Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 18 of 39
Found at i:2633020 original size:18 final size:18
Alignment explanation
Indices: 2632993--2633029 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2632983 AATTTATTTT
2632993 ATTATTAAAAAT-TTAAA
1 ATTATTAAAAATATTAAA
2633010 ATTATTTAAAAATATTAAA
1 ATTA-TTAAAAATATTAAA
2633029 A
1 A
2633030 AGTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATTAAAAATATTAAA
Found at i:2637637 original size:216 final size:217
Alignment explanation
Indices: 2637254--2637672 Score: 662
Period size: 216 Copynumber: 1.9 Consensus size: 217
2637244 GTTATACCCC
* * * *
2637254 TTAAGGGTAAAATCATAAAGTCAGTAATGAACTCCATCCTTGGGATTGACCATTTAACTCCTTGA
1 TTAAGGGTAAAATAATAAAGTCAGTAATAAACTCCATCCCTGGAATTGACCATTTAACTCCTTGA
* * * *
2637319 GAAGTTTCGAAGGTGACCATCTTCTCACCATTAACCACTGTAATCTGCCTCCGCTAACTTTGTTT
66 CAAGTTCCCAAGGTGACCATCTTCTCACCATTAACCACTGTAATCTGCCTCCGCTAACTTTGATT
* * *
2637384 GACCTTAAGCCCCAGATTCCATACCATATCGAAATCCAGGAAGTTATATGTACTTTCTCAATCCA
131 GACCTAAAGCCCCAGATTCCATACCATATCAAAATCCAGAAAGTTATATGTACTTTCTCAATCCA
2637449 CCAATATGTACATCACACTCCT
196 CCAATATGTACATCACACTCCT
2637471 TTAAGGGTAAAATAATAAAGTCAGTAATAAACTCCATCCCTGGAATTGACCATTTAACTCCTTGA
1 TTAAGGGTAAAATAATAAAGTCAGTAATAAACTCCATCCCTGGAATTGACCATTTAACTCCTTGA
* *
2637536 CAAGTTCCCAAGGTGA-CATCTTCTCACCATTAGCCACTGTAATCTGCCTCTGCTAACTTTGCAT
66 CAAGTTCCCAAGGTGACCATCTTCTCACCATTAACCACTGTAATCTGCCTCCGCTAACTTTG-AT
** * *
2637600 T-ACCTAAAGCCCCAGATTCTTTACCATATTAAAATCCAGAAAGTTATATGTACTTTCTGAATCC
130 TGACCTAAAGCCCCAGATTCCATACCATATCAAAATCCAGAAAGTTATATGTACTTTCTCAATCC
2637664 ACCAATATG
195 ACCAATATG
2637673 ATCAGTGGTT
Statistics
Matches: 184, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
216 108 0.59
217 76 0.41
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (217 bp):
TTAAGGGTAAAATAATAAAGTCAGTAATAAACTCCATCCCTGGAATTGACCATTTAACTCCTTGA
CAAGTTCCCAAGGTGACCATCTTCTCACCATTAACCACTGTAATCTGCCTCCGCTAACTTTGATT
GACCTAAAGCCCCAGATTCCATACCATATCAAAATCCAGAAAGTTATATGTACTTTCTCAATCCA
CCAATATGTACATCACACTCCT
Found at i:2642152 original size:15 final size:15
Alignment explanation
Indices: 2642112--2642153 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2642102 TGAAACTTAA
*
2642112 AATTTTGAAATTTAT
1 AATTTTGAAATTCAT
*
2642127 AATTTTTAAATTCAT
1 AATTTTGAAATTCAT
2642142 GAA-TTTGAAATT
1 -AATTTTGAAATT
2642154 TTTTCTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (15 bp):
AATTTTGAAATTCAT
Found at i:2642396 original size:2 final size:2
Alignment explanation
Indices: 2642389--2642413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2642379 CATCAAACAA
2642389 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2642414 CACGCAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2649065 original size:58 final size:58
Alignment explanation
Indices: 2648995--2649128 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 58
2648985 AAAACACAAA
* *
2648995 AAATGACCTAAATGACCCCAACATTCTTAAAA-TTACATGAAAAT-T-CTTAGATCATAG
1 AAATAACCTAAATGACCCCAACATTCATAAAATTTACAT--AAATGTCCTTAGATCATAG
* * * *
2649052 AAAGTAACTTAAATGAACCCAACATTCATAAAATTTGCATAAATGTCCTTAGATCATGG
1 AAA-TAACCTAAATGACCCCAACATTCATAAAATTTACATAAATGTCCTTAGATCATAG
*
2649111 AAATGACCTAAATGACCC
1 AAATAACCTAAATGACCC
2649129 TAAAATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 7 0.11
58 38 0.59
59 19 0.30
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (58 bp):
AAATAACCTAAATGACCCCAACATTCATAAAATTTACATAAATGTCCTTAGATCATAG
Found at i:2651407 original size:33 final size:33
Alignment explanation
Indices: 2651370--2651436 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2651360 TTCAACGATT
2651370 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2651403 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2651436 T
1 T
2651437 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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2651408 original size:13 final size:13
Alignment explanation
Indices: 2651390--2651414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2651380 CATAAAATGT
2651390 TGTATCGATACAA
1 TGTATCGATACAA
2651403 TGTATCGATACA
1 TGTATCGATACA
2651415 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:2651502 original size:13 final size:13
Alignment explanation
Indices: 2651484--2651508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2651474 ATTACTCACA
2651484 TGTATCGATACAT
1 TGTATCGATACAT
2651497 TGTATCGATACA
1 TGTATCGATACA
2651509 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:2651610 original size:52 final size:52
Alignment explanation
Indices: 2651517--2651644 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
2651507 CACTGATCTT
*
2651517 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
2651568 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
2651620 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2651645 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:2658917 original size:1 final size:1
Alignment explanation
Indices: 2658911--2658947 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
2658901 CCTACTCTTC
* *
2658911 AAAAAAAAAAAAAAACAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2658948 CCCCTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.95, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2658931 original size:16 final size:16
Alignment explanation
Indices: 2658910--2658940 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2658900 ACCTACTCTT
2658910 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
2658926 CAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAA
2658941 GAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:2658945 original size:14 final size:15
Alignment explanation
Indices: 2658912--2658947 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2658902 CTACTCTTCA
2658912 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
*
2658927 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAC
2658942 AAAAAA
1 AAAAAA
2658948 CCCCTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:2660000 original size:34 final size:33
Alignment explanation
Indices: 2659894--2660717 Score: 608
Period size: 34 Copynumber: 24.6 Consensus size: 33
2659884 TTTTTAAAGT
* * * *
2659894 CCACAACTCAGTGGCA-TTTTGTCTC--AAAGT
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
2659924 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* *
2659955 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
2659989 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2660017 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
* *
2660051 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2660085 CCACAACTTCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
2660113 CCACAATTCCATGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
* *
2660147 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
2660181 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTTTCTC-TTT--AAGC
2660219 CCACAACTCCGTGGCACTTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2660252 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGC
* *
2660287 CCACAACTCCGTGGCA-TCTTTCTCCCTTCCTAAAGCC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT--T-AAG-C
* * * **
2660324 CACACAAGTCGGTGGCAAC---CTTCT-TCAAAGC
1 C-CACAACTCCGTGGC-ACTTTTTTCTCTTTAAGC
*
2660355 CCACAACTCCGTGGCACTCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
2660388 CCACAATTACGTGGCACTCTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTT-TAAGC
* * * *
2660421 CCACAATTTCGTGGCACTCTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
2660455 CCACAACTCTGTGGCACCCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTCTC-TTT--AAGC
* **
2660492 CCACAACTCTGTGGCACACTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTT-TAAGC
2660525 CCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
2660559 CCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
2660593 CCACAACTTCGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
2660627 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGC
1 CCACAACTCCGTGGCA--CTTTTTTCTC-TTT-AAGC
* * *
2660664 CCACAACTCCGTGGCACTTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
2660697 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
2660718 CACCCTTTCT
Statistics
Matches: 664, Mismatches: 75, Indels: 106
0.79 0.09 0.13
Matches are distributed among these distances:
27 3 0.00
28 42 0.06
29 5 0.01
30 34 0.05
31 19 0.03
32 14 0.02
33 131 0.20
34 251 0.38
35 48 0.07
36 36 0.05
37 47 0.07
38 33 0.05
39 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:2660022 original size:62 final size:62
Alignment explanation
Indices: 2659947--2660073 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
2659937 GCATTTTTTC
2659947 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
*
2660009 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
2660071 TTT
1 TTT
2660074 CTGTTTAAAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (62 bp):
TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:2660073 original size:96 final size:97
Alignment explanation
Indices: 2659886--2660712 Score: 623
Period size: 96 Copynumber: 8.2 Consensus size: 97
2659876 CAAATACCTT
* * ** * * * *
2659886 TTTAAAGTCCACAACTCAGTGGCA-TTTTGTCTCAAAGTCCACGACTCAGTGGCA-TTTTTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACCCTTCT-TCAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
2659948 TTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
65 TTTAAGCCCACAACTCCGTGGCACCTTTTTC-TC
* *
2659982 TTT-AAGTCCACAACTCCGTGGCACCCTT-TT-AAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACCCTTCTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
* *
2660044 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTG
65 TTTAAGCCCACAACTCCGTGGCACCTTTTTCTC
* * *
2660077 TTTAAAGCCCACAACTTCGTGGCACCCTT-TT-AAAGCCCACAATTCCATGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACCCTTCTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
* *
2660140 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTG
65 TTTAAGCCCACAACTCCGTGGCACCTTTTTCTC
*
2660173 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 TTTAAAGCCCACAACTCCGTGGCAC-C---CTT--C--TTCAAAGCCCACAACTCCGTGGCACTT
*
2660238 TTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
58 TTTTCTCTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTC
* * * * * *
2660279 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-
1 TTTAAAGCCCACAACTCCGTGGCA-C--CCT-TCTT-C-AAAG-CC-CACAACTCCGTGGC-ACT
* **
2660343 --CTTCT-TCAAAGCCCACAACTCCGTGGCA-CTCTTTTC-C
57 TTTTTCTCTTTAAGCCCACAACTCCGTGGCACCT-TTTTCTC
* * * * * * *
2660380 TTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGCCCACAATTTCGTGGCACTCTTTTC
1 TTTAAAGCCCACAACTCCGTGGCAC-C-CTT-CTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
* * *
2660445 TTTTTAAAGCCCACAACTCTGTGGCACCCTTTTTCCC
63 TCTTT-AAGCCCACAACTCCGTGGCA-CCTTTTTCTC
* * *
2660482 TTTTCAAAGCCCACAACTCTGTGGCACACTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTT
1 -TTT-AAAGCCCACAACTCCGTGGCAC-C-CTT-CTTCAAAGCCCACAACTCCGTGGCACT-TTT
*
2660547 TTC-CTTCTAAGCCCACAACTCTGTGGCACTCTTTTTC-C
60 TTCTCTT-TAAGCCCACAACTCCGTGGCAC-CTTTTTCTC
* * *
2660585 TTCT-AAGCCCACAACTTCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTT
1 TT-TAAAGCCCACAACTCCGTGGCAC-C--CTT-CTTCAAAGCCCACAACTCCGTGGCA--CTTT
*
2660649 TTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTGTTCT-
59 TTTCTC-TTT-AAGCCCACAACTCCGTGGCACCTTT-TTCTC
* * *
2660689 TTTTAAGTCCACAACTTCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCA
2660713 TCTTTCACCC
Statistics
Matches: 620, Mismatches: 60, Indels: 94
0.80 0.08 0.12
Matches are distributed among these distances:
93 17 0.03
94 8 0.01
95 27 0.04
96 156 0.25
97 3 0.00
98 7 0.01
99 3 0.00
100 26 0.04
101 48 0.08
102 42 0.07
