
*
12401155 ATTTTTATTATCATTATT
1 ATTTTCATTATCATTATT
12401173 ATT
1 ATT
12401176 AAATGTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTCATTATCATTATT
Found at i:12401168 original size:24 final size:25
Alignment explanation
Indices: 12401124--12401175 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
12401114 GAATTTTTAA
*
12401124 ATTTTTATTTTAAATTTTCATTATT
1 ATTTTTATTTTAAATTATCATTATT
*
12401149 ATTTTTATTTT-TATTATCATTATT
1 ATTTTTATTTTAAATTATCATTATT
12401173 ATT
1 ATT
12401176 AAATGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTTATTTTAAATTATCATTATT
Found at i:12401210 original size:5 final size:5
Alignment explanation
Indices: 12401194--12401239 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
12401184 TTTTTTTCCT
* *
12401194 TTTTC -TTT- TTTTC TTTTC TTTTG TTTTC TTCTC TCTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TT
12401240 ATTTTTCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 6 0.18
5 24 0.71
6 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:12401225 original size:26 final size:25
Alignment explanation
Indices: 12401196--12401252 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
12401186 TTTTTCCTTT
* *
12401196 TTCTTTTTTTCTTTTCTTTTGTTTTC
1 TTCTTTCTTTCTTTTCTTAT-TTTTC
*
12401222 TTCTCTCTTTCTTTTCTTATTTTTC
1 TTCTTTCTTTCTTTTCTTATTTTTC
12401247 TCTCTT
1 T-TCTT
12401253 CCCAAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (25 bp):
TTCTTTCTTTCTTTTCTTATTTTTC
Found at i:12401230 original size:22 final size:23
Alignment explanation
Indices: 12401205--12401252 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
12401195 TTTCTTTTTT
*
12401205 TCTTTTCTTTTGTT-TTCTTCTC
1 TCTTTTCTTTTCTTATTCTTCTC
*
12401227 TC-TTTCTTTTCTTATTTTTCTC
1 TCTTTTCTTTTCTTATTCTTCTC
12401249 TCTT
1 TCTT
12401253 CCCAAGTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 10 0.45
22 11 0.50
23 1 0.05
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (23 bp):
TCTTTTCTTTTCTTATTCTTCTC
Found at i:12403020 original size:25 final size:24
Alignment explanation
Indices: 12402991--12403045 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
12402981 AAATACTGCT
*
12402991 AAAATATTAAA-ATATTTAAAAAAA
1 AAAATATCAAAGAT-TTTAAAAAAA
*
12403015 ATAAATATCAAAGATTTTAATAAAA
1 A-AAATATCAAAGATTTTAAAAAAA
12403040 AAAATA
1 AAAATA
12403046 ACTAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATATCAAAGATTTTAAAAAAA
Found at i:12407837 original size:30 final size:30
Alignment explanation
Indices: 12407803--12407907 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
12407793 GAACAACAAA
*
12407803 TACAACAATAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
* * ***
12407833 TACAACAGCAATGGCGACACAAGCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
12407863 TACAACAACAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
12407893 TACAACAACAATGGC
1 TACAACAACAATGGC
12407908 AACCCAAGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.12
Consensus pattern (30 bp):
TACAACAACAATGGCTACACCCTCAGCAAC
Found at i:12407857 original size:27 final size:29
Alignment explanation
Indices: 12407803--12407960 Score: 112
Period size: 30 Copynumber: 5.5 Consensus size: 29
12407793 GAACAACAAA
* **
12407803 TACAACAATAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACA-CCAAAGCAAC
* *
12407833 TACAACAGCAATGGCGACA-CAAGCAGCAAC
1 TACAACAACAATGGCTACACCAA--AGCAAC
**
12407863 TACAACAACAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACA-CCAAAGCAAC
* *
12407893 TACAACAACAATGGC-A-ACCCAAGCAGC
1 TACAACAACAATGGCTACACCAAAGCAAC
* * * *
12407920 TATAGA-ACCAATGTCTACAGC--AGCAAC
1 TACA-ACAACAATGGCTACACCAAAGCAAC
12407947 TACAACAACAATGG
1 TACAACAACAATGG
12407961 TTATGAGACA
Statistics
Matches: 100, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
26 1 0.01
27 31 0.31
28 4 0.04
29 3 0.03
30 60 0.60
32 1 0.01
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.13
Consensus pattern (29 bp):
TACAACAACAATGGCTACACCAAAGCAAC
Found at i:12407876 original size:60 final size:60
Alignment explanation
Indices: 12407803--12407960 Score: 202
Period size: 60 Copynumber: 2.7 Consensus size: 60
12407793 GAACAACAAA
* * *
12407803 TACAACAATAATGGCTACACCCTCAGCAACTACAACAGCAATGGCGACACAAGCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAACTACAACAACAATGGCAACACAAGCAGCAAC
* *
12407863 TACAACAACAATGGCTACACCCTCAGCAACTACAACAACAATGGCAACCCAAGCAGCTA-
1 TACAACAACAATGGCTACACCCTCAGCAACTACAACAACAATGGCAACACAAGCAGCAAC
* * *
12407922 TAGAAC--CAATGTCTACA---GCAGCAACTACAACAACAATGG
1 TACAACAACAATGGCTACACCCTCAGCAACTACAACAACAATGG
12407961 TTATGAGACA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
54 21 0.23
57 10 0.11
59 5 0.06
60 54 0.60
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.13
Consensus pattern (60 bp):
TACAACAACAATGGCTACACCCTCAGCAACTACAACAACAATGGCAACACAAGCAGCAAC
Found at i:12414184 original size:2 final size:2
Alignment explanation
Indices: 12414177--12414202 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12414167 CAGGTATGCA
12414177 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
12414203 CATTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12415331 original size:45 final size:45
Alignment explanation
Indices: 12415267--12415357 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
12415257 CTTTTTCATC
12415267 GTAGCAAATGAGCTACACTATGGAATTTAATAAATATGATTTAGT
1 GTAGCAAATGAGCTACACTATGGAATTTAATAAATATGATTTAGT
12415312 GTAGCAAATGAGCTACACTATGGAATTTAATAAATATGATTTAGT
1 GTAGCAAATGAGCTACACTATGGAATTTAATAAATATGATTTAGT
12415357 G
1 G
12415358 AAGTCAAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (45 bp):
GTAGCAAATGAGCTACACTATGGAATTTAATAAATATGATTTAGT
Found at i:12419742 original size:21 final size:21
Alignment explanation
Indices: 12419704--12419747 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
12419694 TTGGGGATTG
* * * *
12419704 TTTTGGGGTTCAGTTTAGGGT
1 TTTTAGGGTTAAGGTTAGAGT
12419725 TTTTAGGGTTAAGGTTAGAGT
1 TTTTAGGGTTAAGGTTAGAGT
12419746 TT
1 TT
12419748 AGGGTTTAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (21 bp):
TTTTAGGGTTAAGGTTAGAGT
Found at i:12419914 original size:20 final size:20
Alignment explanation
Indices: 12419891--12419935 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
12419881 TTGGATTTAG
*
12419891 GATTTGGGGTTTGGGGTTTT
1 GATTTGGGGTTTAGGGTTTT
12419911 GATTTGGGGTTTAGGGTTTT
1 GATTTGGGGTTTAGGGTTTT
12419931 GATTT
1 GATTT
12419936 ATAGTTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.40, T:0.51
Consensus pattern (20 bp):
GATTTGGGGTTTAGGGTTTT
Found at i:12419942 original size:20 final size:20
Alignment explanation
Indices: 12419899--12419942 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
12419889 AGGATTTGGG
* * *
12419899 GTTTGGGGTTTTGATTTGGG
1 GTTTAGGGTTTTGATTTAGA
*
12419919 GTTTAGGGTTTTGATTTATA
1 GTTTAGGGTTTTGATTTAGA
12419939 GTTT
1 GTTT
12419943 TCGGGTTTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (20 bp):
GTTTAGGGTTTTGATTTAGA
Found at i:12419989 original size:15 final size:14
Alignment explanation
Indices: 12419951--12420031 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 14
12419941 TTTCGGGTTT
*
12419951 GGTTTAGGGTTTTGA
1 GGTTTAGGG-TTTAA
12419966 GGTTT-GGGTTTAA
1 GGTTTAGGGTTTAA
12419979 GGTTTTAGGGTTTAA
1 GG-TTTAGGGTTTAA
* *
12419994 GAATTTA-GG-TTAG
1 G-GTTTAGGGTTTAA
12420007 GGTTTAGGGGTTT-A
1 GGTTTA-GGGTTTAA
12420021 -GTTTAGGGTTT
1 GGTTTAGGGTTT
12420032 GGGGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 10 0.18
13 15 0.27
14 10 0.18
15 20 0.36
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:12419990 original size:21 final size:20
Alignment explanation
Indices: 12419920--12419991 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
12419910 TGATTTGGGG
*
12419920 TTTAGGGTTTTGATTTATA-GT
1 TTTAGGG-TTTGGTTTA-AGGT
* *
12419941 TTTCGGGTTTGGTTTAGGGT
1 TTTAGGGTTTGGTTTAAGGT
12419961 TTT-GAGGTTTGGGTTTAAGGT
1 TTTAG-GGTTT-GGTTTAAGGT
12419982 TTTAGGGTTT
1 TTTAGGGTTT
12419992 AAGAATTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.42
21 23 0.53
22 1 0.02
ACGTcount: A:0.12, C:0.01, G:0.33, T:0.53
Consensus pattern (20 bp):
TTTAGGGTTTGGTTTAAGGT
Found at i:12419992 original size:7 final size:7
Alignment explanation
Indices: 12419951--12420038 Score: 60
Period size: 7 Copynumber: 12.7 Consensus size: 7
12419941 TTTCGGGTTT
12419951 GGTTTAG
1 GGTTTAG
*
12419958 GGTTTTG
1 GGTTTAG
12419965 AGGTTT-G
1 -GGTTTAG
12419972 GGTTTAAG
1 GGTTT-AG
*
12419980 GTTTTAG
1 GGTTTAG
12419987 GGTTTAAG
1 GGTTT-AG
**
12419995 AATTTA-
1 GGTTTAG
12420001 GG-TTAG
1 GGTTTAG
12420007 GGTTTAGG
1 GGTTTA-G
12420015 GGTTTA-
1 GGTTTAG
12420021 -GTTTAG
1 GGTTTAG
*
12420027 GGTTTGG
1 GGTTTAG
12420034 GGTTT
1 GGTTT
12420039 GGTTGGGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
5 8 0.12
6 7 0.11
7 27 0.42
8 22 0.34
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:12420037 original size:19 final size:20
Alignment explanation
Indices: 12419983--12420052 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
12419973 GTTTAAGGTT
* **
12419983 TTAGGGTTTAAGAATTTAGG
1 TTAGGGTTTAGGGGTTTAGG
*
12420003 TTAGGGTTTAGGGGTTTAGT
1 TTAGGGTTTAGGGGTTTAGG
12420023 TTAGGGTTT-GGGGTTT-GG
1 TTAGGGTTTAGGGGTTTAGG
*
12420041 TTGGGGTTTAGG
1 TTAGGGTTTAGG
12420053 AATGGTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 9 0.21
19 9 0.21
20 25 0.58
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (20 bp):
TTAGGGTTTAGGGGTTTAGG
Found at i:12420087 original size:21 final size:21
Alignment explanation
Indices: 12420058--12420097 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12420048 TTAGGAATGG
12420058 TTTAAGGTTTTAA-GGTTTGAT
1 TTTAAGG-TTTAACGGTTTGAT
*
12420079 TTTAGGGTTTAACGGTTTG
1 TTTAAGGTTTAACGGTTTG
12420098 CATGAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAACGGTTTGAT
Found at i:12422988 original size:15 final size:16
Alignment explanation
Indices: 12422968--12422997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12422958 ATATGTAAAT
12422968 ATAAT-ATTTTATTAG
1 ATAATAATTTTATTAG
12422983 ATAATAATTTTATTA
1 ATAATAATTTTATTA
12422998 ATATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATAATTTTATTAG
Found at i:12423744 original size:16 final size:16
Alignment explanation
Indices: 12423700--12423742 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
12423690 TAACTTTATT
* *
12423700 AATATAATACATATATA
1 AATATAA-AAATAAATA
12423717 AATATAAAAATAAATA
1 AATATAAAAATAAATA
12423733 AATAATAAAA
1 AAT-ATAAAA
12423743 TATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAAAATAAATA
Found at i:12424017 original size:4 final size:4
Alignment explanation
Indices: 12424010--12424041 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
12424000 ATACATATAT
12424010 ATAA ATAA ATAA ATAA ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
12424042 AACACTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:12429422 original size:160 final size:158
Alignment explanation
Indices: 12428921--12430807 Score: 1243
Period size: 160 Copynumber: 11.8 Consensus size: 158
12428911 GCATGGCAAT
* ** * * * *
12428921 CAAGTTCAAACATTCAGATAAGTTTAATATCATGTATTTAAG-TGATATAAATTATTAAAACAAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGAT-ATCTAAACTGTTAAAACAAA
* * * * * ** * ** *
12428985 AAATAACTAAAA-AACCAAATTTTGCCCTTTAA-CACTATAAAAAAGTTTTAAACAGACGTAAAC
