Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 161 of 230
Found at i:47722645 original size:18 final size:18
Alignment explanation
Indices: 47722592--47722650 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
47722582 AATTTGAAGT
47722592 AAAAAAATTCGAG-ATT-
1 AAAAAAATTCGAGTATTA
*
47722608 AAAAAAATACGAAGTA-TA
1 AAAAAAATTCG-AGTATTA
*
47722626 AAAAAAATTCGTGTATTA
1 AAAAAAATTCGAGTATTA
47722644 AAAAAAA
1 AAAAAAA
47722651 AGTGAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.28
17 6 0.17
18 20 0.56
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (18 bp):
AAAAAAATTCGAGTATTA
Found at i:47724759 original size:18 final size:17
Alignment explanation
Indices: 47724733--47724774 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47724723 ACAAAAGAAC
* *
47724733 ATGAAAAAGAAAATAAAA
1 ATGAGAAAG-AAAGAAAA
47724751 ATGAGAAAGAAAGAAAA
1 ATGAGAAAGAAAGAAAA
47724768 AT-AGAAA
1 ATGAGAAA
47724775 AATCGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (17 bp):
ATGAGAAAGAAAGAAAA
Found at i:47724811 original size:16 final size:17
Alignment explanation
Indices: 47724786--47724823 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
47724776 ATCGAGAGAA
*
47724786 AAAAATTGAGCGTTGAG
1 AAAAATTGAGAGTTGAG
*
47724803 AAAAA-TGAGAGTTTAG
1 AAAAATTGAGAGTTGAG
47724819 AAAAA
1 AAAAA
47724824 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (17 bp):
AAAAATTGAGAGTTGAG
Found at i:47727380 original size:27 final size:27
Alignment explanation
Indices: 47727344--47727398 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
47727334 TGGTAGGTGA
47727344 AAATGTTCATAAGTTAGCAAATTACTG
1 AAATGTTCATAAGTTAGCAAATTACTG
47727371 AAATGTTCATAAGTTAGCAAATTACTG
1 AAATGTTCATAAGTTAGCAAATTACTG
47727398 A
1 A
47727399 GTTGCCGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (27 bp):
AAATGTTCATAAGTTAGCAAATTACTG
Found at i:47736494 original size:27 final size:26
Alignment explanation
Indices: 47736464--47736551 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
47736454 AATTTTCCAT
47736464 AAAGGCATCCCTTTTAGAGTTCGCCAC
1 AAAGGCAT-CCTTTTAGAGTTCGCCAC
* * ** * *
47736491 AAAGACTATTCTTTTTTATTTTGCCAC
1 AAAGGC-ATCCTTTTAGAGTTCGCCAC
* *
47736518 AGAGGCCATTCTTTTTAGAGTTCGCCAC
1 AAAGG-CA-TCCTTTTAGAGTTCGCCAC
47736546 AAAGGC
1 AAAGGC
47736552 TATTCTTAGT
Statistics
Matches: 43, Mismatches: 15, Indels: 6
0.67 0.23 0.09
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (26 bp):
AAAGGCATCCTTTTAGAGTTCGCCAC
Found at i:47736545 original size:28 final size:28
Alignment explanation
Indices: 47736475--47736558 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
47736465 AAGGCATCCC
*
47736475 TTTTAGAGTTCGCCACAAAGACTATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
* * * * *
47736503 TTTT-TATTTTGCCACAGAGGCCATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
47736530 TTTTAGAGTTCGCCACAAAGGCTATTCT
1 TTTTAGAGTTCGCCACAAAGGCTATTCT
47736558 T
1 T
47736559 AGTTGTCGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 21 0.48
28 23 0.52
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTTAGAGTTCGCCACAAAGGCTATTCT
Found at i:47740732 original size:47 final size:46
Alignment explanation
Indices: 47740632--47740790 Score: 194
Period size: 47 Copynumber: 3.4 Consensus size: 46
47740622 GTCACAGTAA
47740632 TGCAGATAAACTGTCACTTATAATATTATGGACAAA-CCACCACTTT
1 TGCAGATAAACTGTCACTTATAATATTATGGA-AAAGCCACCACTTT
* * * *
47740678 TACAGATAAACTGTCAGTTAATAACATTGTGGAAAAGCCACCACTTT
1 TGCAGATAAACTGTCACTT-ATAATATTATGGAAAAGCCACCACTTT
* * * *
47740725 TGTAGATAAATTGCCACTTTATAATATTATGGACAAGCCACCACTTT
1 TGCAGATAAACTGTCAC-TTATAATATTATGGAAAAGCCACCACTTT
* *
47740772 TGCAAATAAACTGCCACTT
1 TGCAGATAAACTGTCACTT
47740791 CTTCCTCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 22 0.23
47 71 0.75
48 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (46 bp):
TGCAGATAAACTGTCACTTATAATATTATGGAAAAGCCACCACTTT
Found at i:47740861 original size:20 final size:20
Alignment explanation
Indices: 47740836--47740875 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47740826 ATATGGCCAC
*
47740836 AAAAATCACTTTTTCACTTT
1 AAAAATCAATTTTTCACTTT
47740856 AAAAATCAATTTTTCACTTT
1 AAAAATCAATTTTTCACTTT
47740876 GTCATGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATCAATTTTTCACTTT
Found at i:47743429 original size:21 final size:21
Alignment explanation
Indices: 47743404--47743450 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
47743394 ATTAGGTTTA
47743404 TTAAAAGTAAAAAAAGTAA-AT
1 TTAAAAGTAAAAAAA-TAATAT
* *
47743425 TT-AAATTCAAAAAATAATAT
1 TTAAAAGTAAAAAAATAATAT
47743445 TTAAAA
1 TTAAAA
47743451 AATAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
TTAAAAGTAAAAAAATAATAT
Found at i:47743451 original size:15 final size:15
Alignment explanation
Indices: 47743433--47743469 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
47743423 ATTTAAATTC
47743433 AAAAAAT-AATATTT
1 AAAAAATAAATATTT
47743447 AAAAAATAAATATTT
1 AAAAAATAAATATTT
*
47743462 TAAAAATA
1 AAAAAATA
47743470 TCATTGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATAAATATTT
Found at i:47749966 original size:8 final size:8
Alignment explanation
Indices: 47749916--47749966 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
47749906 CTATATTTGG
*
47749916 ATTATTAT