103 38 0.06
104 120 0.19
105 53 0.09
106 68 0.11
107 3 0.00
108 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (97 bp):
TTTAAAGCCCACAACTCCGTGGCACCCTTCTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTCT
TTAAGCCCACAACTCCGTGGCACCTTTTTCTC
Found at i:2660826 original size:49 final size:49
Alignment explanation
Indices: 2660758--2661479 Score: 865
Period size: 49 Copynumber: 14.8 Consensus size: 49
2660748 GCAACCCTTC
* * *
2660758 TAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2660807 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2660856 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * * *
2660905 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACTTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2660954 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
2661003 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2661052 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2661101 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2661150 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
2661199 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2661242 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
2661291 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2661334 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * ** *
2661386 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
2661441 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
2661480 TCTTTATCAC
Statistics
Matches: 572, Mismatches: 80, Indels: 36
0.83 0.12 0.05
Matches are distributed among these distances:
43 78 0.14
45 2 0.00
47 1 0.00
49 415 0.73
50 1 0.00
52 37 0.06
53 1 0.00
55 36 0.06
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2660932 original size:98 final size:98
Alignment explanation
Indices: 2660753--2661483 Score: 1054
Period size: 98 Copynumber: 7.5 Consensus size: 98
2660743 CGGTGGCAAC
* * * * *
2660753 CCTTCTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
2660818 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
2660852 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
* *
2660917 AGCTGGCCTTGACTCAACACATTGGCACTTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
2660950 CCATTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
2661015 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
2661048 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
2661113 AGCTGGCCTTGACTCAACACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
2661146 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
2661211 AGCTGGCCTTGACTCAGCACATTGG------CA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
2661238 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
2661303 AGCTGGCCTTGAATCAGCACATTGG------CA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
2661330 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAA
* * *
2661395 TGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCA
63 TGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCA
* * * * *
2661437 TCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2661484 TATCACTTTT
Statistics
Matches: 589, Mismatches: 28, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
92 132 0.22
94 5 0.01
95 40 0.07
98 366 0.62
99 4 0.01
105 5 0.01
107 37 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (98 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:2661267 original size:92 final size:92
Alignment explanation
Indices: 2661147--2661417 Score: 479
Period size: 92 Copynumber: 2.9 Consensus size: 92
2661137 GCACCTTCAT
2661147 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
2661212 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
2661239 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
2661304 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
2661331 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
2661396 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
2661418 GTTGACATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2661466 original size:55 final size:55
Alignment explanation
Indices: 2661331--2661706 Score: 302
Period size: 55 Copynumber: 6.7 Consensus size: 55
2661321 ACATTGGCAC
* *
2661331 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
2661383 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
2661438 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
2661502 CATTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C-TT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
2661553 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * * * * *
2661608 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATC-CT-T---TTTCTCAT
*
2661668 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
2661707 GCACCTTCAT
Statistics
Matches: 254, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
49 34 0.13
50 3 0.01
51 5 0.02
52 37 0.15
53 1 0.00
54 7 0.03
55 69 0.27
56 2 0.01
57 2 0.01
58 2 0.01
60 42 0.17
61 3 0.01
62 5 0.02
63 3 0.01
64 5 0.02
65 3 0.01
66 31 0.12
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:2661532 original size:66 final size:62
Alignment explanation
Indices: 2661427--2661549 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 62
2661417 CGTTGACATC
*
2661427 CTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA
1 CTTTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCATCTTTATCA
* * *
2661489 CTTTTCTCATCATCATTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CTTTT-TC-TCATC-TT-TAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCATCTT
2661550 CATCTTTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 5 0.09
63 2 0.04
64 5 0.09
65 2 0.04
66 39 0.74
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.38
Consensus pattern (62 bp):
CTTTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCATCTTTATCA
Found at i:2661620 original size:170 final size:164
Alignment explanation
Indices: 2661331--2661717 Score: 648
Period size: 170 Copynumber: 2.3 Consensus size: 164
2661321 ACATTGGCAC
*
2661331 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
2661396 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
2661461 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
128 ATGAATCAACATATTGGCATCTTTATCAC-TTT-T--TCAT
*
2661502 CATTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATG
1 C-TT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATG
*
2661567 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
64 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
2661632 TGAATCAACATATTGGCATCTTTATCACTTTTTCAT
129 TGAATCAACATATTGGCATCTTTATCACTTTTTCAT
* *
2661668 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
2661718 ATCTCTAAAA
Statistics
Matches: 209, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
164 45 0.22
165 2 0.01
166 5 0.02
168 1 0.00
169 3 0.01
170 109 0.52
171 6 0.03
172 2 0.01
173 36 0.17
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (164 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTTCAT
Found at i:2661670 original size:60 final size:61
Alignment explanation
Indices: 2661599--2661718 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
2661589 TTGACATCCT
* * * *
2661599 TTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
* * * *
2661660 TTTT-TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCA
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCA
2661719 TCTCTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 47 0.92
61 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
Found at i:2662543 original size:33 final size:33
Alignment explanation
Indices: 2662506--2662572 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2662496 TTCAACGATT
2662506 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2662539 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2662572 T
1 T
2662573 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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2662544 original size:13 final size:13
Alignment explanation
Indices: 2662526--2662550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2662516 CATAAAATGT
2662526 TGTATCGATACAA
1 TGTATCGATACAA
2662539 TGTATCGATACA
1 TGTATCGATACA
2662551 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:2662638 original size:13 final size:13
Alignment explanation
Indices: 2662620--2662644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2662610 ATTACTCACA
2662620 TGTATCGATACAT
1 TGTATCGATACAT
2662633 TGTATCGATACA
1 TGTATCGATACA
2662645 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:2662746 original size:52 final size:52
Alignment explanation
Indices: 2662653--2662780 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
2662643 CACTGATCTT
*
2662653 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
2662704 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
2662756 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2662781 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:2667051 original size:163 final size:164
Alignment explanation
Indices: 2666780--2667108 Score: 545
Period size: 163 Copynumber: 2.0 Consensus size: 164
2666770 AAATTTTGAG
*
2666780 TTTTTTTTGTAAAATTTGAAAAGTTGACCATCGTGTATTTATGCCAATATGCACTAAAAAAATAA
1 TTTTTTTTGTAAAATTTGAAAAGTTGACCATCGTGAATTTATGCCAATATGCACTAAAAAAATAA
*
2666845 AAAATATTTAAAAAAATCTATATTAGCATTTTATATCATGAGGTATCAAACTGTCAAATTTATCA
66 AAAATAATTAAAAAAATCTATATTAGCATTTTATATCATGAGGTATCAAACTGTCAAATTTATCA
* *
2666910 ATTAATTTTGAAATTTTTAATGTATCATAAATTC
131 ATTAATTTTAAAATTTTCAATGTATCATAAATTC
* *
2666944 TTTTTTTTGTAAAATTTGAAAAGTTGACCATCGTAGAATTTATGCTAATATGCACT-AAAAAGTA
1 TTTTTTTTGTAAAATTTGAAAAGTTGACCATCGT-GAATTTATGCCAATATGCACTAAAAAAATA
* *
2667008 AAAAA-AATTCAAAAAATCTATATTAGCATTTTATATCATGAGGTATTAAACTGTCAAATTTATC
65 AAAAATAATTAAAAAAATCTATATTAGCATTTTATATCATGAGGTATCAAACTGTCAAATTTATC
* *
2667072 AATTAATTTTAAAATTTTCATTGTATCGTAAATTC
130 AATTAATTTTAAAATTTTCAATGTATCATAAATTC
2667107 TT
1 TT
2667109 ACTTACAAAA
Statistics
Matches: 154, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
163 89 0.58
164 46 0.30
165 19 0.12
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (164 bp):
TTTTTTTTGTAAAATTTGAAAAGTTGACCATCGTGAATTTATGCCAATATGCACTAAAAAAATAA
AAAATAATTAAAAAAATCTATATTAGCATTTTATATCATGAGGTATCAAACTGTCAAATTTATCA
ATTAATTTTAAAATTTTCAATGTATCATAAATTC
Found at i:2667335 original size:22 final size:19
Alignment explanation
Indices: 2667298--2667339 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
2667288 TTTTTCAAAT
2667298 TTAAAATTTTTAAAATTCA
1 TTAAAATTTTTAAAATTCA
2667317 TTAAATATTTTTATTAAATTCA
1 TTAAA-ATTTTTA--AAATTCA
2667339 T
1 T
2667340 GTTAAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTTAAAATTCA
Found at i:2669521 original size:150 final size:150
Alignment explanation
Indices: 2669234--2669517 Score: 324
Period size: 150 Copynumber: 1.9 Consensus size: 150
2669224 TGGAATAGGT
* * *
2669234 TCACCCTTTTATAGTCATTTTGAGTCTTTTAGGGTTACTAAGATATTTTCATATCGAAGGTATAC
1 TCACCCTTTTATAGTCATTTTGAATCCTTTAGGGTTACTAAGATATTTTCATATCGAAGATATAC
* * * ** * * * *
2669299 CCCAAAGGCATTTTCGTATTTTTTTTTAACAAAGTCTAATATAGTCACTAGATGTTTTTATGCCA
66 CCCAAAGGCATTTTCATATCTTCTTAAAACAAAGTCTAACATAGTCACAAGAAGATTTTATGCCA
2669364 AAGATGTAAATAAGATGTGA
131 AAGATGTAAATAAGATGTGA
* *
2669384 TCACCCTTTT-T-GATCATTTTTGAATCCTTTAGGGTTACTAAGATACTTTT-ATGTTGAAGATA
1 TCACCCTTTTATAG-TCA-TTTTGAATCCTTTAGGGTTACTAAGATA-TTTTCATATCGAAGATA
* * * *
2669446 TAGCCCAAATGCATTTTTATAATCTTCTTAAAACTGAA-TCTAACATAGTCACCAAGAAGATTTT
63 TACCCCAAAGGCATTTTCAT-ATCTTCTTAAAAC-AAAGTCTAACATAGTCA-CAAGAAGATTTT
2669510 ATGCCAAA
125 ATGCCAAA
2669518 TGTATATATT
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
148 1 0.01
149 4 0.04
150 61 0.55
151 25 0.23
152 19 0.17
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (150 bp):