65 ATATAACTAAAATTA--TATTTTTGCCTTTTAATGGC-A-CAAAAAGTCCTAAACAGACATAAA-
* * * *
12429048 TG-TAATTTTTTCACAC--ATCAATTGTAAAAAT
125 TGATAACTTTTTCACACATATCAATCGTGAAAAC
* * * * * * *
12429079 CAAGTTCAATCATTCGAACAAGTTTAATATCATGTAATAAAAATATCCAAACTGTTAAAA-AGAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACAAAA
* * * * * * *
12429143 TAATAACAGTAAATTTACTTTTTTTGCTTTTTAATGGCACAAAAAAATCCTAAACAAATATAAAC
66 T-ATAAC--TAAAATTA-TATTTTTGCCTTTTAATGGCAC-AAAAAGTCCTAAACAGACATAAAT
* * *
12429208 CATAACTTTTTCACACATATCAATCATGAAAAT
126 GATAACTTTTTCACACATATCAATCGTGAAAAC
* * * *
12429241 TAAGTTCAATCATTTGGACAAGTTTAATATTATGTATTTAAGATATCTAAATTGTTAAAATAGAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACA-AA
* * *
12429306 ATATAACTACAAATTATATTTTTGCCTTTTATTGGCACAAAAAGTCATAAACAGACAAAAATGAT
65 ATATAACTA-AAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATGAT
* * *
12429371 AACTTTTTCACACATATCAACCATGTAAAC
129 AACTTTTTCACACATATCAATCGTGAAAAC
* * * * * *
12429401 CAAGTTCAA-CAATTCGGACAAGTTTAATATCATGTATTGAAGCTATCCAAACTATTAAAACATA
1 CAAGTTCAATC-ATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACAAA
* * * * * **
12429465 ATAATAACAGTAAATTTGTATTTTTG-ATTTT--T--AACAAAAAGTCCTAAATAGACATAAACC
65 AT-ATAAC--TAAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATG
*
12429525 ATAACTTTTTCACACATATCAATCAT-AGAAAC
127 ATAACTTTTTCACACATATCAATCGTGA-AAAC
* * * * * * *
12429557 CAACTTCAATAATTCGAACAAGTTTAATATCATGTATTTAAGATATTTAAACTATT-GAACAAAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAAC-AAA
* * * *
12429621 ATATAACTACAAAATTATATTTTTGCCCTTTAATGGCATAAAAAAATCCTAGACAGACATAAACT
65 ATATAACT--AAAATTATATTTTTGCCTTTTAATGGCA-CAAAAAGTCCTAAACAGACATAAA-T
* * *
12429686 -ACAACTTTTTCACACAT-TCAGTTGTGAAAAC
126 GATAACTTTTTCACACATATCAATCGTGAAAAC
* * *
12429717 TAAGTTCAATCATTTGAACAAGTTTAATATAATGTATTTAAGATATCTAAACTGTTAAAACAAAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACAAAA
* * ** ** * ** *
12429782 TTATAATTGTAAAATTACATTTTTATCTTTTAACAGTACAAAAAGTTTTAAACAAACATAAATGA
66 -TATAA--CTAAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATGA
* *
12429847 TAAC-TTTTCACACATATCAA-CTGTGGAGAC
128 TAACTTTTTCACACATATCAATC-GTGAAAAC
* * * * *
12429877 CAAGTTCAATCATTTAGACAAGTTTAATATCATATATTGAAGCTATCTAAACTATTAAAACAAAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACAAAA
* * * * ** * * *
12429942 TAATAACAGTAAATTTGTACTTTTT-CTTTTTAACGAAATAAAAAGTCCTAAATAGACATAAACG
66 T-ATAAC--TAAAATTATA-TTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATG
* * * *
12430006 ACAA-TATTTTCACACATATTAACCTTGAAAAC
127 ATAACT-TTTTCACACATATCAATCGTGAAAAC
** * * * * * *
12430038 CAAGTTCAATCATTCAGACATGTTTAATATCATGTATTGAAGGTATCCAAA-TAGTTAAAATAGA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACT-GTTAAAACAAA
* * * ** * * * * *
12430102 ACACTAACAACAAATTTGTATTTTTATCTTTTAACGGTAAAAAAAAGTCCTAAACAAACATAAAC
65 ATA-TAACTA-AAA-TTATATTTTTGCCTTTTAATGG-CACAAAAAGTCCTAAACAGACATAAAT
* *
12430167 CATAACTTTTTCACACATATCAATCGTGGAAAC
126 GATAACTTTTTCACACATATCAATCGTGAAAAC
* * * *
12430200 CAAGTTCAATCATTTGGACAAGTTTAATATCACGTATTGAAGCTAATC-AAACTGTTAAAATAGA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGAT-ATCTAAACTGTTAAAACA-A
* * * *** * * * *
12430264 AA-ATAACAAGAGTAAATT-TGCACTGTTATTTTTTAACGACAC-AAAAGTCCTAAACAAACGTA
64 AATATAAC--TA--AAATTAT--ATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATA
* * * * * *
12430326 AACCG-TAACTTTTTCACATATATTAATTGTGGAAAT
123 AA-TGATAACTTTTTCACACATATCAATCGTGAAAAC
* *** * * * *
12430362 GAAGTTCAATCATTCAAACAAGTTTACTATCATATATTTAAGATATCTAAATTGTTTAAACAGAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACA-AA
* * * * *
12430427 ATATAATTGTAAAATTATATTTTTTCCCTTTAATGGCACAAAAAGTCATAAATAGACATAAATGA
65 ATATAA--CTAAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATGA
* ** * * *
12430492 CATTTTTTTCACAC--ATCAACCGTGGAAAT
128 TAACTTTTTCACACATATCAATCGTGAAAAC
* * *
12430521 CAAGTTCAATCATTTGGATAAGTTTAATATCATGT-TTTGAAGCTATCCAAACTGTTAAAACATA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTT-AAGATATCTAAACTGTTAAAACA-A
* * ** * * * ** *
12430585 ACA-ATATAGTAAATTTGCATATTTACTTTTTAACAGCAC-AAAAGTCTTAAACA-AGCATAAAT
64 A-ATATA-ACTAAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGA-CATAAAT
* * *
12430647 -AGCAACTTTTTCACACATATCATTTGTGAAAAC
126 GA-TAACTTTTTCACACATATCAATCGTGAAAAC
* * ** * * *
12430680 TAAGTTCAATAATTTATAGAAGTTTAATATCATGTATTTAAGGTATCTAAACTATTAAAACAAAA
1 CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAAC-AAA
* * *
12430745 ATATATA-TACAAAATTATATTTTTACCTTTTAATGGCATAAAAAGTCCTAAATAGACATAAAT
65 ATATA-ACT--AAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAAT
12430808 CGTAATTCTC
Statistics
Matches: 1365, Mismatches: 283, Indels: 159
0.76 0.16 0.09
Matches are distributed among these distances:
153 1 0.00
155 21 0.02
156 108 0.08
157 34 0.02
158 81 0.06
159 149 0.11
160 397 0.29
161 257 0.19
162 273 0.20
163 24 0.02
164 20 0.01
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (158 bp):
CAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTAAAACAAAA
TATAACTAAAATTATATTTTTGCCTTTTAATGGCACAAAAAGTCCTAAACAGACATAAATGATAA
CTTTTTCACACATATCAATCGTGAAAAC
Found at i:12429857 original size:476 final size:475
Alignment explanation
Indices: 12429074--12430796 Score: 1498
Period size: 476 Copynumber: 3.6 Consensus size: 475
12429064 ATCAATTGTA
* * * * *
12429074 AAAATCAAGTTCAATCATTCGAACAAGTTTAATATCATGTAATAAAAATATCCAAACTGTTAAAA
1 AAAACCAACTTCAATCATTCGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAA
* * * *
12429139 AGAATAATAACAGTAAATTTACTTTTTTTGCTTTTTAATGGCACAAAAAAATCCTAAACAAATAT
66 AGAAT-ATAACA-CAAATTTA-TATTTTTGCCTTTTAATGGCA-AAAAAAATCCTAAACAAACAT
* *
12429204 AAACCATAACTTTTTCACACATATCAATCATGAAAATTAAGTTCAATCATTTGGACAAGTTTAAT
127 AAACCATAACTTTTTCACACATATCAATCGTGAAAACTAAGTTCAATCATTTGGACAAGTTTAAT
* * * * *
12429269 ATTATGTATTTAAGATATCTAAATTGTTAAAATAGAAATATAACTACAAATTATATTTTTGCCTT
192 ATAATGTATTTAAGATATCTAAACTGTTAAAACAGAAATATAACTACAAATTACATTTTTACCTT
*** * *
12429334 TTATTGGCACAAAAAGTCATAAACAGACAAAAATGATAACTTTTTCACACATATCAACCATGTAA
257 TTAACAGCACAAAAAGTCATAAACAAACAAAAATGATAACTTTTTCACACATATCAACCATGGAA
* *
12429399 ACCAAGTTCAA-CAATTCGGACAAGTTTAATATCATGTATTGAAGCTATCCAAACTATTAAAACA
322 ACCAAGTTCAATC-ATTCAGACAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAACA
*
12429463 TAATAATAACAGTAAATTTGTA-TTTTTGATTTTTAAC-AAAAAGTCCTAAATAGACATAAACCA
386 AAATAATAACAGTAAATTTGTACTTTTT-ATTTTTAACAAAAAAGTCCTAAATAGACATAAACCA
*
12429526 TAACT-TTTTCACACATATCAATCATAG
450 CAA-TATTTTCACACATATCAA-CATAG
* * **
12429553 -AAACCAACTTCAATAATTCGAACAAGTTTAATATCATGTATTTAAGATATTTAAACTATTGAAC
1 AAAACCAACTTCAATCATTCGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATT-AA-
* * * *
12429617 AAA-AATATAACTACAAAATTATATTTTTGCCCTTTAATGGCATAAAAAAATCCTAGACAGACAT
64 AAAGAATATAAC-ACAAATTTATATTTTTGCCTTTTAATGGCA-AAAAAAATCCTAAACAAACAT
* * * * *
12429681 AAACTACAACTTTTTCACACAT-TCAGTTGTGAAAACTAAGTTCAATCATTTGAACAAGTTTAAT
127 AAACCATAACTTTTTCACACATATCAATCGTGAAAACTAAGTTCAATCATTTGGACAAGTTTAAT
* *
12429745 ATAATGTATTTAAGATATCTAAACTGTTAAAACA-AAATTATAATTGTA-AAATTACATTTTTAT
192 ATAATGTATTTAAGATATCTAAACTGTTAAAACAGAAA-TATAA--CTACAAATTACATTTTTAC
* ** * **
12429808 CTTTTAACAGTACAAAAAGTTTTAAACAAACATAAATGATAAC-TTTTCACACATATCAACTGTG
254 CTTTTAACAGCACAAAAAGTCATAAACAAACAAAAATGATAACTTTTTCACACATATCAACCATG
* * *
12429872 GAGACCAAGTTCAATCATTTAGACAAGTTTAATATCATATATTGAAGCTATCTAAACTATTAAAA
319 GAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAA
*
12429937 CAAAATAATAACAGTAAATTTGTACTTTTTCTTTTTAACGAAATAAAAAGTCCTAAATAGACATA
384 CAAAATAATAACAGTAAATTTGTACTTTTTATTTTTAAC---A-AAAAAGTCCTAAATAGACATA
* * * *
12430002 AACGACAATATTTTCACACATATTAACCTTG
445 AACCACAATATTTTCACACATATCAACATAG
* * * *
12430033 AAAACCAAGTTCAATCATTC-AGACATGTTTAATATCATGTATTGAAGGTATCCAAA-TAGTTAA
1 AAAACCAACTTCAATCATTCGA-ACAAGTTTAATATCATGTATTAAAGATATCCAAACTA-TTAA
* * ** * *
12430096 AATAGAACACTAACAACAAATTTGTATTTTTATCTTTTAACGGTAAAAAAAAGTCCTAAACAAAC
64 AA-AGAATA-TAAC-ACAAATTTATATTTTTGCCTTTTAATGGCAAAAAAAA-TCCTAAACAAAC
* *
12430161 ATAAACCATAACTTTTTCACACATATCAATCGTGGAAACCAAGTTCAATCATTTGGACAAGTTTA
125 ATAAACCATAACTTTTTCACACATATCAATCGTGAAAACTAAGTTCAATCATTTGGACAAGTTTA
* * * * * * * * * *
12430226 ATATCACGTATTGAAGCTAATC-AAACTGTTAAAATAGAAA-ATAACAAGAGTAAATTTGCACTG
190 ATATAATGTATTTAAGAT-ATCTAAACTGTTAAAACAGAAATATAAC--TA-CAAA-TTACATTT
** * * ** * *
12430289 TTATTTTTTAAC-G-ACACAAAAGTCCTAAACAAACGTAAACCG-TAACTTTTTCACATATATTA
250 TTACCTTTTAACAGCACA-AAAAGTCATAAACAAAC-AAAAATGATAACTTTTTCACACATATCA
*** ** * * * * * * *
12430351 ATTGTGGAAATGAAGTTCAATCATTCAAACAAGTTTACTATCATATATTTAAGATATCTAAATTG
313 ACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATATATTGAAGCTATCCAAACTA
* ** * * * *** *
12430416 TTTAAACAGAAAT-ATAATTGTAAAATTATATTTTTTCCCTTTAATGGCACAAAAAGTCATAAAT
378 TTAAAACA-AAATAATAACAGTAAATTTGTACTTTTTATTTTTAA---CA-AAAAAGTCCTAAAT
** * * *
12430480 AGACATAAATGACATTTTTTTCACAC--ATCAACCGT-G
438 AGACATAAACCACAATATTTTCACACATATCAA-CATAG
* * * * * * * * * *
12430516 GAAATCAAGTTCAATCATTTGGATAAGTTTAATATCATGTTTTGAAGCTATCCAAACTGTTAAAA
1 AAAACCAACTTCAATCATTCGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAA
* * ** ** * * * ** * * * *
12430581 CATAACAATATA-GTAAATTTGCATATTTACTTTTTAACAGC-ACAAAAGTCTTAAACAAGCATA
66 -AGAA-TATA-ACACAAATTTATATTTTTGCCTTTTAATGGCAAAAAAAATCCTAAACAAACATA
* * * * * ** *
12430644 AA-TAGCAACTTTTTCACACATATCATTTGTGAAAACTAAGTTCAATAATTTATAGAAGTTTAAT
128 AACCA-TAACTTTTTCACACATATCAATCGTGAAAACTAAGTTCAATCATTTGGACAAGTTTAAT
* * * * *
12430708 ATCATGTATTTAAGGTATCTAAACTATTAAAACAAAAATATATA-TACAAAATTATATTTTTACC
192 ATAATGTATTTAAGATATCTAAACTGTTAAAACAGAAATATA-ACTAC-AAATTACATTTTTACC
** * *
12430772 TTTTAATGGCATAAAAAGTCCTAAA
255 TTTTAACAGCACAAAAAGTCATAAA
12430797 TAGACATAAA
Statistics
Matches: 1021, Mismatches: 175, Indels: 96
0.79 0.14 0.07
Matches are distributed among these distances:
475 3 0.00
476 180 0.18
477 109 0.11
478 77 0.08
479 29 0.03
480 108 0.11
481 108 0.11
482 86 0.08
483 128 0.13
484 34 0.03
485 154 0.15
486 4 0.00
488 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (475 bp):
AAAACCAACTTCAATCATTCGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAA
AGAATATAACACAAATTTATATTTTTGCCTTTTAATGGCAAAAAAAATCCTAAACAAACATAAAC
CATAACTTTTTCACACATATCAATCGTGAAAACTAAGTTCAATCATTTGGACAAGTTTAATATAA
TGTATTTAAGATATCTAAACTGTTAAAACAGAAATATAACTACAAATTACATTTTTACCTTTTAA
CAGCACAAAAAGTCATAAACAAACAAAAATGATAACTTTTTCACACATATCAACCATGGAAACCA
AGTTCAATCATTCAGACAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAACAAAATA
ATAACAGTAAATTTGTACTTTTTATTTTTAACAAAAAAGTCCTAAATAGACATAAACCACAATAT
TTTCACACATATCAACATAG
Found at i:12434236 original size:21 final size:22
Alignment explanation
Indices: 12434212--12434257 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
12434202 CCCCTTCATC
12434212 ACTTTGA-CATCAACATCACCA
1 ACTTTGAGCATCAACATCACCA
*
12434233 AC-TTGAGCTTCAACATCACCA
1 ACTTTGAGCATCAACATCACCA
12434254 ACTT
1 ACTT
12434258 AAGCTTCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.35, C:0.33, G:0.07, T:0.26
Consensus pattern (22 bp):
ACTTTGAGCATCAACATCACCA
Found at i:12434262 original size:21 final size:21
Alignment explanation
Indices: 12434221--12434278 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
12434211 CACTTTGACA
*
12434221 TCAACATCACCAACTTGAGCT
1 TCAACATCACCAACTTAAGCT
12434242 TCAACATCACCAACTTAAGCT
