Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 20
Found at i:2401057 original size:13 final size:13
Alignment explanation
Indices: 2401039--2401063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2401029 ACAAAACTTA
2401039 TGTATCGATACAT
1 TGTATCGATACAT
2401052 TGTATCGATACA
1 TGTATCGATACA
2401064 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2401059 original size:32 final size:33
Alignment explanation
Indices: 2401018--2401083 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2401008 AGTAGCTTAA
2401018 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
2401050 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
2401083 A
1 A
2401084 AATCATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:2403199 original size:79 final size:78
Alignment explanation
Indices: 2403066--2403586 Score: 416
Period size: 78 Copynumber: 6.7 Consensus size: 78
2403056 TCATTGATGT
* * * * *
2403066 TTTTATTTCTAAAATACCGATTTTTCACAATCGGGGATATTTCAACCCTGTTATTTTTAAGAGAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
* **
2403131 TATTTAAATCCTGA
66 TACTCCAA-CCTGA
* * * *
2403145 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACTCTATTATTTTCGAA-AGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTT-TAAGAGA
*
2403209 ATACTCTAACCCTGA
65 ATACTCCAA-CCTGA
* * * * * * ** *
2403224 TTTTATTTTTAAAACA-C-----TCCACCATCGAGGATAGTCCATCCCCGTCATTTTCGAGGGAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
**
2403283 TACTCCAACCCCAA
66 TACTCCAA-CCTGA
*** * * * * * *
2403297 TTTTATTTCTAAAACATTTATTTTTCACCATCGGGGACACTCCAACCCCGTTATTTCTGAGAGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
*
2403362 -CCTCCAACCTCGA
66 TACTCCAACCT-GA
** * * * * * *
2403375 TTTTATTTCTAAAACACTAATTTTCTACCACCAGGGATACTCCAACCCTATTATTTTCAAGGGAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
* **
2403440 CACTCCAACCCAA
66 TACTCCAACCTGA
* * *
2403453 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTTAGAG-A
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
* *
2403517 TATTCTAACTCT-A
66 TACTCCAAC-CTGA
* * * *
2403530 GTTTTATTTCTAAAACACCAATTTTTCACCATCGGAGATACTCTAACCC-GTTATTTT
1 -TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTT
2403587 CGAGGGGATA
Statistics
Matches: 351, Mismatches: 79, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
72 1 0.00
73 56 0.16
77 18 0.05
78 155 0.44
79 119 0.34
80 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTGTTATTTTTAAGAGAA
TACTCCAACCTGA
Found at i:2403613 original size:156 final size:155
Alignment explanation
Indices: 2403066--2403625 Score: 503
Period size: 156 Copynumber: 3.6 Consensus size: 155
2403056 TCATTGATGT
* * * * * * * *
2403066 TTTTATTTCTAAAATACCGATTTTTCACAATCGGGGATATTTCAACCCTGTTATTTTTAAGAGAA
1 TTTTATTTCTAAAACACC-AATTTTCACCATCGGAGATACTCCAACCCTGTTATTTTCAAGGGAA
* * * * * * *
2403131 TATTTAAATCCTGATTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACTCTAT
65 TACTCAAACCCTAATTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTGT
* *
2403196 TATTTTCGAAAGAATACTCTAACCCTGA
130 TATTTTTGAGAG-ATACTCTAA-CCTGA
* * * * * * *
2403224 TTTTATTTTTAAAACA-C----TCCACCATC-GAGGATAGTCCATCCCCGTCATTTTCGAGGGAA
1 TTTTATTTCTAAAACACCAATTTTCACCATCGGA-GATACTCCAACCCTGTTATTTTCAAGGGAA
* * * ** * * *
2403283 TACTCCAACCCCAATTTTATTTCTAAAACATTTATTTTTCACCATCGGGGACACTCCAACCCCGT
65 TACTCAAACCCTAATTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTGT
* * *
2403348 TATTTCTGAGAGGA-CCTCCAACCTCGA
130 TATTTTTGAGA-GATACTCTAACCT-GA
* * *
2403375 TTTTATTTCTAAAACACTAATTTTCTACCACCAGG-GATACTCCAACCCTATTATTTTCAAGGGA
1 TTTTATTTCTAAAACACCAATTTTC-ACCATC-GGAGATACTCCAACCCTGTTATTTTCAAGGGA
* *
2403439 ACACTCCAACCC-AATTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTG
64 ATACTCAAACCCTAATTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTG
* *
2403503 TTATTTTTTAGAGATATTCTAACTCT-A
129 TTATTTTTGAGAGATACTCTAAC-CTGA
* * *
2403530 GTTTTATTTCTAAAACACCAATTTTTCACCATCGGAGATACTCTAACCC-GTTATTTTCGAGGGG
1 -TTTTATTTCTAAAACACCAA-TTTTCACCATCGGAGATACTCCAACCCTGTTATTTTCAAGGGA
* ** *
2403594 ATACTTAAACCCTGTTTTTATCTCTAAAATAT
64 ATACTCAAACCCTAATTTTATTTCTAAAATAT
2403626 TAAATTTTTC
Statistics
Matches: 318, Mismatches: 67, Indels: 36
0.76 0.16 0.09
Matches are distributed among these distances:
150 3 0.01
151 23 0.07
152 88 0.28
153 1 0.00
155 26 0.08
156 115 0.36
157 47 0.15
158 14 0.04
159 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (155 bp):
TTTTATTTCTAAAACACCAATTTTCACCATCGGAGATACTCCAACCCTGTTATTTTCAAGGGAAT
ACTCAAACCCTAATTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCTGTT
ATTTTTGAGAGATACTCTAACCTGA
Found at i:2407288 original size:17 final size:17
Alignment explanation
Indices: 2407262--2407300 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2407252 CATATTCAAC
2407262 AAAT-ATATTACTTTCA
1 AAATCATATTACTTTCA
*
2407278 AAATCATATTATTTTCA
1 AAATCATATTACTTTCA
2407295 AAATCA
1 AAATCA
2407301 ACCAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATCATATTACTTTCA
Found at i:2410754 original size:27 final size:27
Alignment explanation
Indices: 2410700--2410835 Score: 86
Period size: 27 Copynumber: 5.0 Consensus size: 27
2410690 TCTAATCGAC
* ***
2410700 AATTCATATATAAAAGTTTAACAAAAA
1 AATTCATATTTAAAAGTTTAATTTAAA
2410727 AATTCATATTTAAAAGTTTAATTT-AA
1 AATTCATATTTAAAAGTTTAATTTAAA
2410753 AATTCCAT-TTGTGAAAA-TTT-A-TTAAA
1 AATT-CATATT-T-AAAAGTTTAATTTAAA
* * *
2410779 AATTCCACATGTAAAAAGTTTAATTAAAAA
1 AATT-CATAT-TTAAAAGTTTAATT-TAAA
* * *
2410809 AATTCATGTGT-GAAGTTTAATTTAAA
1 AATTCATATTTAAAAGTTTAATTTAAA
2410835 A
1 A
2410836 TTTTATGTGT
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
25 2 0.02
26 26 0.30
27 41 0.48
28 6 0.07
29 4 0.05
30 7 0.08
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (27 bp):
AATTCATATTTAAAAGTTTAATTTAAA
Found at i:2410780 original size:26 final size:28
Alignment explanation
Indices: 2410738--2410808 Score: 92
Period size: 26 Copynumber: 2.6 Consensus size: 28
2410728 ATTCATATTT
* ** *
2410738 AAAAGTTTAATTTAAAATTCCATTTGTG
1 AAAAGTTTAATTAAAAATTCCACATGTA
2410766 AAAA-TTT-ATTAAAAATTCCACATGTA
1 AAAAGTTTAATTAAAAATTCCACATGTA
2410792 AAAAGTTTAATTAAAAA
1 AAAAGTTTAATTAAAAA
2410809 AATTCATGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 19 0.51
27 6 0.16
28 12 0.32
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (28 bp):
AAAAGTTTAATTAAAAATTCCACATGTA
Found at i:2410826 original size:81 final size:83
Alignment explanation
Indices: 2410711--2410864 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 83
2410701 ATTCATATAT
* *
2410711 AAAAGTTTAACAAAAAAATTCATATTTAAAAGTTTAATTTAAAATTCCATTTGTGA-AAATTT-A
1 AAAAGTTTAACAAAAAAATTCATATGTAAAAGTTTAATTTAAAATTCCATGTGTGACAAATTTAA
2410774 TTAAAAATTCCACATGTA
66 TTAAAAATTCCACATGTA
* * * ** *
2410792 AAAAGTTTAATTAAAAAAATTCATGTGT-GAAGTTTAATTTAAAATTTTATGTGTGACAAGTTTA
1 AAAAGTTTAA-CAAAAAAATTCATATGTAAAAGTTTAATTTAAAATTCCATGTGTGACAAATTTA
2410856 ATTAAAAAT
65 ATTAAAAAT
2410865 CCTAAAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 34 0.55
82 19 0.31
83 9 0.15
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (83 bp):
AAAAGTTTAACAAAAAAATTCATATGTAAAAGTTTAATTTAAAATTCCATGTGTGACAAATTTAA
TTAAAAATTCCACATGTA
Found at i:2410860 original size:27 final size:25
Alignment explanation
Indices: 2410740--2410864 Score: 81
Period size: 27 Copynumber: 4.6 Consensus size: 25
2410730 TCATATTTAA
* *
2410740 AAGTTTAATTTAAAATTCCATTTGTG
1 AAGTTTAATTAAAAATT-CATGTGTG
* ***
2410766 AAAATTT-ATTAAAAATTCCACATGTAAA
1 -AAGTTTAATTAAAAATT---CATGTGTG
2410794 AAGTTTAATTAAAAAAATTCATGTGTG
1 AAGTTTAATT--AAAAATTCATGTGTG
* *
2410821 AAGTTTAATTTAAAATTTTATGTGTG
1 AAGTTTAA-TTAAAAATTCATGTGTG
2410847 ACAAGTTTAATTAAAAAT
1 --AAGTTTAATTAAAAAT
2410865 CCTAAAGAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
26 22 0.29
27 30 0.39
28 17 0.22
30 7 0.09
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (25 bp):
AAGTTTAATTAAAAATTCATGTGTG
Found at i:2411023 original size:20 final size:21
Alignment explanation
Indices: 2410988--2411026 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2410978 TTGATCGATT
*
2410988 TTGACCATATTTTGACCTAAG
1 TTGACCATAATTTGACCTAAG
2411009 TTGACCA-AATTTGACCTA
1 TTGACCATAATTTGACCTA
2411027 TGTCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
TTGACCATAATTTGACCTAAG
Found at i:2411252 original size:21 final size:22
Alignment explanation
Indices: 2411228--2411271 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2411218 AAGCTTCGAA
2411228 GCCTT-GAAAGATAAGGCTTGG
1 GCCTTCGAAAGATAAGGCTTGG
*
2411249 GCCTTCGAAAGATAAGGTTTGG
1 GCCTTCGAAAGATAAGGCTTGG
2411271 G
1 G
2411272 TGCTCAAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (22 bp):
GCCTTCGAAAGATAAGGCTTGG
Found at i:2411671 original size:63 final size:62
Alignment explanation
Indices: 2411604--2411794 Score: 188
Period size: 63 Copynumber: 3.0 Consensus size: 62
2411594 AAACCCTAAC
* *
2411604 GGTAATCCTAAAGCTTGAGCCAT-TTTAGAAAAAAGAGTTTAAATTAAAGAAAAAGACCTTGAT
1 GGTAATCCTAAAGCTTGA-CCATATTT-GAAAAATGAGTTTGAATTAAAGAAAAAGACCTTGAT
* * * * * *
2411667 GGTAATCCCAAGGCTCGACCTATCTTTGAAAAATGAGTATGACTTAAATGGAAAAAGACCTTGAT
1 GGTAATCCTAAAGCTTGACC-ATATTTGAAAAATGAGTTTGAATTAAA--GAAAAAGACCTTGAT
* * * * * *
2411732 GCTAATGCTAAAGTTTGACC-TATTTGAAAAATGAGTTCGATTTAACAGAAAAAAACCTTGAT
1 GGTAATCCTAAAGCTTGACCATATTTGAAAAATGAGTTTGAATTAA-AGAAAAAGACCTTGAT
2411794 G
1 G
2411795 AAAGTCCCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
62 17 0.16
63 55 0.52
64 4 0.04
65 29 0.28
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (62 bp):
GGTAATCCTAAAGCTTGACCATATTTGAAAAATGAGTTTGAATTAAAGAAAAAGACCTTGAT
Found at i:2413931 original size:20 final size:20
Alignment explanation
Indices: 2413906--2413986 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 20
2413896 TTTTCGCAAT
2413906 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
2413926 TTGTATCGATATCGATACATTGCTCA
1 ---T-T-G-TATCGATACATTGTTCA
2413952 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
2413972 ATGTATCGATACATT
1 TTGTATCGATACATT
2413987 CAAGCATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.02
20 28 0.55
21 1 0.02
22 1 0.02
23 2 0.04
24 1 0.02
25 1 0.02
26 16 0.31
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2413945 original size:26 final size:26
Alignment explanation
Indices: 2413909--2413962 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2413899 TCGCAATTTG
*
2413909 TATCGATACATTGTTCATTGTATCGA
1 TATCGATACATTGCTCATTGTATCGA
2413935 TATCGATACATTGCTCATTGTATCGA
1 TATCGATACATTGCTCATTGTATCGA
2413961 TA
1 TA
2413963 CATTTTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (26 bp):
TATCGATACATTGCTCATTGTATCGA
Found at i:2416362 original size:51 final size:51
Alignment explanation
Indices: 2416282--2416450 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 51
2416272 ATTTTTCATC
* ** * *
2416282 TCGGGGATACTCCAA-TCCCGGTTCCATTTCCAAAACGTCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCTCAA
* * * ** *
2416333 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTCAA
* *
2416384 TCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTT-TACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCT-CAA
*
2416435 TTGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
2416451 CCTGTTATTT
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
51 95 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTCAA
Found at i:2416469 original size:28 final size:27
Alignment explanation
Indices: 2416437--2416509 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
2416427 TTTTACAATT
*
2416437 GGGGATACTCCAACCCTGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
*
2416463 TCGGGGATACTCGAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
2416493 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2416510 AGCTTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:2416574 original size:108 final size:106
Alignment explanation
Indices: 2416442--2416782 Score: 447
Period size: 107 Copynumber: 3.2 Consensus size: 106
2416432 CAATTGGGGA
*
2416442 TACTCCAACCCTGTTATTTCATCGGGGATACTCGAACCCCGTTATTTTCGAGGGGATACTCCAAC
1 TACTCCAACCCCGTTATTTCATCGGGGATACTC-AACCCCGTTATTTTCGAGGGGATACTCCAAC
* *
2416507 CCCAGCTTTATATCTAAAAATATTGTTTTTTCATAATCGAGGG
65 CCCAGCTTTATATCT-AAAATATTGATTTTTCATAATCAAGGG
*
2416550 TACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAAC
1 TACTCCAACCCCGTTATTTCATCGGGGATACT-CAACCCCGTTATTTTCGAGGGGATACTCCAAC
* **
2416615 TCTGGCTTTATATCTAAAATATTGATTTTTCATAATCAAGGG
65 CCCAGCTTTATATCTAAAATATTGATTTTTCATAATCAAGGG
* * *
2416657 TACTCCAACCCCGTTATGTCATCGGGGATACTTCAATCCCGTTATTTCCGAGGGGATACTCCAAC
1 TACTCCAACCCCGTTATTTCATCGGGGATAC-TCAACCCCGTTATTTTCGAGGGGATACTCCAAC
* * **
