Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 16 of 18
Found at i:2405915 original size:78 final size:79
Alignment explanation
Indices: 2405648--2405915 Score: 233
Period size: 79 Copynumber: 3.4 Consensus size: 79
2405638 AAATAAAAAT
* * *
2405648 AGGGTTAGAGTATTCTCGATGGTTG-AAAATTGATATTTTGGAAGTAAA-AACGAAGT-TGGTTA
1 AGGGTTGGAGTATCCTCGATGG-TGAAAAATTGATATTTT--AA--AAATAA--AAGTGAGGTTA
* *** *
2405710 GAGTATCTTCTTGGACATAAC
59 GAGTATCTCCTCAAAAATAAC
* ** *
2405731 AGGGTTGGAGTATCCTTGATGGTGAAAAATTGATATTTTGGAAATAAAAGTGAGGTTGGAGTATC
1 AGGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTTAAAAATAAAAGTGAGGTTAGAGTATC
2405796 TCCTCAAAAATAAC
66 TCCTCAAAAATAAC
* * *
2405810 AAGGTTAGAGTATCCTCGA-GATGAAAAATTGATATTTTAAAAATAAAACG-G-GGTTAGAGTAT
1 AGGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTTAAAAATAAAA-GTGAGGTTAGAGTAT
* * *
2405872 CTCCTCGAAAATCAT
65 CTCCTCAAAAATAAC
* * *
2405887 AGGGTTGGAGTATCCCCAATGGTAAAAAA
1 AGGGTTGGAGTATCCTCGATGGTGAAAAA
2405916 AAATTTATAA
Statistics
Matches: 152, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
77 37 0.24
78 38 0.25
79 40 0.26
80 2 0.01
82 2 0.01
83 33 0.22
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (79 bp):
AGGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTTAAAAATAAAAGTGAGGTTAGAGTATC
TCCTCAAAAATAAC
Found at i:2408349 original size:51 final size:51
Alignment explanation
Indices: 2408244--2408380 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
2408234 AATAGCTTGC
* * * * *
2408244 ATGTATCGATACATTGAAGAATGTATTAATACA-TTGGGTCAAAACCCATA
1 ATGTATCGATACAATGAAAAATGTATTGATACATTTGGGTCAAAACCAAGA
* * **
2408294 ATGTATTGACACAATGAAAAATGTATTGATACATTTGGGTTGAAACCAAGA
1 ATGTATCGATACAATGAAAAATGTATTGATACATTTGGGTCAAAACCAAGA
*
2408345 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATTGATACATTT
2408381 TCATTTTAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 28 0.38
51 46 0.62
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATTGATACATTTGGGTCAAAACCAAGA
Found at i:2408460 original size:20 final size:21
Alignment explanation
Indices: 2408416--2408490 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
2408406 TGATATGGTC
* *
2408416 ATGTATCGATACATTTCA-GAC
1 ATGTATCGATACA-TTCACTAT
*
2408437 ATGTATCAATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
2408457 ATGTGTCGATACATTCACTAT
1 ATGTATCGATACATTCACTAT
*
2408478 TTGTATCGATACA
1 ATGTATCGATACA
2408491 AATTGTAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 21 0.47
21 24 0.53
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:2413673 original size:11 final size:11
Alignment explanation
Indices: 2413657--2413699 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
2413647 AGAAAAGGCT
*
2413657 AAAAAAAACAA
1 AAAAAAAAGAA
*
2413668 AGAAAAAAG-A
1 AAAAAAAAGAA
2413678 AAAAAAAAGAA
1 AAAAAAAAGAA
*
2413689 AAAGAAAAGAA
1 AAAAAAAAGAA
2413700 CCTACTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:2413680 original size:17 final size:16
Alignment explanation
Indices: 2413659--2413696 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
2413649 AAAAGGCTAA
2413659 AAAAAACAAAGAAAAAAG
1 AAAAAA-AAAG-AAAAAG
2413677 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
2413693 AAAA
1 AAAA
2413697 GAACCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 4 0.20
18 6 0.30
ACGTcount: A:0.87, C:0.03, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:2413681 original size:21 final size:21
Alignment explanation
Indices: 2413657--2413699 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2413647 AGAAAAGGCT
2413657 AAAAAAAACAAAGAA-AAAAGA
1 AAAAAAAACAAA-AAGAAAAGA
*
2413678 AAAAAAAAGAAAAAGAAAAGA
1 AAAAAAAACAAAAAGAAAAGA
2413699 A
1 A
2413700 CCTACTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAGAAAAGA
Found at i:2414672 original size:55 final size:54
Alignment explanation
Indices: 2414594--2414895 Score: 388
Period size: 55 Copynumber: 5.4 Consensus size: 54
2414584 CTCACTTTTT
* *
2414594 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TC
*
2414649 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACG-C----C-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
2414710 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * * * *
2414765 AGTCCTCAAAGGGCAGGACGTCTTTCAAAGCCAACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
2414820 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
*
2414874 TAGTCCTCAAAGAGTAGGACGC
1 -AGTCCTCAAAGAGCAGGACGC
2414896 TATCTCCTTT
Statistics
Matches: 216, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
54 2 0.01
55 160 0.74
56 2 0.01
60 2 0.01
61 47 0.22
62 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:2414847 original size:110 final size:111
Alignment explanation
Indices: 2414586--2414894 Score: 433
Period size: 110 Copynumber: 2.7 Consensus size: 111
2414576 TTTCTCCTCT
* *
2414586 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
1 CACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAG
* *
2414651 TCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
65 TCCTCAAAGAGCAGGACG----TTCTTTTCAAAGCCAACACAAGTTGGTGG
* * *
2414702 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 CACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAG
*
2414767 TCCTCAAAGGGCAGGACG-TC-TTTCAAAGCCAACACAAGTTGGTGG
65 TCCTCAAAGAGCAGGACGTTCTTTTCAAAGCCAACACAAGTTGGTGG
* * *
2414812 CATTTTTTAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAG
1 CACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AG
*
2414877 TCCTCAAAGAGTAGGACG
65 TCCTCAAAGAGCAGGACG
2414895 CTATCTCCTT
Statistics
Matches: 175, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
109 4 0.02
110 93 0.53
111 2 0.01
116 73 0.42
117 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (111 bp):
CACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGT
CCTCAAAGAGCAGGACGTTCTTTTCAAAGCCAACACAAGTTGGTGG
Found at i:2414969 original size:42 final size:42
Alignment explanation
Indices: 2414916--2415260 Score: 195
Period size: 46 Copynumber: 8.2 Consensus size: 42
2414906 CGCCCTTTTA
2414916 GTCCTCAAAGAGCAGGACACACTTT-ATTTTCCTCTTTCT-TTT
1 GTCCTCAAAGAGCAGGACACA-TTTCATTTTCCT-TTTCTCTTT
* * * * *
2414958 GTCTTCGAAGAGCAAGACGCATTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCT-CTTT
* * *
2415001 GTCCTCAAAGAGCAGGACACGTTCCATTCCCTT-CTCTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACACATTTCATT---TTCCTTTTCT-C-TTT
* *
2415047 GTCCTCAAAGAGCAGGACACACTTCA-TTTCCTTATTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCC---TTTTCTCTT-T
* *
2415092 AGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCT-CTTT
* * * * *
2415136 GTCCTCGAAA-AGTAGG--AC--GT-A--CTCTTTTTCACTTT
1 GTCCTC-AAAGAGCAGGACACATTTCATTTTCCTTTTCTCTTT
* *
2415171 GTCCTC-AAGAAGCAGGACAC-TTTC-TTTTGCTTTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACATTTCATTTTCCTTTTCT-CTTT
* * * *
2415212 GTCCTCAAGGAGCAAGAC-CTATTTCATTCT-CATTTC-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCATTTTCCTTTTCTCTTT
2415252 GTCCTCAAA
1 GTCCTCAAA
2415261 AAGTGGGATA
Statistics
Matches: 232, Mismatches: 42, Indels: 60
0.69 0.13 0.18
Matches are distributed among these distances:
33 2 0.01
35 15 0.06
36 6 0.03
37 2 0.01
38 1 0.00
39 1 0.00
40 18 0.08
41 27 0.12
42 36 0.16
43 39 0.17
44 10 0.04
45 14 0.06
46 56 0.24
47 5 0.02
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCTCTTT
Found at i:2422860 original size:18 final size:19
Alignment explanation
Indices: 2422839--2422877 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
2422829 AGTCAAAAGT
2422839 AAACACAAA-AAAA-AAAAA
1 AAACA-AAACAAAACAAAAA
2422857 AAACAAAACAAAACAAAAA
1 AAACAAAACAAAACAAAAA
2422876 AA
1 AA
2422878 GTGCAAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 9 0.47
19 7 0.37
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (19 bp):
AAACAAAACAAAACAAAAA
Found at i:2422864 original size:10 final size:10
Alignment explanation
Indices: 2422845--2422877 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2422835 AAGTAAACAC
2422845 AAAAAA-AAA
1 AAAAAACAAA
2422854 AAAAAACAAA
1 AAAAAACAAA
*
2422864 ACAAAACAAA
1 AAAAAACAAA
2422874 AAAA
1 AAAA
2422878 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:2424294 original size:31 final size:31
Alignment explanation
Indices: 2424218--2424296 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
2424208 AAAAAAAAAA
* *
2424218 TCCACGACTCAGTGCCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGCAATCTCTGCTCAAAG
2424249 TCCACGACTCAGTGGCAATCTCTGCTCAAAG
1 TCCACGACTCAGTGGCAATCTCTGCTCAAAG
*
2424280 TCCACGACGCAGTGGCA
1 TCCACGACTCAGTGGCA
2424297 TCCTTCTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (31 bp):
TCCACGACTCAGTGGCAATCTCTGCTCAAAG
Found at i:2424384 original size:33 final size:34
Alignment explanation
Indices: 2424300--2424435 Score: 170
Period size: 34 Copynumber: 4.0 Consensus size: 34
2424290 AGTGGCATCC
* *
2424300 TTCTCTTTAAAGCCCACAACTCCGTGGCACCTTC
1 TTCTCTTTAAAGCCCACAACTCCGTGGCACTTTT
*
2424334 TTCT-TCTCAAAGCCCACAACTCCGTGGCACTTTT
1 TTCTCT-TTAAAGCCCACAACTCCGTGGCACTTTT
2424368 TTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCTCTTTAAAGCCCACAACTCCGTGGCACT-TTT
* *
2424402 TTCATCTTT-AAGTCCATAACTCCGTGGCATCTTT
1 TTC-TCTTTAAAGCCCACAACTCCGTGGCA-CTTT
2424436 CTCCCTTCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
33 25 0.27
34 40 0.44
35 21 0.23
36 5 0.05
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (34 bp):
TTCTCTTTAAAGCCCACAACTCCGTGGCACTTTT
Found at i:2424435 original size:34 final size:34
Alignment explanation
Indices: 2424300--2424455 Score: 167
Period size: 34 Copynumber: 4.5 Consensus size: 34
2424290 AGTGGCATCC
* *
2424300 TTCTCTTTAAAGCCCACAACTCCGTGGCACCTTC
1 TTCTCTTTAAAGCCCACAACTCCGTGGCATCTTT
*
2424334 TTCT-TCTCAAAGCCCACAACTCCGTGGCA-CTTT
1 TTCTCT-TTAAAGCCCACAACTCCGTGGCATCTTT
2424367 TT-TCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCTC-TTTAAAGCCCACAACTCCGTGGCA-TCTTT
* *
2424402 TTCATCTTT-AAGTCCATAACTCCGTGGCATCTTT
1 TTC-TCTTTAAAGCCCACAACTCCGTGGCATCTTT
* *
2424436 CTCCCTTCCTAAAGCCCACA
1 TTCTCTT--TAAAGCCCACA
2424456 CAAGTCGGTG
Statistics
Matches: 103, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
32 1 0.01
33 31 0.30
34 34 0.33
35 25 0.24
36 10 0.10
37 2 0.02
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (34 bp):
TTCTCTTTAAAGCCCACAACTCCGTGGCATCTTT
Found at i:2424544 original size:49 final size:49
Alignment explanation
Indices: 2424476--2425226 Score: 889
Period size: 49 Copynumber: 15.8 Consensus size: 49
2424466 GCAACCCTTC
* * *
2424476 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