1 TCAACATCACCAACTTAAGCT
* *
12434263 TCAGCATCACTAACTT
1 TCAACATCACCAACTT
12434279 GAAGAATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.33, G:0.07, T:0.26
Consensus pattern (21 bp):
TCAACATCACCAACTTAAGCT
Found at i:12438364 original size:26 final size:27
Alignment explanation
Indices: 12438329--12438384 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
12438319 TTGGTTTTTC
* *
12438329 TTTTTTTAATTTACTTA-TTTTTTAAA
1 TTTTTTTAATTTAATAATTTTTTTAAA
12438355 TTTTTTTAATTTAATAATTTTTTTAAA
1 TTTTTTTAATTTAATAATTTTTTTAAA
12438382 TTT
1 TTT
12438385 AAAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTTAATTTAATAATTTTTTTAAA
Found at i:12438373 original size:17 final size:18
Alignment explanation
Indices: 12438353--12438386 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
12438343 TTATTTTTTA
12438353 AATTTTTTT-AATTTAAT
1 AATTTTTTTAAATTTAAT
12438370 AATTTTTTTAAATTTAA
1 AATTTTTTTAAATTTAA
12438387 AAAATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTTTAAATTTAAT
Found at i:12438617 original size:596 final size:594
Alignment explanation
Indices: 12437407--12439188 Score: 2657
Period size: 596 Copynumber: 3.0 Consensus size: 594
12437397 CTATTGGATG
* * * * *
12437407 GTTTTTGGATTTTAGGTATGTTAGTGTCAACTGTGAGGGCTTTCAGGTGTTGATGGATATGAGTG
1 GTTTTTGGAGTTTGGGTATGTTAGTGTCGACTGTGAAGGCTTTCAGGTGTTGATGGATATGGGTG
* * *
12437472 AAGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTTTTAGCTTTATAGAACAATTTGAGATCTT
66 AAGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
* *
12437537 GAAAAGGATTAGGATGCCAGACAATAAGCTAATGAGAATTTTAGGATCATGAGAAAAAAAAGTGA
131 GAAAAGGATTAGGATGCCAGACAATAAGCTAATGAGAGTTTTAGGATCATGAGAAAAAAAAGTGG
* *
12437602 TGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAATAAGGGTAGTATATTAT
196 TGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAAAGGGTAGCATATTAT
* * *
12437667 GAGGATGAGGGATTAGCAAGGTGGCTGGCAAGCTAATACCATCCCAATTTTGGTTTTTCTTTTTT
261 GAGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTC------
**
12437732 TTTTTTTAATTTACTTATTTTTTTGAAAAATTTTTAATTTAATAA-TTTTTTAAATTTAAAAAAT
320 TTTTTTTAATTTACTTA-TTTTTT-AAATTTTTTTAATTTAATAATTTTTTTAAATTTAAAAAAT
* * * * *
12437796 GAAAAAAAATGAATTTTGGACTTAAACCCTTCATGTCTAAACATAATACTTCTAAGCGTTATAGC
383 G-AAAAAAATGAAATTTGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGC
* * **
12437861 CCAAACAACTTAAA-CTATTTGAATTTGACTCTAATCAAACCCGACAAATATAAATGAAATCTGA
447 CCAAACAACTTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTGA
12437925 ACAAATAATATCAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATT
512 ACAAATAATATCAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATT
12437990 ATTCCACATCATTGTGAA
577 ATTCCACATCATTGTGAA
* *
12438008 GTTTTTGGAGTTTGGGTATGCTAGTGTCGACTGTGAAGGCTTTCGGGTGTTGATGGATATGGGTG
1 GTTTTTGGAGTTTGGGTATGTTAGTGTCGACTGTGAAGGCTTTCAGGTGTTGATGGATATGGGTG
*
12438073 AGGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
66 AAGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
* * *
12438138 AAAAAGGATTAGGATGCCAAACAATAAGCTAAT-AGGAGTTTTAAGATCATGAGAAAAAAAAAGT
131 GAAAAGGATTAGGATGCCAGACAATAAGCTAATGA-GAGTTTTAGGATCATGAG-AAAAAAAAGT
12438202 GGTGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAAAAGGGTAGCATAT
194 GGTGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAAC-AAAAAAAGGGTAGCATAT
* * * * *
12438267 TATGGGGATGAGGAATTGGCAAGGTGGCTAGTAGGTTGATACCATCCCAATTTTGGTTTTTCTTT
258 TATGAGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTCTTT
12438332 TTTTAATTTACTTATTTTTTAAATTTTTTTAATTTAATAATTTTTTTAAATTTAAAAAATGAAAA
323 TTTTAATTTACTTATTTTTTAAATTTTTTTAATTTAATAATTTTTTTAAATTTAAAAAATGAAAA
12438397 AAATGAAATTTGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAAC
388 AAATGAAATTTGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAAC
** * *
12438462 AACTTAAACCTATTTGAATTGGACTCTAATCAAACCTAATAGATACAAATGAAGCCTGAACAAAT
453 AACTTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTGAACAAAT
* * ** *
12438527 AATATCAACCTAATC-AAAGCATTCAAACCGTTTCGAGATAAGCATAAGAAATCAAAATTCTTCC
518 AATATCAACTTAATCGAGA-CATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATTATTCC
12438591 ACATCATTGTGAA
582 ACATCATTGTGAA
* *
12438604 GTTTTTGGAGTTTGGGTATGTTAGTGTTGATTGTGGAA-GCTTTCAGGTGTTGATGGATATGGGT
1 GTTTTTGGAGTTTGGGTATGTTAGTGTCGACTGT-GAAGGCTTTCAGGTGTTGATGGATATGGGT
* * *
12438668 AAATGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGTTTTATAGAGCAATTTGGGATCT
65 GAAGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCT
* * * *
12438733 TGAAAAGGATTAGGATGTCAGACAATAAGATAATGAGAGTTTTAGGATCATGAGAAAAGAGAGTG
130 TGAAAAGGATTAGGATGCCAGACAATAAGCTAATGAGAGTTTTAGGATCATGAGAAAAAAAAGTG
* *
12438798 GTGGTTGGTATAGGATTAAAATAACAAAGGTGAGTTGTAAGAAACAAAAAAAGGGTAGCATATTA
195 GTGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAAAGGGTAGCATATTA
* * *
12438863 TGAGGATAAGGGATTGGCAAGGAGGCTGGCAGGCTGATACCATCCTAATTTTGG---TT-TTTTT
260 TGAGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTCTTTTT
* *
12438924 TTAATTTACTT-TTTTTTTAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATGAAAAA
325 TTAATTTACTTATTTTTTAAATTTTTTTAATTTAATAATTT-TTTTAAATTTAAAAAATGAAAAA
** * * * * * *
12438988 AAAAAGAATTTTAGATTTAAAGCCTTCAAGTCTAAATGTAGTACTTCAAAGCATTATAGCCCAAA
389 AATGA-AATTTGA-ACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAA
* *
12439053 TAACTTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTAAACAAA
452 CAACTTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTGAACAAA
* * * *
12439118 TAATAACAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCACAAGAAATCAAAATTTTTCT
517 TAATATCAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATTATTCC
12439183 ACATCA
582 ACATCA
12439189 AATACCCAAC
Statistics
Matches: 1074, Mismatches: 95, Indels: 33
0.89 0.08 0.03
Matches are distributed among these distances:
589 27 0.03
590 42 0.04
591 8 0.01
592 165 0.15
593 2 0.00
594 66 0.06
595 144 0.13
596 307 0.29
597 21 0.02
600 1 0.00
601 166 0.15
602 55 0.05
603 70 0.07
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (594 bp):
GTTTTTGGAGTTTGGGTATGTTAGTGTCGACTGTGAAGGCTTTCAGGTGTTGATGGATATGGGTG
AAGGGGTGGCTTGTTGGTTGAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
GAAAAGGATTAGGATGCCAGACAATAAGCTAATGAGAGTTTTAGGATCATGAGAAAAAAAAGTGG
TGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAAAGGGTAGCATATTAT
GAGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTCTTTTTT
TAATTTACTTATTTTTTAAATTTTTTTAATTTAATAATTTTTTTAAATTTAAAAAATGAAAAAAA
TGAAATTTGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAACAAC
TTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTGAACAAATAAT
ATCAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATTATTCCACAT
CATTGTGAA
Found at i:12445957 original size:11 final size:11
Alignment explanation
Indices: 12445943--12445968 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12445933 AATTTAACTC
12445943 AAATAAAATTT
1 AAATAAAATTT
12445954 AAATAAAATTT
1 AAATAAAATTT
12445965 AAAT
1 AAAT
12445969 TCGATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATAAAATTT
Found at i:12447190 original size:30 final size:31
Alignment explanation
Indices: 12447154--12447213 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
12447144 TATTTACGTA
* *
12447154 TATTAAAATGAGTTGAGAAT-AAAATTATTT
1 TATTAAAAAGAATTGAGAATAAAAATTATTT
12447184 TATTAAAAAGAATTGAGAATAAAAATTATT
1 TATTAAAAAGAATTGAGAATAAAAATTATT
12447214 CACGCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (31 bp):
TATTAAAAAGAATTGAGAATAAAAATTATTT
Found at i:12459580 original size:17 final size:17
Alignment explanation
Indices: 12459558--12459590 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12459548 AAGTTGAAAC
12459558 TCAAAGATCCGCAAGGT
1 TCAAAGATCCGCAAGGT
*
12459575 TCAAAGATTCGCAAGG
1 TCAAAGATCCGCAAGG
12459591 CTTTCAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (17 bp):
TCAAAGATCCGCAAGGT
Found at i:12459638 original size:18 final size:18
Alignment explanation
Indices: 12459603--12459638 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12459593 TTCAGATTCA
**
12459603 TAAGAATTTTTAGTTTTG
1 TAAGAATTTTTAAATTTG
12459621 TAAGAATTTTTAAATTTG
1 TAAGAATTTTTAAATTTG
12459639 CAAAAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TAAGAATTTTTAAATTTG
Found at i:12459812 original size:35 final size:36
Alignment explanation
Indices: 12459764--12459834 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
12459754 TAGATTTCAA
* *
12459764 GTTCGCAAAAATTTT-AGATTCATAAGAACTTTTAG
1 GTTCGCAAAAATTTTCAAATTCACAAGAACTTTTAG
** *
12459799 GTTCGCATGAATTTTCAAATTCACAAGAATTTTTAG
1 GTTCGCAAAAATTTTCAAATTCACAAGAACTTTTAG
12459835 TTTTGCAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (36 bp):
GTTCGCAAAAATTTTCAAATTCACAAGAACTTTTAG
Found at i:12459966 original size:65 final size:65
Alignment explanation
Indices: 12459868--12460015 Score: 176
Period size: 65 Copynumber: 2.3 Consensus size: 65
12459858 CCAAATTCAA
* * * * * * ** *
12459868 TTTAGTGATTCACA-TCAAAATTTTAAGGCTTACATCCAACATTTAACGATTCACATTCAAAAAT
1 TTTAGAGATTCTCATTCAAAATTTCAAGGCTTACATACAAAATTCAAAAATTCACATTAAAAAAT
* *
12459932 TTTAGAGATTCTCATTCAAAGTTTCAAGGTTTACATACAAAATTCAAAAATTCACATTAAAAAAT
1 TTTAGAGATTCTCATTCAAAATTTCAAGGCTTACATACAAAATTCAAAAATTCACATTAAAAAAT
12459997 TTTAGAGA-T-TCATTCAAAA
1 TTTAGAGATTCTCATTCAAAA
12460016 ATTTTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
63 9 0.13
64 13 0.18
65 49 0.69
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (65 bp):
TTTAGAGATTCTCATTCAAAATTTCAAGGCTTACATACAAAATTCAAAAATTCACATTAAAAAAT
Found at i:12461221 original size:5 final size:5
Alignment explanation
Indices: 12461211--12461235 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12461201 CGATTTGAGT
12461211 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
12461236 ACAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:12461264 original size:18 final size:18
Alignment explanation
Indices: 12461243--12461296 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
12461233 TTCACAATTT
*
12461243 TTTTTTCAATTTTTTCAC
1 TTTTTTCATTTTTTTCAC
*
12461261 TTTTCTCATTTTTTTCA-
1 TTTTTTCATTTTTTTCAC
*
12461278 TTTTTT-ATTTTTTTTAC
1 TTTTTTCATTTTTTTCAC
12461295 TT
1 TT
12461297 CATCCATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 9 0.29
17 7 0.23
18 15 0.48
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCATTTTTTTCAC
Found at i:12461290 original size:7 final size:8
Alignment explanation
Indices: 12461243--12461290 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 8
12461233 TTCACAATTT
12461243 TTTTTTCAA
1 TTTTTTC-A
12461252 TTTTTTCA
1 TTTTTTCA
*
12461260 CTTTTCTCA
1 -TTTTTTCA
12461269 TTTTTTTCA
1 -TTTTTTCA
12461278 TTTTTT-A
1 TTTTTTCA
12461285 TTTTTT
1 TTTTTT
12461291 TTACTTCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.20
8 7 0.20
9 21 0.60
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:12468538 original size:25 final size:23
Alignment explanation
Indices: 12468492--12468538 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
12468482 AAGTGTAAAC
*
12468492 AAAGCCCATTTGAAGCCAATAAG
1 AAAGCCCATTTAAAGCCAATAAG
*
12468515 AAAGCCCACTTTAAAAGCCTATAA
1 AAAGCCCA-TTT-AAAGCCAATAA
12468539 AATGCATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 9 0.45
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (23 bp):
AAAGCCCATTTAAAGCCAATAAG
Found at i:12471229 original size:15 final size:16
