Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 10 of 318
Found at i:2525887 original size:63 final size:63
Alignment explanation
Indices: 2525788--2525913 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
2525778 CAATGTGAGA
2525788 GGTCTTGTCCCCCTTGGTAGAGGCAAACGAAGGCTAAGGTGTGAGATCTTGTCTCCCTTAAGG
1 GGTCTTGTCCCCCTTGGTAGAGGCAAACGAAGGCTAAGGTGTGAGATCTTGTCTCCCTTAAGG
* *
2525851 GGTCTTGTCCCCTTTGGTAGAGGCAAACGAAGGCTAAGGTGTGAGGTCTTGTCTCCCTTAAGG
1 GGTCTTGTCCCCCTTGGTAGAGGCAAACGAAGGCTAAGGTGTGAGATCTTGTCTCCCTTAAGG
2525914 AATTGGGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (63 bp):
GGTCTTGTCCCCCTTGGTAGAGGCAAACGAAGGCTAAGGTGTGAGATCTTGTCTCCCTTAAGG
Found at i:2529206 original size:19 final size:19
Alignment explanation
Indices: 2529178--2529214 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2529168 AAGATATCAA
2529178 AATGTCTATCAAAATTTTG
1 AATGTCTATCAAAATTTTG
* *
2529197 AATGTTTATCAGAATTTT
1 AATGTCTATCAAAATTTT
2529215 TAACTTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (19 bp):
AATGTCTATCAAAATTTTG
Found at i:2536827 original size:16 final size:15
Alignment explanation
Indices: 2536806--2536835 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2536796 CCTTTTCCTT
2536806 TTTAAAAAATAAAAAA
1 TTTAAAAAA-AAAAAA
2536822 TTTAAAAAAAAAAA
1 TTTAAAAAAAAAAA
2536836 TCTCCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TTTAAAAAAAAAAAA
Found at i:2537170 original size:24 final size:25
Alignment explanation
Indices: 2537135--2537184 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
2537125 ATTTTCCCAC
2537135 TTTACAATACATATACATATAGATA
1 TTTACAATACATATACATATAGATA
* *
2537160 TTTAC-ATACATATAGATATATATA
1 TTTACAATACATATACATATAGATA
2537184 T
1 T
2537185 ATATATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTACAATACATATACATATAGATA
Found at i:2537190 original size:18 final size:18
Alignment explanation
Indices: 2537145--2537196 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
2537135 TTTACAATAC
*
2537145 ATATACATATAGATATTT
1 ATATACATATAGATATAT
*
2537163 ACATACATATAGATATAT
1 ATATACATATAGATATAT
*
2537181 ATATATATATA-ATATA
1 ATATACATATAGATATA
2537197 GTGAAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
ATATACATATAGATATAT
Found at i:2541207 original size:17 final size:17
Alignment explanation
Indices: 2541187--2541220 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2541177 AGATTTAGGT
2541187 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
2541204 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
2541221 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:2543874 original size:40 final size:39
Alignment explanation
Indices: 2543798--2543879 Score: 101
Period size: 40 Copynumber: 2.1 Consensus size: 39
2543788 ATCAACATTT
** * * *
2543798 CAACAATTATATGCATGAAATTAACAAAATTGAATAATC
1 CAACAATTATATGCAACAAATTAACAAAAATAAATAACC
*
2543837 CAACAATTTATATGCAACAAATTAATAAAAATAAATAACC
1 CAACAA-TTATATGCAACAAATTAACAAAAATAAATAACC
2543877 CAA
1 CAA
2543880 AGGCAAAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 6 0.17
40 30 0.83
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.26
Consensus pattern (39 bp):
CAACAATTATATGCAACAAATTAACAAAAATAAATAACC
Found at i:2546177 original size:41 final size:41
Alignment explanation
Indices: 2546127--2546209 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
2546117 CACTACCATA
2546127 TTTAATTCCTACCTTCAACATGCAATTTTAGACTAAGTATT
1 TTTAATTCCTACCTTCAACATGCAATTTTAGACTAAGTATT
2546168 TTTAATTCCTACCTTCAACATGCAATTTTAGACTAAGTATT
1 TTTAATTCCTACCTTCAACATGCAATTTTAGACTAAGTATT
2546209 T
1 T
2546210 GCTAAATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.42
Consensus pattern (41 bp):
TTTAATTCCTACCTTCAACATGCAATTTTAGACTAAGTATT
Found at i:2547694 original size:139 final size:139
Alignment explanation
Indices: 2547489--2547749 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 139
2547479 TTACGAGAGC
* * * *
2547489 CAGTGTAAGACATGTCTGGGAGATGAATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 CAGTGTAAAACATGTCTAGGACATGAATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGG
* * *
2547554 GACA-TGCATCAGCCTCGAGATAT-ACAAG-CTAGTGTAAGACCTGTTTGGGACATGGCGTCAGC
66 GACACGGCATCAGCCTCGAGATATGA-AAGTC-AGTGTAAAACCTGTCTGGGACATGGCGTCAGC
2547616 TTGTTGTGTGT
129 TTGTTGTGTGT
* * * * * *
2547627 CAGTGTAAAACCTGTCTAGGACATGGCATCGGCATTGAGATGAGAGCCAGTGTAAGACCTTTTTG
1 CAGTGTAAAACATGTCTAGGACAT-GAATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTG
* * *
2547692 GGACACGGCATCGGCCTCGATATATGAAAGTCAGTGTAAAACTTGTCTGGGACATGGC
65 GGACACGGCATCAGCCTCGAGATATGAAAGTCAGTGTAAAACCTGTCTGGGACATGGC
2547750 ATCGATTTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 20 0.19
139 39 0.38
140 42 0.41
141 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (139 bp):
CAGTGTAAAACATGTCTAGGACATGAATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGG
GACACGGCATCAGCCTCGAGATATGAAAGTCAGTGTAAAACCTGTCTGGGACATGGCGTCAGCTT
GTTGTGTGT
Found at i:2547743 original size:49 final size:47
Alignment explanation
Indices: 2547625--2547753 Score: 134
Period size: 49 Copynumber: 2.7 Consensus size: 47
2547615 CTTGTTGTGT
* * * *
2547625 GTCAGTGTAAAACCTGTCTAGGACATGGCATCGGCATTGAGATGAGA
1 GTCAGTGTAAAACTTGTCTGGGACATGGCATCGGCATCGAGATGAAA
* * * * * *
2547672 GCCAGTGTAAGACCTT-TTTGGGACACGGCATCGGCCTCGATATATGAAA
1 GTCAGTGTAA-AACTTGTCTGGGACATGGCATCGGCATCG--AGATGAAA
2547721 GTCAGTGTAAAACTTGTCTGGGACATGGCATCG
1 GTCAGTGTAAAACTTGTCTGGGACATGGCATCG
2547754 ATTTTAATGT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
47 27 0.42
48 7 0.11
49 30 0.47
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GTCAGTGTAAAACTTGTCTGGGACATGGCATCGGCATCGAGATGAAA
Found at i:2553142 original size:46 final size:46
Alignment explanation
Indices: 2552961--2553142 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
2552951 TTTGACATGA
* * * * * ** *
2552961 TGCCATAGTGTCTTTCAACTATGGTCATACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
2553007 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
2553053 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
2553099 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
2553143 AGAGCACACT
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 117 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:2555829 original size:14 final size:14
Alignment explanation
Indices: 2555810--2555836 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2555800 TAAATATTTA
2555810 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
2555824 AAAAGAAAAATTA
1 AAAAGAAAAATTA
2555837 CCTGCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:2561863 original size:22 final size:22
Alignment explanation
Indices: 2561809--2561854 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2561799 ATTGGATCGA
2561809 ATAATAATAATAATTTTACATC
1 ATAATAATAATAATTTTACATC
2561831 ATAATAATAATAATTTTACATC
1 ATAATAATAATAATTTTACATC
2561853 AT
1 AT
2561855 CCTTTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAATAATAATAATTTTACATC
Found at i:2563238 original size:2 final size:2
Alignment explanation
Indices: 2563231--2563255 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2563221 AAATATTGTA
2563231 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2563256 AATCTTCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2570058 original size:23 final size:25
Alignment explanation
Indices: 2570032--2570078 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2570022 TATCATTCAT
*
2570032 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
2570055 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
2570079 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:2570399 original size:46 final size:46
Alignment explanation
Indices: 2570339--2570604 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
2570329 TTTGACGTGA
* * * * * *
2570339 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
2570385 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
2570431 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
2570477 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
2570523 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
2570561 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
2570605 AGAGCACACT
Statistics
Matches: 197, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:2570569 original size:38 final size:38
Alignment explanation
Indices: 2570518--2570593 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
2570508 CATTTCATAT
2570518 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
2570556 CAGGTTGCCATGGTATCTTTCAACTATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
2570594 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:2578452 original size:22 final size:21
Alignment explanation
Indices: 2578400--2578470 Score: 56
Period size: 24 Copynumber: 3.2 Consensus size: 21
2578390 AGATTTTTAA
* *
2578400 ATTTATTATAATTTTTTTAAAT
1 ATTTTTTA-AATTTTTATAAAT
*
2578422 ATAAATTTTAAAATTTTTATAAAT
1 AT---TTTTTAAATTTTTATAAAT
2578446 ATTTTTT-AA-TTTTATAAATT
1 ATTTTTTAAATTTTTATAAA-T
2578466 ATTTT
1 ATTTT
2578471 ATTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 9 0.22
20 8 0.20
21 4 0.10
22 2 0.05
24 14 0.34
25 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTAAATTTTTATAAAT
Found at i:2578476 original size:17 final size:19
Alignment explanation
Indices: 2578380--2578477 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 19
2578370 CTTTCTTTGT
2578380 ATATATTTTTAGATTTT-TAA
1 ATATA-TTTTA-ATTTTATAA
* * *
2578400 ATTTATTATAATTTTTTTAA
1 ATATATTTTAA-TTTTATAA
2578420 ATATAAATTTTAAAATTTTTATAA
1 ATAT--ATTTT--AA-TTTTATAA
*
2578444 ATATTTTTTAATTTTATAA
1 ATATATTTTAATTTTATAA
2578463 AT-TATTTT-ATTTTAT
1 ATATATTTTAATTTTAT
2578478 TTTTATGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.11
18 6 0.09
19 18 0.28
20 12 0.18
22 8 0.12
24 14 0.22
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
ATATATTTTAATTTTATAA
Found at i:2589485 original size:8 final size:8
Alignment explanation
Indices: 2589474--2589500 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2589464 GAAAATGAAT
2589474 AAATAAAC
1 AAATAAAC
2589482 AAATAAAC
1 AAATAAAC
2589490 AAATAAAC
1 AAATAAAC
2589498 AAA
1 AAA
2589501 CTAGAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAC
Found at i:2594417 original size:75 final size:75
Alignment explanation
Indices: 2594294--2594448 Score: 222
Period size: 75 Copynumber: 2.1 Consensus size: 75
2594284 AAAAAATGAC
** * * *
2594294 AAATTAGTTTCTATACATTAGAGTAAAGAGCAAATTGATTATTTTGTTAAAAATTCCATCTATTT
1 AAATTAGTCCCTATACATTAGAGCAAAGAGCAAACTGATTATTTTGTTAAAAATTCCATCCATTT
*
2594359 TTGCTGTTAA
66 TTACTGTTAA
* *
2594369 AAATTAGTCCCTATATATTAGAGCAAAGAGCAAACTGATCTA-TTTGTTAAAAATTCTATCCATT
1 AAATTAGTCCCTATACATTAGAGCAAAGAGCAAACTGAT-TATTTTGTTAAAAATTCCATCCATT
2594433 TTTACTGTTAA
65 TTTACTGTTAA
2594444 AAATT
1 AAATT
2594449 GATCTTTGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 69 0.97
76 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (75 bp):
AAATTAGTCCCTATACATTAGAGCAAAGAGCAAACTGATTATTTTGTTAAAAATTCCATCCATTT
TTACTGTTAA
Found at i:2594728 original size:2 final size:2
Alignment explanation
Indices: 2594721--2594751 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2594711 GTAATAATCC
*
2594721 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2594752 ACCCTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2599405 original size:23 final size:23
Alignment explanation
Indices: 2599343--2599406 Score: 56
Period size: 28 Copynumber: 2.5 Consensus size: 23
2599333 ATCTAAGTTA
*
2599343 TTAATTAATAATATTAATTTTATT
1 TTAAATAATAA-ATTAATTTTATT
*
2599367 TAAAATTTGATTATAAATTAATTTTATT
1 TTAAA--T-A--ATAAATTAATTTTATT
2599395 TTAAATAATAAA
1 TTAAATAATAAA
2599407 ACGTTCTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
23 5 0.16
24 3 0.09
25 1 0.03
26 2 0.06
27 1 0.03
28 16 0.50
29 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATAATAAATTAATTTTATT
Found at i:2601908 original size:21 final size:21
Alignment explanation
Indices: 2601859--2601909 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2601849 CTCAAAACTT
*
2601859 TTAAAAGTTTCAATTAAACCC
1 TTAAAACTTTCAATTAAACCC
* *
2601880 -CAAGAACTTTTAATTAAACCC
1 TTAA-AACTTTCAATTAAACCC
2601901 TTAAAACTT
1 TTAAAACTT
2601910 AATCCCAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAAAACTTTCAATTAAACCC
Found at i:2604455 original size:53 final size:53
Alignment explanation
Indices: 2604338--2604457 Score: 145
Period size: 53 Copynumber: 2.2 Consensus size: 53
2604328 ATTAATTTGT
* * * *
2604338 ATAATTTTATAATAGTTAAAATATAATTTTATCGTTTTAATAATTTATATTTTT
1 ATAATTTT-TAAGAGTTAAAATATAATTTTATCGTTTTAATAATTTAAAATTTC
* *
2604392 ATTATATTTAAGAGTTAAAATATAATTTTA-C-TATTTAATAATTTAAAATTTC
1 ATAATTTTTAAGAGTTAAAATATAATTTTATCGT-TTTAATAATTTAAAATTTC
2604444 ATAAATTTTTAAGA
1 AT-AATTTTTAAGA
2604458 ATCAAAACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 1 0.02
52 19 0.34
53 30 0.54
54 6 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (53 bp):
ATAATTTTTAAGAGTTAAAATATAATTTTATCGTTTTAATAATTTAAAATTTC
Found at i:2605613 original size:3 final size:3
Alignment explanation