2424525 TAAGTCCAATGTAGTTGGCCGTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
2424568 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * *
2424620 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
2424669 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
2424712 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
2424761 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
2424804 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
2424853 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
2424896 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
2424945 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
2424994 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
2425043 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
2425091 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
2425134 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGACACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
2425186 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
2425227 CTTTTTCATC
Statistics
Matches: 608, Mismatches: 58, Indels: 71
0.82 0.08 0.10
Matches are distributed among these distances:
43 189 0.31
45 4 0.01
47 3 0.00
48 46 0.08
49 286 0.47
50 5 0.01
52 75 0.12
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:2424735 original size:92 final size:92
Alignment explanation
Indices: 2424617--2425164 Score: 793
Period size: 92 Copynumber: 5.9 Consensus size: 92
2424607 CCTTTTCCAT
* * * *
2424617 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
2424682 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
2424709 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
2424774 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
2424801 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATTTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
2424866 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
2424893 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
*
2424958 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * *
2424989 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATG
2425054 TAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
64 TAGCTGGCCTTGAATCAGCACATTGG-----CAC
* *
2425088 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
2425147 GCTGGCCTTGAATCAGCA
66 GCTGGCCTTGAATCAGCA
2425165 TATCGACACC
Statistics
Matches: 426, Mismatches: 19, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
91 33 0.08
92 265 0.62
93 1 0.00
96 1 0.00
97 41 0.10
98 82 0.19
99 1 0.00
103 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2424884 original size:184 final size:185
Alignment explanation
Indices: 2424476--2425221 Score: 859
Period size: 184 Copynumber: 3.9 Consensus size: 185
2424466 GCAACCCTTC
* * * * * *
2424476 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
* * * * * *
2424541 GGCCGTGACTCAGCACATTGGCA---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
60 GGCCTTGAATCAGCATATTGGCATCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
* *
2424601 TTGACACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAT
125 TTGGCA------CCA-CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
2424666 CTT
183 CTT
2424669 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
2424734 GAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
66 GAATCAGCATATTGGCATC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
* * * * * *
2424799 A-C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATTTT
130 ACCACTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2424853 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
2424918 GAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGC
66 GAATCAGCATATTGGCATC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
2424983 ACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
130 A-C--CA-CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2425043 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATCGCTG
* * *
2425108 GCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
61 GCCTTGAATCAGCATATTGGCATCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * *
2425168 CGACACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
126 TGGCA------CCA-CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
2425222 ACATCCTTTT
Statistics
Matches: 492, Mismatches: 39, Indels: 45
0.85 0.07 0.08
Matches are distributed among these distances:
184 174 0.35
186 1 0.00
187 36 0.07
188 1 0.00
189 38 0.08
190 83 0.17
191 2 0.00
192 40 0.08
193 74 0.15
194 1 0.00
195 42 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (185 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCATCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
CCACTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2427132 original size:13 final size:13
Alignment explanation
Indices: 2427114--2427143 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2427104 ATACATTGTT
*
2427114 CATTGTATCGATA
1 CATTGTATCAATA
2427127 CATTGTATCAATA
1 CATTGTATCAATA
2427140 CATT
1 CATT
2427144 TTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:2427186 original size:20 final size:19
Alignment explanation
Indices: 2427159--2427232 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
2427149 TTTACCCAAA
2427159 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
2427179 TATATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2427199 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
2427219 TGTATCGATACATT
1 TGTATCGATACATT
2427233 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2429609 original size:51 final size:51
Alignment explanation
Indices: 2429554--2429697 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 51
2429544 TCCCGGTTCC
* ** * *
2429554 ATTTCCAAAACGTCAATTTTTCTTAATCGGGAATATTCCAACTCTGATTTT
1 ATTTCCAAAACATCAATTTTTCGCAATCGGGAATACTCCAACTCCGATTTT
* * * ** *
2429605 ATTTCTAAAGCATCGATTTACCGCAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTTCGCAATCGGGAATACTCCAACTCCGATTTT
* * * *
2429656 ATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAAC
1 ATTTCCAAAACATCAATTTTTCGCAATCGGGAATACTCCAAC
2429698 CCCATTATTT
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
ATTTCCAAAACATCAATTTTTCGCAATCGGGAATACTCCAACTCCGATTTT
Found at i:2429716 original size:28 final size:28
Alignment explanation
Indices: 2429684--2429756 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2429674 TTTCACAATT
*
2429684 GGGGATACTCCAACCCCATTATTTCAT-C
1 GGGGATACTCCAACCCCATTATTTC-TGA
**
2429712 GGGGATACTCCAACCCTGTTATTTCTGA
1 GGGGATACTCCAACCCCATTATTTCTGA
2429740 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2429757 GGCTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCTGA
Found at i:2429829 original size:28 final size:28
Alignment explanation
Indices: 2429790--2429844 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
2429780 TTTTTTCATA
*
2429790 ATCGGGGGTACTCCAA-CCCTGTTATTTC
1 ATCGGGGATACTCCAATCCC-GTTATTTC
2429818 ATCGGGGATACTCCAATCCCGTTATTT
1 ATCGGGGATACTCCAATCCCGTTATTT
2429845 TTGAGGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (28 bp):
ATCGGGGATACTCCAATCCCGTTATTTC
Found at i:2429919 original size:50 final size:50
Alignment explanation
Indices: 2429848--2429963 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 50
2429838 GTTATTTTTG
* * *
2429848 AGGGAATACTCCAAACTTGATTTCATTTCTAAAATACCAATTT-TCCATAATC
1 AGGGAA-ACTCC-AACTTGATTTCATTTCCAAAACACCAATTTCT-CACAATC
*
2429900 -GGGAAACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 AGGGAAACTCCAACT-TGATTTCATTTCCAAAACACCAATTTCTCACAATC
*
2429950 AGGGATACTCCAAC
1 AGGGAAACTCCAAC
2429964 CCCGTTATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
49 4 0.07
50 34 0.61
51 18 0.32
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.30
Consensus pattern (50 bp):
AGGGAAACTCCAACTTGATTTCATTTCCAAAACACCAATTTCTCACAATC
Found at i:2429926 original size:109 final size:109
Alignment explanation
Indices: 2429668--2429912 Score: 257
Period size: 109 Copynumber: 2.3 Consensus size: 109
2429658 TTCCAAAACA
* * * * **
2429668 CCAATTTTTCACAATTGGGGATACTCCAACCCCATTATTTCATCGGGGATACTCCAACCCTGTTA
1 CCAATTTTCCATAATCGGGGAAACTCCAACCCTGTTATTTCATCGGGGATACTCCAACCCTGTTA
* * *
2429733 TTTCTGAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATAT
66 TTTCTGAGGGAATACTCCAACACCGGATTTATATCTAAAAATAT
**** * **
2429777 TGTTTTTTTCATAATCGGGGGTACTCCAACCCTGTTATTTCATCGGGGATACTCCAATCCC-GTT
1 CCAATTTTCCATAATCGGGGAAACTCCAACCCTGTTATTTCATCGGGGATACTCCAA-CCCTGTT
* ** *
2429841 ATTTTTGAGGGAATACTCCAA-ACTTGATTTCATTTCT-AAAATA-
65 ATTTCTGAGGGAATACTCCAACACCGGATTT-ATATCTAAAAATAT
2429884 CCAATTTTCCATAATC-GGGAAACTCCAAC
1 CCAATTTTCCATAATCGGGGAAACTCCAAC
2429913 TCTGATTTTA
Statistics
Matches: 111, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
106 11 0.10
107 11 0.10
108 11 0.10
109 75 0.68
110 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (109 bp):
CCAATTTTCCATAATCGGGGAAACTCCAACCCTGTTATTTCATCGGGGATACTCCAACCCTGTTA
TTTCTGAGGGAATACTCCAACACCGGATTTATATCTAAAAATAT
Found at i:2430002 original size:79 final size:78
Alignment explanation
Indices: 2429905--2430128 Score: 277
Period size: 79 Copynumber: 2.8 Consensus size: 78
2429895 TAATCGGGAA
* * * *
2429905 ACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTT
1 ACTCCAACCCCGATTTTATTTCCAAAACACCGATTT-TCATAATCAGGGATACTCCAACCCCGTT
*
2429970 ATTTTCGCGAGGAT
65 ATTTTCGAGAGGAT
* * * **
2429984 ACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTCTATAATCAGGGATACTCCAACCTTGTT
1 ACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTC-ATAATCAGGGATACTCCAACCCCGTT
2430049 ATTTTCGAGAGGAT
65 ATTTTCGAGAGGAT
* * * * *
2430063 ACTCCAACCCCGATTTTTATTTCTAGAACACCGATTTTTCATAATCGGGGATACTCTAGCCCCGT
1 ACTCCAACCCCGA-TTTTATTTCCAAAACACCGA-TTTTCATAATCAGGGATACTCCAACCCCGT
2430128 T
64 T
2430129 GTTATCTCCA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 79 0.65
80 36 0.30
81 5 0.04
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (78 bp):
ACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCATAATCAGGGATACTCCAACCCCGTTA
TTTTCGAGAGGAT
Found at i:2432574 original size:25 final size:25
Alignment explanation
Indices: 2432540--2432590 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2432530 CCATATGGGC
2432540 TAGTTGGGACAATGCCAAAAGAGAA
1 TAGTTGGGACAATGCCAAAAGAGAA
2432565 TAGTTGGGACAATGCCAAAAGAGAA
1 TAGTTGGGACAATGCCAAAAGAGAA
2432590 T
1 T
2432591 CTTTTGCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (25 bp):
TAGTTGGGACAATGCCAAAAGAGAA
Found at i:2442545 original size:13 final size:13