Alignment explanation
Indices: 12471198--12471230 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12471188 AATTGCAAGT
12471198 TTAATTTTATGTATTG
1 TTAATTTTATGTATTG
*
12471214 TTAATTTTCT-TATTG
1 TTAATTTTATGTATTG
12471229 TT
1 TT
12471231 TGGATTCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (16 bp):
TTAATTTTATGTATTG
Found at i:12475257 original size:30 final size:30
Alignment explanation
Indices: 12475223--12475326 Score: 154
Period size: 30 Copynumber: 3.5 Consensus size: 30
12475213 GAACAACAAA
*
12475223 TACAACAATAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
* * ***
12475253 TACAACAGCAATGGCGACACAAGCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
12475283 TACAACAACAATGGCTACACCCTCAGCAAC
1 TACAACAACAATGGCTACACCCTCAGCAAC
12475313 TACAACAACAATGG
1 TACAACAACAATGG
12475327 TTATGAGACA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.12
Consensus pattern (30 bp):
TACAACAACAATGGCTACACCCTCAGCAAC
Found at i:12479811 original size:2 final size:2
Alignment explanation
Indices: 12479804--12479828 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12479794 AATGATGTTG
12479804 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
12479829 CCTGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:12481551 original size:2 final size:2
Alignment explanation
Indices: 12481544--12481573 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12481534 CAGGTATACA
12481544 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12481574 CATTAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12487177 original size:20 final size:20
Alignment explanation
Indices: 12487148--12487219 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
12487138 TTGGATTTAG
*
12487148 GATTTAGGGTTTGAGGTTTT
1 GATTTAGGGTTTAAGGTTTT
*
12487168 GATTTGGGGTTTAAGGTTTT
1 GATTTAGGGTTTAAGGTTTT
* ** *
12487188 GATTTATGGTTTTCGGGTTT
1 GATTTAGGGTTTAAGGTTTT
*
12487208 GGTTTAGGGTTT
1 GATTTAGGGTTT
12487220 TGAGGTTTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.12, C:0.01, G:0.35, T:0.51
Consensus pattern (20 bp):
GATTTAGGGTTTAAGGTTTT
Found at i:12487220 original size:20 final size:20
Alignment explanation
Indices: 12487150--12487370 Score: 78
Period size: 20 Copynumber: 11.5 Consensus size: 20
12487140 GGATTTAGGA
*
12487150 TTTAGGG-TTTGAGGTTTTGA
1 TTTAGGGTTTTGAGG-TTTGG
* * *
12487170 TTT-GGGGTTTAAGGTTTTGA
1 TTTAGGGTTTTGAGG-TTTGG
*
12487190 TTTATGGTTTTCG-GGTTTGG
1 TTTAGGGTTTT-GAGGTTTGG
12487210 TTTAGGGTTTTGAGGTTTGGG
1 TTTAGGGTTTTGAGGTTT-GG
* **
12487231 TTTAAGAATTT-A-----GG
1 TTTAGGGTTTTGAGGTTTGG
*
12487245 -TTAGGGTTTTGGGGTTTGG
1 TTTAGGGTTTTGAGGTTTGG
* * *
12487264 TAT-GGGGTTTAAGGATTTAGG
1 TTTAGGGTTTTGAGG-TTT-GG
* *
12487285 -TTAGGGTTTTGGGGTTTAG
1 TTTAGGGTTTTGAGGTTTGG
*
12487304 TTTAGGG-TTTGGGGTTTGG
1 TTTAGGGTTTTGAGGTTTGG
* **
12487323 -TT-GGGGTTT-AGGAATGG
1 TTTAGGGTTTTGAGGTTTGG
* * *
12487340 TTTAAGGTTTTAAGGTTTGAT
1 TTTAGGGTTTTGAGGTTTG-G
12487361 TTTAGGGTTT
1 TTTAGGGTTT
12487371 AACGGTTTGC
Statistics
Matches: 148, Mismatches: 32, Indels: 41
0.67 0.14 0.19
Matches are distributed among these distances:
13 7 0.05
14 2 0.01
17 8 0.05
18 7 0.05
19 31 0.21
20 57 0.39
21 36 0.24
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
TTTAGGGTTTTGAGGTTTGG
Found at i:12487249 original size:34 final size:35
Alignment explanation
Indices: 12487211--12487301 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 35
12487201 CGGGTTTGGT
*
12487211 TTAGGGTTTTGAGGTTT-GGGTTTAAGAATTTAGG
1 TTAGGGTTTTGGGGTTTGGGGTTTAAGAATTTAGG
*
12487245 TTAGGGTTTTGGGGTTTGGTATGGGGTTTAAGGATTTAGG
1 TTAGGGTTTTGGGG--T--T-TGGGGTTTAAGAATTTAGG
12487285 TTAGGGTTTTGGGGTTT
1 TTAGGGTTTTGGGGTTT
12487302 AGTTTAGGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
34 13 0.27
35 1 0.02
36 2 0.04
38 2 0.04
39 1 0.02
40 30 0.61
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (35 bp):
TTAGGGTTTTGGGGTTTGGGGTTTAAGAATTTAGG
Found at i:12487312 original size:40 final size:39
Alignment explanation
Indices: 12487224--12487313 Score: 135
Period size: 40 Copynumber: 2.3 Consensus size: 39
12487214 GGGTTTTGAG
*
12487224 GTTTGGGTTTAAGAATTTAGGTTAGGGTTTTGGGGTTTG
1 GTTTGGGTTTAAGAATTTAGGTTAGGGTTTTGGGGTTTA
* *
12487263 GTATGGGGTTTAAGGATTTAGGTTAGGGTTTTGGGGTTTA
1 GT-TTGGGTTTAAGAATTTAGGTTAGGGTTTTGGGGTTTA
12487303 GTTTAGGGTTT
1 GTTT-GGGTTT
12487314 GGGGTTTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 3 0.07
40 42 0.93
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (39 bp):
GTTTGGGTTTAAGAATTTAGGTTAGGGTTTTGGGGTTTA
Found at i:12487316 original size:19 final size:20
Alignment explanation
Indices: 12487239--12487331 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
12487229 GGTTTAAGAA
12487239 TTTAGGTTAGGGTTTTGGGG
1 TTTAGGTTAGGGTTTTGGGG
* ** *
12487259 TTT-GGTATGGGGTTTAAGGA
1 TTTAGGT-TAGGGTTTTGGGG
12487279 TTTAGGTTAGGGTTTTGGGG
1 TTTAGGTTAGGGTTTTGGGG
*
12487299 TTTAGTTTAGGG-TTTGGGG
1 TTTAGGTTAGGGTTTTGGGG
*
12487318 TTT-GGTTGGGGTTT
1 TTTAGGTTAGGGTTT
12487332 AGGAATGGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
18 6 0.10
19 15 0.25
20 35 0.59
21 3 0.05
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (20 bp):
TTTAGGTTAGGGTTTTGGGG
Found at i:12487369 original size:21 final size:21
Alignment explanation
Indices: 12487340--12487379 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12487330 TTAGGAATGG
12487340 TTTAAGGTTTTAA-GGTTTGAT
1 TTTAAGG-TTTAACGGTTTGAT
*
12487361 TTTAGGGTTTAACGGTTTG
1 TTTAAGGTTTAACGGTTTG
12487380 CATGAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAACGGTTTGAT
Found at i:12490263 original size:15 final size:16
Alignment explanation
Indices: 12490243--12490272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12490233 ATATGTAAAT
12490243 ATAAT-ATTTTATTAG
1 ATAATAATTTTATTAG
12490258 ATAATAATTTTATTA
1 ATAATAATTTTATTA
12490273 ATATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATAATTTTATTAG
Found at i:12491014 original size:16 final size:16
Alignment explanation
Indices: 12490970--12491012 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
12490960 TAACTTTATT
* *
12490970 AATATAATACATATATA
1 AATATAA-AAATAAATA
12490987 AATATAAAAATAAATA
1 AATATAAAAATAAATA
12491003 AATAATAAAA
1 AAT-ATAAAA
12491013 TATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATAAAAATAAATA
Found at i:12496756 original size:160 final size:160
Alignment explanation
Indices: 12496228--12498139 Score: 1250
Period size: 160 Copynumber: 11.9 Consensus size: 160
12496218 CTAGAATTTA
* * * * *
12496228 TTCATACATATCAAGCATGGAAATCAAGTTCAAAT-ATTCATATAAGTTTAATATCATGTATTTA
1 TTCACACATATCAACCATGGAAACCAAGTTC-AATCATTCAGACAAGTTTAATATCATGTATTTA
* * * * * * * * * **
12496292 AG-TGATATAAATTATTAAAACAAAAA-ATAACTGCAAAATCA-AATTTTACCCTTTAACAGCAT
65 AGAT-ATCTAAACTGTTAAAATAAAAATATAACAG-TAAATTATATTTTTACCTTTTAATGGCA-
* ** ** * *
12496354 AAAAAAGTTTTAAACAGATGTAAACCG-TAATTTT
127 CAAAAAGTCCTAAACAGACATAAA-TGATAACTTT
*** * * * *
12496388 TTCACACATATCAATTGTGAAAATCAAGTTCAATCATTC-GAATAAGTTTAATATCATGTATTAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTTA
* * * * * * * * *
12496452 AAATATCCAAACTATT-AAA-AAGAATAATAACAGTAAATTCACTTTTTTTGCTTTTTGACGGCA
65 AGATATCTAAACTGTTAAAATAAAAAT-ATAACAGTAAATT-A-TATTTTTACCTTTTAATGGCA
* * * * * **
12496515 TAAAAAAATCTTAAACAAATATAAACCATAACTTT
127 -CAAAAAGTCCTAAACAGACATAAATGATAACTTT
* * * * *
12496550 TTCACACATATCAATCATGAAAACTAAGTTCAATCATTCGGACAAGTTTAATATTATGTATTTAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
* * * * * *
12496615 GATATCTAAATTGTTAAAATAAAAATATAACTGCAAATTATATTTTTGCCCTTTATTGGCACAAA
66 GATATCTAAACTGTTAAAATAAAAATATAACAGTAAATTATATTTTTACCTTTTAATGGCACAAA
* *
12496680 AAGTCATAAACAGACAAAAATGATAACTTT
131 AAGTCCTAAACAGACATAAATGATAACTTT
* * * * * *
12496710 TTCACACATATCAACCGTGTAAACTAGGTTCAATAATTCAGACAAGTTTAATATCATGTATTAAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
* * * * * * *
12496775 GCTATCCAAACTATTAAAA-CAGAATAATAACAGTAAATTTGTATTTTTGA--TTTT--T--AAC
66 GATATCTAAACTGTTAAAATAAAAAT-ATAACAGTAAA-TTATATTTTT-ACCTTTTAATGGCAC
* * **
12496833 AAAAAGTTCTAAATAGACATAAACCATAACTTT
128 AAAAAGTCCTAAACAGACATAAATGATAACTTT
* * * *
12496866 TTCACACATATCAATCATTGAAACCAACTTCAATCATT-TGAACAAGTTTAATATCATGTATTTA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTTA
* * * ** * * *
12496930 AGATATCTAAACTATTGAAACAAAAATATAACTACAAAATTATATTTTTGCCCTTTAATGGCATA
65 AGATATCTAAACTGTTAAAATAAAAATATAAC-AGTAAATTATATTTTTACCTTTTAATGGCACA
* * *
12496995 AAAAATCCTAGACAGACATAAACT-ACAACTTT
129 AAAAGTCCTAAACAGACATAAA-TGATAACTTT
* **** * *
12497027 TTCGCACAT-TCAGTTGTGGAAACCAAGTTCAATCATT-TGAACAAGTTTAATATAATGTATTTA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTTA
* * * ** * * ** *
12497090 AGATACCTAAACTGTTAAAACAAAATTATAATTGTAAAATTACATTTTTATCTTTTAACAGTACA
65 AGATATCTAAACTGTTAAAATAAAAATATAACAGT-AAATTATATTTTTACCTTTTAATGGCACA
** *
12497155 AAAAGTTTTAAACAAACATAAATGATAAC-TT
129 AAAAGTCCTAAACAGACATAAATGATAACTTT
* * * * *
12497186 TTCACACATATCGACCATGGAGACCAAGTTCAATCATTTAGACAAGTTTAATATCATATATTGAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
* * * * * * * * * *
12497251 GCTATCCAAACTATTAAAAT-AGAATAATAACAGTAAATTTGTACTTTTGCTTTTTAACGGAACA
66 GATATCTAAACTGTTAAAATAAAAAT-ATAACAGTAAA-TTATATTTTTACCTTTTAATGGCACA
* * * * *
12497315 AAAAGTCTTAAATAGACATAAACGACAACATT
129 AAAAGTCCTAAACAGACATAAATGATAACTTT
* * * * *
12497347 TTCACACATATTAACCTTGAAAACCAAGTTCAATCATTCAGACATGTTTAATATCATGTATTGAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
* * * * ** * * * *
12497412 GGTATCCAAA-TAGTTAAAATAGAACA-CTAACAACAAATTTGTATTTTTATCTTTTAACGGTAA
66 GATATCTAAACT-GTTAAAATA-AAAATATAACAGTAAA-TTATATTTTTACCTTTTAATGG--C
* * **
12497475 AAAAAAAGTCCTAAACAAACATAAACCATAACTTT
126 ACAAAAAGTCCTAAACAGACATAAATGATAACTTT
* ** ** *
12497510 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCACATATTGAA
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
* * * * ** * *
12497575 GCTAATC-AAACTGTT-AAATAGAAAATAATAAGAGTAAATT-TGCACTGTTATTTTTTAACGAC
66 GAT-ATCTAAACTGTTAAAATA-AAAAT-ATAACAGTAAATTAT--ATTTTTACCTTTTAATGGC
* * *
12497637 AC-AAAAGTCCTAAACAAACGTAAACCG-TAACTTT
126 ACAAAAAGTCCTAAACAGACATAAA-TGATAACTTT
* * * ** * *
12497671 TTCACATATATTAA--TTGTGAATATGAAGTTCAATCATTCAAACAAGTTTACTATCATGTATTT
1 TTCACACATATCAACCATG-GAA-ACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTT
* * * * ** * *
12497734 AAGATATCTAAATTGTTTAAACAGAAATATAATTGTAAAATTATATTTTTGCCCTTTAATGGCAC
64 AAGATATCTAAACTGTTAAAATAAAAATATAACAGT-AAATTATATTTTTACCTTTTAATGGCAC
* * * **
12497799 AAAAAGTCATAAATAGACATAAATGACATTTTT
128 AAAAAGTCCTAAACAGACATAAATGATAACTTT
* *
12497832 TTCACAC--ATCAACCATGGAAATCAAGTTCAATCATTC-GAATAAGTTTAATATCATGT-TTTG
1 TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTT-
* * * *
12497893 AAGCTATCCAAACTGTTAAAATAGAACAATAT---AGTAAATT-TGCATTTTTACTTTTTAATAG
64 AAGATATCTAAACTGTTAAAATA-AA-AATATAACAGTAAATTAT--ATTTTTACCTTTTAATGG
*
12497954 CAC-AAAAGTCCTAAACA-AGCATAAAT-AGCAACTTT
125 CACAAAAAGTCCTAAACAGA-CATAAATGA-TAACTTT
* * * * * *
12497989 TTCACAGATATC--CCTTGTGAAAACTAAGTTCAATAATTTAGAAAAGTTTAATATCATGTATTT
1 TTCACACATATCAACCATG-G-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTT
* *
12498052 AAGATATCTAAACTATTAAAACAAAATATATATACA--AAATTATATTTTTACCTTTTAATGGCA
64 AAGATATCTAAACTGTTAAAATAAAA-ATATA-ACAGTAAATTATATTTTTACCTTTTAATGGCA
* * *
12498115 TAAAAAGTCCTAAATAGATATAAAT