2416722 CCC-GATTT-TATTTTCAAAATACCGA-TTTTCTATAATC-AGGG
65 CCCAGCTTTATA-TCT-AAAATATTGATTTTTC-ATAATCAAGGG
*
2416763 ATACTCCAACCCTGTTATTT
1 -TACTCCAACCCCGTTATTT
2416783 TCAAGGGCAT
Statistics
Matches: 208, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
105 2 0.01
106 15 0.07
107 116 0.56
108 74 0.36
109 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (106 bp):
TACTCCAACCCCGTTATTTCATCGGGGATACTCAACCCCGTTATTTTCGAGGGGATACTCCAACC
CCAGCTTTATATCTAAAATATTGATTTTTCATAATCAAGGG
Found at i:2416581 original size:28 final size:28
Alignment explanation
Indices: 2416542--2416603 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
2416532 TTTTTTCATA
2416542 ATCGAGGGTACTCCAACCCCGTTATTTC
1 ATCGAGGGTACTCCAACCCCGTTATTTC
2416570 ATCG-GGGATACTCCAACCCCGTTATTT-
1 ATCGAGGG-TACTCCAACCCCGTTATTTC
2416597 -TCGAGGG
1 ATCGAGGG
2416604 GATACTCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.09
27 6 0.19
28 23 0.72
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (28 bp):
ATCGAGGGTACTCCAACCCCGTTATTTC
Found at i:2416604 original size:28 final size:27
Alignment explanation
Indices: 2416543--2416610 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 27
2416533 TTTTTCATAA
2416543 TCGA-GGG-TACTCCAACCCCGTTATT
1 TCGAGGGGATACTCCAACCCCGTTATT
2416568 TC-ATCGGGGATACTCCAACCCCGTTATTT
1 TCGA--GGGGATACTCCAACCCCGTTA-TT
2416597 TCGAGGGGATACTC
1 TCGAGGGGATACTC
2416611 TAACTCTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
24 1 0.03
25 2 0.05
27 3 0.08
28 26 0.70
29 4 0.11
30 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (27 bp):
TCGAGGGGATACTCCAACCCCGTTATT
Found at i:2416846 original size:80 final size:79
Alignment explanation
Indices: 2416677--2416848 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
2416667 CCGTTATGTC
* * * * *
2416677 ATCGGGGATACTTCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAT
1 ATCGGGGATACTCCAATCCCGTTATTTCCAAGGGCATACTCCAACCCCAATTTTATTTTCAAAAC
*
2416742 ACCGATTTTCTATA
66 ACCAATTTTCTATA
* * *
2416756 ATCAGGGATACTCCAA-CCCTGTTATTTTCAAGGGCATACTCCAACCCCAATTTT-TATTTCTAG
1 ATCGGGGATACTCCAATCCC-GTTATTTCCAAGGGCATACTCCAACCCCAATTTTAT-TTTC-AA
*
2416819 AACACCAATTTTTTATA
63 AACACCAATTTTCTATA
2416836 ATCGGGGATACTC
1 ATCGGGGATACTC
2416849 TAGCCCCATT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 4 0.05
79 48 0.61
80 27 0.34
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
ATCGGGGATACTCCAATCCCGTTATTTCCAAGGGCATACTCCAACCCCAATTTTATTTTCAAAAC
ACCAATTTTCTATA
Found at i:2418934 original size:4 final size:4
Alignment explanation
Indices: 2418925--2418957 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2418915 TATTTTGAGG
2418925 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
2418958 GTTTTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2430401 original size:100 final size:100
Alignment explanation
Indices: 2430274--2430673 Score: 564
Period size: 100 Copynumber: 4.0 Consensus size: 100
2430264 GGTATCTAAA
* *
2430274 CTTTCTCCTTTCA-CTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAA
1 CTTTCTCCTTTCACCCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAA
2430338 GTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
65 GTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
* * * *
2430374 CTTTCTCCTTTCACCCTTTAGTCCTCAAAAAGTAGGATGCCTTTTCCTTTTAAAGCCTACACAAG
1 CTTTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAG
*
2430439 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
66 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
* * * *
2430474 CTCTCTCCTTTCACCCTTTAATCCTCAAATAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAG
1 CTTTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAG
*
2430539 TTGGTGGCACCTTCTAGTCCTTAAAGAGCAGGACG
66 TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
* * * *
2430574 CTCTCTCCTTTCACTCTTTAGTCCTTAAAGAGCAAGACGCC-TTT-C----AAAGCCCACACAAG
1 CTTTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAG
*
2430633 TTGGTGGCACCTT-TCAGTCCTCAAAGAGTAGGACG
66 TTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACG
2430668 CCTTTC
1 -CTTTC
2430674 AAAGCCCACA
Statistics
Matches: 273, Mismatches: 24, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
93 1 0.00
94 45 0.16
95 4 0.01
98 1 0.00
99 3 0.01
100 215 0.79
101 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (100 bp):
CTTTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAG
TTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
Found at i:2430422 original size:39 final size:40
Alignment explanation
Indices: 2430348--2430423 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
2430338 GTTGGTGGCA
*
2430348 CCTTCTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAC
1 CCTTCTAGTCCTCAAAAAGCAGGACGCTTTCTCCTTTCAC
* *
2430388 CCTT-TAGTCCTCAAAAAGTAGGATGCCTTT-TCCTTT
1 CCTTCTAGTCCTCAAAAAGCAGGACG-CTTTCTCCTTT
2430424 TAAAGCCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 24 0.75
40 8 0.25
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (40 bp):
CCTTCTAGTCCTCAAAAAGCAGGACGCTTTCTCCTTTCAC
Found at i:2430677 original size:55 final size:54
Alignment explanation
Indices: 2430589--2430896 Score: 375
Period size: 55 Copynumber: 5.5 Consensus size: 54
2430579 TCCTTTCACT
* *
2430589 CTTT-AGTCCTTAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2430642 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2430697 CTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 C-TTTC-AGTCCTCAAAGAGCAGG--A-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
2430759 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACATAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
2430814 TTTTTTTAGTCCTTAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 --CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2430870 CTTCCCAGTCCTCAAAGAACAGGACGC
1 CTT-TCAGTCCTCAAAGAGCAGGACGC
2430897 TCTCTCCTTT
Statistics
Matches: 222, Mismatches: 19, Indels: 25
0.83 0.07 0.09
Matches are distributed among these distances:
54 7 0.03
55 97 0.44
56 61 0.27
57 4 0.02
58 1 0.00
59 2 0.01
61 20 0.09
62 30 0.14
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (54 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2430792 original size:117 final size:114
Alignment explanation
Indices: 2430613--2430896 Score: 414
Period size: 117 Copynumber: 2.5 Consensus size: 114
2430603 GAGCAAGACG
*
2430613 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGCCTTTCAAA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
2430677 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
65 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACC---T
* *
2430730 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
* * * * *
2430795 CCCACATAAGTTGGTGGCATTTTTTTAGTCCTTAAAGAGCAGGACGCCT
66 CCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCT
* *
2430844 --TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGACGC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
2430897 TCTCTCCTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
111 46 0.30
112 3 0.02
114 1 0.01
116 3 0.02
117 101 0.66
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (114 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCT
Found at i:2431052 original size:157 final size:150
Alignment explanation
Indices: 2430765--2431053 Score: 398
Period size: 150 Copynumber: 1.9 Consensus size: 150
2430755 GGCATTTTCC
* * * * *
2430765 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACATAAGTTGGTGGCATTTTTTTAGTCCTTAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
2430830 AGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGAC
66 AGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGAC
2430895 GCTCTCTCCTTTCGCCTTTT
131 GCTCTCTCCTTTCGCCTTTT
*
2430915 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTACGTCCTCA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTA-GTCCTCA
* * * ***
2430980 AAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACCCAAGTTGGTGGCATTTTTGAGTCCTCAAAGA
65 AAGAGCAGGACGCC---T--TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
*
2431045 GCAGGACGC
124 ACAGGACGC
2431054 CTTTTTTTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
150 52 0.44
151 19 0.16
154 1 0.01
156 3 0.03
157 44 0.37
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (150 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
AGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGAC
GCTCTCTCCTTTCGCCTTTT
Found at i:2431065 original size:61 final size:60
Alignment explanation
Indices: 2430911--2431112 Score: 254
Period size: 61 Copynumber: 3.4 Consensus size: 60
2430901 TCCTTTCGCC
2430911 TTTTAGTCCTCAAAGAGCAGGACGCC----TTTT-AAAGCCCACACAAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
2430966 TTTCTACGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACCCAAGTTGGTGGCA-T
1 TTT-TA-GTCCTCAAAGAGCAGGACGCCTTTT-TTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
2431028 TTTTGAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTCAAAGCCTACACGAGTTGGTGACACT
1 TTTT-AGTCCTCAAAGAGCAGGACGCC-TTTTTTTTCAAAGCCCACACAAGTTGGTGGCACT
*
2431090 TTTTTGTCCTCAAAGAGCAGGAC
1 TTTTAGTCCTCAAAGAGCAGGAC
2431113 ACACTTCATT
Statistics
Matches: 126, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
55 3 0.02
56 2 0.02
57 20 0.16
61 62 0.49
62 17 0.13
63 22 0.17
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (60 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:2431212 original size:42 final size:41
Alignment explanation
Indices: 2431091--2431221 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
2431081 GGTGACACTT
* * * **
2431091 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTCTC
1 TTTTATCCTCAAAGAGCAGGACGCACTTTATT---TTCCTTT-TC
*
2431136 TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
1 TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCT-TTTC
*
2431178 TTTTATCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCTTTT-
1 TTTTATCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTTC
2431218 TTTT
1 TTTT
2431222 CCTTTATCCT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
40 4 0.05
41 6 0.08
42 36 0.46
43 2 0.03
45 30 0.38
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (41 bp):
TTTTATCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTC
Found at i:2431244 original size:87 final size:87
Alignment explanation
Indices: 2431091--2431249 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
2431081 GGTGACACTT
* * * *
2431091 TTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTCTCTTTTGTCCTCAAAGAGCAGG
1 TTTTATCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTCTCCTTTATCCTCAAAGAGAAGG
2431156 ACGCACTTTATTTTCCTCTTTC
66 ACGCACTTTATTTTCCTCTTTC
* * * * *
2431178 TTTTATCCTCAAAGAGCAGGACGCATTTCGTTTTCCTT-TTTTTTCCTTTATCCTCGAAA-AGAA
1 TTTTATCCTCAAAGAGCAGGACACACTTC-ATTCCCTTATTTTCTCCTTTATCCTC-AAAGAGAA
2431241 GGACGCACT
64 GGACGCACT
2431250 CTTTTTCACT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
87 52 0.85
88 9 0.15
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (87 bp):
TTTTATCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTCTCCTTTATCCTCAAAGAGAAGG
ACGCACTTTATTTTCCTCTTTC
Found at i:2432003 original size:20 final size:20
Alignment explanation
Indices: 2431978--2432052 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
2431968 TTTACCTAGA
*
2431978 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCTGCAT
2431998 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-CTGCAT
* ** *
2432018 TGTATCGATACAATGAGCAA
1 TGTATCGATACATTCTGCAT
2432038 TGTATCGATACATTC
1 TGTATCGATACATTC
2432053 AGGCATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 45 0.98
21 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTCTGCAT
Found at i:2438048 original size:51 final size:51
Alignment explanation
Indices: 2437890--2438051 Score: 139
Period size: 51 Copynumber: 3.2 Consensus size: 51
2437880 GTTGCGATAA
* ** * *
2437890 GGGATACTCCAA-TCCCGGTTCCATTTCCAAAAC-GTCAATTTTTCTTAATCG
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACACT-AATTTTTCATAATCG
* * * * * * ** *
2437941 GGGATACTCTAACTCTGATTTTATTTCTAAAGCATTTATTTACCGTAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCATAATCG
* * *
2437992 AGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCATAATCG
2438043 GGGATACTC
1 GGGATACTC
2438052 TAACCCCGTT
Statistics
Matches: 84, Mismatches: 25, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
51 82 0.98
52 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCATAATCG
Found at i:2438074 original size:28 final size:28
Alignment explanation
Indices: 2438042--2438115 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
2438032 TTTCACAATT
* **