TCACCCTTTTATAGTCATTTTGAATCCTTTAGGGTTACTAAGATATTTTCATATCGAAGATATAC
CCCAAAGGCATTTTCATATCTTCTTAAAACAAAGTCTAACATAGTCACAAGAAGATTTTATGCCA
AAGATGTAAATAAGATGTGA
Found at i:2671433 original size:80 final size:79
Alignment explanation
Indices: 2671331--2671533 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
2671321 AATAACAGGG
* * * * *
2671331 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
2671394 GAAAAAAAAAATCGGGA
64 G-AAAAAAAAACCGGGA
* * *
2671411 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * *
2671476 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* * *
2671490 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2671534 GAAATAACGA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 56 0.54
80 48 0.46
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCGGGA
Found at i:2671525 original size:28 final size:28
Alignment explanation
Indices: 2671485--2671556 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2671475 GGAATAAAGC
** *
2671485 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2671513 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2671541 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2671557 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2671601 original size:159 final size:159
Alignment explanation
Indices: 2671438--2671782 Score: 469
Period size: 160 Copynumber: 2.2 Consensus size: 159
2671428 AAATAACGGG
* * ** * * **
2671438 GTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTAT-AGAAATCAACATTTTGAAAATAAAACCAGAATTGGAGTATCCCC
* *
2671503 TCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAA
65 TCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGTGAA
2671568 -AAATTGGT-ATTTTTGGAAATAAAATCGGA
129 GAAATTGGTGATTTTTGGAAATAAAATCGGA
* ***
2671597 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCATTTTGAAAATAAAACCAGAATTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATA-G-AAATCAACATTTTGAAAATAAAACCAGAATTGGAGTATCCC
* * *
2671662 CTCGGAAATAACGGGGTTTGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAA
64 CTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGAA
*
2671727 GAAATTGGTGTTTTTTGGAAATAAAATCGGA
129 GAAATTGGTGATTTTTGGAAATAAAATCGGA
*
2671758 GTTAGAGTATCCCCGATTATAGAAA
1 GTTGGAGTATCCCCGATTATAGAAA
2671783 ATTAGTGTTT
Statistics
Matches: 162, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
158 1 0.01
159 51 0.31
160 71 0.44
161 39 0.24
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (159 bp):
GTTGGAGTATCCCCGATTATAGAAATCAACATTTTGAAAATAAAACCAGAATTGGAGTATCCCCT
CGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGAAGA
AATTGGTGATTTTTGGAAATAAAATCGGA
Found at i:2671614 original size:52 final size:51
Alignment explanation
Indices: 2671545--2671826 Score: 171
Period size: 52 Copynumber: 5.4 Consensus size: 51
2671535 AAATAACGAG
*
2671545 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTA-TTTTGGAAATAAAATCGGA
** * * * * *
2671597 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCATTTTGAAAATAAAACCAGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTGGAAATAAAATCGGA
* * **** * * *
2671649 ATTGGAGTATCCCC--TCG-GAAATAACGGGGTTTGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA------TTG-GTATTTTGGA-AATAAAATCGGA
*
2671704 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTGGAAATAAAATCGGA
* * * * *
2671758 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTGGAAATAAAATCGGA
*
2671809 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
2671827 ATGGAGAATT
Statistics
Matches: 172, Mismatches: 40, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 1 0.01
51 36 0.21
52 50 0.29
53 24 0.14
54 22 0.13
55 18 0.10
56 6 0.03
57 4 0.02
58 5 0.03
59 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAATCGGA
Found at i:2671677 original size:160 final size:160
Alignment explanation
Indices: 2671490--2671822 Score: 499
Period size: 160 Copynumber: 2.1 Consensus size: 160
2671480 AAAGCCGGGG
*
2671490 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTAT
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTAT
* *
2671555 CCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA
65 CCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA
*
2671618 GGAAAATTGGCATTTTGAAAATAAAACCAGAA
130 -GAAAATTAGCATTTTGAAAATAAAACCAGAA
* * *
2671650 TTGGAGTATCCCCTCGGAAATAACGGGGTTTGAGTATCCCCGATGATTAACGGGGTTGGAGTATC
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATC
* *
2671715 CCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAG
66 CCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAG
** * * *
2671780 AAAATTAGTGTTTTGAAAATAAAATCGGAG
131 AAAATTAGCATTTTGAAAATAAAACCAGAA
*
2671810 TTGGAATATCCCC
1 TTGGAGTATCCCC
2671823 GATTATGGAG
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
159 29 0.19
160 88 0.56
161 39 0.25
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (160 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATC
CCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAG
AAAATTAGCATTTTGAAAATAAAACCAGAA
Found at i:2671686 original size:28 final size:27
Alignment explanation
Indices: 2671650--2671719 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
2671640 AAAACCAGAA
**
2671650 TTGGAGTATCCCCTCGGAAATAACGGGG
1 TTGGAGTATCCCCGAGG-AATAACGGGG
* * *
2671678 TTTGAGTATCCCCGATGATTAACGGGG
1 TTGGAGTATCCCCGAGGAATAACGGGG
2671705 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
2671720 TTGTGAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (27 bp):
TTGGAGTATCCCCGAGGAATAACGGGG
Found at i:2671804 original size:51 final size:53
Alignment explanation
Indices: 2671708--2671834 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 53
2671698 AACGGGGTTG
* * *
2671708 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
2671762 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
2671813 GAATATCCCCGATTATGGAGAA
1 GAGTATCCCCGATTATGAAGAA
2671835 TTGATAAACT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
51 36 0.55
52 4 0.06
53 10 0.15
54 15 0.23
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:2674210 original size:13 final size:13
Alignment explanation
Indices: 2674192--2674217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2674182 ACAAAGATCC
2674192 ATGTATCGATACA
1 ATGTATCGATACA
2674205 ATGTATCGATACA
1 ATGTATCGATACA
2674218 CAGAAAAATC
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:2674232 original size:33 final size:33
Alignment explanation
Indices: 2674171--2674237 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2674161 AAAATTTCCA
*** *
2674171 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATCTATCGATAC
*
2674204 AATGTATCGATACACAGAAAAATCTATCGATAC
1 AATGTATCGATACAAAGAAAAATCTATCGATAC
2674237 A
1 A
2674238 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATCTATCGATAC
Found at i:2674281 original size:19 final size:18
Alignment explanation
Indices: 2674257--2674324 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2674247 CAGTAGCTAA
2674257 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2674276 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2674291 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2674308 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2674325 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2674297 original size:13 final size:13
Alignment explanation
Indices: 2674279--2674303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2674269 ACAATACTTA
2674279 TGTATCGATACAT
1 TGTATCGATACAT
2674292 TGTATCGATACA
1 TGTATCGATACA
2674304 AAACTTATGT
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:2674301 original size:32 final size:32
Alignment explanation
Indices: 2674260--2674322 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2674250 TAGCTAATTA
*
2674260 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2674292 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2674323 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2674404 original size:21 final size:21
Alignment explanation
Indices: 2674380--2674436 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2674370 CATTTGTAGG
2674380 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
* *
2674401 ATGTATTGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2674422 ATGTATCGATACATT
1 ATGTATCGATACATT
2674437 TGGATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2677809 original size:419 final size:419
Alignment explanation
Indices: 2677030--2678290 Score: 2333
Period size: 419 Copynumber: 3.0 Consensus size: 419
2677020 AATTAAGATA
* *
2677030 TTCAAGATATTTTCAGATAATCTTTTTTTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
1 TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
* * *
2677095 AGTGATAAATAGCCTTTTTTTCATCACCTATTCATAGAATAGAAAATTCGTCCATTTACTAACCC
66 AGTGATAAATAGCC-ATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCC
* * * *
2677160 TTTTGATCCAAAAAGAATTATTATTACTTTTTTTACTTCCTAATCGAGGATCACACTTCATATTG
130 ATTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTG
* * *
2677225 GAAGATGTGAAAAAAAATAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCT
195 GAGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCT
2677290 GACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGCAAGAAA
260 GACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGCAAGAAA
2677355 AAAAAGAAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTAG
325 AAAAAGAAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTAG
2677420 AAAAGACAAAACCCTCAGGAAATAAAACTG
390 AAAAGACAAAACCCTCAGGAAATAAAACTG
2677450 TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
1 TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
2677515 AGTGATAAATAGCCATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCCA
66 AGTGATAAATAGCCATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCCA
2677580 TTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTGG
131 TTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTGG
2677645 AGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCTG
196 AGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCTG
*
2677710 ACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGTAAGAAAA
261 ACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGCAAGAAAA
2677775 AAAAGAAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTAGA
326 AAAAGAAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTAGA
2677840 AAAGACAAAACCCTCAGGAAATAAAACTG
391 AAAGACAAAACCCTCAGGAAATAAAACTG
2677869 TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
1 TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
2677934 AGTGATAAATAGCCATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCCA
66 AGTGATAAATAGCCATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCCA
2677999 TTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTGG
131 TTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTGG
*
2678064 AGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGCAACTATTCAACATTTCACAAAAAATGCCTG
196 AGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCTG
* *
2678129 ACATTCTAAGCAAATACAAAATGAATTAAGTTTTTGAAATTTCCTCTAAATAAAAAGCAAGAAAA
261 ACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGCAAG-AAA
* *
2678194 AAAAAGAAAAAACATGAAGTAAAAAGAAAAAGTGTTGGTAGTAAGAAAAAAGAAAAAGCTAAGTA
325 AAAAAG-AAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTA
2678259 GAAAAGACAAAACCCTCAGGAAATAAAACTG
389 GAAAAGACAAAACCCTCAGGAAATAAAACTG
2678290 T
1 T
2678291 CCATGATTTA
Statistics
Matches: 820, Mismatches: 19, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
419 646 0.79
420 86 0.10
421 88 0.11
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (419 bp):
TTCAAGATATTTTCAGATGATCTTTTTCTGAAAAATAACTTTTTAGGTCATGTAGTCATGTTTAA
AGTGATAAATAGCCATTTTTCATCACCTATTCATAAAATAGAAAATTCATCCATTTACTAACCCA