Indices: 2605601--2605639 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
2605591 TTTTTTCTAA
*
2605601 TAT T-T TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2605640 TTAAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2609914 original size:6 final size:6
Alignment explanation
Indices: 2609898--2609950 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
2609888 AGTGTAGCTT
* *
2609898 CGGCTC TGGCTC CGGCTC CGGCTC CGGCTC CGGCTC CGGTTC CGGCTC
1 CGGCTC CGGCTC CGGCTC CGGCTC CGGCTC CGGCTC CGGCTC CGGCTC
2609946 CGGCT
1 CGGCT
2609951 TTGGCTTCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.45, G:0.34, T:0.21
Consensus pattern (6 bp):
CGGCTC
Found at i:2612332 original size:3 final size:3
Alignment explanation
Indices: 2612326--2612354 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2612316 TTTTTAAAAT
2612326 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2612355 TTAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2616739 original size:2 final size:2
Alignment explanation
Indices: 2616732--2616766 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2616722 AATGCTCAGG
2616732 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2616767 TAGCAAAAGG
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:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2626412 original size:19 final size:20
Alignment explanation
Indices: 2626372--2626412 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2626362 AAGTATCATC
*
2626372 AAATAATTTAAAATTTATAA
1 AAATAATTTAAAATTTACAA
*
2626392 AAATATTTTAAAATTT-CAA
1 AAATAATTTAAAATTTACAA
2626411 AA
1 AA
2626413 TAAAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATAATTTAAAATTTACAA
Found at i:2630287 original size:27 final size:27
Alignment explanation
Indices: 2630256--2630309 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2630246 AAAAAAAGGG
2630256 GATAACCTTAATCGACACTCTGCATGA
1 GATAACCTTAATCGACACTCTGCATGA
2630283 GATAACCTTAATCGACACTCTGCATGA
1 GATAACCTTAATCGACACTCTGCATGA
2630310 TATCCTCAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (27 bp):
GATAACCTTAATCGACACTCTGCATGA
Found at i:2632542 original size:20 final size:21
Alignment explanation
Indices: 2632517--2632556 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2632507 TTATTTCGTG
*
2632517 TTATAAAAG-TTTTTTATAAT
1 TTATAAAAGCTCTTTTATAAT
2632537 TTATAAAAGCTCTTTTATAA
1 TTATAAAAGCTCTTTTATAA
2632557 AGATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAAAAGCTCTTTTATAAT
Found at i:2634957 original size:2 final size:2
Alignment explanation
Indices: 2634952--2634983 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2634942 GTTAAAAAAT
2634952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2634984 CATAAGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2635575 original size:32 final size:32
Alignment explanation
Indices: 2635524--2635597 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
2635514 AATAATATAC
*
2635524 ATATACATATAATACTAAAATA-TTTAGGTACT-
1 ATATACATATAATAATAAAA-ACTTTA-GTACTA
2635556 ATATACATATTAA-AATAAAAACTTTAGTACTA
1 ATATACATA-TAATAATAAAAACTTTAGTACTA
2635588 ATATTACATA
1 ATA-TACATA
2635598 AGTATATACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 6 0.16
32 22 0.59
33 9 0.24
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.36
Consensus pattern (32 bp):
ATATACATATAATAATAAAAACTTTAGTACTA
Found at i:2635671 original size:3 final size:3
Alignment explanation
Indices: 2635665--2635723 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
2635655 AAACATAAGC
*
2635665 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2635713 TAA TAC TAA TA
1 TAA TAA TAA TA
2635724 TTATAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2640648 original size:14 final size:14
Alignment explanation
Indices: 2640599--2640660 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
2640589 TACGATTTCT
2640599 TTTAAAAATTTCAAA
1 TTTAAAAATTT-AAA
* **
2640614 TTCAAAAATAGAAA
1 TTTAAAAATTTAAA
*
2640628 TTT-AAAATTTAAT
1 TTTAAAAATTTAAA
2640641 TTTAAAAATTTAAA
1 TTTAAAAATTTAAA
*
2640655 TATAAA
1 TTTAAA
2640661 TAAATAATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.27
14 19 0.51
15 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTAAAAATTTAAA
Found at i:2640649 original size:21 final size:21
Alignment explanation
Indices: 2640598--2640654 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2640588 TTACGATTTC
*
2640598 TTTTAAAAATTTCAAATTCAA
1 TTTTAAAAATTTAAAATTCAA
*** * *
2640619 AAATAGAAATTTAAAATTTAA
1 TTTTAAAAATTTAAAATTCAA
2640640 TTTTAAAAATTTAAA
1 TTTTAAAAATTTAAA
2640655 TATAAATAAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATTTAAAATTCAA
Found at i:2657966 original size:20 final size:18
Alignment explanation
Indices: 2657941--2657982 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
2657931 TATTTCTCAC
2657941 TTTTTTATCTTTTATCTTCT
1 TTTTTTATCTTTT-TCTT-T
*
2657961 TTTTTTTTCTTTTTCTTT
1 TTTTTTATCTTTTTCTTT
2657979 TTTT
1 TTTT
2657983 CTCCTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 12 0.57
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATCTTTTTCTTT
Found at i:2657978 original size:16 final size:17
Alignment explanation
Indices: 2657957--2657995 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2657947 ATCTTTTATC
*
2657957 TTCTTTTTTT-TTCTTT
1 TTCTTTTTTTCTCCTTT
2657973 TTCTTTTTTTCTCCTTT
1 TTCTTTTTTTCTCCTTT
2657990 TT-TTTT
1 TTCTTTT
2657996 ACAGTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTCTTTTTTTCTCCTTT
Found at i:2658003 original size:28 final size:27
Alignment explanation
Indices: 2657950--2658004 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
2657940 CTTTTTTATC
* **
2657950 TTTTATCTTCTTTTTTTTTCTTTTTCT
1 TTTTATCTCCTTTTTTTTTCAGTTTCT
*
2657977 TTTTTTCTCCTTTTTTTTTACAGTTTCT
1 TTTTATCTCCTTTTTTTTT-CAGTTTCT
2658005 GATAACATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTTATCTCCTTTTTTTTTCAGTTTCT
Found at i:2659921 original size:28 final size:27
Alignment explanation
Indices: 2659871--2659925 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
2659861 AAGCTTTCAA
2659871 AGTCTTTATATTATATTATTATATTTT
1 AGTCTTTATATTATATTATTATATTTT
*
2659898 AGTCTTT-TATTAT-TTATATATATATT
1 AGTCTTTATATTATATTAT-TATATTTT
2659924 AG
1 AG
2659926 ATTATGAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 15 0.58
27 7 0.27
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (27 bp):
AGTCTTTATATTATATTATTATATTTT
Found at i:2666516 original size:15 final size:16
Alignment explanation
Indices: 2666496--2666525 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2666486 ATGTTTGTTC
2666496 ATTAAGCTTT-AATTA
1 ATTAAGCTTTGAATTA
2666511 ATTAAGCTTTGAATT
1 ATTAAGCTTTGAATT
2666526 TGCTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (16 bp):
ATTAAGCTTTGAATTA
Found at i:2669523 original size:17 final size:17
Alignment explanation
Indices: 2669501--2669536 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2669491 CTCATTTTTC
*
2669501 TATTTTGATACTTAAAT
1 TATTTTGATACTCAAAT
*
2669518 TATTTTGGTACTCAAAT
1 TATTTTGATACTCAAAT
2669535 TA
1 TA
2669537 AAAAAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (17 bp):
TATTTTGATACTCAAAT
Found at i:2674173 original size:2 final size:2
Alignment explanation
Indices: 2674166--2674201 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2674156 TCATATAAGC
2674166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2674202 CAAAGTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2674947 original size:21 final size:20
Alignment explanation
Indices: 2674922--2674962 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2674912 ACCGTCAGAG
2674922 CCAACAACCACCTCTCCAAAA
1 CCAACAA-CACCTCTCCAAAA
*
2674943 CCAACGACACCTCTCCAAAA
1 CCAACAACACCTCTCCAAAA
2674963 TAATGGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.10
Consensus pattern (20 bp):
CCAACAACACCTCTCCAAAA
Found at i:2676879 original size:123 final size:122
Alignment explanation
Indices: 2676726--2676974 Score: 480
Period size: 123 Copynumber: 2.0 Consensus size: 122
2676716 ATAAGTGTTA
2676726 TGTTAGTGAAGTTAAATGCAGTAGCTTGTGTGTTTAGTCTTTCACTGGCTTTGATCAAAGCTACA
1 TGTTAGTGAAGTTAAATGCAGTAGCTTGTGTGTTTAGTCTTTCACTGGCTTTGATCAAAGCTACA
*
2676791 GTTAGTTCTATCCGCTCCACGATATAGTTTTCAGATTCTAGTGTAAGTTGTAAAAGG
66 GCTAGTTCTATCCGCTCCACGATATAGTTTTCAGATTCTAGTGTAAGTTGTAAAAGG
2676848 TGTTAAGTGAAGTTAAATGCAGTAGCTTGTGTGTTTAGTCTTTCACTGGCTTTGATCAAAGCTAC
1 TGTT-AGTGAAGTTAAATGCAGTAGCTTGTGTGTTTAGTCTTTCACTGGCTTTGATCAAAGCTAC
2676913 AGCTAGTTCTATCCGCTCCACGATATAGTTTTCAGATTCTAGTGTAAGTTGTAAAAGG
65 AGCTAGTTCTATCCGCTCCACGATATAGTTTTCAGATTCTAGTGTAAGTTGTAAAAGG
2676971 TGTT
1 TGTT
2676975 TTGAATGTAT
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 4 0.03
123 121 0.97
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (122 bp):
TGTTAGTGAAGTTAAATGCAGTAGCTTGTGTGTTTAGTCTTTCACTGGCTTTGATCAAAGCTACA
GCTAGTTCTATCCGCTCCACGATATAGTTTTCAGATTCTAGTGTAAGTTGTAAAAGG
Found at i:2678514 original size:7 final size:7
Alignment explanation
Indices: 2678502--2678527 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2678492 CGTGTTTTGA
2678502 GGTTTTC
1 GGTTTTC
2678509 GGTTTTC
1 GGTTTTC
2678516 GGTTTTC
1 GGTTTTC
2678523 GGTTT
1 GGTTT
2678528 CTCCCTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.31, T:0.58
Consensus pattern (7 bp):
GGTTTTC
Found at i:2678740 original size:8 final size:8
Alignment explanation
Indices: 2678729--2678763 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
2678719 TAAATGATGA
*
2678729 TATGTATG
1 TATGCATG
2678737 TATGCATG
1 TATGCATG
2678745 TATGCATG
1 TATGCATG
*
2678753 CATGCATG
1 TATGCATG
2678761 TAT
1 TAT
2678764 TCCTTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (8 bp):
TATGCATG
Found at i:2678747 original size:12 final size:12
Alignment explanation
Indices: 2678730--2678763 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2678720 AAATGATGAT
2678730 ATGTATGTATGC
1 ATGTATGTATGC
*
2678742 ATGTATGCATGC
1 ATGTATGTATGC
*
2678754 ATGCATGTAT
1 ATGTATGTAT
2678764 TCCTTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (12 bp):
ATGTATGTATGC
Found at i:2689821 original size:20 final size:21
Alignment explanation
Indices: 2689792--2689837 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
2689782 AAATTTTTTC
* *
2689792 TATAATTTTTTTA-ATATTAT
1 TATAAATTTTTTATATAATAT
2689812 TATAAATTTTTTATATAATAT
1 TATAAATTTTTTATATAATAT
2689833 T-TAAA
1 TATAAA
2689838 ATTATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATAAATTTTTTATATAATAT
Found at i:2689836 original size:31 final size:33
Alignment explanation
Indices: 2689781--2689848 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
2689771 TTATATATAT
* * *
2689781 TAAATTTTTTCTATAATTTTTTTAATATTATT-A
1 TAAATTTTTTATATAA-TTATTTAAAATTATTCA
2689814 TAAATTTTTTATATAA-TATTTAAAATTATTCA
1 TAAATTTTTTATATAATTATTTAAAATTATTCA
2689846 TAA
1 TAA
2689849 CTCCTCCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.39
32 4 0.13
33 15 0.48
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (33 bp):
TAAATTTTTTATATAATTATTTAAAATTATTCA
Found at i:2692451 original size:15 final size:15
Alignment explanation
Indices: 2692432--2692503 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
2692422 TTAAATTAAT
2692432 AAAAATAAAATTATA
1 AAAAATAAAATTATA
*
2692447 AAAAAT-TAATT-TA
1 AAAAATAAAATTATA
****
2692460 ATTTTTTAAAATTATA
1 AAAAAT-AAAATTATA
2692476 AAGAAAT-AAATTATAA
1 AA-AAATAAAATTAT-A
2692492 AAAAATAAAATT
1 AAAAATAAAATT
2692504 TTAATATATC
Statistics
Matches: 41, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 21 0.51
16 11 0.27
17 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (15 bp):
AAAAATAAAATTATA
Found at i:2692749 original size:11 final size:11
Alignment explanation
Indices: 2692735--2692767 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2692725 GATTTCATTC
2692735 TTATTTTATAT
1 TTATTTTATAT
2692746 TTATTATT-TAT
1 TTATT-TTATAT
2692757 TTATTTTATAT
1 TTATTTTATAT
2692768 AAAAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:2700091 original size:17 final size:16
Alignment explanation
Indices: 2700065--2700100 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2700055 AACATTCATG
*
2700065 ATTGATTTTAAGTTGA
1 ATTGATTTTAAGTCGA
2700081 ATTGAATTTTAAGTCGA
1 ATTG-ATTTTAAGTCGA
2700098 ATT
1 ATT
2700101 TACATGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (16 bp):
ATTGATTTTAAGTCGA
Found at i:2701674 original size:3 final size:3
Alignment explanation
Indices: 2701666--2701690 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2701656 GCCACCGCCC
2701666 CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA C
2701691 TGGTTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:2707538 original size:20 final size:20
Alignment explanation
Indices: 2707513--2707551 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2707503 AGTCTCCTTC
*
2707513 TATAAATATCCCATCATTAT
1 TATAAATACCCCATCATTAT
2707533 TATAAATACCCCATCATTA
1 TATAAATACCCCATCATTA
2707552 CTTCAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAATACCCCATCATTAT
Found at i:2707734 original size:21 final size:22
Alignment explanation
