Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 10 of 24
Found at i:1412986 original size:31 final size:30
Alignment explanation
Indices: 1412058--1412986 Score: 668
Period size: 30 Copynumber: 29.9 Consensus size: 30
1412048 TAAATCTCTC
*
1412058 TTCTCAAAGTCCATGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
1412088 GTCCCAAAGTCCACAACTCAGTGGTAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
*
1412117 TTCTCCAAAGTCCACGACTCAGTGGCAACCTCT
1 TTCT-CAAAGTCCACGACTCAGTGGC-ATCT-T
*
1412150 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* *
1412180 TT-TCTAAGTCCACGACTTAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
1412210 TTCTTCCAAGTCCATGACTCAGTGGAATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC--TT
* *
1412243 TTCATCAAAGTCCACGTCTGAGTGGCAATCTCT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCT-T
*
1412276 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* * *
1412306 TT-TCTAAGTCCACAACTTAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
1412336 TTCTTC-AAGTCCATGACTTAGTGGAATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC--TT
* *
1412368 TTCATCAAAGTCCACGCCTGAGTGGCAATCTCT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCT-T
*
1412401 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* * * **
1412431 TT-TCTAAGTCCATGACTTAAAGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * * *
1412461 TTCTGCCAAGTCCACAACTTAGTGGAATCTTTT
1 TTCT-CAAAGTCCACGACTCAGTGGCATC--TT
* * *
1412494 TTCTTCAAAGTCCATGAGTCAGTGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
* *
1412526 TTCTCAAAGCCCACGACTTAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
1412556 GTCCCAAAGTCCACGACTTAGTGGCATTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
*
1412586 TTCTCCAAAGTCCATGACTCAGTGGCAATCTCT
1 TTCT-CAAAGTCCACGACTCAGTGGC-ATCT-T
* *
1412619 TT-TCAAAGTCCGCAACTCAGTGGCAATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCT-T
* *
1412650 TT-TCTAAA-TCCACAACTTAGTGGCATCCTT
1 TTCTC-AAAGTCCACGACTCAGTGGCAT-CTT
* * *
1412680 TTCTTCCAAGTCCACGACTTAGTGGAATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC--TT
* *
1412713 TTCTTCAAAGTCCATGACTCAGTGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
* *
1412745 TTCTCAAAGCCCACGACTCAATGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
1412775 GTCCCAAAGTTCACGACTCAGTGGCATTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1412805 TTCTC-AA---CACGACTCAGTGGCAATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCT-T
*
1412833 TT-TCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
* *
1412863 TT-TCTAAGTCCACGACTTAGTGGCATCTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATC--TT
* *
1412894 TTTTCCAAGTCCACGACTCAGTGGCATCTTTTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATC-----TT
* * * *
1412929 TTCTTCAATGTACACGACTCAATGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
* *
1412961 CTCTCAAAGTCCACGACTCCGTGGCA
1 TTCTCAAAGTCCACGACTCAGTGGCA
1412987 CACATTTAAG
Statistics
Matches: 731, Mismatches: 117, Indels: 102
0.77 0.12 0.11
Matches are distributed among these distances:
26 14 0.02
27 5 0.01
28 5 0.01
29 6 0.01
30 234 0.32
31 224 0.31
32 110 0.15
33 93 0.13
34 13 0.02
35 6 0.01
36 18 0.02
37 3 0.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1413040 original size:34 final size:32
Alignment explanation
Indices: 1412991--1413147 Score: 133
Period size: 34 Copynumber: 4.8 Consensus size: 32
1412981 GTGGCACACA
*
1412991 TTTAAGTCCACAACTCCGTGGCACCTTTTCCTT
1 TTTAAGCCCACAACTCCGTGGCACCTTTTCC-T
*
1413024 TTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCT
1 TTT-AAGCCCACAACTCCGTGGCAC-C-TTTTCCT
* *
1413059 TTTAAGTCCACAACTCCGTGGCACC----CTT
1 TTTAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
1413087 TTTAAGTCCACAACTCCATGGCATCTTTCTCCT
1 TTTAAGCCCACAACTCCGTGGCACCTTT-TCCT
** * *
1413120 TCAAAGCCCACAAGTCAGTGGCAACCTT
1 TTTAAGCCCACAACTCCGTGGC-ACCTT
1413148 CAAAAGCACA
Statistics
Matches: 100, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
28 25 0.25
33 22 0.22
34 42 0.42
35 5 0.05
36 6 0.06
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (32 bp):
TTTAAGCCCACAACTCCGTGGCACCTTTTCCT
Found at i:1413053 original size:129 final size:129
Alignment explanation
Indices: 1412811--1413055 Score: 289
Period size: 129 Copynumber: 1.9 Consensus size: 129
1412801 TTTTTTCTCA
* * * * *
1412811 ACACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
1 ACACGACTCAATGGCAATCTCCTCTCAAAGTCCACAACTCAGTGGCATCACTATTCTAAGTCCAC
* * * * * *
1412876 GACTTAGTGGCATCTTTTTTTTCCAAGTCCACGACTCAGTGGCATCTTTTTTTTTCTTCAATGT
66 AACTCAGTGGCACCTTTTTTTTCAAAGCCCACAACTCAGTGGCATCTTTTTTTTTCTTCAATGT
* *
1412940 ACACGACTCAATGGCAATCTCCTCTCAAAGTCCACGACTCCGTGGCA-CAC-ATT-TAAGTCCAC
1 ACACGACTCAATGGCAATCTCCTCTCAAAGTCCACAACTCAGTGGCATCACTATTCTAAGTCCAC
* * * *
1413002 AACTCCGTGGCACCTTTTCCTTTTTAAAGCCCATAACTCCGTGGCACTCTTTTT
66 AACTCAGTGGCACCTTTT--TTTTCAAAGCCCACAACTCAGTGGCA-TCTTTTT
1413056 CCTTTTAAGT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
126 23 0.24
127 2 0.02
128 22 0.23
129 49 0.51
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (129 bp):
ACACGACTCAATGGCAATCTCCTCTCAAAGTCCACAACTCAGTGGCATCACTATTCTAAGTCCAC
AACTCAGTGGCACCTTTTTTTTCAAAGCCCACAACTCAGTGGCATCTTTTTTTTTCTTCAATGT
Found at i:1413131 original size:61 final size:63
Alignment explanation
Indices: 1413020--1413147 Score: 152
Period size: 61 Copynumber: 2.1 Consensus size: 63
1413010 GGCACCTTTT
* * * ** * * *
1413020 CCTTTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTTAAAGCCCACAACTCCATGGCACTCTTTCTCCTTCAAAGCCCACAACTCAGTGGCAA
* *
1413083 CCTTTTT-AAGTCCACAACTCCATGGCA-TCTTTCTCCTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTTTAAAGCCCACAACTCCATGGCACTCTTTCTCCTTCAAAGCCCACAACTCAGTGGCAA
1413144 CCTT
1 CCTT
1413148 CAAAAGCACA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 31 0.56
62 17 0.31
63 7 0.13
ACGTcount: A:0.23, C:0.34, G:0.12, T:0.31
Consensus pattern (63 bp):
CCTTTTTAAAGCCCACAACTCCATGGCACTCTTTCTCCTTCAAAGCCCACAACTCAGTGGCAA
Found at i:1413141 original size:95 final size:94
Alignment explanation
Indices: 1412967--1413142 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 94
1412957 TCTCCTCTCA
* * *
1412967 AAGTCCACGACTCCGTGGCACACATTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTTAAAGC
1 AAGTCCACAACTCCGTGGCACACATTTAAGTCCACAACTCCATGGCACCTTTTCC-TTTCAAAGC
* *
1413032 CCATAACTCCGTGGCACTCTTTTTCCTTTT
65 CCACAACTCAGTGGCACTCTTTTTCCTTTT
* * *
1413062 AAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCATGGCATCTTTCTCC-TTCAAAG
1 AAGTCCACAACTCCGTGGCACAC-ATTTAAGTCCACAACTCCATGGCACCTTT-TCCTTTCAAAG
*
1413126 CCCACAAGTCAGTGGCA
64 CCCACAACTCAGTGGCA
1413143 ACCTTCAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 41 0.59
96 26 0.37
97 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (94 bp):
AAGTCCACAACTCCGTGGCACACATTTAAGTCCACAACTCCATGGCACCTTTTCCTTTCAAAGCC
CACAACTCAGTGGCACTCTTTTTCCTTTT
Found at i:1413170 original size:27 final size:28
Alignment explanation
Indices: 1413117--1413198 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
1413107 GCATCTTTCT
* **
1413117 CCTTC-AAAGCCCACAAGTCAGTGGCAA-
1 CCTTCAAAAGCACACAAGTTGGT-GCAAC
1413144 CCTTCAAAAGCACACAAGTTGGTGCAAC
1 CCTTCAAAAGCACACAAGTTGGTGCAAC
1413172 CCTTTCAAAAGCCCACACAAGTTGGTG
1 CC-TTCAAAAG--CACACAAGTTGGTG
1413199 ACGTCTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 9 0.19
28 16 0.34
29 8 0.17
31 14 0.30
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (28 bp):
CCTTCAAAAGCACACAAGTTGGTGCAAC
Found at i:1413321 original size:48 final size:47
Alignment explanation
Indices: 1413263--1414578 Score: 661
Period size: 49 Copynumber: 28.5 Consensus size: 47
1413253 CCTGATATCG
*
1413263 CTGGCCTTGAATCAGCATATTAGCACCTTGTCTTAAAGACCAATGTCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-AAGACCAATGTCA
* * * * *
1413311 CTGGCTTTGAATCAACACATTGGCA-C----C---AGCCCAATATCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
1413350 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * *
1413398 -TAGGCCTTGAATCAGCACATTGGCA------C--AAGCCCAATATCA
1 CT-GGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
* * *
1413437 TTGGCTTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * *
1413485 CTGGCCTTGAATCAGCACATTGGCA----G----AAG--CATGATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCA--ATGTCA
* *
1413524 CTGGCCTTGAATCGGCATATTGGTACCTTGTCTTTAAGACCAATGTCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * * *
1413572 CTGGCCTTGAATCAGCACATTGGCA------C--AAGCCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
* * *
1413611 TTGACCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * * *
1413659 TTGGCCTTGAATCAGCACATTGGCA------C--AAG-CCTGATATCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACC-AATGTCA
*
1413698 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * *
1413746 CTGGCCTTGAATCAGCACATTGGCA------C--AAG-CCTAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACC-AATGTCA
* * * *
1413785 CTGGCCTTCAATTAGCATATTGGCACTTTGTCTTTAAGTCCAATGTCA
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCA
* * * *
1413833 CTGGCCTTGAATCAGCACATTGGCA------C--AAGCCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
*
1413872 CTGGCCTTGAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGT-CTTAAGACCAATGTCA
* * * *
1413920 TTGGCCTTGAATCAGCATATTGGCA------C--AAGTCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
* * * *
1413959 CTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGACCAATATCG
1 CTGGCCTTGAATCAGCATATTGGC-ACCTTG---TC-TTAAGACCAATGTCA
* * * * ** * *
1414011 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATGTCA
* ** * *
1414060 CTGGCCTTAAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TTAAGACCAATGTCA
* * * * * * *
1414109 CTGGCCTTGAATCAGCACATTGACATCTTCATCTTTAAGTCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATGTCA
*
1414158 CTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACC-TTG---TC-TTAAGACCAATGTCA
* * * * *** * *
1414210 CTGGCCTT-ATCTCAGC-TCATTGGCATTCTTCT-TTAAGTCTGGTATCG
1 CTGGCCTTGA-ATCAGCAT-ATTGGCA-CCTTGTCTTAAGACCAATGTCA
* ** * *
1414257 CTGGCCTTGAATCAGCATATTGACACCGTCATCTTTAAGTCCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TTAAGACCAATGTCA
* * * * * * *
1414306 CTGGCCTTGAATCAGCACATTGACATCTTCATCTTTAAGTCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATGTCA
* *
1414355 TTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACC-TTGTC----TTAAGACCAATGTCA
* * * * * * *** * *
1414407 CTGGCTTTGAATTAGCACATTGGCATCTTTATCTTTAAGTCTGGTATCG
1 CTGGCCTTGAATCAGCATATTGGCA-CCTTGTC-TTAAGACCAATGTCA
** * *
1414456 CTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGAACAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TTAAGACCAATGTCA
* * * * * **
1414505 TTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAAGTCCAATACCA
1 CTGGCCTTGAATCAGCATATTGGCACCTT-GTC-TTAAGACCAATGTCA
*
1414554 TTGGCCTTGAATCAGCATATTGGCA
1 CTGGCCTTGAATCAGCATATTGGCA
1414579 TCTTTAACAT
Statistics
Matches: 1000, Mismatches: 159, Indels: 217
0.73 0.12 0.16
Matches are distributed among these distances:
37 2 0.00
38 4 0.00
39 255 0.25
40 2 0.00
41 1 0.00
42 5 0.00
43 2 0.00
44 2 0.00
45 4 0.00
46 2 0.00
47 33 0.03
48 250 0.25
49 313 0.31
50 7 0.01
51 4 0.00
52 112 0.11
53 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (47 bp):
CTGGCCTTGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCA
Found at i:1413323 original size:87 final size:87
Alignment explanation
Indices: 1413205--1414530 Score: 1378
Period size: 87 Copynumber: 14.5 Consensus size: 87
1413195 GGTGACGTCT
* * **
1413205 TCTTCTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGCCTGATATCGCTGGCCT
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCT
*
1413270 TGAATCAGCATATTAGCACCTTG
65 TGAATCAGCATATTGGCACCTTG
* * * * * *
1413293 TCTTAAAGACCAATGTCACTGGCTTTGAATCAACACATTGGCACCAGCCCAATATCACTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
1413358 GAATCAGCATATTGGCACCTTG
66 GAATCAGCATATTGGCACCTTG
* ** *
1413380 TCTTTAAGACCAATGTC-ATAGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCATTGGCTT
1 TCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCT
1413444 TGAATCAGCATATTGGCACCTTG
65 TGAATCAGCATATTGGCACCTTG
* ***
1413467 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAGAAGCATGATATCGCTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
* *
1413532 GAATCGGCATATTGGTACCTTG
66 GAATCAGCATATTGGCACCTTG
* * *
1413554 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGACCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
1413619 GAATCAGCATATTGGCACCTTG
66 GAATCAGCATATTGGCACCTTG
* ** *
1413641 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGCCTGATATCACTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
1413706 GAATCAGCATATTGGCACCTTG
66 GAATCAGCATATTGGCACCTTG
*
1413728 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCTAATATCGCTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
* * *
1413793 CAATTAGCATATTGGCACTTTG
66 GAATCAGCATATTGGCACCTTG
* *
1413815 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
1413880 GAATCAGCATATTGGCACCTTG
66 GAATCAGCATATTGGCACCTTG
* * * *
1413902 TCCTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCACAAGTCCAATATCGCTGGCCTT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
* *
1413967 GAATCAGCATATTGGCGTCTTTG
66 GAATCAGCATATTGGC-ACCTTG
* * **