TTTGATCCAGAAAGAATTATTATTACTTTTTCTACCTCCTAATCGAGGATCACACTTCATATTGG
AGGACGTGAAAAAAATTAGAGAAAAAGTGAGGGGTAACTATTCAACATTTCACAAAAAATGCCTG
ACATTCTAAGCAAATACAAAATGAATTAAGTTTTCGAAATTTCTTCTAAATAAAAAGCAAGAAAA
AAAAGAAAAACATGAAATAAAAAGAAAAAGTGTTGGTAGTAAGAAAAATGAAAAAGCTAAGTAGA
AAAGACAAAACCCTCAGGAAATAAAACTG
Found at i:2680523 original size:40 final size:39
Alignment explanation
Indices: 2680478--2680992 Score: 233
Period size: 40 Copynumber: 12.9 Consensus size: 39
2680468 CCCTTAAACT
**
2680478 TGTTGA-TTAATAGGTTTTGTCTTGGTCAACCCTTTTTATC
1 TGTTGACTT-ATAGGTTTTGTCTTAATCAA-CCTTTTTATC
* * * *
2680518 TGTTGACTTGTAGGTTTTGCCCTAATCAACCTTTTTCATT
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTT-ATC
* * * * * *
2680558 TGTTGACTTGTAAGTTTTATCTCAGTTAACCTTTTTCATC
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTT-ATC
* * * * *
2680598 TATTGATTTATAAGTTTTGTCCTAATCAACCTTTTTCATT
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTT-ATC
* * * ** * *
2680638 TATTAACTTGTAGGTTTTGTCTCGATCAACCCTTTTCATT
1 TGTTGACTTATAGGTTTTGTCTTAATCAA-CCTTTTTATC
* * *** * *
2680678 TGATGACTTGTAGGTTTTGTCTCGCTCAGCCCTTTTCATC
1 TGTTGACTTATAGGTTTTGTCTTAATCA-ACCTTTTTATC
* * ** * *
2680718 TGTTGACTTAAAGGTTTTCTCTTGGTCAAACCATTTTATT
1 TGTTGACTTATAGGTTTTGTCTTAATC-AACCTTTTTATC
* * * * *
2680758 TGTTAACTTATAGGTTTTATCCTAGTCAACCTTTTTGGTC
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTT-ATC
* * **
2680798 TGTTGACTTGTAGGTTTTTTCCCAATCAACCCTTTTTATC
1 TGTTGACTTATAGGTTTTGTCTTAATCAA-CCTTTTTATC
* * * * * * *
2680838 TATTAATTTATAGGTTTCGTCTCAATTAACCTTTCTTATA
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTT-TTATC
* * * * ** ** * * * * *
2680878 TGTTAAGTTGTATGTTTAATCTCGATCATCCCTGTAAAC
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTTATC
** * *
2680917 TTGTTGACTTATAGGTTTTGTCCCAATCAA-CTTTCTCATT
1 -TGTTGACTTATAGGTTTTGTCTTAATCAACCTTT-TTATC
* * * *
2680957 TGTTGACTTGTAGATTTTGTCTCAATCAACCCTTTT
1 TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTT
2680993 CATCCATTAA
Statistics
Matches: 361, Mismatches: 103, Indels: 23
0.74 0.21 0.05
Matches are distributed among these distances:
39 51 0.14
40 294 0.81
41 16 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (39 bp):
TGTTGACTTATAGGTTTTGTCTTAATCAACCTTTTTATC
Found at i:2680674 original size:80 final size:80
Alignment explanation
Indices: 2680488--2681014 Score: 377
Period size: 80 Copynumber: 6.6 Consensus size: 80
2680478 TGTTGATTAA
* * * * * *
2680488 TAGGTTTTGTCTTGGTCAACCCTTTTTATCTGTTGACTTGTAGGTTTTGCCCTAATCAACCTTTT
1 TAGGTTTTGTCTCGATCAACCCTTTTCATCTATTGACTTATAGGTTTTGTCCTAATCAACCTTTT
2680553 TCATTTGTTGACTTG
66 TCATTTGTTGACTTG
* * * * * *
2680568 TAAGTTTTATCTC-AGTTAACCTTTTTCATCTATTGATTTATAAGTTTTGTCCTAATCAACCTTT
1 TAGGTTTTGTCTCGA-TCAACCCTTTTCATCTATTGACTTATAGGTTTTGTCCTAATCAACCTTT
* *
2680632 TTCATTTATTAACTTG
65 TTCATTTGTTGACTTG
* * ** * *
2680648 TAGGTTTTGTCTCGATCAACCCTTTTCATTTGA-TGACTTGTAGGTTTTGT-CTCGCTCAGCCCT
1 TAGGTTTTGTCTCGATCAACCCTTTTCATCT-ATTGACTTATAGGTTTTGTCCT-AATCAACCTT
* *
2680711 TTTCATCTGTTGACTTA
64 TTTCATTTGTTGACTTG
* * * * * * * * * *
2680728 AAGGTTTTCTCTTGGTCAAACCATTTT-ATTTGTTAACTTATAGGTTTTATCCTAGTCAACCTTT
1 TAGGTTTTGTCTCGATC-AACCCTTTTCATCTATTGACTTATAGGTTTTGTCCTAATCAACCTTT
** *
2680792 TTGGTCTGTTGACTTG
65 TTCATTTGTTGACTTG
* * * * * * * *
2680808 TAGGTTTTTTCCCAATCAACCCTTTTTATCTATTAATTTATAGGTTTCGT-CTCAATTAACCTTT
1 TAGGTTTTGTCTCGATCAACCCTTTTCATCTATTGACTTATAGGTTTTGTCCT-AATCAACCTTT
* * *
2680872 CTT-ATATGTTAAGTTG
65 -TTCATTTGTTGACTTG
* ** * * * * * *
2680888 TATGTTTAATCTCGATCATCCC-TGTAAACTTGTTGACTTATAGGTTTTGTCCCAATCAA-CTTT
1 TAGGTTTTGTCTCGATCAACCCTTTTCATC-TATTGACTTATAGGTTTTGTCCTAATCAACCTTT
*
2680951 CTCATTTGTTGACTTG
65 TTCATTTGTTGACTTG
* * * * *
2680967 TAGATTTTGTCTCAATCAACCCTTTTCATCCATTAACTCATATGGTTT
1 TAGGTTTTGTCTCGATCAACCCTTTTCATCTATTGACTTATA-GGTTT
2681015 CATCACAGTC
Statistics
Matches: 336, Mismatches: 96, Indels: 30
0.73 0.21 0.06
Matches are distributed among these distances:
78 1 0.00
79 54 0.16
80 266 0.79
81 15 0.04
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (80 bp):
TAGGTTTTGTCTCGATCAACCCTTTTCATCTATTGACTTATAGGTTTTGTCCTAATCAACCTTTT
TCATTTGTTGACTTG
Found at i:2680695 original size:120 final size:118
Alignment explanation
Indices: 2680480--2680894 Score: 325
Period size: 120 Copynumber: 3.5 Consensus size: 118
2680470 CTTAAACTTG
* * * ** * * * *
2680480 TTGATTAATAGGTTTTGTCTTGGTCAACCCTTTTTATCTGTTGACTTGTAGGTTTTGCCCTAATC
1 TTGATTTATAAGTTTTGTCCTAATCAA-CCTTTTTATTTATTAACTTGTAGGTTTTGTCC-AATC
* *
2680545 AACCTTTTTCATTTGTTGACTTGTAAGTTTTATCTCAGTTAACCTTTTTCATCTA
64 AACCTTTTTCATTTGTTGACTTGTAGGTTTTATCTCAGTCAACCTTTTTCATCTA
*
2680600 TTGATTTATAAGTTTTGTCCTAATCAACCTTTTTCATTTATTAACTTGTAGGTTTTGTCTCGATC
1 TTGATTTATAAGTTTTGTCCTAATCAACCTTTTT-ATTTATTAACTTGTAGGTTTTGTC-CAATC
* * * * * *
2680665 AACCCTTTTCATTTGATGACTTGTAGGTTTTGTCTC-GCTCAGCCCTTTTCATCTG
64 AACCTTTTTCATTTGTTGACTTGTAGGTTTTATCTCAG-TCAACCTTTTTCATCTA
* * * ** * * * * *
2680720 TTGACTTA-AAGGTTTTCTCTTGGTCAAACCATTTTATTTGTTAACTTATAGGTTTTATCCTAGT
1 TTGATTTATAA-GTTTTGTCCTAATC-AACCTTTTTATTTATTAACTTGTAGGTTTTGTCC-AAT
** * * * *
2680784 CAACCTTTTTGGTCTGTTGACTTGTAGGTTTTTTCCCAATCAACCCTTTTT-ATCTA
63 CAACCTTTTTCATTTGTTGACTTGTAGGTTTTATCTCAGTCAA-CCTTTTTCATCTA
* * * * * * * *
2680840 TTAATTTATAGGTTTCGT-CTCAATTAACCTTTCTTATATGTTAAGTTGTATGTTT
1 TTGATTTATAAGTTTTGTCCT-AATCAACCTTT-TTATTTATTAACTTGTAGGTTT
2680895 AATCTCGATC
Statistics
Matches: 230, Mismatches: 54, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
119 18 0.08
120 196 0.85
121 16 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (118 bp):
TTGATTTATAAGTTTTGTCCTAATCAACCTTTTTATTTATTAACTTGTAGGTTTTGTCCAATCAA
CCTTTTTCATTTGTTGACTTGTAGGTTTTATCTCAGTCAACCTTTTTCATCTA
Found at i:2681299 original size:65 final size:64
Alignment explanation
Indices: 2681067--2681480 Score: 322
Period size: 65 Copynumber: 6.5 Consensus size: 64
2681057 TAGTCAATCA
* * * * * *
2681067 TTTTTT-ACTTAGGTTTCGTCCTAGTCACCTTTAGTTGGCAACATCAGTTTGC--CTTGGTTAA-
1 TTTTTTGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGACTATATTAGTTT-CATCTTGGTCAAC
2681128 C
64 C
* * ** * * * *
2681129 TCTTTTCAGCTTAGGTTTTGTCCTAGTCACTTTTAGTTGACTATATTGGTTTTATGTTGGTTAAC
1 TTTTTTGA-CTTAGGTTTCATCCTAGTCAC-TTTAGTTGACTATATTAGTTTCATCTTGGTCAAC
2681194 C
64 C
* * * *
2681195 -TTTTTAACTTAGGTTTTATCCTAATCATCTTTAGTTGACTATATTAATTTCATCTTGGTCAACC
1 TTTTTTGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGACTATATTAGTTTCATCTTGGTCAACC
* * * ** * *
2681259 TTTTTTGACTTAGGTTCCATTCTAGTCAATATTAGTTGACTATATCGGTTTCGT-TCTGGTCAGC
1 TTTTTTGACTTAGGTTTCATCCTAGTCACT-TTAGTTGACTATATTAGTTTCATCT-TGGTCAAC
2681323 C
64 C
* * ** * * *
2681324 CTTTTTAACTTAGGTTTTGTCCTATTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAATC
1 TTTTTTGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGACTATATTAGTTTCATCTTGGTCAACC
* * * * * *
2681389 TTTTTTGACTCAGG--TCATCCTAGCCACCTTTTGTTGACTATATCAGTTTCACCTTGGTCAAAC
1 TTTTTTGACTTAGGTTTCATCCTAGTCA-CTTTAGTTGACTATATTAGTTTCATCTTGGTCAACC
* **
2681452 TTTTTCGACTTAGGTTTTGTCCTAGTCAC
1 TTTTTTGACTTAGGTTTCATCCTAGTCAC
2681481 CTTATGTTAA
Statistics
Matches: 278, Mismatches: 60, Indels: 26
0.76 0.16 0.07
Matches are distributed among these distances:
62 5 0.02
63 54 0.19
64 86 0.31
65 130 0.47
66 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (64 bp):
TTTTTTGACTTAGGTTTCATCCTAGTCACTTTAGTTGACTATATTAGTTTCATCTTGGTCAACC
Found at i:2681490 original size:128 final size:128
Alignment explanation
Indices: 2681149--2681483 Score: 388
Period size: 130 Copynumber: 2.6 Consensus size: 128
2681139 TTAGGTTTTG
* * ** * *
2681149 TCCTAGTCACTTTTAGTTGACTATATTGGTTTTATGTTGGTTAACCTTTTTAACTTAGGTTTTAT
1 TCCTAGTCACTTTT-GTTGACTATATCGGTTTCACCTTGGTCAACCTTTTTAACTTAGGTTTTGT
* * *
2681214 CCTAATCATCTTTAGTTGACTATATTAATTTCATCTTGGTCAACCTTTTTTGACTTAGGTTCCA
65 CCTAATCACCTTTAGTTAACTATATTAATTTCATCTTGGTCAACCTTTTTTGACTCAGGTTCCA
* * * ** *
2681278 TTCTAGTCAATATTAGTTGACTATATCGGTTTC-GTTCTGGTCAGCCCTTTTTAACTTAGGTTTT
1 TCCTAGTCACT-TTTGTTGACTATATCGGTTTCACCT-TGGTCA-ACCTTTTTAACTTAGGTTTT
* * *
2681342 GTCCTATTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAATCTTTTTTGACTCAGG-T-C
63 GTCCTAATCACCTTTAGTTAACTATATTAATTTCATCTTGGTCAACCTTTTTTGACTCAGGTTCC
2681405 A
128 A
* * * *
2681406 TCCTAGCCACCTTTTGTTGACTATATCAGTTTCACCTTGGTCAAACTTTTTCGACTTAGGTTTTG
1 TCCTAGTCA-CTTTTGTTGACTATATCGGTTTCACCTTGGTCAACCTTTTT-AACTTAGGTTTTG
*
2681471 TCCTAGTCACCTT
64 TCCTAATCACCTT
2681484 ATGTTAATTA
Statistics
Matches: 173, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
127 6 0.03
128 59 0.34
129 33 0.19
130 75 0.43
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (128 bp):
TCCTAGTCACTTTTGTTGACTATATCGGTTTCACCTTGGTCAACCTTTTTAACTTAGGTTTTGTC
CTAATCACCTTTAGTTAACTATATTAATTTCATCTTGGTCAACCTTTTTTGACTCAGGTTCCA
Found at i:2681529 original size:193 final size:193
Alignment explanation
Indices: 2681131--2681546 Score: 435
Period size: 193 Copynumber: 2.2 Consensus size: 193
2681121 TGGTTAACTC
* * * * * * *
2681131 TTTTCAGCTTAGGTTTTGTCCTAGTCACTTTTAGTTGACTATATTGGTTTTATGTTGGTTAACCT
1 TTTTCAACTTAGGTTTTGTCCTAGTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAACCT
* * * * * * *
2681196 TTTTAACTTAGGTTTTATCCTAATCATCTTTAGTTGACTATATTAATTTCATCTTGGTCAACCTT
66 TTTTAACTCAGG-TTCATCCTAACCACCTTTAGTTGACTATATCAATTTCACCTTGGTCAAACTT
* * * * * * **
2681261 TTTTGACTTAGGTTCCATTCTAGTCAATATTAGTTGACTATATCGGTTTCGTTCTGGTCAGCCCT
130 TTTCGACTTAGGTTCCATCCTAGTCAACATTAGTTAACTATACCGATTTCGCCCTGGTCA-CCCT
* *
2681326 TTTT-AACTTAGGTTTTGTCCTATTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAATCT
1 TTTTCAACTTAGGTTTTGTCCTAGTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAA-CC
* * * *
2681390 TTTTTGACTCAGG-TCATCCTAGCCACCTTTTGTTGACTATATCAGTTTCACCTTGGTCAAACTT
65 TTTTTAACTCAGGTTCATCCTAACCACCTTTAGTTGACTATATCAATTTCACCTTGGTCAAACTT
*** * * *
2681454 TTTCGACTTAGGTTTTGTCCTAGTC-ACCTTATGTTAATTATACCGATTTCGCCCTAGTTCA-CC
130 TTTCGACTTAGGTTCCATCCTAGTCAACATTA-GTTAACTATACCGATTTCGCCCT-GGTCACCC
2681517 T
193 T
**
2681518 TTTTCAACTTAGGTTTCATCCTAGTCACC
1 TTTTCAACTTAGGTTTTGTCCTAGTCACC
2681547 CCTGACTATT
Statistics
Matches: 180, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
192 11 0.06
193 100 0.56
194 53 0.29
195 16 0.09
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (193 bp):
TTTTCAACTTAGGTTTTGTCCTAGTCACCTTTAGTTAACTATATTAGTTTCATCTTGGTCAACCT
TTTTAACTCAGGTTCATCCTAACCACCTTTAGTTGACTATATCAATTTCACCTTGGTCAAACTTT
TTCGACTTAGGTTCCATCCTAGTCAACATTAGTTAACTATACCGATTTCGCCCTGGTCACCCT
Found at i:2682863 original size:12 final size:12
Alignment explanation
Indices: 2682843--2682876 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2682833 ATTCATAAAT
*
2682843 ATCAAGAAAAAA
1 ATCATGAAAAAA
2682855 ATCATGAAAAAA
1 ATCATGAAAAAA
2682867 ATGCATGAAA
1 AT-CATGAAA
2682877 CTTTCAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.15
Consensus pattern (12 bp):
ATCATGAAAAAA
Found at i:2682867 original size:13 final size:13
Alignment explanation
Indices: 2682848--2682876 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2682838 TAAATATCAA
2682848 GAAAAAAAT-CAT
1 GAAAAAAATGCAT
2682860 GAAAAAAATGCAT
1 GAAAAAAATGCAT
2682873 GAAA
1 GAAA
2682877 CTTTCAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (13 bp):
GAAAAAAATGCAT
Found at i:2686972 original size:20 final size:20
Alignment explanation
Indices: 2686947--2686999 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2686937 CATTTGAGAC
*
2686947 ATGTATTGATACATTCACTT
1 ATGTATTGATACATTCACTA
*
2686967 ATGTATCGATACATTCACTA
1 ATGTATTGATACATTCACTA
2686987 ATTGTA-TGATACA
1 A-TGTATTGATACA
2687000 AATCGTAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATTGATACATTCACTA
Found at i:2687752 original size:155 final size:155
Alignment explanation
Indices: 2687491--2688096 Score: 561
Period size: 155 Copynumber: 3.9 Consensus size: 155