Indices: 2707697--2707746 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2707687 CAGTAAAATG
*
2707697 ATTTCTAAAAAATAATTTATTT
1 ATTTCTAAAAAATAATTAATTT
*
2707719 ATTTTTAAAAAA-AATTAATTT
1 ATTTCTAAAAAATAATTAATTT
2707740 -TTTCTAA
1 ATTTCTAA
2707747 TGTTTAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 8 0.32
22 11 0.44
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTCTAAAAAATAATTAATTT
Found at i:2709319 original size:30 final size:30
Alignment explanation
Indices: 2709285--2709365 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
2709275 CAGTTCAATT
2709285 TAATTCAAATAATCAT-AACAAAATTCAACC
1 TAATTCAAATAATCATGAA-AAAATTCAACC
* *
2709315 TAATTCAAATAATCATGAAACAATTCAATC
1 TAATTCAAATAATCATGAAAAAATTCAACC
* *
2709345 TAATTCAAATAAACATCAAAA
1 TAATTCAAATAATCATGAAAA
2709366 TTAGTTGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.27
Consensus pattern (30 bp):
TAATTCAAATAATCATGAAAAAATTCAACC
Found at i:2713100 original size:127 final size:127
Alignment explanation
Indices: 2712748--2713107 Score: 510
Period size: 127 Copynumber: 2.8 Consensus size: 127
2712738 ACGTGAACGG
* * * *
2712748 AATTTTAAAAGGATATTTGATTATTT-GGCTAAACAGAAA-ATCGAAACCCAGGACGTTAGGGCA
1 AATTTTAAAGGGAAATTTGATTATTTAGAC-AAAC-GAAAGATCGAAACCCAGCACGTTAGGGCA
* * * * *
2712811 CGATTTCC-CGAATTCCCAAACATCAATCATCGCCTCTATTTTAAAGTTTAGAAAACGTGGACAA
64 CGA-TCCCTCGAATTTCTAAACATCAATCATCGCCTTTATTTTAAAGTTTAGAAAACGCGGACAA
* * * *
2712875 AATTTTAAAGGAAAATTTGATTATTTAGACAAACAAAAGATCAAAACCCAGCACGTTAGGGCGCG
1 AATTTTAAAGGGAAATTTGATTATTTAGACAAACGAAAGATCGAAACCCAGCACGTTAGGGCACG
* * *
2712940 GTCCCTCGAATTTCTAAACATCAATCATCGCCTTTATTTTAAAGTTTAGAAAATGCGGACGA
66 ATCCCTCGAATTTCTAAACATCAATCATCGCCTTTATTTTAAAGTTTAGAAAACGCGGACAA
2713002 AATTTTAAAGGGAAATTTGATTATTTAGACAAACGAAAGATCGAAACCCAGCACGTTAGGGCACG
1 AATTTTAAAGGGAAATTTGATTATTTAGACAAACGAAAGATCGAAACCCAGCACGTTAGGGCACG
* *
2713067 ATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTTA
66 ATCCCTCGAATTTCTAAACATCAATCATCGCCTTTATTTTA
2713108 TAAAGTCGAC
Statistics
Matches: 207, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
126 6 0.03
127 199 0.96
128 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (127 bp):
AATTTTAAAGGGAAATTTGATTATTTAGACAAACGAAAGATCGAAACCCAGCACGTTAGGGCACG
ATCCCTCGAATTTCTAAACATCAATCATCGCCTTTATTTTAAAGTTTAGAAAACGCGGACAA
Found at i:2715680 original size:44 final size:44
Alignment explanation
Indices: 2715483--2716524 Score: 554
Period size: 44 Copynumber: 22.8 Consensus size: 44
2715473 AGTCTACTCT
* *
2715483 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCA-CTTGCCCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCC
* * * *
2715527 ACTGCAACCTCAGAGG-GATTAGGTTTGCGACCTGTAGCTTCAATCTG-TCCC
1 ACTGCAACTTCAG-GGAGA-TA------AGACTTGTAACTTCAATCTGCT-CC
* * * **
2715578 ACTGCGACTTTAGTGAGATAAGA-TTCGCTGTCTTCAATCTG-TCCC
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCT-CC
* * *
2715623 ACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC
* * *
2715667 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGCCCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCC
* *
2715711 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGC-CTC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTC-C
* * * *
2715755 ACTGCAACCTCAGAGGA-ATTAGGTTTGTGACCTGTAGCTTCAATCTG-TCCC
1 ACTGCAACTTCAG-GGAGA-TA------AGACTTGTAACTTCAATCTGCT-CC
* * * * *
2715806 ACTGCGACTTTAGTGAGATAAGATTCACTGT--CTTCAGTCTG-TCCC
1 ACTGCAACTTCAGGGAGATAAGA--C-TTGTAACTTCAATCTGCT-CC
* * * *
2715851 ACTGCGACTTCAGGGAGATAAGGCTTATAACTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC
* * * *
2715895 ACTGCAACTTTAGGGAGATAAGA-TTCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTT--GTAACTTCAATCTGCTCC
* *
2715940 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGC-CC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCC
* * ** * *
2715983 TACAGCAACCTT-AGAAGGATTAGGTTTGTGACTTGTAGCTTCAATCTGCCCC
1 -ACTGCAA-CTTCAG--GG---A-G-ATAAGACTTGTAACTTCAATCTGCTCC
** *
2716035 ACTGCAACTTCAGGGAGATAAGA-TTCGCTGTCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCC
* *
2716080 ACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC
* ** * * *
2716124 ACTGCAACTTCAGGGAGATAAG-GTTAGTGGCTTCGATCTACCCC
1 ACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTGCTCC
* ** *
2716168 ACTGCAACTTCAGGGAGATAAG-TTTCGCTGTCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCC
* * * *
2716213 ACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC
** * ** *
2716257 ACTGCAACTTCAACGAGATAAG-GTTAGTGGCTTCGATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTGCTCC
* * *
2716301 ACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGCTCC
* * *
2716346 ACTGCAACTTTAGGGAGATAAGACTTGTAACTTCTA-CTTGCCCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCC
* * * * *
2716390 AC-ACAAGTTCAGAGG-GATTAGGTTTGTGACTTGTAGCTTCAATCTGCCCC
1 ACTGCAACTTCAG-GGAGA-TA------AGACTTGTAACTTCAATCTGCTCC
* **
2716440 ACTGCAACTTTAGGGAGATAAGA-TTCGCTGTCTTCAATCT-CTTCACTTC
1 ACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGC-T--C--C
*
2716489 ACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAA
1 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
2716525 CCTATGCTTA
Statistics
Matches: 781, Mismatches: 136, Indels: 158
0.73 0.13 0.15
Matches are distributed among these distances:
42 2 0.00
43 27 0.03
44 333 0.43
45 233 0.30
46 15 0.02
47 5 0.01
48 7 0.01
49 26 0.03
50 38 0.05
51 89 0.11
52 6 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC
Found at i:2715686 original size:89 final size:86
Alignment explanation
Indices: 2715564--2716379 Score: 495
Period size: 89 Copynumber: 9.0 Consensus size: 86
2715554 CGACCTGTAG
* * * **
2715564 CTTCAATCTG-TCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTCAATCTGTCCCACTGC
1 CTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAAGATT-G-TAACTTCAATCTG-CCCACTGC
*
2715628 GACTTCAGGGAGATAAGACTTATAA
62 AACTTCAGGGAGATAAGACTTATAA
* * *
2715653 CTTCAACCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGCCCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTCAATC-TG-CCCACTGCA
* *
2715717 ACCTCAGGGAGATAAGACTTGTAA
63 ACTTCAGGGAGATAAGACTTATAA
* * * *
2715741 CTTCCA-CTTGC-CTCACTGCAACCTCAGAGGA-ATTAGGTTTGTGACCTGTAGCTTCAATCTGT
1 CTTCAATC-TGCTC-CACTGCAACTTCAG-GGAGA-TAAGATTGT-A-----A-CTTCAATCTG-
* * * **
2715803 CCCACTGCGACTTTAGTGAGATAAGA-TTCACTGT
54 CCCACTGCAACTTCAGGGAGATAAGACTT-A-TAA
* * * * *
2715837 CTTCAGTCTG-TCCCACTGCGACTTCAGGGAGATAAGGCTTATAACTTCAACCTGCTCCACTGCA
1 CTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAA-GATTGTAACTTCAATCTGC-CCACTGCA
* *
2715901 ACTTTAGGGAGATAAGA-TTCACTAT
63 ACTTCAGGGAGATAAGACTT-A-TAA
* * * *
2715926 CTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGCCCTACAGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTCAATC-TGCCC-ACTGCA
* ** * *
2715990 ACCTT-AGAAGGATTAGGTTTGTGACTTGTAG
63 A-CTTCAG--GG---A-G-ATAAGACTTATAA
* ** *
2716021 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAACTTCAATCTGC-CCACTGCA
* *
2716086 ACTTCAGAGAGATAAGACTTGTAA
63 ACTTCAGGGAGATAAGACTTATAA
* * ** * *
2716110 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTAGTGGCTTCGATCTACCCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAACTTCAATCT-GCCCACTGCAA
* * **
2716175 CTTCAGGGAGATAAG-TTTCGCTGT
64 CTTCAGGGAGATAAGACTT--ATAA
* * * *
2716199 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACCTACTCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTCAATCTGC-CCACTGCAA
** * **
2716264 CTTCAACGAGATAAG-GTTAGTGG
64 CTTCAGGGAGATAAGACTTA-TAA
* * * *
2716287 CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTTAGTCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAACTTCAATCTGC-CCACTGCA
* *
2716352 ACTTTAGGGAGATAAGACTTGTAA
63 ACTTCAGGGAGATAAGACTTATAA
2716376 CTTC
1 CTTC
2716380 TACTTGCCCC
Statistics
Matches: 576, Mismatches: 101, Indels: 100
0.74 0.13 0.13
Matches are distributed among these distances:
87 7 0.01
88 140 0.24
89 279 0.48
90 13 0.02
91 3 0.01
94 7 0.01
95 76 0.13
96 45 0.08
97 6 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (86 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAACTTCAATCTGCCCACTGCAACT
TCAGGGAGATAAGACTTATAA
Found at i:2715880 original size:228 final size:226
Alignment explanation
Indices: 2715483--2716189 Score: 1026
Period size: 228 Copynumber: 3.1 Consensus size: 226
2715473 AGTCTACTCT
*
2715483 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCCACTTGCCCCACTGCAACCTCAGAGGGATTA
1 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTG-CCCACTGCAACCTCAGA-GGATTA
*
2715548 GGTTTGCGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTC
64 GGTTTGTGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTC
*
2715613 AATCTGTCCCACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACCTC
129 AATCTGTCCCACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTC
2715678 AGGGAGATAAGACTT-GTAACTTCCA-CTTGCCCC
194 AGGGAGATAAGA-TTAGTAACTTCCATC-TGCCCC
2715711 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTGCCTCACTGCAACCTCAGAGGAATTA
1 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTGCC-CACTGCAACCTCAGAGG-ATTA
*
2715776 GGTTTGTGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCACTGTCTTC
64 GGTTTGTGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTC
* * *
2715841 AGTCTGTCCCACTGCGACTTCAGGGAGATAAGGCTTATAACTTCAACCTGCTCCACTGCAACTTT
129 AATCTGTCCCACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTC
* * *
2715906 AGGGAGATAAGATTCACTATCTT-CAGTCTGCTCC
194 AGGGAGATAAGATT-AGTAACTTCCA-TCTGCCCC
* *
2715940 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTGCCCTACAGCAACCTTAGAAGGATTA
1 ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTGCCC-ACTGCAACCTCAG-AGGATTA
* * * * *
2716005 GGTTTGTGACTTGTAGCTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTC
64 GGTTTGTGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTC
* * * * * *
2716070 AATCTG-CTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTT
129 AATCTGTC-CCACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTT
* ** * *
2716134 CAGGGAGATAAGGTTAGTGGCTTCGATCTACCCC
193 CAGGGAGATAAGATTAGTAACTTCCATCTGCCCC
*
2716168 ACTGCAACTTCAGGGAGATAAG
1 ACTGCAACCTCAGGGAGATAAG
2716190 TTTCGCTGTC
Statistics
Matches: 434, Mismatches: 35, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
227 6 0.01
228 230 0.53
229 194 0.45
230 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (226 bp):
ACTGCAACCTCAGGGAGATAAGACTTGTAACTTCCACTTGCCCACTGCAACCTCAGAGGATTAGG
TTTGTGACCTGTAGCTTCAATCTGTCCCACTGCGACTTTAGTGAGATAAGATTCGCTGTCTTCAA
TCTGTCCCACTGCGACTTCAGGGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAGATTAGTAACTTCCATCTGCCCC
Found at i:2716209 original size:133 final size:134
Alignment explanation
Indices: 2715609--2716524 Score: 731
Period size: 133 Copynumber: 6.7 Consensus size: 134
2715599 GATTCGCTGT
* * * ** * *
2715609 CTTCAATCTGTCCCACTGCGACTTCAGGGAGATAAGACTT--ATAACTTCAACCTGCTCCACTGC
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGA-TTCGCTGTCTTCAATCTGCTCTACTGC
* * * * **
2715672 AACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGCCCCACTGCAACCTCAGGGAGATAAGACT
65 AACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGGTT
*
2715736 T-GTAA
129 TAGTAG
* * * * * *
2715741 CTTCCA-CTTGCCTCACTGCAACCTCAGAGGA-ATTAGGTTTGTGACCTGTAGCTTCAATCTG-T
1 CTTCAATC-TGCCCCACTGCAACTTCAG-GGAGA-TAAGATT-CG--CTGT--CTTCAATCTGCT
* * * * * * *
2715803 CCCACTGCGACTTTAGTGAGATAAGATTCACTGT--CTTCAGTCTG-TCCCACTGCGACTTCAGG
58 -CTACTGCAACTTCAGGGAGATAAGA--C-TTGTAACTTCAATCTGCT-CCACTGCAACTTCAGG
* *
2715865 GAGATAAGGCTTA-TAA
118 GAGATAAGGTTTAGTAG
* * * * * * *
2715881 CTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
* * * * *
2715946 ACCTCAGGGAGATAAGACTTGTAACTTCCA-CTTGC-CCTACAGCAACCTT-A-GAAGGATTAGG
66 ACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCC-ACTGCAA-CTTCAGGGA-GATAAGG
2716007 TTTGTGACTTGTAG
127 -TT-T-A---GTAG
2716021 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
* *
2716086 ACTTCAGAGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTA
66 ACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA
*
2716150 GTGG
131 GTAG
* * *
2716154 CTTCGATCTACCCCACTGCAACTTCAGGGAGATAAGTTTCGCTGTCTTCAATCTGCTCTACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
* * * * **
2716219 ACTTTAGGGAGATAAGATTTGTAACTTCAACCTACTCCACTGCAACTTCAACGAGATAAGG-TTA
66 ACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA
*
2716283 GTGG
131 GTAG
* * * * * *
2716287 CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTTAGTCTGCTCCACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
* * * * * *
2716352 ACTTTAGGGAGATAAGACTTGTAACTTCTA-CTTGCCCCAC-ACAAGTTCAGAGG-GATTAGGTT
66 ACTTCAGGGAGATAAGACTTGTAACTTCAATC-TGCTCCACTGCAACTTCAG-GGAGATAAGG-T
2716414 TGTGACTTGTAG
128 T-T-A---GTAG
*
2716426 CTTCAATCTGCCCCACTGCAACTTTAGGGAGATAAGATTCGCTGTCTTCAATCT-CTTCACTTCA
1 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGC-T--C-T-A
*
2716490 CTGCAACTTCAGGGAAATAAGACTTGTAACTTCAA
61 CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
2716525 CCTATGCTTA
Statistics
Matches: 633, Mismatches: 99, Indels: 93
0.77 0.12 0.11
Matches are distributed among these distances:
131 4 0.01
132 43 0.07
133 242 0.38
134 35 0.06