127 CAAAAAGTCCTAAACAGACATAAAT
12498140 CGTAACTCTT
Statistics
Matches: 1383, Mismatches: 293, Indels: 152
0.76 0.16 0.08
Matches are distributed among these distances:
155 1 0.00
156 115 0.08
157 51 0.04
158 34 0.02
159 160 0.12
160 461 0.33
161 293 0.21
162 126 0.09
163 112 0.08
164 30 0.02
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (160 bp):
TTCACACATATCAACCATGGAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTTAA
GATATCTAAACTGTTAAAATAAAAATATAACAGTAAATTATATTTTTACCTTTTAATGGCACAAA
AAGTCCTAAACAGACATAAATGATAACTTT
Found at i:12496957 original size:316 final size:319
Alignment explanation
Indices: 12496228--12498109 Score: 1300
Period size: 322 Copynumber: 5.9 Consensus size: 319
12496218 CTAGAATTTA
* * * * *
12496228 TTCATACATATCAAGCATGGAAATCAAGTTCAA--ATATTCATATAAGTTTAATATCATGTATTT
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCAT-TTGA-ACAAGTTTAATATCATGTATTT
* * * * * *
12496291 AAG-TGATATAAATTATTAAAACAAAAA-ATAACTGCAAAATCA-AATTTTACCCTTTAACAGCA
64 AAGAT-ATCTAAACTATTAAAACAAAAATATAACTGCAAAATTATATTTTTGCCCTTTAACGGCA
* * ** * * * ** *
12496353 TAAAAAAGTTTTAAACAGATGTAAACCG-TAATTTTTTCACACATATCAATTGTGAAAATCAAGT
128 -CAAAAAGTCTTAAACAGA-CAAAAACGACAACTTTTTCACACATATCAACCGTG-AAACCAAGT
* *
12496417 TCAATCATTC-GAATAAGTTTAATATCATGTATTAAAAATATCCAAACTATTAAAA-AGAATAAT
190 TCAATCATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAATAAT
* * * * ** *
12496480 AACAGTAAA-TT-CACTTTTTTTGCTTTTTGACGGCATAAAAAAATCTTAAACAAATATAAACCA
255 AACAGTAAATTTGTA-TTTTTAT-C-TTTT-A-AG-ACAAAAAGTTC-TAAACAAACATAAACCA
12496543 TAACTTT
313 TAACTTT
* * * * *
12496550 TTCACACATATCAATCATGAAAACTAAGTTCAATCATTCGGACAAGTTTAATATTATGTATTTAA
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
* * * **
12496615 GATATCTAAATTGTTAAAATAAAAATATAACTGC-AAATTATATTTTTGCCCTTTATTGGCACAA
66 GATATCTAAACTATTAAAACAAAAATATAACTGCAAAATTATATTTTTGCCCTTTAACGGCACAA
* * * * *
12496679 AAAGTCATAAACAGACAAAAATGATAACTTTTTCACACATATCAACCGTGTAAACTAGGTTCAAT
131 AAAGTCTTAAACAGACAAAAACGACAACTTTTTCACACATATCAACCGTG-AAACCAAGTTCAAT
* *
12496744 AATTCAG-ACAAGTTTAATATCATGTATTAAAGCTATCCAAACTATTAAAACAGAATAATAACAG
195 CATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAATAATAACAG
* *
12496808 TAAATTTGTATTTTTGAT-TTTT-A-ACAAAAAGTTCTAAATAGACATAAACCATAACTTT
260 TAAATTTGTATTTTT-ATCTTTTAAGACAAAAAGTTCTAAACAAACATAAACCATAACTTT
* *
12496866 TTCACACATATCAATCATTGAAACCAACTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
* * * *
12496931 GATATCTAAACTATTGAAACAAAAATATAACTACAAAATTATATTTTTGCCCTTTAATGGCATAA
66 GATATCTAAACTATTAAAACAAAAATATAACTGCAAAATTATATTTTTGCCCTTTAACGGCACAA
* * * * * * ***
12496996 AAAATCCTAGACAGACATAAACTACAACTTTTTCGCACAT-TCAGTTGTGGAAACCAAGTTCAAT
131 AAAGTCTTAAACAGACAAAAACGACAACTTTTTCACACATATCAACCGT-GAAACCAAGTTCAAT
* * * * * * **
12497060 CATT-TGAACAAGTTTAATATAATGTATTTAAGATA-CCTAAACTGTTAAAACAAAATTATAATT
195 CATTCAGAACAAGTTTAATATCATGTATTAAAGATATCC-AAACTATTAAAACAGAATAATAACA
* ** * **
12497123 GTAAAATTACATTTTTATCTTTTAACAGTACAAAAAGTTTTAAACAAACATAAATGATAAC-TT
259 GTAAATTTGTATTTTTATCTTTT-A-AG-ACAAAAAGTTCTAAACAAACATAAACCATAACTTT
* * * * *
12497186 TTCACACATATCGACCATGGAGACCAAGTTCAATCATTT-AGACAAGTTTAATATCATATATTGA
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGA-ACAAGTTTAATATCATGTATTTA
* * * * * * * * * ** *
12497250 AGCTATCCAAACTATTAAAA-TAGAATAATAACAGTAAATTTGTACTTTTGCTTTTTAACGGAAC
65 AGATATCTAAACTATTAAAACAAAAAT-ATAACTGCAAAATTATATTTTTGCCCTTTAACGGCAC
* * * * *
12497314 AAAAAGTCTTAAATAGACATAAACGACAACATTTTCACACATATTAACCTTGAAAACCAAGTTCA
129 AAAAAGTCTTAAACAGACAAAAACGACAACTTTTTCACACATATCAACCGTG-AAACCAAGTTCA
* * * * * *
12497379 ATCATTCAG-ACATGTTTAATATCATGTATTGAAGGTATCCAAA-TAGTTAAAATAGAACACTAA
193 ATCATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTA-TTAAAACAGAATAATAA
** * *
12497442 CAACAAATTTGTATTTTTATCTTTTAACGGTAAAAAAAAAGTCCTAAACAAACATAAACCATAAC
257 CAGTAAATTTGTATTTTTATCTTTTAA--G---ACAAAAAGTTCTAAACAAACATAAACCATAAC
12497507 TTT
317 TTT
* ** *
12497510 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCACATATTGAA
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
* * * ** * * ** * * **** *
12497575 GCTAATC-AAACTGTTAAATA-GAAAATAATAAGAGTAAATTTGCACTGTTATTTTTTAACGACA
66 GAT-ATCTAAACTATTAAA-ACAAAAAT-ATAACTGCAAAATTATATTTTTGCCCTTTAACGGCA
* * * * * * * ** **
12497638 C-AAAAGTCCTAAACAAACGTAAACCG-TAACTTTTTCACATATATTAATTGTGAATATGAAGTT
128 CAAAAAGTCTTAAACAGAC-AAAAACGACAACTTTTTCACACATATCAACCGTGAA-ACCAAGTT
* * * * * *
12497701 CAATCATTCA-AACAAGTTTACTATCATGTATTTAAGATATCTAAATTGTTTAAACAGAA-ATAT
191 CAATCATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAATA-AT
** * * ** * * * ** * *
12497764 AATTGTAAAATTATATTTTTGCCCTTTAATGGCACAAAAAG-TCATAAATAGACATAAATGACAT
255 AACAGTAAATTTGTATTTTTATCTTTTAA--G-ACAAAAAGTTC-TAAACAAACATAAACCATAA
*
12497828 TTTT
316 CTTT
* * * *
12497832 TTCACAC--ATCAACCATGGAAATCAAGTTCAATCATTCGAATAAGTTTAATATCATGT-TTTGA
1 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTT-A
* * * * * * ** * ** **
12497894 AGCTATCCAAACTGTTAAAATAGAACAATAT-A--GTAAATTTGCATTTTTACTTTTTAATAGCA
65 AGATATCTAAACTATTAAAACA-AA-AATATAACTGCAAAATTATATTTTTGCCCTTTAACGGCA
* * *
12497956 C-AAAAGTCCTAAACA-AGCATAAATA-G-CAACTTTTTCACAGATATC--CCTTGTGAAAACTA
128 CAAAAAGTCTTAAACAGA-CA-AAA-ACGACAACTTTTTCACACATATCAACC--GTG-AAACCA
* * * * *
12498015 AGTTCAATAATTTAGAA-AAGTTTAATATCATGTATTTAAGATATCTAAACTATTAAAACAAAAT
187 AGTTCAATCATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAAT
* *
12498079 ATATATACA--AAA-TTATATTTTTACCTTTTAA
252 A-ATA-ACAGTAAATTTGTATTTTTATCTTTTAA
12498110 TGGCATAAAA
Statistics
Matches: 1261, Mismatches: 243, Indels: 117
0.78 0.15 0.07
Matches are distributed among these distances:
315 5 0.00
316 190 0.15
317 87 0.07
318 121 0.10
319 22 0.02
320 199 0.16
321 115 0.09
322 209 0.17
323 73 0.06
324 194 0.15
325 46 0.04
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (319 bp):
TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
GATATCTAAACTATTAAAACAAAAATATAACTGCAAAATTATATTTTTGCCCTTTAACGGCACAA
AAAGTCTTAAACAGACAAAAACGACAACTTTTTCACACATATCAACCGTGAAACCAAGTTCAATC
ATTCAGAACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAATAATAACAGT
AAATTTGTATTTTTATCTTTTAAGACAAAAAGTTCTAAACAAACATAAACCATAACTTT
Found at i:12497849 original size:644 final size:635
Alignment explanation
Indices: 12496228--12498074 Score: 1752
Period size: 644 Copynumber: 2.9 Consensus size: 635
12496218 CTAGAATTTA
* * * * * * ** *
12496228 TTCATACATATCAAGCATGGAAATCAAGTTCAA--ATATTCATATAAGTTTAATATCATGTATTT
1 TTCACACATATCAATCATGGAAACCAACTTCAATCAT-TTGA-ACAAGTTTAATATCACATATTG
* * * * * *
12496291 AAG-TGATATAAATTATTAAAACAAAAA-ATAACTG-CAAAATCA-AATTTTACCCTTTAAC-AG
64 AAGAT-ATCTAAACTATTGAAACAAAAATATAAC-GACAAAATTATACTGTTACCCTTTAACGA-
** * *
12496351 CATAAAAAAGTTTTAAACAGATGTAAACCGTAATTTTTTCACACATATCAATTGTGAAAATCAAG
126 CATAAAAAA-TCCTAAACAGACGTAAACCGTAACTTTTTCACACATATCAATTGTG-AAATCAAG
* * * * * *
12496416 TTCAATCATTCGAATAAGTTTAATATCATGTATTAAAAATATCCAAACT-ATTAAAAAG-AATAA
189 TTCAATCATTCGAACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTTAAACAGAAAT-A
** * * * * * * **
12496479 TAACAGT-AAATTCACTTTTTTTGCTTTTTGACGGCATAAAAAAATCTTAAACAAATATAAACCA
253 TAATTGTAAAATT-A-TATTTTTGCCTTTTAACGGCA-CAAAAAGTCTTAAACAAACATAAATGA
* * * ** *
12496543 TAACTTTTTCACACATATCAATCATGAAAACTAAGTTCAATCATTCGGACAAGTTTAATATTATG
315 TAA-TTTTTCACACA-ATCAACCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATG
* * * * * * * ** *
12496608 TATTTAAGATATCTAAATTGTTAAAATA-AAAATATAACTGCAAA-TTATATTTTTGCCCTTTAT
378 TATTGAAGCTATCCAAACTGTTAAAATAGAAAA-ATAACAGTAAATTTGTATTTTTGCTTTTTAA
* * * * *
12496671 TGGCACAAAAAGTCATAAACAGACAAAAATGATAACTTTTTCACACATATCAACCGTGTAAACTA
442 TGGCACAAAAAGTCATAAACAGACATAAA-GACAACTTTTTCACACATATTAACCTTGAAAACTA
* * *
12496736 GGTTCAATAATTCAGACAAGTTTAATATCATGTATTAAAGCTATCCAAACTATTAAAACAGAATA
506 AGTTCAATAATTCAGACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAACA
** * * *
12496801 ATAACAGTAAATTTGTATTTTTGATTTTTAACAAAAAGTTCTAAATAGACATAAACCATAACTTT
571 ATAACAACAAATTTGTATTTTTGATTTTTAACAAAAAGTCCTAAACAAACATAAACCATAACTTT
* ** *
12496866 TTCACACATATCAATCATTGAAACCAACTTCAATCATTTGAACAAGTTTAATATCATGTATTTAA
1 TTCACACATATCAATCATGGAAACCAACTTCAATCATTTGAACAAGTTTAATATCACATATTGAA
* * * * * *
12496931 GATATCTAAACTATTGAAACAAAAATATAACTACAAAATTATATTTTTGCCCTTTAATGGCATAA
66 GATATCTAAACTATTGAAACAAAAATATAACGACAAAATTATACTGTTACCCTTTAACGACATAA
* * *** * * *
12496996 AAAATCCTAGACAGACATAAACTACAACTTTTTCGCACAT-TCAGTTGTGGAAACCAAGTTCAAT
131 AAAATCCTAAACAGACGTAAACCGTAACTTTTTCACACATATCAATTGT-GAAATCAAGTTCAAT
* * * *
12497060 CATTTGAACAAGTTTAATATAATGTATTTAAGATACCTAAACTGTTAAAACA-AAATTATAATTG
195 CATTCGAACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTTAAACAGAAA-TATAATTG
* ** * * * *
12497124 TAAAATTACATTTTTATCTTTTAACAGTACAAAAAGTTTTAAACAAACATAAATGATAACTTTTC
259 TAAAATTATATTTTTGCCTTTTAACGGCACAAAAAGTCTTAAACAAACATAAATGATAATTTTTC
* * *
12497189 ACACATATCGACCATGGAGACCAAGTTCAATCATTTAGACAAGTTTAATATCATATATTGAAGCT
324 ACACA-ATCAACCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGAAGCT
* * * * *
12497254 ATCCAAACTATTAAAATAGAATAATAACAGTAAATTTGTACTTTTGCTTTTTAACGGAACAAAAA
388 ATCCAAACTGTTAAAATAGAAAAATAACAGTAAATTTGTATTTTTGCTTTTTAATGGCACAAAAA
* * * * *
12497319 GTCTTAAATAGACATAAACGACAACATTTTCACACATATTAACCTTGAAAACCAAGTTCAATCAT
453 GTCATAAACAGACATAAA-GACAACTTTTTCACACATATTAACCTTGAAAACTAAGTTCAATAAT
* * * * *
12497384 TCAGACATGTTTAATATCATGTATTGAAGGTATCCAAA-TAGTTAAAATAGAACACTAACAACAA
517 TCAGACAAGTTTAATATCATGTATTAAAGATATCCAAACTA-TTAAAACAGAACAATAACAACAA
12497448 ATTTGTATTTTT-ATCTTTTAACGGTAAAAAAAAAGTCCTAAACAAACATAAACCATAACTTT
581 ATTTGTATTTTTGAT-TTTTAAC-------AAAAAGTCCTAAACAAACATAAACCATAACTTT
* *
12497510 TTCACACATATCAATCATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCACATATTGAA
1 TTCACACATATCAATCATGGAAACCAACTTCAATCATTTGAACAAGTTTAATATCACATATTGAA
* * * ** ***
12497575 GCTAATC-AAACTGTT-AAATAGAAAATAATAA-GAGTAAATT-TGCACTGTTATTTTTTAACGA
66 GAT-ATCTAAACTATTGAAACA-AAAAT-ATAACGACAAAATTAT--ACTGTTACCCTTTAACGA
* * * * * *
12497636 CA-CAAAAGTCCTAAACAAACGTAAACCGTAACTTTTTCACATATATTAATTGTGAATATGAAGT
126 CATAAAAAATCCTAAACAGACGTAAACCGTAACTTTTTCACACATATCAATTGTGAA-ATCAAGT
* * *
12497700 TCAATCATTCAAACAAGTTTACTATCATGTATTTAAGATATCTAAATTGTTTAAACAGAAATATA
190 TCAATCATTCGAACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTTAAACAGAAATATA
* * * * * * *
12497765 ATTGTAAAATTATATTTTTGCCCTTTAATGGCACAAAAAGTCATAAATAGACATAAATGACATTT
255 ATTGTAAAATTATATTTTTGCCTTTTAACGGCACAAAAAGTCTTAAACAAACATAAATGATA-AT
* * * *
12497830 TTTTCACAC-ATCAACCATGGAAATCAAGTTCAATCA-TTCGAATAAGTTTAATATCATGTTTTG
319 TTTTCACACAATCAACCATGGAAACCAAGTTCAATCATTTAG-ACAAGTTTAATATCATGTATTG
* * * * *
12497893 AAGCTATCCAAACTGTTAAAATAGAACAAT-ATAGTAAATTTGCATTTTTACTTTTTAATAGCAC
383 AAGCTATCCAAACTGTTAAAATAGAAAAATAACAGTAAATTTGTATTTTTGCTTTTTAATGGCAC
* * * *
12497957 -AAAAGTCCTAAACA-AGCATAAATAGCAACTTTTTCACAGATA-T-CCCTTGTGAAAACTAAGT
448 AAAAAGTCATAAACAGA-CATAAAGA-CAACTTTTTCACACATATTAACC-T-TGAAAACTAAGT
* * * *
12498018 TCAATAATTTAGAAAAGTTTAATATCATGTATTTAAGATATCTAAACTATTAAAACA
509 TCAATAATTCAGACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACA
12498075 AAATATATAT
Statistics
Matches: 983, Mismatches: 188, Indels: 72
0.79 0.15 0.06
Matches are distributed among these distances:
636 87 0.09
637 175 0.18
638 140 0.14
639 57 0.06
640 32 0.03
641 4 0.00
642 90 0.09