Alignment explanation
Indices: 2442529--2442558 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2442519 ATACATTGTT
2442529 CATTGTATCGATA
1 CATTGTATCGATA
2442542 CATTGTATCGATA
1 CATTGTATCGATA
2442555 CATT
1 CATT
2442559 CTAGGTTTAC
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:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2442600 original size:20 final size:19
Alignment explanation
Indices: 2442575--2442628 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2442565 TTACCCAGAC
2442575 GTATTGATACATTTTGCATT
1 GTATTGATACATTTT-CATT
*
2442595 GTATTGATACATTGCTCATT
1 GTATTGATACATT-TTCATT
*
2442615 GTATCGATACATTT
1 GTATTGATACATTT
2442629 AGGCATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (19 bp):
GTATTGATACATTTTCATT
Found at i:2445114 original size:28 final size:28
Alignment explanation
Indices: 2445081--2445154 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2445071 TTTCACAATT
* **
2445081 GGGGATACTTCAACCCCATTATTTCATC
1 GGGGATACTCCAACCCCATTATTTCAGA
* *
2445109 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCAGA
2445137 GGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
2445155 GTTTTATATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:2445224 original size:109 final size:110
Alignment explanation
Indices: 2445081--2445278 Score: 335
Period size: 109 Copynumber: 1.8 Consensus size: 110
2445071 TTTCACAATT
* *
2445081 GGGGATACTTCAACCCCATTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
1 GGGGATACTCCAACCCCATTATTTCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
*
2445146 CCAACCCCAGTTTTATATCTAAAAATATTGTTTTTTTCATAATCG
66 CCAACCCCAATTTTATATCTAAAAATATTGTTTTTTTCATAATCG
* *
2445191 GGGGA-ACTCCAACCCCATTATTTCATCGAGGATACTCCAATCCCGTTATTTTCGAGGGGATACT
1 GGGGATACTCCAACCCCATTATTTCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
*
2445255 CCAACCCCAATTTTATTTCTAAAA
66 CCAACCCCAATTTTATATCTAAAA
2445279 TACCAATTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 77 0.94
110 5 0.06
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (110 bp):
GGGGATACTCCAACCCCATTATTTCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
CCAACCCCAATTTTATATCTAAAAATATTGTTTTTTTCATAATCG
Found at i:2445227 original size:28 final size:27
Alignment explanation
Indices: 2445192--2445263 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
2445182 TCATAATCGG
2445192 GGGA-ACTCCAACCCCATTATTTCATCGA
1 GGGATACTCCAACCCCATTATTT--TCGA
* *
2445220 -GGATACTCCAATCCCGTTATTTTCGA
1 GGGATACTCCAACCCCATTATTTTCGA
2445246 GGGGATACTCCAACCCCA
1 -GGGATACTCCAACCCCA
2445264 ATTTTATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 30 0.81
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTATTTTCGA
Found at i:2445310 original size:51 final size:51
Alignment explanation
Indices: 2445246--2445364 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
2445236 TTATTTTCGA
* *
2445246 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTT-TCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCT-CACAATC
* * *
2445297 GGGGATACACCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
*
2445348 AGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2445365 GTTATTTTCG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:2445382 original size:79 final size:78
Alignment explanation
Indices: 2445299--2445515 Score: 256
Period size: 79 Copynumber: 2.7 Consensus size: 78
2445289 CCACAATCGG
* * *
2445299 GGATACACCAACTCC-GATTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACC
1 GGATACTCCAAC-CCTGATTTTATTTCCAAAACACCGATTT-TCATAATCAGGGATACTCCAACC
*
2445363 CCGTTATTTTCGCGA
64 CCGTTATTTTCGAGA
* * *
2445378 GGATACTCCAACCCTGATTTTATTTTCAAAATACCGATTTTCTATAATGAGGGATACTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAACACCGATTTTC-ATAATCAGGGATACTCCAACCC
* *
2445443 GGTTATTTTCGAGG
65 CGTTATTTTCGAGA
* * * * *
2445457 GGATACTCTAACCCTGATTTTTATTTCTAGAACACTGATTTTTCATAATCGGGGATACT
1 GGATACTCCAACCCTGA-TTTTATTTCCAAAACACCGA-TTTTCATAATCAGGGATACT
2445516 TTAGCCCCGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 4 0.03
79 80 0.68
80 28 0.24
81 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCTGATTTTATTTCCAAAACACCGATTTTCATAATCAGGGATACTCCAACCCC
GTTATTTTCGAGA
Found at i:2450949 original size:76 final size:76
Alignment explanation
Indices: 2450860--2451005 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 76
2450850 ATCAAGGTTT
* *
2450860 GAGTATCCCCGAGATAAAAAATCTAATATTTTGGAAGTGAAAATAGGGTTGAAGTATCCTCTCGG
1 GAGTATCCCCGAGATAAAAAATCTAATATTTTGGAAGTGAAAACAGGGTTGAAGTATCCCCTCGG
2450925 AAGTGGAGTTG
66 AAGTGGAGTTG
* * * * *
2450936 GAGTATCCTCGAGATAAAAAATTTAATCTTTTGGAAGTGAAAACGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGAGATAAAAAATCTAATATTTTGGAAGTGAAAACAGGGTTGAAGTATCCCCTCGG
2451001 AAGTG
66 AAGTG
2451006 ATGGGGTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (76 bp):
GAGTATCCCCGAGATAAAAAATCTAATATTTTGGAAGTGAAAACAGGGTTGAAGTATCCCCTCGG
AAGTGGAGTTG
Found at i:2451178 original size:79 final size:79
Alignment explanation
Indices: 2451024--2451385 Score: 424
Period size: 79 Copynumber: 4.6 Consensus size: 79
2451014 ATAGTATCTT
* * *** **
2451024 GATGGTGAAAAATCGATATTTTGGAAAT-AAAATGGGGTTGGAGTATCCCCTTGGAAATAATGAG
1 GATGGTGAAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCCAAAATAACAAG
*
2451088 ATTGGAGTATCCCC
66 GTTGGAGTATCCCC
* ** ** *
2451102 GATTGTGAAAAATCAATATTTTGGAAATAAAAACGGGGTTGGAGTATTTCCTCCAAAATAATAAG
1 GATGGTGAAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCCAAAATAACAAG
* *
2451167 GTTGGAATATCCCT
66 GTTGGAGTATCCCC
* * * * * * *
2451181 AATAGTGAAAATTTGATATTTTGAAAATAAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGG
1 GATGGTGAAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCCAAAATAACAAG
*
2451246 GTTAGAGTATCCCC
66 GTTGGAGTATCCCC
* * *
2451260 GATGGTGAAAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCT-CAGATATAACAG
1 GATGGTGAAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCCA-AAATAACAA
*
2451324 GGTTGGAGTATCCCT
65 GGTTGGAGTATCCCC
*
2451339 GATGGT-AAAAACTTGATATTTTGGAAATAAAAACAGGGTTGGAGTAT
1 GATGGTGAAAAA-TTGATATTTTGGAAATAAAAACGGGGTTGGAGTAT
2451386 TCTTGATGGT
Statistics
Matches: 242, Mismatches: 39, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
78 32 0.13
79 210 0.87
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (79 bp):
GATGGTGAAAAATTGATATTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCCAAAATAACAAG
GTTGGAGTATCCCC
Found at i:2451395 original size:51 final size:51
Alignment explanation
Indices: 2451319--2451423 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
2451309 CCTCAGATAT
*
2451319 AACAGGGTTGGAGTATCCCTGATGG-TAAAAACTTGATATTTTGGAAATAAA
1 AACAGGGTTGGAGTATCCCTGATGGTTAAAAA-TCGATATTTTGGAAATAAA
* * * *
2451370 AACAGGGTTGGAGTATTCTTGATGGTTGAAAATCGATATTTTGGAAGTAAA
1 AACAGGGTTGGAGTATCCCTGATGGTTAAAAATCGATATTTTGGAAATAAA
2451421 AAC
1 AAC
2451424 GAGGTTAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 43 0.90
52 5 0.10
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (51 bp):
AACAGGGTTGGAGTATCCCTGATGGTTAAAAATCGATATTTTGGAAATAAA
Found at i:2451493 original size:213 final size:208
Alignment explanation
Indices: 2451186--2451596 Score: 520
Period size: 213 Copynumber: 2.0 Consensus size: 208
2451176 TCCCTAATAG
*
2451186 TGAAAATTTGATATTTTGAAAATAAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAG
1 TGAAAATTCGATATTTTGAAAATAAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAG
* *** *
2451251 AGTATCCCCGATGGTGAAAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCAGA
66 AGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGTATCCCCTCAAA
* * * * *
2451316 TATAACAGGGTTGGAGTATCC-CTGATGGTAAAAACTTGATATTTTGGAAATAAAAACAGGGTTG
131 AATAACAAGGTTGGAGTATCCTC-GA-GATAAAAACTTGATATTTT-AAAATAAAAACAGGGTTA
2451380 GAGTATTCTTGATGGT
193 GAGTATTCTTGATGGT
* * ** * *
2451396 TGAAAA-TCGATATTTTGGAAGTAAAAACGAGGTTAGTTAGAGTATCTTCTTGGAAATAACAGGG
1 TGAAAATTCGATATTTTGAAAATAAAAACGAGGTT-G---GAGTATCCCCTCGAAAATAACAGGG
* ** * *
2451460 TTGGAGTATCCTTGATGGTGAAAAATCGATATTTTGGAAATAAAAGCCAGGTTGGAGTATCTCCT
62 TTAGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGTATCCCCT
* * *
2451525 CAAAAATAACAAGGTTGGAGTATCCTCGAGATGAAAATTTGATATTTTAAAATAAAAACGGGGTT
127 CAAAAATAACAAGGTTGGAGTATCCTCGAGATAAAAACTTGATATTTTAAAATAAAAACAGGGTT
2451590 AGAGTAT
192 AGAGTAT
2451597 CTCCTCGAAA
Statistics
Matches: 171, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
209 25 0.15
210 7 0.04
211 21 0.12
212 16 0.09
213 101 0.59
214 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (208 bp):
TGAAAATTCGATATTTTGAAAATAAAAACGAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAG
AGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGTATCCCCTCAAA
AATAACAAGGTTGGAGTATCCTCGAGATAAAAACTTGATATTTTAAAATAAAAACAGGGTTAGAG
TATTCTTGATGGT
Found at i:2451512 original size:83 final size:79
Alignment explanation
Indices: 2451370--2451626 Score: 268
Period size: 83 Copynumber: 3.2 Consensus size: 79
2451360 TGGAAATAAA
* * *
2451370 AACAGGGTTGGAGTATTCTTGATGGTTG-AAAATCGATATTTTGGAAGTAAAAACGAGGTTAGTT
1 AACAGGGTTGGAGTATCCTTGATGG-TGAAAAATCGATATTTTGGAAATAAAAACCAGGTT-G--
* ***
2451434 AGAGTATCTTCTTGGAAAT
62 -GAGTATCTCCTCAAAAAT
*
2451453 AACAGGGTTGGAGTATCCTTGATGGTGAAAAATCGATATTTTGGAAATAAAAGCCAGGTTGGAGT
1 AACAGGGTTGGAGTATCCTTGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGT
2451518 ATCTCCTCAAAAAT
66 ATCTCCTCAAAAAT
* * * * * * ** *
2451532 AACAAGGTTGGAGTATCCTCGA-GATGAAAATTTGATATTTT-AAAATAAAAACGGGGTTAGAGT
1 AACAGGGTTGGAGTATCCTTGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGT
*
2451595 ATCTCCTCGAAAAT
66 ATCTCCTCAAAAAT
* *
2451609 GATAGGGTTGGAGTATCC
1 AACAGGGTTGGAGTATCC
2451627 CCAATGGTAA
Statistics
Matches: 151, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
77 45 0.30
78 16 0.11
79 34 0.23
82 3 0.02
83 53 0.35
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (79 bp):
AACAGGGTTGGAGTATCCTTGATGGTGAAAAATCGATATTTTGGAAATAAAAACCAGGTTGGAGT
ATCTCCTCAAAAAT
Found at i:2454045 original size:51 final size:51
Alignment explanation
Indices: 2453971--2454108 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
2453961 AATAGCTTGC
* * * * *
2453971 ATGTATCGATACATTGAAGAATGTATCAATACATTTGGGTCAAAACCCATA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCAAGA
* * * **
2454022 ATGTATTGACACAATGAAAAATGTATCGATACATTTGTGTTGAAACCAAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCAAGA
2454073 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
2454109 TCTTTCTAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCAAGA
Found at i:2454188 original size:20 final size:21
Alignment explanation
Indices: 2454144--2454218 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
2454134 TGACATGGTC
* *
2454144 ATGTATCGATACATTTCA-GAC
1 ATGTATCGATACA-TTCACTAT
*
2454165 ATGTATCAATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
2454185 ATGTGTCGATACATTCACTAT
1 ATGTATCGATACATTCACTAT
*
2454206 TTGTATCGATACA
1 ATGTATCGATACA
2454219 AATTGTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 21 0.47
21 24 0.53
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:2456835 original size:21 final size:20
Alignment explanation
Indices: 2456786--2456841 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2456776 TACAATAAGT
*
2456786 CTTA-GTATCGAAACATTAA
1 CTTATGTATCGATACATTAA
*
2456805 CTTATGTATCGATACATTGA
1 CTTATGTATCGATACATTAA
*
2456825 TTTATTGTATCGATACA
1 CTTA-TGTATCGATACA
2456842 AATTGTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 16 0.50
21 12 0.38
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
CTTATGTATCGATACATTAA
Found at i:2457901 original size:171 final size:171
Alignment explanation
Indices: 2457616--2457969 Score: 629
Period size: 171 Copynumber: 2.1 Consensus size: 171
2457606 TGTAAACCCA
2457616 TTACTACATCATAGTGATATAAGGTTTTCTTTCATATTAGTGGCATGATTGACAATAATGAAACC
1 TTACTACATCATAGTGATATAAGGTTTTCTTTCATATTAGTGGCATGATTGACAATAATGAAACC
* *
2457681 ACTAATTGTATGAAGCCTATGGAAAATATAAAGCTTCATAAAAGAATTATAAAGTGTTATAATTA
66 ACTAATTGTATGAAGCCCATGGAAAATATAAAGCTTCATAAAAGAATTATAAAGAGTTATAATTA
*
2457746 TGGGATCCATATGCATCAATGCCATGTTTCTAAAACCTTGT
131 TGGGATCCATATGCATCAAAGCCATGTTTCTAAAACCTTGT
*
2457787 TTACTACATCATAGTGATATAAGGTTTTCTTTCATGTTAGTGGCATGATTGACAATAATGAAACC
1 TTACTACATCATAGTGATATAAGGTTTTCTTTCATATTAGTGGCATGATTGACAATAATGAAACC
* *
2457852 ACTAATTGTATGAAGCCCATGGAAAATATAAAGCTTTATAAAGGAATTATAAAGAGTTATAATTA
66 ACTAATTGTATGAAGCCCATGGAAAATATAAAGCTTCATAAAAGAATTATAAAGAGTTATAATTA
*
2457917 TGGGATCCATATGCATCAAAGCCATGTTTCTAAAACCTTTT
131 TGGGATCCATATGCATCAAAGCCATGTTTCTAAAACCTTGT
*
2457958 TTAGT-CATCATA
1 TTACTACATCATA
2457970 TTGCCAAAAT
Statistics
Matches: 175, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
170 7 0.04
171 168 0.96
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (171 bp):
TTACTACATCATAGTGATATAAGGTTTTCTTTCATATTAGTGGCATGATTGACAATAATGAAACC
ACTAATTGTATGAAGCCCATGGAAAATATAAAGCTTCATAAAAGAATTATAAAGAGTTATAATTA
TGGGATCCATATGCATCAAAGCCATGTTTCTAAAACCTTGT
Found at i:2460476 original size:21 final size:21
Alignment explanation
Indices: 2460451--2460493 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2460441 TAATCAAATC
*
2460451 AATT-ATTTTTAATATAATTAT
1 AATTAATTTATAATAT-ATTAT
2460472 AATTAATTTATAATATATTAT
1 AATTAATTTATAATATATTAT
2460493 A
1 A
2460494 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTAATTTATAATATATTAT
Found at i:2464501 original size:24 final size:26
Alignment explanation
Indices: 2464474--2464525 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2464464 TATAAAAATT
2464474 TTATTCATT-GA-GGATACTCCAACC
1 TTATTCATTCGAGGGATACTCCAACC
*
2464498 TTATTCCTTCGAGGGGATACTCCAACC
1 TTATTCATTCGA-GGGATACTCCAACC
2464525 T
1 T
2464526 CGCTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 2 0.08
27 14 0.58
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (26 bp):
TTATTCATTCGAGGGATACTCCAACC
Found at i:2478173 original size:22 final size:22
Alignment explanation
Indices: 2478139--2478190 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2478129 TAGTGATGAC
* * *
2478139 CAGTAATGTATCGATCCATAAA
1 CAGTGATGCATCGATACATAAA
*
2478161 CAGTGATGCATCGATACATGAA
1 CAGTGATGCATCGATACATAAA
2478183 CAGTGATG
1 CAGTGATG
2478191 AATAGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (22 bp):
CAGTGATGCATCGATACATAAA
Found at i:2478317 original size:13 final size:13
Alignment explanation
Indices: 2478299--2478323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2478289 TGTCAGTTTT
2478299 ATGTATCGATACA
1 ATGTATCGATACA
2478312 ATGTATCGATAC
1 ATGTATCGATAC
2478324 TAAGCAAAAT
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):
ATGTATCGATACA
Found at i:2481508 original size:21 final size:21
Alignment explanation
Indices: 2481482--2481536 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2481472 TACTTGCAAC
*
2481482 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
2481503 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
2481524 TCACTTAATTTCT
1 TCATTTATTTTCT
2481537 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:2481537 original size:21 final size:21
Alignment explanation
Indices: 2481497--2481540 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2481487 TCTTTTCTCC
* *
2481497 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
2481518 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
2481539 TC
1 TC
2481541 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:2484424 original size:79 final size:79
Alignment explanation
Indices: 2484288--2484468 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 79
2484278 AACGGGGCTA
* * * *
2484288 GAGTATCCCCTGACTATGGAAAATCGATGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCCTT-
1 GAGTAT-CCCTGACTATGAAAAATCGATGTTCTGAAAATAAAATAGAGGTTGAAGTATCCCCTTA
2484352 GAAAATAACAGGGTTG
65 G-AAATAACAGGGTTG
* * * *
2484368 GAGTATCCCTGATTGTGAAAAATCGGTGTTTTGAAAATAAAACTAG-GGTTGAAGTATCCCCTTA
1 GAGTATCCCTGACTATGAAAAATCGATGTTCTGAAAATAAAA-TAGAGGTTGAAGTATCCCCTTA
2484432 GAAATAACAGGGTTG
65 GAAATAACAGGGTTG
* *
2484447 GAGTATCCCCGA-GATGAAAAAT
1 GAGTATCCCTGACTATGAAAAAT
2484469 TTAGAAATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 8 0.09
79 71 0.81
80 9 0.10
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GAGTATCCCTGACTATGAAAAATCGATGTTCTGAAAATAAAATAGAGGTTGAAGTATCCCCTTAG
AAATAACAGGGTTG
Found at i:2486837 original size:20 final size:20
Alignment explanation
Indices: 2486812--2486866 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2486802 GTAAACCCCG
2486812 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
2486832 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
2486852 AATGTATCGATACAA
1 AATGTATCGATACAA
2486867 ATTGTGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:2487722 original size:62 final size:62
Alignment explanation
Indices: 2487516--2488050 Score: 599
Period size: 62 Copynumber: 8.9 Consensus size: 62
2487506 GGACTAGCAG
* * ** * * * *
2487516 GTGCCACCAGCTTGTATGGGCTTTGCAAGGAGAAA-GCATCCTGCTTTTTGAGGACT-GGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
** * * *
2487577 GTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAA-GCATCCTGCTCTTTGAGGACT-GGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
2487638 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
* * * *
2487700 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGTCCTACTCTTTAAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
* ** * *
2487762 GTGCCACCAACTTGTATGGGCTTTAAACA-GAAAATACGTCCTGCTCTTTAAGGACTAG-AAG
1 GTGCCACCAACTTGTGTGGGCTTTAAA-AGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
* * *
2487823 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
*
2487885 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-G-AAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
* * * * *
2487945 GTGCTACCAGCTTGTGTGAGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
* *
2488001 -TGCCACCAACTTGTATGGGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGACTA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA
2488051 AAGGGTGAAA
Statistics
Matches: 429, Mismatches: 38, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
54 24 0.06
55 47 0.11
56 2 0.00
60 27 0.06
61 161 0.38
62 167 0.39
63 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (62 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
Found at i:2487827 original size:185 final size:184
Alignment explanation
Indices: 2487516--2488029 Score: 632
Period size: 185 Copynumber: 2.8 Consensus size: 184
2487506 GGACTAGCAG
* * ** * * * * *
2487516 GTGCCACCAGCTTGTATGGGCTTTGCAAGGAGAAAGCATCCTGCTTTTTGAGGACTGGAAGGTGC
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGC
* * * * * *
2487581 CACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACC
66 CACCAACTTGTATGGGCTTTGAAAAGAGAAAACATCCTGCTCTTTAAGGACTAGAAGGTGCCACC
* * *
2487646 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA
131 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
* * *
2487700 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGTCCTACTCTTTAAGGACTAGAAAAGTG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACT-GAAAAGTG
*
2487765 CCACCAACTTGTATGGGCTTT-AAACAGA-AAATACGTCCTGCTCTTTAAGGACTAGAAGGTGCC
65 CCACCAACTTGTATGGGCTTTGAAA-AGAGAAA-ACATCCTGCTCTTTAAGGACTAGAAGGTGCC
2487828 ACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
128 ACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
* *
2487885 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGC
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGC
* * * * * * **
2487949 TACCAGCTTGTGTGAGCTTTG-AAAG-G----CATCCTGCTCTTTGAGGACTGGAAAATGCCACC
66 CACCAACTTGTATGGGCTTTGAAAAGAGAAAACATCCTGCTCTTTAAGGACTAGAAGGTGCCACC
* *
2488008 AACTTGTATGGGCTTTGAAAGG
131 AACTTGTGTGGGCTTTAAAAGG
2488030 CATCCTGCTC
Statistics
Matches: 287, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
177 48 0.17
182 2 0.01
183 24 0.08
184 52 0.18
185 161 0.56
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (184 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGC
CACCAACTTGTATGGGCTTTGAAAAGAGAAAACATCCTGCTCTTTAAGGACTAGAAGGTGCCACC
AACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
Found at i:2487831 original size:123 final size:123
Alignment explanation
Indices: 2487516--2488054 Score: 637
Period size: 123 Copynumber: 4.5 Consensus size: 123
2487506 GGACTAGCAG
* ** * * *
2487516 GTGCCACCAGCTTGTATGGGCTTTGCAAGGAGAAA-GCATCCTGCTTTTTGAGGACTGGAAGGTG
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTG
** * * * * *
2487580 CCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCCTGCTCTTTGAGGACT-GGAAG
65 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTAAGGACTAGAAAA
* *
2487638 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTG
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAGGTG
* *
2487703 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGTCCTACTCTTTAAGGACTAGAAAA
65 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTAAGGACTAGAAAA
** *
2487762 GTGCCACCAACTTGTATGGGCTTTAAACA-GAAAATACGTCCTGCTCTTTAAGGACTAGAAGGTG
1 GTGCCACCAACTTGTATGGGCTTTAAA-AGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTG
* * *
2487826 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGGCATGCTCTTTAAGGACTAGAAAA
65 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTAAGGACTAGAAAA
*
2487885 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGC
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGC
* * * * * * *
2487949 TACCAGCTTGTGTGAGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAA
66 CACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTAAGGACTAGAAAA
*
2488001 -TGCCACCAACTTGTATGGGCTTT-----G-AAAGGCATCCTGCTCTTTGAGGACTA-AAGG
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGG
2488055 GTGAAAGGAG
Statistics
Matches: 370, Mismatches: 41, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
109 28 0.08
110 1 0.00
115 22 0.06
116 26 0.07
117 1 0.00
121 3 0.01
122 73 0.20
123 160 0.43
124 55 0.15
125 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (123 bp):
GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGC
CACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTTAAGGACTAGAAAA
Found at i:2490380 original size:28 final size:29
Alignment explanation
Indices: 2490347--2490474 Score: 153
Period size: 28 Copynumber: 4.6 Consensus size: 29
2490337 ATAAGGCCGG
2490347 GGTTGGAGTATCCCCGT-GAAAATAACGA
1 GGTTGGAGTATCCCCGTCGAAAATAACGA
2490375 GGTTGGAGTATCCCC-TCGAAAATAACG-
1 GGTTGGAGTATCCCCGTCGAAAATAACGA
2490402 GGATTGGAGTATCCCC-TCGAAAATAAC-A
1 GG-TTGGAGTATCCCCGTCGAAAATAACGA
* *
2490430 GGATTGGAGAATCCCCGAT-G-AAATAACGG
1 GG-TTGGAGTATCCCCG-TCGAAAATAACGA
*
2490459 GGTTGGAGTACCCCCG
1 GGTTGGAGTATCCCCG
2490475 ATTATGAAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
27 3 0.03
28 83 0.92
29 3 0.03
30 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGTCGAAAATAACGA
Found at i:2490551 original size:28 final size:28
Alignment explanation
Indices: 2490510--2490582 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
2490500 ATATAAAGCT
*
2490510 GGGGTTGGAGTATCCCC-TCGAAAATAAC
1 GGGGTTGGAGTATCCCCGACG-AAATAAC
*
2490538 GGGGTTGGAATATCCCCGACGAAATAAC
1 GGGGTTGGAGTATCCCCGACGAAATAAC
2490566 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
2490583 AATTGCGGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGACGAAATAAC
Found at i:2490572 original size:56 final size:56
Alignment explanation
Indices: 2490344--2490582 Score: 183
Period size: 56 Copynumber: 4.3 Consensus size: 56
2490334 GAAATAAGGC
* * * *
2490344 CGGGGTTGGAGTATCCCCGT-GAAAATAACGAGGTTGGAGTATCCCC-TCGAAAATAA
1 CGGGGTTGGAGTATCCCC-TCGAAAATAACAAGATTGGAATATCCCCGACG-AAATAA
* * *
2490400 CGGGATTGGAGTATCCCCTCGAAAATAACAGGATTGGAGA-ATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACAAGATTGGA-ATATCCCCGACGAAATAA
** * * *** *
2490456 CGGGGTTGGAGTA-CCCC-CGATTATGAAAAAAATT--AATAT--TTTA-GATATAAA
1 CGGGGTTGGAGTATCCCCTCGAAAAT-AACAAGATTGGAATATCCCCGACGAAAT-AA
** *
2490507 GCTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAATATCCCCGACGAAATAA
1 -C-GGGGTTGGAGTATCCCCTCGAAAATAACAAGATTGGAATATCCCCGACGAAATAA
2490565 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2490583 AATTGCGGTA
Statistics
Matches: 140, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
50 4 0.03
51 3 0.02
52 2 0.01
53 15 0.11
54 13 0.09
55 16 0.11
56 78 0.56
57 2 0.01
58 3 0.02
59 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (56 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACAAGATTGGAATATCCCCGACGAAATAA
Found at i:2493028 original size:20 final size:20
Alignment explanation
Indices: 2493003--2493089 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
2492993 ACAGTTGTAA
*
2493003 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAGC
2493023 AATGTATCGAT---AT----
1 AATGTATCGATACAATGAGC
*
2493036 AATGTATCGATACAATAAGC
1 AATGTATCGATACAATGAGC
* *
2493056 AATGTATTGATACAATGCA-A
1 AATGTATCGATACAATG-AGC
2493076 AATGTATCGATACA
1 AATGTATCGATACA
2493090 TCTGGGTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 11 0.20
16 2 0.04
17 2 0.04
20 38 0.70
21 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:2493041 original size:13 final size:13
Alignment explanation
Indices: 2493023--2493047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2493013 TACAATGAGC
2493023 AATGTATCGATAT
1 AATGTATCGATAT
2493036 AATGTATCGATA
1 AATGTATCGATA
2493048 CAATAAGCAA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:2493048 original size:33 final size:33
Alignment explanation
Indices: 2493003--2493072 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2492993 ACAGTTGTAA
* * *
2493003 AATGTATTGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATAAGCAATGTATCGATAC
*
2493036 AATGTATCGATACAATAAGCAATGTATTGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
2493069 AATG
1 AATG
2493073 CAAAATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGATAC
Found at i:2506343 original size:65 final size:64
Alignment explanation
Indices: 2506268--2506613 Score: 433
Period size: 65 Copynumber: 5.3 Consensus size: 64
2506258 TTATACTTTT
* * ** * * * **
2506268 AAGCCAACACAAGTTGGTGGCAACCTTTTTCTAAAGCCTACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCCACACAAGTTGGTGGCAATCTTCCTC-AAAGCCCACACAAGTTGGTGGCAACCTTTTCCA
* * * **
2506333 AAGCCCACACAAGCTGGTGGCAATCTTCCTCCAAAGCCCACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCCACACAAGTTGGTGGCAATCTTCCT-CAAAGCCCACACAAGTTGGTGGCAACCTTTTCCA
** *
2506398 AAGCCCACACAAGCCGGTGGCAATCTTCCTCCAAGCCCACACAAGTTGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTTGGTGGCAATCTTCCTCAAAGCCCACACAAGTTGGTGGCAACC-TTTTCCA
* * *
2506463 AAGCCTACACAAGTCGGTGTCAATCTTCCTCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTTGGTGGCAATCTTCCTCAAAGCCCACACAAGTTGGTGGCAACC-TTTTCCA
* * *
2506528 AAGCCCACACAAGTTGGTGTCAATCTTCCTCAAAGCCCACACAAATTGGTGGCAACCTTTTCAA
1 AAGCCCACACAAGTTGGTGGCAATCTTCCTCAAAGCCCACACAAGTTGGTGGCAACCTTTTCCA
2506592 AAGCCCACACACA-TTGGTGGCA
1 AAGCCCACACA-AGTTGGTGGCA
2506614 TCCCCTTCCA
Statistics
Matches: 257, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
64 49 0.19
65 207 0.81
66 1 0.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (64 bp):
AAGCCCACACAAGTTGGTGGCAATCTTCCTCAAAGCCCACACAAGTTGGTGGCAACCTTTTCCA
Found at i:2506347 original size:32 final size:32
Alignment explanation
Indices: 2506268--2506613 Score: 354
Period size: 32 Copynumber: 10.7 Consensus size: 32
2506258 TTATACTTTT
* ** *
2506268 AAGCCAACACAAGTTGGTGGCAACCTTTTTCTA
1 AAGCCCACACAAGTTGGTGGCAACC-TTCCCCA
* * *
2506301 AAGCCTACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
* *
2506333 AAGCCCACACAAGCTGGTGGCAATCTTCCTCCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCC-CCA
* *
2506366 AAGCCCACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
** *
2506398 AAGCCCACACAAGCCGGTGGCAATCTTCCTCC-
1 AAGCCCACACAAGTTGGTGGCAACCTTCC-CCA
**
2506430 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTTGGTGGCAACC-TTCCCCA
* * * * *
2506463 AAGCCTACACAAGTCGGTGTCAATCTTCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
**
2506495 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCA
1 AAGCCCACACAAGTTGGTGGCAACC-TTCCCCA
* * *
2506528 AAGCCCACACAAGTTGGTGTCAATCTTCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
* ** *
2506560 AAGCCCACACAAATTGGTGGCAACCTTTTCAA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
2506592 AAGCCCACACACA-TTGGTGGCA
1 AAGCCCACACA-AGTTGGTGGCA
2506614 TCCCCTTCCA
Statistics
Matches: 262, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
32 157 0.60
33 105 0.40
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGCCCACACAAGTTGGTGGCAACCTTCCCCA
Found at i:2506564 original size:162 final size:162
Alignment explanation
Indices: 2506268--2506571 Score: 457
Period size: 162 Copynumber: 1.9 Consensus size: 162
2506258 TTATACTTTT
* *
2506268 AAGCCAACACAAGTTGGTGGCAACCTTTTTCTAAAGCCTACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCAACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCTGGTGGCAACCTTCCCCA
* *
2506333 AAGCCCACACAAGCTGGTGGCAATCTTCCTCCAAAGCCCACATAAGCTGGTGGCAACCTTCCCCA
66 AAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCCA
2506398 AAGCCCACACAAGCCGGTGGCAATCTTCCTCC
131 AAGCCCACACAAGCCGGTGGCAATCTTCCTCC
* * * *
2506430 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAG-TCGGTGTCAATCTTCCTC
1 AAGCCAACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCT-GGTGGCAACCTTCCCC
* ** * * * *
2506494 AAAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCCACACAAGTTGGTGTCAATCTTCCTC
65 AAAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCC
2506559 AAAGCCCACACAA
130 AAAGCCCACACAA
2506572 ATTGGTGGCA
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
161 1 0.01
162 125 0.99
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (162 bp):
AAGCCAACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCTGGTGGCAACCTTCCCCA
AAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCCA
AAGCCCACACAAGCCGGTGGCAATCTTCCTCC
Found at i:2506581 original size:162 final size:162
Alignment explanation
Indices: 2506268--2506613 Score: 455
Period size: 162 Copynumber: 2.1 Consensus size: 162
2506258 TTATACTTTT
* * *
2506268 AAGCCAACACAAGTTGGTGGCAACCTTTTTCTAAAGCCTACATAAGCTGGTGGCAACCTTCCCCA
1 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCTGGTGGCAACCTTCCCCA
* *
2506333 AAGCCCACACAAGCTGGTGGCAATCTTCCTCCAAAGCCCACATAAGCTGGTGGCAACCTTCCCCA
66 AAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCCA
* * *
2506398 AAGCCCACACAAGCCGGTGGCAATCTTCCTC-C
131 AAGCCCACACAAACCGGTGGCAACCTT-CTCAA
* * *
2506430 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAG-TCGGTGTCAATCTTCCTC
1 AAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCT-GGTGGCAACCTTCCCC
* ** * * * *
2506494 AAAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCCACACAAGTTGGTGTCAATCTTCCTC
65 AAAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCC
** *
2506559 AAAGCCCACACAAATTGGTGGCAACCTTTTCAA
130 AAAGCCCACACAAACCGGTGGCAACCTTCTCAA
2506592 AAGCCCACACACA-TTGGTGGCA
1 AAGCCCACACA-AGTTGGTGGCA
2506614 TCCCCTTCCA
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
161 3 0.02
162 156 0.98
163 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (162 bp):
AAGCCCACACAAGTTGGTGGCAACCTTTTTCCAAAGCCTACACAAGCTGGTGGCAACCTTCCCCA
AAGCCCACACAAGCTGGTGGCAACCTTCCTCCAAAGCCCACACAAGCTGGTGGCAACCTTCCCCA
AAGCCCACACAAACCGGTGGCAACCTTCTCAA
Found at i:2506819 original size:52 final size:50
Alignment explanation
Indices: 2506740--2507047 Score: 222
Period size: 52 Copynumber: 5.9 Consensus size: 50
2506730 TTCCTTTTCA
* * * * *
2506740 AAGTCTAATGTCGCTAGCCCTAAATCAGCATATTAGCACTTTCTTCATCTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTT-TTCATCTT