135 3 0.00
136 6 0.01
137 2 0.00
138 3 0.00
139 93 0.15
140 157 0.25
141 9 0.01
142 3 0.00
143 33 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (134 bp):
CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAATCTGCTCTACTGCA
ACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA
GTAG
Found at i:2729517 original size:127 final size:127
Alignment explanation
Indices: 2729070--2729528 Score: 527
Period size: 127 Copynumber: 3.6 Consensus size: 127
2729060 GTTATTCGGT
* * ** *
2729070 CAAACGATAA-ATCGAAACCCAGCATGTTAGGGCACAATTTCTCGAATTTCCAAACA-CGAAAT-
1 CAAACGA-AAGATCGAAACCCAGCACGTTAGGGCACGATCCCTCGAATTTCTAAACATC--AATC
* * ** * * * * *
2729132 ATTGCCTTATTTTTTTTA-TTGAAGAAAACGTGGGCGGAATTTTAAAGGGATATTTGATTATTT-
63 ATCGCCTT-TGTTTTAAAGTT-TAGAAAACGCGGACGAAATTTTAAAGGGAAATTTGATTATTTA
*
2729195 GG
126 GA
* * * *
2729197 CTAAACAGAAA-ATCGAAACCTAGCACGTTAGGGCACGATTTCC-CGAATTCCCAAACATCAATC
1 C-AAAC-GAAAGATCGAAACCCAGCACGTTAGGGCACGA-TCCCTCGAATTTCTAAACATCAATC
* * * * *
2729260 ATCACCTCTATTTTAAAGTTTAGAAAACGTGGACGAAATTTTAAAGGAAAATTTGATTATTTAGA
63 ATCGCCTTTGTTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGAAATTTGATTATTTAGA
*
2729325 CAAACGAAAGATCGAAACCCAGCACGTTAGGGCGCGATCCCTCGAATTTCTAAACATCAATCATC
1 CAAACGAAAGATCGAAACCCAGCACGTTAGGGCACGATCCCTCGAATTTCTAAACATCAATCATC
*
2729390 GCCTTTGTTTTAAAGTTTAGAAAATGCGGACGAAATTTTAAAGGGAAATTTGATTATTTAGA
66 GCCTTTGTTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGAAATTTGATTATTTAGA
* * *
2729452 CAAACGAAAGATCGAAACCCAACACGTTAGGGCACGATCCCTCAAATTTCTAAACATCAAACATC
1 CAAACGAAAGATCGAAACCCAGCACGTTAGGGCACGATCCCTCGAATTTCTAAACATCAATCATC
*
2729517 GCATTTGTTTTA
66 GCCTTTGTTTTA
2729529 TAAAGTCGAC
Statistics
Matches: 290, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
126 7 0.02
127 225 0.78
128 52 0.18
129 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (127 bp):
CAAACGAAAGATCGAAACCCAGCACGTTAGGGCACGATCCCTCGAATTTCTAAACATCAATCATC
GCCTTTGTTTTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGAAATTTGATTATTTAGA
Found at i:2733360 original size:3 final size:3
Alignment explanation
Indices: 2733348--2733401 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
2733338 ATCTTTAACT
2733348 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2733395 TAA TAA T
1 TAA TAA T
2733402 TTAATATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2735280 original size:23 final size:21
Alignment explanation
Indices: 2735252--2735297 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
2735242 CCACCCTAGC
2735252 CTTGTCAGCCACCTGCTCCACCA
1 CTTGTCAGCCACCTG-T-CACCA
*
2735275 CTTGTCAGCTACCTGTCACCA
1 CTTGTCAGCCACCTGTCACCA
2735296 CT
1 CT
2735298 ACTTGCACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.17, C:0.43, G:0.13, T:0.26
Consensus pattern (21 bp):
CTTGTCAGCCACCTGTCACCA
Found at i:2736351 original size:3 final size:3
Alignment explanation
Indices: 2736343--2736523 Score: 91
Period size: 3 Copynumber: 61.0 Consensus size: 3
2736333 ATTTCAATAC
*
2736343 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAG TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T
*
2736390 GTA- TACT T-T TAT TAT ATAT GTA- TAT ATAT ATAT T-T ATAT ATAG TAT
1 -TAT TA-T TAT TAT TAT -TAT -TAT TAT -TAT -TAT TAT -TAT -TAT TAT
* * * **
2736436 TAT T-T T-T TAT TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT T-T GCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2736478 T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2736521 TAT
1 TAT
2736524 ATAGTAGTGT
Statistics
Matches: 142, Mismatches: 17, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
2 21 0.15
3 99 0.70
4 20 0.14
5 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2736459 original size:151 final size:152
Alignment explanation
Indices: 2736199--2736836 Score: 767
Period size: 156 Copynumber: 4.2 Consensus size: 152
2736189 TTACTTTTAC
* *
2736199 TATTATTGTTATTATTATTATTATTATATAGTAGTGTATACATTTTATTATATACGTATATGTAT
1 TATTATTATTATTATTATTATTATTATATAGTAGTGTATACATTTTATTATATATGTATA-G--T
*
2736264 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTTCTTT
63 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTT
2736329 TTGTATTTCAATACTATTATTATTAT
128 TTGTATTTC-ATACTATTATTATTAT
2736355 TATTATTATTATTATTATTATTATTATATAGTAGTGTATAC-TTTTATTATATATGTATA-TATA
1 TATTATTATTATTATTATTATTATTATATAGTAGTGTATACATTTTATTATATATGTATAGTATA
2736418 TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTG
66 TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTG
2736483 TA-TT--T-C-A--A-TATTAT
131 TATTTCATACTATTATTATTAT
* **
2736497 TATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATGCGTATATGTAT
1 TATTATTATTATTATTATTATTATTATATAGTAGTGTATACATTTTATTATATATGTATA-GTAT
2736562 ATATATTTATATAAATAGTATTATTATTATTTTTATTACTTTATTTTAATATTTTTATTATATTT
65 ATATATTTATAT--ATAG---TATTA-T-TTTTTATTACTTTATTTTAATATTTTTATTATATTT
*
2736627 GCTTTTTGTATTTCA-A-TATTATTACTAT
123 GCTTTTTGTATTTCATACTATTATTATTAT
* *
2736655 TATCATTATTATTATTATTATTA--ATAT--TAGTGTATA-TTTTTATTATATATGTATGTATAT
1 TATTATTATTATTATTATTATTATTATATAGTAGTGTATACATTTTA-T-TATA--TATGTATA-
* *
2736715 GTATATATATTTATATATAGTATTA-TTTTAATTACCTTATTTTAATATTATTTATTATATTATA
61 GTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTT-A-A-TA-TT-TT-TATTATA
** *
2736779 TTTGCTTTTTTGTATTTCAT--TATTATTGCTAG
120 TTTGC-TTTTTGTATTTCATACTATTATTATTAT
* * *
2736811 TATTATTATCATTATCATCATTATTA
1 TATTATTATTATTATTATTATTATTA
2736837 ACATACATAT
Statistics
Matches: 433, Mismatches: 17, Indels: 62
0.85 0.03 0.12
Matches are distributed among these distances:
142 47 0.11
143 17 0.04
145 16 0.04
146 1 0.00
147 5 0.01
149 16 0.04
150 8 0.02
151 72 0.17
152 53 0.12
153 10 0.02
154 12 0.03
155 38 0.09
156 86 0.20
157 24 0.06
158 28 0.06
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (152 bp):
TATTATTATTATTATTATTATTATTATATAGTAGTGTATACATTTTATTATATATGTATAGTATA
TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTG
TATTTCATACTATTATTATTAT
Found at i:2736665 original size:3 final size:3
Alignment explanation
Indices: 2736643--2736683 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2736633 TGTATTTCAA
* * *
2736643 TAT TAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2736684 GTGTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2736715 original size:10 final size:10
Alignment explanation
Indices: 2736698--2736737 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
2736688 ATATTTTTAT
2736698 TATATATGTA
1 TATATATGTA
*
2736708 TGTATATGTA
1 TATATATGTA
*
2736718 TATATATTTA
1 TATATATGTA
2736728 TATATA-GTA
1 TATATATGTA
2736737 T
1 T
2736738 TATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:2736741 original size:16 final size:16
Alignment explanation
Indices: 2736687--2736742 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
2736677 AATATTAGTG
*
2736687 TATATTTTTAT-TATA
1 TATATATTTATATATA
* * *
2736702 TATGTATGTATATGTA
1 TATATATTTATATATA
2736718 TATATATTTATATATA
1 TATATATTTATATATA
2736734 GTAT-TATTT
1 -TATATATTT
2736743 TAATTACCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 8 0.25
16 21 0.66
17 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:2740549 original size:24 final size:24
Alignment explanation
Indices: 2740522--2740656 Score: 141
Period size: 24 Copynumber: 5.6 Consensus size: 24
2740512 GAAATGACCT
2740522 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGTGGATTTGAA
* *
2740546 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGTGGATTTGAA
* *
2740570 TAGCACTATGTGTGCGGATTT-ATA
1 TGGCACTATGTGTGTGGATTTGA-A
*
2740594 CGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGTGGATTTGAA
* * *
2740618 TCGTCGA-TATGTGTATGGATTATTAA
1 T-GGC-ACTATGTGTGTGGATT-TGAA
2740644 -GGCACTATGTGTG
1 TGGCACTATGTGTG
2740657 CGGGTTAACA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
23 1 0.01
24 71 0.77
25 16 0.17
26 4 0.04
ACGTcount: A:0.21, C:0.11, G:0.30, T:0.37
Consensus pattern (24 bp):
TGGCACTATGTGTGTGGATTTGAA
Found at i:2747523 original size:48 final size:48
Alignment explanation
Indices: 2747449--2747586 Score: 222
Period size: 48 Copynumber: 2.9 Consensus size: 48
2747439 CAAGATAAAT
* * * *
2747449 ATATATATGTGTGGTAAAGCCAAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
2747497 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
2747545 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
2747587 GCCGAATGAC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:2747590 original size:24 final size:24
Alignment explanation
Indices: 2747563--2747609 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2747553 ATGTGGTAAA
*
2747563 GCCGAATGGCTAATATGAAATATG
1 GCCGAATGACTAATATGAAATATG
*
2747587 GCCGAATGACTAATGTGAAATAT
1 GCCGAATGACTAATATGAAATAT
2747610 ATATGAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (24 bp):
GCCGAATGACTAATATGAAATATG
Found at i:2747620 original size:72 final size:72
Alignment explanation
Indices: 2747515--2747658 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
2747505 ATGTGGTAAA
* * *
2747515 GCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
1 GCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
2747580 AAATATG
66 AAATATG
* *
2747587 GCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 GCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
2747652 AAATATG
66 AAATATG
2747659 TATGAGATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (72 bp):
GCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
AAATATG
Found at i:2747627 original size:48 final size:48
Alignment explanation
Indices: 2747587--2747714 Score: 184
Period size: 48 Copynumber: 2.7 Consensus size: 48
2747577 ATGAAATATG
* *
2747587 GCCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAA
1 GCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTAGTAAA
* * * *
2747635 GCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAA
1 GCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTAGTAAA
* *
2747683 GCCGAATGGCTAATGTGAAATATGTAGGAGAT
1 GCCGAATGACTAATGTGAAATATGTATGAGAT
2747715 GTGTGTATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
GCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTAGTAAA
Found at i:2747693 original size:120 final size:120
Alignment explanation
Indices: 2747471--2747706 Score: 418
Period size: 120 Copynumber: 2.0 Consensus size: 120
2747461 GGTAAAGCCA
* * * *
2747471 AATGGCTAGTGTGATATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 AATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
2747536 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGGCCG
66 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGGCCG
2747591 AATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 AATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
2747656 ATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATG
66 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATG
2747707 TAGGAGATGT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (120 bp):
AATGACTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGGCCG
Found at i:2747905 original size:37 final size:37
Alignment explanation
Indices: 2747855--2747960 Score: 194
Period size: 37 Copynumber: 2.9 Consensus size: 37
2747845 GGAAATATAT
2747855 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
2747892 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
2747929 TCCGGGTAAGACCCGATAACTACGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
2747961 CTATTCGAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:2752204 original size:24 final size:24
Alignment explanation
Indices: 2752177--2752270 Score: 120
Period size: 24 Copynumber: 3.9 Consensus size: 24
2752167 ATGACCTTGG
2752177 CACTATGTGTGCGGATTTGAATGA
1 CACTATGTGTGCGGATTTGAATGA
*
2752201 CACTATGTGTGCGGATTTGTAT-A
1 CACTATGTGTGCGGATTTGAATGA
* *
2752224 GCACTATGTGTGCGGATTT-ATACGG
1 -CACTATGTGTGCGGATTTGA-ATGA
*
2752249 CACTATGTGTGAGGATTTGAAT
1 CACTATGTGTGCGGATTTGAAT
2752271 CGTCGATATG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 58 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (24 bp):
CACTATGTGTGCGGATTTGAATGA
Found at i:2752253 original size:48 final size:48
Alignment explanation
Indices: 2752176--2752267 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
2752166 AATGACCTTG
* *
2752176 GCACTATGTGTGCGGATTTGAATGACACTATGTGTGCGGATTTGTATA
1 GCACTATGTGTGCGGATTTGAACGACACTATGTGTGAGGATTTGTATA
*
2752224 GCACTATGTGTGCGGATTT-ATACGGCACTATGTGTGAGGATTTG
1 GCACTATGTGTGCGGATTTGA-ACGACACTATGTGTGAGGATTTG
2752268 AATCGTCGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGGATTTGAACGACACTATGTGTGAGGATTTGTATA
Found at i:2752324 original size:73 final size:72
Alignment explanation
Indices: 2752174--2752328 Score: 172
Period size: 73 Copynumber: 2.1 Consensus size: 72
2752164 GAAATGACCT
* * *
2752174 TGGCACTATGTGTGCGGATTTGAATGACACTATGTGTGCGGATTTGTATAGCACTATGTGTGCGG
1 TGGCACTATGTGTGAGGATTTGAATGACACTATGTGTACAGATTTGTATAGCACTATGTGTGCGG
* *
2752239 ATTTATA
66 ATTAACA
* * *
2752246 CGGCACTATGTGTGAGGATTTGAATCGTCGA-TATGTGTATAGATTAT-TA-AGGCACTATGTGT
1 TGGCACTATGTGTGAGGATTTGAAT-GAC-ACTATGTGTACAGATT-TGTATA-GCACTATGTGT
*
2752308 GCGGGTTAACA
62 GCGGATTAACA
2752319 TGGCACTATG
1 TGGCACTATG