2687481 GTATTACAGG
* * * * *
2687491 AATACTTTCATGTCGAAGGTATA-CCC-AAGGATATTTTAATAATTTTCCTAAAATCGAGTATGA
1 AATACTTTCATGTCAAAGGTATATCCCAAAGG-CATTTTCATAATTTTCCTAGAATCGAGTCTGA
* ** *
2687554 TATAGTCA-TCGGGATGCTTTTATGCTAAAGGCGTGTATGTAGGATAGGTTCACCATTTTTTTAT
65 TATAGTCACT-GAGATGCTTTTATGCTAAAGGTATGTATTTAGGATAGGTTCACCATTTTTTTAT
* *
2687618 CATTTTTGAGTCCTTTAGGGTCACCAA
129 CATTTTTGAGTCTTTTAGGGTTACCAA
* * * * *
2687645 AATACTTTTATGTCAAAGGTATATCTCAAAGGTATTTTCATAATCTTCCTAGAATTGAGTCTGAT
1 AATACTTTCATGTCAAAGGTATATCCCAAAGGCATTTTCATAATTTTCCTAGAATCGAGTCTGAT
* * *
2687710 ATAGTCACTGAGATGCTTTTATGCTAAAGGTATGTATTTAGGATAGGTTCACCCTTTTATAATCA
66 ATAGTCACTGAGATGCTTTTATGCTAAAGGTATGTATTTAGGATAGGTTCACCATTTTTTTATCA
* * *
2687775 TTTTTTAGTCTTTTAAGGTTACCAG
131 TTTTTGAGTCTTTTAGGGTTACCAA
* * * * *
2687800 GATATTTTCATGTTC-AAGGTATATCCCAAAGGCATTTTCATAATTTTCGTAGAAACAAGTCTGA
1 AATACTTTCATG-TCAAAGGTATATCCCAAAGGCATTTTCATAATTTTCCTAGAATCGAGTCTGA
* * * * *
2687864 TATAATCAGCT-AGATGCTTTTATGCCT-AAGCTA--TATTTAGGACAAGTTCACCTTTTTTTTA
65 TATAGTCA-CTGAGATGCTTTTATG-CTAAAGGTATGTATTTAGGATAGGTTCACCATTTTTTTA
* *
2687925 TCATTTTCGAATCTTTTAGGGTTACCAA
128 TCATTTTTGAGTCTTTTAGGGTTACCAA
* * ** * * * * * * *
2687953 GAA-ACTTTCATGTCAAAAGTATACCCCAAAGGCATTTTTTGTAATCTTCTTAAAACCAAATTTG
1 -AATACTTTCATGTCAAAGGTATATCCCAAAGGCA-TTTTCATAATTTTCCTAGAATCGAGTCTG
* * * * * * * * *
2688017 AT-TAGTCA-TTAGGATGCATTTATGCCAAAGGTGTATATCTAGGATAGGTTCACCCTTTTATAA
64 ATATAGTCACTGA-GATGCTTTTATGCTAAAGGTATGTATTTAGGATAGGTTCACCATTTTTTTA
*
2688080 TTATTTTT-AGTCTTTTA
128 TCATTTTTGAGTCTTTTA
2688097 CAATTATCGA
Statistics
Matches: 370, Mismatches: 68, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
151 1 0.00
152 4 0.01
153 91 0.25
154 53 0.14
155 210 0.57
156 11 0.03
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (155 bp):
AATACTTTCATGTCAAAGGTATATCCCAAAGGCATTTTCATAATTTTCCTAGAATCGAGTCTGAT
ATAGTCACTGAGATGCTTTTATGCTAAAGGTATGTATTTAGGATAGGTTCACCATTTTTTTATCA
TTTTTGAGTCTTTTAGGGTTACCAA
Found at i:2688041 original size:308 final size:309
Alignment explanation
Indices: 2687487--2688096 Score: 709
Period size: 308 Copynumber: 2.0 Consensus size: 309
2687477 TTTAGTATTA
* *
2687487 CAGGAATACTTTCATGTCGAAGGTATACCCAAGGATATTTTAATAATTTTCCTAAAATCGAGTAT
1 CAGGAATACTTTCATGTCGAAGGTATACCCAAGGACATTTTAATAATTTTCCTAAAATCAAGTAT
* * * * * *
2687552 GATATAGTCATCGGGATGCTTTTATGCTAAAGGCGTGTATGTAGGATAGGTTCACCATTTTTTTA
66 GATATAATCAGCGAGATGCTTTTATGCTAAAGGCGTATATGTAGGACAAGTTCACCATTTTTTTA
* * * * * * *
2687617 TCATTTTTGAGTCCTTTAGGGTCACCAAAATACTTTTATGTCAAAGGTATATCTCAAAGGTATTT
131 TCATTTTCGAATCCTTTAGGGTCACCAAAATACTTTCATGTCAAAAGTATACCCCAAAGGCATTT
* *** * * * *
2687682 TCATAATCTTCCTAGAATTGAGTCTGATATAGTCACTGAGATGCTTTTATGCTAAAGGTATGTAT
196 TCATAATCTTCCTAAAACCAAATCTGATATAGTCACTGAGATGCATTTATGCCAAAGGTATATAT
*
2687747 TTAGGATAGGTTCACCCTTTTATAATCATTTTTTAGTCTTTTAAGGTTAC
261 CTAGGATAGGTTCACCCTTTTATAATCA-TTTTTAGTCTTTTAAGGTTAC
* * *
2687797 CAGG-ATATTTTCATGTTC-AAGGTATATCCCAAAGG-CATTTTCATAATTTTCGTAGAAA-CAA
1 CAGGAATACTTTCATG-TCGAAGGTATA-CCC-AAGGACATTTTAATAATTTTCCTA-AAATCAA
* * * *
2687858 GTCTGATATAATCAGCTAGATGCTTTTATGCCT-AA-GC-TATATTTAGGACAAGTTCACCTTTT
62 GTATGATATAATCAGCGAGATGCTTTTATG-CTAAAGGCGTATATGTAGGACAAGTTCACCATTT
* *
2687920 TTTTATCATTTTCGAATCTTTTAGGGTTACCAAGAA-ACTTTCATGTCAAAAGTATACCCCAAAG
126 TTTTATCATTTTCGAATCCTTTAGGGTCACCAA-AATACTTTCATGTCAAAAGTATACCCCAAAG
** * * *
2687984 GCATTTTTTGTAATCTTCTTAAAACCAAATTTGAT-TAGTCA-TTAGGATGCATTTATGCCAAAG
190 GCA-TTTTCATAATCTTCCTAAAACCAAATCTGATATAGTCACTGA-GATGCATTTATGCCAAAG
* *
2688047 GTGTATATCTAGGATAGGTTCACCCTTTTATAATTATTTTTAGTCTTTTA
253 GTATATATCTAGGATAGGTTCACCCTTTTATAATCATTTTTAGTCTTTTA
2688097 CAATTATCGA
Statistics
Matches: 252, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
307 16 0.06
308 129 0.51
309 44 0.17
310 54 0.21
311 9 0.04
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (309 bp):
CAGGAATACTTTCATGTCGAAGGTATACCCAAGGACATTTTAATAATTTTCCTAAAATCAAGTAT
GATATAATCAGCGAGATGCTTTTATGCTAAAGGCGTATATGTAGGACAAGTTCACCATTTTTTTA
TCATTTTCGAATCCTTTAGGGTCACCAAAATACTTTCATGTCAAAAGTATACCCCAAAGGCATTT
TCATAATCTTCCTAAAACCAAATCTGATATAGTCACTGAGATGCATTTATGCCAAAGGTATATAT
CTAGGATAGGTTCACCCTTTTATAATCATTTTTAGTCTTTTAAGGTTAC
Found at i:2697881 original size:22 final size:21
Alignment explanation
Indices: 2697856--2697911 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
2697846 GATTTTTTTC
2697856 ATTTATTTTTTTAATTTAATTT
1 ATTTATTTTTTT-ATTTAATTT
* * *
2697878 ATTTCTATTTTTATTTCATTT
1 ATTTATTTTTTTATTTAATTT
*
2697899 AGTTATTATTTTT
1 ATTTATT-TTTTT
2697912 TAATGCCACA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTATTTTTTTATTTAATTT
Found at i:2699753 original size:22 final size:21
Alignment explanation
Indices: 2699724--2699799 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
2699714 TATTTAATAT
2699724 ATTA-TATTTTTTATAATTAA
1 ATTATTATTTTTTATAATTAA
*
2699744 ATTTATTATTTTTTATTATT--
1 A-TTATTATTTTTTATAATTAA
*
2699764 A-TATTATTTTAATATAA-TAA
1 ATTATTATTTT-TTATAATTAA
2699784 ATATATTATTTTTTAT
1 AT-TATTATTTTTTAT
2699800 TATATTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
18 10 0.22
19 4 0.09
20 3 0.07
21 6 0.13
22 22 0.49
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATTATTTTTTATAATTAA
Found at i:2699785 original size:40 final size:37
Alignment explanation
Indices: 2699723--2699802 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 37
2699713 GTATTTAATA
* *
2699723 TATTATATTTTTTATAATTAAATTTATTATTTTTTAT
1 TATTATATTTTTTATAAATAAATATATTATTTTTTAT
2699760 TATTATATTATTTTAATATAATAAATATATTATTTTTTAT
1 TATTATATT-TTTT-ATA-AATAAATATATTATTTTTTAT
2699800 TAT
1 TAT
2699803 ATTTAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 9 0.24
38 4 0.11
39 3 0.08
40 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (37 bp):
TATTATATTTTTTATAAATAAATATATTATTTTTTAT
Found at i:2699800 original size:37 final size:39
Alignment explanation
Indices: 2699701--2699805 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
2699691 TATTAAAATT
* * **
2699701 TTAAATAT-TTATGTATTTAATATATTATATTTTTTATAA
1 TTAAATATATTAT-TTTTTATTATATTATATTTAATATAA
*
2699740 TTAAATTTATTATTTTTTATTAT-TATATTATTTTAATATAA
1 TTAAATATATTATTTTTTATTATAT-TA-TA-TTTAATATAA
2699781 -TAAATATATTATTTTTTATTATATT
1 TTAAATATATTATTTTTTATTATATT
2699806 TAAAATTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
38 1 0.02
39 17 0.31
40 28 0.51
41 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (39 bp):
TTAAATATATTATTTTTTATTATATTATATTTAATATAA
Found at i:2699820 original size:34 final size:33
Alignment explanation
Indices: 2699756--2699820 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
2699746 TTATTATTTT
*
2699756 TTATTATTATATTATTTTAATATAATAAATATA
1 TTATTATTATATTATTTTAAAATAATAAATATA
* *
2699789 TTATT-TTTTATTATATTTAAAATTATCAAATA
1 TTATTATTATATTAT-TTTAAAATAAT-AAATA
2699821 CGTATGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.30
33 14 0.52
34 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATTATTATATTATTTTAAAATAATAAATATA
Found at i:2700571 original size:22 final size:22
Alignment explanation
Indices: 2700546--2700588 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2700536 ATATAATTGT
2700546 AAAA-AATAAAAATTATATTATA
1 AAAATAATAAAAA-TATATTATA
**
2700568 AAAATTTTAAAAATATATTAT
1 AAAATAATAAAAATATATTAT
2700589 TATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAATAAAAATATATTATA
Found at i:2700627 original size:115 final size:108
Alignment explanation
Indices: 2700495--2700799 Score: 393
Period size: 108 Copynumber: 2.8 Consensus size: 108
2700485 ATTGAACTAA
*
2700495 TAATAATATTTAAAATATTAAAAATGAATTTATAAATA-TTTATATAATTGTAAAAAATAAAAAT
1 TAATAATATTTAAAATATTAAAAATAAATTTATAAATATTTTATATAATTGTAAAAAA-AAAAAT
** * *
2700559 TATATTATAAAAATTTTAAAAATATATTATTATTATTATTTAAATTTGAAT
65 TATACAATAAAAA--ATAAAAATATATTATTATT-TGA---AAA-TTGAAT
*
2700610 TAATAATATTTAAAATATTATAAATAAATTTATAAATATTTTATATAATTGT-AAAAAAAAAATT
1 TAATAATATTTAAAATATTAAAAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAAATT
*
2700674 ATACAATAAAAAATAAAAATATATTATTATTTGAATATTGAAT
66 ATACAATAAAAAATAAAAATATATTATTATTTGAAAATTGAAT
* * *
2700717 TTATAATAATTTAAAATATTAAAAGTAAATTTATAAATATTTTATACAATTGT--AAAAAAAAAT
1 TAATAAT-ATTTAAAATATTAAAAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAAAT
* *
2700780 AATACTATAAAAAATAAAAA
65 TATACAATAAAAAATAAAAA
2700800 AAATACATCA
Statistics
Matches: 175, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
107 40 0.23
108 44 0.25
111 2 0.01
112 18 0.10
114 17 0.10
115 41 0.23
116 13 0.07
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (108 bp):
TAATAATATTTAAAATATTAAAAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAAATT
ATACAATAAAAAATAAAAATATATTATTATTTGAAAATTGAAT
Found at i:2700635 original size:21 final size:22
Alignment explanation
Indices: 2700611--2700658 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
2700601 AATTTGAATT
2700611 AATAATATTTA-AAATATTATA
1 AATAATATTTATAAATATTATA
*
2700632 AATAA-ATTTATAAATATTTTA
1 AATAATATTTATAAATATTATA
*
2700653 TATAAT
1 AATAAT
2700659 TGTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAATATTTATAAATATTATA
Found at i:2700689 original size:53 final size:53
Alignment explanation
Indices: 2700631--2700797 Score: 137
Period size: 53 Copynumber: 3.1 Consensus size: 53
2700621 AAAATATTAT
2700631 AAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTATACAATAAA
1 AAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTATACAATAAA
* * * * * * * *
2700684 AAATAAAAATATATTATTATTTGA-AT-ATTG-AATTTATAATAATT-TAAAATATTAA
1 AAAT--AAATTTATAAATATTTTATATAATTGTAA--AAAAAAAATTATACAATA--AA
* * * *
2700739 AAGTAAATTTATAAATATTTTATACAATTGT-AAAAAAAAATAATACTATAAA
1 AAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTATACAATAAA
2700791 AAATAAA
1 AAATAAA
2700798 AAAAATACAT
Statistics
Matches: 83, Mismatches: 21, Indels: 21
0.66 0.17 0.17
Matches are distributed among these distances:
52 10 0.12
53 34 0.41
54 15 0.18
55 24 0.29
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (53 bp):
AAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTATACAATAAA
Found at i:2700761 original size:108 final size:109
Alignment explanation
Indices: 2700495--2700799 Score: 404
Period size: 107 Copynumber: 2.8 Consensus size: 109
2700485 ATTGAACTAA
*
2700495 TAATAATATTTAAAATATTAAAAATGAATTTATAAATA-TTTATATAATTGTAAAAAATAAAAAT
1 TAATAATATTTAAAATATT-AAAATAAATTTATAAATATTTTATATAATTGT-AAAAA-AAAAAT
* * *
2700559 TATATTATAAAAATTTTAAAAATATATTATTATTATTATTTAAATTTGAAT
63 TATACTATAAAAA--ATAAAAATATATTATTATTATGA--TAAATTTGAAT
2700610 TAATAATATTTAAAATATTATAAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTA
1 TAATAATATTTAAAATATTA-AAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTA
* *
2700675 TACAATAAAAAATAAAAATATATTATTATT-TGA-ATA-TTGAAT
65 TACTATAAAAAATAAAAATATATTATTATTATGATAAATTTGAAT
* * *
2700717 TTATAATAATTTAAAATATTAAAAGTAAATTTATAAATATTTTATACAATTGT-AAAAAAAAATA
1 TAATAAT-ATTTAAAATATTAAAA-TAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATT
2700781 ATACTATAAAAAATAAAAA
64 ATACTATAAAAAATAAAAA
2700800 AAATACATCA
Statistics
Matches: 176, Mismatches: 10, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
107 43 0.24
108 42 0.24
111 2 0.01
112 18 0.10
114 18 0.10
115 40 0.23
116 13 0.07
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (109 bp):
TAATAATATTTAAAATATTAAAATAAATTTATAAATATTTTATATAATTGTAAAAAAAAAATTAT
ACTATAAAAAATAAAAATATATTATTATTATGATAAATTTGAAT
Found at i:2702443 original size:27 final size:27
Alignment explanation
Indices: 2702382--2702443 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
2702372 AATTTAATTT
2702382 AATTTTATTTAAATAATAATAAATATCA
1 AATTTTATTTAAAT-ATAATAAATATCA
* *
2702410 AAATTTATTTTAAT-TACATAAATAAT-A
1 AATTTTATTTAAATATA-ATAAAT-ATCA
2702437 AATTTTA
1 AATTTTA