1413990 TCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGG
1 ---TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAA
* **
1414055 TATCGCTGGCCTTAAATCAGCATATTGGCACCGTCA
53 TATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* * *
1414091 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG------GCA-C---AAGCCCAATAT
1414156 CGCTGGCCTTGAATCAGCATATTGGCACCTTTG
56 CGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* * * ***
1414189 TCATCTTTAAGACCAATGTCGCTGGCCTT-ATCTCAGCTCATTGGCATTCTTCTTTAAGTCTGGT
1 ---TCTTTAAGACCAATGTCGCTGGCCTTGA-ATCAGCACATTGGCA-----C---AAGCCCAAT
* **
1414253 ATCGCTGGCCTTGAATCAGCATATTGACACCGTCA
54 ATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* * *
1414288 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG------GCA-C---AAGCCCAATAT
*
1414353 CGTTGGCCTTGAATCAGCATATTGGCACCTTTG
56 CGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* * * ***
1414386 TCATTTTTAAGACCAATGTCGCTGGCTTTGAATTAGCACATTGGCATCTTTATCTTTAAGTCTGG
1 TC---TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A-C---AAGCCCAA
**
1414451 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
53 TATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
* * *
1414487 TCTTTAAGAACAATGTCGTTGGCCTTGAATCAGTACATTGGCAC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1414531 CTTCATCTTT
Statistics
Matches: 1068, Mismatches: 123, Indels: 91
0.83 0.10 0.07
Matches are distributed among these distances:
86 1 0.00
87 620 0.58
88 9 0.01
91 38 0.04
92 1 0.00
95 3 0.00
96 35 0.03
97 3 0.00
98 162 0.15
99 42 0.04
100 2 0.00
101 150 0.14
102 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (87 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTG
Found at i:1414062 original size:49 final size:49
Alignment explanation
Indices: 1413946--1414683 Score: 739
Period size: 49 Copynumber: 14.9 Consensus size: 49
1413936 ATATTGGCAC
* *
1413946 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATC--T-TCATCTTT
*
1413998 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
** * * * *
1414047 AAGTCCGGTATCGCTGGCCTTAAATCAGCATATTGGCACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* *
1414096 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* *
1414145 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--TCT-TCATCTTT
* * * * *
1414197 AAGACCAATGTCGCTGGCCTT-ATCTCAGCTCATTGGCA--TTCTTCTTT
1 AAGTCCAATATCGCTGGCCTTGA-ATCAGCACATTGGCATCTTCATCTTT
*** * * * *
1414244 AAGTCTGGTATCGCTGGCCTTGAATCAGCATATTGACACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* *
1414293 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* * * *
1414342 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--TCT-TCATCTTT
* * * * *
1414394 AAGACCAATGTCGCTGGCTTTGAATTAGCACATTGGCATCTTTATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
*** * * *
1414443 AAGTCTGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
** * * * *
1414492 AAGAACAATGTCGTTGGCCTTGAATCAGTACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* ** * * *
1414541 AAGTCCAATACCATTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--T
* * ** * *
1414593 AAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* * * *
1414640 AAGTCTAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
1414684 GTATCTTCGG
Statistics
Matches: 560, Mismatches: 110, Indels: 34
0.80 0.16 0.05
Matches are distributed among these distances:
47 66 0.12
48 2 0.00
49 330 0.59
50 11 0.02
51 5 0.01
52 146 0.26
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
Found at i:1415510 original size:20 final size:19
Alignment explanation
Indices: 1415485--1415565 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 19
1415475 CTGCCAAGGA
1415485 AATGTATCGATACATTATTC
1 AATGTATCGATACATTA-TC
1415505 AATGTATCGATAC---AT-
1 AATGTATCGATACATTATC
1415520 --TGTATCGATACATTGATC
1 AATGTATCGATACATT-ATC
**
1415538 TTTGTATCGATACATTATTC
1 AATGTATCGATACATTA-TC
1415558 AATGTATC
1 AATGTATC
1415566 AATGTATCCA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
13 11 0.22
16 1 0.02
17 3 0.06
19 1 0.02
20 35 0.69
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (19 bp):
AATGTATCGATACATTATC
Found at i:1415525 original size:13 final size:13
Alignment explanation
Indices: 1415507--1415534 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1415497 CATTATTCAA
1415507 TGTATCGATACAT
1 TGTATCGATACAT
1415520 TGTATCGATACAT
1 TGTATCGATACAT
1415533 TG
1 TG
1415535 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1415529 original size:33 final size:33
Alignment explanation
Indices: 1415487--1415553 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1415477 GCCAAGGAAA
1415487 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1415520 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1415553 T
1 T
1415554 ATTCAATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1419561 original size:19 final size:19
Alignment explanation
Indices: 1419534--1419589 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1419524 TGTATTGATA
1419534 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
* *
1419553 CATTATATCGATACATACT
1 CATTGTATCGATACATGCT
*
1419572 CAATTGTATCTATACATG
1 C-ATTGTATCGATACATG
1419590 AAATTGGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:1419652 original size:13 final size:13
Alignment explanation
Indices: 1419634--1419663 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1419624 GATACATGGG
1419634 ACATTGTATCGAT
1 ACATTGTATCGAT
1419647 ACATTGTATCGAT
1 ACATTGTATCGAT
1419660 ACAT
1 ACAT
1419664 GGTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1422401 original size:21 final size:21
Alignment explanation
Indices: 1422360--1422403 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1422350 CTCTCCTTTA
* *
1422360 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1422381 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1422402 TC
1 TC
1422404 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1424228 original size:13 final size:13
Alignment explanation
Indices: 1424210--1424248 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1424200 ATAATCACCC
1424210 TGTATCGATACAA
1 TGTATCGATACAA
1424223 TGTATCGATACAA
1 TGTATCGATACAA
1424236 TGTATCGATACAA
1 TGTATCGATACAA
1424249 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1426346 original size:15 final size:15
Alignment explanation
Indices: 1426326--1426356 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1426316 ATTTCGTTTG
*
1426326 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1426341 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1426356 G
1 G
1426357 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1428188 original size:21 final size:21
Alignment explanation
Indices: 1428159--1428203 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1428149 AAGTTTTCAT
*
1428159 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1428179 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1428201 TTT
1 TTT
1428204 CAACATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1430442 original size:13 final size:13
Alignment explanation
Indices: 1430424--1430449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1430414 CAATTTTTTG
1430424 TGTATCGATACAT
1 TGTATCGATACAT
1430437 TGTATCGATACAT
1 TGTATCGATACAT
1430450 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1430461 original size:19 final size:19
Alignment explanation
Indices: 1430437--1430486 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
1430427 ATCGATACAT
1430437 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
1430456 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
1430475 TGTATCGATACA
1 TGTATCGATACA
1430487 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATACTTGC
Found at i:1433160 original size:13 final size:13
Alignment explanation
Indices: 1433142--1433168 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1433132 TCAATATTCA
1433142 TGTATCGATACAT
1 TGTATCGATACAT
1433155 TGTATCGATACAT
1 TGTATCGATACAT
1433168 T
1 T
1433169 ATGAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1433184 original size:20 final size:20
Alignment explanation
Indices: 1433159--1433208 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1433149 ATACATTGTA
1433159 TCGATACATTATGAATAGTG
1 TCGATACATTATGAATAGTG
1433179 TCGATACATTATGAATAGTG
1 TCGATACATTATGAATAGTG
1433199 TCGATACATT
1 TCGATACATT
1433209 GAGCCTAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGATACATTATGAATAGTG
Found at i:1433742 original size:30 final size:31
Alignment explanation
Indices: 1433684--1433742 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1433674 GAGAGAGAGA
*
1433684 GAGGTTTTATCTTAGCCCGTGAAAAGATAAG
1 GAGGTTTTATCTTAGACCGTGAAAAGATAAG
*
1433715 GAGGTTTCTATCTTA-ACCTTG-AAAGATA
1 GAGGTTT-TATCTTAGACCGTGAAAAGATA
1433743 GTGTTGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 11 0.44
32 7 0.28
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (31 bp):
GAGGTTTTATCTTAGACCGTGAAAAGATAAG
Found at i:1434715 original size:18 final size:18
Alignment explanation
Indices: 1434694--1434731 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1434684 TTACTTTGTC
1434694 TTATATGATAACTTCATT
1 TTATATGATAACTTCATT
*
1434712 TTATATGATAACTTCGTT
1 TTATATGATAACTTCATT
1434730 TT
1 TT
1434732 TTAGACCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (18 bp):
TTATATGATAACTTCATT
Found at i:1435518 original size:21 final size:20
Alignment explanation
Indices: 1435483--1435522 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1435473 CAATTTACCT
1435483 AAATTTTTTTAATTTCTTTTC
1 AAATTTTTTTAATTT-TTTTC
1435504 AAATTTTTATT-ATTTTTTT
1 AAATTTTT-TTAATTTTTTT
1435523 GTTATTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
AAATTTTTTTAATTTTTTTC
Found at i:1436871 original size:15 final size:17
Alignment explanation
Indices: 1436835--1436871 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1436825 TAATTCCAAA
1436835 ATTATATTTGTTTTATT
1 ATTATATTTGTTTTATT
1436852 ATTATA-TTGTTTTA-T
1 ATTATATTTGTTTTATT
1436867 ATTAT
1 ATTAT
1436872 TTTCATAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTATATTTGTTTTATT
Found at i:1442493 original size:153 final size:153
Alignment explanation
Indices: 1442256--1442777 Score: 536
Period size: 153 Copynumber: 3.4 Consensus size: 153
1442246 TTTTTCGGTA
* * * * *
1442256 AGATTTTTCTAAATTTATAATATTCAAAATTCTTTAATTATTATTGATTAATTCATATTAAATTA
1 AGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGATTAATTCATATTAAATAA
* * * * ** *
1442321 GTTTTAAAAAAATTAATTTATTTTATGAGCTTTAGAATTTTTTTTGTTATTGAGATACGGAGTTT
66 GTTTTAAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTCTGCTACCGAGATACAGAGTTT
*** *
1442386 TTTACTTTGTAAATTTCTCTAGC
131 TTTACTCCATAAATTTCTCCAGC
* * * *
1442409 ATGATTTTTCCAAGTATATAATTTTTAAAATTCTTCAAATA-TATTGATTAATTCATATTAAATC
1 A-GATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGATTAATTCATATTAAATA
* * *
1442473 AGTTTTGAAAATTTTAATTTATTTTATGAGTTTTA-AAATTTTTCTGCTACCGAGATACAGAGTT
65 AGTTTTAAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTCTGCTACCGAGATACAGAGTT
* *
1442537 TTTTACTCCATAAATTTTTCCAGT
130 TTTTACTCCATAAATTTCTCCAGC
* * ** ** *
1442561 AGAATTTTTCTAAGTTTATAATTCTCAAAATTCTTGAAATATTATTTTTTAACCCATATTGAATA
1 AG-ATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGATTAATTCATATTAAATA
** * *
1442626 AGTTTTAAAAAATTTAATTTATTTTATTTGTTTTAGAA-TTTTTCTGATACCAAGATAC-GAAGT
65 AGTTTTAAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTCTGCTACCGAGATACAG-AGT
* * * *
1442689 TTTCTAATCCATAAATTTCTTCGGTC
129 TTTTTACTCCATAAATTTCTCCAG-C
* ** *
1442715 AGATTTTTCTCAA-TTTA-AATTTTTTAAAATTAATCAAATATT-TTTATTAAATTCATATTAAA
1 AGATTTTTCT-AAGTTTATAA-TTTTCAAAATTCTTCAAATATTATTGATT-AATTCATATTAAA
1442777 T
63 T
1442778 TTGCTTGTGA
Statistics
Matches: 304, Mismatches: 56, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
151 1 0.00
152 83 0.27
153 182 0.60
154 38 0.12
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (153 bp):
AGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTGATTAATTCATATTAAATAA
GTTTTAAAAAATTTAATTTATTTTATGAGTTTTAGAATTTTTTCTGCTACCGAGATACAGAGTTT
TTTACTCCATAAATTTCTCCAGC
Found at i:1442800 original size:306 final size:306
Alignment explanation
Indices: 1442234--1442803 Score: 679
Period size: 306 Copynumber: 1.9 Consensus size: 306
1442224 TGGCGTTTCC
* * * *
1442234 TACTACATAAATTTTTTCGGTAAGATTTTTCTAAATTTATAATATTCAAAATTCTTTAATTATTA
1 TACTACATAAATTTTTCCAGTAAGATTTTTCTAAATTTATAATATTCAAAATTCTTGAAATATTA
** *
1442299 TTGATTAATTCATATTAAATTAGTTTTAAAAAAATTAATTTATTTTATGAGCTTTAGAATTTTTT
66 TTGATTAACCCATATTAAATAAGTTTTAAAAAAATTAATTTATTTTATGAGCTTTAGAATTTTTT
* * *** * * * ***
1442364 TTGTTATTGAGATACGGAGTTTTTTACTTTGTAAATTTCTCTAGCATGATTTTTCCAAGTATATA
131 CTGATACCAAGATACGAAGTTTTCTAATCCATAAATTTCTCTAGCATGATTTTTCCAAGTATATA
** * *
1442429 ATTTTTAAAATTCTTCAAATATATTGATTAATTCATATTAAATCAGTTTTGAAAATTTTAATTTA
196 ATTTTTAAAATTAATCAAATATATTGATTAATTCATATTAAATCAGTTGTGAAAATTTCAATTTA
1442494 TTTTATGAGTTTTAAAATTTTTCTGCTACCGAGATACAGAGTTTTT
261 TTTTATGAGTTTTAAAATTTTTCTGCTACCGAGATACAGAGTTTTT
* *
1442540 TACTCCATAAATTTTTCCAGT-AGAATTTTTCTAAGTTTATAAT-TCTCAAAATTCTTGAAATAT
1 TACTACATAAATTTTTCCAGTAAG-ATTTTTCTAAATTTATAATAT-TCAAAATTCTTGAAATAT
** * * ** *
1442603 TATTTTTTAACCCATATTGAATAAGTTTTAAAAAATTTAATTTATTTTATTTGTTTTAGAA-TTT