2752329 GGTGCAAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
72 24 0.35
73 43 0.62
74 2 0.03
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (72 bp):
TGGCACTATGTGTGAGGATTTGAATGACACTATGTGTACAGATTTGTATAGCACTATGTGTGCGG
ATTAACA
Found at i:2763255 original size:77 final size:77
Alignment explanation
Indices: 2763151--2763325 Score: 246
Period size: 77 Copynumber: 2.3 Consensus size: 77
2763141 TTGGTATCCT
* * *
2763151 GATATTTT-TATTTCTATTTTTCGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAG
1 GATATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCATAG
* *
2763214 GGTCACGCGCCGA
65 GGCCACACGCCGA
* *
2763227 GGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCATCGG
1 GATATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCATAGG
*
2763292 GCCACATGCCGA
66 GCCACACGCCGA
*
2763304 GATATTTTCAATTTTTGTTTTT
1 GATATTTTCAATTTCTGTTTTT
2763326 TAATTTTTGC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
76 9 0.10
77 78 0.90
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (77 bp):
GATATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCATAGG
GCCACACGCCGA
Found at i:2763405 original size:91 final size:91
Alignment explanation
Indices: 2763231--2763414 Score: 260
Period size: 91 Copynumber: 2.0 Consensus size: 91
2763221 CGCCGAGGTA
* *
2763231 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCATCGGGCCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGACCATCGGGCCA
* * *
2763296 CATGCCGAGATATTTTCAATTTTTGT
66 CACGCCGAGATATCTTCAATTTATGT
* * * * *
2763322 TTTTTAATTTTTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGATGAGTTGACCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGACCATCGGGCCA
* *
2763387 CACGCTGAGGTATCTTCAATTTATGT
66 CACGCCGAGATATCTTCAATTTATGT
2763413 TT
1 TT
2763415 CAAAAAAATC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (91 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGACCATCGGGCCA
CACGCCGAGATATCTTCAATTTATGT
Found at i:2763460 original size:75 final size:74
Alignment explanation
Indices: 2763336--2763529 Score: 237
Period size: 75 Copynumber: 2.6 Consensus size: 74
2763326 TAATTTTTGC
* * *
2763336 TTTTCAAGAAAATCAACTCATATTGCGAG-AGATGAGTTGACCCTCGGGTCACACGCTGAGGTAT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGTCACAAGCTGAGGTAT
2763400 CTTCAATTTA
65 CTTCAATTTA
*
2763410 TGTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACAAGCTGAGGTAT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACAAGCTGAGGTAT
* * * *
2763475 TTTTAGTTTC
65 CTTCAATTTA
* ** * *
2763485 TATTCGCCAAAAATCGACTCATAGTGCGAGAAGTGAGTTGAGCCT
1 TTTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
2763530 TTTAGTCTCT
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
74 4 0.04
75 97 0.94
76 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACAAGCTGAGGTATC
TTCAATTTA
Found at i:2765371 original size:3 final size:3
Alignment explanation
Indices: 2765363--2765564 Score: 122
Period size: 3 Copynumber: 67.0 Consensus size: 3
2765353 TGTATTTCAA
2765363 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2765411 TAT ATAG TAGT GTA- TACT TTT TAT TAT ATACG TA- TAT GTA- TAT ATAT
1 TAT -TAT TA-T -TAT TA-T TAT TAT TAT -TA-T TAT TAT -TAT TAT -TAT
* * * *
2765458 T-T ATAT ATAG TAT TAT T-T T-T TAT TAC T-T TAT T-T TAA TAT TTT
1 TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2765500 TAT TA- TATT TACT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
2765544 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
2765565 AATATAGTAG
Statistics
Matches: 160, Mismatches: 18, Indels: 42
0.73 0.08 0.19
Matches are distributed among these distances:
2 20 0.12
3 117 0.73
4 21 0.13
5 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2765472 original size:131 final size:134
Alignment explanation
Indices: 2765254--2765549 Score: 406
Period size: 131 Copynumber: 2.2 Consensus size: 134
2765244 ATTTTTTACT
*
2765254 TTTATTATTATTGTTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATACGTATATGT
1 TTTATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATACGTATATGT
** * *
2765319 ATATATATTTAATATTTTTATTATATTTGCTT-TTTGTATTTCAATATTATTATTAT-TATTA-T
66 ATATATATTTAATATTAGTATTATATTTGATTACTT-TATTTCAATATTATTATTATAT-TTACT
2765381 TAT-TA
129 TATGTA
2765386 -TTATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATACGTATATGT
1 TTTATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATACGTATATGT
* * * *
2765450 ATATATATTT-ATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTACTT
66 ATATATATTTAATAT-TAGTATTATATTTGATTACTTTATTTCAATATTATTATTATATTTAC-T
*
2765514 TTTGTA
129 TATGTA
*
2765520 TTTCAATATTATTATTATTATTATTATTAT
1 TTT-ATTATTATTATTATTATTATTATTAT
2765550 TATTATTATT
Statistics
Matches: 145, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
130 4 0.03
131 106 0.73
132 3 0.02
133 3 0.02
134 2 0.01
135 2 0.01
136 25 0.17
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (134 bp):
TTTATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTATTATATACGTATATGT
ATATATATTTAATATTAGTATTATATTTGATTACTTTATTTCAATATTATTATTATATTTACTTA
TGTA
Found at i:2765505 original size:32 final size:33
Alignment explanation
Indices: 2765468--2765548 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 33
2765458 TTATATATAG
* *
2765468 TATTATTTTTTATTACTT-TATTTTAATATTTT
1 TATTATTTTTTATTACTTGTATTTCAATATTAT
* *
2765500 TATTA-TATTTACTT-TTTGTATTTCAATATTAT
1 TATTATTTTTTA-TTACTTGTATTTCAATATTAT
2765532 TATTATTATTATTATTA
1 TATTATT-TT-TTATTA
2765549 TTATTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
31 7 0.18
32 24 0.63
33 1 0.03
34 3 0.08
35 3 0.08
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (33 bp):
TATTATTTTTTATTACTTGTATTTCAATATTAT
Found at i:2765742 original size:10 final size:10
Alignment explanation
Indices: 2765725--2765764 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
2765715 ATATTTTTAT
2765725 TATATATGTA
1 TATATATGTA
*
2765735 TGTATATGTA
1 TATATATGTA
*
2765745 TATATATTTA
1 TATATATGTA
2765755 TATATA-GTA
1 TATATATGTA
2765764 T
1 T
2765765 TATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:2765751 original size:150 final size:146
Alignment explanation
Indices: 2765384--2765852 Score: 439
Period size: 150 Copynumber: 3.2 Consensus size: 146
2765374 TTATTATTAT
* * *
2765384 TATTATTATTATTATTATTATTATTATTATATAGTAGTGTATACTTTTTA-T-TATA-TACGTAT
1 TATTATTACTATTATTATTATTATTATTA-ATATTAGTGTATA-TTTTTATTATATATTATGTAT
*
2765446 ATGTATATATATT-TATAT---ATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATA
64 ATGTATATATATTATATATAGAATATTATTATTTTTTATTACTTTATTTTAATATTTTTATTATA
*
2765507 TTTACTTTTTGTATTTCAA
129 CTT-CTTTTTGTATTTCAA
* * ** *
2765526 TATTATTATTATTATTATTATTATTATTATTATTA-T-TATAATATAGTAGTGTATACTTTTTAT
1 TATTATTACTATTATTATTATTATTATTAATATTAGTGTAT-AT-TTTTA-T-TATA--TATTAT
** *
2765589 -TATATGCGTATAT-GTATATATAGAAATATTATTATTTTTTATTACTTTATTTTAATATTTTTA
60 GTATATGTATATATATTATATATAG-AATATTATTATTTTTTATTACTTTATTTTAATATTTTTA
2765652 TTATACTTGCTTTTTGTATTTCAA
124 TTATACTT-CTTTTTGTATTTCAA
* *
2765676 TATTATTGCTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
1 TATTATTACTATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATAT-TATGTATA
* * * *
2765741 TGTATATATATTTATATATAGTATTATT-TTAATTACATTTT-TTAATATTA-TTTATTATATTA
65 TGTATATATA-TTATATATAG-AATATTATT-ATT---TTTTATTACT-TTATTTTAATAT-TTT
*
2765803 TATT-TACTT-TTTTTGTATTTCAT
122 TATTATACTTCTTTTTGTATTTCAA
* * *
2765826 TATTATTGCTAGTATTATTATCATTAT
1 TATTATTACTATTATTATTATTATTAT
2765853 CATCATTATT
Statistics
Matches: 270, Mismatches: 31, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
139 4 0.01
140 5 0.02
141 4 0.01
142 29 0.11
143 1 0.00
144 2 0.01
145 1 0.00
146 19 0.07
147 5 0.02
148 15 0.06
149 3 0.01
150 147 0.54
151 3 0.01
152 19 0.07
153 13 0.05
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (146 bp):
TATTATTACTATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATATTATGTATAT
GTATATATATTATATATAGAATATTATTATTTTTTATTACTTTATTTTAATATTTTTATTATACT
TCTTTTTGTATTTCAA
Found at i:2765768 original size:16 final size:16
Alignment explanation
Indices: 2765714--2765769 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
2765704 AATATTAGTG
*
2765714 TATATTTTTAT-TATA
1 TATATATTTATATATA
* * *
2765729 TATGTATGTATATGTA
1 TATATATTTATATATA
2765745 TATATATTTATATATA
1 TATATATTTATATATA
2765761 GTAT-TATTT
1 -TATATATTT
2765770 TAATTACATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 8 0.25
16 21 0.66
17 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:2767213 original size:3 final size:3
Alignment explanation
Indices: 2767205--2767268 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
2767195 ACGTTTAGAG
* *
2767205 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T T-T CTGT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
2767249 TAT TAG TAT ATAT TAT TAT T
1 TAT TAT TAT -TAT TAT TAT T
2767269 TCTATTAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 3 0.06
3 46 0.87
4 4 0.08
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2767399 original size:3 final size:3
Alignment explanation
Indices: 2767391--2767444 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
2767381 ACTCATGTCG
*
2767391 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2767439 TTA TTA
1 TTA TTA
2767445 AACTGATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2769433 original size:3 final size:3
Alignment explanation
Indices: 2769425--2769455 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2769415 TGCGAAGCTT
*
2769425 ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2769456 AAGTGATCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:2777670 original size:132 final size:131
Alignment explanation
Indices: 2777164--2777673 Score: 397
Period size: 132 Copynumber: 3.9 Consensus size: 131
2777154 TTCACAATTA
* * * * * * *
2777164 TTTAAAACGAATGCGATATTCGATATTTGACAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTG
1 TTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTG
* ** * * * * *
2777229 CAATTTCTCGTTTGCTT-AAAGTAATAGAAAGTCCCTTCAAAATTTCACTCATGTCTTCCAAAAA
66 CAATTTCTCATTTG-TTCAAAACAATCGAATGTCCCTTCGAAATTTCACTCATGTTTTCTAAAAA
2777293 TCC
130 -CC
* * *
2777296 TTTAAAACGAAGGCAATACTCGGTGTTTGACAATTC-GGGAATCA-TGCCCTATCGTGCTGGGTC
1 TTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGGAAT-AGTGCCCTATCGTGCTGGGTT
** * * ** ** *
2777359 GTGATTTCTCATTTGTTCAAAAACAATCGAATAT-TCTTTTAGGTTTTCACCCATGTTTAT-TAA
65 GCAATTTCTCATTTGTTC-AAAACAATCGAATGTCCCTTCGA-AATTTCACTCATGTTT-TCTAA
2777422 AAACC
127 AAACC
* * * * * * * *
2777427 TTTCAAAACGAAGGCGATGTTCTATGTTTGGCGATT-TGAGAATCGTGCCCTATCGTGCTGGGTT
1 TTT-AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGGAATAGTGCCCTATCGTGCTGGGTT
* * * * * * * * *
2777491 GCATTTTTTCATTTATTCTAAACGATCGAA-GATCCCTTTGGAATTTCATTCACGTTTTCTAAAA
65 GCAATTTCTCATTTGTTCAAAACAATCGAATG-TCCCTTCGAAATTTCACTCATGTTTTCTAAAA
2777555 ACC
129 ACC
* * * * * *
2777558 ATTTAAAACGAAAGAAATGTTCGATGTTTGGCGATTCGGGGAATAGTGCCCTATCGTGCTAGGTT
1 -TTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGGAATAGTGCCCTATCGTGCTGGGTT
* **
2777623 GCAATTTC-CAGTTTGTTCAAAATAATCGAATGTTTCTTCGAAATTTCACTC
65 GCAATTTCTCA-TTTGTTCAAAACAATCGAATGTCCCTTCGAAATTTCACTC
2777674 GTATTTTTCT
Statistics
Matches: 292, Mismatches: 71, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
130 3 0.01
131 102 0.35
132 185 0.63
133 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTAAAACGAAGGCAATATTCGATGTTTGACAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTG
CAATTTCTCATTTGTTCAAAACAATCGAATGTCCCTTCGAAATTTCACTCATGTTTTCTAAAAAC
C
Found at i:2778717 original size:14 final size:14
Alignment explanation
Indices: 2778698--2778732 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2778688 CGCTGAGGTA
*
2778698 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
2778712 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
2778726 TTTTCAA
1 TTTTCAA
2778733 AAAAATCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:2778862 original size:86 final size:86
Alignment explanation
Indices: 2778674--2780103 Score: 1855
Period size: 86 Copynumber: 16.5 Consensus size: 86
2778664 CCCGAATTCC
* *
2778674 TGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCTTTTCAAAAAAAT
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTT-AATTTATGCTTTTC--AAAAAT
* *
2778739 CCACTCATATTGCAAAAGGTGAGT
63 CAACTCATATTGCAAGAGGTGAGT
* *
2778763 TGAGCCTCAGGACACGCTTAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
2778828 CTCATATTGCAAGAGGTGAGT
66 CTCATATTGCAAGAGGTGAGT
* * *
2778849 TAAGGCTCAGGACACGCTGAGGTATTTTCAATTTTTGTTTTTAATTTATGCTTTTCAAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
2778914 CTCATATTGCAAGAGGTGAGT
66 CTCATATTGCAAGAGGTGAGT
* * *
2778935 TGAGCCTCGGGATACGCTGAGGTATTTTCAATTTCCGTTTTTTTTAATTTATGCTTTTCAAAAAT
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-C--TGTTTTTAATTTATGCTTTTCAAAAAT
* *
2779000 CAACTCATACTGCGAGAGGTGAGT
63 CAACTCATATTGCAAGAGGTGAGT
* * * ** *
2779024 TGAGTCTTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTGCCAATTTTTGCTTTTCAAAAAAAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT-TTAATTTATGCTTTTC---AAAAA
*
2779089 TCAACTCATATTGCAAGAGGTGAAT