* * * * *
2506791 CAAGCCCAATGTTGCAGGCCTTGAATCAGCACATTGGCACCTTTTT-TTCTT
1 -AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTTTCATCTT
* * * * **
2506842 AAGTCCAATATCGCTGGCCTTGAATTAGTAGATTGGCGTTTTTGTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTT-TCATC-TT
* * *
2506894 AAGTCCAATGTCGCTGGCCTTGAATTAGCATATTGGCACCTCTTTCATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTTTCA-TCTT
* * * * *
2506946 AAGTCCAATATCGCTAGCCTTAAATCAGCATATTTGGCACCCTTGTCATCTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATA-TTGGCA-CTTTTTCATC--TT
* * * * * **
2507000 AAGTCCGATATCACTGACCTTGAATCAACATATTAACACTTTTATCAT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTT-TCAT
2507048 TTTTCTCATC
Statistics
Matches: 201, Mismatches: 45, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.02
50 31 0.15
51 6 0.03
52 104 0.52
53 28 0.14
54 28 0.14
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (50 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTTTCATCTT
Found at i:2507185 original size:61 final size:60
Alignment explanation
Indices: 2506991--2507187 Score: 182
Period size: 61 Copynumber: 3.2 Consensus size: 60
2506981 GGCACCCTTG
* * * * **
2506991 TCATCTTTTAAGTCCGATATCACTGACCTTGAATCAACATATTAACACTTTTATCATTTTTC
1 TCATC-TTTAAGTCCAACATCGCTGACCTTGAATCAGCATATTGGCACTTTTATCA-TTTTC
* ** * *
2507053 TCATCTTCAAACCCAATATCGCTG-GCTGTGAATCAGCATATTGGCA-TCTTTATCATTCTTC
1 TCATCTTTAAGTCCAACATCGCTGACCT-TGAATCAGCATATTGGCACT-TTTATCATT-TTC
* * * * *
2507114 GCCTCCTTAAGTCCAACGTCGCTGACCTTGAATCAGCATATTGGCACTTTTCTCATTTTC
1 TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCATATTGGCACTTTTATCATTTTC
2507174 ATCATCTTTAAGTC
1 -TCATCTTTAAGTC
2507188 TAGTGTTATG
Statistics
Matches: 107, Mismatches: 22, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
60 8 0.07
61 91 0.85
62 8 0.07
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (60 bp):
TCATCTTTAAGTCCAACATCGCTGACCTTGAATCAGCATATTGGCACTTTTATCATTTTC
Found at i:2511735 original size:26 final size:27
Alignment explanation
Indices: 2511706--2511758 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2511696 GTAATTTTTT
* *
2511706 AAATTAAA-TAAGTACAAATATTTAAA
1 AAATAAAATTAAGTAAAAATATTTAAA
*
2511732 AAATAAAATTAATTAAAAATATTTAAA
1 AAATAAAATTAAGTAAAAATATTTAAA
2511759 TTCTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
AAATAAAATTAAGTAAAAATATTTAAA
Found at i:2514473 original size:19 final size:18
Alignment explanation
Indices: 2514449--2514512 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
2514439 TAGCCAAACT
2514449 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
2514468 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
2514481 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
2514500 TTGTATCGATACA
1 -TGTATCGATACA
2514513 TTGGCTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:2514485 original size:13 final size:13
Alignment explanation
Indices: 2514467--2514492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2514457 TACACAAAAT
2514467 ATGTATCGATACA
1 ATGTATCGATACA
2514480 ATGTATCGATACA
1 ATGTATCGATACA
2514493 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2514490 original size:32 final size:33
Alignment explanation
Indices: 2514449--2514512 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2514439 TAGCCAAACT
*
2514449 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2514481 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2514513 TTGGCTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2515586 original size:13 final size:13
Alignment explanation
Indices: 2515568--2515593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2515558 TACAGCAAGT
2515568 ATGTATCGATACA
1 ATGTATCGATACA
2515581 ATGTATCGATACA
1 ATGTATCGATACA
2515594 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2517841 original size:21 final size:21
Alignment explanation
Indices: 2517808--2517852 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2517798 TTGCAAGTTG
*
2517808 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2517830 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2517850 AAA
1 AAA
2517853 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2519676 original size:15 final size:15
Alignment explanation
Indices: 2519656--2519686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2519646 TAAAAATGTC
*
2519656 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2519671 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2519686 C
1 C
2519687 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2521726 original size:20 final size:20
Alignment explanation
Indices: 2521700--2521777 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
2521690 AATGTCCAAA
2521700 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
2521720 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
2521745 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
2521765 TTGTATCGATACA
1 ATGTATCGATACA
2521778 CTGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:2521784 original size:13 final size:13
Alignment explanation
Indices: 2521766--2521790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2521756 CATTTTTCTT
2521766 TGTATCGATACAC
1 TGTATCGATACAC
2521779 TGTATCGATACA
1 TGTATCGATACA
2521791 GGGTGATTAT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2524359 original size:13 final size:13
Alignment explanation
Indices: 2524341--2524366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2524331 TACAGCAAGT
2524341 ATGTATCGATACA
1 ATGTATCGATACA
2524354 ATGTATCGATACA
1 ATGTATCGATACA
2524367 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2530624 original size:13 final size:13
Alignment explanation
Indices: 2530606--2530643 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2530596 CATTTTTCTT
*
2530606 TGTATCAATACAA
1 TGTATCGATACAA
*
2530619 TGTATCGATACAC
1 TGTATCGATACAA
2530632 TGTATCGATACA
1 TGTATCGATACA
2530644 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2532461 original size:12 final size:12
Alignment explanation
Indices: 2532444--2532469 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2532434 TAAATTTTTG
2532444 ATATGTGTGTAA
1 ATATGTGTGTAA
2532456 ATATGTGTGTAA
1 ATATGTGTGTAA
2532468 AT
1 AT
2532470 TATCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (12 bp):
ATATGTGTGTAA
Found at i:2533231 original size:13 final size:13
Alignment explanation
Indices: 2533213--2533238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2533203 TACACAAAGT
2533213 ATGTATCGATACA
1 ATGTATCGATACA
2533226 ATGTATCGATACA
1 ATGTATCGATACA
2533239 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2533236 original size:32 final size:33
Alignment explanation
Indices: 2533195--2533258 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2533185 TAGCCAAACT
**
2533195 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2533227 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2533259 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2536018 original size:17 final size:17
Alignment explanation
Indices: 2535982--2536019 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
2535972 AAATAAATAA
*
2535982 TTTAAATATGGTTAGTT
1 TTTAAATATGGATAGTT
2535999 TTTAAGATATGGATAGTT
1 TTTAA-ATATGGATAGTT
2536017 TTT
1 TTT
2536020 CAAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (17 bp):
TTTAAATATGGATAGTT
Found at i:2536481 original size:17 final size:17
Alignment explanation
Indices: 2536459--2536493 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2536449 AAGTTTTACT
2536459 TGACTCGTGACATCAGA
1 TGACTCGTGACATCAGA
2536476 TGACTCGTGACATCAGA
1 TGACTCGTGACATCAGA
2536493 T
1 T
2536494 TCAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (17 bp):
TGACTCGTGACATCAGA
Found at i:2540569 original size:68 final size:68
Alignment explanation
Indices: 2540485--2540620 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
2540475 TCTGGCAATC
2540485 TTGTAACATCTGTAAAAAGGTTTCTATTTATTTCTTGTGGCTGTTTACTGTCCTTGCTTTTTCAC
1 TTGTAACATCTGTAAAAAGGTTTCTATTTATTTCTTGTGGCTGTTTACTGTCCTTGCTTTTTCAC
2540550 TTG
66 TTG
2540553 TTGTAACATCTGTAAAAAGGTTTCTATTTATTTCTTGTGGCTGTTTACTGTCCTTGCTTTTTCAC
1 TTGTAACATCTGTAAAAAGGTTTCTATTTATTTCTTGTGGCTGTTTACTGTCCTTGCTTTTTCAC
2540618 TTG
66 TTG
2540621 CTGACATATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (68 bp):
TTGTAACATCTGTAAAAAGGTTTCTATTTATTTCTTGTGGCTGTTTACTGTCCTTGCTTTTTCAC
TTG
Found at i:2542245 original size:2 final size:2
Alignment explanation
Indices: 2542233--2542277 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2542223 TCAAATTCCA
*
2542233 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2542275 TC T
1 TC T
2542278 ATGCAGTAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:2543959 original size:18 final size:19
Alignment explanation
Indices: 2543936--2543978 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2543926 TTATAGATCT
2543936 GGAAATCTG-TAGAAATAA
1 GGAAATCTGCTAGAAATAA
* *
2543954 GGAAATCTGCTAGAATTCA
1 GGAAATCTGCTAGAAATAA
2543973 GGAAAT
1 GGAAAT
2543979 TTGGAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (19 bp):
GGAAATCTGCTAGAAATAA
Found at i:2548766 original size:18 final size:19
Alignment explanation
Indices: 2548743--2548788 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
2548733 TTTCAGATCT
2548743 GGAAATCTGC-AGAAATCA
1 GGAAATCTGCTAGAAATCA
* *
2548761 GGAAATCTACTAGAATTCA
1 GGAAATCTGCTAGAAATCA
2548780 GGAAATCTG
1 GGAAATCTG
2548789 GAAATCTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (19 bp):
GGAAATCTGCTAGAAATCA
Found at i:2552158 original size:18 final size:19
Alignment explanation
Indices: 2552123--2552159 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2552113 AATTATTTAT
2552123 TAATTTAATAAATATTAAA
1 TAATTTAATAAATATTAAA
*
2552142 TAATTTAA-AAATCTTAAA
1 TAATTTAATAAATATTAAA
2552160 GTTTCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTTAATAAATATTAAA
Found at i:2552527 original size:17 final size:19
Alignment explanation
Indices: 2552473--2552532 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 19
2552463 GTGAAAAACA
* *
2552473 ATATTTTAAAGAAAATTATT
1 ATATATTAAA-AAAATTAAT
* *
2552493 ATATATTAAAAGATTTAAT
1 ATATATTAAAAAAATTAAT
*
2552512 A-ATA-TAAAAAAATTAAC
1 ATATATTAAAAAAATTAAT
2552529 ATAT
1 ATAT
2552533 TTTTTATAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 11 0.34
18 5 0.16
19 7 0.22
20 9 0.28
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (19 bp):
ATATATTAAAAAAATTAAT
Found at i:2553324 original size:17 final size:17