1 ATTATTAA
47749924 ATTATTAA
1 ATTATTAA
* *
47749932 ATTACTAT
1 ATTATTAA
47749940 ATTA-TATA
1 ATTATTA-A
*
47749948 ATTATTTA
1 ATTATTAA
47749956 ATTATTAA
1 ATTATTAA
47749964 ATT
1 ATT
47749967 TAAATTTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 2 0.06
8 32 0.91
9 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTATTAA
Found at i:47751888 original size:40 final size:38
Alignment explanation
Indices: 47751817--47751939 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 38
47751807 TAATTATTGA
* *
47751817 TGAATGCACATACGTGCCCCTATTTGCACTTCGCTACCCC
1 TGAATGCA-ATACGTGCCCCTGTTTGTACTTCG-TACCCC
* *
47751857 TGAAAGCAGATACGTTCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCA-ATACGTGCCCCTGTTTGTACTTC-GTACCCC
* * *
47751897 TGAATGCAACACGTGCCCCAGTTTATACTTCGATACCCC
1 TGAATGCAATACGTGCCCCTGTTTGTACTTCG-TACCCC
47751936 TGAA
1 TGAA
47751940 CGTACATACG
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 29 0.41
40 40 0.56
41 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (38 bp):
TGAATGCAATACGTGCCCCTGTTTGTACTTCGTACCCC
Found at i:47753586 original size:35 final size:35
Alignment explanation
Indices: 47753533--47753649 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
47753523 AATCCAACCA
* **
47753533 AAACATACCAAATGCTCATAAGAGCTACTCCATCCG
1 AAACAAACC-AATGCTCATAAGAGCTAAACCATCCG
* * *
47753569 AAATAAACCAATGCTCATATGAGCTAAACCATCTG
1 AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
* * *
47753604 AAACATACCCATGCTCATACGAGCTAAACCATCCG
1 AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
*
47753639 AAACACACCAA
1 AAACAAACCAA
47753650 AACAGAGAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 61 0.90
36 7 0.10
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.18
Consensus pattern (35 bp):
AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
Found at i:47761045 original size:35 final size:35
Alignment explanation
Indices: 47760962--47761123 Score: 184
Period size: 35 Copynumber: 4.6 Consensus size: 35
47760952 GTACATCAAG
* *
47760962 AATCCAACCAAAACACACCAGATGCTCATAAGAGCT
1 AATCCATCCAAAACACACCA-ATGCTCATATGAGCT
* *
47760998 AATCCATTCAAAACACACCAATGCCCATATGAGCT
1 AATCCATCCAAAACACACCAATGCTCATATGAGCT
* *
47761033 AGA-CCATCCAAAACACACTAATGCTTATATGAGCT
1 A-ATCCATCCAAAACACACCAATGCTCATATGAGCT
* ** *
47761068 AAACCATCTGAAACACACCAATGCTCATCA-GATCT
1 AATCCATCCAAAACACACCAATGCTCAT-ATGAGCT
*
47761103 AATCCATCCGAAACACACCAA
1 AATCCATCCAAAACACACCAA
47761124 AACATAGAGT
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.01
35 87 0.81
36 20 0.19
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.18
Consensus pattern (35 bp):
AATCCATCCAAAACACACCAATGCTCATATGAGCT
Found at i:47781166 original size:44 final size:44
Alignment explanation
Indices: 47781116--47781392 Score: 200
Period size: 44 Copynumber: 6.1 Consensus size: 44
47781106 AGTGTAAGGA
* * *
47781116 AGCAGATTTAAGCCACAAATCTTATCTCCCTGAGATTACAGCGG
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
* * * *
47781160 AGCAGATAGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
* *** * * *
47781204 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGCCAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--G
* * *
47781253 ATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCAG
1 A--G---CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
* *
47781302 AGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGG
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
** * * *
47781346 AGCAGATAAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
47781390 AGC
1 AGC
47781393 GAATTAAAAT
Statistics
Matches: 185, Mismatches: 32, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 139 0.75
47 4 0.02
49 4 0.02
51 3 0.02
54 23 0.12
55 4 0.02
56 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (44 bp):
AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
Found at i:47781385 original size:142 final size:142
Alignment explanation
Indices: 47781118--47781387 Score: 382
Period size: 142 Copynumber: 1.9 Consensus size: 142
47781108 TGTAAGGAAG
* * * * *
47781118 CAGATTTAAGCCACAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATAGAAGCTAGTAATCCT
1 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATAGAAGCCAGTAATCCT
* * * * * *
47781183 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGAAAGAATCCTATCTCCCTGAAGTTACAGTAG
47781248 AGTAGATCGCAT
131 AGTAGATCGCAT
*
47781260 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATAGAAGCCAGTAATCCT
**
47781325 ATCTCCCTGAGATTACAGCGGAGCAGA-TAAAAGCTAGTAATCCTATCTCCCTG-AGATTACAGT
66 ATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGAAAG-AATCCTATCTCCCTGAAG-TTACAGT
47781388 GGAGCGAATT
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
141 9 0.08
142 103 0.92
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (142 bp):
CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATAGAAGCCAGTAATCCT
ATCTCCCTGAGATTACAGCGGAGCAGATTAAAAGAAAGAATCCTATCTCCCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:47781704 original size:16 final size:16
Alignment explanation
Indices: 47781680--47781717 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
47781670 GGAAATAAAC
47781680 AAAAAAAAC-ACAAAT
1 AAAAAAAACAACAAAT
47781695 AAAAACAAACAACAAAT