64 TATTGATTAACCCATATTAAATAAGTTTTAAAAAAATTAATTTATTTTATGAGCTTTAGAATTTT
*
1442667 TTCTGATACCAAGATACGAAGTTTTCTAATCCATAAATTTCT-TCGGTCA-GATTTTTCTCAA-T
129 TTCTGATACCAAGATACGAAGTTTTCTAATCCATAAATTTCTCT-AG-CATGATTTTTC-CAAGT
* * * **
1442729 TTA-AATTTTTTAAAATTAATCAAATATTTTTATTAAATTCATATTAAATTTGCTTGTGAAAA-T
191 ATATAA-TTTTTAAAATTAATCAAATATATTGATT-AATTCATATTAAATCAG-TTGTGAAAATT
1442792 TCAATTTATTTT
253 TCAATTTATTTT
1442804 TTTCATATAA
Statistics
Matches: 219, Mismatches: 37, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
304 3 0.01
305 73 0.33
306 135 0.62
307 8 0.04
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (306 bp):
TACTACATAAATTTTTCCAGTAAGATTTTTCTAAATTTATAATATTCAAAATTCTTGAAATATTA
TTGATTAACCCATATTAAATAAGTTTTAAAAAAATTAATTTATTTTATGAGCTTTAGAATTTTTT
CTGATACCAAGATACGAAGTTTTCTAATCCATAAATTTCTCTAGCATGATTTTTCCAAGTATATA
ATTTTTAAAATTAATCAAATATATTGATTAATTCATATTAAATCAGTTGTGAAAATTTCAATTTA
TTTTATGAGTTTTAAAATTTTTCTGCTACCGAGATACAGAGTTTTT
Found at i:1443144 original size:14 final size:14
Alignment explanation
Indices: 1443117--1443154 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
1443107 AATCAAATCA
1443117 AATAAAAAAGTAAT
1 AATAAAAAAGTAAT
1443131 AATAATAAAA-TAAT
1 AATAA-AAAAGTAAT
1443145 AATAAAAAAG
1 AATAAAAAAG
1443155 GAAAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AATAAAAAAGTAAT
Found at i:1444570 original size:166 final size:167
Alignment explanation
Indices: 1444293--1444595 Score: 425
Period size: 166 Copynumber: 1.8 Consensus size: 167
1444283 TTTCAAAAAT
* **
1444293 TTAGGGACTAGATAGCAAATTTGGTTTTTAGAAGAAAAATAGCTAACTTAATCAATTTCTTTAAA
1 TTAGGGACTAAATAGCAAATTTGGAATTTAGAAGAAAAATAGCTAACTTAATCAATTTCTTTAAA
* * ** *
1444358 TTTCTATTATTCCTATGGCCCTCTATAGGGGTATAGAATTTTTTAAAACTTTTTATATCCTCTCA
66 TTTCTATCATTCCTATGGCCCTCTATAGGGATATAGAAAATTTTAAAACTTTTCATATCCTCTCA
1444423 GT-TTTCCATCGGGTATGAAATGAAATTTGTAAAAGC
131 GTCTTTCCATCGGGTATGAAATGAAATTTGTAAAAGC
* * * *
1444459 TTAGGGACTAAATAGCAAATTTGGAATTTA-AAGGAAAAATCATC-ATCTTAGTCATTTTCTTTA
1 TTAGGGACTAAATAGCAAATTTGGAATTTAGAA-GAAAAAT-AGCTAACTTAATCAATTTCTTTA
*
1444522 CATTTCTATCA-TCCTTATGGCCCTCTATAGGGATATAGAAAATTTTAAAACTTTTCATATCCTC
64 AATTTCTATCATTCC-TATGGCCCTCTATAGGGATATAGAAAATTTTAAAACTTTTCATATCCTC
*
1444586 TTAGTCTTTC
128 TCAGTCTTTC
1444596 GTCGAGTACG
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
165 5 0.04
166 108 0.91
167 6 0.05
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (167 bp):
TTAGGGACTAAATAGCAAATTTGGAATTTAGAAGAAAAATAGCTAACTTAATCAATTTCTTTAAA
TTTCTATCATTCCTATGGCCCTCTATAGGGATATAGAAAATTTTAAAACTTTTCATATCCTCTCA
GTCTTTCCATCGGGTATGAAATGAAATTTGTAAAAGC
Found at i:1445181 original size:154 final size:155
Alignment explanation
Indices: 1444805--1445168 Score: 403
Period size: 155 Copynumber: 2.4 Consensus size: 155
1444795 CATCGAGATG
* * ** * * *
1444805 CTTTCATGCTGAAGATGTATGTTTAGGATATGTTCATCCTATTTATGATCATTTTAGTGTCCATT
1 CTTTTATGCTCAAGATGTACATTTAGGATAGGTTCGTCCAATTTATGATCATTTTAGTGTCCATT
* * * * * ** * *
1444870 AAGGTTACTGAAAAACTTTCATGTCAAAGGTATACCCTAGAGGCTTTTTTTAATTTTCTTAGAAT
66 AGGGTTACTCAAAAACTTTAATGTCAAAGGTATACCATAAAGGCTTTTCGTAATTTTCTTAAAAC
* * *
1444935 TGAGTCTTAGGTTATCACCAGGATG
131 CGAGTCCTAGGTTATCACCAGGATA
* *
1444960 CTTTTATGCTGAAGATGTACATTTAGGATAGGTTTGTCCAATTTATGATCATTTTAGTGTCCATT
1 CTTTTATGCTCAAGATGTACATTTAGGATAGGTTCGTCCAATTTATGATCATTTTAGTGTCCATT
* *
1445025 AGGGTTAC-CAAGATACTTTAATGTCAAAGGTATA-CATAAAGGCATTTTCGTACTTTT-TTAAA
66 AGGGTTACTCAA-AAACTTTAATGTCAAAGGTATACCATAAAGGC-TTTTCGTAATTTTCTTAAA
* **
1445087 ACCGAGTCCTAGGTTGTCATTAGGATA
129 ACCGAGTCCTAGGTTATCACCAGGATA
* * * *
1445114 CTTTTCTGC-CAAGGGTGTGCATTTAGGATAGGTTCGTCCCATTTATGATCATTTT
1 CTTTTATGCTCAA-GATGTACATTTAGGATAGGTTCGTCCAATTTATGATCATTTT
1445169 TGAGTCCTTT
Statistics
Matches: 176, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
153 2 0.01
154 79 0.45
155 95 0.54
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (155 bp):
CTTTTATGCTCAAGATGTACATTTAGGATAGGTTCGTCCAATTTATGATCATTTTAGTGTCCATT
AGGGTTACTCAAAAACTTTAATGTCAAAGGTATACCATAAAGGCTTTTCGTAATTTTCTTAAAAC
CGAGTCCTAGGTTATCACCAGGATA
Found at i:1446937 original size:25 final size:25
Alignment explanation
Indices: 1446903--1446954 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
1446893 TCTAGTTTAA
*
1446903 TTAAGTTAGATGTAAAGGCTTTTTC
1 TTAAGTTAGATATAAAGGCTTTTTC
1446928 TTAAGTTAGATATAAAGGCTTTTTC
1 TTAAGTTAGATATAAAGGCTTTTTC
1446953 TT
1 TT
1446955 GCATAAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (25 bp):
TTAAGTTAGATATAAAGGCTTTTTC
Found at i:1448871 original size:78 final size:78
Alignment explanation
Indices: 1448531--1448871 Score: 256
Period size: 78 Copynumber: 4.4 Consensus size: 78
1448521 CTTTCATAAA
* * * * * * * * * *
1448531 AAATATGTTCATTAAGGGTATTTTGATAATATTACCTTAAAA-CTGAGTCTTTAGGATCATATGG
1 AAATATGTCCATTAGGGGCATTTAGGTAAAATTACCTTAAAATC-AAGTCCTTAAGATCATGTGG
* *
1448595 TAACTTTCTTGTTG
65 GAACTTTCATGTTG
* * * * * * * * *
1448609 AAATATGTTCATAAGGGTCATTTAGGTAAAAGTACCTCAAAATTCAA-TCTTTAGGGTCATGTGA
1 AAATATGTCCATTAGGGGCATTTAGGTAAAATTACCTTAAAA-TCAAGTCCTTAAGATCATGTGG
1448673 GAACTTTCATGTTG
65 GAACTTTCATGTTG
* * ** * * * * *
1448687 AAATAAGTCCATTAGAGATATTTAAGTAATATTATCTTAAAATCAAGTCCTTAAGGTCATGTGGA
1 AAATATGTCCATTAGGGGCATTTAGGTAAAATTACCTTAAAATCAAGTCCTTAAGATCATGTGGG
* * **
1448752 AACTATCATATAA
66 AACTTTCATGTTG
* * *
1448765 AAATATATCCATTAGGGCCATTTAGGTAAAAATACCTTAAAA-CAGAGTCCTTAAGATCATGTGG
1 AAATATGTCCATTAGGGGCATTTAGGTAAAATTACCTTAAAATCA-AGTCCTTAAGATCATGTGG
* *
1448829 GAACTTTAATGTCG
65 GAACTTTCATGTTG
* * *
1448843 AAACATGTCCATTAGGGGGATTTTGGTAA
1 AAATATGTCCATTAGGGGCATTTAGGTAA
1448872 TCTCACTTTA
Statistics
Matches: 204, Mismatches: 55, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
77 6 0.03
78 196 0.96
79 1 0.00
80 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (78 bp):
AAATATGTCCATTAGGGGCATTTAGGTAAAATTACCTTAAAATCAAGTCCTTAAGATCATGTGGG
AACTTTCATGTTG
Found at i:1449071 original size:76 final size:76
Alignment explanation
Indices: 1448929--1449089 Score: 168
Period size: 76 Copynumber: 2.1 Consensus size: 76
1448919 CAAACAGGTT
* *
1448929 CATTATGGTTATTTCAGTAATAGTACCTTAAAACAAAGTCTAGTGTCATATGAGACCCTTTATGT
1 CATTAGGGTTATTTCAGTAATAGTACCTTAAAACAAAGTCTAGTGTCATATGAGAACCTTTATGT
*
1448994 CAAAACT-TGTC
66 CAAAA-TATGTA
* ** * * *
1449005 CATTAGGGTTATTTTAGTAATAGTATTTTTAAACCAAGTCTAG-GATCA-AGTGGGAACC-TTAG
1 CATTAGGGTTATTTCAGTAATAGTACCTTAAAACAAAGTCTAGTG-TCATA-TGAGAACCTTTA-
*
1449067 TGTCAATATATGTA
63 TGTCAAAATATGTA
1449081 CATTAGGGT
1 CATTAGGGT
1449090 CATGCAGGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
75 6 0.08
76 65 0.92
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (76 bp):
CATTAGGGTTATTTCAGTAATAGTACCTTAAAACAAAGTCTAGTGTCATATGAGAACCTTTATGT
CAAAATATGTA
Found at i:1450820 original size:77 final size:76
Alignment explanation
Indices: 1450493--1450820 Score: 206
Period size: 76 Copynumber: 4.3 Consensus size: 76
1450483 TAATGTTAAG
* * * * * * **
1450493 GACTCAATTTTAAGGTACTTTTACCTAAACAACTTTAATGAAA-ATATTTCGCCATGAAAGTT-T
1 GACTCGATTTTAAGGAACTATTACCTAAATAACCTTAAT-AAACATGTTTCAACATGAAAGTTCT
*
1450556 CCACATGACCCTA
65 -CACATAACCCTA
* * * * * * **** * *
1450569 GA-TGTGGTTTTAAGGTACTTTTACCTGAATAACC-TAACAAACATGTTTTGGGATAAAAATTCT
1 GACT-CGATTTTAAGGAACTATTACCTAAATAACCTTAATAAACATGTTTCAACATGAAAGTTCT
** *
1450632 TGCATGACCCTA
65 CACATAACCCTA
* * *
1450644 AACTCGATTTTAA-GACACT-TCTACCTAATTAACCTTAATAAACATGTTTTAACATGAAAGTTC
1 GACTCGATTTTAAGGA-ACTAT-TACCTAAATAACCTTAATAAACATGTTTCAACATGAAAGTTC
1450707 TCACATAACCCTAAA
64 TCACATAACCCT--A
* * * * *
1450722 GACTC-AGTTTAAAGTAA-TATTACCTAAAT-ACACTTAATGAACATGTTTCAACATGAAGGTTT
1 GACTCGA-TTTTAAGGAACTATTACCTAAATAAC-CTTAATAAACATGTTTCAACATGAAAGTTC
1450784 TCACATAAACCCTA
64 TCACAT-AACCCTA
*
1450798 GAGTCGATTTTAAGGAACTATTA
1 GACTCGATTTTAAGGAACTATTA
1450821 TTGAAATACC
Statistics
Matches: 195, Mismatches: 41, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
74 5 0.03
75 49 0.25
76 74 0.38
77 48 0.25
78 18 0.09
79 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (76 bp):
GACTCGATTTTAAGGAACTATTACCTAAATAACCTTAATAAACATGTTTCAACATGAAAGTTCTC
ACATAACCCTA
Found at i:1451087 original size:28 final size:27
Alignment explanation
Indices: 1451009--1451087 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 27
1450999 TAGTGGTCTC
*
1451009 TAAATCATGAAAAATAACTAAAATGATCCT
1 TAAATCATGAAAAATAA-T--AATAATCCT
* *
1451039 AAAATACATG-AAATTACATAATAATCCT
1 TAAAT-CATGAAAAATA-ATAATAATCCT
1451067 TAAATCATGAAAAATGAATAA
1 TAAATCATGAAAAAT-AATAA
1451088 AATAGTCCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.10
28 20 0.50
29 1 0.03
30 10 0.25
31 5 0.12
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (27 bp):
TAAATCATGAAAAATAATAATAATCCT
Found at i:1451129 original size:58 final size:59
Alignment explanation
Indices: 1451008--1451150 Score: 152
Period size: 58 Copynumber: 2.5 Consensus size: 59
1450998 GTAGTGGTCT
*
1451008 CTAAATCATGAAAAAT-AACTAAAATGATCCTAAAATACATGAAATTACATAATAATCC
1 CTAAATCATGAAAAATGAACTAAAATGATCCTAAAATACATGAAATTACACAATAATCC
* ** * * * *
1451066 TTAAATCATGAAAAATGAA-TAAAAT-AGTCCTTGAATGCATGAAATTATACAGTAGTCC
1 CTAAATCATGAAAAATGAACTAAAATGA-TCCTAAAATACATGAAATTACACAATAATCC
*
1451124 CTAAATCAT-ATAAAATG-TCTAAAATGA
1 CTAAATCATGA-AAAATGAACTAAAATGA
1451151 CTCTAAGTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
57 2 0.03
58 65 0.93
59 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (59 bp):
CTAAATCATGAAAAATGAACTAAAATGATCCTAAAATACATGAAATTACACAATAATCC
Found at i:1452466 original size:37 final size:37
Alignment explanation
Indices: 1452329--1452585 Score: 180
Period size: 37 Copynumber: 7.0 Consensus size: 37
1452319 TTGTCCTCAG
* * * * * *
1452329 GAAAAGCTTTGAAATTTTCTTAATAAGATATCTTTAG
1 GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTAT
* * * ** * *
1452366 GAGACGCTTTAAAATTTTTTTGATAAAACATCCTCAT
1 GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTAT
** *
1452403 GAGGGGCTTTGAGAAATCTT--TGATAAAATATCCTTAT
1 GAAAGGCTTT--GAAATTTTCCTGATAAAATATCCTTAT
* * * * **
1452440 AAAAGGCTTTGAAACTTTCCTAATAAAATATCATCGT
1 GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTAT
*
1452477 GAAAGGCTTTGAAATTTT-CTCGATATAATATCCTTAT
1 GAAAGGCTTTGAAATTTTCCT-GATAAAATATCCTTAT
** * * * *
1452514 GTGATGCTCTAAAATTTTCCTGATAAAATATCCTTGT
1 GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTAT
* *
1452551 GAAAGGCTTTGAAATTTTCTTG-TAAAATATACTTA
1 GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTA
1452586 CGAGAGACTT
Statistics
Matches: 167, Mismatches: 47, Indels: 13
0.74 0.21 0.06
Matches are distributed among these distances:
35 6 0.04
36 13 0.08
37 140 0.84
38 2 0.01
39 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (37 bp):
GAAAGGCTTTGAAATTTTCCTGATAAAATATCCTTAT
Found at i:1452670 original size:37 final size:37
Alignment explanation
Indices: 1452624--1452906 Score: 135
Period size: 37 Copynumber: 7.8 Consensus size: 37
1452614 ATATCCACAC
*
1452624 TTTCCTGATAAAATATCCTTCTGAAAGGCTTTGAAAT
1 TTTCTTGATAAAATATCCTTCTGAAAGGCTTTGAAAT
* * * *
1452661 TTTATTGATAAAATATCCTTATGAGAA-GCTTTGTAAC
1 TTTCTTGATAAAATATCCTTCTGA-AAGGCTTTGAAAT
* * * **
1452698 TTTCCTGATAAAATATGC-TCATGAGAGATTTTGAAAT
1 TTTCTTGATAAAATATCCTTC-TGAAAGGCTTTGAAAT
* * * *
1452735 TTTCTTGATAAAACATCC-CCATGAGAGGATTT-AAGAGT
1 TTTCTTGATAAAATATCCTTC-TGAAAGGCTTTGAA-A-T
* ** **
1452773 AATT-TTG---AAATATTATTAAGAAAGGCTTTGAAA-
1 -TTTCTTGATAAAATATCCTTCTGAAAGGCTTTGAAAT
* * * * * *
1452806 TTTCCTAATAAAATATTCTTTTGAGAGGCTTTAAAACT
1 TTTCTTGATAAAATATCCTTCTGAAAGGCTTTGAAA-T
** *
1452844 TTT-TTGAT-AAA-AT--TAATGAGAGGCTTTGAAAT
1 TTTCTTGATAAAATATCCTTCTGAAAGGCTTTGAAAT
* *
1452876 TTTCTTGATAAAACATCCTTATGAAAGGCTT
1 TTTCTTGATAAAATATCCTTCTGAAAGGCTT
1452907 AAGAGTAATT
Statistics
Matches: 183, Mismatches: 44, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
32 6 0.03
33 21 0.11
34 3 0.02
35 18 0.10
36 30 0.16
37 94 0.51
38 9 0.05
39 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (37 bp):
TTTCTTGATAAAATATCCTTCTGAAAGGCTTTGAAAT
Found at i:1452759 original size:74 final size:74
Alignment explanation
Indices: 1452622--1452760 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
1452612 AAATATCCAC
* * **
1452622 ACTTTCCTGATAAAATATCCTTCTGAAAGGCTTTGAAATTTTATTGATAAAATATCCTTATGAGA
1 ACTTTCCTGATAAAATATCCTTCTGAAAGACTTTGAAATTTTATTGATAAAACATCCCCATGAGA
1452687 AGCTTTGTA
66 AGCTTTGTA
* * * *
1452696 ACTTTCCTGATAAAATATGC-TCATGAGAGATTTTGAAATTTTCTTGATAAAACATCCCCATGAG
1 ACTTTCCTGATAAAATATCCTTC-TGAAAGACTTTGAAATTTTATTGATAAAACATCCCCATGAG
1452760 A
65 A
1452761 GGATTTAAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 2 0.04
74 54 0.96
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (74 bp):
ACTTTCCTGATAAAATATCCTTCTGAAAGACTTTGAAATTTTATTGATAAAACATCCCCATGAGA
AGCTTTGTA
Found at i:1453339 original size:21 final size:21
Alignment explanation
Indices: 1453315--1453371 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1453305 AAATTATCCA
1453315 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
1453336 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
1453357 AATGTCTCGATACAT
1 AATGTATCGATACAT
1453372 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:1453451 original size:19 final size:19
Alignment explanation
Indices: 1453427--1453494 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1453417 AATTCAACAA