Alignment explanation
Indices: 2553304--2553341 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2553294 GGTTAACAGT
2553304 ACTTTACATTTATACTA
1 ACTTTACATTTATACTA
*
2553321 ACTTTACATTTATATTA
1 ACTTTACATTTATACTA
2553338 ACTT
1 ACTT
2553342 ATAATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (17 bp):
ACTTTACATTTATACTA
Found at i:2554306 original size:48 final size:48
Alignment explanation
Indices: 2554252--2554352 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
2554242 CGTAATTTAA
2554252 TATTTACACTTAAAGTATGAATGATTAAATTATTATTTTTAAGTAAAT
1 TATTTACACTTAAAGTATGAATGATTAAATTATTATTTTTAAGTAAAT
2554300 TATTTACACTTAAAGTATGAATGATTAAATTATTATTTTTAAGTAAAT
1 TATTTACACTTAAAGTATGAATGATTAAATTATTATTTTTAAGTAAAT
2554348 T-TTTA
1 TATTTA
2554353 TTATAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 4 0.08
48 49 0.92
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.48
Consensus pattern (48 bp):
TATTTACACTTAAAGTATGAATGATTAAATTATTATTTTTAAGTAAAT
Found at i:2554378 original size:14 final size:15
Alignment explanation
Indices: 2554330--2554387 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 15
2554320 ATGATTAAAT
2554330 TATTATTT-TTAAGTA
1 TATTATTTATTAA-TA
*
2554345 AATT-TTTATTATAATA
1 TATTATTTA-T-TAATA
*
2554361 TATTATTT-TTAATG
1 TATTATTTATTAATA
2554375 TATTATTTATTAA
1 TATTATTTATTAA
2554388 AATCTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 15 0.43
15 8 0.23
16 6 0.17
17 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTTATTAATA
Found at i:2554384 original size:31 final size:28
Alignment explanation
Indices: 2554323--2554388 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 28
2554313 AGTATGAATG
2554323 ATTAAATTATTATTTTTAAGTAAATTTTT
1 ATTAAATTATTATTTTTAAGT-AATTTTT
2554352 ATTATAATATATTATTTTTAATGT-ATTATTT
1 ATTA-AAT-TATTATTTTTAA-GTAATT-TTT
2554383 ATTAAA
1 ATTAAA
2554389 ATCTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
29 4 0.12
30 8 0.24
31 19 0.58
32 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTAAATTATTATTTTTAAGTAATTTTT
Found at i:2555690 original size:12 final size:12
Alignment explanation
Indices: 2555643--2555689 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
2555633 GAAACTTCTT
2555643 TATGTGTGTGTA
1 TATGTGTGTGTA
*
2555655 TATATGTGTGTA
1 TATGTGTGTGTA
*
2555667 TATGTGTGTGTG
1 TATGTGTGTGTA
*
2555679 TGTGTGTGTGT
1 TATGTGTGTGT
2555690 GCGTGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (12 bp):
TATGTGTGTGTA
Found at i:2555700 original size:2 final size:2
Alignment explanation
Indices: 2555695--2555729 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2555685 TGTGTGCGTG
2555695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2555730 GTTGTAGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2556326 original size:19 final size:20
Alignment explanation
Indices: 2556302--2556418 Score: 96
Period size: 20 Copynumber: 5.8 Consensus size: 20
2556292 TTCTACCAAG
2556302 ATGTATCGATACATTGA-AA
1 ATGTATCGATACATTGATAA
* *
2556321 ATGTATTGATACATGGATAA
1 ATGTATCGATACATTGATAA
** *
2556341 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTGATAA
* *
2556361 ATGTATCGATATATCCT-ACCCAA
1 ATGTATCGATACAT--TGA--TAA
*
2556384 ATGTATCGATACATT-ATTTA
1 ATGTATCGATACATTGA-TAA
2556404 ATGTATCGATACATT
1 ATGTATCGATACATT
2556419 TAGTTAAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
19 15 0.19
20 46 0.59
21 2 0.03
22 1 0.01
23 14 0.18
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGATAA
Found at i:2556344 original size:20 final size:19
Alignment explanation
Indices: 2556302--2556354 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
2556292 TTCTACCAAG
*
2556302 ATGTATCGATACATTGAAA
1 ATGTATCGATACATGGAAA
*
2556321 ATGTATTGATACATGGATAA
1 ATGTATCGATACATGGA-AA
2556341 ATGTATCGATACAT
1 ATGTATCGATACAT
2556355 TCTTCAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACATGGAAA
Found at i:2556985 original size:20 final size:20
Alignment explanation
Indices: 2556962--2557034 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2556952 ACAATTCAAA
2556962 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2556982 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2557003 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2557023 GTATCGATACAT
1 GTATCGATACAT
2557035 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2557006 original size:21 final size:21
Alignment explanation
Indices: 2556980--2557055 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2556970 ACATGTTGCA
2556980 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2557001 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2557021 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2557042 ATGTATCGATACAT
1 ATGTATCGATACAT
2557056 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2557013 original size:41 final size:41
Alignment explanation
Indices: 2556962--2557055 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2556952 ACAATTCAAA
*
2556962 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2557003 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2557044 GTATCGATACAT
1 GTATCGATACAT
2557056 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2557112 original size:13 final size:13
Alignment explanation
Indices: 2557094--2557119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2557084 TACAGCAAGT
2557094 ATGTATCGATACA
1 ATGTATCGATACA
2557107 ATGTATCGATACA
1 ATGTATCGATACA
2557120 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2561201 original size:15 final size:15
Alignment explanation
Indices: 2561181--2561211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2561171 TAAAAATGTC
*
2561181 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2561196 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2561211 C
1 C
2561212 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2563304 original size:20 final size:21
Alignment explanation
Indices: 2563225--2563303 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
2563215 AATGTCCAAA
*
2563225 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2563245 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2563270 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2563290 TTGTATCGATACAT
1 ATGTATCGATACAT
2563304 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2563308 original size:13 final size:13
Alignment explanation
Indices: 2563290--2563328 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2563280 ACATTTTTCT
2563290 TTGTATCGATACA
1 TTGTATCGATACA
2563303 TTGTATCGATACA
1 TTGTATCGATACA
*
2563316 CTGTATCGATACA
1 TTGTATCGATACA
2563329 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2565792 original size:20 final size:20
Alignment explanation
Indices: 2565769--2565841 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2565759 ACAATTCAAA
2565769 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2565789 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2565810 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2565830 GTATCGATACAT
1 GTATCGATACAT
2565842 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2565813 original size:21 final size:21
Alignment explanation
Indices: 2565787--2565862 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2565777 ACATGTTGCA
2565787 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2565808 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2565828 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2565849 ATGTATCGATACAT
1 ATGTATCGATACAT
2565863 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2565820 original size:41 final size:41
Alignment explanation
Indices: 2565769--2565862 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2565759 ACAATTCAAA
*
2565769 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2565810 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2565851 GTATCGATACAT
1 GTATCGATACAT
2565863 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2565919 original size:13 final size:13
Alignment explanation
Indices: 2565901--2565926 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2565891 TACAGCAAGT
2565901 ATGTATCGATACA
1 ATGTATCGATACA
2565914 ATGTATCGATACA
1 ATGTATCGATACA
2565927 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2571242 original size:27 final size:21
Alignment explanation
Indices: 2571181--2571229 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2571171 TTAAGTTTCA
2571181 ACAATTGCAATATGTCTTCTT
1 ACAATTGCAATATGTCTTCTT
2571202 ACAATTGCAATATGTCTTCTT
1 ACAATTGCAATATGTCTTCTT
2571223 ACAATTG
1 ACAATTG
2571230 AGTCCACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (21 bp):
ACAATTGCAATATGTCTTCTT
Found at i:2572552 original size:52 final size:52
Alignment explanation
Indices: 2572490--2572606 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
2572480 AAAATTCATA
2572490 ATGTATCGATACATTTATTTGAAATTATAGCCGTTTATAGCCATTACAAGCT
1 ATGTATCGATACATTTATTTGAAATTATAGCCGTTTATAGCCATTACAAGCT
* *
2572542 ATGTATCGATACATTTATTTGAAATTATAGCCGTTTATAGTCGTTACAAGCT
1 ATGTATCGATACATTTATTTGAAATTATAGCCGTTTATAGCCATTACAAGCT
2572594 ATGTATCGATACA
1 ATGTATCGATACA
2572607 ATGTATCGAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (52 bp):
ATGTATCGATACATTTATTTGAAATTATAGCCGTTTATAGCCATTACAAGCT
Found at i:2572612 original size:13 final size:13
Alignment explanation
Indices: 2572594--2572620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2572584 GTTACAAGCT
2572594 ATGTATCGATACA
1 ATGTATCGATACA
2572607 ATGTATCGATACA
1 ATGTATCGATACA
2572620 A
1 A
2572621 ATAGTGATAG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2572674 original size:20 final size:20
Alignment explanation
Indices: 2572649--2572708 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2572639 CTGCCAGTTT
2572649 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* * *
2572669 CATGTATCGATACAGTGA-G
1 CATGTATCGATACAATTATC
2572688 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
2572709 GATACAAAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:2572693 original size:19 final size:20
Alignment explanation
Indices: 2572649--2572704 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
2572639 CTGCCAGTTT
*
2572649 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATC
* *
2572669 CATGTATCGATACAGTGA-G
1 CATGTATCGATACAATGATC
2572688 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2572705 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATC
Found at i:2572707 original size:13 final size:13
Alignment explanation