1 AAAAA-AAACAACAAAT
47781712 AAAAAA
1 AAAAAA
47781718 TAGTCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 11 0.52
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAAAAACAACAAAT
Found at i:47781717 original size:19 final size:18
Alignment explanation
Indices: 47781672--47781717 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
47781662 AATCAGAAGG
47781672 AAATAAACAAAAAAAACAC
1 AAATAAA-AAAAAAAACAC
* *
47781691 AAATAAAAACAAACA-AC
1 AAATAAAAAAAAAAACAC
47781708 AAATAAAAAA
1 AAATAAAAAA
47781718 TAGTCCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 6 0.25
19 7 0.29
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (18 bp):
AAATAAAAAAAAAAACAC
Found at i:47783167 original size:17 final size:15
Alignment explanation
Indices: 47783127--47783168 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
47783117 TTCCAAATTC
*
47783127 TTTTTAAATAAATCA
1 TTTTTTAATAAATCA
47783142 TTTTTTAATAAATCA
1 TTTTTTAATAAATCA
47783157 TTATTTTTAATA
1 -T-TTTTTAATA
47783169 TCTTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 1 0.04
17 9 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTTAATAAATCA
Found at i:47784529 original size:13 final size:14
Alignment explanation
Indices: 47784511--47784540 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47784501 GCAAAATTGT
47784511 AATTT-AGTAATTA
1 AATTTAAGTAATTA
47784524 AATTTAAGTAATTA
1 AATTTAAGTAATTA
47784538 AAT
1 AAT
47784541 AGTTAGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTAAGTAATTA
Found at i:47785420 original size:40 final size:40
Alignment explanation
Indices: 47785376--47785551 Score: 210
Period size: 40 Copynumber: 4.4 Consensus size: 40
47785366 ATTATTTATG
* ** * *
47785376 AATGCACATACATGCCTTTATTTGTAGTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
*
47785416 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
* *
47785456 AATGCACATACGTGCCCCTATTTGTACTTCAATACCCCTG
1 AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
* * * * **
47785496 AATGCACAAACGTGCCCCTGTTTGTACTTGGGTACCCCCG
1 AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
*
47785536 AACGCACATAC-TGCCC
1 AATGCACATACGTGCCC
47785552 TGTTTATACT
Statistics
Matches: 119, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 5 0.04
40 114 0.96
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTATTTGTACTTCGATACCCCTA
Found at i:47785473 original size:20 final size:20
Alignment explanation
Indices: 47785410--47785475 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
47785400 TAGTTCGGTA
47785410 CCCCTAAATGCACATACGTG
1 CCCCTAAATGCACATACGTG
*** * * *
47785430 CCCCTGTTTGTAC-TTCGATA
1 CCCCTAAATGCACATACG-TG
47785450 CCCCTAAATGCACATACGTG
1 CCCCTAAATGCACATACGTG
47785470 CCCCTA
1 CCCCTA
47785476 TTTGTACTTC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.26
Consensus pattern (20 bp):
CCCCTAAATGCACATACGTG
Found at i:47787300 original size:12 final size:12
Alignment explanation
Indices: 47787283--47787307 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47787273 TCTCCATTTC
47787283 TTTTCTTCTTCT
1 TTTTCTTCTTCT
47787295 TTTTCTTCTTCT
1 TTTTCTTCTTCT
47787307 T
1 T
47787308 CTTCCAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTCT
Found at i:47787367 original size:20 final size:20
Alignment explanation
Indices: 47787339--47787379 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47787329 AAATTGGGTT
*
47787339 TCCACCGTGGCTAGTTAACG
1 TCCAACGTGGCTAGTTAACG
*
47787359 TCCAACGTGGGTAGTTAACG
1 TCCAACGTGGCTAGTTAACG
47787379 T
1 T
47787380 GCCACATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (20 bp):
TCCAACGTGGCTAGTTAACG
Found at i:47788696 original size:4 final size:4
Alignment explanation
Indices: 47788687--47788721 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
47788677 AAGTACGTAT
*
47788687 AATA AATA AATA AATA AATA AATA AA-A TATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA
47788722 GTAAATCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 26 0.93
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:47790773 original size:94 final size:94
Alignment explanation
Indices: 47790610--47790799 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 94
47790600 AAATTGCCAA
* * *
47790610 GTAATAGTGCTGTAACGTGTAGTTTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAG
1 GTAATAGTGCAGTAACGTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
*
47790675 TCCTGTGAAATAGAATTCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
*
47790704 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
1 GTAATAGTGCAGTAACGTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
47790769 TCCTGTGAAATAGAAATCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
47790798 GT
1 GT
47790800 TTAAGAATGA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (94 bp):
GTAATAGTGCAGTAACGTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
TCCTGTGAAATAGAAATCTGGTTAAACAG
Found at i:47792931 original size:129 final size:126
Alignment explanation
Indices: 47792678--47792937 Score: 330
Period size: 129 Copynumber: 2.0 Consensus size: 126
47792668 CAGACGGGGT
* * *
47792678 TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCTGCACTTAATCCCT
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAATCCAT
* * *