2438042 GGGGATACTCTAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCAGA
*
2438070 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCAGA
2438098 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2438116 GCTTTATGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCAGA
Found at i:2438182 original size:109 final size:107
Alignment explanation
Indices: 2437993--2438338 Score: 460
Period size: 107 Copynumber: 3.2 Consensus size: 107
2437983 CCGTAATCGA
* * * * * * * * * *
2437993 GGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCTAACCC
1 GGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAACCC
2438058 CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
66 CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
* * * *
2438100 GGATACTCCAACCCCGGCTTTATGTCTAAAA-ATGTTATTTTTTTCATAATCGGGGGTACTCCAA
1 GGATACTCCAACCCCGACTTTATATCTAAAATAT-TGA--TTTTTCATAATTGGGGGTACTCCAA
2438164 CCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
63 CCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
*
2438209 GGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAACCT
1 GGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAACCC
* * * * * *
2438274 CGTTATGTCATCAGGGATATTCCAATCACGTTATTTCCGAGA
66 CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
*
2438316 GGATACTCCAACCCCGATTTTAT
1 GGATACTCCAACCCCGACTTTAT
2438339 TTTCAAAATA
Statistics
Matches: 212, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
106 1 0.00
107 112 0.53
109 97 0.46
110 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (107 bp):
GGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAACCC
CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
Found at i:2438187 original size:28 final size:28
Alignment explanation
Indices: 2438148--2438224 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
2438138 TTTTTTCATA
*
2438148 ATCGGGGGTACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
2438176 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
***
2438204 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2438225 ACTTTATATC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:2438347 original size:107 final size:107
Alignment explanation
Indices: 2437991--2438410 Score: 454
Period size: 107 Copynumber: 3.9 Consensus size: 107
2437981 TACCGTAATC
* * * * * * * *
2437991 GAGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCTAAC
1 GAGGATACTCCAACCCCGACTTTATTTTCAAAATACTGATTTTTCATAATCGGGGATACTCCAAC
2438056 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
66 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
* * * * * * *
2438098 GGGGATACTCCAACCCCGGCTTTATGTCTAAAAAT-GTTATTTTTTTCATAATCGGGGGTACTCC
1 GAGGATACTCCAACCCCGACTTTAT-TTTCAAAATACTGA--TTTTTCATAATCGGGGATACTCC
2438162 AACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
* * * * *
2438207 GGGGATACTCCAACCCCGACTTTA-TATCTAAAATATTGATTTTTCATAATTGGGGGTACTCCAA
1 GAGGATACTCCAACCCCGACTTTATTTTC-AAAATACTGATTTTTCATAATCGGGGATACTCCAA
* * * * * *
2438271 CCTCGTTATGTCATCAGGGATATTCCAATCACGTTATTTCCGA
65 CCCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
* * *
2438314 GAGGATACTCCAACCCCGATTTTATTTTCAAAATACCGA-TTTTCTATAATCAGGGATACTCCAA
1 GAGGATACTCCAACCCCGACTTTATTTTCAAAATACTGATTTTTC-ATAATCGGGGATACTCCAA
** *
2438378 CCTTGTTATTT--TCGAACGGATACTCCAACCCCG
65 CCCCGTTATTTCATCG--GGGATACTCCAACCCCG
2438411 ATTTTTATTT
Statistics
Matches: 263, Mismatches: 41, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
105 2 0.01
106 5 0.02
107 154 0.59
108 13 0.05
109 89 0.34
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (107 bp):
GAGGATACTCCAACCCCGACTTTATTTTCAAAATACTGATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
Found at i:2440007 original size:20 final size:21
Alignment explanation
Indices: 2439982--2440036 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2439972 ATGAACAGTA
*
2439982 AATGTATCGATACATG-TGTG
1 AATGTATCGATACATGTTGTC
* *
2440002 AATGTATCGATATA-GTTTTC
1 AATGTATCGATACATGTTGTC
2440022 AATGTATCGATACAT
1 AATGTATCGATACAT
2440037 TATGTTTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATGTTGTC
Found at i:2441362 original size:13 final size:13
Alignment explanation
Indices: 2441344--2441368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2441334 CATAAAGTGT
2441344 TGTATCGATACAA
1 TGTATCGATACAA
2441357 TGTATCGATACA
1 TGTATCGATACA
2441369 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2441366 original size:33 final size:33
Alignment explanation
Indices: 2441324--2441390 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2441314 GTCAACGATT
2441324 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2441357 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2441390 T
1 T
2441391 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2441449 original size:13 final size:13
Alignment explanation
Indices: 2441431--2441455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2441421 ATCACTTAAA
2441431 TGTATCGATACAT
1 TGTATCGATACAT
2441444 TGTATCGATACA
1 TGTATCGATACA
2441456 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2451355 original size:16 final size:16
Alignment explanation
Indices: 2451334--2451374 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
2451324 TTATCTTCGT
2451334 CAAGATGTTTTTTTGG
1 CAAGATGTTTTTTTGG
*
2451350 CAAGATG-ATTTTTGG
1 CAAGATGTTTTTTTGG
2451365 CAAGATGTTT
1 CAAGATGTTT
2451375 CTGTCGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (16 bp):
CAAGATGTTTTTTTGG
Found at i:2451720 original size:16 final size:16
Alignment explanation
Indices: 2451693--2451738 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
2451683 TTTCTAAGAG
2451693 AGATGA-TTTTTGGCA
1 AGATGATTTTTTGGCA
*
2451708 AGATGATTTTTTGGCC
1 AGATGATTTTTTGGCA
*
2451724 AGATGATTTTCTGGC
1 AGATGATTTTTTGGC
2451739 TCGTTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.41
Consensus pattern (16 bp):
AGATGATTTTTTGGCA
Found at i:2451898 original size:79 final size:79
Alignment explanation
Indices: 2451803--2451967 Score: 222
Period size: 79 Copynumber: 2.1 Consensus size: 79
2451793 TGTTTCCATC
* *** * *
2451803 ATCATCTAGCCAAAAGGATTTCTAAACCATTATCTAGTTGAAAAGGCTATTTAAGAATTATCTTA
1 ATCATCTAGCCAAAAGGATTTCTAAACCATCATCTAGCCAAAAAGGCTATTCAAGAATCATCTTA
*
2451868 ACATATATTCAATA
66 ACATATATTCAAGA
* * * *
2451882 ATCATCTAGCCAAAAGGGTTTTTAAAGCATCATCTAGCCAAAAAGGCTCTTCAAGAATCATCTTA
1 ATCATCTAGCCAAAAGGATTTCTAAACCATCATCTAGCCAAAAAGGCTATTCAAGAATCATCTTA
*
2451947 ACATATATTCAAGG
66 ACATATATTCAAGA
2451961 ATCATCT
1 ATCATCT
2451968 TAACATATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (79 bp):
ATCATCTAGCCAAAAGGATTTCTAAACCATCATCTAGCCAAAAAGGCTATTCAAGAATCATCTTA
ACATATATTCAAGA
Found at i:2451941 original size:28 final size:28
Alignment explanation
Indices: 2451875--2451944 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2451865 TTAACATATA
* * * *
2451875 TTCAATAATCATCTAGCCAAAAGGGTTT
1 TTCAAGAATCATCTAGCCAAAAAGGCTC
* *
2451903 TTAAAGCATCATCTAGCCAAAAAGGCTC
1 TTCAAGAATCATCTAGCCAAAAAGGCTC
2451931 TTCAAGAATCATCT
1 TTCAAGAATCATCT
2451945 TAACATATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (28 bp):
TTCAAGAATCATCTAGCCAAAAAGGCTC
Found at i:2451964 original size:23 final size:23
Alignment explanation
Indices: 2451931--2451987 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
2451921 AAAAAGGCTC
*
2451931 TTCAAGAATCATCTTAACATATA
1 TTCAAGGATCATCTTAACATATA
2451954 TTCAAGGATCATCTTAACATATA
1 TTCAAGGATCATCTTAACATATA
*
2451977 TTTAAGGATCA
1 TTCAAGGATCA
2451988 ACTAGCCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (23 bp):
TTCAAGGATCATCTTAACATATA
Found at i:2451993 original size:102 final size:101
Alignment explanation
Indices: 2451862--2452065 Score: 284
Period size: 102 Copynumber: 2.0 Consensus size: 101
2451852 TTTAAGAATT
* * * * *
2451862 ATCTTAACATATATTCAATAATCATCTAGCCAAAAGGGTTTTTAAAGCATCATCTAGCCAAAAAG
1 ATCTTAACATATATTCAAGAATCAACTAGCCAAAACGGTTTCTAAAGCATCATCTA-ACAAAAAG
* *
2451927 GC-TCTTCAAGAATCATCTTAACATATATTCAAGGATC
65 GCAT-TTCAAGAATCATCTCAACATATATTCAAGCATC
* * *
2451964 ATCTTAACATATATTTAAGGATCAACTAGCCAAAACGGTTTCTAAAGCATCATCTAACTAAAAGG
1 ATCTTAACATATATTCAAGAATCAACTAGCCAAAACGGTTTCTAAAGCATCATCTAACAAAAAGG
*
2452029 CATTTCAAGAATCATCTCAATATATATTCAAGCATC
66 CATTTCAAGAATCATCTCAACATATATTCAAGCATC
2452065 A
1 A
2452066 CGTAGCCAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
101 39 0.43
102 51 0.57
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (101 bp):
ATCTTAACATATATTCAAGAATCAACTAGCCAAAACGGTTTCTAAAGCATCATCTAACAAAAAGG
CATTTCAAGAATCATCTCAACATATATTCAAGCATC
Found at i:2452149 original size:77 final size:77
Alignment explanation
Indices: 2451954--2452182 Score: 264
Period size: 78 Copynumber: 3.0 Consensus size: 77
2451944 TTAACATATA
* * * *
2451954 TTCAAGGATCATCTTAACATATATTTAAGGATCAACTAGCCAAAACGGTTTCTAAAGCATCATCT
1 TTCAAGAATCATCTCAACATATATTCAAGGATC-ACTAGCCAAAAAGGTTTCTAAAGCATCATCT
* *
2452019 AACTAAAAGGCAT
65 AGCTAAAAAGCAT
* * *
2452032 TTCAAGAATCATCTCAATATATATTCAAGCATCACGTAGCCAAAAAGGTTTCTAAAGCATCATCC
1 TTCAAGAATCATCTCAACATATATTCAAGGATCAC-TAGCCAAAAAGGTTTCTAAAGCATCATCT
*
2452097 AGCCAAAAAGC-T
65 AGCTAAAAAGCAT
* * ** * * *
2452109 TTCAAGAATCATCTCAACGTTTATTCGGGGATCATCTAGCCAAAATGGCTT-TAAGGCATCATCT
1 TTCAAGAATCATCTCAACATATATTCAAGGATCA-CTAGCCAAAAAGGTTTCTAAAGCATCATCT
2452173 AGCTAAAAAG
65 AGCTAAAAAG
2452183 GGGATTCTAA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
76 20 0.16
77 44 0.34
78 64 0.50
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (77 bp):
TTCAAGAATCATCTCAACATATATTCAAGGATCACTAGCCAAAAAGGTTTCTAAAGCATCATCTA
GCTAAAAAGCAT
Found at i:2452196 original size:30 final size:30
Alignment explanation
Indices: 2452160--2452240 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
2452150 AAAATGGCTT
2452160 TAAGGCATCATCTAGCTAAAAAGGGGATTC
1 TAAGGCATCATCTAGCTAAAAAGGGGATTC
2452190 TAAGGCATCATCTAGCTAAAAAGGGGATTC
1 TAAGGCATCATCTAGCTAAAAAGGGGATTC
*
2452220 TAAGGCATCATCTAGTTAAAA
1 TAAGGCATCATCTAGCTAAAA
2452241 GGCTCATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (30 bp):
TAAGGCATCATCTAGCTAAAAAGGGGATTC
Found at i:2452319 original size:28 final size:28
Alignment explanation
Indices: 2452272--2452365 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
2452262 TTCAAGGATT
** *
2452272 ATCTAGCCAAACCGGCTTCCAAAGCATC
1 ATCTAGCCAAAAAGGTTTCCAAAGCATC
*
2452300 ATCTAGCCAAAAGGGTTTCCAAAGCATC
1 ATCTAGCCAAAAAGGTTTCCAAAGCATC
* * * *
2452328 ATCTAACAAAAAAGGTTT-TAAAGCATG
1 ATCTAGCCAAAAAGGTTTCCAAAGCATC
2452355 ATCTAGCCAAA
1 ATCTAGCCAAA
2452366 GGGCTTTTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 16 0.29
28 40 0.71
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (28 bp):
ATCTAGCCAAAAAGGTTTCCAAAGCATC
Found at i:2452437 original size:78 final size:76
Alignment explanation
Indices: 2452325--2452600 Score: 270
Period size: 77 Copynumber: 3.6 Consensus size: 76
2452315 TTTCCAAAGC
* * * *
2452325 ATCATCTAACAAAAAAGGTTT-TAAAGCATGATCTAGCCAAAGGGCTTTTCAAGAGTCATTTCAA
1 ATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAGCCAAA-AGCTTTTCAAGAATCATTTCAA
*
2452389 CAAATATTCAAG
65 CATATATTCAAG
* * *
2452401 TATCATCTAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTGAAAAGCTCTTT-AAGAATCATATC
1 -ATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAGC-CAAAAGCT-TTTCAAGAATCATTTC
* *
2452465 AATATATATTCAAAA
63 AACATATATTC-AAG
* ** * * *
2452480 ATTATCTAACCAAAAAGGTTTCTAGGGCATCATCTAACCAACACGC-CTTCAAGAATCATTTCAA
1 ATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAGCCAA-AAGCTTTTCAAGAATCATTTCAA
*
2452544 CATATATGCAAAG
65 CATATATTC-AAG
** * * *
2452557 ATCATCTGGCCAAAATGGCTTCTAAGGCATCATCTAGCCAAAAG
1 ATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAG
2452601 AGTTTCTAAA
Statistics
Matches: 163, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
76 4 0.02
77 78 0.48
78 73 0.45
79 8 0.05
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (76 bp):
ATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAGCTTTTCAAGAATCATTTCAAC
ATATATTCAAG
Found at i:2452596 original size:28 final size:27
Alignment explanation
Indices: 2452553--2452657 Score: 113
Period size: 28 Copynumber: 3.8 Consensus size: 27
2452543 ACATATATGC
* *
2452553 AAAG-ATCATCTGGCCAAAATGGCTTCT
1 AAAGCATCATCTAGCCAAAA-GGTTTCT
*
2452580 AAGGCATCATCTAGCCAAAAGAGTTTCT
1 AAAGCATCATCTAGCCAAAAG-GTTTCT
* *
2452608 AAAAGCATTATTTAGCCAAAAAGGTTTCT
1 -AAAGCATCATCTAGCC-AAAAGGTTTCT
*
2452637 AAAGCATCATCTAGCTAAAAG
1 AAAGCATCATCTAGCCAAAAG
2452658 ACTATTCAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 9 0.14
28 32 0.49
29 19 0.29
30 5 0.08
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (27 bp):
AAAGCATCATCTAGCCAAAAGGTTTCT