Indices: 2572689--2572715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2572679 TACAGTGAGC
2572689 ATGTATCGATACA
1 ATGTATCGATACA
2572702 ATGTATCGATACA
1 ATGTATCGATACA
2572715 A
1 A
2572716 AGCAAGATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2573637 original size:22 final size:22
Alignment explanation
Indices: 2573585--2573627 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2573575 AAAGCACATA
2573585 ATATAATTTACTTTTTGATAAG
1 ATATAATTTACTTTTTGATAAG
2573607 ATATAATTTACTTTTTGATAA
1 ATATAATTTACTTTTTGATAA
2573628 ATTACTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
ATATAATTTACTTTTTGATAAG
Found at i:2575111 original size:20 final size:20
Alignment explanation
Indices: 2575083--2575123 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2575073 TATATACTGC
2575083 TAAGGAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
*
2575103 TAAGTAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
2575123 T
1 T
2575124 GCTTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
TAAGGAAATGTATCGATACA
Found at i:2575158 original size:20 final size:19
Alignment explanation
Indices: 2575089--2575166 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 19
2575079 CTGCTAAGGA
** *
2575089 AATGTATCGATACATAAGTA
1 AATGTATCGATACAT-TTTC
2575109 AATGTATCGATACATGCTTTC
1 AATGTATCGATACAT--TTTC
2575130 AATTGTATCGATACATTTTGC
1 AA-TGTATCGATACATTTT-C
2575151 AATGTATCGATACATT
1 AATGTATCGATACATT
2575167 CTAGGTTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
20 32 0.63
21 6 0.12
22 13 0.25
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (19 bp):
AATGTATCGATACATTTTC
Found at i:2577624 original size:78 final size:78
Alignment explanation
Indices: 2577508--2578088 Score: 467
Period size: 79 Copynumber: 7.4 Consensus size: 78
2577498 AATTTCTAAA
* ** **
2577508 TTTTTCTTTCCAAAAATATTGA-TTTTCATCTCAGGGATATTCCAACCCCGTTATTTCCGAGGGG
1 TTTTTATTTCC-AAAATATCAATTTTTCATCTTGGGGATATTCCAACCCCGTTATTTCCGAGGGG
**
2577572 ATACTTTAACCCTG
65 ATACTCCAACCCTG
* * ** *
2577586 TTTTTATTTCAAAAATATCAATTTTTCGTCTTAAGGATATTCCAACCCCTGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCATCTTGGGGATATTCCAACCCC-GTTATTTCCGAGGGG
2577651 ATACTCCAACCTCAT-
65 ATACTCCAACC-C-TG
** * * * *
2577666 TTTTT-TTT-CAAAACTATTGATTTTTCATCTCGAGGATATTCCAACCTCGTTATTTCTGAGGGG
1 TTTTTATTTCCAAAA-TATCAATTTTTCATCTTGGGGATATTCCAACCCCGTTATTTCCGAGGGG
* *
2577729 GTACTCCAACCCCG
65 ATACTCCAACCCTG
* * * * * * *** *
2577743 TTTTTACTTCCAAAATATCGATTTTTTCA-CATTGGGGCTACTCTAGCCTTATTATTTTCGAGGG
1 TTTTTATTTCCAAAATATC-AATTTTTCATC-TTGGGGATATTCCAACCCCGTTATTTCCGAGGG
* *
2577807 GATACTCTAACCCCG
64 GATACTCCAACCCTG
* * * * * * *
2577822 TTTTTATTCCCAAAATATCAATTTTTCACCATCGGGTATATTCCAATCCCGTTATTTCGGAAGGG
1 TTTTTATTTCCAAAATATCAATTTTTCATC-TTGGGGATATTCCAACCCCGTTATTTCCGAGGGG
*
2577887 ATACTCCAACCC-A
65 ATACTCCAACCCTG
** * * * **
2577900 TTTTTATTTCCAAAATATTGATTTTTCATCATCGGGGATACTCCAACCCTGTTATTTCTAAGGGG
1 TTTTTATTTCCAAAATATCAATTTTTCATC-TTGGGGATATTCCAACCCCGTTATTTCCGAGGGG
*
2577965 ATACTCCAACCCTT
65 ATACTCCAACCCTG
* * * * * *
2577979 TTTTTATTTTCAAAATATCAATTTTTTCACCATCGGGGATACTT-CAACCCCATTATTTTCAAGG
1 TTTTTATTTCCAAAATATCAA-TTTTTCATC-TTGGGGATA-TTCCAACCCCGTTATTTCCGAGG
2578043 GGATACTCCAA-CCTCG
63 GGATACTCCAACCCT-G
** *
2578059 TTTTTACCTCCAAAATATTAAATTTTTCAT
1 TTTTTATTTCCAAAATA-TCAATTTTTCAT
2578089 TGTGGAATGT
Statistics
Matches: 405, Mismatches: 82, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
77 14 0.03
78 140 0.35
79 174 0.43
80 72 0.18
81 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (78 bp):
TTTTTATTTCCAAAATATCAATTTTTCATCTTGGGGATATTCCAACCCCGTTATTTCCGAGGGGA
TACTCCAACCCTG
Found at i:2577798 original size:157 final size:156
Alignment explanation
Indices: 2577542--2578076 Score: 519
Period size: 157 Copynumber: 3.4 Consensus size: 156
2577532 TTCATCTCAG
* ** * * * *
2577542 GGATATTCCAACCCCGTTATTTCCGAGGGGATACTTTAACCCTGTTTTTATTTCAAAAATATCAA
1 GGATATTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATATCGA
* ** * *
2577607 TTTTTCGTC-TTAAGGATATTCCAACCCCTGTTATTTTCGAGGGGATACTCCAACCTCATTTTT-
66 TTTTTC-ACATTGGGGATACT-CAAACCCTGTTATTTTCGAGGGGATACTCCAACC-CATTTTTA
* ** *
2577670 TTTTCAAAACTATTGATTTTTCATC-TCGA
128 TTTCCAAAA-TATCAATTTTTCACCATCGA
* *
2577699 GGATATTCCAACCTCGTTATTTCTGAGGGGGTACTCCAACCCCGTTTTTACTTCCAAAATATCGA
1 GGATATTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATATCGA
* * * * * * *
2577764 TTTTTTCACATTGGGGCTACTCTAGCCTTATTATTTTCGAGGGGATACTCTAACCCCGTTTTTAT
66 -TTTTTCACATTGGGGATACTCAAACCCTGTTATTTTCGAGGGGATACTCCAA-CCCATTTTTAT
*
2577829 TCCCAAAATATCAATTTTTCACCATCG-
129 TTCCAAAATATCAATTTTTCACCATCGA
* * * * * *
2577856 GGTATATTCCAATCCCGTTATTTCGGAAGGGATACTCCAA-CCCATTTTTATTTCCAAAATATTG
1 GG-ATATTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATATCG
* * * *
2577920 ATTTTTCATCATCGGGGATACTCCAACCCTGTTA-TTTCTAAGGGGATACTCCAACCCTTTTTTT
65 ATTTTTCA-CATTGGGGATACTCAAACCCTGTTATTTTC-GAGGGGATACTCCAACCC-ATTTTT
* *
2577984 ATTTTCAAAATATCAATTTTTTCACCATCGG
127 ATTTCCAAAATATCAA-TTTTTCACCATCGA
* * * *
2578015 GGATACTT-CAACCCCATTATTT-TCAAGGGGATACTCCAACCTCGTTTTTACCTCCAAAATAT
1 GGATA-TTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATAT
2578077 TAAATTTTTC
Statistics
Matches: 311, Mismatches: 53, Indels: 26
0.80 0.14 0.07
Matches are distributed among these distances:
156 14 0.05
157 177 0.57
158 98 0.32
159 22 0.07
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (156 bp):
GGATATTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAATATCGA
TTTTTCACATTGGGGATACTCAAACCCTGTTATTTTCGAGGGGATACTCCAACCCATTTTTATTT
CCAAAATATCAATTTTTCACCATCGA
Found at i:2577947 original size:236 final size:237
Alignment explanation
Indices: 2577541--2578087 Score: 653
Period size: 236 Copynumber: 2.3 Consensus size: 237
2577531 TTTCATCTCA
* * * * * *
2577541 GGGATA-TTCCAACCCCGTTATTTCCGAGGGGATACTTTAACCCTGTTTTTATTTCAAAAATATC
1 GGGATACTT-CAACCCCATTATTTTCGAGGGGATACTCTAACCCCGTTTTTATTCCCAAAATATC
** * *
2577605 AATTTTTCGTCTTAAGGATATTCCAACCCCTGTTATTTTCGAGGGGATACTCCAACCTCATTTTT
65 AATTTTTCACCATAAGGATATTCCAACCCCTGTTATTTTCGAAGGGATACTCCAACCTCATTTTT
* * * *
2577670 TTTTCAAAACTATTGATTTTTCATCTCGAGGATATTCCAA-CCTCGTTATTTCTGAGGGGGTACT
130 TTTCCAAAACTATTGATTTTTCATCTCGAGGATACTCCAACCCT-GTTATTTCTAAGGGGATACT
* *
2577734 CCAACCCCGTTTTTACTTCCAAAATATCGATTTTTTCA-CATTG
194 CCAACCCCGTTTTTACTTCCAAAATATCAATTTTTTCACCATCG
* * **
2577777 GGGCTAC-TCTAGCCTTATTATTTTCGAGGGGATACTCTAACCCCGTTTTTATTCCCAAAATATC
1 GGGATACTTC-AACCCCATTATTTTCGAGGGGATACTCTAACCCCGTTTTTATTCCCAAAATATC
** *
2577841 AATTTTTCACCATCGGGTATATTCCAATCCC-GTTA-TTTCGGAAGGGATACTCCAACC-CATTT
65 AATTTTTCACCATAAGG-ATATTCCAACCCCTGTTATTTTC-GAAGGGATACTCCAACCTCATTT
*
2577903 TTATTTCCAAAA-TATTGATTTTTCATCATCGGGGATACTCCAACCCTGTTATTTCTAAGGGGAT
128 TT-TTTCCAAAACTATTGATTTTTCATC-TCGAGGATACTCCAACCCTGTTATTTCTAAGGGGAT
** * *
2577967 ACTCCAACCCTTTTTTTATTTTCAAAATATCAATTTTTTCACCATCG
191 ACTCCAACCCCGTTTTTACTTCCAAAATATCAATTTTTTCACCATCG
* * * *
2578014 GGGATACTTCAACCCCATTATTTTCAAGGGGATACTCCAACCTCGTTTTTA-CCTCCAAAATATT
1 GGGATACTTCAACCCCATTATTTTCGAGGGGATACTCTAACCCCGTTTTTATTC-CCAAAATA-T
*
2578078 AAATTTTTCA
64 CAATTTTTCA
2578088 TTGTGGAATG
Statistics
Matches: 263, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
235 27 0.10
236 156 0.59
237 68 0.26
238 12 0.05
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (237 bp):
GGGATACTTCAACCCCATTATTTTCGAGGGGATACTCTAACCCCGTTTTTATTCCCAAAATATCA
ATTTTTCACCATAAGGATATTCCAACCCCTGTTATTTTCGAAGGGATACTCCAACCTCATTTTTT
TTCCAAAACTATTGATTTTTCATCTCGAGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCC
AACCCCGTTTTTACTTCCAAAATATCAATTTTTTCACCATCG
Found at i:2580629 original size:13 final size:12
Alignment explanation
Indices: 2580607--2580649 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 12
2580597 TTATTTTTTC
2580607 CTTTTTTTCTCT
1 CTTTTTTTCTCT
*
2580619 CTTTTTCTTCTTT
1 CTTTTT-TTCTCT
2580632 CTTTTTTTCTC-
1 CTTTTTTTCTCT
2580643 CTTTTTT
1 CTTTTTT
2580650 CTTTCAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 7 0.25
12 10 0.36
13 11 0.39
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTTTTCTCT
Found at i:2581653 original size:324 final size:326
Alignment explanation
Indices: 2581281--2581999 Score: 1101
Period size: 324 Copynumber: 2.2 Consensus size: 326
2581271 AAAAAATGAT
* *
2581281 ATTTGATATGAATTAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAAT-TTC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCTTC
*
2581345 TTCGAAAAAATTTACGGAGAAAAAAACTCCATATTT-GAAAAAATGAGAGTTTCAAGGAAAAAAT
66 -TCGAAAAAATTTACGGAGAAAAAAACTCCATATTTAGAAAAAAAGA-AGTTTCAAGGAAAAAAT
*
2581409 TAAAAAATCCATGAAAATGAATGAATTTTTGAAAGATGATTTAATATGAATT-AA-ATAATATTT
129 TAAAAAATCCATGAAAATGAATGAATTTTTGAAAGATAATTTAATATGAATTAAATATAATATTT
*
2581472 AATGAATTTTAAAAATTAAAAACCAAAGAAAATCCTCTCGAAAAAATTTACAGAGAAGAAAACTC
194 AATGAATTTTAAAAATTAAAAACCAAAGAAAATCCTC-CCAAAAAATTTACAGAGAAGAAAACTC
* * *
2581537 TGAATTT-TGAAAAAAATGAAGTTTCAAGGAAAAAATTCAAAAATCC-ATGAATGAATTTTTGAA
258 CGAATTTCAGAAAAAAAAG-AGTTTCAAGGAAAAAATTCAAAAATCCAATGAATGAATTTTTGAA
2581600 AGA-TA
322 A-ACTA
2581605 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCTTC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCTTC
* *
2581670 TCGAAAAAATTTACGGAGAAGAAAACTCCATATTTCAGAAAAAAAGAAGTTTCGAGGAAAAAATT
66 TCGAAAAAATTTACGGAGAAAAAAACTCCATATTT-AGAAAAAAAGAAGTTTCAAGGAAAAAATT
* * *
2581735 CAAAATTTCATGAAAATGAATGAATTTTTGAAAGATAATTTAATATGAATTAAATTATAATATTT
130 AAAAAATCCATGAAAATGAATGAATTTTTGAAAGATAATTTAATATGAATTAAA-TATAATATTT
* * * *
2581800 GATGAATTTTAAAAATTAAAAACCAATGAACATCCTCCCAAAAAATTTACGGAGAAGAAAACTCC
194 AATGAATTTTAAAAATTAAAAACCAAAGAAAATCCTCCCAAAAAATTTACAGAGAAGAAAACTCC
*
2581865 GTATTTCAGAAAAAAAAGAGTTTCAAGGAAAAAATTCAAAAATCCATGAAAATGAATGAATTTTT
259 GAATTTCAGAAAAAAAAGAGTTTCAAGGAAAAAATTCAAAAATCC-----AATGAATGAATTTTT
2581930 GAAAACTA
319 GAAAACTA
* *
2581938 ATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAATGAAAATC
1 ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATC
2582000 CTCCTAAAAA
Statistics
Matches: 361, Mismatches: 20, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
324 93 0.26
325 67 0.19
326 11 0.03
327 57 0.16
328 52 0.14
332 1 0.00
333 80 0.22
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (326 bp):
ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAATGAAAATCTTC
TCGAAAAAATTTACGGAGAAAAAAACTCCATATTTAGAAAAAAAGAAGTTTCAAGGAAAAAATTA
AAAAATCCATGAAAATGAATGAATTTTTGAAAGATAATTTAATATGAATTAAATATAATATTTAA
TGAATTTTAAAAATTAAAAACCAAAGAAAATCCTCCCAAAAAATTTACAGAGAAGAAAACTCCGA
ATTTCAGAAAAAAAAGAGTTTCAAGGAAAAAATTCAAAAATCCAATGAATGAATTTTTGAAAACT
A
Done.