643 37 0.04
644 215 0.22
645 134 0.14
646 12 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (635 bp):
TTCACACATATCAATCATGGAAACCAACTTCAATCATTTGAACAAGTTTAATATCACATATTGAA
GATATCTAAACTATTGAAACAAAAATATAACGACAAAATTATACTGTTACCCTTTAACGACATAA
AAAATCCTAAACAGACGTAAACCGTAACTTTTTCACACATATCAATTGTGAAATCAAGTTCAATC
ATTCGAACAAGTTTAATATCATGTATTTAAGATATCTAAACTGTTTAAACAGAAATATAATTGTA
AAATTATATTTTTGCCTTTTAACGGCACAAAAAGTCTTAAACAAACATAAATGATAATTTTTCAC
ACAATCAACCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGAAGCTATC
CAAACTGTTAAAATAGAAAAATAACAGTAAATTTGTATTTTTGCTTTTTAATGGCACAAAAAGTC
ATAAACAGACATAAAGACAACTTTTTCACACATATTAACCTTGAAAACTAAGTTCAATAATTCAG
ACAAGTTTAATATCATGTATTAAAGATATCCAAACTATTAAAACAGAACAATAACAACAAATTTG
TATTTTTGATTTTTAACAAAAAGTCCTAAACAAACATAAACCATAACTTT
Found at i:12501585 original size:21 final size:21
Alignment explanation
Indices: 12501561--12501621 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
12501551 ACTTTGAACA
*
12501561 TCAACATCACCAACTTGAGCT
1 TCAACATCACTAACTTGAGCT
* *
12501582 TCAATATCACTAACTTAAGCT
1 TCAACATCACTAACTTGAGCT
*
12501603 TCAGCATCACTAACTTGAG
1 TCAACATCACTAACTTGAG
12501622 GAATAGGAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
TCAACATCACTAACTTGAGCT
Found at i:12505716 original size:582 final size:582
Alignment explanation
Indices: 12504411--12506121 Score: 2325
Period size: 582 Copynumber: 2.9 Consensus size: 582
12504401 CTATTGGATT
* * *
12504411 GTTTTTGGATTTTGGATATGCTAGTGTCAACTATGAGGGCTTTCGGGTGTTGATGGATATGGGTG
1 GTTTTTGGAGTTTGG-TATGCTAGTGTCGACTATGA-AGCTTTCGGGTGTTGATGGATATGGGTG
* * * * * *
12504476 AATGGGTGGCTTATTAGTTGAGTGGTGGAGTTTGTTTTTAGCTTTATAGAACAATTTGGGATCTT
64 AAAGGGTGGCTTGTTGGTTAAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
** * *
12504541 GAAAAGGATTAGGATGCCGGACAATAAGCTAATGAGAATTTTAGGATCATGAGAAAAAAAGA-GT
129 GAAAAGGATTAGGATGCTAGACAATAAGCTAATGGGAGTTTTAGGATCATGAG-AAAAAAGATG-
* *
12504605 GATGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAATAAGGGTAGTATATT
192 GGTGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAA-AAGGGTAGCATATT
* * * *
12504670 ATGGGGATGAGGGATTGGTAAGGTGGCTGGCAAGCTAATACCATCCCAGTTTTGGTTTTTCATTT
256 ATGGGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGG--------TT
**
12504735 TTTTTTTTAATTTACTTATTTTTTTGAAAAAATTTT-AATTTAATAA-TT-TTTTAAATTTAAAA
313 TTTTTTTTAATTTACTTA-TTTTTTG--AATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAA
* *
12504797 AATGAAAAAAATGAATTTTGGACTTAAACCCTTCAAGTCTAAACATAGTACTTCTAAGCGTTATA
375 AATG-----AA-GAA-TTTGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATA
* *
12504862 GCCCAAACAACTTAAACC-ATTTGAATTTGACTCTAATCAAACCCAACAAATACAAATGAAACCT
433 GCCCAAACAACTTAAACCTATTTGAATTGGACTCTAATCAAACCCAACAAATACAAATGAAGCCT
* * *
12504926 GAACAAATAATATCAACTTAATCGAGACATTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAA
498 GAACAAATAATATCAACTTAATCAAAACACTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAA
12504991 TTATTCCACATCATTGTGAA
563 TTATTCCACATCATTGTGAA
*
12505011 GTTTTTGGAGTTTAGGTATGCTAGTGTCGACTGTGAAGGCTTTCGGGTGTTGATGGATATGGGTG
1 GTTTTTGGAGTTT-GGTATGCTAGTGTCGACTATGAA-GCTTTCGGGTGTTGATGGATATGGGTG
**
12505076 AGGGGGTGGCTTGTTGGTTGAA-TGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCT
64 AAAGGGTGGCTTGTTGGTT-AAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCT
*
12505140 T-AAAAGGGATTAGGATGCTAGACAATAAGCTAATGGGAGTTTTAAGATCATGAGAAAAAAGATG
128 TGAAAA-GGATTAGGATGCTAGACAATAAGCTAATGGGAGTTTTAGGATCATGAGAAAAAAGATG
**
12505204 GGTGGTTGGTATATTATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAACGGGTAGCATATT
192 GGTGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAA-GGGTAGCATATT
* * *
12505269 ATAGGGATGAGGGATTGGCAAGGTGGCTGGTAGGTTGATACCATCCCAATTTT-GTTTTTTTTTT
256 ATGGGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTTTTTT
12505333 AATTTACTTATTTTTTGAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATG-A-AATT
321 AATTTACTTATTTTTTGAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATGAAGAATT
*
12505396 TGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCATTATAGCCCAAACAACTTAAACC
386 TGAACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAACAACTTAAACC
* *
12505461 TATTTGAATTGGACTCTAATCAAACCCAATAGATACAAATGAAGCCTGAACAAATAATATCAA-T
451 TATTTGAATTGGACTCTAATCAAACCCAACAAATACAAATGAAGCCTGAACAAATAATATCAACT
* * *
12505525 CTAATCAAAACACTCAAATGGTTTCGAGATAAGCATAAGAAATCAAAATTCTTTCACATCATTGT
516 -TAATCAAAACACTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATTATTCCACATCATTGT
12505590 GAA
580 GAA
* * *
12505593 GTTTTTGGAGTTTGGTTATGCTAGGGTCGATTATGGAAGCTTTCGGGTGTTGATGGATATGGGTA
1 GTTTTTGGAGTTTGG-TATGCTAGTGTCGACTAT-GAAGCTTTCGGGTGTTGATGGATATGGGTG
12505658 AAAGGGTGGCTTGTTGGTTAAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
64 AAAGGGTGGCTTGTTGGTTAAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTT
* * * * *
12505723 GAAAAGGATTAAGATGTTAGACAATAAGATAATGGGAGTTTTAGGATCATAAGAAAAGAG-T-GG
129 GAAAAGGATTAGGATGCTAGACAATAAGCTAATGGGAGTTTTAGGATCATGAGAAAAAAGATGGG
* * * *
12505786 TTGTTGGTATAGGATTAAAATAACAAAGGTGAGTTATAAGAAACAAAAAAAAGGGTAGCATATTA
194 TGGTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAAC--AAAAAAGGGTAGCATATTA
* * *** *
12505851 TGGGGATGAAGGATTGGCAAGGTGGCTGGCAGGCTGATACCGTTTTAATTTTGGTTTTATTTTTA
257 TGGGGATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTTTTTTA
12505916 ATTTACTT-TTTTTTGAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATGAAAAAAAA
322 ATTTACTTATTTTTTGAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATG-------A
* * * * * *
12505980 ATGAATTTTAGACTTAAACCCTTTAAGTCTAAATGTAGTACTTCAAAGTGTTATAGCCCAAATAA
380 A-GAATTTGA-ACTTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAACAA
* *
12506045 CTTAAACCTATTTGAATTGGACTCTAATCAAACCCGACAAATACAAATGAAGCCTAAACAAATAA
443 CTTAAACCTATTTGAATTGGACTCTAATCAAACCCAACAAATACAAATGAAGCCTGAACAAATAA
12506110 TATCAACTTAAT
508 TATCAACTTAAT
12506122 TGAGACATTC
Statistics
Matches: 1001, Mismatches: 80, Indels: 68
0.87 0.07 0.06
Matches are distributed among these distances:
580 40 0.04
581 175 0.17
582 309 0.31
583 7 0.01
584 1 0.00
587 6 0.01
588 10 0.01
589 10 0.01
590 38 0.04
591 6 0.01
592 119 0.12
593 1 0.00
598 3 0.00
599 116 0.12
600 157 0.16
601 3 0.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (582 bp):
GTTTTTGGAGTTTGGTATGCTAGTGTCGACTATGAAGCTTTCGGGTGTTGATGGATATGGGTGAA
AGGGTGGCTTGTTGGTTAAGTGGTGGAGTTTGTTCTTAGCTTTATAGAGCAATTTGGGATCTTGA
AAAGGATTAGGATGCTAGACAATAAGCTAATGGGAGTTTTAGGATCATGAGAAAAAAGATGGGTG
GTTGGTATAGGATTAAAAGAACAAAGGTGAGTTGTAGGAAACAAAAAAGGGTAGCATATTATGGG
GATGAGGGATTGGCAAGGTGGCTGGCAGGCTGATACCATCCCAATTTTGGTTTTTTTTTTAATTT
ACTTATTTTTTGAATTTTTTGAATTTAATAATTTCTTTTAAATTTAAAAAATGAAGAATTTGAAC
TTAAACCCTTCAAGTCTAAACGTAGTACTTCTAAGCGTTATAGCCCAAACAACTTAAACCTATTT
GAATTGGACTCTAATCAAACCCAACAAATACAAATGAAGCCTGAACAAATAATATCAACTTAATC
AAAACACTCAAATAGTTTCGAGATAAGCATAAGAAATCAAAATTATTCCACATCATTGTGAA
Found at i:12513083 original size:30 final size:31
Alignment explanation
Indices: 12513047--12513106 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
12513037 TATTTACGTA
* *
12513047 TATTAAAATGAGTTGAGAAT-AAAATTATTT
1 TATTAAAAAGAATTGAGAATAAAAATTATTT
12513077 TATTAAAAAGAATTGAGAATAAAAATTATT
1 TATTAAAAAGAATTGAGAATAAAAATTATT
12513107 CACGCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (31 bp):
TATTAAAAAGAATTGAGAATAAAAATTATTT
Found at i:12515771 original size:2 final size:2
Alignment explanation
Indices: 12515764--12515789 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12515754 GATATTACAC
12515764 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
12515790 AATCCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12520091 original size:17 final size:16
Alignment explanation
Indices: 12520071--12520102 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12520061 ATTTTTATGA
12520071 ACATTTTATATAATATC
1 ACATTTTATA-AATATC
12520088 ACATTTTATAAATAT
1 ACATTTTATAAATAT
12520103 TTTATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
ACATTTTATAAATATC
Found at i:12525494 original size:105 final size:103
Alignment explanation
Indices: 12525303--12525516 Score: 410
Period size: 105 Copynumber: 2.1 Consensus size: 103
12525293 AAACTAGTAA
12525303 GGTACTCCAATCCTTACCCATTATAAGTTACAAGTGGAAAGGGTAATTCAAGTGAAAGCATTTTG
1 GGTACTCCAATCCTTACCCATTATAAGTTACAAGTGGAAAGGGTAATTCAAGTGAAAGCATTTTG
12525368 TTAACCTGGGTGGAGACATGAAATCTTACAAAAGCATT
66 TTAACCTGGGTGGAGACATGAAATCTTACAAAAGCATT
12525406 GGTACTCCAATCCTTACCCATTATAAGTTACAAGTGGAAAGGGTTTAATTCAAGTGAAAGCATTT
1 GGTACTCCAATCCTTACCCATTATAAGTTACAAGTGGAAAGGG--TAATTCAAGTGAAAGCATTT
12525471 TGTTAACCTGGGTGGAGACATGAAATCTTACAAAAGCATT
64 TGTTAACCTGGGTGGAGACATGAAATCTTACAAAAGCATT
12525511 GGTACT
1 GGTACT
12525517 TTACCTCTTA
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 43 0.39
105 66 0.61
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (103 bp):
GGTACTCCAATCCTTACCCATTATAAGTTACAAGTGGAAAGGGTAATTCAAGTGAAAGCATTTTG
TTAACCTGGGTGGAGACATGAAATCTTACAAAAGCATT
Found at i:12529756 original size:26 final size:26
Alignment explanation
Indices: 12529727--12529786 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
12529717 TAAAAAATTA
12529727 GTTTTAAATGGGACCCATATTTTTAG
1 GTTTTAAATGGGACCCATATTTTTAG
** * *
12529753 GTTTTTTATGGGACCCATTTTTTTTG
1 GTTTTAAATGGGACCCATATTTTTAG
*
12529779 TTTTTAAA
1 GTTTTAAA
12529787 ATTTTTTTGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.52
Consensus pattern (26 bp):
GTTTTAAATGGGACCCATATTTTTAG
Found at i:12530714 original size:21 final size:20
Alignment explanation
Indices: 12530686--12530724 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
12530676 TTGGCTCTAA
*
12530686 AAATTAAAATAAAAAATATC
1 AAATTAAAAGAAAAAATATC
12530706 AAATATAAAAGAAAAAATA
1 AAAT-TAAAAGAAAAAATA
12530725 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
AAATTAAAAGAAAAAATATC
Found at i:12531216 original size:20 final size:22
Alignment explanation
Indices: 12531168--12531216 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
12531158 TTGCCTTAAC
12531168 TATATTTATTAAATTATATTTT
1 TATATTTATTAAATTATATTTT
*
12531190 TA-A-TTATT-CATT-TATTTT
1 TATATTTATTAAATTATATTTT
12531208 TATATTTAT
1 TATATTTAT
12531217 ATATGTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 9 0.38
21 1 0.04
22 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTATTAAATTATATTTT
Found at i:12531585 original size:13 final size:13
Alignment explanation
Indices: 12531559--12531601 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
12531549 CCTAATGAGC
*
12531559 TTTC-TTTTCCTT
1 TTTCTTTTTCTTT
12531571 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
*
12531584 TTTTTTTTTCATTT
1 TTTCTTTTTC-TTT
12531598 TTTC
1 TTTC
12531602 CCTTTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 4 0.15
13 16 0.62
14 6 0.23
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:12534249 original size:3 final size:3
Alignment explanation
Indices: 12534241--12534265 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12534231 ATTTATTTAT
12534241 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
12534266 CAAAACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12534691 original size:21 final size:22
Alignment explanation
Indices: 12534643--12534693 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
12534633 AGACATATAT
* *
12534643 TATTTTAATATAATAAATTTTT