62 TCAACTCATATTGCAAGAGGTGAGT
2779114 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
*
2779179 CTCATATTGCAAGATGTGAGT
66 CTCATATTGCAAGAGGTGAGT
* *
2779200 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTCATTTTTTTAATTTATGCTTTTCAAAAATC
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTC-TGTTTTTAATTTATGCTTTTCAAAAATC
*
2779265 AACTCATATTGCGAGAGGTGAGT
64 AACTCATATTGCAAGAGGTGAGT
* * *
2779288 TGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAGT
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTT-TAATTTATGCTTTTC-AAAAA--
2779353 TCAACTCATATTGCAAGAGGTGAGT
62 TCAACTCATATTGCAAGAGGTGAGT
*
2779378 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
*
2779443 CTCATATTGTAAGAGGTGAGT
66 CTCATATTGCAAGAGGTGAGT
* * *
2779464 TAAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGTTTTTTTAATTTATGCTTTTTAAAAATC
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG--TTTTTAATTTATGCTTTTCAAAAATC
* * *
2779529 AACTCATACTGCGAGAGGTGAAT
64 AACTCATATTGCAAGAGGTGAGT
* * * *
2779552 TGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTT-TAATTTATGCTTTTC---AAAAA
2779617 TCAACTCATATTGCAAGAGGTGAGT
62 TCAACTCATATTGCAAGAGGTGAGT
*
2779642 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
2779707 CTCATATTGCAAGA---G-G-
66 CTCATATTGCAAGAGGTGAGT
*
2779723 T--G----A-GACACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTCAAAAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-C---TGTTTTTAATTTATGCTTTTCAAAAA
* *
2779781 TCAACTCATACTGCGAGAGGTGAGT
62 TCAACTCATATTGCAAGAGGTGAGT
* * *
2779806 TGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAAT
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTT-TAATTTATGCTTTTC--AAAAAT
*
2779871 CAACTCATATTGAAAGAGGTGAGT
63 CAACTCATATTGCAAGAGGTGAGT
* *
2779895 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA---A--------AAAAATCAA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
*
2779949 CTCATATTGCGAGAGGTGAGT
66 CTCATATTGCAAGAGGTGAGT
* *
2779970 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTTAATTTATGCTTTTCAAAAACCA
1 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG-TTTTTAATTTATGCTTTTCAAAAATCA
* * *
2780035 ACCCATATTGCGAGAAGTGAGT
65 ACTCATATTGCAAGAGGTGAGT
* * * *
2780057 TGAGCAT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAAT
1 TGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAATTTCTGTTTTTAAT
2780104 GTCTGTATCT
Statistics
Matches: 1182, Mismatches: 106, Indels: 107
0.85 0.08 0.08
Matches are distributed among these distances:
74 24 0.02
75 66 0.06
76 5 0.00
78 40 0.03
79 2 0.00
81 2 0.00
82 2 0.00
83 2 0.00
85 1 0.00
86 298 0.25
87 95 0.08
88 187 0.16
89 243 0.21
90 215 0.18
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (86 bp):
TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAA
CTCATATTGCAAGAGGTGAGT
Found at i:2779335 original size:14 final size:15
Alignment explanation
Indices: 2779312--2779344 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2779302 CGCTGAGGTA
2779312 TTTT-CAATTTCTG-
1 TTTTCCAATTTCTGC
2779325 TTTTCCAATTTCTGC
1 TTTTCCAATTTCTGC
2779340 TTTTC
1 TTTTC
2779345 AAAAAAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTCCAATTTCTGC
Found at i:2779383 original size:264 final size:263
Alignment explanation
Indices: 2778674--2780099 Score: 2063
Period size: 264 Copynumber: 5.5 Consensus size: 263
2778664 CCCGAATTCC
* * *
2778674 TGAGCCTCAGGG-CACGCTGAGGTATTTTCAATTTC-TGTTTTTCAATTTCTGCTTTTCAAAAAA
1 TGAGCCTC-GGGACACGCTGAGGTATTTTCAATTTCGTTTTTTTTAATTTATGCTTTTC--AAAA
* * * * * * *
2778737 ATCCACTCATATTGCAAAAGGTGAGTTGAGCCTCAGGACACGCTTAGGTATTTTCAATTTCCGTT
63 ATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTT
* * * *
2778802 TT-TAATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGGCTCAGGACAC
128 TTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
*
2778864 GCTGAGGTATTTTCAATTTTTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAG
193 GCTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAG
2778929 GTGAGT
258 GTGAGT
*
2778935 TGAGCCTCGGGATACGCTGAGGTATTTTCAATTTCCGTTTTTTTTAATTTATGCTTTTCAAAAAT
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTT-CGTTTTTTTTAATTTATGCTTTTCAAAAAT
* * *
2779000 CAACTCATACTGCGAGAGGTGAGTTGAGTCTTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTG
65 CAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
* *
2779065 CCAATTTTTGCTTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACG
130 CCAATTTCTGCTTTTC-AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
*
2779130 CTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGATG
194 CTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGG
2779195 TGAGT
259 TGAGT
*
2779200 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTC-ATTTTTTTAATTTATGCTTTTCAAAAAT
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAA-TTTCGTTTTTTTTAATTTATGCTTTTCAAAAAT
*
2779264 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
65 CAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
*
2779329 CCAATTTCTGCTTTTCAAAAAAGTTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
130 CCAATTTCTGCTTTTCAAAAAA-ATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
* *
2779394 CTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGTAAGAGG
194 CTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGG
2779459 TGAGT
259 TGAGT
* * * *
2779464 TAAGCCTCAGGACACGCTAAGGTATTTTCAATTTC-TGTTTTTTTAATTTATGCTTTTTAAAAAT
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCGT-TTTTTTTAATTTATGCTTTTCAAAAAT
* *
2779528 CAACTCATACTGCGAGAGGTGAATTGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
65 CAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
2779593 CCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
130 CCAATTTCTGCTTTTC-AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
*
2779658 CTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGA--
194 CTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGG
2779721 -G-G-
259 TGAGT
2779723 TGA-------GACACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTCAAAAA
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTT-CG-TTTTTTTTAATTTATGCTTTTCAAAAA
2779781 TCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTT
64 TCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTT
*
2779846 TCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACACG
129 TCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
* * *
2779911 CTGAGGTATTTTCAATTTCTGCTTTTCA---A--------AAAAATCAACTCATATTGCGAGAGG
194 CTGAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGG
2779965 TGAGT
259 TGAGT
* *
2779970 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCG--TTTTTTAATTTATGCTTTTCAAAAAC
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTT-CGTTTTTTTTAATTTATGCTTTTCAAAAAT
* * * * * * *
2780033 CAACCCATATTGCGAGAAGTGAGTTGAGCAT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
65 CAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTTCAATTTCTGT
2780097 TTT
127 TTT
2780100 TAATGTCTGT
Statistics
Matches: 1075, Mismatches: 61, Indels: 66
0.89 0.05 0.05
Matches are distributed among these distances:
242 22 0.02
245 1 0.00
246 1 0.00
247 3 0.00
250 3 0.00
251 55 0.05
252 23 0.02
253 98 0.09
254 132 0.12
255 1 0.00
259 2 0.00
260 4 0.00
261 91 0.08
262 14 0.01
263 29 0.03
264 445 0.41
265 148 0.14
266 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (263 bp):
TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCGTTTTTTTTAATTTATGCTTTTCAAAAATC
AACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTC
CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTG
AGT
Found at i:2779599 original size:14 final size:15
Alignment explanation
Indices: 2779576--2779608 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2779566 CGCTGAGGTA
2779576 TTTT-CAATTTCTG-
1 TTTTCCAATTTCTGC
2779589 TTTTCCAATTTCTGC
1 TTTTCCAATTTCTGC
2779604 TTTTC
1 TTTTC
2779609 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTCCAATTTCTGC
Found at i:2779739 original size:74 final size:74
Alignment explanation
Indices: 2779652--2779893 Score: 259
Period size: 78 Copynumber: 3.0 Consensus size: 74
2779642 TGAGCCTCAG
2779652 GACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGC
1 GACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGC
2779717 AAGAGGTGA
66 AAGAGGTGA
2779726 GACACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATA
1 GACACGCTGAGGTATTTTCAATTTCCG----TTTTTAATTTATGCTTTTCAAAAATCAACTCATA
* *
2779791 CTGCGAGAGGTGAGTTGA
62 TTGC-A-A---GAGGTGA
* * *
2779809 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAATCAA
1 G----A---CACGCTGAGGTATTTTCAATTTCCGTTTT-TAATTTATGCTTTTC--AAAAATCAA
*
2779874 CTCATATTGAAAGAGGTGA
56 CTCATATTGCAAGAGGTGA
2779893 G
1 G
2779894 TTGAGCCTCA
Statistics
Matches: 141, Mismatches: 8, Indels: 28
0.80 0.05 0.16
Matches are distributed among these distances:
74 27 0.19
78 37 0.26
79 1 0.01
80 1 0.01
83 7 0.05
84 7 0.05
86 4 0.03
87 15 0.11
88 1 0.01
89 17 0.12
90 24 0.17
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (74 bp):
GACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGC
AAGAGGTGA
Found at i:2779835 original size:164 final size:164
Alignment explanation
Indices: 2779564--2780056 Score: 608
Period size: 164 Copynumber: 3.0 Consensus size: 164
2779554 AGCCTTAGGG
* *
2779564 CACGCTGAGGTATTTTCAATTTC-TGTTTTCCAATTTCTGCTTTTCAAAAAAAATCAACTCATAT
1 CACGCTGAGGTATTTTCAATTTCGTTTTTTTCAATTTCTGCTTTTC--AAAAAATCAACTCATAT
*
2779628 TGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGC
64 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGC
2779693 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAG-A
129 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTA
* * *
2779728 CACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTC-AAAAATCAACTCATAC
1 CACGCTGAGGTATTTTCAATTT-CG-TTTTTTTCAATTTCTGCTTTTCAAAAAATCAACTCATAT
* * * *
2779792 TGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTG
64 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTT-TAATTTATG
* *
2779857 CTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTT
128 CTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTA
* * ** ** * *
2779896 GA-GCCTCAGG-A----CACGCTGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATA
1 CACG-CTGAGGTATTTTCA-ATTTCGTTTTTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATA
2779955 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTTAATTTAT
63 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCG-TTTTTAATTTAT
* * * *
2780020 GCTTTTCAAAAACCAACCCATATTGCGAGAAGTGAGT
127 GCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGT
2780057 TGAGCATTGG
Statistics
Matches: 285, Mismatches: 32, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
162 43 0.15
163 3 0.01
164 167 0.59
165 18 0.06
167 48 0.17
168 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (164 bp):
CACGCTGAGGTATTTTCAATTTCGTTTTTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAATTTATGCTT
TTCAAAAATCAACTCATATTGCAAGAGGTGAGTA
Found at i:2779853 original size:14 final size:15
Alignment explanation
Indices: 2779830--2779862 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2779820 CGCTGAGGTA
2779830 TTTT-CAATTTCTG-
1 TTTTCCAATTTCTGC
2779843 TTTTCCAATTTCTGC
1 TTTTCCAATTTCTGC
2779858 TTTTC
1 TTTTC
2779863 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTCCAATTTCTGC
Found at i:2779930 original size:89 final size:87
Alignment explanation
Indices: 2779726--2779937 Score: 298
Period size: 89 Copynumber: 2.4 Consensus size: 87
2779716 CAAGAGGTGA
* **
2779726 GACACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATA
1 GACACGCTGAGGTATTTTCAATTT-C--TGTTTTCCAATTTATGCTTTTCAAAAATCAACTCATA
**
2779791 CTGCGAGAGGTGAGTTGAGCCTCAG
63 CTGAAAGAGGTGAGTTGAGCCTCAG
* * *
2779816 GGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATAT
1 GACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTC--AAAAATCAACTCATAC
2779881 TGAAAGAGGTGAGTTGAGCCTCAG
64 TGAAAGAGGTGAGTTGAGCCTCAG
2779905 GACACGCTGAGGTATTTTCAATTTCTGCTTTTC
1 GACACGCTGAGGTATTTTCAATTTCTG-TTTTC
2779938 AAAAAAATCA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
87 18 0.16
89 64 0.58
90 28 0.25
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (87 bp):
GACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTCAAAAATCAACTCATACTG
AAAGAGGTGAGTTGAGCCTCAG
Found at i:2779967 original size:75 final size:75
Alignment explanation
Indices: 2779843--2780004 Score: 297
Period size: 75 Copynumber: 2.1 Consensus size: 75
2779833 TCAATTTCTG
2779843 TTTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGAC
1 TTTT-CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGAC
2779908 ACGCTGAGGTA
65 ACGCTGAGGTA
**
2779919 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACA
2779984 CGCTGAGGTA
66 CGCTGAGGTA
2779994 TTTTCAATTTC
1 TTTTCAATTTC
2780005 CGTTTTTTAA
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
75 80 0.95
76 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:2780006 original size:254 final size:252
Alignment explanation
Indices: 2779415--2780099 Score: 891
Period size: 254 Copynumber: 2.7 Consensus size: 252
2779405 TCAATTTCCG
* * * *