Found at i:2452780 original size:77 final size:76
Alignment explanation
Indices: 2452620--2452979 Score: 339
Period size: 77 Copynumber: 4.6 Consensus size: 76
2452610 AAGCATTATT
* *
2452620 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTAAAAGACTATTCAAGAATCGTCTCAACATATA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGC-AAAAGGCTATTCAAGAATCATCTCAACATATA
* *
2452685 TTTAAGGGTCATC
65 TTCAA-GATCATC
** * * *
2452698 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCAAAAGGCTATTTTAGAATCATTTTAACTTATAT
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCAAAAGGCTATTCAAGAATCATCTCAACATATAT
*
2452763 TCAATGATCATT
66 TCAA-GATCATC
* * * *** * * *
2452775 TAGCCAAAAAGGTTTTTAACA-TATCATTTAGCCAACTTG-TCTTCAAGAAAT-ATCTCGATATA
1 TAGCCAAAAAGGTTTCTAA-AGCATCATCTAG-CAAAAGGCTATTCAAG-AATCATCTCAACATA
*
2452837 TATTCAAGCATCATG
63 TATTCAAG-ATCATC
* * * *
2452852 TAGCCAAAAGGGTTTCTAAAGCATTATCTAGCCAAAAAGCTCTTCAAGAATCATCTCAACATATA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAG-CAAAAGGCTATTCAAGAATCATCTCAACATATA
*
2452917 TTCAAAGATTATC
65 TTC-AAGATCATC
* * * * *
2452930 TAGCCAAAAGGGTTTTTACAGCATCATCTAGCTAAAAAGCTCTTCAAGAA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGC-AAAAGGCTATTCAAGAA
2452980 CATATATTCA
Statistics
Matches: 232, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
76 2 0.01
77 116 0.50
78 111 0.48
79 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (76 bp):
TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCAAAAGGCTATTCAAGAATCATCTCAACATATAT
TCAAGATCATC
Found at i:2452809 original size:212 final size:212
Alignment explanation
Indices: 2452408--2452809 Score: 484
Period size: 212 Copynumber: 1.9 Consensus size: 212
2452398 AAGTATCATC
* * *
2452408 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTGAAAAGCTCTTTAAGAATCATATCAATATATA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTGAAAAGCTATTCAAGAATCATATCAACATATA
* ** * *
2452473 TTCAAAAATTATCTAACCAAAAAGGTTTCTAGGGCATCATCTAACCAACACGCCTTCAAGAATCA
66 TTCAAAAATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAACCAAAACGCATTCAAGAATCA
* * **
2452538 TTTCAACATATATGCAAAGATCATCTGGCCAAAATGGCTTCTAAGGCATCATCTAGCCAAAAGAG
131 TTTCAACATATATGCAAAGATCATCTAGCCAAAAAGGCTTCTAACACATCATCTAGCCAAAAGAG
2452603 TTTCTAAAAGCATTATT
196 TTTCTAAAAGCATTATT
* *
2452620 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCT-AAAAGACTATTCAAGAATCGTCTCAACATAT
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTGAAAAG-CTATTCAAGAATCATATCAACATAT
* *** * * * **
2452684 ATTTAAGGGTCATCTAGCCAAAAAGGTTTCTAAAGCATCATCT-AGCAAAAGGCTATTTTAGAAT
65 ATTCAAAAATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAACCAAAACGC-ATTCAAGAAT
* * * * * * * * *
2452748 CATTTTAACTTATATTCAATGATCATTTAGCCAAAAAGGTTTTTAACATATCATTTAGCCAA
129 CATTTCAACATATATGCAAAGATCATCTAGCCAAAAAGGCTTCTAACACATCATCTAGCCAA
2452810 CTTGTCTTCA
Statistics
Matches: 156, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
211 12 0.08
212 144 0.92
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (212 bp):
TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCTGAAAAGCTATTCAAGAATCATATCAACATATA
TTCAAAAATCATCTAACCAAAAAGGTTTCTAAAGCATCATCTAACCAAAACGCATTCAAGAATCA
TTTCAACATATATGCAAAGATCATCTAGCCAAAAAGGCTTCTAACACATCATCTAGCCAAAAGAG
TTTCTAAAAGCATTATT
Found at i:2452934 original size:78 final size:78
Alignment explanation
Indices: 2452620--2452979 Score: 363
Period size: 78 Copynumber: 4.6 Consensus size: 78
2452610 AAGCATTATT
* * *
2452620 TAGCCAAAAAGGTTTCTAAAGCATCATCTAG-CTAAAAGACTATTCAAGAATCGTCTCAACATAT
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAAG-CTCTTCAAGAATCATCTCAACATAT
* * *
2452684 ATTTAAGGGTCATC
65 ATTCAAAGATCATC
* * ** * * *
2452698 TAGCCAAAAAGGTTTCTAAAGCATCATCTAG-CAAAAGGCTATTTTAGAATCATTTTAACTTATA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAAGCTCTTCAAGAATCATCTCAACATATA
* *
2452762 TTCAATGATCATT
66 TTCAAAGATCATC
* * * *** * *
2452775 TAGCCAAAAAGGTTTTTAACA-TATCATTTAGCCAACTTG-TCTTCAAGAAAT-ATCTCGATATA
1 TAGCCAAAAAGGTTTCTAA-AGCATCATCTAGCCAAAAAGCTCTTCAAG-AATCATCTCAACATA
*
2452837 TATTC-AAGCATCATG
64 TATTCAAAG-ATCATC
* *
2452852 TAGCCAAAAGGGTTTCTAAAGCATTATCTAGCCAAAAAGCTCTTCAAGAATCATCTCAACATATA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAAGCTCTTCAAGAATCATCTCAACATATA
*
2452917 TTCAAAGATTATC
66 TTCAAAGATCATC
* * * *
2452930 TAGCCAAAAGGGTTTTTACAGCATCATCTAGCTAAAAAGCTCTTCAAGAA
1 TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAAGCTCTTCAAGAA
2452980 CATATATTCA
Statistics
Matches: 230, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
76 3 0.01
77 108 0.47
78 116 0.50
79 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (78 bp):
TAGCCAAAAAGGTTTCTAAAGCATCATCTAGCCAAAAAGCTCTTCAAGAATCATCTCAACATATA
TTCAAAGATCATC
Found at i:2453040 original size:68 final size:69
Alignment explanation
Indices: 2452909--2453041 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 69
2452899 GAATCATCTC
* * * *
2452909 AACATATATTCAAAGATTATCTAGCCAAAAGGGTTTTTACAGCATCATCTAGCTAAAAAGCTCTT
1 AACATATATTCAAAGATCATCTAGCCAAAACGGTTTTTACAACATCATCTAGCCAAAAAGCTCTT
2452974 CAAG
66 CAAG
* * * *
2452978 AACATATATTCAGAGATCATCTAG-CTAAACTGTTTTTA-ATACATCATCTAGCCAAAAGGCTCT
1 AACATATATTCAAAGATCATCTAGCCAAAACGGTTTTTACA-ACATCATCTAGCCAAAAAGCTCT
2453041 T
65 T
2453042 ATAAAATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 1 0.02
68 32 0.58
69 22 0.40
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (69 bp):
AACATATATTCAAAGATCATCTAGCCAAAACGGTTTTTACAACATCATCTAGCCAAAAAGCTCTT
CAAG
Found at i:2453402 original size:39 final size:40
Alignment explanation
Indices: 2453310--2453406 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
2453300 GTTGTTACGC
* *
2453310 TCAAAAATTATTATCTTATCAATGACAAAGACTTAAGAAT
1 TCAAAAATTATTATCTCACCAATGACAAAGACTTAAGAAT
** *
2453350 TCAAAAATTATTATCTCACCAATGACAAAGGTTTGAG-AT
1 TCAAAAATTATTATCTCACCAATGACAAAGACTTAAGAAT
2453389 TCAAAAATTATTATCTCA
1 TCAAAAATTATTATCTCA
2453407 ACAAATGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
39 20 0.38
40 32 0.62
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.33
Consensus pattern (40 bp):
TCAAAAATTATTATCTCACCAATGACAAAGACTTAAGAAT
Found at i:2453411 original size:33 final size:33
Alignment explanation
Indices: 2453374--2453439 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2453364 CTCACCAATG
*
2453374 ACAAAGGTTTGAG-ATTCAAAAATTATTATCTCA
1 ACAAAGG-TTGAGAATTCAAAAATTATTACCTCA
* *
2453407 ACAAATGTTGAGAATTCTAAAATTATTACCTCA
1 ACAAAGGTTGAGAATTCAAAAATTATTACCTCA
2453440 TTGATGGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (33 bp):
ACAAAGGTTGAGAATTCAAAAATTATTACCTCA
Found at i:2455203 original size:16 final size:16
Alignment explanation
Indices: 2455182--2455219 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2455172 TTAAAGTTTA
2455182 AATCATTTTAAATATG
1 AATCATTTTAAATATG
*
2455198 AATCATTTTAGATATG
1 AATCATTTTAAATATG
2455214 AATCAT
1 AATCAT
2455220 ACTATACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (16 bp):
AATCATTTTAAATATG
Found at i:2455417 original size:21 final size:21
Alignment explanation
Indices: 2455392--2455434 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
2455382 AAATTTAAAA
2455392 ATATATTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
2455413 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
2455434 A
1 A
2455435 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:2455445 original size:29 final size:30
Alignment explanation
Indices: 2455413--2455471 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
2455403 ATTAATATTT
2455413 ATATATTTT-ATAATTAAAT-TTAAATAAAA
1 ATAT-TTTTAATAATTAAATATTAAATAAAA
* *
2455442 ATATTTTTAATTATTAAATATTAATTAAAA
1 ATATTTTTAATAATTAAATATTAAATAAAA
2455472 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 13 0.50
30 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTTTTAATAATTAAATATTAAATAAAA
Found at i:2456137 original size:8 final size:8
Alignment explanation
Indices: 2456124--2456149 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2456114 TATGATGCTT
2456124 TCTCCCTC
1 TCTCCCTC
2456132 TCTCCCTC
1 TCTCCCTC
2456140 TCTCCCTC
1 TCTCCCTC
2456148 TC
1 TC
2456150 GTTTTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (8 bp):
TCTCCCTC
Found at i:2462769 original size:113 final size:115
Alignment explanation
Indices: 2462589--2462816 Score: 424
Period size: 113 Copynumber: 2.0 Consensus size: 115
2462579 TGTGGAAAAA
2462589 GGTCAATATTTTGTTTCCTCTCACTTTTCCTTACCAAGCACACCTAACTTCATCTTCTTTCTACT
1 GGTCAATATTTTGTTTCCTCTCACTTTTCCTTACCAAGCACACCTAACTTCATCTTCTTTCTACT
*
2462654 TTTCAACTCTTCCCTAGCCGTCCTTCCACTTTTCCACCCT-ATCTAGCAG
66 TTTCAACTCTTCCCTAGCCATCCTTCCACTTTTCCACCCTAATCTAGCAG
2462703 GGTCAATATTTTGTTTCCTCTCACTTTTCC-TACCAAGCACACCTAACTTCATCTTCTTTCTACT
1 GGTCAATATTTTGTTTCCTCTCACTTTTCCTTACCAAGCACACCTAACTTCATCTTCTTTCTACT
*
2462767 TTTCAACTTTTCCCTAGCCATCCTTCCACTTTTCCACCCTAATCTAGCAG
66 TTTCAACTCTTCCCTAGCCATCCTTCCACTTTTCCACCCTAATCTAGCAG
2462817 AGGCTTTGTG
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
113 72 0.65
114 39 0.35
ACGTcount: A:0.19, C:0.35, G:0.07, T:0.39
Consensus pattern (115 bp):
GGTCAATATTTTGTTTCCTCTCACTTTTCCTTACCAAGCACACCTAACTTCATCTTCTTTCTACT
TTTCAACTCTTCCCTAGCCATCCTTCCACTTTTCCACCCTAATCTAGCAG
Found at i:2468685 original size:20 final size:21
Alignment explanation
Indices: 2468660--2468698 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2468650 TCAATGAATT
*
2468660 AAATAATATTATTT-TATTAA
1 AAATAAAATTATTTGTATTAA
2468680 AAATAAAATTATTTGTATT
1 AAATAAAATTATTTGTATT
2468699 TACTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATAAAATTATTTGTATTAA
Found at i:2476939 original size:24 final size:23
Alignment explanation
Indices: 2476862--2476939 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 23
2476852 ATATTTTTTT
*
2476862 AATAAAAAACTTATTATATTTAAAA
1 AATAAAAAACTAATT-T-TTTAAAA
* **
2476887 ATATAAATAAAATAAAATTTTAAAA
1 A-ATAAA-AAACTAATTTTTTAAAA
2476912 AATAAAAAACTAATTTTTTAAAA
1 AATAAAAAACTAATTTTTTAAAA
2476935 GAATA
1 -AATA
2476940 GTTAATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
23 14 0.33
24 9 0.21
25 9 0.21
26 6 0.14
27 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (23 bp):
AATAAAAAACTAATTTTTTAAAA
Found at i:2477854 original size:3 final size:3
Alignment explanation
Indices: 2477848--2477878 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2477838 AATAATAATA
2477848 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2477879 CATCTGTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2483023 original size:21 final size:21
Alignment explanation
Indices: 2482997--2483036 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2482987 AAGATTAACC
*
2482997 CAAATAGTGGGATTAATCTCT
1 CAAATAATGGGATTAATCTCT
*
2483018 CAAATAATGTGATTAATCT
1 CAAATAATGGGATTAATCT
2483037 TAATCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
CAAATAATGGGATTAATCTCT
Found at i:2484166 original size:18 final size:18
Alignment explanation
Indices: 2484143--2484179 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2484133 CAAAAAATAC
*
2484143 CCAAAAATATTTTATTTT
1 CCAAAAATATTCTATTTT
*
2484161 CCAAAATTATTCTATTTT
1 CCAAAAATATTCTATTTT
2484179 C
1 C
2484180 TGCCCACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (18 bp):
CCAAAAATATTCTATTTT
Found at i:2487061 original size:20 final size:20
Alignment explanation
Indices: 2487011--2487062 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
2487001 TTCTACAATT
*
2487011 TGTATCGATATAACAAGTGAA
1 TGTATCGATA-CACAAGTGAA
* *
2487032 TAG-ATTGATACATAAGTGAA
1 T-GTATCGATACACAAGTGAA
2487052 TGTATCGATAC
1 TGTATCGATAC
2487063 TGAACCTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 16 0.64
21 7 0.28
22 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACACAAGTGAA
Found at i:2487498 original size:13 final size:13
Alignment explanation
Indices: 2487480--2487505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2487470 TACAGCAAGT
2487480 ATGTATCGATACA
1 ATGTATCGATACA
2487493 ATGTATCGATACA
1 ATGTATCGATACA
2487506 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2489742 original size:21 final size:21
Alignment explanation
Indices: 2489709--2489753 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2489699 TTGCAAGTTG
*
2489709 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2489731 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2489751 AAA
1 AAA
2489754 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2491577 original size:15 final size:15
Alignment explanation
Indices: 2491557--2491587 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2491547 TAAAAATGTC
*
2491557 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2491572 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2491587 C