47792743 CAGAAAGGCTTCACTTGGGAGCAAGCGGTATTCGCAGTCACACAGCACATGGCAGTTTGAG
66 CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
* * *
47792804 TGGTGATGAAAATGATTCTGAAGTTAACAGAGAATCCTTGGGCTTGT-T-TGCAGCTCTTAATGG
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGG--TGTATCTGCAGCACTTAAT--
* *
47792867 CCTATCCGAAAGGCTTCA-TTGGGGAGCAGGCGGCATGCGCAGTAACACAAG-ACATGGCAGTTT
62 CC-ATCAGAAAGGCTTCACTT-GGGAGCAAGCGGCATGCGCAGTAACAC-AGCACATGGCAGTTT
47792930 GAG
124 GAG
47792933 TGGTG
1 TGGTG
47792938 GAAATGGAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
126 50 0.43
127 1 0.01
128 7 0.06
129 56 0.48
130 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (126 bp):
TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAATCCAT
CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
Found at i:47795046 original size:20 final size:20
Alignment explanation
Indices: 47795017--47795086 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
47795007 TTTGATTCGG
47795017 AAAA-AAATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
47795036 AAAATAAATTTCTAGAAT-TTC-
1 AAAATAAATTT-T--AATGTTCA
** **
47795057 TTAATTTATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
47795077 AAAATAAATT
1 AAAATAAATT
47795087 AATTTAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 11
0.66 0.14 0.20
Matches are distributed among these distances:
18 3 0.08
19 7 0.19
20 13 0.35
21 8 0.22
22 3 0.08
23 3 0.08
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
AAAATAAATTTTAATGTTCA
Found at i:47798609 original size:43 final size:43
Alignment explanation
Indices: 47798545--47798642 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
47798535 TTATGTGAAA
* * *
47798545 AAACGCCGCTATAGAATATGACCTTTAGCGGCGTTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
47798588 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
*
47798631 AAACGCCACTAA
1 AAACGCCGCTAA
47798643 CTTTAGCAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
Found at i:47804510 original size:49 final size:50
Alignment explanation
Indices: 47804399--47804711 Score: 268
Period size: 50 Copynumber: 5.9 Consensus size: 50
47804389 TTTCCTATAC
* * * ** *
47804399 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
47804449 TGCCCATGCCATGTCCCATTCATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
47804498 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
47804548 TGCCAACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
1 TGCCAA-CGC-CA--T--GT-CCCA-G--A---------CATGGTCTTACATGGGACCTCTCATC
*
47804613 TCGA
47 TCGG
* *
47804617 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
47804667 TGCCAAAGCCATGTTCCAGACATGGTCTTACATGAGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
47804712 AATTTCAATA
Statistics
Matches: 214, Mismatches: 29, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
49 41 0.19
50 115 0.54
51 2 0.01
52 2 0.01
54 1 0.00
56 2 0.01
57 3 0.01
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 3 0.01
63 2 0.01
65 1 0.00
67 2 0.01
68 2 0.01
69 34 0.16
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:47804558 original size:19 final size:19
Alignment explanation
Indices: 47804534--47804573 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47804524 CTTACATGAG
47804534 ACCTCTCATCTCGGTGCCA
1 ACCTCTCATCTCGGTGCCA
47804553 ACCTCTCATCTCGGTGCCA
1 ACCTCTCATCTCGGTGCCA
47804572 AC
1 AC
47804574 GCCATGTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.42, G:0.15, T:0.25
Consensus pattern (19 bp):
ACCTCTCATCTCGGTGCCA
Found at i:47804595 original size:69 final size:69
Alignment explanation
Indices: 47804484--47804623 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
47804474 TCTTACGGGG
*
47804484 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGT
1 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGAT
47804549 GCCA
66 GCCA
*
47804553 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGAT
1 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGAT
47804618 GCCA
66 GCCA
47804622 AC
1 AC
47804624 GCCATGTCCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (69 bp):
ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGAT
GCCA
Found at i:47804659 original size:119 final size:118
Alignment explanation
Indices: 47804438--47804672 Score: 371
Period size: 119 Copynumber: 2.0 Consensus size: 118
47804428 ACATGGGAGT
* * ** *
47804438 TCTCATATCGGTGCCCATGCCATGTCCCATTCATGGTCTTACGGGGACCTCTCATCTCGGTGCCA
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGACCTCTCATCTCGATGCCA
47804503 ACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACC
66 ACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACC
* *
47804556 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGATGCC
* * *
47804621 AACGCCATGTCCCAGACATGGTCTTATATGGGATCTCTCATCTCGGTGCCAA
65 AACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAA
47804673 AGCCATGTTC
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
118 37 0.35
119 69 0.65
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (118 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGACCTCTCATCTCGATGCCA
ACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACC
Found at i:47804838 original size:42 final size:41
Alignment explanation
Indices: 47804766--47804846 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 41