2779415 TTTTTAATTTATGCTTTTC--AAAAATCAACTCATATTGTAAGAGGTGAGTTAAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTG-CAGAGGTGAGTTGAGCCTCAGGACA
* * *
2779478 CGCTAAGGTATTTTCAATTTCTG-TTTTTTTAATTTATGCTTTTTAAAAATCAACTCATACTGCG
65 CGCTGAGGTATTTTCAATTTCCGTTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCG
*
2779542 AGAGGTGAATTGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTT
130 AGAGGTGAGTTGAGCC-TAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTT
*
2779607 TCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
194 TCAAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * *
2779666 TTTTCAATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCA-A---GA---G-G
1 TTTTCAATTTCTGCTTTTCA---A--------AAAAATCAACTCATATTGCAGAGGTGAGTTGAG
*
2779723 --TGA-GACACGCTGAGGTATTTTCAATTTCCGTTTTTTTTTAATTTATGCTTTTCAAAAATCAA
55 CCTCAGGACACGCTGAGGTATTTTCAATTTCCG-TTTTTTTTAATTTATGCTTTTCAAAAATCAA
2779785 CTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCA
119 CTCATACTGCGAGAGGTGAGTTGAGCCT-AGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCA
2779850 ATTTCTGCTTTTC-AAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACACGCTG
183 ATTTCTGCTTTTCAAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACACGCTG
2779914 AGGTA
248 AGGTA
2779919 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGACA
* * *
2779984 CGCTGAGGTATTTTCAATTTCCG--TTTTTTAATTTATGCTTTTCAAAAACCAACCCATATTGCG
65 CGCTGAGGTATTTTCAATTTCCGTTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCG
* * * * *
2780047 AGAAGTGAGTTGAGCATTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTT
130 AGAGGTGAGTTGAGCCTAGG-GCAC--GCTGAGGTATTTTCAATTTCTGTTTT
2780100 TAATGTCTGT
Statistics
Matches: 378, Mismatches: 25, Indels: 60
0.82 0.05 0.13
Matches are distributed among these distances:
242 19 0.05
243 1 0.00
244 1 0.00
247 2 0.01
250 4 0.01
251 70 0.19
252 25 0.07
253 102 0.27
254 131 0.35
255 1 0.00
259 2 0.01
262 1 0.00
263 1 0.00
264 18 0.05
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (252 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCCGTTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCGA
GAGGTGAGTTGAGCCTAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTC
AAAAAAAATCAACTCATATTGAAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
Found at i:2780017 original size:89 final size:88
Alignment explanation
Indices: 2779919--2780149 Score: 238
Period size: 88 Copynumber: 2.6 Consensus size: 88
2779909 CGCTGAGGTA
* * *
2779919 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTTTAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCAT-AGGCAC
*
2779983 AC-GCTGAGGTATTTTCAATTTCCG
64 ACGGCTGAGCTATTTTCAATTTCCG
* * * * *
2780007 TTTTTTAATTTATGCTTTTC-AAAAACCAACCCATATTGCGAGAAGTGAGTTGAGCATTGGCTCA
1 -TTTTTAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATAGGCACA
*
2780071 CGTGCTGAGCTATTTTCAATTTCTG
65 CG-GCTGAGCTATTTTCAATTTCCG
* * * * * *
2780096 TTTTTAATGTCTG--TATCTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTTTAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
2780150 TCAAGATCAC
Statistics
Matches: 118, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
86 5 0.04
87 36 0.31
88 40 0.34
89 37 0.31
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (88 bp):
TTTTTAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATAGGCACAC
GGCTGAGCTATTTTCAATTTCCG
Found at i:2781253 original size:24 final size:25
Alignment explanation
Indices: 2781226--2781278 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
2781216 TTTGAATCGG
*
2781226 TTTCATC-TATTATTTTGTTTTTTT
1 TTTCATCTTATTATTTTGTTCTTTT
* * *
2781250 TTTCTTCTTCTTCTTTTGTTCTTTT
1 TTTCATCTTATTATTTTGTTCTTTT
2781275 TTTC
1 TTTC
2781279 TACTCCTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTCATCTTATTATTTTGTTCTTTT
Found at i:2781953 original size:19 final size:22
Alignment explanation
Indices: 2781912--2781958 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2781902 TTTTTGTTTC
2781912 ATTATTAAAAATTGTTACTATT
1 ATTATTAAAAATTGTTACTATT
* * *
2781934 ATTATTAAATATTGTCATTATT
1 ATTATTAAAAATTGTTACTATT
2781956 ATT
1 ATT
2781959 CTAATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTATTAAAAATTGTTACTATT
Found at i:2782348 original size:20 final size:20
Alignment explanation
Indices: 2782325--2782390 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
2782315 TTTTAAATAC
2782325 TCTTATATTATGTATATTAT
1 TCTTATATTATGTATATTAT
* *
2782345 TCTTTTAAATAT-TATATT-T
1 TCTTAT-ATTATGTATATTAT
**
2782364 TCTATATACCATGTATA-TAT
1 TCT-TATATTATGTATATTAT
2782384 T-TTATAT
1 TCTTATAT
2782391 ATTACGTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.11
19 9 0.25
20 19 0.53
21 4 0.11
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TCTTATATTATGTATATTAT
Found at i:2782490 original size:25 final size:25
Alignment explanation
Indices: 2782461--2782515 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
2782451 CCATATTATG
*
2782461 TTTTTATAT-CTATTATGTATATACTT
1 TTTTTATATGATA-TATGTATATA-TT
2782487 TTTTTAATATGATATATGTATATATT
1 TTTTT-ATATGATATATGTATATATT
2782513 TTT
1 TTT
2782516 AATATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.38
27 14 0.54
28 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTTTATATGATATATGTATATATT
Found at i:2789118 original size:40 final size:40
Alignment explanation
Indices: 2788914--2789118 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
2788904 TGGAGTTTAA
** *
2788914 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2788954 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
2788994 CCGAATTTAGTAACTCGCACAAATGCCTTCGGGACGTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2789034 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
2789074 CCGGATATAATCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
2789114 CCGGA
1 CCGGA
2789119 CATCATTCGA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 128 0.90
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:2798606 original size:94 final size:87
Alignment explanation
Indices: 2798434--2798811 Score: 492
Period size: 86 Copynumber: 4.3 Consensus size: 87
2798424 TGCCGAGGTA
* **
2798434 TTTTCAATTTATG--TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTTAATTTATGCTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
*
2798497 GCTAAGGTATTTTCAATTTCCGT
65 GCTGAGGTATTTTCAATTTCCGT
*
2798520 TTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGAGGTGAGTTGAGCCTCA
1 TTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGC---A----AGAGGTGAGTTGAGCCTCA
* * * **
2798585 GGGCATGCTGAGGTATTTTCAATTTCTAT
59 AGACACGCTGAGGTATTTTCAATTTCCGT
** *
2798614 TTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTTAATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
* *
2798679 CGCTGAGGTGTTTTCAATTTTCG-
64 CGCTGAGGTATTTTCAATTTCCGT
*
2798702 TTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACG
2798767 CTGAGGTATTTTCAATTTCCGTT
66 CTGAGGTATTTTCAATTTCCG-T
2798790 TTTTTAATTTATGCTTTTCAAA
1 TTTTTAATTTATGCTTTTCAAA
2798812 CCTCAGGGCA
Statistics
Matches: 252, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
86 76 0.30
87 17 0.07
88 42 0.17
89 40 0.16
93 1 0.00
94 58 0.23
96 18 0.07
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTATTTTCAATTTCCGT
Found at i:2798945 original size:146 final size:143
Alignment explanation
Indices: 2798677--2798957 Score: 420
Period size: 146 Copynumber: 1.9 Consensus size: 143
2798667 AGCCTCAAGA
* *
2798677 CACGCTGAGGTGTTTTCAATTTTCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAA
1 CACGCTGAGGTATTTTCAATTTTCGTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAA
** ***
2798742 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTTTAATTTATGCTTT
66 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCACTTTCCAAATTTATGCTTT
2798807 TCAAACCTCAGGG
131 TCAAACCTCAGGG
* *
2798820 CACGCTGAGGTATTTTCAA-TTTCTGTTTTCCAATTTTTTCTTTTCAAAAAAATCAACTCATATT
1 CACGCTGAGGTATTTTCAATTTTC-GTTTT-CAATTTATGCTTTTC--AAAAATCAACTCATATT
* *
2798884 GCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTACTTTCCAAATTTCTG
62 GCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCACTTTCCAAATTTATG
2798949 CTTTTCAAA
127 CTTTTCAAA
2798958 AAAATCAACT
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
142 4 0.03
143 23 0.19
144 12 0.10
146 84 0.68
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (143 bp):
CACGCTGAGGTATTTTCAATTTTCGTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAA
GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCACTTTCCAAATTTATGCTTT
TCAAACCTCAGGG
Found at i:2798989 original size:90 final size:88
Alignment explanation
Indices: 2798812--2800623 Score: 2365
Period size: 90 Copynumber: 20.4 Consensus size: 88
2798802 GCTTTTCAAA
* * *
2798812 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCC-AATTTTTTCTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC--AAAAATCAA
2798876 CTCATATTGCAAGAGGTGAGTTGAG
64 CTCATATTGCAAGAGGTGAGTTGAG
** * *
2798901 CCTCAGGACACGCTGAGGTATTTTCAATTTCTACTTTCCAAATTTCTGCTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC--AAAAATCAA
**
2798966 CTCATATTGTGAGAGGTGAGTTGAG
64 CTCATATTGCAAGAGGTGAGTTGAG
* **
2798991 CCTCAGGACACGCTGAGGTATTTTCAA-TTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
* *
2799055 CATACTGCGAGAGGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* * *
2799078 CCTCAGGACACGTTGAGGTATTTTCAATTTCTGTTTTCC-AATTTCTGTTTTTCAAAAAAAATCA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC---AAAAATCA
2799142 ACTCATATTGCAAGAGGTGAGTTGAG
63 ACTCATATTGCAAGAGGTGAGTTGAG
** *
2799168 CCTCAGGACACGCTGAGGTATTTTCAATTTCCATTTT--TAATTTATACTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
2799231 CATATTGCAAGAGGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* * **
2799254 CCTCAGGACATGCTGAGGTATATTCAATTT-TCGTTTTTTTAATTTATGCTTTTCAAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCT-GTTTTCCTAATTTATGCTTTTCAAAAATCAAC
* *
2799318 TCATACTGCGAGAGGTGAGTTGAG
65 TCATATTGCAAGAGGTGAGTTGAG
* * * * *
2799342 CCTCAGGGCACGCTGAGGTATTTTTAGTTTTTGTTTTCC-AATTTCTGCTTTTCAAAAAAAATCA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC---AAAAATCA
2799406 ACTCATATTGCAAGAGGTGAGTTGAG
63 ACTCATATTGCAAGAGGTGAGTTGAG
*
2799432 CCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTT--TAATTTATGCTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
2799495 CATATTGCAAGAGGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* *
2799518 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCC-AATTTTTGCTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC--AAAAATCAA
2799582 CTCATATTGCAAGAGGTGAGTTGAG
64 CTCATATTGCAAGAGGTGAGTTGAG
* *
2799607 CCTCTGGACACGCTGAGGTATTTTCAATTTCCGTTTT--TAATTTATGCTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
2799670 CATATTGCAAGAGGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* **
2799693 CCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
* *
2799758 CATACTACGAGAGGTGAGAGGTGAGTTGAG
66 CATA-T-TG-CA----AGAGGTGAGTTGAG
* * * *
2799788 CCTCAGGGCATGCTGAGGTTTTTTCAATTTCTGTTTTCC-AATTTCTGCTTTTCAAAAAAAATCA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC---AAAAATCA
2799852 ACTCATATTGCAAGAGGTGAGTTGAG
63 ACTCATATTGCAAGAGGTGAGTTGAG
2799878 CCTCAGGACACGCTGAGGTATTTTCAATTT-TCGTTTT--TAATTTATGCTTTTCAAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCT-GTTTTCCTAATTTATGCTTTTCAAAAATCAAC
*
2799940 TCATATTGCAAGAGATGAGTTGAG
65 TCATATTGCAAGAGGTGAGTTGAG
* **
2799964 CCTCAGGACACGCAGAGGTATTTTCAATTT-TCGTTTTTTTAATTTATGCTTTTCAAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCT-GTTTTCCTAATTTATGCTTTTCAAAAATCAAC
* *
2800028 TCATACTGCGAGAGGTGAGTTGAG
65 TCATATTGCAAGAGGTGAGTTGAG
* * *
2800052 CCTCAGGGCACGTTGAGGTATTTTCAATTTCTGTTTTCC-AATTTCTGCTTTTCAAAAAAAATCA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC---AAAAATCA
2800116 ACTCATATTGCAAGAGGTGAGTTGAG
63 ACTCATATTGCAAGAGGTGAGTTGAG
* **
2800142 CCTCAGGACACGCTGAAGTATTTTCAATTTCCATTTT--TAATTTATGCTTTTCAAAAATCAACT
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
2800205 CATATTGCAAGAGGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* **
2800228 CCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTTTTTAATTTATGCTTTTCAAAAATCA
1 CCTCAGGACACGCTGAGGTATTTTCAA-TTTC--TGTTTTCCTAATTTATGCTTTTCAAAAATCA
* * *
2800293 ACTAATACTGCGAGAGGTGAGTTGAG
63 ACTCATATTGCAAGAGGTGAGTTGAG
* *
2800319 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCC-AATTTCTGCTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC--AAAAATCAA
2800383 CTCATATTGCAAGAGGTGAGTTGAG
64 CTCATATTGCAAGAGGTGAGTTGAG
* * * * *
2800408 CCTCAGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAAATTTCTACTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTC--AAAAATCAA
* *
2800473 CTCATTTTGCGAGAGGTGAGTTGAG
64 CTCATATTGCAAGAGGTGAGTTGAG
* * * *
2800498 CCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTATGCTTTTCAAAAACCAACC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
* ** *
2800562 CATGTTGTGAGAAGTGAGTTGAG
66 CATATTGCAAGAGGTGAGTTGAG
* * * *
2800585 CAT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTT
1 CCTCAGG-ACAC--GCTGAGGTATTTTCAATTTCTGTTTT
2800624 TAATGTCTGT
Statistics
Matches: 1541, Mismatches: 131, Indels: 102
0.87 0.07 0.06