1453427 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1453446 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1453461 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1453478 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1453495 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1453466 original size:13 final size:13
Alignment explanation
Indices: 1453448--1453472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1453438 ACATAAGTTT
1453448 TGTATCGATACAA
1 TGTATCGATACAA
1453461 TGTATCGATACA
1 TGTATCGATACA
1453473 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1453470 original size:32 final size:32
Alignment explanation
Indices: 1453429--1453491 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1453419 TTCAACAATT
*
1453429 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1453461 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1453492 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1453552 original size:13 final size:13
Alignment explanation
Indices: 1453534--1453559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1453524 CATTTTTTTG
1453534 TGTATCGATACAT
1 TGTATCGATACAT
1453547 TGTATCGATACAT
1 TGTATCGATACAT
1453560 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1455958 original size:51 final size:51
Alignment explanation
Indices: 1455891--1456243 Score: 238
Period size: 52 Copynumber: 6.7 Consensus size: 51
1455881 AATTCTCCAC
* * * *
1455891 AATCAGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCTAT
* * *
1455942 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC---AAAACACTAATTTTC-T-AT
* * * *
1455997 AATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCC-AACCCCGTTA-TTTC--T
1 AATCGGGGATACTCCAACCCCGATT--T--T-----AT-TTCCAAAACAC-TAATTTTCTAT
* * * * *
1456054 GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCT-AT
* * * * * *
1456103 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAA-TTTTCTAT
* * *
1456155 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTT-CTAT
*
1456207 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
1456244 ATACCAATTT
Statistics
Matches: 233, Mismatches: 42, Indels: 53
0.71 0.13 0.16
Matches are distributed among these distances:
46 5 0.02
47 7 0.03
49 2 0.01
51 65 0.28
52 79 0.34
53 4 0.02
54 13 0.06
55 40 0.17
56 2 0.01
57 1 0.00
58 1 0.00
60 4 0.02
61 5 0.02
63 2 0.01
64 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCTAT
Found at i:1456028 original size:27 final size:27
Alignment explanation
Indices: 1455998--1456073 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
1455988 TTTCTTCACA
1455998 ATCGGGGATACTCCAACCCCGTTGA-TC
1 ATCGGGGATACTCCAACCCCGTT-ATTC
1456025 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTC
*
1456053 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
1456074 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.02
27 24 0.53
28 20 0.44
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTC
Found at i:1456275 original size:104 final size:103
Alignment explanation
Indices: 1456058--1456277 Score: 262
Period size: 104 Copynumber: 2.1 Consensus size: 103
1456048 ATTTCTGAGG
* *** * *
1456058 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCATAATCGGGGATACTCCAACCC
* * * * *
1456123 CGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 CGATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
* * * *
1456161 GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACT
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCC-ATAATCGGGGATACTCCAACC
* *
1456226 CCGATTTTATTTCCAAAAATACCAATTTTT-CACAGTCGA
65 CCGATTTTA-TTCCAAAAACACCAATTTTTCCACAATCGA
1456265 GGATACTCCAACC
1 GGATACTCCAACC
1456278 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 36 0.37
104 46 0.47
105 16 0.16
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCATAATCGGGGATACTCCAACCC
CGATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
Found at i:1456297 original size:28 final size:28
Alignment explanation
Indices: 1456265--1456336 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1456255 TCACAGTCGA
* * **
1456265 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
* *
1456293 GGATACTCCAACCCCGTTGCTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
1456321 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1456337 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1456354 original size:263 final size:263
Alignment explanation
Indices: 1455886--1456387 Score: 794
Period size: 263 Copynumber: 1.9 Consensus size: 263
1455876 TTCTCAATTC
* * *
1455886 TCCACAATCAGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
1455951 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* *
1456016 CCGTTGATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTAT
130 CCGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
* * *
1456081 TTCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAA
195 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
1456146 TTTT
260 TTTT
* *
1456150 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
1456215 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
1456278 TCGTT-ATTTCATCGGGGATACTCCAACCCCGTTGCTTCCGAGGGGATACTCCAACCCCGGCTTT
130 CCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
1456342 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1456388 TTATTTTCGA
Statistics
Matches: 218, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 26 0.12
263 107 0.49
264 48 0.22
265 36 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (263 bp):
TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:1456468 original size:78 final size:79
Alignment explanation
Indices: 1456290--1456490 Score: 226
Period size: 78 Copynumber: 2.6 Consensus size: 79
1456280 GTTATTTCAT
** * *
1456290 CGGGGATACTCCAACCCCGTTGCTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
1456355 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
1456369 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
1456432 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
1456447 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
1456491 TCGTTATTAT
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 58 0.57
79 41 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1468924 original size:10 final size:9
Alignment explanation
Indices: 1468894--1468967 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
1468884 CCTTCTCTTC
1468894 AAAAAAAA-
1 AAAAAAAAG
*
1468902 AAAGCAAAAG
1 AAA-AAAAAG
1468912 AAAAAAAATG
1 AAAAAAAA-G
1468922 AAAAAAAA-
1 AAAAAAAAG
*
1468930 ACAAAAAAAC
1 A-AAAAAAAG
*
1468940 AAAACAAAG
1 AAAAAAAAG
*
1468949 AAAAAGAGAG
1 AAAAA-AAAG
1468959 AAAAGAAAA
1 AAAA-AAAA
1468968 AACCTACTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.08
9 25 0.48
10 22 0.42
11 1 0.02
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1468925 original size:15 final size:15
Alignment explanation
Indices: 1468894--1468935 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1468884 CCTTCTCTTC
1468894 AAAAAAAAAAAGCAA
1 AAAAAAAAAAAGCAA
*
1468909 AAGAAAAAAAATG-AA
1 AA-AAAAAAAAAGCAA
1468924 AAAAAAACAAAA
1 AAAAAAA-AAAA
1468936 AAACAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAGCAA
Found at i:1468962 original size:37 final size:39
Alignment explanation
Indices: 1468893--1468968 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
1468883 ACCTTCTCTT
1468893 CAAAAAAAAAAAGCAAAAGAAAAAAAATGAAAA-AAAAA
1 CAAAAAAAAAAAGCAAAAGAAAAAAAATGAAAAGAAAAA
*
1468931 CAAAAAAACAAAA-C-AAAGAAAAAGAGA-GAAAAGAAAAA
1 CAAAAAAA-AAAAGCAAAAGAAAAA-AAATGAAAAGAAAAA
1468969 ACCTACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 14 0.41
38 16 0.47
39 4 0.12
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.01
Consensus pattern (39 bp):
CAAAAAAAAAAAGCAAAAGAAAAAAAATGAAAAGAAAAA
Found at i:1470714 original size:171 final size:169
Alignment explanation
Indices: 1469961--1471137 Score: 1461
Period size: 171 Copynumber: 6.9 Consensus size: 169
1469951 GATGCCTTTT
* * * * *
1469961 CCTTTTAAAAGCCCCCACATGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTT
* * *
1470026 TTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCTCTTAA
64 TTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACAC--CTT-TC--AA
** *
1470090 AGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACA
123 AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* ** ** **
1470136 CTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCCTTT
1 C-----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
* *
1470201 CTCTTAAAGCCCACACAAGTTGGTGGCACC-TTCAATCCTCAAAGAGCAGGACACCTTTCAAAGC
61 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
*
1470265 CTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
126 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* * * ** *
1470309 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAGAGAGTAGGA--C---ACCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCTTT
* *
1470369 TAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAG
65 TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAG
* ** * *
1470433 CCCACACACGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGC
125 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-A
* *
1470478 CTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGATGCTTTTT
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1470542 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
61 CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
1470607 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
125 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
1470652 CCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
* *
1470717 TCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
65 T-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCA
1470782 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
129 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
*
1470823 CCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
* * *
1470888 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCA
65 T-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCA
* * *
1470953 CACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACA
129 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
** *
1470994 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGA-CTAGGA--C---ACCTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGC-AGGATGCTTTTTCTT
**
1471053 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCA
64 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCA
*
1471118 CACGAGTTGGTGGCACTTTT
129 CACAAGTTGGTGGCA-TTTT
1471138 TACTCCTCAA
Statistics
Matches: 898, Mismatches: 73, Indels: 71
0.86 0.07 0.07
Matches are distributed among these distances:
164 52 0.06
165 72 0.08
166 8 0.01
167 1 0.00
168 48 0.05
169 45 0.05
170 35 0.04
171 341 0.38
172 40 0.04
173 47 0.05
174 35 0.04
175 22 0.02
177 23 0.03
178 79 0.09
179 46 0.05
180 4 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (169 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
Found at i:1470814 original size:226 final size:221
Alignment explanation
Indices: 1469961--1471136 Score: 1272
Period size: 226 Copynumber: 5.2 Consensus size: 221
1469951 GATGCCTTTT
* * *
1469961 CCTTTTAAAAGCCCCCACATGTTGGTGGCAT-TTTCCAATCCTCAAAGAGCAGGACGCCTTTTCT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCATCTTT-CAGTCCTCAAAGAGCAGGA-G-CTTTTCT
* *
1470025 TTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCTCTTA
62 TTTCAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACAC--CTT-TC--A
** *
1470089 AAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACACTTTTTCTCTTAAAGCC
121 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-----CT-TTAAAGCC
*
1470153 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACA
180 CACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
* * *
1470195 CCCTTTCTCTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAATCCTCAAAGAGCAGGA-C---AC
1 -CC--T-T-TTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGAGCTTTTC
* *
1470255 CTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
61 TTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
* * *
1470320 CCACACAAGTTGGTGGCATTTTCTAGTCCTCAGAGAGTAGGACACCTCTTAAAGCCCACACAAGT
125 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGT
* *
1470385 TGGTGGCACCTTCAGTCCTCAAAGAGCGGGACA
189 TGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
* * *
1470418 CATTTTCTTTTAAAGCCCACACACGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTT
1 C-----CTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGA-G-CTTT
* * * *
1470482 TCTTTT-AAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGATGCTTTTTCTT
59 TCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA--C----ACCT
*
1470545 TTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
117 TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCC
*
1470609 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
180 CACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* * *
1470652 CCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGA-GC-TTTTCTTT
* * *
1470717 TCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
64 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCA
*
1470782 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGG
128 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGG
* *
1470847 TGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTT
192 TGGCA-CTTTCAGTCCTCAAAGAGCAGGA--C---A
* * * * *
1470883 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA-C---CCCTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGAGCTTTTCTTTT
* * * *
1470944 CGAAGCCCACACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCAC
65 CAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
*
1471009 ACAAGTTGGTGGCATTTTCTAGTCCTCAAAGA-CTAGGACACCTCTTAAAGCCCACACAAGTTGG
129 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC-AGGACACCT-TTAAAGCCCACACAAGTTGG
**
1471073 TGGCACCTTTCAGTCCTCAAAGAGCAGGATG
192 TGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
1471104 CCTTTCAAAGCCCACACGAGTTGGTGGCA-CTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTT
1471137 TTACTCCTCA
Statistics
Matches: 828, Mismatches: 69, Indels: 104
0.83 0.07 0.10
Matches are distributed among these distances:
219 4 0.00
220 22 0.03
221 4 0.00
222 1 0.00
223 97 0.12
224 1 0.00
225 6 0.01
226 241 0.29
227 51 0.06
228 40 0.05
229 38 0.05
230 33 0.04
231 35 0.04
232 107 0.13
233 75 0.09
234 25 0.03
235 2 0.00
237 20 0.02
238 24 0.03
239 2 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (221 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGAGCTTTTCTTTTC
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACAC
AAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGC
ACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:1471159 original size:55 final size:55
Alignment explanation
Indices: 1469968--1471156 Score: 1231
Period size: 55 Copynumber: 20.9 Consensus size: 55
1469958 TTTCCTTTTA
* * * *
1469968 AAAGCCCCCACATGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC
* *
1470024 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCTC
1 ----AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACAC--CTT-TC
* * *
1470086 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCGGGACACTTTTTCTC
1 --AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACAC--CTT-TC
*
1470145 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACACCCTTTCTC
1 --AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA-CC-TT-TC
* *
1470204 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCAATCCTCAAAGAGCAGGACACCTTTC
1 --AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
*
1470260 AAAGCCTACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
* *
1470315 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAGAGAGTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCT-TTC
* * *
1470370 AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACAC-----CTTTC
* * * *
1470429 AAAGCCCACACACGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACC-TTTC
* * * *
1470484 TTTTAAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
*
1470548 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
*
1470603 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
* * * * *
1470658 AAAGCCCACACAGGTTGGTGGCATTTTTCTGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
1470719 AAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
*
1470774 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
* * * *
1470829 AAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
1470890 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * * * *
1470945 GAAGCCCACACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
1471000 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGA-CTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGC-AGGACACCT-TTC
* **
1471055 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * * * *
1471110 AAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGAAGGA
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1471157 TGCACTATAT
Statistics
Matches: 999, Mismatches: 77, Indels: 111
0.84 0.06 0.09
Matches are distributed among these distances:
54 58 0.06
55 467 0.47
56 19 0.02
57 4 0.00
58 4 0.00
59 222 0.22
60 103 0.10
61 115 0.12
62 2 0.00
64 4 0.00
65 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:1474147 original size:27 final size:27
Alignment explanation
Indices: 1474117--1474192 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
1474107 TTTCTTCACA
1474117 ATCGGGGATACTCCAACCCCGTTGA-TC
1 ATCGGGGATACTCCAACCCCGTT-ATTC
1474144 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTC
*
1474172 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
1474193 ACTTTATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.02
27 24 0.53
28 20 0.44
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTC
Found at i:1474294 original size:52 final size:51
Alignment explanation
Indices: 1474175--1474396 Score: 219
Period size: 52 Copynumber: 4.3 Consensus size: 51
1474165 TTATTTCTGA
* * * * *
1474175 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATC
* * * *
1474226 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTT-CACAATC
* * * * * * **
1474278 GGGGATACTCCAACCCCGGTTTTATTTTTGAAAGACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTC-ACAATC
* * * *
1474330 GGGGATACTCCAACTCCAATTTTATTTCCAAAAATACTAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTT-CTAAAATACTAATTTTTCACAATC
*
1474382 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1474397 TCGTTATTTC
Statistics
Matches: 136, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
51 37 0.27
52 87 0.64
53 12 0.09
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATC
Found at i:1474416 original size:28 final size:28
Alignment explanation
Indices: 1474384--1474455 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1474374 TCACAGTCGA
* * **
1474384 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1474412 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
1474440 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1474456 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1474500 original size:79 final size:78
Alignment explanation
Indices: 1474409--1474587 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 78
1474399 GTTATTTCAT
*
1474409 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCC-GATTTATTCCC-AAATCA
* *
1474473 TCGATTTCTCATAAT
64 TCGATTTCTCACAAC
* * * * * ** *
1474488 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCATC
1 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAATCATC
1474553 GATTTCTCACAAC
66 GATTTCTCACAAC
*
1474566 CGGGGATACTCCAGCCCCGTTA
1 CGGGGATACTCCAACCCCGTTA
1474588 TTTTCAAGGG
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 3 0.03
78 41 0.48
79 42 0.49
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTATTCCCAAATCATC
GATTTCTCACAAC
Found at i:1474588 original size:78 final size:79
Alignment explanation
Indices: 1474409--1474609 Score: 244
Period size: 78 Copynumber: 2.6 Consensus size: 79
1474399 GTTATTTCAT
* * *
1474409 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* *
1474474 CGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
1474488 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
1474551 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
1474566 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
1474610 TCGTTATTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
77 3 0.03
78 59 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1478406 original size:27 final size:27
Alignment explanation
Indices: 1478373--1478445 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
1478363 GAAACTGACA
1478373 GTAGCAAATGAAAGAAATGAAACAACT
1 GTAGCAAATGAAAGAAATGAAACAACT
* * *
1478400 TTAGCAAATGAAAAAAATGAAACAGCT
1 GTAGCAAATGAAAGAAATGAAACAACT
*
1478427 GCAGCAAATGAAAGAAATG
1 GTAGCAAATGAAAGAAATG
1478446 TATAGTAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.55, C:0.11, G:0.19, T:0.15
Consensus pattern (27 bp):
GTAGCAAATGAAAGAAATGAAACAACT
Found at i:1483554 original size:79 final size:79
Alignment explanation
Indices: 1483407--1483634 Score: 245
Period size: 79 Copynumber: 2.9 Consensus size: 79
1483397 AAAAGAATTG
* * * **
1483407 AATTTTTCATATCG-GGAATACTCCAACC-CTGTTATTTCTAAAAGGATACTCCAA-TCCCGCTT
1 AATTTTTCATATCGAGG-ATACTCCAACCTC-GTTATTTCTGAAGGGATAATCCAACT-CCATTT
*
1483469 TCATTTCCAAAATATTA
63 TTATTTCCAAAATATTA
* * *
1483486 CATTTTTCATATCGAGGATACTCCAACCTCGTTATTTCCGAAGGGATAATCTAACTCCATTTTTA
1 AATTTTTCATATCGAGGATACTCCAACCTCGTTATTTCTGAAGGGATAATCCAACTCCATTTTTA
*
1483551 TTTCTAAAATATTA
66 TTTCCAAAATATTA
* * * *
1483565 AATTTTTC---TCGAGGATACTTCAACCTCATTATTTCTGAAGGGATATTCCAACCCCATTTTGT
1 AATTTTTCATATCGAGGATACTCCAACCTCGTTATTTCTGAAGGGATAATCCAACTCCATTTT-T
1483627 -TTTCCAAA
65 ATTTCCAAA
1483635 TACTCTAACC
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
76 53 0.42
77 1 0.01
79 69 0.54
80 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (79 bp):
AATTTTTCATATCGAGGATACTCCAACCTCGTTATTTCTGAAGGGATAATCCAACTCCATTTTTA
TTTCCAAAATATTA
Found at i:1483605 original size:76 final size:77
Alignment explanation
Indices: 1483471--1483634 Score: 215
Period size: 76 Copynumber: 2.1 Consensus size: 77
1483461 TCCCGCTTTC
* *
1483471 ATTTCCAAAATATTACATTTTTCATATCGAGGATACTCCAACCTCGTTATTTCCGAAGGGATAAT
1 ATTTCCAAAATATTAAATTTTTC--ATCGAGGATACTCCAACCTCATTATTTCCGAAGGGATAAT
* *
1483536 CTAACTCCATTTTT
64 CCAACCCCATTTTT
* * * *
1483550 ATTTCTAAAATATTAAATTTTTC-TCGAGGATACTTCAACCTCATTATTTCTGAAGGGATATTCC
1 ATTTCCAAAATATTAAATTTTTCATCGAGGATACTCCAACCTCATTATTTCCGAAGGGATAATCC
1483614 AACCCCATTTTGT
66 AACCCCATTTT-T
1483627 -TTTCCAAA
1 ATTTCCAAA
1483635 TACTCTAACC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 53 0.71
77 1 0.01
79 21 0.28
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (77 bp):
ATTTCCAAAATATTAAATTTTTCATCGAGGATACTCCAACCTCATTATTTCCGAAGGGATAATCC
AACCCCATTTTT
Found at i:1483735 original size:104 final size:102
Alignment explanation
Indices: 1483546--1483738 Score: 232
Period size: 104 Copynumber: 1.9 Consensus size: 102
1483536 CTAACTCCAT
* * * * *
1483546 TTTTATTTCTAAAATATTAAATTTTTCTCGAGGATACTTCAACCTCATTATTTCTGAAGGGATAT
1 TTTTATTTCCAAAATATTAAATTTTTCTCGAGGATACTCCAACCTCATTATTTCTCAAGGGACAC
*
1483611 TCCAACCCCATTTTGTTTTCCAAATACTCTAACCTCG
66 TCCAACCCCATTTTGCTTTCCAAATACTCTAACCTCG
*
1483648 TTTT-TTTCCAAAATATTAAATTTTTCATCGTAGGGATACTCCAACC-CTGTTATTT-TCAAGAG
1 TTTTATTTCCAAAATATTAAATTTTTC-TCG-A-GGATACTCCAACCTC-ATTATTTCTCAAG-G
*
1483710 GACACTCCAACCCTACTTTT-CTTTCCAAA
61 GACACTCCAACCCCA-TTTTGCTTTCCAAA
1483739 ATATAAAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
101 21 0.27
102 7 0.09
103 6 0.08
104 39 0.51
105 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (102 bp):
TTTTATTTCCAAAATATTAAATTTTTCTCGAGGATACTCCAACCTCATTATTTCTCAAGGGACAC
TCCAACCCCATTTTGCTTTCCAAATACTCTAACCTCG
Found at i:1483836 original size:79 final size:77
Alignment explanation
Indices: 1483634--1483884 Score: 256
Period size: 79 Copynumber: 3.2 Consensus size: 77
1483624 TGTTTTCCAA
* * * * *
1483634 ATACTCTAACCTCG-TTTTTTTCCAAAATATTAAATTTTTCATCGTAGGGATACTCCAACCCTGT
1 ATACTCCAACCCCGTTTTTTTTCCAAAATATTAAATTTTTCATCTTAAGGATACTCCAACCCTAT
*
1483698 TATTTTCAAGAGG
66 TATTTT-AAGGGG
* * * * *
1483711 ACACTCCAACCCTAC-TTTTCTTTCCAAAATATAAAATTTTTCATCTTAAGGATACTCTAACCCC
1 ATACTCCAACCC--CGTTTTTTTTCCAAAATATTAAATTTTTCATCTTAAGGATACTCCAACCCT
1483775 ATTATTTCTAAGGGG
64 ATTATTT-TAAGGGG
* * * * * *
1483790 ATACCCCAACCCCGTTTTTATTTCCAAAATGTTAAATTTTTTATCTT-TGGACACTCCATCCCTA
1 ATACTCCAACCCCGTTTTT-TTTCCAAAATATTAAATTTTTCATCTTAAGGATACTCCAACCCTA
*
1483854 TTATTTTTGAGGGG
65 TTA-TTTTAAGGGG
*
1483868 ATACTCCAACGCCGTTT
1 ATACTCCAACCCCGTTT
1483885 CTCTTTGAAT
Statistics
Matches: 142, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
77 10 0.07
78 40 0.28
79 91 0.64
80 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (77 bp):
ATACTCCAACCCCGTTTTTTTTCCAAAATATTAAATTTTTCATCTTAAGGATACTCCAACCCTAT
TATTTTAAGGGG
Found at i:1484105 original size:22 final size:23
Alignment explanation
Indices: 1484058--1484106 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1484048 CGTCCCTTCT
**
1484058 TTTTATGTATCTTTGTGTGTTTA
1 TTTTATGTAAATTTGTGTGTTTA
*
1484081 TTTTATGTAAATTTGT-TTTTTA
1 TTTTATGTAAATTTGTGTGTTTA
1484103 TTTT
1 TTTT
1484107 CCATTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.69
Consensus pattern (23 bp):
TTTTATGTAAATTTGTGTGTTTA
Found at i:1488429 original size:19 final size:20
Alignment explanation
Indices: 1488403--1488457 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
1488393 GTATCAATAC
1488403 ATTGTATCGATACATGCTCA
1 ATTGTATCGATACATGCTCA
*
1488423 A-TGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
1488442 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1488458 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:1497351 original size:13 final size:13
Alignment explanation
Indices: 1497333--1497357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1497323 TACATGGGAC
1497333 ATTGTATCGATAT
1 ATTGTATCGATAT
1497346 ATTGTATCGATA
1 ATTGTATCGATA
1497358 CTTGGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:1502185 original size:11 final size:11
Alignment explanation
Indices: 1502165--1502201 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1502155 AAGTTCAGAT
1502165 GAAA-AGAATC
1 GAAAGAGAATC
1502175 GAAAGAGAATC
1 GAAAGAGAATC
1502186 GAAAGAGAATC
1 GAAAGAGAATC
*
1502197 AAAAG
1 GAAAG
1502202 GAAAGCAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.59, C:0.08, G:0.24, T:0.08