47804756 TGGCTCACAT
* *
47804766 ATCGATGTCGATGCCATGTACCAAACATGGTCTTATACGAG
1 ATCGATGCCGATGCCATATACCAAACATGGTCTTATACGAG
* * *
47804807 ATCGCATGCCGATGCCATATCCCAGATATGGTCTTATACG
1 ATCG-ATGCCGATGCCATATACCAAACATGGTCTTATACG
47804847 TAAATCACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (41 bp):
ATCGATGCCGATGCCATATACCAAACATGGTCTTATACGAG
Found at i:47825549 original size:53 final size:53
Alignment explanation
Indices: 47825472--47825631 Score: 221
Period size: 53 Copynumber: 3.0 Consensus size: 53
47825462 CCATGGCACT
* * * * *
47825472 GAAGAACCATATCATGTTAGACCGTAACTGGTGGGTTATGACATCGTATAAGAA
1 GAAG-ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* *
47825526 GAAGACCATATCGTGTAAAACCGTAATTGGTGGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* * *
47825579 GAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
47825632 ATTTAAGGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 90 0.96
54 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
Found at i:47825949 original size:31 final size:32
Alignment explanation
Indices: 47825876--47825951 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
47825866 TCTAGATACA
* *
47825876 AAAGCTTTTGTGGTGAGTACTGGATATTAAGG
1 AAAGCTTTTGTGGTGAGTACTAGATATAAAGG
*
47825908 AAAGCTTTTGTGGTGAGTACTAGATGTAAAGG
1 AAAGCTTTTGTGGTGAGTACTAGATATAAAGG
*
47825940 -ATGCTTTTGTGG
1 AAAGCTTTTGTGG
47825952 AAAAACTCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 11 0.28
32 29 0.73
ACGTcount: A:0.26, C:0.07, G:0.32, T:0.36
Consensus pattern (32 bp):
AAAGCTTTTGTGGTGAGTACTAGATATAAAGG
Found at i:47835152 original size:25 final size:25
Alignment explanation
Indices: 47835092--47835152 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
47835082 CTCCTAAATT
*
47835092 TTAATTTAATTATATAATTTTTAAA
1 TTAATTAAATTATATAATTTTTAAA
* * *
47835117 TTTATTGAATTAT-TAATATTTTATA
1 TTAATTAAATTATATAAT-TTTTAAA
47835142 TTAATTAAATT
1 TTAATTAAATT
47835153 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATATAATTTTTAAA
Found at i:47842903 original size:21 final size:20
Alignment explanation
Indices: 47842858--47842903 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
47842848 TTGTTGGAAT
47842858 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
47842877 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
47842898 GGTTGA
1 GGTTGA
47842904 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:47847112 original size:8 final size:8
Alignment explanation
Indices: 47847096--47847129 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
47847086 GAAGTTAGCA
*
47847096 CATGTCAT
1 CATGACAT
47847104 CATGACAT
1 CATGACAT
*
47847112 CACGACAT
1 CATGACAT
47847120 CATGACAT
1 CATGACAT
47847128 CA
1 CA
47847130 CAAAGTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (8 bp):
CATGACAT
Found at i:47847174 original size:39 final size:39
Alignment explanation
Indices: 47847111--47847198 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
47847101 CATCATGACA
*
47847111 TCACGACATCATGACATCACAAAGTTAGGTTTCTCCATG
1 TCACGACATCATGACATCAAAAAGTTAGGTTTCTCCATG
**
47847150 TCACGACATCATGATGTCAAAAAGTTAGGTTTCTCCATG
1 TCACGACATCATGACATCAAAAAGTTAGGTTTCTCCATG
47847189 TCACGACATC
1 TCACGACATC
47847199 GACCCTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (39 bp):
TCACGACATCATGACATCAAAAAGTTAGGTTTCTCCATG
Found at i:47848102 original size:28 final size:30
Alignment explanation
Indices: 47848071--47848126 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47848061 ATTGAAAAGC
47848071 TATAAATA-TTCA-AAAAAATAAAAAAATA
1 TATAAATAGTTCATAAAAAATAAAAAAATA
* *
47848099 TATAAATAGTTCATGAAAATTAAAAAAA
1 TATAAATAGTTCATAAAAAATAAAAAAA
47848127 CTTGCATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 4 0.17
30 12 0.50
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (30 bp):
TATAAATAGTTCATAAAAAATAAAAAAATA
Found at i:47865572 original size:32 final size:33
Alignment explanation
Indices: 47865507--47865577 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
47865497 CATTTTCTAA
* * *
47865507 GGCACCACCAGGGTGGGTCATCCCATTCTCTAT
1 GGCACCACCAGGGTGGGCCATCACATTCACTAT
47865540 GGCACCACCAGGGT-GGCCA-CGACATTCACTAT
1 GGCACCACCAGGGTGGGCCATC-ACATTCACTAT
47865572 GGCACC
1 GGCACC
47865578 CCACCAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 19 0.56
33 14 0.41
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.18
Consensus pattern (33 bp):
GGCACCACCAGGGTGGGCCATCACATTCACTAT
Found at i:47867646 original size:50 final size:50
Alignment explanation
Indices: 47867533--47867726 Score: 262
Period size: 50 Copynumber: 3.9 Consensus size: 50
47867523 TAATAATAAC
* * * ** *
47867533 ATGCCAAAGCCATGTCCTAGACATGGTATTACATGGGATGTTCTCATATCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * **
47867584 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
47867634 ATGCCAACGCCATGTCCCAGACATGGTCGTACATGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
47867684 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47867727 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:47869668 original size:29 final size:29
Alignment explanation
Indices: 47869612--47869668 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
47869602 AACAAGATGG
* *
47869612 GTTCTGAAAAAATAAATTTGATGTGATAT