2702444 ATATTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.07
27 13 0.45
28 14 0.48
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AATTTTATTTAAATATAATAAATATCA
Found at i:2702450 original size:34 final size:33
Alignment explanation
Indices: 2702370--2702450 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
2702360 ATTTGATATT
* *
2702370 TAAA-TTTAAT-TTAATTTTATTTAAATAATAA
1 TAAATTTTAATATTTATTTTAATTAAATAATAA
* * * *
2702401 TAAATATCAAAATTTATTTTAATTACATAAATAA
1 TAAATTTTAATATTTATTTTAATTAAAT-AATAA
2702435 TAAATTTTAATATTTA
1 TAAATTTTAATATTTA
2702451 AATTTAATAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
31 4 0.11
32 3 0.08
33 13 0.34
34 18 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (33 bp):
TAAATTTTAATATTTATTTTAATTAAATAATAA
Found at i:2702456 original size:13 final size:13
Alignment explanation
Indices: 2702435--2702477 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2702425 ACATAAATAA
2702435 TAAATTTTAATATT
1 TAAA-TTTAATATT
2702449 TAAATTTAATATT
1 TAAATTTAATATT
* *
2702462 T-ATTTTTATATT
1 TAAATTTAATATT
2702474 TAAA
1 TAAA
2702478 AAATTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 10 0.40
13 11 0.44
14 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TAAATTTAATATT
Found at i:2708046 original size:2 final size:2
Alignment explanation
Indices: 2708033--2708090 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
2708023 ATGTTAGGAA
* *
2708033 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2708075 AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
2708091 TTTACTAGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2710400 original size:13 final size:13
Alignment explanation
Indices: 2710382--2710406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2710372 TTTAGGGCAT
2710382 AAAAAATTGAAAC
1 AAAAAATTGAAAC
2710395 AAAAAATTGAAA
1 AAAAAATTGAAA
2710407 ATCGGTTTGA
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:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAATTGAAAC
Found at i:2715645 original size:35 final size:35
Alignment explanation
Indices: 2715561--2715646 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
2715551 ATATGAACTT
*
2715561 AATTTA-AATATATGAATATATCAAAATCTATATA
1 AATTTATAATATATTAATATATCAAAATCTATATA
* * * * *
2715595 AA-ATATATTATTATTATTATATTAAAATTTATATA
1 AATTTATAATA-TATTAATATATCAAAATCTATATA
2715630 AATTTATAATATATTAA
1 AATTTATAATATATTAA
2715647 ATAGATAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 27 0.68
36 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (35 bp):
AATTTATAATATATTAATATATCAAAATCTATATA
Found at i:2715734 original size:15 final size:14
Alignment explanation
Indices: 2715712--2715749 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
2715702 ACGAACATAA
*
2715712 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTC
2715726 TTATTTTTTCTTTTC
1 TT-TTTTTTCTTTTC
2715741 TTTTTTTTC
1 TTTTTTTTC
2715750 AATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:2720434 original size:20 final size:21
Alignment explanation
Indices: 2720395--2720446 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
2720385 TTCTACAGTT
2720395 TGTATCGATACAACAAGTGAA
1 TGTATCGATACAACAAGTGAA
* *
2720416 TGTATCAATAC-ATAAGTGAA
1 TGTATCGATACAACAAGTGAA
2720436 TGTATCGATAC
1 TGTATCGATAC
2720447 TAGACCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAACAAGTGAA
Found at i:2720581 original size:52 final size:51
Alignment explanation
Indices: 2720488--2720625 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 51
2720478 AAAAGAAAAT
* *
2720488 GTATCGATATATTTTTTATTATATCTATATATTCTAGGTTTTTGATCCAAAG
1 GTATCGATACA-TTTTTATTATATCAATATATTCTAGGTTTTTGATCCAAAG
* * * *
2720540 GTATTGATACATTTTTCATTGTATCAATATATT-TTGAGTTTTTGATCCAAAT
1 GTATCGATACATTTTT-ATTATATCAATATATTCTAG-GTTTTTGATCCAAAG
* *
2720592 GTATCGATACATTTTTATTTTATCGATATATTCT
1 GTATCGATACATTTTTATTATATCAATATATTCT
2720626 TTAACATCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
51 21 0.28
52 53 0.72
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (51 bp):
GTATCGATACATTTTTATTATATCAATATATTCTAGGTTTTTGATCCAAAG
Found at i:2721728 original size:14 final size:14
Alignment explanation
Indices: 2721711--2721743 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2721701 AATCATGTTT
2721711 TTGTCAAAAGCATA
1 TTGTCAAAAGCATA
*
2721725 TTGTCATAAGCATA
1 TTGTCAAAAGCATA
2721739 TTGTC
1 TTGTC
2721744 TTATTAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (14 bp):
TTGTCAAAAGCATA
Found at i:2723476 original size:18 final size:20
Alignment explanation
Indices: 2723433--2723476 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
2723423 GATAGGTCAC
2723433 TCATTTTGATTGATGTCTAT
1 TCATTTTGATTGATGTCTAT
*
2723453 TC-TTTT-ATTGTTGT-TAT
1 TCATTTTGATTGATGTCTAT
2723470 TCATTTT
1 TCATTTT
2723477 TGTTCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 4 0.18
20 2 0.09
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (20 bp):
TCATTTTGATTGATGTCTAT
Found at i:2730868 original size:27 final size:27
Alignment explanation
Indices: 2730838--2730892 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
2730828 TTGTTTAATT
*
2730838 TTTTAATT-GAAAAATGGGGTTAGAGTA
1 TTTT-ATTGGAAAAATGGGATTAGAGTA
* *
2730865 TTTTTTTGGAAGAATGGGATTAGAGTA
1 TTTTATTGGAAAAATGGGATTAGAGTA
2730892 T
1 T
2730893 CCCTGATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (27 bp):
TTTTATTGGAAAAATGGGATTAGAGTA
Found at i:2733365 original size:51 final size:51
Alignment explanation
Indices: 2733306--2733428 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 51
2733296 AATGTATTAT
*
2733306 TGAAAATGTATCGATACATTTGGGT-TAAAACTCAGAATGTATCGATACAA
1 TGAAAATGTATCGATACATTTGGGTCCAAAACTCAGAATGTATCGATACAA
* * * *
2733356 TGAAAAATGTAGT-AATACATTTTGGTCCAAAACTTAGATTGTATCGATACAA
1 TG-AAAATGTA-TCGATACATTTGGGTCCAAAACTCAGAATGTATCGATACAA
2733408 TGAAAATGTATCGATACATTT
1 TGAAAATGTATCGATACATTT
2733429 TTTTTTTCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
50 3 0.05
51 35 0.56
52 25 0.40
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (51 bp):
TGAAAATGTATCGATACATTTGGGTCCAAAACTCAGAATGTATCGATACAA
Found at i:2733516 original size:20 final size:20
Alignment explanation
Indices: 2733493--2733537 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
2733483 GCATGCATCA
2733493 ATACATTTA-CTTATT-TATGG
1 ATACA-TTACCTTATTGTAT-G
2733513 ATACATTACCTTATTGTATG
1 ATACATTACCTTATTGTATG
2733533 ATACA
1 ATACA
2733538 AATACTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (20 bp):
ATACATTACCTTATTGTATG
Found at i:2737862 original size:30 final size:28
Alignment explanation
Indices: 2737823--2737881 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 28
2737813 GTCCACAATG
*
2737823 TCGTAGCACTTCTTTTCAAAAGTTCATAACT
1 TCGTAGCACTT-TTTT-AAAA-TCCATAACT
2737854 TCGT-GCACTTTTTTAAAATCCATAACT
1 TCGTAGCACTTTTTTAAAATCCATAACT
2737881 T
1 T
2737882 TATGGTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 9 0.33
28 4 0.15
29 4 0.15
30 6 0.22
31 4 0.15
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (28 bp):
TCGTAGCACTTTTTTAAAATCCATAACT
Found at i:2737877 original size:27 final size:31
Alignment explanation
Indices: 2737810--2737881 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
2737800 CAACCTTTAC
*
2737810 AAAGTCCACAA-TGTCGTAGCACTTCTTTTCA
1 AAAGTCCATAACT-TCGTAGCACTTCTTTTCA
*
2737841 AAAGTTCATAACTTCGT-GCACTT-TTTT-A
1 AAAGTCCATAACTTCGTAGCACTTCTTTTCA
2737869 AAA-TCCATAACTT
1 AAAGTCCATAACTT
2737882 TATGGTACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 9 0.24
28 4 0.11
29 4 0.11
30 6 0.16
31 13 0.35
32 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (31 bp):
AAAGTCCATAACTTCGTAGCACTTCTTTTCA
Found at i:2738324 original size:52 final size:52
Alignment explanation
Indices: 2738204--2738316 Score: 154
Period size: 52 Copynumber: 2.2 Consensus size: 52
2738194 ATGTCATTGG
* * * * * *
2738204 CCTTGAATCAGCACATTGGTACTTTTATTTTCTCTAAGTCTAATATCTCTAG
1 CCTTGAATCAGCACATTGATACCTTTATTATCTCTAAGTCCAATATCACTAA
* *
2738256 GCTTGAATCAGCACATTGATACCTTTATTATCTTTAAGTCCAATATCACTAA
1 CCTTGAATCAGCACATTGATACCTTTATTATCTCTAAGTCCAATATCACTAA
2738308 CCTTGAATC
1 CCTTGAATC
2738317 GGTACATTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (52 bp):
CCTTGAATCAGCACATTGATACCTTTATTATCTCTAAGTCCAATATCACTAA
Found at i:2744630 original size:2 final size:2
Alignment explanation
Indices: 2744623--2744647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2744613 TATGCTTTAG
2744623 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2744648 ATACGCGCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2744895 original size:2 final size:2
Alignment explanation
Indices: 2744888--2744917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2744878 TGTCTCTATG
2744888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2744918 TACCTATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2750992 original size:72 final size:73
Alignment explanation
Indices: 2750900--2751404 Score: 422
Period size: 73 Copynumber: 7.0 Consensus size: 73
2750890 ATTTAAATAA
** *
2750900 AAATTTAAACTCCTACAAATAAAAATACATAATAACT-TAAAAATTTAAACTCGTATAAGT-A-A
1 AAATTTAAACTTTTACAAATAAAAATAAAT-ATAACTCTAAAAATTTAAACTCGTATAA-TCATA
2750962 CCCAAAAAAT
64 CCCAAAAAAT
* * *
2750972 AAATTTAAACTTTTAAAAATAAAAATAAATTATACCAT-TAAAAATATAAACTCGTATAATCATA
1 AAATTTAAACTTTTACAAATAAAAATAAA-TATAAC-TCTAAAAATTTAAACTCGTATAATCATA
*
2751036 CCGAAAAAAT
64 CCCAAAAAAT
* * * * * * *
2751046 ACATTTAAA-TTTCTATAAATGAAAATAAGTAT-ACTATCAAAATTTAAACTCGTATAATTATA-
1 AAATTTAAACTTT-TACAAATAAAAATAAATATAACTCTAAAAATTTAAACTCGTATAATCATAC
2751108 CCAAAAAAT
65 CCAAAAAAT
* * * *
2751117 -AATTTAAACTTCTAGAAATAAAGATAAATA-ATACTCTAAAAATTTAAACTCGTGTAATCA-AC
1 AAATTTAAACTTTTACAAATAAAAATAAATATA-ACTCTAAAAATTTAAACTCGTATAATCATAC
*
2751179 CCAAAAAAC
65 CCAAAAAAT
* * * * **
2751188 AAATTTGAACTTTTACAAATAAAAATAAATTATATCATC-AAAAATATAAACTCATGCAATCATA
1 AAATTTAAACTTTTACAAATAAAAATAAA-TATAAC-TCTAAAAATTTAAACTCGTATAATCATA
*
2751252 CCCAAAAAAC
64 CCCAAAAAAT
*
2751262 ATAA-TTAAA-TTTCTACAAAT-AAAA-AAAT-TACACTCTAAAAATTTAAACTCATATAATCAT
1 A-AATTTAAACTTT-TACAAATAAAAATAAATATA-ACTCTAAAAATTTAAACTCGTATAATCAT
2751322 ACCC-AAAAAT
63 ACCCAAAAAAT
* * * *
2751332 CAAATTTAAA-TTTCTGCAAACAAAAATAAAT-TATAC-CATAAAAATATAAA-TTGATATAATC
1 -AAATTTAAACTTT-TACAAATAAAAATAAATATA-ACTC-TAAAAATTTAAACTCG-TATAATC
* *
2751393 ATATCTAAAAAA
61 ATACCCAAAAAA
2751405 CATATTATAC
Statistics
Matches: 358, Mismatches: 49, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
70 33 0.09
71 85 0.24
72 87 0.24
73 89 0.25
74 62 0.17
75 2 0.01
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (73 bp):
AAATTTAAACTTTTACAAATAAAAATAAATATAACTCTAAAAATTTAAACTCGTATAATCATACC
CAAAAAAT
Found at i:2751012 original size:25 final size:26
Alignment explanation
Indices: 2750966--2751017 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2750956 AAGTAACCCA
**
2750966 AAAAATAAATTTAAACTTTTAAAAAT
1 AAAAATAAATTTAAACCATTAAAAAT
*
2750992 AAAAATAAA-TTATACCATTAAAAAT
1 AAAAATAAATTTAAACCATTAAAAAT
2751017 A
1 A
2751018 TAAACTCGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAAATAAATTTAAACCATTAAAAAT
Found at i:2751165 original size:71 final size:72
Alignment explanation
Indices: 2750901--2751404 Score: 460
Period size: 72 Copynumber: 7.0 Consensus size: 72
2750891 TTTAAATAAA
* * *
2750901 AATTTAAACTCCTACAAATAAAAATACATAATAACT-TAAAAATTTAAACTCGTATAAGT-A-AC
1 AATTTAAACTTCTACAAATAAAAATAAATTAT-ACTCTAAAAATTTAAACTCGTATAA-TCATAC
2750963 CCAAAAAAT
64 CCAAAAAAT
* * *
2750972 AAATTTAAACTTTTAAAAATAAAAATAAATTATAC-CATTAAAAATATAAACTCGTATAATCATA
1 -AATTTAAACTTCTACAAATAAAAATAAATTATACTC--TAAAAATTTAAACTCGTATAATCATA
*
2751036 CCGAAAAAAT
63 CCCAAAAAAT
* * * * * * *
2751046 ACATTTAAATTTCTATAAATGAAAAT-AAGTATACTATCAAAATTTAAACTCGTATAATTATA-C
1 A-ATTTAAACTTCTACAAATAAAAATAAATTATACTCTAAAAATTTAAACTCGTATAATCATACC