Consensus pattern (11 bp):
GAAAGAGAATC
Found at i:1504089 original size:17 final size:16
Alignment explanation
Indices: 1504063--1504095 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
1504053 TACTATGCTT
1504063 AAAAAAAGTAAAAAAA
1 AAAAAAAGTAAAAAAA
1504079 AAAAGAAAGTAAAAAAA
1 AAAA-AAAGTAAAAAAA
1504096 TTGGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAAGTAAAAAAA
Found at i:1505596 original size:42 final size:42
Alignment explanation
Indices: 1505498--1506757 Score: 349
Period size: 42 Copynumber: 30.2 Consensus size: 42
1505488 CCTGTCAACA
* * * * ** **
1505498 TTGACCCGAGAGACTTCTATATCTTTTGTCTGCCCATCAACT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * *
1505540 TT-AACCTGAGAGACTTCTGTATCCTTTGTCTACTTGTCGGCT
1 TTGACCCT-AGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * *
1505582 TTGACCCTAAAGACTTTTTTA-CCTTTTGTCTACCTGTTGGCT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* * * * * * * * *
1505624 TAGACTCGAGAGACTTCTATATCTTTTGTTTGCCCGTCGACT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * *
1505666 TTGA-CTTAAGAAACTTCTATATCCTTTGTCTACTTGTTGGCT
1 TTGACCCT-AGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * * * * *
1505708 TTGACCTTGGGGACTTTTTTA-CCTTTTGTATGCTTGTCAGCT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* * *
1505750 TTGACCCTGGAGACTTCTTTACCCTTTGCCTACCTGTCGGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * * ** *
1505792 TAGATCCGA-AGACTTATTTATCTTTTGTCGGCCAG-CTGGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTC-GGCT
* * * * * * * *
1505833 TTGACCTTAGAGACTTTTTTA-CCTTTTTTTTGCCTATCGACG
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* ** *
1505875 TTGACCTTAGAGACTTCTTTA-CCTTTTGTCTACCTAACGACT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
** * * **
1505917 TTGACTTTAGAGACTTTTTTACCCTTTGTC--CC-GTTAGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * * * *
1505956 TAGACCCTAGAAACTT-TTT-TGCCTTTTTTCTGCCCGTTGGTT
1 TTGACCCTAGAGACTTCTTTAT-CC-TTTGTCTACCTGTCGGCT
* * * * * * * *
1505998 TTGACTCAAGAGACCTATTTATCTTTTGTCTATCTATTGGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * **
1506040 TTGACCTTGGAGACTTCTTTACCCTTTGTCTGCCCATCGGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * ** **
1506082 TAGACACAAGAGACTTCTTT-TCCTTTTGTCTACCCATCGATT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* * * * **
1506124 TTGA-CCTGGGAGACTTCTTTAGCTTTTGTCTGCCTGTCATCT
1 TTGACCCT-AGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * *
1506166 TTGACCCTAGAGACTTCTTTA-CCTTTTGTTTGCTTGTCGGAT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* * * * *
1506208 TTGACCCTAGAGACTTTTTTACCCTTTGTCTGCCCGTCAGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * * * * * **
1506250 TAGACTCGAGTGATTTTTTTA-CCTTTTCTCTGCCCATCGGCT
1 TTGACCCTAGAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
* * ** * * * * *
1506292 TCGACTCGGGAGACTTTTTTACCCTTTATCT-GCTCGTCAGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCT-GTCGGCT
* * * ** * **
1506334 TT-AACCTAAAGACTTCTTTAACCTTTGTCTACCCATTGATT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * *
1506375 TTAACCTTAAAGACTTTTTTAT-CTCTTGTCTATCTGTCGGCT
1 TTGACCCTAGAGACTTCTTTATCCT-TTGTCTACCTGTCGGCT
* * *
1506417 TTGA-CCTAGGACACTTCTTTACCCTTTGTCT-GCTCGTCGGCT
1 TTGACCCTA-GAGACTTCTTTATCCTTTGTCTACCT-GTCGGCT
* * * * * *
1506459 TTGA-CTTGGGAGACTT-TTACATCCTTTGTTTGCCCGTCGGCT
1 TTGACCCT-AGAGACTTCTT-TATCCTTTGTCTACCTGTCGGCT
* * * ** **
1506501 TTGA-CCTGGGAGACTT-TTACATCCTTTGTCTGCCCATCGATT
1 TTGACCCT-AGAGACTTCTT-TATCCTTTGTCTACCTGTCGGCT
* * * * * * *
1506543 TTGACCCGATAGACTT-TTT-TACTTTTTCTTTGCCTATTGGCT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTC--TACCTGTCGGCT
* * * **
1506585 TTGA-CCTGAGAGACCTT-TTTAT-CTTTGTCTGCCCGTTGAAT
1 TTGACCCT-AGAGA-CTTCTTTATCCTTTGTCTACCTGTCGGCT
* * * * * * *
1506626 TTAACTCGAGAGACTTTTTTA-CTTTTTGTCTACCTGTTGACT
1 TTGACCCTAGAGACTTCTTTATC-CTTTGTCTACCTGTCGGCT
* ** * * * ** *
1506668 TTGACTCGGGATACTTCTTTAT-CTTTGTTTGCCCATCGACT
1 TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
*
1506709 TTGA-CCAAGGAGACTTCTTTA-CCTTTTGTCTACCTGTCGGCT
1 TTGACCCTA-GAGACTTCTTTATCC-TTTGTCTACCTGTCGGCT
*
1506751 TTAACCC
1 TTGACCC
1506758 GTCAGACTTT
Statistics
Matches: 898, Mismatches: 267, Indels: 105
0.71 0.21 0.08
Matches are distributed among these distances:
38 5 0.01
39 19 0.02
40 14 0.02
41 129 0.14
42 685 0.76
43 44 0.05
44 2 0.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (42 bp):
TTGACCCTAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCT
Found at i:1506152 original size:126 final size:126
Alignment explanation
Indices: 1505498--1506459 Score: 463
Period size: 126 Copynumber: 7.7 Consensus size: 126
1505488 CCTGTCAACA
* * * * * ** * * *
1505498 TTGACCCGAGAGACTTCTATATCTTTTGTCTGCCCATCAACTTTAACC-TGAGAGACTTCTGTAT
1 TTGACCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTG-GAGACTTCTTTAC
* * * ** * **
1505562 CCTTTGTCTACTTGTCGGCTTTGACCCTAA-AGACTTTTTTACCTTTTGTCTACCTGTTGGCT
65 CCTTTGTCTGCTCGTCGGCTTAGACCC-AAGAGACTTTTTTACCTTTTGTCTACCCATCGATT
* * * * * ** * * * *
1505624 TAGA-CTCGAGAGACTTCTATATCTTTTGTTTGCCCGTCGACTTTGA-CTTAAGAAACTTCTATA
1 TTGACCT-GAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTT-GGAGACTTCTTTA
* * * * * *** * * * *** *
1505687 TCCTTTGTCTACTTGTTGGCTTTGACCTTGGGGACTTTTTTACCTTTTGTATGCTTGTC-AGCT
64 CCCTTTGTCTGCTCGTCGGCTTAGACCCAAGAGACTTTTTTACCTTTTGTCTACCCATCGA-TT
* * * * * *
1505750 TTGACCCTG-GAGACTTCTTTACCCTTTGCCTACCTGTCGGCTTAGATCC--GAAGACTTATTTA
1 TTGA-CCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGA-CCTTGGAGACTTCTTTA
* * * * ** * * * * **
1505812 TCTTTTGTCGGC-CAG-CTGGCTTTGACCTTAGAGACTTTTTTACCTTTTTTTTGCCTATCGACG
64 CCCTTTGTCTGCTC-GTC-GGCTTAGACCCAAGAGACTTTTTTACCTTTTGTCTACCCATCGATT
* * * * * *
1505875 TTGACCTTAGAGACTTCTTTACCTTTTGTCTACCTAACGACTTTGACTTTAGAGACTTTTTTACC
1 TTGACCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTGGAGACTTCTTTACC
** * * * * * * * *
1505940 CTTTGTC--C-CGTTAGCTTAGACCCTAGAAACTTTTTTGCCTTTTTTCTGCCCGTTGGTT
66 CTTTGTCTGCTCGTCGGCTTAGACCCAAGAGACTTTTTTACCTTTTGTCTACCCATCGATT
* * * * * *
1505998 TTGA-CTCAAGAGACCTATTTATCTTTTGTCTATCTATTGGCTTTGACCTTGGAGACTTCTTTAC
1 TTGACCT-GAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTGGAGACTTCTTTAC
* * *
1506062 CCTTTGTCTGCCCATCGGCTTAGACACAAGAGACTTCTTTT-CCTTTTGTCTACCCATCGATT
65 CCTTTGTCTGCTCGTCGGCTTAGACCCAAGAGACTT-TTTTACCTTTTGTCTACCCATCGATT
* * * * ** * *
1506124 TTGACCTGGGAGACTTCTTTAGCTTTTGTCTGCCTGTCATCTTTGACCCTAGAGACTTCTTTACC
1 TTGACCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTGGAGACTTCTTTACC
* * * * * * * * * *
1506189 TTTTGTTTGCTTGTCGGATTTGACCCTAGAGACTTTTTTACCCTTTGTCTGCCCGTC-AGCT
66 CTTTGTCTGCTCGTCGGCTTAGACCCAAGAGACTTTTTTACCTTTTGTCTACCCATCGA-TT
* * * * * * * * * *
1506250 TAGA-CTCGAGTGATTTTTTTACCTTTTCTCTGCCCATCGGCTTCGA-CTCGGGAGACTTTTTTA
1 TTGACCT-GAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCT-TGGAGACTTCTTTA
* * * * *
1506313 CCCTTTATCTGCTCGTCAGCTTTA-ACCTAA-AGACTTCTTTAACC-TTTGTCTACCCATTGATT
64 CCCTTTGTCTGCTCGTCGGC-TTAGACCCAAGAGACTT-TTTTACCTTTTGTCTACCCATCGATT
* * * * * * * * * *
1506375 TTAACCTTAAAGACTTTTTTATCTCTTGTCTATCTGTCGGCTTTGACCTAGGACACTTCTTTACC
1 TTGACCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTGGAGACTTCTTTACC
1506440 CTTTGTCTGCTCGTCGGCTT
66 CTTTGTCTGCTCGTCGGCTT
1506460 TGACTTGGGA
Statistics
Matches: 636, Mismatches: 169, Indels: 64
0.73 0.19 0.07
Matches are distributed among these distances:
122 2 0.00
123 93 0.15
124 8 0.01
125 177 0.28
126 344 0.54
127 9 0.01
128 3 0.00
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (126 bp):
TTGACCTGAGAGACTTCTTTACCTTTTGTCTACCTATCGGCTTTGACCTTGGAGACTTCTTTACC
CTTTGTCTGCTCGTCGGCTTAGACCCAAGAGACTTTTTTACCTTTTGTCTACCCATCGATT
Found at i:1506670 original size:83 final size:81
Alignment explanation
Indices: 1506499--1506745 Score: 253
Period size: 83 Copynumber: 3.0 Consensus size: 81
1506489 TGCCCGTCGG
* * *
1506499 CTTTGACCTGGGAGACTTTTACATCCTTTGTCTGCCCATCGATTTTGACCCGATAGACTTTTTTA
1 CTTTGACCTGGGAGACTTTT-TAT-CTTTGTCTGCCCATCGAATTTGA-CCGAGAGACTTTTTTA
* * * * *
1506564 CTTTTTCTTTGCCTATTGG
63 CTTTTTGTCTACCTGTTGA
* * * *
1506583 CTTTGACCTGAGAGACCTTTTTATCTTTGTCTGCCCGTTGAATTTAACTCGAGAGACTTTTTTAC
1 CTTTGACCTGGGAGA-CTTTTTATCTTTGTCTGCCCATCGAATTTGAC-CGAGAGACTTTTTTAC
1506648 TTTTTGTCTACCTGTTGA
64 TTTTTGTCTACCTGTTGA
* * * * *
1506666 CTTTGA-CTCGGGATACTTCTTTATCTTTGTTTGCCCATCGACTTTGACCAAGGAGACTTCTTTA
1 CTTTGACCT-GGGAGACTT-TTTATCTTTGTCTGCCCATCGAATTTGACCGA-GAGACTTTTTTA
*
1506730 CCTTTTGTCTACCTGT
63 CTTTTTGTCTACCTGT
1506746 CGGCTTTAAC
Statistics
Matches: 136, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
82 8 0.06
83 107 0.79
84 16 0.12
85 5 0.04
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (81 bp):
CTTTGACCTGGGAGACTTTTTATCTTTGTCTGCCCATCGAATTTGACCGAGAGACTTTTTTACTT
TTTGTCTACCTGTTGA
Found at i:1506772 original size:83 final size:83
Alignment explanation
Indices: 1506595--1506777 Score: 188
Period size: 83 Copynumber: 2.2 Consensus size: 83
1506585 TTGACCTGAG
* * * * * *
1506595 AGACCTTTTTATCTTTGTCTGCCCGTTGAATTTAACTCGAGAGACTTTTTTACTTTTTGTCTACC
1 AGACTTTTTTATCTTTGTCTGCCCATCGAATTTAACTCAAGAGACTTCTTTACCTTTTGTCTACC
* * * *
1506660 TGTTGACTTTGACTCGGG
66 TGTCGACTTTAACCCGGC
* * * * *
1506678 ATACTTCTTTATCTTTGTTTGCCCATCGACTTTGAC-CAAGGAGACTTCTTTACCTTTTGTCTAC
1 AGACTTTTTTATCTTTGTCTGCCCATCGAATTTAACTCAA-GAGACTTCTTTACCTTTTGTCTAC
* *
1506742 CTGTCGGCTTTAACCCGTC
65 CTGTCGACTTTAACCCGGC
1506761 AGACTTTTTTATTCTTT
1 AGACTTTTTTA-TCTTT
1506778 ACTTACATGA
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
82 2 0.03
83 72 0.91
84 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (83 bp):
AGACTTTTTTATCTTTGTCTGCCCATCGAATTTAACTCAAGAGACTTCTTTACCTTTTGTCTACC
TGTCGACTTTAACCCGGC
Found at i:1507864 original size:13 final size:13
Alignment explanation
Indices: 1507846--1507871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1507836 AATTTTTTTG
1507846 TGTATCGATACAT
1 TGTATCGATACAT
1507859 TGTATCGATACAT
1 TGTATCGATACAT
1507872 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1510441 original size:13 final size:13
Alignment explanation
Indices: 1510423--1510460 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1510413 ATAATCCCCC
1510423 TGTATCGATACAG
1 TGTATCGATACAG
*
1510436 TGTATCGATACAT
1 TGTATCGATACAG
1510449 TGTATCGATACA
1 TGTATCGATACA
1510461 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1512563 original size:15 final size:15
Alignment explanation
Indices: 1512543--1512573 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1512533 ATTTCGTTTG
*
1512543 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1512558 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1512573 G
1 G
1512574 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1516057 original size:19 final size:18
Alignment explanation
Indices: 1515999--1516057 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
1515989 TACAAGCCAA
*
1515999 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA---TTTGG
*
1516020 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1516039 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1516058 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 12 0.36
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1517046 original size:69 final size:69
Alignment explanation
Indices: 1516897--1517046 Score: 219
Period size: 69 Copynumber: 2.2 Consensus size: 69
1516887 ACATGAAATT
* * * ** *
1516897 AAAGCAATTAACCTGCTGAACAAGAAGAAGAAATGCATGAAAGAAAAAATAATTAAGCTACAAAA
1 AAAGCAATTAAGCTGATGAACAAGAAGAAAAAACACATGAAAGAAAAAATAATTAAGCAACAAAA
1516962 TGAA
66 TGAA
* * *
1516966 AAAGCAATTAAGCTGATGAATAAGGAGAAAAAACACATGAAAGAAAAAGTAATTAAGCAACAAAA
1 AAAGCAATTAAGCTGATGAACAAGAAGAAAAAACACATGAAAGAAAAAATAATTAAGCAACAAAA
1517031 TGAA
66 TGAA
1517035 AAAGCAATTAAG
1 AAAGCAATTAAG
1517047 TAGTAGCAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.58, C:0.10, G:0.17, T:0.15
Consensus pattern (69 bp):
AAAGCAATTAAGCTGATGAACAAGAAGAAAAAACACATGAAAGAAAAAATAATTAAGCAACAAAA
TGAA
Found at i:1517079 original size:27 final size:27
Alignment explanation
Indices: 1517049--1517177 Score: 128
Period size: 27 Copynumber: 4.9 Consensus size: 27
1517039 CAATTAAGTA
1517049 GTAGCAAATGAAAGAAATGAAACAGTT
1 GTAGCAAATGAAAGAAATGAAACAGTT
* *
1517076 GTAG----T-AAAG-AA-GAAACTAATA
1 GTAGCAAATGAAAGAAATGAAAC-AGTT
1517097 GTAGCAAATGAAAGAAATGAAACAGTT
1 GTAGCAAATGAAAGAAATGAAACAGTT
* *
1517124 GTAGCAAATGAAAGAAATGAAATAGCT
1 GTAGCAAATGAAAGAAATGAAACAGTT
* *
1517151 GCAGCAAATGAAAAAAATAGACAACAG
1 GTAGCAAATGAAAGAAAT-GA-AACAG
1517178 CTCAAAGGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 18
0.75 0.08 0.16
Matches are distributed among these distances:
20 5 0.06
21 8 0.10
22 4 0.05
23 1 0.01
25 1 0.01
26 4 0.05
27 49 0.59
28 7 0.08
29 4 0.05
ACGTcount: A:0.54, C:0.09, G:0.21, T:0.16
Consensus pattern (27 bp):
GTAGCAAATGAAAGAAATGAAACAGTT
Found at i:1518115 original size:29 final size:29
Alignment explanation
Indices: 1518070--1518129 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
1518060 ATTTTATTGA
1518070 TTAAGGACTAAAATGCAAACAT-TGAAAAT
1 TTAAGGACTAAAATGCAAA-ATGTGAAAAT
* *
1518099 TTAAGGATTAAATTGCAAAATGTGAAAAT
1 TTAAGGACTAAAATGCAAAATGTGAAAAT
1518128 TT
1 TT
1518130 TTGATTCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (29 bp):