1 GTTCTGAAAAAATAAATTTGACGAGATAT
* * *
47869641 GTTCTGAAAAAATTATTTTTACGAGATA
1 GTTCTGAAAAAATAAATTTGACGAGATA
47869669 GATTTGTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (29 bp):
GTTCTGAAAAAATAAATTTGACGAGATAT
Found at i:47873461 original size:7 final size:7
Alignment explanation
Indices: 47873447--47873475 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
47873437 CATAATCGAT
47873447 TTTA-TA
1 TTTAGTA
47873453 TTTAGTA
1 TTTAGTA
47873460 TTTAGTA
1 TTTAGTA
47873467 TTTAGTA
1 TTTAGTA
47873474 TT
1 TT
47873476 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (7 bp):
TTTAGTA
Found at i:47873468 original size:14 final size:13
Alignment explanation
Indices: 47873447--47873481 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
47873437 CATAATCGAT
47873447 TTTATATTTAGTA
1 TTTATATTTAGTA
47873460 TTTAGTATTTAGTA
1 TTTA-TATTTAGTA
47873474 TTATATAT
1 TT-TATAT
47873482 ATAACTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTATATTTAGTA
Found at i:47873611 original size:12 final size:13
Alignment explanation
Indices: 47873588--47873614 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47873578 AATGAACAGA
47873588 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
47873601 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
47873614 G
1 G
47873615 TCAGAAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.22, G:0.19, T:0.07
Consensus pattern (13 bp):
GGCCCAAAAAAAT
Found at i:47875204 original size:19 final size:20
Alignment explanation
Indices: 47875163--47875204 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47875153 ATTTCTATGC
* *
47875163 CATTGTGATATTTATTATTG
1 CATTGTGATATTTACTATAG
*
47875183 CATTGT-ATATTTACTGTAG
1 CATTGTGATATTTACTATAG
47875202 CAT
1 CAT
47875205 CACATCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTACTATAG
Found at i:47881270 original size:44 final size:44
Alignment explanation
Indices: 47881180--47881754 Score: 422
Period size: 44 Copynumber: 13.1 Consensus size: 44
47881170 GCAAATCAGT
* * *
47881180 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
47881224 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTATATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
47881268 GAAGAAAGCAGATCTTGTCTT-C---ATTGG-CGTGAAATAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
47881308 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
47881352 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGC-AGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGA-AGTAGATC
* * * * **
47881396 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTTAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
47881440 GAAGATAACAGATCCTCTCTTCCTATATTTGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
47881485 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* ** * * *
47881529 GAAGAAAGCAGATCTTGTCTTTATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
47881573 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
47881617 GAAGATGCAGATCATG-CATTCCCATACTGGTGGCGAAGTGGATC
1 GAAGATGCAGATCTTGTC-TTCCTATATTGGTAGCGAAGTAGATC
* * * ** * * *
47881661 GAAGAAAGAAAATCTTGTCTTTATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * ** *
47881705 AAAGATAGCAAATCTTGACTTCTTGCA-TGGATAGCGAAGCAGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGG-TAGCGAAGTAGATC
47881750 GAAGA
1 GAAGA
47881755 CACCAGCCTT
Statistics
Matches: 416, Mismatches: 91, Indels: 47
0.75 0.16 0.08
Matches are distributed among these distances:
39 1 0.00
40 25 0.06
41 6 0.01
42 1 0.00
43 74 0.18
44 204 0.49
45 104 0.25
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:47881682 original size:132 final size:132
Alignment explanation
Indices: 47881180--47881714 Score: 839
Period size: 132 Copynumber: 4.1 Consensus size: 132
47881170 GCAAATCAGT
47881180 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * * *
47881245 CCATATTGGTGGCGGAGTATATCGAAGAAAGCAGATCTTGTC--T-T-CATTGGCGTGAAATAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAGA
47881306 TC
131 TC
*
47881308 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
47881373 CCATATTGGTGGC-AGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAG
66 CCATACTGGTGGCGA-AGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAG
47881437 ATC
130 ATC
* * * *
47881440 GAAGATAACAGATCCTCTCTTCCTATATTTGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
47881505 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAG
47881570 ATC
130 ATC
*
47881573 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATG-CATT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC-TT
* * *
47881637 CCCATACTGGTGGCGAAGTGGATCGAAGAAAGAAAATCTTGTCTTTATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAG
47881702 ATC
130 ATC
*
47881705 AAAGATAGCA
1 GAAGATAGCA
47881715 AATCTTGACT
Statistics
Matches: 375, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
128 103 0.27
131 2 0.01
132 146 0.39
133 123 0.33
134 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAGA
TC
Found at i:47881689 original size:265 final size:260
Alignment explanation
Indices: 47881180--47881711 Score: 825
Period size: 265 Copynumber: 2.0 Consensus size: 260
47881170 GCAAATCAGT
* * *