1 C
2491588 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2493684 original size:13 final size:13
Alignment explanation
Indices: 2493666--2493691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2493656 ACATTTTTCT
2493666 TTGTATCGATACA
1 TTGTATCGATACA
2493679 TTGTATCGATACA
1 TTGTATCGATACA
2493692 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2493855 original size:20 final size:20
Alignment explanation
Indices: 2493812--2493857 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2493802 AAATCTTTTG
2493812 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2493833 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2493853 CAAAA
1 CAAAA
2493858 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2496074 original size:20 final size:20
Alignment explanation
Indices: 2496049--2496100 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2496039 ATATATCAAA
2496049 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
2496069 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
2496089 GTATCGATACAT
1 GTATCGATACAT
2496101 TAAGGTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:2496269 original size:13 final size:13
Alignment explanation
Indices: 2496251--2496276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2496241 TACAGCAAGT
2496251 ATGTATCGATACA
1 ATGTATCGATACA
2496264 ATGTATCGATACA
1 ATGTATCGATACA
2496277 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2497111 original size:31 final size:31
Alignment explanation
Indices: 2497033--2497111 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
2497023 TCAGAAAAGA
*
2497033 AAATGTATCGATACATCCTAGGTTTTGATCC
1 AAATGTATCGATACATTCTAGGTTTTGATCC
*
2497064 AAATGTATTGATACATTCTAGGTTTTGATCC
1 AAATGTATCGATACATTCTAGGTTTTGATCC
2497095 AAATGTATCGATACATT
1 AAATGTATCGATACATT
2497112 TTTCATTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (31 bp):
AAATGTATCGATACATTCTAGGTTTTGATCC
Found at i:2497165 original size:52 final size:51
Alignment explanation
Indices: 2497073--2497182 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 51
2497063 CAAATGTATT
* *
2497073 GATACATTCTAGGTTTTGATCCAAATGTATCGATACATTTTTCATTATATC
1 GATACATTCTAGGTTTTGATCCAAACGTATCGATACATTTTTCAATATATC
* * * *
2497124 GATACATTCTAGGTTTTTGA-CATAAACGTATTGATACATTTTTCAATGTATT
1 GATACATTCTAGG-TTTTGATC-CAAACGTATCGATACATTTTTCAATATATC
2497176 GATACAT
1 GATACAT
2497183 CCAGTTGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
51 14 0.27
52 37 0.73
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (51 bp):
GATACATTCTAGGTTTTGATCCAAACGTATCGATACATTTTTCAATATATC
Found at i:2499582 original size:26 final size:27
Alignment explanation
Indices: 2499504--2499589 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
2499494 TATTCATCGA
* **
2499504 GGATACTCTAACCTTATTCTTCCGAGG
1 GGATACTCCAACCCCATTCTTCCGAGG
*
2499531 GGATACTCCAACCCCATTCTTTCGAGG
1 GGATACTCCAACCCCATTCTTCCGAGG
*
2499558 GGATGCTCCAA-CCCATTCTTCCGAGG
1 GGATACTCCAACCCCATTCTTCCGAGG
*
2499584 TGATAC
1 GGATAC
2499590 CCCAGCCCTG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.35
27 33 0.65
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCCATTCTTCCGAGG
Found at i:2504973 original size:32 final size:32
Alignment explanation
Indices: 2504921--2505005 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 32
2504911 ATTCATCTAC
* **
2504921 ATTTGCACTCATAAGCATTCTTACTCATGAGT
1 ATTTACACTCATGTGCATTCTTACTCATGAGT
* ** *
2504953 ATTTACACTCATGTGTATTCTTGTTCATGTGT
1 ATTTACACTCATGTGCATTCTTACTCATGAGT
* *
2504985 CTTTGCACTCATGTGCATTCT
1 ATTTACACTCATGTGCATTCT
2505006 ATTTTATATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (32 bp):
ATTTACACTCATGTGCATTCTTACTCATGAGT
Found at i:2507968 original size:17 final size:17
Alignment explanation
Indices: 2507946--2507981 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2507936 GCTTTCATAT
* *
2507946 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
2507963 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
2507980 TT
1 TT
2507982 CATCTTCCTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:2510089 original size:28 final size:28
Alignment explanation
Indices: 2509249--2511007 Score: 428
Period size: 32 Copynumber: 58.6 Consensus size: 28
2509239 TGAAAAGGGT
* *
2509249 TGCCACTGACTTGCGTGGGCTTTTAAATGGGT
1 TGCCACTGACTT--GTGGGCTTTGAAA--GGA
* * *
2509281 TGCCACCGACTTGTGTGGGCTTTTAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
** *
2509313 TGCCACCAACTTGTGGGGGCTTTGAAAAAGGT
1 TGCCACTGACTTGT--GGGCTTTG--AAAGGA
* *
2509345 TGCCACCGACTTGTGTGGACTTTGAAATGGGT
1 TGCCACTGACTTGTG-GG-CTTTGAAA--GGA
* *
2509377 TGCCACCT-ACTTGTGTGGGCTTTAGAATGGGT
1 TGCCA-CTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2509409 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509441 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509473 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509505 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509537 TGCCACAGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509569 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2509601 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* * *
2509633 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2509665 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2509697 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2509729 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * * *
2509761 TGCCACCGATTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGA-CT-TGTGGGCTTT-GAA-AGGA
* *
2509793 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2509825 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2509857 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* * *
2509889 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2509921 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2509953 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2509985 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2510017 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* *
2510049 TGCCACCGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
2510077 TGCCACTAACTTGTGGGCTTTGAAATGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
*
2510106 TTGCCACCGACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
2510135 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
**
2510163 TGCCACCAACTTGTGTGGACTTTGGAAA-GA
1 TGCCACTGACTTGTG-GG-CTTT-GAAAGGA
*
2510193 TGCCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA--GGA
* *
2510223 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2510255 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * * *
2510287 TGCCACCGATTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGA-CT-TGTGGGCTTT-GAA-AGGA
* *
2510319 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* *
2510351 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
2510383 TGCCACCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTT-GAA-AGGA
* * *
2510415 TGCCACCGGCTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* ** *
2510447 TGCCAC-GAAGTTGTGAAC-TTAAAAGGGA
1 TGCCACTG-ACTTGTGGGCTTTGAAA-GGA
* * * * *
2510475 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
2510502 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * *
2510530 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
2510557 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510584 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510611 TGCCACAGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** * * ** *
2510638 TGCCACAAAGTTGTGGAC-TAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510665 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510692 TGCCACGGAGTTGTGGAC-TTAAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
2510719 TGCCAC-GTAGTTGTGGACTTTAAAAGGG
1 TGCCACTG-ACTTGTGGGCTTTGAAAGGA
* * * * *
2510747 TGCCACAGAGTTGTGGAC-TTAAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510774 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * ** *
2510801 TGCCACGGAGTTGTGGACTTAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * ** *
2510829 TGCCACGGAGTTGTGGAC-TAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510856 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510884 TGCCACAGAGTTGTGGAC-TTAAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510911 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
2510938 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * **
2510965 TGCCACGGAGTTGTGGACTTAAAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
2510992 TGCCACGGAGTTGTGG
1 TGCCACTGACTTGTGG
2511008 ACTTAAAAGG
Statistics
Matches: 1577, Mismatches: 79, Indels: 147
0.87 0.04 0.08
Matches are distributed among these distances:
26 1 0.00
27 370 0.23
28 199 0.13
29 19 0.01
30 74 0.05
31 36 0.02
32 838 0.53
33 32 0.02
34 8 0.01
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:2510461 original size:32 final size:32
Alignment explanation
Indices: 2509237--2510452 Score: 1941
Period size: 32 Copynumber: 38.6 Consensus size: 32
2509227 AAAATGGTGA
* * *
2509237 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509269 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
2509301 TTTTAAATGGGTTGCCACCAACTTGTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** *
2509333 TTTGAAAAAGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509365 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509397 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
2509429 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509461 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509493 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509525 TTTGAAATGGGTTGCCACAGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509557 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509589 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509621 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509653 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509685 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509717 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509749 TTTGAAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509781 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509813 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509845 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509877 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509909 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2509941 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2509973 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2510005 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2510037 TTTGGAATGGGTTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
2510067 TTTGAAA--AGATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2510095 TTTGAAATGGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2510125 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
2510153 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2510183 TTTGGAAA---GATGCCACTGAC-T-TGTGGGC
1 TTT-GAAATGGGTTGCCACCGACTTGTGTGGGC
2510211 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2510243 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2510275 TTTGAAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2510307 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2510339 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2510371 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2510403 TTTGGAATGGGTTGCCACCGGCTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2510435 TTTGAAATGGGTTGCCAC
1 TTTGAAATGGGTTGCCAC
2510453 GAAGTTGTGA
Statistics
Matches: 1112, Mismatches: 60, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
27 4 0.00
28 69 0.06
29 2 0.00
30 65 0.06
31 7 0.01
32 964 0.87
33 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2510513 original size:27 final size:27
Alignment explanation
Indices: 2510447--2511017 Score: 926
Period size: 27 Copynumber: 21.0 Consensus size: 27
2510437 TGAAATGGGT
* *
2510447 TGCCACGAAGTTGTGAACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510474 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
2510502 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2510529 ATGCCACGGAGTTGTGGACTTAAAAGGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
*
2510557 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510584 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2510611 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
** *
2510638 TGCCACAAAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510665 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