TTAAGGACTAAAATGCAAAATGTGAAAAT
Found at i:1521259 original size:13 final size:13
Alignment explanation
Indices: 1521241--1521271 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1521231 ACAATTCATC
1521241 ATGTATCGATACA
1 ATGTATCGATACA
*
1521254 ATGTATCGATATA
1 ATGTATCGATACA
1521267 ATGTA
1 ATGTA
1521272 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1521261 original size:33 final size:33
Alignment explanation
Indices: 1521219--1521284 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1521209 CCATTACAAG
*
1521219 CAATATATCGATACAAT-TCATCATGTATCGATA
1 CAATATATCGATACAATGT-ACCATGTATCGATA
* *
1521252 CAATGTATCGATATAATGTACCATGTATCGATA
1 CAATATATCGATACAATGTACCATGTATCGATA
1521285 TAAATAGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATATATCGATACAATGTACCATGTATCGATA
Found at i:1521984 original size:24 final size:25
Alignment explanation
Indices: 1521933--1521987 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1521923 CCTAGATTAT
*
1521933 AAATTCTCCCCCTTAATCAAAGTAA
1 AAATTCTCCCCCTTAAACAAAGTAA
*
1521958 AAATTCTCCCCCTTAAACAAAGGAA
1 AAATTCTCCCCCTTAAACAAAGTAA
1521983 AAATT
1 AAATT
1521988 TATCTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.25
Consensus pattern (25 bp):
AAATTCTCCCCCTTAAACAAAGTAA
Found at i:1530098 original size:20 final size:20
Alignment explanation
Indices: 1530073--1530126 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1530063 ATTACAAGCA
* *
1530073 ATGTATCAATACAAT-TCATC
1 ATGTATCGATACAATAT-ACC
1530093 ATGTATCGATACAATATACC
1 ATGTATCGATACAATATACC
1530113 ATGTATCGATACAA
1 ATGTATCGATACAA
1530127 ACAGTGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:1531411 original size:20 final size:20
Alignment explanation
Indices: 1531386--1531424 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1531376 TATACTATCA
*
1531386 TGTTGCTACATCAAAAAAGT
1 TGTTGCTACACCAAAAAAGT
*
1531406 TGTTGCTGCACCAAAAAAG
1 TGTTGCTACACCAAAAAAG
1531425 CTTTCTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
TGTTGCTACACCAAAAAAGT
Found at i:1540790 original size:61 final size:61
Alignment explanation
Indices: 1540661--1540868 Score: 319
Period size: 61 Copynumber: 3.4 Consensus size: 61
1540651 CTCTTTTAGC
* * * * *
1540661 CCTTCTAGACCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCTACACAAGTTGGTGGCA
1540723 CCTT-TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
* * * *
1540783 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCTACACAAGTTGGTAGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1540844 CCTTCTAGTCCTCAAAGAGCAGGAC
1 CCTTCTAGTCCTCAAAGAGCAGGAC
1540869 GCTCTCTCCT
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
60 25 0.18
61 107 0.79
62 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
Found at i:1540946 original size:55 final size:55
Alignment explanation
Indices: 1540881--1541248 Score: 429
Period size: 55 Copynumber: 6.5 Consensus size: 55
1540871 TCTCTCCTTT
* *
1540881 CACCCTTTAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
1540936 CACCTTTTAGTCCTCAAAGAGTAGGGCGTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
1540991 CACTTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCGCACACGAGTTGGTGG
1 CAC-CTTT-TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
*
1541054 CA--TTTTCCAG-CCTTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTT--AGTCC-TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
1541109 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
1541164 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTCAAAGCCCACACAAGTTGGTGG
*
1541220 CA-CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CACCTT-TTAGTCCTCAAAGAGCAGGACGC
1541249 TCTCTCTTTT
Statistics
Matches: 270, Mismatches: 27, Indels: 31
0.82 0.08 0.09
Matches are distributed among these distances:
55 146 0.54
56 51 0.19
57 22 0.08
58 3 0.01
59 2 0.01
60 8 0.03
61 17 0.06
63 21 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:1541092 original size:118 final size:110
Alignment explanation
Indices: 1540888--1541248 Score: 451
Period size: 118 Copynumber: 3.2 Consensus size: 110
1540878 TTTCACCCTT
* *
1540888 TAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCA
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCA
* * *
1540952 AAGAGTAGGGCGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTC
65 AAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC--TTTC
* * *
1541000 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCGCACACGAGTTGGTGGCA-TTTTCCAG
1 TAGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAG
* *
1541064 -CCTTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
59 TCC-TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
1541117 -AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA
* *
1541181 AGAGCAGGATGCCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
66 AGAGCAGGACGCC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTC
1541227 TAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
1541249 TCTCTCTTTT
Statistics
Matches: 216, Mismatches: 19, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
110 48 0.22
111 52 0.24
112 18 0.08
113 1 0.00
115 1 0.00
116 22 0.10
117 6 0.03
118 67 0.31
119 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (110 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA
AGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:1541115 original size:29 final size:28
Alignment explanation
Indices: 1541082--1541172 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
1541072 AAGCAGGACG
1541082 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACA-AAGTTGGTGGCA
* * * ** *
1541111 CCTTTC--AGTCCTCAAAG-AGCAGGACG
1 CCTTTCAAAGCCCACAAAGTTGGTGG-CA
*
1541137 CCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAAAGCCCACA-AAGTTGGTGGCA
1541166 CCTTTCA
1 CCTTTCA
1541173 GTCCTCAAAG
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 9 0.21
27 6 0.14
28 6 0.14
29 16 0.37
30 3 0.07
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAAGTTGGTGGCA
Found at i:1541335 original size:95 final size:96
Alignment explanation
Indices: 1541166--1541343 Score: 306
Period size: 95 Copynumber: 1.9 Consensus size: 96
1541156 GTTGGTGGCA
*
1541166 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1541231 CCTCAAAGAGCAGGACGCTCTCTCTTTTCAC
66 CCTCAAAGAGCAGGACGCTCTCTCTTTTCAC
* *
1541262 CCTTT-AGTCCTCAAAGAGCAGGACG-CTTTTTAAAGCCCACACAAGTTGGTGTCACTTTTCTAG
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAG
1541325 TCCTCAAAGAGCAGGACGC
65 TCCTCAAAGAGCAGGACGC
1541344 CTTTTCCTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
94 29 0.37
95 44 0.56
96 5 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (96 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
CCTCAAAGAGCAGGACGCTCTCTCTTTTCAC
Found at i:1541401 original size:61 final size:61
Alignment explanation
Indices: 1541267--1541529 Score: 323
Period size: 61 Copynumber: 4.4 Consensus size: 61
1541257 TTCACCCTTT
* *
1541267 AGTCCTCAAAGAGCAGGACG-C--T--TTTTAAAGCCCACACAAGTTGGTGTCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
*
1541323 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * * * * *
1541384 AGTCCTCAAAGAACAGGACGCCATTCTCTTTTAAAGCCCACATAAGCTGGTAGCACCTTT--
1 AGTCCTCAAAGAGCAGGACGCCTTTC-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
*
1541444 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC--TTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
1541504 TAGTCCTCAAAGAGCAGGACG-CTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTC
1541530 TCCCTTCGCC
Statistics
Matches: 178, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
56 20 0.11
57 1 0.01
58 2 0.01
59 4 0.02
60 51 0.29
61 72 0.40
62 28 0.16
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:1541463 original size:121 final size:123
Alignment explanation
Indices: 1541289--1541525 Score: 365
Period size: 121 Copynumber: 1.9 Consensus size: 123
1541279 GCAGGACGCT
* *
1541289 TTTTAAAGCCCACACAAGTTGGTGTCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
1 TTTTAAAGCCCACACAAGCTGGTGTCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
*
1541354 CAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAACAGGACGCCATTCTC
66 CAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAACAGGACGCCATTCTC
* *
1541412 TTTTAAAGCCCACATAAGCTGGTAG-CAC-CTT-TAGTCCTCAAAGAGTAGGACGCCTTTTCCTT
1 TTTTAAAGCCCACACAAGCTGGT-GTCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* *
1541474 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
65 TCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAACAGGACGC
1541526 TTTCTCCCTT
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
120 4 0.04
121 74 0.70
122 2 0.02
123 24 0.23
124 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (123 bp):
TTTTAAAGCCCACACAAGCTGGTGTCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAACAGGACGCCATTCTC
Found at i:1541591 original size:215 final size:214
Alignment explanation
Indices: 1541349--1541737 Score: 527
Period size: 215 Copynumber: 1.8 Consensus size: 214
1541339 GACGCCTTTT
* *
1541349 CCTTTCAAAGCCCACACAAGTTGGTGGCAT-TTTCCAGTCCTCAAAGAACAGGACGCCATTCT-C
1 CCTTTCAAAGCCCACACAAGCTGGTGGC-TCCTT-CAGTCCTCAAAGAACAGGACGCC-TTCTCC
* * * *
1541412 TTTTAAAGCCCACATAAGCTGGTAGCACCTTT-AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT
63 TTTTAAAGCCCACACAAGCTGGTAGCACCTTTCAATCCTCAAAGAGCAAGACG-C-TTTCCTTTT
1541476 -AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTTTCTCCCTTCGC
126 CAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCTTTCTCCCTTCGC
1541539 CTTTTTGTCCTCAAAGAGCAAGATG
190 CTTTTTGTCCTCAAAGAGCAAGATG
* ** *
1541564 CCTTTTAAAGCCCACACAAGCTGGTGGCTCCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTT
1 CCTTTCAAAGCCCACACAAGCTGGTGGCTCCTTCAGTCCTCAAAGAACAGGACGCCTTCTCCTTT
* * * * *
1541629 TAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGAGCAAGATGCTTTCTTTTTGCAAA
66 TAAAGCCCACACAAGCTGGTAGCACCTTTCAATCCTCAAAGAGCAAGACGCTTTCCTTTT-CAAA
* *
1541694 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTTAAAGGGCAGGA
130 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1541738 TGCCTTTTCT
Statistics
Matches: 151, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
213 12 0.08
214 51 0.34
215 83 0.55
216 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (214 bp):
CCTTTCAAAGCCCACACAAGCTGGTGGCTCCTTCAGTCCTCAAAGAACAGGACGCCTTCTCCTTT
TAAAGCCCACACAAGCTGGTAGCACCTTTCAATCCTCAAAGAGCAAGACGCTTTCCTTTTCAAAG
CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCCTTCGCCTTTTT
GTCCTCAAAGAGCAAGATG
Found at i:1541637 original size:60 final size:61
Alignment explanation
Indices: 1541564--1541798 Score: 291
Period size: 61 Copynumber: 3.9 Consensus size: 61
1541554 GAGCAAGATG
* * * *
1541564 CCTTTT-AAAGCCCACACAAGCTGGTGGCTC-CTTCAGTCCTCAAAGAGTAGGATGCCTTCT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAATCCTCAAAGAGCAGGATGCCTT-T
* *
1541624 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGAGCAAGATG-CTTT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAATCCTCAAAGAGCAGGATGCCTTT
* * * *
1541683 CTTTTTGCAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTTAAAGGGCAGGATGCCTTT
1 CCTTTT-CAAAGCCCACACAAGTTGGTGGCACTCTT-CAATCCTCAAAGAGCAGGATGCCTTT
* * *
1541745 TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAATCCTCAAAGAGCAGGA
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAATCCTCAAAGAGCAGGA
1541799 CACACTTCCT
Statistics
Matches: 150, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
59 6 0.04
60 33 0.22
61 101 0.67
62 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
CCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCAATCCTCAAAGAGCAGGATGCCTTT
Found at i:1541768 original size:122 final size:115
Alignment explanation
Indices: 1541546--1541795 Score: 358
Period size: 122 Copynumber: 2.1 Consensus size: 115
1541536 CGCCTTTTTG
*
1541546 TCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGCTGGTGGCTCCTTCAGTCCTCAAAGAG
1 TCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAG
*
1541611 TAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
66 CAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
*
1541661 TCCTCAAAGAGCAAGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
1 TCCTCAAAGAGCAAGATGC---C-TTTT--AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCT
* * * *
1541726 TAAAGGGCAGGATGCCTT-TTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAA
59 CAAAGAGCAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAA
1541783 TCCTCAAAGAGCA
1 TCCTCAAAGAGCA
1541796 GGACACACTT
Statistics
Matches: 120, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
115 19 0.16
118 1 0.01
119 4 0.03
121 31 0.26
122 65 0.54
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (115 bp):
TCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAG
CAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAA
Found at i:1542019 original size:41 final size:40
Alignment explanation
Indices: 1541932--1542030 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
1541922 ATGGGACGTA
* * *
1541932 CTCTTTTTCACTTTGTCCTCAAGAAGTAGGACACTTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCATT
*
1541973 TTCTTTTTCCTTTGTCCTCAA-AGAGCAAGAC-CTATTTCATT
1 CTCTTTTTCCTTTGTCCTCAAGA-AGCAAGACAC--TTTCATT
1542014 CTC-TTTTCCTTTGTCCT
1 CTCTTTTTCCTTTGTCCT
1542031 AAAAAAGTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 32 0.64