47881180 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAACAGATCCTCTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
47881245 CCATATTGGTGGCGGAGTATATCGAAGAAAGCAGATCTTGTCTTCATTGGCGTGAAATAGATCGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTGGCGTGAAATAGATCGA
* *
47881310 AGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
131 AGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTCTTCCC
* * * *
47881375 ATATTGGTGGCAGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAGATC
196 ATACTGGTGGCAGAGTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
*
47881440 GAAGATAACAGATCCTCTCTTCCTATATTTGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAACAGATCCTCTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* *
47881505 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC--T-T-CATTGGCGTGAAATAG
47881570 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATG-C
126 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTC
* *
47881634 ATTCCCATACTGGTGGC-GAAGTGGATCGAAGAAAGAAAATCTTGTCTTTATGTATTGGCGTGAA
191 -TTCCCATACTGGTGGCAG-AGTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAA
47881698 GTAGATC
254 GTAGATC
*
47881705 AAAGATA
1 GAAGATA
47881712 GCAAATCTTG
Statistics
Matches: 247, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
260 30 0.12
261 70 0.28
263 1 0.00
264 3 0.01
265 143 0.58
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (260 bp):
GAAGATAACAGATCCTCTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTGGCGTGAAATAGATCGA
AGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTCTTCCC
ATACTGGTGGCAGAGTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
Found at i:47881834 original size:88 final size:88
Alignment explanation
Indices: 47881709--47882015 Score: 443
Period size: 88 Copynumber: 3.5 Consensus size: 88
47881699 TAGATCAAAG
* * * ** * *
47881709 ATAGCAAATCTTGACTTCTTGCATGGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
*
47881774 GGTTGCAGCGGAGTAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
*
47881797 ATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
*
47881862 GGTTGCAGCGGAACAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * ** *
47881885 ATAGCAGATCTTACCTTCCTGCACTGACAGCGAAGTGGATCTAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
* *
47881950 GGTTGCAGCGAAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
47881973 ATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
47882016 TGACCCCAGC
Statistics
Matches: 193, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 193 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:47881839 original size:265 final size:264
Alignment explanation
Indices: 47881198--47881842 Score: 616
Period size: 265 Copynumber: 2.5 Consensus size: 264
47881188 CAGGTCCTGT
* ** ** * * * *
47881198 CTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAG
1 CTTCCTACATTGGTAGCGAAGCAGATCGAAGAACCAGACCTTGTCCTCCCATA-GGGTGGCGAAG
* * * * **
47881262 TATATCGAAGAAAGCAGATCTTGTCTTCATTG----G-CGTGAAATAGATCGAAGATAGCAGGTC
65 TAGAGCGAAAAAAGCAGATCTTGCCTTCA-TGCACCGACGTGAAGCAGATCGAAGATAGCAGGTC
* * *
47881322 TTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCA
129 CTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCA
* * * * *
47881387 GAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAGATCGAAGATAACAGA
194 GAGTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAA
*
47881452 TCCTCT
259 TCCTCA
* * ** ** * * *
47881458 CTTCCTATATTTGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG
1 CTTCCTACATTGGTAGCGAAGCAGATCGAAGAACCAGACCTTGTCCTCCCATA-GGGTGGCGAAG
* * * * * ** * *
47881523 TAGATCGAAGAAAGCAGATCTTGTCTTTATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCC
65 TAGAGCGAAAAAAGCAGATCTTGCCTTCATGCACCGACGTGAAGCAGATCGAAGATAGCAGGTCC
47881588 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATG-CATTCCCATACTGGTGGC-
130 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTC-TTCCCATACTGGTGGCA
* * *
47881651 GAAGTGGATCGAAGAAAGAAAATCTTGTCTTTATGTATTGGCGTGAAGTAGATCAAAGATAGCAA
194 G-AGTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAA
* *
47881716 ATCTTGA
258 ATCCTCA
* *
47881723 CTTCTTGCA-TGGATAGCGAAGCAGATCGAAGACACCAG-CCTTG-CCTCCC-T-GGGTTGCAGC
1 CTTCCTACATTGG-TAGCGAAGCAGATCGAAGA-ACCAGACCTTGTCCTCCCATAGGG-TG--GC
* * *
47881783 GGAGTAG-GCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGA
61 GAAGTAGAGCGAAAAA-AGCAGATCTTGCCTTCATGCACCGAC-GTGAAGCAGATCGAAGA
47881843 CACCAACCTT
Statistics
Matches: 327, Mismatches: 43, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
260 17 0.05
261 75 0.23
262 2 0.01
263 6 0.02
264 37 0.11
265 187 0.57
266 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (264 bp):
CTTCCTACATTGGTAGCGAAGCAGATCGAAGAACCAGACCTTGTCCTCCCATAGGGTGGCGAAGT
AGAGCGAAAAAAGCAGATCTTGCCTTCATGCACCGACGTGAAGCAGATCGAAGATAGCAGGTCCT
GTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCAGA
GTAGATCGAAGAAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATC
CTCA
Found at i:47882089 original size:44 final size:44
Alignment explanation
Indices: 47882026--47882191 Score: 226
Period size: 44 Copynumber: 3.8 Consensus size: 44
47882016 TGACCCCAGC
47882026 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
47882070 CCTATCTTCCTGGTCAGCAGTGGAAGAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