**
2510692 TGCCACGGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2510719 TGCCACGTAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* **
2510747 TGCCACAGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510774 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510801 TGCCACGGAGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
*
2510829 TGCCACGGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510856 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* **
2510884 TGCCACAGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510911 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510938 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2510965 TGCCACGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2510992 TGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
2511018 TCACAGTACT
Statistics
Matches: 507, Mismatches: 32, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
27 382 0.75
28 125 0.25
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:2512363 original size:23 final size:24
Alignment explanation
Indices: 2512337--2512388 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2512327 TTTTATTTTG
*
2512337 TTTTTGCACTTTTTCTTTTCA-TT
1 TTTTTGCACTTTTGCTTTTCAGTT
** *
2512360 TTTTTGTGCTTTTGCTTTTGAGTT
1 TTTTTGCACTTTTGCTTTTCAGTT
2512384 TTTTT
1 TTTTT
2512389 TTGTCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTGCACTTTTGCTTTTCAGTT
Found at i:2518817 original size:17 final size:17
Alignment explanation
Indices: 2518795--2518830 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2518785 CATTTCATAT
* *
2518795 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
2518812 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
2518829 TT
1 TT
2518831 CATCTTCCTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:2520306 original size:46 final size:46
Alignment explanation
Indices: 2520221--2520450 Score: 228
Period size: 46 Copynumber: 5.0 Consensus size: 46
2520211 AATATTTTAA
* * * *
2520221 GTATGAACTTCTAACTCAAAAAGTCCTAAACTCATAAAGAACTCAT
1 GTATGAACTCCTGACTCAAAAAGTCCTAAACTCAAAAAGAACTCAG
* * * * * *
2520267 GTACGGACTCTTGACTCCAAAAGTTCTAAACTCAAAAAGAACTTAG
1 GTATGAACTCCTGACTCAAAAAGTCCTAAACTCAAAAAGAACTCAG
* * ** *
2520313 GTATGAACTCCTAACTTAAAAAGTTTTTAAACTTAAAAAGAACTCAG
1 GTATGAACTCCTGACTCAAAAAG-TCCTAAACTCAAAAAGAACTCAG
* * *
2520360 GTATGAACTCCTGACTCTAAAAA-TCCTAAATTGAAAAAGAACACTAG
1 GTATGAACTCCTGACTC-AAAAAGTCCTAAACTCAAAAAGAACTC-AG
* * * *
2520407 GTATGGACTCTTGACTCCAAAAGTCCTAAACTTAAAAAGAACTC
1 GTATGAACTCCTGACTCAAAAAGTCCTAAACTCAAAAAGAACTC
2520451 CAAGTAAGAA
Statistics
Matches: 148, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
46 73 0.49
47 70 0.47
48 5 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (46 bp):
GTATGAACTCCTGACTCAAAAAGTCCTAAACTCAAAAAGAACTCAG
Found at i:2520389 original size:93 final size:93
Alignment explanation
Indices: 2520221--2520450 Score: 264
Period size: 93 Copynumber: 2.5 Consensus size: 93
2520211 AATATTTTAA
* * * * * *
2520221 GTATGAACTTCTAACTCAAAAAGTCCTAAACTCATAAAGAACTCATGTACGGACTCTTGACTCCA
1 GTATGAACTCCTAACTCAAAAAGTCCTAAACTTAAAAAGAACTCAGGTACGAACTCCTGACTCCA
* * *
2520286 AAAGTTCTAAACTCAAAAAGAAC-TTAG
66 AAAATCCTAAACTCAAAAAGAACACTAG
* ** * *
2520313 GTATGAACTCCTAACTTAAAAAGTTTTTAAACTTAAAAAGAACTCAGGTATGAACTCCTGACTCT
1 GTATGAACTCCTAACTCAAAAAG-TCCTAAACTTAAAAAGAACTCAGGTACGAACTCCTGACTCC
* *
2520378 AAAAATCCTAAATTGAAAAAGAACACTAG
65 AAAAATCCTAAACTCAAAAAGAACACTAG
* * * *
2520407 GTATGGACTCTTGACTCCAAAAGTCCTAAACTTAAAAAGAACTC
1 GTATGAACTCCTAACTCAAAAAGTCCTAAACTTAAAAAGAACTC
2520451 CAAGTAAGAA
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
92 21 0.19
93 71 0.63
94 21 0.19
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (93 bp):
GTATGAACTCCTAACTCAAAAAGTCCTAAACTTAAAAAGAACTCAGGTACGAACTCCTGACTCCA
AAAATCCTAAACTCAAAAAGAACACTAG
Found at i:2520466 original size:47 final size:46
Alignment explanation
Indices: 2520221--2520468 Score: 223
Period size: 47 Copynumber: 5.3 Consensus size: 46
2520211 AATATTTTAA
* * * *
2520221 GTATGAACT-TCTAACTCAAAAAGTCCTAAACTCATAAAGAACTCAT
1 GTATGAACTCT-TGACTCAAAAAGTCCTAAACTTAAAAAGAACTCAG
* * * * * *
2520267 GTACGGACTCTTGACTCCAAAAGTTCTAAACTCAAAAAGAACTTAG
1 GTATGAACTCTTGACTCAAAAAGTCCTAAACTTAAAAAGAACTCAG
* * * **
2520313 GTATGAACTCCTAACTTAAAAAGTTTTTAAACTTAAAAAGAACTCAG
1 GTATGAACTCTTGACTCAAAAAG-TCCTAAACTTAAAAAGAACTCAG
* *
2520360 GTATGAACTCCTGACTCTAAAAA-TCCTAAA-TTGAAAAAGAACACTAG
1 GTATGAACTCTTGACTC-AAAAAGTCCTAAACTT-AAAAAGAACTC-AG
* * *
2520407 GTATGGACTCTTGACTCCAAAAGTCCTAAACTTAAAAAGAACTCCAA
1 GTATGAACTCTTGACTCAAAAAGTCCTAAACTTAAAAAGAACT-CAG
* *
2520454 GTAAGAATTCTTGAC
1 GTATGAACTCTTGAC
2520469 CTTACGAGCT
Statistics
Matches: 164, Mismatches: 30, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
45 2 0.01
46 72 0.44
47 82 0.50
48 8 0.05
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (46 bp):
GTATGAACTCTTGACTCAAAAAGTCCTAAACTTAAAAAGAACTCAG
Found at i:2520934 original size:50 final size:50
Alignment explanation
Indices: 2520868--2521011 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 50
2520858 AGAGGTCAAA
* * * *
2520868 CCCTATATAATCCAAGTCAACACTAGCTAGCACTTGTATAGAGATACTGAG
1 CCCTATAGAATCCAAGTC-ACACTAGTTGGCACTTGTATAGAGATACTCAG
* **
2520919 CCCTATA-AATCCAAGTCCACACTAGTTGGCGCTTGTATAG-GATGGTCAG
1 CCCTATAGAATCCAAGT-CACACTAGTTGGCACTTGTATAGAGATACTCAG
* * *
2520968 CCCTATAGATTCCAAGTTCACACTAGTTGGCACCTATATAGAGA
1 CCCTATAGAATCCAAG-TCACACTAGTTGGCACTTGTATAGAGA
2521012 GGTCAAACCC
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
49 13 0.16
50 55 0.70
51 11 0.14
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (50 bp):
CCCTATAGAATCCAAGTCACACTAGTTGGCACTTGTATAGAGATACTCAG
Found at i:2521016 original size:50 final size:51
Alignment explanation
Indices: 2520738--2521494 Score: 361
Period size: 51 Copynumber: 15.0 Consensus size: 51
2520728 AACTTTACAT
* * * *
2520738 TAGTTGGCACTTGTATAGAGAGGCCAAGCCCTATATAATCCAAGTCCACAT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
* * * * * * * *
2520789 TAGTTGGCATCTATATAGGGAGGTCAAGCCCTATTGAACCTCAAGTCTATAT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATC-CAAGTCCACAC
* * * * * * *
2520841 TA-CTAGCAGCTGTATAAAGAGGTCAAACCCTATATAATCCAAGTCAACAC
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
* * * *
2520891 TAGCTAGCACTTGTATAGAGA--TACTGAGCCCTATA-AATCCAAGTCCACAC
1 TAGTTGGCACCTGTATAGAGAGGT-C-AAGCCCTATAGAATCCAAGTCCACAC
* * * *
2520941 TAGTTGGCGCTTGTATAG-GATGGTC-AGCCCTATAGATTCCAAGTTCACAC
1 TAGTTGGCACCTGTATAGAGA-GGTCAAGCCCTATAGAATCCAAGTCCACAC
* * * **
2520991 TAGTTGGCACCTATATAGAGAGGTCAAACCCTATAGAACTCGAAGTCCACGT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAA-TCCAAGTCCACAC
* * * * * *
2521043 TAGTTAGCACCTATATAGGGAGGTCAA-CCTTTATAGAA-CCTAAATTCCA-AT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCC-CTATAGAATCC--AAGTCCACAC
* * * * * * * * *
2521094 TAGCTAGCACCTATCTTCG-GAGGTCCAA-CCTTATAAAATCAAAGTCCACAT
1 TAGTTGGCACCTGT-ATAGAGAGGT-CAAGCCCTATAGAATCCAAGTCCACAC
* ** * **
2521145 TAGTTGGCACCTGTATAGGGAGGTCAAGAACTATAAAATCCAAGTCCATGC
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
* * ** * * *
2521196 TAGTT-G----TGTATAGGGAGATCAAGCCCCGTAGAA-CCTAAATCCATAT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCC-AAGTCCACAC
** * * * * * *
2521242 TAGTTTACACCTATAT-GGGAGCTCAAGCCCTATAGAACCCAAGTCCATAT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
* * * * * *
2521292 TAGTTGGCACCTATATA-AGGAAGTTAAGCCTTATAGAATTCCAAGTCCATAT
1 TAGTTGGCACCTGTATAGA-GAGGTCAAGCCCTATAGAA-TCCAAGTCCACAC
* * * * ** *
2521344 TAATTGGCACCTGCATAG-GGGGTCAAGCCTTATA-AACTGAAAGTCCACAT
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAA-TCCAAGTCCACAC
*** * * ** * * * *
2521394 TAGCCAGCACCTGTATGGAGAGGTCCAGCTGTATAGAGTCAAATTTCACAC
1 TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
* * * *
2521445 TACG-TGGCACTTGTATAGGGAGGTCAAGCCTTATAGAACCCAAGTCCACA
1 TA-GTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACA
2521495 TTAATTGATG
Statistics
Matches: 544, Mismatches: 128, Indels: 68
0.74 0.17 0.09
Matches are distributed among these distances:
45 2 0.00
46 33 0.06
49 12 0.02
50 150 0.28
51 252 0.46
52 95 0.17
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (51 bp):
TAGTTGGCACCTGTATAGAGAGGTCAAGCCCTATAGAATCCAAGTCCACAC
Found at i:2528097 original size:38 final size:38
Alignment explanation
Indices: 2528045--2528121 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 38
2528035 AAGTGGTTAA
2528045 AAACTTGGGATCGCCACCAATCATTTGAGT-TAGGTATG
1 AAACTTGGGATCGCCACCAATCATTTGA-TCTAGGTATG
*
2528083 AAACTT-GGAGTCGCCACCGATCATTTGATCTAGGTATG
1 AAACTTGGGA-TCGCCACCAATCATTTGATCTAGGTATG
2528121 A
1 A
2528122 TTAGATACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (38 bp):
AAACTTGGGATCGCCACCAATCATTTGATCTAGGTATG
Found at i:2528588 original size:20 final size:21
Alignment explanation
Indices: 2528544--2528597 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2528534 TTCTATAATT
* *
2528544 TGTATCGATATAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
2528565 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
2528585 TGTATCGATACAT
1 TGTATCGATACAT
2528598 GCCAAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:2528697 original size:22 final size:20
Alignment explanation
Indices: 2528639--2528699 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
2528629 CTTTCTGCAA
2528639 AAGAAATGTATCGATACA-C
1 AAGAAATGTATCGATACATC
**
2528658 AAGTAAATGTATTAATACATGC
1 AAG-AAATGTATCGATACAT-C
*
2528680 TTAGAAATGTATCGATACAT
1 -AAGAAATGTATCGATACAT
2528700 TTCTCATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
22 15 0.45
23 2 0.06
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGAAATGTATCGATACATC
Found at i:2530616 original size:31 final size:30
Alignment explanation
Indices: 2530577--2530636 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
2530567 GTAAAGCAAG
2530577 CTTTTTCAAAATCCACAACTCAGTGGCATC
1 CTTTTTCAAAATCCACAACTCAGTGGCATC
* * *
2530607 CTTTCTTCAAAGTCCACGACTTAGTGGCAT
1 CTTT-TTCAAAATCCACAACTCAGTGGCAT
2530637 ATCTTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (30 bp):
CTTTTTCAAAATCCACAACTCAGTGGCATC
Found at i:2530648 original size:30 final size:30
Alignment explanation
Indices: 2530577--2530665 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
2530567 GTAAAGCAAG
* *
2530577 CTTTTTCAAAATCCACAACTCAGTGGCATC
1 CTTTTTCAAAGTCCACGACTCAGTGGCATC
*
2530607 CTTTCTTCAAAGTCCACGACTTAGTGGCAT-
1 CTTT-TTCAAAGTCCACGACTCAGTGGCATC
* * *
2530637 ATCTTTTCAAAGTCCATGACTCCGTGGCA
1 CT-TTTTCAAAGTCCACGACTCAGTGGCA
2530666 CTTTTTTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 26 0.52
31 24 0.48
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
CTTTTTCAAAGTCCACGACTCAGTGGCATC
Found at i:2530856 original size:62 final size:62
Alignment explanation
Indices: 2530676--2530951 Score: 328
Period size: 62 Copynumber: 4.5 Consensus size: 62
2530666 CTTTTTTTAT
* * *
2530676 CCTTGTAGTCCTCAAAGAGCAAGACGCCTTTTCC-TTTTAAAGCCCACACGAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * ** * *
2530737 CTTTTTAGTCCTCAAAGAGTAGGACACC-TAT--TTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
2530796 CTTTTTAGTCCTCAAAGAGCAAAATGTCTTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * **
2530858 CCTTTTAGTCCTCAAGGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCA
* *
2530920 CCTTTTAGTCCTTAAAGAG-AAGGATGCATTTT
1 CCTTTTAGTCCTCAAAGAGCAA-GATGCCTTTT
2530952 TCTTAGCACC
Statistics
Matches: 181, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
59 47 0.26
60 4 0.02
61 24 0.13
62 106 0.59
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (62 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:2530864 original size:121 final size:122
Alignment explanation
Indices: 2530676--2530938 Score: 341
Period size: 121 Copynumber: 2.2 Consensus size: 122
2530666 CTTTTTTTAT
* * *
2530676 CCTTGTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGATGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAAAACGCCTTTTCCTTTTAAAGCCCACACGAGTTGATGGCACCTT
* **
2530741 TTAGTCCTCAAAGAGTAGGACACC-TAT-TTTTTAAAGCCCACACGAGTTAGTGGCA
66 TTAGTCCTCAAAGAGCAGGACACCTTATCTTTTTAAAGCCCACACGAGTTAGCAGCA
* * * * *
2530796 CTTTTTAGTCCTCAAAGAGCAAAATGTCTTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAAAACGCCTTTTCC-TTTTAAAGCCCACACGAGTTGATGGCACCT
* ** * *
2530861 TTTAGTCCTCAAGGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCA
65 TTTAGTCCTCAAAGAGCAGGACACCTTAT-CTTTTTAAAGCCCACACGAGTTAGCAGCA
*
2530920 CCTTTTAGTCCTTAAAGAG
1 CCTTTTAGTCCTCAAAGAG
2530939 AAGGATGCAT
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