2751109 CAAAAAAT
65 CAAAAAAT
* * * *
2751117 AATTTAAACTTCTAGAAATAAAGATAAATAATACTCTAAAAATTTAAACTCGTGTAATCA-ACCC
1 AATTTAAACTTCTACAAATAAAAATAAATTATACTCTAAAAATTTAAACTCGTATAATCATACCC
*
2751181 AAAAAACA
66 AAAAAA-T
* * * * **
2751189 AATTTGAACTTTTACAAATAAAAATAAATTATA-TCATCAAAAATATAAACTCATGCAATCATAC
1 AATTTAAACTTCTACAAATAAAAATAAATTATACTC-T-AAAAATTTAAACTCGTATAATCATAC
2751253 CCAAAAAACAT
64 CC-AAAAA-AT
* * *
2751264 AA-TTAAATTTCTACAAAT-AAAA-AAATTACACTCTAAAAATTTAAACTCATATAATCATACCC
1 AATTTAAACTTCTACAAATAAAAATAAATTATACTCTAAAAATTTAAACTCGTATAATCATACCC
2751326 -AAAAAT
66 AAAAAAT
* * * * *
2751332 CAAATTTAAATTTCTGCAAACAAAAATAAATTATAC-CATAAAAATATAAA-TTGATATAATCAT
1 --AATTTAAACTTCTACAAATAAAAATAAATTATACTC-TAAAAATTTAAACTCG-TATAATCAT
* *
2751395 ATCTAAAAAA
62 ACCCAAAAAA
2751405 CATATTATAC
Statistics
Matches: 356, Mismatches: 52, Indels: 46
0.78 0.11 0.10
Matches are distributed among these distances:
68 2 0.01
69 4 0.01
70 23 0.06
71 88 0.25
72 94 0.26
73 85 0.24
74 52 0.15
75 7 0.02
76 1 0.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (72 bp):
AATTTAAACTTCTACAAATAAAAATAAATTATACTCTAAAAATTTAAACTCGTATAATCATACCC
AAAAAAT
Found at i:2751275 original size:216 final size:216
Alignment explanation
Indices: 2750900--2751381 Score: 605
Period size: 216 Copynumber: 2.2 Consensus size: 216
2750890 ATTTAAATAA
* * *
2750900 AAATTTAAACTCCTACAAATAAAAATACATAATAACT-TAAAAATTTAAACTCGTATAAGTAACC
1 AAATTTAAACTTCTAGAAATAAAAATAAATAAT-ACTCTAAAAATTTAAACTCGTATAAGTAACC
* * * *
2750964 CAAAAAATAAATTTAAACTTTTAAAAATAAAAATAAATTATACCATTAAAAATATAAACTCGTAT
65 CAAAAAACAAATTTAAACTTTTAAAAATAAAAATAAATTATACCATCAAAAATATAAACTCATAC
* * * * * * *
2751029 AATCATACCGAAAAAATACATTTAAATTTCTATAAATGAAAATAAGTATACTATCAAAATTTAAA
130 AATCATACCCAAAAAACACAATTAAATTTCTACAAAT-AAAAAAAGTACACTATAAAAATTTAAA
* *
2751094 CTCGTATAATTATACCAAAAAAT
194 CTCATATAATCATACCAAAAAAT
* *
2751117 -AATTTAAACTTCTAGAAATAAAGATAAATAATACTCTAAAAATTTAAACTCGTGTAA-TCAACC
1 AAATTTAAACTTCTAGAAATAAAAATAAATAATACTCTAAAAATTTAAACTCGTATAAGT-AACC
* * * *
2751180 CAAAAAACAAATTTGAACTTTTACAAATAAAAATAAATTATATCATCAAAAATATAAACTCATGC
65 CAAAAAACAAATTTAAACTTTTAAAAATAAAAATAAATTATACCATCAAAAATATAAACTCATAC
* * *
2751245 AATCATACCCAAAAAACATAATTAAATTTCTACAAATAAAAAAATTACACTCTAAAAATTTAAAC
130 AATCATACCCAAAAAACACAATTAAATTTCTACAAATAAAAAAAGTACACTATAAAAATTTAAAC
*
2751310 TCATATAATCATACCCAAAAAT
195 TCATATAATCATACCAAAAAAT
* * * *
2751332 CAAATTTAAATTTCT-GCAAACAAAAATAAATTATAC-CATAAAAATATAAA
1 -AAATTTAAACTTCTAG-AAATAAAAATAAATAATACTC-TAAAAATTTAAA
2751382 TTGATATAAT
Statistics
Matches: 228, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
215 46 0.20
216 143 0.63
217 39 0.17
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (216 bp):
AAATTTAAACTTCTAGAAATAAAAATAAATAATACTCTAAAAATTTAAACTCGTATAAGTAACCC
AAAAAACAAATTTAAACTTTTAAAAATAAAAATAAATTATACCATCAAAAATATAAACTCATACA
ATCATACCCAAAAAACACAATTAAATTTCTACAAATAAAAAAAGTACACTATAAAAATTTAAACT
CATATAATCATACCAAAAAAT
Found at i:2751439 original size:120 final size:120
Alignment explanation
Indices: 2751299--2751526 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 120
2751289 TTACACTCTA
* * * * *
2751299 AAAATTTAAACTCATATAATCATACCCAA-AAATCAAATTTAAATTTCTGCAAACAAAAATAAAT
1 AAAACTTAAACTCATATAATCA-AACCAAGAAAACAAATTTAAACTTCTACAAACAAAAATAAAT
* *
2751363 TATACCATAAAAATATAAA-TTGATATAATCATATCTAAAAAACATATTATACTATC
65 TATACCATAAAAATATAAACTCG-TACAATCATATCTAAAAAACATATTATACTATC
* * *
2751419 AAAACTTAAACTCGTATAATCAAACCAAGAAAACACATTTAAACTTCTACAAATAAAAATAAATT
1 AAAACTTAAACTCATATAATCAAACCAAGAAAACAAATTTAAACTTCTACAAACAAAAATAAATT
* * *
2751484 ATACCTTAAAAATTTAAACTCGTACAATCATATCTAAGAAACA
66 ATACCATAAAAATATAAACTCGTACAATCATATCTAAAAAACA
2751527 AATTTAAACT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
119 5 0.05
120 86 0.92
121 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (120 bp):
AAAACTTAAACTCATATAATCAAACCAAGAAAACAAATTTAAACTTCTACAAACAAAAATAAATT
ATACCATAAAAATATAAACTCGTACAATCATATCTAAAAAACATATTATACTATC
Found at i:2751526 original size:73 final size:73
Alignment explanation
Indices: 2751419--2751999 Score: 548
Period size: 73 Copynumber: 7.9 Consensus size: 73
2751409 TTATACTATC
* * *
2751419 AAAACTTAAACTCGTATAATCA-AACCAAGAAAACACATTTAAACTTCTACAAATAAAAATAAAT
1 AAAATTTAAACTCGTATAATCATATCCAA-AAAACAAATTTAAACTTCTACAAATAAAAATAAAT
2751483 TATACCTTA
65 TATACCTTA
* * * *
2751492 AAAATTTAAACTCGTACAATCATATCTAAGAAACAAATTTAAACTTTTACAAATAAAAATAAATT
1 AAAATTTAAACTCGTATAATCATATCCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATT
2751557 ATA-CTATAA
66 ATACCT-T-A
* * * * * * *
2751566 AAAATATAAACTCATATAATTATA-CCAAAAAAGCACATTTAAACTCCCACAAATTAAAATAAAT
1 AAAATTTAAACTCGTATAATCATATCCAAAAAA-CAAATTTAAACTTCTACAAATAAAAATAAAT
2751630 TATACCATTA
65 TATACC-TTA
* * * * * * * *
2751640 AAACTTTAAACTAGTATAATTATATCCAAAAAATAAATTTAAATTTCTACAAATAAATATTAATA
1 AAAATTTAAACTCGTATAATCATATCCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATT
2751705 ATACCTTA
66 ATACCTTA
* * * * *
2751713 AAAATTTGAACTCATATAATTAAAT-CAAAAAATAAATTTAAACTTCTACAAATAAAAATAAATT
1 AAAATTTAAACTCGTATAATCATATCCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATT
**
2751777 ATATATTTA
66 ATA-CCTTA
* * * * * * *
2751786 AAAATTTAAATTCGTATAATCATACCCAAAAAAGC--ATTGAAATTTTTATAAATCAAAATAAAT
1 AAAATTTAAACTCGTATAATCATATCCAAAAAA-CAAATTTAAACTTCTACAAATAAAAATAAAT
*
2751849 TATATCTTA
65 TATACCTTA
*** * * * * *
2751858 AAAATTTATTTTCGAATAATTAAAT-AAAAAAATAAATTTAAAACTTCTACAAATAAAAATAAAT
1 AAAATTTAAACTCGTATAATCATATCCAAAAAACAAATTT-AAACTTCTACAAATAAAAATAAAT
*
2751922 TATACCTTC
65 TATACCTTA
** * * * *
2751931 AAAATTTAAACTTATATAATCATA-CCTTATAAAGAAATTTAAACTTTTACAAATAAAAATAAAT
1 AAAATTTAAACTCGTATAATCATATCC-AAAAAACAAATTTAAACTTCTACAAATAAAAATAAAT
*
2751995 AATAC
65 TATAC
2752000 TTTTAATTAA
Statistics
Matches: 408, Mismatches: 85, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
71 6 0.01
72 65 0.16
73 205 0.50
74 121 0.30
75 10 0.02
76 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (73 bp):
AAAATTTAAACTCGTATAATCATATCCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATT
ATACCTTA
Found at i:2752157 original size:13 final size:13
Alignment explanation
Indices: 2752137--2752170 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
2752127 AAATCATACT
2752137 TTAA-AAAATTAC
1 TTAATAAAATTAC
2752149 TTAATAAAATTAC
1 TTAATAAAATTAC
2752162 TTAATAAAA
1 TTAATAAAA
2752171 ATCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAATAAAATTAC
Found at i:2752443 original size:13 final size:14
Alignment explanation
Indices: 2752419--2752448 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2752409 TTCAATACAA
2752419 ATTTTTTAAATTTT
1 ATTTTTTAAATTTT
2752433 ATTTTTT-AATTTT
1 ATTTTTTAAATTTT
2752446 ATT
1 ATT
2752449 AAAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTTAAATTTT
Found at i:2753300 original size:3 final size:3
Alignment explanation
Indices: 2753292--2753323 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2753282 TTTAATTAAT
2753292 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2753324 TTGTATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2758543 original size:7 final size:7
Alignment explanation
Indices: 2758531--2758567 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
2758521 TTATATTATA
2758531 TGGCACT
1 TGGCACT
2758538 TGGCACT
1 TGGCACT
2758545 TGGCACT
1 TGGCACT
*
2758552 TGACACT
1 TGGCACT
*
2758559 TAGCACT
1 TGGCACT
2758566 TG
1 TG
2758568 CAGGTACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (7 bp):
TGGCACT
Found at i:2758599 original size:3 final size:3
Alignment explanation
Indices: 2758586--2758624 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
2758576 AAATTAATTA
2758586 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2758625 ATGAAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2761843 original size:39 final size:39
Alignment explanation
Indices: 2761764--2761843 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
2761754 GATAACTCTG
*
2761764 TTTTGTTTTGTTGTTTTAATCAAAGTTTTTTATTTCTTT
1 TTTTGTTTTGTTGTTTTAATCAAAGTTTTTGATTTCTTT
* * *
2761803 TTTTGTTTTGTTTTTTTAATTATA-TCTTTTGATTT-TTT
1 TTTTGTTTTGTTGTTTTAATCAAAGT-TTTTGATTTCTTT
2761841 TTT
1 TTT
2761844 AATTTGGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 7 0.19
39 29 0.81
ACGTcount: A:0.14, C:0.04, G:0.09, T:0.74
Consensus pattern (39 bp):
TTTTGTTTTGTTGTTTTAATCAAAGTTTTTGATTTCTTT
Found at i:2762279 original size:15 final size:15
Alignment explanation
Indices: 2762254--2762293 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
2762244 CAAAACACTT
2762254 TAAAATAAAAAATAAA
1 TAAAATAAAAAAT-AA
2762270 TAAAATAAAAAATAA
1 TAAAATAAAAAATAA
*
2762285 CAAAATAAA
1 TAAAATAAA
2762294 GAGAGAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAATAAAAAATAA
Found at i:2763411 original size:18 final size:18
Alignment explanation
Indices: 2763378--2763412 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2763368 AAAATAAATT
2763378 ATTAATTTTAATATTTAA
1 ATTAATTTTAATATTTAA
2763396 ATTAACTTTTAA-ATTTA
1 ATTAA-TTTTAATATTTA
2763413 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTTTAATATTTAA
Found at i:2763623 original size:2 final size:2
Alignment explanation
Indices: 2763616--2763647 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2763606 TATTCATGCA
2763616 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2763648 CCTAGCAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2764603 original size:18 final size:19
Alignment explanation
Indices: 2764571--2764606 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2764561 AATATTAAAT
*
2764571 TTAAATATTATAAATAATA
1 TTAAATATTACAAATAATA
2764590 TTAAA-ATTACAAATAAT
1 TTAAATATTACAAATAAT
2764607 TCTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATATTACAAATAATA
Found at i:2765031 original size:24 final size:23
Alignment explanation
Indices: 2764991--2765035 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2764981 ATCAAGCAAC
2764991 AAAATTTTACGAAAGATTAAACTG
1 AAAATTTTACGAAAGA-TAAACTG
*
2765015 AAAATTTT-TGAAGAGATAAAC
1 AAAATTTTACGAA-AGATAAAC
2765036 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (23 bp):
AAAATTTTACGAAAGATAAACTG
Found at i:2766381 original size:50 final size:50
Alignment explanation
Indices: 2766306--2766538 Score: 344
Period size: 50 Copynumber: 4.6 Consensus size: 50
2766296 AAGTTTTGTC
* * *
2766306 ATTGTTGACTA-TCTTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGATCATA
* *
2766356 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTG-GCTATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGATC-ATA
*
2766406 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGATCATA
* * *
2766456 ATTGTTGACGATTCTTCACCAACCTTTGACAAATGGAGAGAGGTGATTATT
1 ATTGTTGACGATTCTTCACCAACCTTTGAC-AATAGAGAGAGGTGATCATA
2766507 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
2766539 ATGTGGCCAT
Statistics
Matches: 169, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
49 1 0.01
50 119 0.70
51 49 0.29
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGATCATA
Found at i:2766479 original size:100 final size:101
Alignment explanation
Indices: 2766306--2766538 Score: 380
Period size: 100 Copynumber: 2.3 Consensus size: 101
2766296 AAGTTTTGTC
* ** *
2766306 ATTGTTGACTA-TCTTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTAATTGTTGACGATTC
1 ATTGTTGACGATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTC
*
2766370 TTCACCAACCTTTGAC-AATAGAGAGAGGTGGCTATT
65 TTCACCAACCTTTGACAAATAGAGAGAGGTGACTATT
2766406 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCT
* *
2766471 TCACCAACCTTTGACAAATGGAGAGAGGTGATTATT
66 TCACCAACCTTTGACAAATAGAGAGAGGTGACTATT
2766507 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
2766539 ATGTGGCCAT
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