1 TATTTTAATATAATAAAATTTA
*
12534665 TATTTTAATTTAA-AAAATTTA
1 TATTTTAATATAATAAAATTTA
12534686 TATTTTAA
1 TATTTTAA
12534694 ACTCAATAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTAATATAATAAAATTTA
Found at i:12534915 original size:19 final size:19
Alignment explanation
Indices: 12534873--12534915 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
12534863 ATTCCTGTTT
** *
12534873 ATTTTTTTTCCTTTCATCA
1 ATTTTTTTTAATTTCATAA
*
12534892 TTTTTTTTTAATTTCATAA
1 ATTTTTTTTAATTTCATAA
12534911 ATTTT
1 ATTTT
12534916 GCAAAAAATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTTTAATTTCATAA
Found at i:12536465 original size:22 final size:22
Alignment explanation
Indices: 12536440--12536486 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
12536430 TTTAATTTTT
12536440 TAATTTTT-ATATTATTTTAAA-A
1 TAATTTTTAATA-TA-TTTAAATA
12536462 TAATTTTTAATATATTTAAATA
1 TAATTTTTAATATATTTAAATA
12536484 TAA
1 TAA
12536487 AATAATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 14 0.61
23 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTTTTAATATATTTAAATA
Found at i:12556870 original size:18 final size:18
Alignment explanation
Indices: 12556844--12556968 Score: 114
Period size: 18 Copynumber: 6.9 Consensus size: 18
12556834 CTTTGTTCTT
12556844 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
12556862 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
12556877 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
12556895 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
12556913 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
12556931 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
12556952 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
12556969 TAATAACCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 54 0.64
19 1 0.01
21 17 0.20
ACGTcount: A:0.27, C:0.05, G:0.36, T:0.32
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:12556946 original size:21 final size:21
Alignment explanation
Indices: 12556922--12556964 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12556912 TGATACATTT
*
12556922 GAGGTGGAGGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
12556943 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAGGATACATTTGAG
12556964 G
1 G
12556965 TGGATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.44, T:0.26
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:12557323 original size:6 final size:6
Alignment explanation
Indices: 12557312--12557348 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
12557302 CCAAAATTCG
* *
12557312 CACCAT CACCAT CACCAT CTCCAT CACCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
12557349 TGGACTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.22
Consensus pattern (6 bp):
CACCAT
Found at i:12557335 original size:18 final size:18
Alignment explanation
Indices: 12557314--12557349 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12557304 AAAATTCGCA
12557314 CCATCACCATCACCATCT
1 CCATCACCATCACCATCT
*
12557332 CCATCACCATCATCATCT
1 CCATCACCATCACCATCT
12557350 GGACTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (18 bp):
CCATCACCATCACCATCT
Found at i:12560794 original size:26 final size:26
Alignment explanation
Indices: 12560744--12560792 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
12560734 TTTCAAAAAT
*
12560744 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
12560770 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
12560793 TATTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:12561039 original size:20 final size:20
Alignment explanation
Indices: 12561017--12561053 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12561007 AACAACAAAA
*
12561017 AAAATTA-AAATTCATATGC
1 AAAATTATAAATTAATATGC
12561036 AAAATTATAAATTAATAT
1 AAAATTATAAATTAATAT
12561054 ATAACACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTATAAATTAATATGC
Found at i:12566217 original size:32 final size:32
Alignment explanation
Indices: 12566167--12566227 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
12566157 TTTTATTTTT
**
12566167 AATTTTAGGGATACAAATACTTAATTTTAAAA
1 AATTTTAGAAATACAAATACTTAATTTTAAAA
*
12566199 AATTTTAGAAATATAAATACTTAATTTTA
1 AATTTTAGAAATACAAATACTTAATTTTA
12566228 GAGATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (32 bp):
AATTTTAGAAATACAAATACTTAATTTTAAAA
Found at i:12571375 original size:34 final size:34
Alignment explanation
Indices: 12571310--12571375 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
12571300 AATTTATTAT
**
12571310 TAAAAAATTAAATTAATAAATAAATTTTAACTCA
1 TAAAAAATTAAATTAATAAATAAATCATAACTCA
12571344 TAAAAAA-TAAATTAAAATAAA-AAATCATAACT
1 TAAAAAATTAAATT--AATAAATAAATCATAACT
12571376 AAAACACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 16 0.57
35 6 0.21
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (34 bp):
TAAAAAATTAAATTAATAAATAAATCATAACTCA
Found at i:12571449 original size:16 final size:14
Alignment explanation
Indices: 12571414--12571453 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
12571404 GTATTACATT
*
12571414 AATAATAATATATA
1 AATAAAAATATATA
12571428 AATAAAAATATATA
1 AATAAAAATATATA
12571442 ATATTAAAAATA
1 A-A-TAAAAATA
12571454 ATTATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 1 0.04
16 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:12573431 original size:65 final size:65
Alignment explanation
Indices: 12573344--12573487 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 65
12573334 ATCGAGGACA
* * * *
12573344 AAAAAGATCTGGATTGAGTCAAGATCGAAAATGATTGATCGAGAATGAACTGC-GAGTCAGAAAA
1 AAAATGATCTAGATTGAATCAAGATCGAAAATGAGTGATCGAGAATGAA-T-CAGAGTCA-AAAA
12573408 -AT
63 GAT
* * *
12573410 -AAATGATCTAGATTGAATCAAGATTGAAAATGAGTGATTGAGATTGAATCATGAGTCAAAAAGA
1 AAAATGATCTAGATTGAATCAAGATCGAAAATGAGTGATCGAGAATGAATCA-GAGTCAAAAAGA
12573474 T
65 T
12573475 AAAATGATCTAGA
1 AAAATGATCTAGA
12573488 CCGAGCAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
63 1 0.01
64 5 0.07
65 49 0.73
66 12 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.24
Consensus pattern (65 bp):
AAAATGATCTAGATTGAATCAAGATCGAAAATGAGTGATCGAGAATGAATCAGAGTCAAAAAGAT
Found at i:12577799 original size:42 final size:42
Alignment explanation
Indices: 12577753--12577861 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
12577743 TTAATTTATA
* *
12577753 GTTTTCTGTTATTGTTTTTAATTGCTTAAATTTACAGTTAAG
1 GTTTTCTGTTATTGTTCTTAATTGCTCAAATTTACAGTTAAG
* * * * *
12577795 GTTTTTTGCTATTGTTCTTAATTGCTCAAATTTATATTTGAG
1 GTTTTCTGTTATTGTTCTTAATTGCTCAAATTTACAGTTAAG
**
12577837 GTTTTCTGTTGCT-TTCTTAATTGCT
1 GTTTTCTGTTATTGTTCTTAATTGCT
12577862 TGAAATAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 12 0.21
42 44 0.79
ACGTcount: A:0.19, C:0.10, G:0.15, T:0.56
Consensus pattern (42 bp):
GTTTTCTGTTATTGTTCTTAATTGCTCAAATTTACAGTTAAG
Found at i:12577910 original size:37 final size:38
Alignment explanation
Indices: 12577770--12577927 Score: 131
Period size: 37 Copynumber: 4.0 Consensus size: 38
12577760 GTTATTGTTT
* * * *
12577770 TTAATTGCTTAAATTTACAGTTAAGGTTTTTTGCTATTGTTC
1 TTAATTGCTCAAAATTATAGTT-AGGGTTTTTGCTA---TTC
* * *
12577812 TTAATTGCTCAAATTTATATTTGAGGTTTTCTGTTGCT-TTC
1 TTAATTGCTCAAAATTATAGTT-AGG-GTT-T-TTGCTATTC
** *
12577853 TTAATTGCTTGAAATAATAGTTAGGGTTTTT-CTATTC
1 TTAATTGCTCAAAATTATAGTTAGGGTTTTTGCTATTC
12577890 TTAATTGCTCAAAATTATAGTTAGGGCTTTTTGCTATT
1 TTAATTGCTCAAAATTATAGTTAGGG-TTTTTGCTATT
12577928 TAGGTATATT
Statistics
Matches: 97, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.02
37 28 0.29
38 6 0.06
39 7 0.07
40 3 0.03
41 20 0.21
42 22 0.23
43 3 0.03
44 1 0.01
45 5 0.05
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (38 bp):
TTAATTGCTCAAAATTATAGTTAGGGTTTTTGCTATTC
Found at i:12578642 original size:32 final size:32
Alignment explanation
Indices: 12578605--12578682 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
12578595 TATAACATTG
*
12578605 TTATAACAAAGTAAAAGCTTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAATAGAAATT
12578637 TTATAACAAAGTAAAAGATTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAATAGAAATT
** *
12578669 AGATAACAATGTAA
1 TTATAACAAAGTAA
12578683 GGGACATGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.29
Consensus pattern (32 bp):
TTATAACAAAGTAAAAGATTATAATAGAAATT
Found at i:12579467 original size:33 final size:33
Alignment explanation
Indices: 12579385--12579473 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
12579375 TAGCTGGGGT
* *
12579385 AGTAAGGGTAAGAATTAAAGATGATGTTAAGGC
1 AGTAAGGGTAGGAAATAAAGATGATGTTAAGGC
* * * * * *
12579418 AGCAGGGGCAGAAAATAAATATGATGTTGAGGC
1 AGTAAGGGTAGGAAATAAAGATGATGTTAAGGC
*
12579451 AGTAAAGGTAGGAAATAAAGATG
1 AGTAAGGGTAGGAAATAAAGATG
12579474 TGGTTGTGCC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.20
Consensus pattern (33 bp):
AGTAAGGGTAGGAAATAAAGATGATGTTAAGGC
Found at i:12584205 original size:11 final size:11
Alignment explanation
Indices: 12584181--12584231 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
12584171 ATCAAGAAAC
*
12584181 AAATACCAGTAA
1 AAATACCA-AAA
12584193 AAA-ACCAAAA
1 AAATACCAAAA
12584203 AAATACCAACAA
1 AAATACCAA-AA
*
12584215 AAATATCAAAA
1 AAATACCAAAA
12584226 AAATAC
1 AAATAC
12584232 TAGTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 5 0.15
11 16 0.47
12 13 0.38
ACGTcount: A:0.69, C:0.18, G:0.02, T:0.12
Consensus pattern (11 bp):
AAATACCAAAA
Found at i:12584209 original size:22 final size:23
Alignment explanation
Indices: 12584181--12584238 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
12584171 ATCAAGAAAC
12584181 AAATACCAGTAAAAA-ACCAAAA
1 AAATACCAGTAAAAATACCAAAA
** *
12584203 AAATACCAACAAAAATATCAAAA
1 AAATACCAGTAAAAATACCAAAA
*
12584226 AAATACTAGTAAA
1 AAATACCAGTAAA
12584239 TTTACTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.67, C:0.16, G:0.03, T:0.14
Consensus pattern (23 bp):
AAATACCAGTAAAAATACCAAAA
Found at i:12584224 original size:23 final size:23
Alignment explanation
Indices: 12584166--12584231 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
12584156 TCACACCAAG
**
12584166 AAAATATCAAGAAACAAATACCAGTA
1 AAAATATC-A-AAA-AAATACCAACA
*
12584192 AAAA-ACCAAAAAAATACCAACA
1 AAAATATCAAAAAAATACCAACA
12584214 AAAATATCAAAAAAATAC
1 AAAATATCAAAAAAATAC
12584232 TAGTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 13 0.37
23 15 0.43
24 1 0.03
25 2 0.06
26 4 0.11
ACGTcount: A:0.68, C:0.17, G:0.03, T:0.12
Consensus pattern (23 bp):
AAAATATCAAAAAAATACCAACA
Found at i:12592846 original size:16 final size:16
Alignment explanation
Indices: 12592825--12592855 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12592815 AATTTATAAA
*
12592825 AAAAATTAAATTCATG
1 AAAAATGAAATTCATG
12592841 AAAAATGAAATTCAT
1 AAAAATGAAATTCAT
12592856 AAAGGGAAAA
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:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAAATGAAATTCATG
Found at i:12592913 original size:3 final size:3
Alignment explanation
Indices: 12592907--12592961 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
12592897 AGTTGAAGAT
12592907 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12592955 ATA ATA A
1 ATA ATA A
12592962 AAGAAATCTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12592990 original size:23 final size:21
Alignment explanation
Indices: 12592957--12592998 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