Matches are distributed among these distances:
86 335 0.22
87 160 0.10
88 210 0.14
89 285 0.18
90 400 0.26
91 73 0.05
94 14 0.01
95 48 0.03
96 1 0.00
97 15 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (88 bp):
CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCTAATTTATGCTTTTCAAAAATCAACT
CATATTGCAAGAGGTGAGTTGAG
Found at i:2799121 original size:14 final size:13
Alignment explanation
Indices: 2799098--2799128 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
2799088 CGTTGAGGTA
2799098 TTTTCAATTTCTG
1 TTTTCAATTTCTG
2799111 TTTTCCAATTTCTG
1 TTTT-CAATTTCTG
2799125 TTTT
1 TTTT
2799129 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.13, C:0.16, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:2799361 original size:264 final size:263
Alignment explanation
Indices: 2798812--2800623 Score: 2520
Period size: 264 Copynumber: 6.8 Consensus size: 263
2798802 GCTTTTCAAA
* * *
2798812 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTTCTTTTCAAAAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTCAAAAAAATCAAC
***
2798877 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTACTTTCCAA
66 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT--TTTTTTA
* * *
2798942 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
129 ATTTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* ** * * *
2799007 GGTATTTTCAA-TTCCGTTTTTTTAATTTATGCTTTTC-AAAAATCAACTCATACTGCGAGAGGT
192 GGTATTTTCAATTTCTG-TTTTCCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGT
2799070 GAGTTGAG
256 GAGTTGAG
* * *
2799078 CCTCAGGACACGTTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTTTTCAAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTC-AAAAAAATCAA
**
2799143 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCATTTTTAA
65 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTTAA
* * * *
2799208 TTTATACTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
130 TTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
* ** * * *
2799273 ATATTCAATTT-TCGTTTTTTTAATTTATGCTTTTC-AAAAATCAACTCATACTGCGAGAGGTGA
195 ATTTTCAATTTCT-G-TTTTCCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGA
2799336 GTTGAG
258 GTTGAG
* * * * *
2799342 CCTCAGGGCACGCTGAGGTATTTTTAGTTTTTGTTTTCCAATTTCTGCTTTTCAAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTC-AAAAAAATCAA
**
2799407 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAA
65 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTTAA
*
2799472 TTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
130 TTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
2799537 ATTTTCAATTTCTGTTTTCCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAG
195 ATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAG
2799602 TTGAG
259 TTGAG
* * *
2799607 CCTCTGGACACGCTGAGGTATTTTCAATTTCCGTTTT-TAATTTATGCTTTTC--AAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTCAAAAAAATCAAC
2799669 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTTTA
66 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-C-TTTTTTTA
* * *
2799734 ATTTATGCTTTTCAAAAATCAACTCATACTACGAGAGGTGAGAGGTGAGTTGAGCCTCAGGGCAT
129 ATTTATGCTTTTCAAAAATCAACTCATA-T------TGCGAGAGGTGAGTTGAGCCTCAGGGCAC
*
2799799 GCTGAGGTTTTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCA
187 GCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTC--AAAAAATCAACTCATATTGCA
2799864 AGAGGTGAGTTGAG
250 AGAGGTGAGTTGAG
*
2799878 CCTCAGGACACGCTGAGGTATTTTCAATTT-TCGTTTT-TAATTTATGCTTTTC--AAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCT-GTTTTCCAATTTATGCTTTTCAAAAAAATCAA
* *
2799939 CTCATATTGCAAGAGATGAGTTGAGCCTCAGGACACGCAGAGGTATTTTCAATTTTCGTTTTTTT
65 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTC-TTTTTTT
* *
2800004 AATTTATGCTTTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAG
128 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
2800069 GTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCAAGAGGT
193 GTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTC--AAAAAATCAACTCATATTGCAAGAGGT
2800134 GAGTTGAG
256 GAGTTGAG
* ** *
2800142 CCTCAGGACACGCTGAAGTATTTTCAATTTCCATTTT-TAATTTATGCTTTTC--AAAAATCAAC
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTCAAAAAAATCAAC
2800204 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTTT
66 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTC----TTTTT
* *
2800269 TTAATTTATGCTTTTCAAAAATCAACTAATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
126 TTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
2800334 AGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGG
191 AGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCAAGAGG
2800399 TGAGTTGAG
255 TGAGTTGAG
* * * *
2800408 CCTCAGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAAATTTCTACTTTTCAAAAAAATCAA
1 CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCC-AATTTATGCTTTTCAAAAAAATCAA
* * * *
2800473 CTCATTTTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
65 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-TTTTTTA
* * * * * * * *
2800538 ATTTATGCTTTTCAAAAACCAACCCATGTTGTGAGAAGTGAGTTGAGCAT-TGGCTCACGTGCTG
129 ATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTG
*
2800602 AGCTATTTTCAATTTCTGTTTT
191 AGGTATTTTCAATTTCTGTTTT
2800624 TAATGTCTGT
Statistics
Matches: 1426, Mismatches: 90, Indels: 58
0.91 0.06 0.04
Matches are distributed among these distances:
261 64 0.04
262 1 0.00
263 108 0.08
264 483 0.34
265 81 0.06
266 167 0.12
267 173 0.12
268 37 0.03
269 4 0.00
270 123 0.09
271 182 0.13
272 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (263 bp):
CCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTATGCTTTTCAAAAAAATCAAC
TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTTAAT
TTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA
TTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTT
GAG
Found at i:2799829 original size:14 final size:15
Alignment explanation
Indices: 2799807--2799840 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2799797 ATGCTGAGGT
*
2799807 TTTTTCAATTTCTG-
1 TTTTCCAATTTCTGC
2799821 TTTTCCAATTTCTGC
1 TTTTCCAATTTCTGC
2799836 TTTTC
1 TTTTC
2799841 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTCCAATTTCTGC
Found at i:2799952 original size:710 final size:706
Alignment explanation
Indices: 2798812--2800555 Score: 2822
Period size: 710 Copynumber: 2.5 Consensus size: 706
2798802 GCTTTTCAAA
*
2798812 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTTCTTTTCAAAAAAATCAAC
1 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTGCTTTTCAAAAAAATCAAC
*
2798877 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTAC-TTTCCA
66 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC--CGTTT-TA
**
2798941 AATTTCTGCTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTG
128 AATTTCTGCTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTG
2799006 AGGTATTTTCAA-TTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACT--GCGAGAG
192 AGGTATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTCAGCGAGAG
* *
2799068 GTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGTTTTTCAA
257 GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAA
2799133 AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
322 AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
2799198 CCATTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
387 CCATTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGAC
* *
2799263 ATGCTGAGGTATATTCAATTTTCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCG
452 ACGCAGAGGTATATTCAATTTTCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCG
* * *
2799328 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTTGTTTTCCAATTTCTGCTTT
517 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTT
*
2799393 TCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
582 TCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTCA
*
2799458 ATTTCCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
647 ATTTCCATTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
2799518 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTGCTTTTCAAAAAAATCAAC
1 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTGCTTTTCAAAAAAATCAAC
* *
2799583 TCATATTGCAAGAGGTGAGTTGAGCCTCTGGACACGCTGAGGTATTTTCAATTTCCGTTTTTAAT
66 TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTAAAT
*
2799648 TTATGCTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
131 TTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
2799712 ATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTACGAGAGGTGAGA
196 ATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACT-C---A-GCGAGA
* * *
2799777 GGTGAGTTGAGCCTCAGGGCATGCTGAGGTTTTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCA
256 GGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCA
2799842 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
321 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* * *
2799907 TTCGTTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGA
386 TCCATTTTTAATTTATACTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGA
*
2799972 CACGCAGAGGTATTTTCAATTTTCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGC
451 CACGCAGAGGTATATTCAATTTTCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGC
*
2800037 GAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTT
516 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTT
2800102 TTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
581 TTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
2800167 AATTTCCATTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
646 AATTTCCATTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
* * ** *
2800228 CCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTTTTTAATTTATGCTTTTC--AAAAAT
1 CCTCAGGGCACGCTGAGGTATTTTCAA-TTTC---TGTTTTCCAATTTTTGCTTTTCAAAAAAAT
* * * * *
2800291 CAACTAATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
62 CAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTT
* *
2800356 CCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGAACACGC
127 -AAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
* * *** * * **
2800421 TGAGGTATTTTCAATTTCTGCTTTCCAAATTTCTACTTTTCAAAAAAATCAACTCAT--TTTGCG
190 TGAGGTATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTC--AAAAATCAACTCATACTCAGCG
* * *
2800484 AGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGCTTT
253 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTT
2800549 TCAAAAA
318 TCAAAAA
2800556 CCAACCCATG
Statistics
Matches: 964, Mismatches: 56, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
702 59 0.06
703 43 0.04
704 14 0.01
705 3 0.00
706 118 0.12
710 532 0.55
711 4 0.00
712 65 0.07
713 13 0.01
714 18 0.02
715 81 0.08
717 14 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (706 bp):
CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTTTGCTTTTCAAAAAAATCAAC
TCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTAAAT
TTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCAATTTCCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTCAGCGAGAGGTGA
GTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAAAAAA
AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCCAT
TTTTAATTTATACTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGACACGC
AGAGGTATATTCAATTTTCGTTTTTTTAATTTATGCTTTTCAAAAATCAACTCATACTGCGAGAG
GTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCCAATTTCTGCTTTTCAA
AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTCAATTT
CCATTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
Found at i:2800095 original size:14 final size:15
Alignment explanation
Indices: 2800072--2800104 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2800062 CGTTGAGGTA
2800072 TTTT-CAATTTCTG-
1 TTTTCCAATTTCTGC
2800085 TTTTCCAATTTCTGC
1 TTTTCCAATTTCTGC
2800100 TTTTC
1 TTTTC
2800105 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTCCAATTTCTGC
Found at i:2800331 original size:91 final size:87
Alignment explanation
Indices: 2800265--2800624 Score: 416
Period size: 89 Copynumber: 4.1 Consensus size: 87
2800255 TTTTCGTTTT
* * * * *
2800265 TTTTTTAATTTATGCTTTTCAAAAATCAACTAATACTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
2800330 GCTGAGGTATTTTCAATTTCTG
66 GCTGAGGTATTTTCAATTTCTG
* * *
2800352 TTTTCCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGAAC
1 TTTTTCAATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
2800417 ACGCTGAGGTATTTTCAATTTCTG
64 ACGCTGAGGTATTTTCAATTTCTG
* * * * * * *
2800441 CTTTCCAAATTTCTACTTTTCAAAAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCAAGA
1 TTTTTC-AATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGA
2800506 CACGCTGAGGTATTTTCAATTTCTG
63 CACGCTGAGGTATTTTCAATTTCTG
* * * ** * * * *
2800531 TTTTTCAATTTATGCTTTTCAAAAACCAACCCATGTTGTGAGAAGTGAGTTGAGCAT-TGGCTCA
1 TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-ACA
*
2800595 CGTGCTGAGCTATTTTCAATTTCTG
65 C--GCTGAGGTATTTTCAATTTCTG
2800620 TTTTT
1 TTTTT
2800625 AATGTCTGTA
Statistics
Matches: 239, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.00
87 51 0.21
89 105 0.44
90 82 0.34
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTG
Done.