100 73 0.59
101 51 0.41
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (101 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCT
TCACCAACCTTTGACAAATAGAGAGAGGTGACTATT
Found at i:2771196 original size:51 final size:50
Alignment explanation
Indices: 2770961--2771193 Score: 376
Period size: 50 Copynumber: 4.6 Consensus size: 50
2770951 AGTTGTTGCC
* * * *
2770961 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* * *
2771011 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGACAGAGGTGACCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
2771061 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
2771111 ATTGTTGACGATTCTTCACCAACCTTTGACAAATGGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGAC-AATAGAGAGAGGTGGCCATA
2771162 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
2771194 ATGCGGCCAT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 122 0.72
51 48 0.28
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:2773352 original size:2 final size:2
Alignment explanation
Indices: 2773345--2773369 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2773335 CCATAAATAC
2773345 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2773370 TAAAAAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2779237 original size:2 final size:2
Alignment explanation
Indices: 2779230--2779273 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2779220 AATTCATTTG
2779230 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2779272 CT
1 CT
2779274 TTATTTAGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2780856 original size:24 final size:23
Alignment explanation
Indices: 2780823--2780870 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
2780813 ATTAATACAT
2780823 GCTATTAGTAATCCATCCTTAAG
1 GCTATTAGTAATCCATCCTTAAG
2780846 GCTATTTAGTAATCCATCCTTAAG
1 GCTA-TTAGTAATCCATCCTTAAG
2780870 G
1 G
2780871 TCCTGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (23 bp):
GCTATTAGTAATCCATCCTTAAG
Found at i:2783235 original size:17 final size:17
Alignment explanation
Indices: 2783215--2783252 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2783205 AAATTAATTA
*
2783215 AATTAAT-TAATTATTTT
1 AATTAATATAA-TATATT
2783232 AATTAATATAATATATT
1 AATTAATATAATATATT
2783249 AATT
1 AATT
2783253 CAAAGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTAATATAATATATT
Found at i:2783312 original size:13 final size:13
Alignment explanation
Indices: 2783294--2783332 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
2783284 TTTGATCAAT
2783294 AAAAATTTAATAA
1 AAAAATTTAATAA
2783307 AAAAATTTAAATAA
1 AAAAATTT-AATAA
*
2783321 ATAAAAATTAAT
1 A-AAAATTTAAT
2783333 TTTATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 9 0.39
15 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTAATAA
Found at i:2783319 original size:14 final size:14
Alignment explanation
Indices: 2783294--2783331 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2783284 TTTGATCAAT
2783294 AAAAATTT-AATAA
1 AAAAATTTAAATAA
2783307 AAAAATTTAAATAA
1 AAAAATTTAAATAA
*
2783321 ATAAAAATTAA
1 A-AAAATTTAA
2783332 TTTTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATTTAAATAA
Found at i:2783434 original size:21 final size:21
Alignment explanation
Indices: 2783393--2783461 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
2783383 AAATTTTTAA
2783393 TATATTAATTTAAGATT-AATAAT
1 TATATT-A-TTAA-ATTAAATAAT
2783416 TATATTATTAAATTAAAT-AT
1 TATATTATTAAATTAAATAAT
* *
2783436 ATATTTTATT-AATTATA-AAT
1 -TATATTATTAAATTAAATAAT
2783456 TATATT
1 TATATT
2783462 TAATATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 5 0.12
20 13 0.32
21 15 0.38
22 1 0.03
23 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TATATTATTAAATTAAATAAT
Found at i:2783462 original size:21 final size:20
Alignment explanation
Indices: 2783420--2783462 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
2783410 AATAATTATA
2783420 TTATTAAATTAAATATATATT
1 TTATTAAATTAAAT-TATATT
*
2783441 TTATTAATTATAAATTATATT
1 TTATTAAAT-TAAATTATATT
2783462 T
1 T
2783463 AATATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAAATTAAATTATATT
Found at i:2783882 original size:15 final size:18
Alignment explanation
Indices: 2783854--2783890 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2783844 AATTTATATT
2783854 TAAATATATATTAAAT-A
1 TAAATATATATTAAATAA
2783871 TAAATAT-T-TTAAATAA
1 TAAATATATATTAAATAA
2783887 TAAA
1 TAAA
2783891 AAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATATATTAAATAA
Found at i:2784570 original size:13 final size:14
Alignment explanation
Indices: 2784552--2784589 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
2784542 GACTAATGCA
2784552 TAGATTGTAAATG-
1 TAGATTGTAAATGT
2784565 TAGATTGTAAATGT
1 TAGATTGTAAATGT
2784579 TAGATTGTAAA
1 TAGATTGTAAA
2784590 AAATAGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (14 bp):
TAGATTGTAAATGT
Found at i:2785094 original size:12 final size:12
Alignment explanation
Indices: 2785077--2785136 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
2785067 TAAGAGTTTA
2785077 TCATTGTTATTT
1 TCATTGTTATTT
* *
2785089 TCATTGTCATTA
1 TCATTGTTATTT
2785101 TCATT-TTCATTT
1 TCATTGTT-ATTT
*
2785113 TCATTCTTATTT
1 TCATTGTTATTT
*
2785125 T-TTTGTTATTT
1 TCATTGTTATTT
2785136 T
1 T
2785137 TCTAAATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 10 0.25
12 28 0.70
13 2 0.05
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.67
Consensus pattern (12 bp):
TCATTGTTATTT
Found at i:2785124 original size:18 final size:18
Alignment explanation
Indices: 2785077--2785125 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2785067 TAAGAGTTTA
*
2785077 TCATTGTTATTTTCATTG
1 TCATTATTATTTTCATTG
* *
2785095 TCATTATCATTTTCATTT
1 TCATTATTATTTTCATTG
*
2785113 TCATTCTTATTTT
1 TCATTATTATTTT
2785126 TTTGTTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.18, C:0.14, G:0.04, T:0.63
Consensus pattern (18 bp):
TCATTATTATTTTCATTG
Found at i:2788544 original size:23 final size:21
Alignment explanation
Indices: 2788518--2788577 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
2788508 TAAAATAAAT
2788518 TAAATTTTTAAAAACTAATTTAA
1 TAAATTTTTAAAAA-T-ATTTAA
*
2788541 TAAAATTTAATAAAAATATTTAA
1 T-AAATTT-TTAAAAATATTTAA
*
2788564 -AAAATTTTAAAAAT
1 TAAATTTTTAAAAAT
2788578 TATAAACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.22
21 5 0.16
23 7 0.22
24 7 0.22
25 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTTTAAAAATATTTAA
Found at i:2791933 original size:73 final size:72
Alignment explanation
Indices: 2791799--2792349 Score: 563
Period size: 73 Copynumber: 7.6 Consensus size: 72
2791789 CTTTAAACTC
* * * * *
2791799 AAAACAAATTTAAACTTATACAAATAAAGATAACTAATACATTAAAAATTTAAACTCGTATAATT
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATT
2791864 AACCTAA
66 AACCTAA
* * * *
2791871 AAAATAAATTTAAACTTTTATAAATAAAAAATAAATTATACCATAAAAATATAAACTCGTATAAT
1 AAAACAAATTTAAACTTTTACAAAT-AAAAATAAATTATACCTTAAAAATTTAAACTCGTATAAT
*
2791936 TATACC-CA
65 TA-ACCTAA
* * * * *
2791944 AAAATATATTTAAAC-TTAACAAATAAAAATAAATTATATCC-TAAAAAATTAAACTAGTATAAT
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATA-CCTTAAAAATTTAAACTCGTATAAT
* *
2792007 CATCCTCAA
65 TAACCT-AA
** * * * * * *
2792016 AAAGTAAATTTAAACTTTTACAAATAAAGATAAATAATACCCTAAAAGTTTAAACTCGGATAATC
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATT
*
2792081 AAACTAA
66 AACCTAA
* * * * * *
2792088 AAAATAAATTTAAACTTCTATAAATAAAAATAAAATATACCTTTAAAATTTAAACTCATATAATT
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATT
2792153 ATACCTAA
66 A-ACCTAA
* * * *
2792161 AAAACACATTTAAACTTTTATAAATCAAAATAAATTATACCTTAAAAATTTAAACTCGCATAA-T
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATT
**
2792225 AAAATAA
66 AACCTAA
* * *
2792232 CAAACAAATATAAACTTGTACAAATAAAAA-AAATTATACCTTCAAATGAATTTAAACTCGTATA
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTT-AAA--AATTTAAACTCGTATA
* * *
2792296 ATCATATCTTA
63 ATTA-ACCTAA
* * *
2792307 CAAACGAATTTAAACTTTTACAAATAAAAATAAATAATACCTT
1 AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTT
2792350 TAATCAAGTT
Statistics
Matches: 397, Mismatches: 68, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
70 14 0.04
71 65 0.16
72 105 0.26
73 168 0.42
74 4 0.01
75 30 0.08
76 11 0.03
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (72 bp):
AAAACAAATTTAAACTTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATT
AACCTAA
Found at i:2792041 original size:145 final size:145
Alignment explanation
Indices: 2791806--2792347 Score: 534
Period size: 145 Copynumber: 3.7 Consensus size: 145
2791796 CTCAAAACAA
* * * * * *
2791806 ATTTAAACTT-ATACAAATAAAGATAACTAATACATTAAAAATTTAAACTCGTATAATTA-ACCT
1 ATTTAAACTTCA-ACAAATAAAAATAAATTATACCTTAAAAATTTAAACTAGTATAATCATACCT
* * * *
2791869 AAAAAATAAATTTAAACTTTTATAAATAAAAAATAAATTATACCATAAAAATATAAACTCGTATA
65 AAAAAATAAATTTAAACTTTTACAAAT-AAAAATAAATAATACCATAAAAATTTAAACTCGCATA
* *
2791934 ATTATACCCAAAAATAT
129 ATAATACACAAAAATAT
*
2791951 ATTTAAACTT-AACAAATAAAAATAAATTATATCC-TAAAAAATTAAACTAGTATAATCAT-CCT
1 ATTTAAACTTCAACAAATAAAAATAAATTATA-CCTTAAAAATTTAAACTAGTATAATCATACCT
* * * * *
2792013 CAAAAAGTAAATTTAAACTTTTACAAATAAAGATAAATAATACCCTAAAAGTTTAAACTCGGATA
65 -AAAAAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCATAAAAATTTAAACTCGCATA
*
2792078 ATCAA-ACTA-AAAAATAA
129 AT-AATAC-ACAAAAATAT
* * * * *
2792095 ATTTAAACTTCTATAAATAAAAATAAAATATACCTTTAAAATTTAAACTCA-TATAATTATACCT
1 ATTTAAACTTCAACAAATAAAAATAAATTATACCTTAAAAATTTAAACT-AGTATAATCATACCT
* * * * * *
2792159 AAAAAACACATTTAAACTTTTATAAATCAAAATAAATTATACCTTAAAAATTTAAACTCGCATAA
65 AAAAAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCATAAAAATTTAAACTCGCATAA
2792224 TAAAATA-ACAAACAA-AT
130 T--AATACACAAA-AATAT
** * *
2792241 A--TAAACTTGTACAAATAAAAA-AAATTATACCTTCAAATGAATTTAAACTCGTATAATCATAT
1 ATTTAAACTTCAACAAATAAAAATAAATTATACCTT-AAA--AATTTAAACTAGTATAATCATAC
* * **
2792303 CTTACAAACGAATTTAAACTTTTACAAATAAAAATAAATAATACC
63 CTAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATAATACC
2792348 TTTAATCAAG
Statistics
Matches: 330, Mismatches: 50, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
143 11 0.03
144 115 0.35
145 133 0.40
146 68 0.21
147 3 0.01
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (145 bp):
ATTTAAACTTCAACAAATAAAAATAAATTATACCTTAAAAATTTAAACTAGTATAATCATACCTA
AAAAATAAATTTAAACTTTTACAAATAAAAATAAATAATACCATAAAAATTTAAACTCGCATAAT
AATACACAAAAATAT
Found at i:2792718 original size:77 final size:73
Alignment explanation
Indices: 2792629--2792771 Score: 205
Period size: 77 Copynumber: 1.9 Consensus size: 73
2792619 TTTTATTTTT
* * * *
2792629 ATTTTTTTATTTTATTAAAAATTAATAATTAATATTTTGATTTTTAAATATAATTTTTTAAAATT
1 ATTTTTTAATTTTATTAAAAATCAATAATTAATATATT-AATTTT-AATATAATTTTTT--AATT
2792694 TAATTTAATTAA
62 TAATTTAATTAA
*
2792706 ATTTTTTAATTTTATTAAAAATCGATAATTAATATATTAATTTTAATATAATTTTTTAATTTAAT
1 ATTTTTTAATTTTATTAAAAATCAATAATTAATATATTAATTTTAATATAATTTTTTAATTTAAT
2792771 T
66 T
2792772 AAATCTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
73 9 0.15
75 13 0.21
76 5 0.08
77 34 0.56
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (73 bp):
ATTTTTTAATTTTATTAAAAATCAATAATTAATATATTAATTTTAATATAATTTTTTAATTTAAT
TTAATTAA
Found at i:2792768 original size:18 final size:17
Alignment explanation
Indices: 2792731--2792805 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 17
2792721 TAAAAATCGA
* *
2792731 TAATTAATATATTAATTT
1 TAATTAATTTTTTAA-TT
2792749 TAATATAATTTTTTAATT
1 TAAT-TAATTTTTTAATT
2792767 TAATTAAATCTTTTT-ATT
1 TAATT-AAT-TTTTTAATT
* *
2792785 AAATTTTATTTTTTTAATT
1 TAA--TTAATTTTTTAATT
2792804 TA
1 TA
2792806 TCTCGAGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 23 0.50
19 20 0.43
20 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTAATTTTTTAATT
Done.