12592947 TAATAATAAT
*
12592957 AATAAAAGAAATCTAAAAATA
1 AATAAAAGAAAACTAAAAATA
12592978 AATACAAATGAAAACTAAAAA
1 AATA-AAA-GAAAACTAAAAA
12592999 AAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (21 bp):
AATAAAAGAAAACTAAAAATA
Found at i:12593837 original size:3 final size:3
Alignment explanation
Indices: 12593829--12593859 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12593819 AAATAAACAA
12593829 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
12593860 TAGATAGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:12597394 original size:7 final size:7
Alignment explanation
Indices: 12597370--12597443 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
12597360 AAAAGTCGAT
12597370 AAAATAA
1 AAAATAA
**
12597377 AAAATTG
1 AAAATAA
12597384 AAAATAAA
1 AAAAT-AA
*
12597392 AAAACAA
1 AAAATAA
*
12597399 AAAATAT
1 AAAATAA
*
12597406 AAAGTAA
1 AAAATAA
12597413 ATAAA-AA
1 A-AAATAA
12597420 TAAAATCAA
1 -AAAAT-AA
12597429 AAAAT-A
1 AAAATAA
12597435 AAAATAA
1 AAAATAA
12597442 AA
1 AA
12597444 TGAAAAAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
6 6 0.12
7 31 0.61
8 12 0.24
9 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:12597413 original size:22 final size:23
Alignment explanation
Indices: 12597368--12597418 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
12597358 ATAAAAGTCG
*
12597368 ATAAAATAAAAAATTGAAAATAA
1 ATAAAACAAAAAATTGAAAATAA
*
12597391 A-AAAACAAAAAATAT-AAAGTAA
1 ATAAAACAAAAAAT-TGAAAATAA
12597413 ATAAAA
1 ATAAAA
12597419 ATAAAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (23 bp):
ATAAAACAAAAAATTGAAAATAA
Found at i:12597433 original size:19 final size:19
Alignment explanation
Indices: 12597411--12597451 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
12597401 AATATAAAGT
12597411 AAATAAAAATAAAATCAAA
1 AAATAAAAATAAAATCAAA
*
12597430 AAATAAAAATAAAATGAAA
1 AAATAAAAATAAAATCAAA
12597449 AAA
1 AAA
12597452 AGGCTTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAATCAAA
Found at i:12598247 original size:3 final size:3
Alignment explanation
Indices: 12598225--12598369 Score: 66
Period size: 3 Copynumber: 51.3 Consensus size: 3
12598215 AAGAATGAAA
* *
12598225 AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT -AT AAC CAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12598268 AA- AAT -AT AA- CAT AAAT AAT ACT -AT ACT AGT -AT ACT ATAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* *
12598310 AAT AAT AAT AAT AAT -AT AAT -AT GACAC AAT -AT AAT AAT AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT AAT
12598353 AAT AA- AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
12598370 TAGTAATGTA
Statistics
Matches: 106, Mismatches: 17, Indels: 38
0.66 0.11 0.24
Matches are distributed among these distances:
2 24 0.23
3 73 0.69
4 8 0.08
5 1 0.01
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12598263 original size:17 final size:16
Alignment explanation
Indices: 12598243--12598330 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 16
12598233 AAAATAAATA
12598243 ATAATAATAATATAACC
1 ATAATAATAATATAA-C
12598260 ATAATAATAAAATATAAC
1 ATAATAAT--AATATAAC
*
12598278 ATAAATAATACTAT-AC
1 AT-AATAATAATATAAC
* *
12598294 -TAGT-ATACTATATA-
1 ATAATAATAATATA-AC
*
12598308 ATAATAATAATAATAAT
1 ATAATAATAAT-ATAAC
12598325 ATAATA
1 ATAATA
12598331 TGACACAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
13 7 0.12
14 2 0.03
15 5 0.09
16 7 0.12
17 21 0.36
18 3 0.05
19 13 0.22
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (16 bp):
ATAATAATAATATAAC
Found at i:12598273 original size:35 final size:35
Alignment explanation
Indices: 12598226--12598328 Score: 90
Period size: 35 Copynumber: 2.9 Consensus size: 35
12598216 AGAATGAAAA
12598226 ATAA-AATAAAATAAATAATAATAATAATATAACC
1 ATAATAATAAAATAAATAATAATAATAATATAACC
* * *
12598260 ATAATAATAAAATATAA-CATAAATAATACTAT-ACT
1 ATAATAATAAAATA-AATAAT-AATAATAATATAACC
*
12598295 AGT-ATACTATATAAT-AATAATAATAATAATATAA
1 A-TAATA--ATAAAATAAATAATAATAATAATATAA
12598329 TATGACACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
34 4 0.07
35 29 0.53
36 16 0.29
37 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (35 bp):
ATAATAATAAAATAAATAATAATAATAATATAACC
Found at i:12598309 original size:42 final size:40
Alignment explanation
Indices: 12598225--12598330 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 40
12598215 AAGAATGAAA
12598225 AATAAAATAAAATAAATAATAATAATAATATAACCATAAT
1 AATAAAATAAAATAAATAATAATAATAATATAACCATAAT
* * *
12598265 AATAAAATATAACATAAATAATACT-ATACTAGTATACTAT-AT
1 AATAAAATA-AA-ATAAATAATAATAATAATA-TA-ACCATAAT
12598307 AATAATAATAATAATAATATAATA
1 AATAA-AATAA-AATAA-ATAATA
12598331 TGACACAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
40 9 0.16
41 7 0.12
42 25 0.45
43 15 0.27
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (40 bp):
AATAAAATAAAATAAATAATAATAATAATATAACCATAAT
Found at i:12598330 original size:5 final size:5
Alignment explanation
Indices: 12598225--12598366 Score: 53
Period size: 5 Copynumber: 27.8 Consensus size: 5
12598215 AAGAATGAAA
* * * *
12598225 AATAA AATAA AATA- AATAAT AATAAT AATAT AACCAT -A-AT AATAA
1 AATAT AATAT AATAT AAT-AT AAT-AT AATAT AA-TAT AATAT AATAT
* * *
12598270 AATAT AACAT AA-AT AATACT -ATACT AGTAT ACTAT -ATAAT AATAAT
1 AATAT AATAT AATAT AATA-T AATA-T AATAT AATAT AAT-AT AAT-AT
* * * * *
12598316 AATAAT AATAT AATAT GACAC AATAT AATAAT AATGT AATAA AATAT AATA
1 AAT-AT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT AATA
12598367 ATATAGTAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.02
4 9 0.08
5 65 0.60
6 33 0.30
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (5 bp):
AATAT
Found at i:12598366 original size:26 final size:26
Alignment explanation
Indices: 12598308--12598382 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
12598298 ATACTATATA
* **
12598308 ATAATAATAATAATAATATAATATGAC
1 ATAAT-ATAATAATAATGTAATAAAAC
* *
12598335 ACAATATAATAATAATGTAATAAAAT
1 ATAATATAATAATAATGTAATAAAAC
*
12598361 ATAATA-ATATAGTAATGTAATA
1 ATAATATA-ATAATAATGTAATA
12598383 CTAACAATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.03
26 35 0.88
27 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (26 bp):
ATAATATAATAATAATGTAATAAAAC
Found at i:12598741 original size:55 final size:55
Alignment explanation
Indices: 12598673--12599027 Score: 220
Period size: 55 Copynumber: 6.5 Consensus size: 55
12598663 TCAAAAAAAT
* ** ** *
12598673 AAAATGAACTAGACTGATTCAAGATCGAATGATTGAGATGAAACCATAAGTCTGA
1 AAAATGATCTAGACTGAGCCAAGATCGAATGACCGAGATGAAACCACAAGTCTGA
* * ** * * **
12598728 AAAATGATTTAGACTAAGCGGAGATC-AGATGACCGGGATGGAACCTTAAGTCTGA
1 AAAATGATCTAGACTGAGCCAAGATCGA-ATGACCGAGATGAAACCACAAGTCTGA
** * * * * *
12598783 AAGCTGATCTAGACTGAGCTAAGATCGGATGATCAAGAT-AGAACCACAAGTTTGA
1 AAAATGATCTAGACTGAGCCAAGATCGAATGACCGAGATGA-AACCACAAGTCTGA
* * * * *
12598838 AAAATGATCTAGACTGAGCCAAGATTG-ATGATCGGGATGAAATCGCAAGTCTGA
1 AAAATGATCTAGACTGAGCCAAGATCGAATGACCGAGATGAAACCACAAGTCTGA
* * * * * *
12598892 AAAATAATCTATACTGAGCTGAA-ATC-AGATGACTGGGATGAAACCATAAGTCT-A
1 AAAATGATCTAGACTGAGC-CAAGATCGA-ATGACCGAGATGAAACCACAAGTCTGA
* * * * * * * * *
12598946 GAAAATAATTTGGACTAAGCCAAGATCAAATGA-CTAGGATAAAACCACAAGTTTAA
1 -AAAATGATCTAGACTGAGCCAAGATCGAATGACCGA-GATGAAACCACAAGTCTGA
* *
12599002 AAAATGATCTAGACTAAGCTAAGATC
1 AAAATGATCTAGACTGAGCCAAGATC
12599028 AAGTGATTGG
Statistics
Matches: 229, Mismatches: 59, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
54 43 0.19
55 184 0.80
56 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (55 bp):
AAAATGATCTAGACTGAGCCAAGATCGAATGACCGAGATGAAACCACAAGTCTGA
Found at i:12598910 original size:109 final size:110
Alignment explanation
Indices: 12598714--12599027 Score: 269
Period size: 109 Copynumber: 2.9 Consensus size: 110
12598704 ATTGAGATGA
* * ** * **
12598714 AACCATAAGTCTGAAAAATGATTTAGACTAAGCGGAGATCAGATGACCGGGATGGAACCTTAAGT
1 AACCACAAGTCTGAAAAATGATCTAGACTAAGCCAAGATCAGATGACCGGGATGAAACCGCAAGT
** *
12598779 CTGAAAGCTGATCTAGACTGAGCTAAGATCGGATGATCAAGATAG
66 CTGAAAAATAATCTAGACTGAGCTAAGATCGGATGATCAAGATAG
* * * * *
12598824 AACCACAAGTTTGAAAAATGATCTAGACTGAGCCAAGAT-TGATGATCGGGATGAAATCGCAAGT
1 AACCACAAGTCTGAAAAATGATCTAGACTAAGCCAAGATCAGATGACCGGGATGAAACCGCAAGT
* * **
12598888 CTGAAAAATAATCTATACTGAGCTGAA-ATCAGATGA-CTGGGAT-G
66 CTGAAAAATAATCTAGACTGAGCT-AAGATCGGATGATC-AAGATAG
* * * * * ** * *
12598932 AAACCATAAGTCT-AGAAAATAATTTGGACTAAGCCAAGATCAAATGACTAGGATAAAACCACAA
1 -AACCACAAGTCTGA-AAAATGATCTAGACTAAGCCAAGATCAGATGACCGGGATGAAACCGCAA
* * * *
12598996 GTTTAAAAAATGATCTAGACTAAGCTAAGATC
64 GTCTGAAAAATAATCTAGACTGAGCTAAGATC
12599028 AAGTGATTGG
Statistics
Matches: 160, Mismatches: 38, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
108 3 0.02
109 83 0.52
110 74 0.46
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (110 bp):
AACCACAAGTCTGAAAAATGATCTAGACTAAGCCAAGATCAGATGACCGGGATGAAACCGCAAGT
CTGAAAAATAATCTAGACTGAGCTAAGATCGGATGATCAAGATAG
Found at i:12598994 original size:164 final size:165
Alignment explanation
Indices: 12598673--12599027 Score: 392
Period size: 164 Copynumber: 2.2 Consensus size: 165
12598663 TCAAAAAAAT
* ** * * * *
12598673 AAAATGAACTAGACTGATTCAAGATCGAATGATTGAGATGAAACCATAAGTCTGAAAAATGATTT
1 AAAATGATCTAGACTGAGCCAAGATCGAATGATCGAGATGAAACCACAAGTCTGAAAAATAATCT
* * * * * * *
12598738 AGACTAAGCGGAGATCAGATGACCGGGATGGAACCTTAAGTCTGAAAGCTGATCTAGACTGAGCT
66 AGACTAAGCGGAAATCAGATGACCGGGATGAAACCATAAGTCTGAAAGATAATCTAGACTAAGCC
** * *
12598803 AAGATCGGATGATCAAGATAGAACCACAAGTTTGA
131 AAGATCAAATGATCAAGATAAAACCACAAGTTTAA
* * * *
12598838 AAAATGATCTAGACTGAGCCAAGATTG-ATGATCGGGATGAAATCGCAAGTCTGAAAAATAATCT
1 AAAATGATCTAGACTGAGCCAAGATCGAATGATCGAGATGAAACCACAAGTCTGAAAAATAATCT
* * * * * *
12598902 ATACTGAGCTGAAATCAGATGACTGGGATGAAACCATAAGTCTAGAAA-ATAATTTGGACTAAGC
66 AGACTAAGCGGAAATCAGATGACCGGGATGAAACCATAAGTCT-GAAAGATAATCTAGACTAAGC
*
12598966 CAAGATCAAATGA-CTAGGATAAAACCACAAGTTTAA
130 CAAGATCAAATGATC-AAGATAAAACCACAAGTTTAA
* *
12599002 AAAATGATCTAGACTAAGCTAAGATC
1 AAAATGATCTAGACTGAGCCAAGATC
12599028 AAGTGATTGG
Statistics
Matches: 156, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
163 1 0.01
164 128 0.82
165 27 0.17
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (165 bp):
AAAATGATCTAGACTGAGCCAAGATCGAATGATCGAGATGAAACCACAAGTCTGAAAAATAATCT
AGACTAAGCGGAAATCAGATGACCGGGATGAAACCATAAGTCTGAAAGATAATCTAGACTAAGCC
AAGATCAAATGATCAAGATAAAACCACAAGTTTAA
Found at i:12600470 original size:17 final size:17
Alignment explanation
Indices: 12600444--12600488 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
12600434 ATCAATTTTC
*
12600444 TTTTCATTTTTTTTATT
1 TTTTCCTTTTTTTTATT
*
12600461 TTTTCCTTTTTTTTCTT
1 TTTTCCTTTTTTTTATT
12600478 TCTTT-CTTTTT
1 T-TTTCCTTTTT
12600489 CAAGAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCCTTTTTTTTATT
Found at i:12605758 original size:18 final size:19
Alignment explanation
Indices: 12605727--12605769 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
12605717 AACTAAACTC
12605727 TTATTTATATTTATT-TAT
1 TTATTTATATTTATTATAT
12605745 TTATTTAT-TATTATTATAT
1 TTATTTATAT-TTATTATAT
12605764 TATATT
1 T-TATT
12605770 ATCAAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 4 0.18
20 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTATATTTATTATAT
Done.