41 16 0.32
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.45
Consensus pattern (40 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCATT
Found at i:1542060 original size:41 final size:39
Alignment explanation
Indices: 1541936--1542060 Score: 92
Period size: 40 Copynumber: 3.1 Consensus size: 39
1541926 GACGTACTCT
* * *
1541936 TTTTCACTTTGTCCTCAAGAAGTAGGACA-CTTTCCTTTTC
1 TTTTC-CTTTGTCCT-AAAAAGTGGGACACCTTTCCATTTC
* * ** * *
1541976 TTTTTCCTTTGTCCT-CAAAGAGCAAGACCTATTTCATTCTC
1 -TTTTCCTTTGTCCTAAAAAGTGGGACACCT-TTCCATT-TC
1542017 TTTTCCTTTGTCCTAAAAAAGTGGGACACCTCTTCCATTTC
1 TTTTCCTTTGTCCT-AAAAAGTGGGACACCT-TTCCATTTC
1542058 TTT
1 TTT
1542061 CCCCTCCTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
38 5 0.08
39 2 0.03
40 28 0.44
41 12 0.19
42 16 0.25
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (39 bp):
TTTTCCTTTGTCCTAAAAAGTGGGACACCTTTCCATTTC
Found at i:1542664 original size:20 final size:21
Alignment explanation
Indices: 1542619--1542666 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1542609 TTTTCACAAT
*
1542619 TTGTATCGATACATTGTTCAA
1 TTGTATCGATACATTATTCAA
1542640 TTGTATCGATACATTATTC-A
1 TTGTATCGATACATTATTCAA
1542660 TTGTATC
1 TTGTATC
1542667 TATCGCGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (21 bp):
TTGTATCGATACATTATTCAA
Found at i:1543729 original size:79 final size:79
Alignment explanation
Indices: 1543637--1543842 Score: 297
Period size: 79 Copynumber: 2.6 Consensus size: 79
1543627 AGATAATAAT
*
1543637 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCGATTATGA-ACAATCAATAT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGA-AATCAATAT
* * *
1543701 TTTTGGAATAAAGCC
65 TTTAGAAATAAAACC
* * * *
1543716 GGGGCTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATT
1543781 TTAGAAATAAAACC
66 TTAGAAATAAAACC
* * *
1543795 GGGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1543843 GATTAACGGG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
79 111 0.99
80 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATT
TTAGAAATAAAACC
Found at i:1555126 original size:79 final size:78
Alignment explanation
Indices: 1555042--1555296 Score: 339
Period size: 79 Copynumber: 3.2 Consensus size: 78
1555032 AGATAATAAT
* * *
1555042 GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAACAATCAATATT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAA-AATCAATATT
*
1555107 TTTGGAATAAAGCC
65 TTTGGAATAAAACC
*
1555121 GGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAATCAATATT
* *
1555186 TTAGAAATAAAACC
65 TTTGGAATAAAACC
* * ** *
1555200 GGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATCGTGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTG-AAAATCAATATT
*
1555265 TTTGGAAATAAAATC
65 TTTGG-AATAAAACC
* *
1555280 AGAGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1555297 GATTATAGAA
Statistics
Matches: 154, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
79 130 0.84
80 24 0.16
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAATCAATATTT
TTGGAATAAAACC
Found at i:1555345 original size:51 final size:51
Alignment explanation
Indices: 1555227--1555392 Score: 163
Period size: 51 Copynumber: 3.2 Consensus size: 51
1555217 TCGGAAATAA
** * * ** * **
1555227 CGGGGTTGGAGTATCCCCGATCGTGAAAAATTGATGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-ACTTTAGAAATAAAGC
* * * * * *
1555279 CAGAGTTGGAGTATCCCCGATTAT-AGAAAATTGATGCTTTAGAAATGAGGC
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATTAATACTTTAGAAATAAAGC
*
1555330 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATACTTTAGAAATAAAGC
1555381 CGGGGTTGGAGT
1 CGGGGTTGGAGT
1555393 GTCCTCTCGA
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
51 63 0.68
52 30 0.32
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATACTTTAGAAATAAAGC
Found at i:1555617 original size:51 final size:51
Alignment explanation
Indices: 1555493--1555617 Score: 187
Period size: 51 Copynumber: 2.5 Consensus size: 51
1555483 AACGGGGTTT
* * *
1555493 GAGTATCCCCAATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCAGAGTTG
1 GAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCAGAGTTG
* * * *
1555544 GAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCAGAGTTG
1555595 GAGTATCCCCGATTGTGAAAAAT
1 GAGTATCCCCGATTGTGAAAAAT
1555618 TGAGAAACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCAGAGTTG
Found at i:1557966 original size:34 final size:33
Alignment explanation
Indices: 1557924--1557988 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
1557914 AACTTCCTAG
*
1557924 ATGTATCGATACAAAGAATAGATGTATCGATAGA
1 ATGTATCGATACAAAGAA-AAATGTATCGATAGA
*
1557958 ATGTATCGATACACAGAAAAATGTATCGATA
1 ATGTATCGATACAAAGAAAAATGTATCGATA
1557989 CATTTCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATAGA
Found at i:1558046 original size:19 final size:20
Alignment explanation
Indices: 1558022--1558075 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1558012 AGCGATACAT
*
1558022 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
1558041 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
1558062 TGTATCGATACAAA
1 TGTATCGATACAAA
1558076 TTATTGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:1558420 original size:19 final size:19
Alignment explanation
Indices: 1558396--1558470 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1558386 GTTTACCCAG
1558396 ATGTATCGATACATTGTAA
1 ATGTATCGATACATTGTAA
*
1558415 ATGTATCGATACATTGCTCA
1 ATGTATCGATACATTG-TAA
* *
1558435 TTGTATCGATACATTTTTACA
1 ATGTATCGATACA-TTGTA-A
1558456 ATGTATCGATACATT
1 ATGTATCGATACATT
1558471 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
19 16 0.33
20 17 0.35
21 15 0.31
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTGTAA
Found at i:1560832 original size:51 final size:51
Alignment explanation
Indices: 1560767--1560884 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
1560757 ATTTTTCATC
* * * **
1560767 TCGGTGATACTCCAA-TCCCGGTTTCATTTCCAAAACATTC-ATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTCATTTCCAAAACA-CCAATTTTTCACAA
* * *
1560818 TTGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACACCAATTTTTCACAA
1560869 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
1560885 CCAGTTATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.02
51 54 0.96
52 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACACCAATTTTTCACAA
Found at i:1560930 original size:28 final size:27
Alignment explanation
Indices: 1560871--1560941 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
1560861 TTTCACAATC
1560871 GGGGATACTCCAACCCAGTTATTTCATT
1 GGGGATACTCCAACCCAGTTATTT-ATT
*
1560899 GGGGATACTCCAACCCCGTTATTT-TT
1 GGGGATACTCCAACCCAGTTATTTATT
*
1560925 GAGGGGATACTTCAACC
1 --GGGGATACTCCAACC
1560942 TCGGCTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
28 37 0.95
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGGATACTCCAACCCAGTTATTTATT
Found at i:1561076 original size:158 final size:159
Alignment explanation
Indices: 1560896--1561182 Score: 420
Period size: 158 Copynumber: 1.8 Consensus size: 159
1560886 CAGTTATTTC
* * *
1560896 ATTGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTTCAA-CCTCGGCTTTA-TTTCTAAA
1 ATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCT-GACTTTATTTTC-AAA
* * *
1560959 ATATTAA-TTTCTCACAATCGGGGATACTCCAACCTCGTTATTTTCGCA-GGGATACTCCAACCC
64 ACACTAATTTTC-CACAATCGGGGATACTCCAACCTCGTTATTTTCGAAGGGGATACTCCAACCC
1561022 TGGCCTTATTTCTAAAGCATCAATTTTTCATA
128 TGGCCTTATTTCTAAAGCATCAATTTTTCATA
* * *
1561054 ATTGGGGATACTCTAATCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAAC
1 ATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTTCAAAAC
* *
1561119 ACTGATTTTCCATAATCGGGGATACTCCAACCTCGTTATTTTCGAAGGGGATACTCCAACCCTG
66 ACTAATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAAGGGGATACTCCAACCCTG
1561183 ATTTTATTCT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
158 86 0.75
159 28 0.25
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (159 bp):
ATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTTCAAAAC
ACTAATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAAGGGGATACTCCAACCCTGG
CCTTATTTCTAAAGCATCAATTTTTCATA
Found at i:1561197 original size:80 final size:79
Alignment explanation
Indices: 1560899--1561228 Score: 343
Period size: 79 Copynumber: 4.2 Consensus size: 79
1560889 TTATTTCATT
* * * * *
1560899 GGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTTCAA-CCTCGGCTTTATTTCTAAAATAT
1 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCT-GACTTTATTTCTAAAACAT
* * *
1560963 -TAATTTCTCACAATC
65 CGATTTTC-CATAATC
* * *
1560978 GGGGATACTCCAACCTCGTTATTTTCGCA-GGGATACTCCAACCCTGGCCTTATTTCTAAAGCAT
1 GGGGATACTCCAACCTCGTTATTTTCG-AGGGGATACTCCAACCCTGACTTTATTTCTAAAACAT
* * *
1561042 CAATTTTTCATAATT
65 CGATTTTCCATAATC
* *
1561057 GGGGATACTCTAATCC-CGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTT-TCAAAACA
1 GGGGATACTCCAA-CCTCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTCT-AAAACA
1561120 -CTGATTTTCCATAATC
64 TC-GATTTTCCATAATC
* *
1561136 GGGGATACTCCAACCTCGTTATTTTCGAAGGGGATACTCCAACCCTGATTTTA-TTCTCAAAACG
1 GGGGATACTCCAACCTCGTTATTTTCG-AGGGGATACTCCAACCCTGACTTTATTTCT-AAAACA
1561200 TCGA-TTTCCTATAATC
64 TCGATTTTCC-ATAATC
*
1561216 AAGGGATACTCCA
1 -GGGGATACTCCA
1561229 GCCCCGTTGT
Statistics
Matches: 216, Mismatches: 22, Indels: 24
0.82 0.08 0.09
Matches are distributed among these distances:
78 5 0.02
79 149 0.69
80 50 0.23
81 12 0.06
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTTCTAAAACATC
GATTTTCCATAATC
Found at i:1572288 original size:21 final size:20
Alignment explanation
Indices: 1572258--1572296 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1572248 CACATTTTTG
1572258 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
*
1572278 TCTAGAATGTATCGGTACA
1 TCTA-AATGTATCGATACA
1572297 AGGTCCCAAC
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:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:1572352 original size:13 final size:13
Alignment explanation
Indices: 1572334--1572390 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1572324 TTCAACAATT
1572334 TGTATCGATACAA
1 TGTATCGATACAA
1572347 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
1572362 GTGTTGTATCGATATAA
1 ----TGTATCGATACAA
1572379 TGTATCGATACA
1 TGTATCGATACA
1572391 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1572371 original size:19 final size:18
Alignment explanation
Indices: 1572347--1572409 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1572337 ATCGATACAA
1572347 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1572366 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
1572379 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1572398 TGTATCGATACA
1 TGTATCGATACA
1572410 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 21 0.55
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1572374 original size:32 final size:32
Alignment explanation
Indices: 1572333--1572417 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
1572323 TTTCAACAAT
1572333 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
1572365 TTGTATCGATATAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1572397 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1572418 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1577893 original size:12 final size:12
Alignment explanation
Indices: 1577876--1577907 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1577866 CTCGAGCGAC
1577876 GATTAGTCATAG
1 GATTAGTCATAG
1577888 GATTAGTCATAG
1 GATTAGTCATAG
1577900 GATTAGTC
1 GATTAGTC
1577908 GTATGCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (12 bp):
GATTAGTCATAG
Found at i:1578167 original size:13 final size:13
Alignment explanation
Indices: 1578149--1578179 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1578139 ATATTCTAAA
1578149 ATAAATTTGTTTT
1 ATAAATTTGTTTT
1578162 ATAAATTTGTTTT
1 ATAAATTTGTTTT
1578175 ATAAA
1 ATAAA
1578180 AAGGGATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (13 bp):
ATAAATTTGTTTT
Found at i:1584142 original size:20 final size:18
Alignment explanation
Indices: 1584108--1584155 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
1584098 TTTTCGCAAC
1584108 ATCATCATCCAGTCAACCCA
1 ATCATCA-CCAGTC-ACCCA
*
1584128 ATCATCACCATGTCAGCCA
1 ATCATCACCA-GTCACCCA
*
1584147 ACCATCACC
1 ATCATCACC
1584156 TACCACGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.33, C:0.42, G:0.06, T:0.19
Consensus pattern (18 bp):
ATCATCACCAGTCACCCA
Found at i:1591699 original size:42 final size:42
Alignment explanation
Indices: 1591631--1591762 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
1591621 TCACTCTTCC
* * *
1591631 ATCT-TCTTCTCTCCTCCTCCTGTCATCCCTCCTCTCTCTATT
1 ATCTCTCTTGTCT-CTCCTCCTATCATCCCTCCTCTCTCTACT
*
1591673 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTATCTCTACT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
* *
1591715 ATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTCTCTCTTCT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
*
1591757 TTCTCT
1 ATCTCT
1591763 TTGAGGGCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 74 0.91
43 7 0.09
ACGTcount: A:0.08, C:0.45, G:0.02, T:0.45
Consensus pattern (42 bp):
ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
Done.