120 29 0.24
121 48 0.40
122 2 0.02
124 42 0.35
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (122 bp):
CCTTTTAGTCCTCAAAGAGCAAAACGCCTTTTCCTTTTAAAGCCCACACGAGTTGATGGCACCTT
TTAGTCCTCAAAGAGCAGGACACCTTATCTTTTTAAAGCCCACACGAGTTAGCAGCA
Found at i:2530961 original size:40 final size:40
Alignment explanation
Indices: 2530916--2530991 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
2530906 ACGAGTTGGC
2530916 AGCACCTTTTAGTCCTTAAAGAGAAGGATGCATTTTTCTT
1 AGCACCTTTTAGTCCTTAAAGAGAAGGATGCATTTTTCTT
* *
2530956 AGCACCTTTTAGTCCTTAAAGAGCAGGATGCCTTTT
1 AGCACCTTTTAGTCCTTAAAGAGAAGGATGCATTTT
2530992 ACTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (40 bp):
AGCACCTTTTAGTCCTTAAAGAGAAGGATGCATTTTTCTT
Found at i:2531052 original size:62 final size:62
Alignment explanation
Indices: 2530957--2531246 Score: 316
Period size: 62 Copynumber: 4.7 Consensus size: 62
2530947 ATTTTTCTTA
* * ** * * * *
2530957 GCACCTTTTAGTCCTTAA-AGAGCAGGATGCCTTTTACTTTTTAAAGCTCACACGAGTTAGTG
1 GCACCTTTTAGTCCTCAAGA-AGTAGGACACCTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
* * * *
2531019 GCACATTTTAGTCCTCAAGAAATAGGACACCTTTTTCTTTTTAAAGTCCACACGAGTTGGTG
1 GCACCTTTTAGTCCTCAAGAAGTAGGACACCTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
* * * *
2531081 GTACCTTTTA-TCCTCAA-AGAGCAGGACACCTTTTTCCTTTAAAAGCCCACATGAGTTGGTG
1 GCACCTTTTAGTCCTCAAGA-AGTAGGACACCTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
* ** *
2531142 GCACCTTTTAGTCCTCAAGGAGTAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
1 GCACCTTTTAGTCCTCAAGAAGTAGGACACCTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
* * * **
2531204 GCACCTTTTAGTCCTCAAAAAGCAGGATATTTTTTTCCTTTTA
1 GCACCTTTTAGTCCTCAAGAAGTAGGACACCTTTTTCCTTTTA
2531247 GTCCTCAAAG
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
60 1 0.01
61 52 0.27
62 138 0.72
63 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (62 bp):
GCACCTTTTAGTCCTCAAGAAGTAGGACACCTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
Found at i:2531054 original size:102 final size:102
Alignment explanation
Indices: 2530855--2531057 Score: 273
Period size: 102 Copynumber: 2.0 Consensus size: 102
2530845 TGAGTTGGTG
* * *
2530855 GCACCTTTTAGTCCTCAAGGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCA
1 GCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGCAGCA
* * **
2530920 CCTTTTAGTCCTTAAAGAGAAGGATGCATTTTTCTTA
66 CATTTTAGTCCTTAAAGAAAAGGACACATTTTTCTTA
* * **
2530957 GCACCTTTTAGTCCTTAAAGAGCAGGATGCCTTTTACTTTTTAAAGCTCACACGAGTTAGTGGCA
1 GCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGCAGCA
* *
2531022 CATTTTAGTCC-TCAAGAAATAGGACACCTTTTTCTT
66 CATTTTAGTCCTTAAAGAAA-AGGACACATTTTTCTT
2531058 TTTAAAGTCC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 6 0.07
102 81 0.93
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (102 bp):
GCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGCAGCA
CATTTTAGTCCTTAAAGAAAAGGACACATTTTTCTTA
Found at i:2531072 original size:164 final size:163
Alignment explanation
Indices: 2530793--2531106 Score: 421
Period size: 164 Copynumber: 1.9 Consensus size: 163
2530783 CGAGTTAGTG
* * * * *
2530793 GCACTTTTTAGTCCTCAAAGAGCAAAATGTCTTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCA
1 GCACCTTTTAGTCCTCAAAGAGCAAAATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGTGGCA
* * * **
2530858 CCTTTTAGTCCTCAAGGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCACCT
66 CATTTTAGTCCTCAAGAAACAGGACACCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCACCT
*
2530923 TTTAGTCCTTAAAGAGAAGGATGCATTTTTCTTA
131 TTTA-TCCTCAAAGAGAAGGATGCATTTTTCTTA
* ** *
2530957 GCACCTTTTAGTCCTTAAAGAGCAGGATGCCTTTTACTTTTTAAAGCTCACACGAGTTAGTGGCA
1 GCACCTTTTAGTCCTCAAAGAGCAAAATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGTGGCA
* * * ** *
2531022 CATTTTAGTCCTCAAGAAATAGGACACCTTTTTCTTTTTAAAGTCCACACGAGTTGGTGGTACCT
66 CATTTTAGTCCTCAAGAAACAGGACACCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCACCT
*
2531087 TTTATCCTCAAAGAGCAGGA
131 TTTATCCTCAAAGAGAAGGA
2531107 CACCTTTTTC
Statistics
Matches: 128, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
163 14 0.11
164 114 0.89
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (163 bp):
GCACCTTTTAGTCCTCAAAGAGCAAAATGCCTTTTACTTTTTAAAGCCCACACGAGTTAGTGGCA
CATTTTAGTCCTCAAGAAACAGGACACCTTTTCCTTTTTAAAGCCCACACGAGTTGGCAGCACCT
TTTATCCTCAAAGAGAAGGATGCATTTTTCTTA
Found at i:2531143 original size:123 final size:124
Alignment explanation
Indices: 2530957--2531244 Score: 380
Period size: 123 Copynumber: 2.3 Consensus size: 124
2530947 ATTTTTCTTA
* * * * * *
2530957 GCACCTTTTAGTCCTTAAAGAGCAGGATGCCTTTTACTTTTTAAAGCTCACACGAGTTAGTGGCA
1 GCACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCCTTTAAAAGCCCACACGAGTTAGTGGCA
* * *
2531022 CATTTTAGTCCTCAAGAAATAGGACACCTTTTTCTTTTTAAAGTCCACACGAGTTGGTG
66 CATTTTAGTCCTCAAGAAATAGGACACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
* * * *
2531081 GTACCTTTTA-TCCTCAAAGAGCAGGACACCTTTTTCCTTTAAAAGCCCACATGAGTTGGTGGCA
1 GCACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCCTTTAAAAGCCCACACGAGTTAGTGGCA
* * * **
2531145 CCTTTTAGTCCTCAAGGAGTAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
66 CATTTTAGTCCTCAAGAAATAGGACACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
* **
2531204 GCACCTTTTAGTCCTCAAAAAGCAGGATATTTTTTTCCTTT
1 GCACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCCTTT
2531245 TAGTCCTCAA
Statistics
Matches: 140, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
123 105 0.75
124 35 0.25
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (124 bp):
GCACCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCCTTTAAAAGCCCACACGAGTTAGTGGCA
CATTTTAGTCCTCAAGAAATAGGACACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
Found at i:2531254 original size:95 final size:95
Alignment explanation
Indices: 2531145--2531322 Score: 259
Period size: 95 Copynumber: 1.9 Consensus size: 95
2531135 GTTGGTGGCA
* * * *
2531145 CCTTTTAGTCCTCAAGGAGTAGGATGCCTTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACC
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTTAAAGCCCACACAAATTGGTGGCACC
2531209 TTTTAGTCCTCAAAAAGCAGGATATTTTTTT
65 TTTTAGTCCTCAAAAAGCAGGATATTTTTTT
* * * *
2531240 CCTTTTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTTAAAGCTCATACAAATTGGTGGCATCT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAATTGGTGGCACCT
*
2531305 TTTAGTCCTCAAAGAGCA
66 TTTAGTCCTCAAAAAGCA
2531323 TGATGCCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 6 0.08
95 67 0.92
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (95 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAATTGGTGGCACCT
TTTAGTCCTCAAAAAGCAGGATATTTTTTT
Found at i:2531270 original size:157 final size:155
Alignment explanation
Indices: 2531084--2531383 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 155
2531074 GTTGGTGGTA
** *
2531084 CCTTTTATCCTCAAAGAGCAGGACACCTTTTTCC-TTTAAAAGCCCACATGAGTTGGTGGCACCT
1 CCTTTTATCCTCAAAGAGCAGGACACC-TTTTCCTTTTAAAAGCCCACACAAATTGGTGGCACCT
* * *
2531148 TTTAGTCCTCAAGGAGTAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
65 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTT
2531213 AGTCCTCAAAAAGCAGGATATTTTTTT
129 AGTCCTCAAAAAGCAGGATATTTTTTT
* * * * * *
2531240 CCTTTTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTTAAAGCTCATACAAATTGGTGGCATCT
1 CCTTTTA-TCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAAGCCCACACAAATTGGTGGCACCT
* *
2531305 TTTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAACCCACACAGGTTGGTGGCACCTTTTA
65 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTTA
* *
2531370 GTCTTCAAAGAGCA
130 GTCCTCAAAAAGCA
2531384 AGACTCCTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
156 63 0.50
157 63 0.50
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (155 bp):
CCTTTTATCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAAGCCCACACAAATTGGTGGCACCTT
TTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAG
TCCTCAAAAAGCAGGATATTTTTTT
Found at i:2531370 original size:61 final size:61
Alignment explanation
Indices: 2531240--2531432 Score: 237
Period size: 62 Copynumber: 3.1 Consensus size: 61
2531230 ATATTTTTTT
* * * *
2531240 CCTTTTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTTAAAGCTCATACAAATTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2531302 TCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAACCCACACAGGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2531363 CCTTTTAGTCTTCAAAGAGCAAGACT-CCTTTT-CTATCTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCATGA-TGCCTTTTCCT-T-TTAAAGCCCACACAAGTTGGTGGCA
2531425 CCTATTTA
1 CCT-TTTA
2531433 CTTTAACCCT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
60 2 0.02
61 50 0.44
62 58 0.51
63 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2534135 original size:78 final size:78
Alignment explanation
Indices: 2533675--2534378 Score: 559
Period size: 78 Copynumber: 9.0 Consensus size: 78
2533665 AAAAAGCATC
* * * * *
2533675 AAATTTTTCCATCTTGAGGGATACTCCAACCTCATCAATTCCAAAGGGATACTCCAATCCCGTTT
1 AAATTTTT-CATCTTGA-GGATACTCCAACCCCATTATTTCC-GAGGGATACTCCAACCCCGTTT
2533740 TTATTTCCAAAATATT
63 TTATTTCCAAAATATT
* * * * * *
2533756 AAATGTTTC-TC--AAGGATACTCCAACCCCATTATTTTCGAAAGGATACTCCAGCCCCATTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCG-AGGGATACTCCAACCCCGTTTTT
2533818 ATTTTCCAAAATATT
65 A-TTTCCAAAATATT
* ** * * * ** *
2533833 AAATTCTTCATCGCGTGGATACTCCAACCCCATTATTTTCGAGGGGATACTGCAACCTTGCTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCGA-GGGATACTCCAACCCCGTTTTT
2533898 ATTTCCAAAATATT
65 ATTTCCAAAATATT
* * * * ** *** **
2533912 AAATGTTTCACCGTGAGGATACTTCAACCCTGTTATTTTTTAGGGGATA-TCCAACCCCACTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCGA-GGGATACTCCAACCCCGTTTTT
*
2533976 ATTTCCTAAATATT
65 ATTTCCAAAATATT
* * * * * * * *
2533990 AATTTTTTTATCTTAAGGATACTCCAACCTCGTTATTTCCAAGAGCATACTCCAACCCTGTTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCGAG-GGATACTCCAACCCCGTTTTT
*
2534055 ATTTCTAAAATATT
65 ATTTCCAAAATATT
* * * * *
2534069 AAATTTTTCATCTTGGGGATATTCCAACCCCATCCA-TTCCGAGGGATACTTCAACCCCGCTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCAT-TATTTCCGAGGGATACTCCAACCCCGTTTTT
**
2534133 ATTTCCAAAATGCT
65 ATTTCCAAAATATT
* * * * ** *
2534147 AAATTTTTCATCTCG-GGATACTCCAACCCTATCAATTCTTAGGGGATACTCCAACCCCATTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCGA-GGGATACTCCAACCCCGTTTTT
*
2534211 ATTTTCAAAATATT
65 ATTTCCAAAATATT
* * ** * * * *
2534225 AAA-TTTT--TCTTGGGGGTACTCCAACCCTGTTATTTTCGAAGTGATACTCTAGCCCCGTTTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCG-AGGGATACTCCAACCCCGTTTTT
2534287 ATTTCCAAAAATATT
65 ATTTCC-AAAATATT
* * ** * *
2534302 -GATTTTTCATCTTGGGGATACTTTAACCCCGTTATCTT-CGAAGGGATACTCCAA-CCCATTTT
1 AAATTTTTCATCTTGAGGATACTCCAACCCCATTAT-TTCCG-AGGGATACTCCAACCCCGTTTT
*
2534364 TATTTCAAAAATATT
64 TATTTCCAAAATATT
2534379 GAGGATACTC
Statistics
Matches: 500, Mismatches: 105, Indels: 40
0.78 0.16 0.06
Matches are distributed among these distances:
75 4 0.01
76 84 0.17
77 66 0.13
78 148 0.30
79 146 0.29
80 45 0.09
81 7 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (78 bp):
AAATTTTTCATCTTGAGGATACTCCAACCCCATTATTTCCGAGGGATACTCCAACCCCGTTTTTA
TTTCCAAAATATT
Found at i:2534222 original size:156 final size:154
Alignment explanation
Indices: 2533692--2534378 Score: 527
Period size: 157 Copynumber: 4.4 Consensus size: 154
2533682 TCCATCTTGA
* *
2533692 GGGATACTCCAA-CCTCATCAATTCCAAAGGGATACTCCAATCCCGTTTTTATTTCCAAAATATT
1 GGGATACTCCAACCCT-AT-AATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATT
* * * * *
2533756 AAATGTTTC-TC-AAGGATACTCCAACCCCATTATTTTCGAAAGGATACTCCAGCCCCATTTTTA
64 AAATGTTTCATCTGAGGATATTCCAACCCCATTATTTTCG-AGGGATACTCCAACCCCACTTTTA
* *
2533819 TTTTCCAAAATATTAAATTCTTCATCGC
128 -TTTCCAAAATATTAAATTTTTCATCTC
* * * * * ** *
2533847 GTGGATACTCCAACCCCATTATTTTCGAGGGGATACTGCAACCTTGCTTTTATTTCCAAAATATT
1 G-GGATACTCCAACCCTA-TAATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATT
* ** **
2533912 AAATGTTTCACCGTGAGGATACTT-CAACCCTGTTATTTTTTAGGGGATA-TCCAACCCCACTTT
64 AAATGTTTCATC-TGAGGATA-TTCCAACCCCATTATTTTCGA-GGGATACTCCAACCCCACTTT
* * * *
2533975 TATTTCCTAAATATTAATTTTTTTATCTTA
126 TATTTCCAAAATATTAAATTTTTCATC-TC
* * * * * *
2534005 AGGATACTCCAACCTCGT-TATTTCCAAGAGCATACTCCAACCCTGTTTTTATTTCTAAAATATT
1 GGGATACTCCAACC-C-TATAATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATT
* * * * * *
2534069 AAATTTTTCATCTTGGGGATATTCCAACCCCATCCA-TTCCGAGGGATACTTCAACCCCGCTTTT
64 AAATGTTTCATC-TGAGGATATTCCAACCCCAT-TATTTTCGAGGGATACTCCAACCCCACTTTT
**
2534133 ATTTCCAAAATGCTAAATTTTTCATCTC
127 ATTTCCAAAATATTAAATTTTTCATCTC
** * *
2534161 GGGATACTCCAACCCTATCAATTCTTAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATTA
1 GGGATACTCCAACCCTAT-AATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTA
* * * * ** * * * **
2534226 AATTTTTC-T-TGGGGGTACTCCAACCCTGTTATTTTCGAAGTGATACTCTAGCCCCGTTTTTAT
65 AATGTTTCATCTGAGGATATTCCAACCCCATTATTTTCG-AGGGATACTCCAACCCCACTTTTAT
* *
2534289 TTCCAAAAATATT-GATTTTTCATCTTG
129 TTCC-AAAATATTAAATTTTTCATC-TC
** * * * *
2534316 GGGATACTTTAACCCCGT-TATCTTCGAA-GGGATACTCCAA-CCCATTTTTATTTCAAAAATAT
1 GGGATACTCCAA-CCC-TATA-ATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATAT
2534378 T
63 T
2534379 GAGGATACTC
Statistics
Matches: 423, Mismatches: 86, Indels: 47
0.76 0.15 0.08
Matches are distributed among these distances:
152 1 0.00
153 20 0.05
154 56 0.13
155 34 0.08
156 132 0.31
157 138 0.33
158 17 0.04
159 24 0.06
160 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (154 bp):
GGGATACTCCAACCCTATAATTCCAAGGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAA
ATGTTTCATCTGAGGATATTCCAACCCCATTATTTTCGAGGGATACTCCAACCCCACTTTTATTT
CCAAAATATTAAATTTTTCATCTC
Found at i:2535242 original size:38 final size:38
Alignment explanation
Indices: 2535188--2535264 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
2535178 AAGTGGTCGA
* *
2535188 AAACTTGGGGTTGCCATCGATCATTTGGGT-TAGGTATG
1 AAACTTGGAGTCGCCATCGATCATTT-GGTCTAGGTATG
2535226 AAACTTGGAGTCGCCATCGATCATTTGGTCTAGGTATG
1 AAACTTGGAGTCGCCATCGATCATTTGGTCTAGGTATG
2535264 A
1 A
2535265 TCAGATACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (38 bp):
AAACTTGGAGTCGCCATCGATCATTTGGTCTAGGTATG
Found at i:2536083 original size:20 final size:20
Alignment explanation
Indices: 2536055--2536096 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2536045 ATTTTGGTTT
*
2536055 AAAACCTAAAAATGGATAAA
1 AAAAACTAAAAATGGATAAA
2536075 AAAAACTAAAAATGGATAAA
1 AAAAACTAAAAATGGATAAA
2536095 AA
1 AA
2536097 CCAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAAACTAAAAATGGATAAA
Found at i:2539351 original size:28 final size:30
Alignment explanation
Indices: 2539294--2539373 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 30
2539284 TTCAAAATAT
* *
2539294 ATATTAAAATATAATATATTAAATAATTT-
1 ATATTATAATATAATATAATAAATAATTTA
2539323 ATATT-TAATATAAT-TAATAAATAATTTTA
1 ATATTATAATATAATATAATAAATAA-TTTA
*
2539352 ATATTATAATTAAAATATAATA
1 ATATTATAA-TATAATATAATA
2539374 TATATAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 9 0.21
28 11 0.26
29 10 0.23
30 3 0.07
31 5 0.12
32 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
ATATTATAATATAATATAATAAATAATTTA
Found at i:2539378 original size:23 final size:23
Alignment explanation
Indices: 2539264--2539391 Score: 71
Period size: 24 Copynumber: 5.2 Consensus size: 23
2539254 AAATATTTAT
* *
2539264 AAATATAATACACATTATAATTCA
1 AAATATAATATATATTATAATT-A
* *
2539288 AAATAT-ATATTAAAATATAATATA
1 AAATATAATA-TATATTATAAT-TA
* * *
2539312 TTAAATAATTTATATTTAATATAATTA
1 --AAAT-A-TAATATATATTATAATTA
*
2539339 ATAA-ATAATTTTAATATTATAATTA
1 A-AATATAA-TAT-ATATTATAATTA
*
2539364 AAATATAATATATATAATAATTA
1 AAATATAATATATATTATAATTA
2539387 AAATA
1 AAATA
2539392 AATCATTGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
23 21 0.26
24 22 0.27
25 17 0.21
26 6 0.07
27 3 0.04
28 10 0.12
29 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATAATATATATTATAATTA
Found at i:2541964 original size:13 final size:13
Alignment explanation
Indices: 2541946--2541971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2541936 CAATTTTTTG
2541946 TGTATCGATACAT
1 TGTATCGATACAT
2541959 TGTATCGATACAT
1 TGTATCGATACAT
2541972 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2541968 original size:33 final size:33
Alignment explanation
Indices: 2541926--2541990 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2541916 TACAAGCCAA
* *
2541926 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2541959 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2541991 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2544567 original size:13 final size:13
Alignment explanation
Indices: 2544549--2544586 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2544539 ATAATCCCCC
2544549 TGTATCGATACAG
1 TGTATCGATACAG
* *
2544562 TGTATCGAGACAT
1 TGTATCGATACAG
2544575 TGTATCGATACA
1 TGTATCGATACA
2544587 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2544600 original size:20 final size:20
Alignment explanation
Indices: 2544575--2544651 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2544565 ATCGAGACAT
2544575 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
**
2544595 TGTATCGATACATTGAATTTCCAAA
1 TGTATCGATACAAAGAA-----AAA
*
2544620 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
2544640 TGTATCGATACA
1 TGTATCGATACA
2544652 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 29 0.63
25 17 0.37
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2550791 original size:13 final size:13
Alignment explanation
Indices: 2550773--2550798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2550763 CAATTTTTTG
2550773 TGTATCGATACAT
1 TGTATCGATACAT
2550786 TGTATCGATACAT
1 TGTATCGATACAT
2550799 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2552841 original size:154 final size:153
Alignment explanation
Indices: 2552694--2553164 Score: 344
Period size: 163 Copynumber: 3.0 Consensus size: 153
2552684 TGAAATAATT
* * *
2552694 TCAA-TTCTTCAAAACTAATTTAATAT-AAATTTAACGAGAATATTAGATAAATTTTAAAAATTT
1 TCAATTTCTTAAAAACTAATTTAATATGAAA-TAAACGAGAATATTAGATAAATTTTAAAAATTA
* * * * *
2552757 TAAATTGA-GAAAAATCCTCCAAAAAAAATTACGGAGTAAAAAACTACGTATTTCAAAAAT-AAG
65 AAAACT-ATGAAAAATCC-CC-AAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAG
2552820 AAAATTTCAAGGAAAAAATGAAAAATGAA
127 -AAATTTCAAGGAAAAAATGAAAAAT-AA
* * ** * * *
2552849 TGAATTTTTTAAAAACTAATTTAATATGAAATAAATTATAATATTTGATGAATTTTAAAAATTAA
1 TCAATTTCTTAAAAACTAATTTAATATGAAATAAACGAGAATATTAGATAAATTTTAAAAATTAA
** * * * *
2552914 AAACTATGAAAAATCCCCTCAAAATTTACAGAGCAAAAAACTCCATATTTCGAAAATAAAGGAAT
66 AAACTATGAAAAATCCCCAAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAGAAAT
2552979 TTCAAGGAAAAAATGAAAAATGAATGAAAA
131 TTCAAGGAAAAAATG--AAA--AAT---AA
* * * * ** ** * * *
2553009 TGAATGAATTTTTAAAAAATGATTTAATACAAAATAAATAATAATATTTGATGAATTTTAAAAAT
1 TCAAT---TTCTTAAAAACTAATTTAATATGAAATAAACGAGAATATTAGATAAATTTTAAAAAT
* * * * **
2553074 TAAAAACTAAGAAAAATCCCCTCGAAAAAATTTACAAAATGGAAAACTCTACAT-TTTC-AAAAT
63 TAAAAACTATGAAAAAT-CCC-C-AAAAAAATTAC-AGA-GCAAAAAACTACATATTTCAAAAAT
*
2553137 AGAA-AAATTTCAAGGAAAAAATGGAAAA
123 A-AAGAAATTTCAAGGAAAAAATGAAAAA
2553165 CTCATAAAAA
Statistics
Matches: 260, Mismatches: 37, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
154 49 0.19
155 9 0.03
156 62 0.24
157 3 0.01
158 3 0.01
160 7 0.03
162 2 0.01
163 68 0.26
164 5 0.02
165 1 0.00
166 33 0.13
167 8 0.03
168 10 0.04
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (153 bp):
TCAATTTCTTAAAAACTAATTTAATATGAAATAAACGAGAATATTAGATAAATTTTAAAAATTAA
AAACTATGAAAAATCCCCAAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAGAAAT
TTCAAGGAAAAAATGAAAAATAA
Found at i:2552903 original size:156 final size:156
Alignment explanation
Indices: 2552704--2553233 Score: 446
Period size: 166 Copynumber: 3.3 Consensus size: 156
2552694 TCAATTCTTC
* ** * * * ** *
2552704 AAAACTAATTTAATATAAATTTAACGAGAATATTAGATAAATTTTAAAAATTTTAAATTGAGAAA
1 AAAACTAATTTAATATAAA-TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACT-AGAAA
* * *
2552769 AATCCTCCAAAAAAAATTACGGAGTAAAAAACTACGTATTTCAAAAAT-AAGAAAATTTCAAGGA
64 AATCC-CC-AAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAG-AAATTTCAAGGA
2552833 AAAAATG-AAA-AATG-AATGAAT-TTTTTA
126 AAAAATGAAAAGAATGAAATGAATATTTTTA
*
2552860 AAAACTAATTTAATATGAAATAAATTATAATATTTGATGAATTTTAAAAATTAAAAACTATGAAA
1 AAAACTAATTTAATAT-AAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTA-GAAA
** * * * *
2552925 AATCCCCTCAAAATTTACAGAGCAAAAAACTCCATATTTCGAAAATAAAGGAATTTCAAGGAAAA
64 AATCCCCAAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAGAAATTTCAAGGAAAA
2552990 AATGAAAAATGAATGAAAATGAATGAATTTTTA
129 AATG-AAAA-GAATG-AAATGAAT--ATTTTTA
* * *
2553023 AAAAATGATTTAATACAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA
1 AAAACTAATTTAATA-TAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACT-AGAAA
* * * **
2553088 AATCCCCTCGAAAAAATTTACAAAATGGAAAACTCTACAT-TTTC-AAAATAGAA-AAATTTCAA
64 AAT-CCC-C-AAAAAAATTAC-AGA-GCAAAAAACTACATATTTCAAAAATA-AAGAAATTTCAA
** *
2553150 GGAAAAAATGGAAAACTCATAAAAATGAATGAATTTTTA
123 GGAAAAAAT-GAAAA-GAAT-GAAATGAAT--ATTTTTA
* * * * * *
2553189 AAAATTGATTTAATAAAAATTAAATTATAATATTTAAAGAATTTT
1 AAAACTAATTTAATATAAA-TAAATAATAATATTTGATGAATTTT
2553234 GATGTTTGAA
Statistics
Matches: 313, Mismatches: 38, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
154 49 0.16
155 6 0.02
156 58 0.19
157 3 0.01
158 4 0.01
160 7 0.02
163 67 0.21
164 4 0.01
165 5 0.02
166 91 0.29
167 9 0.03
168 10 0.03
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.30
Consensus pattern (156 bp):
AAAACTAATTTAATATAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAGAAAAA
TCCCCAAAAAAATTACAGAGCAAAAAACTACATATTTCAAAAATAAAGAAATTTCAAGGAAAAAA
TGAAAAGAATGAAATGAATATTTTTA
Found at i:2553059 original size:163 final size:163
Alignment explanation
Indices: 2552832--2553233 Score: 510
Period size: 166 Copynumber: 2.4 Consensus size: 163
2552822 AATTTCAAGG
* * *
2552832 AAAA-AATGAAAAATGAATGAATTTTTTAAAAACTAATTTAATATGAAATAAATTATAATATTTG
1 AAAATAATG-AAAATGAATGAA-TTTTTAAAAAATGATTTAATA-AAAATAAATTATAATATTTG
* * *
2552896 ATGAATTTTAAAAATTAAAAACTATGAAAAATCCCCTC-AAAATTTAC-AGA-GCAAAAAACTCC
63 ATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCAAAAATTTACAAAATGCAAAAAACTAC
*
2552958 ATATTTCGAAAATA-AAGGAATTTCAAGGAAAAAAT-GA
128 AT-TTTC-AAAATAGAA-AAATTTCAAGGAAAAAATGGA
*
2552995 AAAATGAATGAAAATGAATGAATTTTTAAAAAATGATTTAATACAAAATAAATAATAATATTTGA
1 AAAAT-AATGAAAATGAATGAATTTTTAAAAAATGATTTAATA-AAAATAAATTATAATATTTGA
* **
2553060 TGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCGAAAAAATTTACAAAATGGAAAACTCTA
64 TGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTC--AAAAATTTACAAAATGCAAAAAACTA
2553125 CATTTTCAAAATAGAAAAATTTCAAGGAAAAAATGGA
127 CATTTTCAAAATAGAAAAATTTCAAGGAAAAAATGGA
* * * * * *
2553162 AAACTCATAAAAATGAATGAATTTTTAAAAATTGATTTAATAAAAATTAAATTATAATATTTAAA
1 AAAATAATGAAAATGAATGAATTTTTAAAAAATGATTTAATAAAAA-TAAATTATAATATTTGAT
2553227 GAATTTT
65 GAATTTT
2553234 GATGTTTGAA
Statistics
Matches: 210, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
163 78 0.37
164 12 0.06
165 8 0.04
166 88 0.42
167 14 0.07
168 10 0.05
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (163 bp):
AAAATAATGAAAATGAATGAATTTTTAAAAAATGATTTAATAAAAATAAATTATAATATTTGATG
AATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCAAAAATTTACAAAATGCAAAAAACTACATT
TTCAAAATAGAAAAATTTCAAGGAAAAAATGGA
Found at i:2553658 original size:21 final size:22
Alignment explanation
Indices: 2553618--2553659 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2553608 TTTCTCATAT
*
2553618 TTTTCAAAAAATTCTCTAAAAA
1 TTTTCAAAAAATTATCTAAAAA
*
2553640 TTTTC-AAAAATTATTTAAAA
1 TTTTCAAAAAATTATCTAAAA
2553660 TACAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTCAAAAAATTATCTAAAAA
Found at i:2554330 original size:84 final size:86
Alignment explanation
Indices: 2554144--2554506 Score: 271
Period size: 84 Copynumber: 4.3 Consensus size: 86
2554134 TAGGCCGACG
* * * *
2554144 GGTAAACAATGAGAT-AGAGGTTGACTGGAGACTAAGCTGATAGGTCATGAAAAGGGTAAGGGGG
1 GGTAAACAATGAGATGA-AGGTTGACTGGAGACTAAGCTAATAAGTCACGAAAAGGGTAAGGAGG
** *
2554208 TTTACTAAGGACTGAGATGATA
65 TTTACTAAGGACTGAGACAACA
* * *
2554230 GGTAAACAATGAGATGAAGGTTGACTGGAGACTGAGCTAATAAGTCACCG-TAAGGGTAA-TAGG
1 GGTAAACAATGAGATGAAGGTTGACTGGAGACTAAGCTAATAAGTCA-CGAAAAGGGTAAGGAGG
* * *
2554293 -TTATTAGGGACTGAGCCAACA
65 TTTACTAAGGACTGAGACAACA
* ** * * * *
2554314 GGTAAACAATGAGATGAAGGTTGACCGGAGACTAAGCTAGCAGGTCAC-CAAAGGATAAGG-GAT
1 GGTAAACAATGAGATGAAGGTTGACTGGAGACTAAGCTAATAAGTCACGAAAAGGGTAAGGAGGT
*
2554377 TTACTAAGGACTGAG-CTGACA
66 TTACTAAGGACTGAGAC-AACA
* * * * * * * * *
2554398 AGTAAATAAAGAGATAAAGGTTGA-TCAGAGACTGAGCTAACAAGTTAAC-ATAAA-TGTAA-GA
1 GGTAAACAATGAGATGAAGGTTGACT-GGAGACTAAGCTAATAAG-TCACGA-AAAGGGTAAGGA
** * *
2554459 GGTTTACCGAGGACTGAGCCGACA
63 GGTTTACTAAGGACTGAGACAACA
* *
2554483 GGTAAATAATGAGATGAAAGTTGA
1 GGTAAACAATGAGATGAAGGTTGA
2554507 TCGAAGATTG
Statistics
Matches: 221, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
83 10 0.05
84 108 0.49
85 47 0.21
86 54 0.24
87 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (86 bp):
GGTAAACAATGAGATGAAGGTTGACTGGAGACTAAGCTAATAAGTCACGAAAAGGGTAAGGAGGT
TTACTAAGGACTGAGACAACA
Done.