47882114 TCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
47882158 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTAAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTAAA
47882192 AATAACAGAT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 104 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:47882316 original size:88 final size:88
Alignment explanation
Indices: 47882162--47882324 Score: 195
Period size: 88 Copynumber: 1.9 Consensus size: 88
47882152 GTGAATCCTA
* * *
47882162 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAACAGATCTTTCCTTCCTGTACCGACAGCGAA
1 TCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAACAGATCTTTCCTTCCTGTACAGACAACGAA
*
47882227 GCAGATCGAAAACTCCAACCTTG
66 GCAAATCGAAAACTCCAACCTTG
* * * * * * *
47882250 TCTCTCTGAGCAGTAGTAGATTAGGTTGAAAATAGCAGGTCTTGT-CTTCCTGTACTAG-CAATG
1 TCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAACAGATCTT-TCCTTCCTGTAC-AGACAACG
47882313 AAGCAAATCGAA
64 AAGCAAATCGAA
47882325 GACATCAGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
88 60 0.97
89 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAACAGATCTTTCCTTCCTGTACAGACAACGAA
GCAAATCGAAAACTCCAACCTTG
Found at i:47882913 original size:44 final size:43
Alignment explanation
Indices: 47882844--47883130 Score: 214
Period size: 44 Copynumber: 6.6 Consensus size: 43
47882834 TGCAATGGCG
47882844 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * * **
47882888 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* ** * * *
47882931 GGATCTTATCTCTTTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * *
47882972 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
47883015 AAGTCTTATC-CTCCAGAAGTTGCAGT-GAGGCAGACTGAAGATGGC-A-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
47883061 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * *
47883105 AATCCTATCTCCATGAAGTTACAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTG
47883131 AGGCGGATAA
Statistics
Matches: 188, Mismatches: 36, Indels: 38
0.72 0.14 0.15
Matches are distributed among these distances:
40 21 0.11
41 9 0.05
42 3 0.02
43 16 0.09
44 105 0.56
45 25 0.13
46 6 0.03
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:47883082 original size:45 final size:44
Alignment explanation
Indices: 47882844--47883305 Score: 166
Period size: 44 Copynumber: 10.7 Consensus size: 44
47882834 TGCAATGGCG
*
47882844 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A
* * * * *
47882887 TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA--AA-CTTTG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC---A
* ** * * * * *
47882932 GATCTTATCTCTTTGAAGTTGCAG-AGAGCAGA-T-CG-CATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
47882972 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
47883016 AGTCTTATC-CTCCAGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
*
47883061 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A
* * * * * *
47883104 TAATCCTATCTCCATGAAGTTACAGT-GAGGCGGA-TAA-AAACCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTAAGTAAGCA
* * * * * * *
47883147 CAGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CG-CATCT
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
** * * *
47883189 GGTCTTATCTTCCTGAAGTTACAGTGGAGCAGACTGAGTAAG-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * * *
47883232 AAGTCTTATCCCCCAGAAATTGCAGTGGGGCGGACTGAA-TGAA-CA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AAGCA
* * *
47883277 AATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
47883306 TGGATTAGAA
Statistics
Matches: 311, Mismatches: 76, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
40 38 0.12
41 15 0.05
42 8 0.03
43 24 0.08
44 179 0.58
45 44 0.14
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:47883097 original size:217 final size:215
Alignment explanation
Indices: 47882837--47883305 Score: 697
Period size: 217 Copynumber: 2.2 Consensus size: 215
47882827 TTAACATTGC
* *
47882837 AATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCT
1 AATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCAT
* **** *
47882902 GAAGTTACAGTG-GAGCGGATTAAAACTTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATC
66 GAAGTTACAGTGAG-GCGGATAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATC
* * *
47882966 GCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCAG
130 GCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAG
*
47883031 AAGTTGCAGTGAGGCAGACTG
195 AAATTGCAGTGAGGCAGACTG
47883052 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
1 -A-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
*
47883117 ATGAAGTTACAGTGAGGCGGATAAAAACCACAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGAT
64 ATGAAGTTACAGTGAGGCGGATAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
* * *
47883182 CGCATCTGGTCTTATCTTCCTGAAGTTACAGTGGAGCAGACTGAGTAAGAAAGTCTTATCCCCCA
129 CGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCA
* *
47883247 GAAATTGCAGTGGGGCGGACTG
194 GAAATTGCAGTGAGGCAGACTG
* * * *
47883269 AATGAACAAATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AATG-GCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
47883306 TGGATTAGAA
Statistics
Matches: 228, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
215 3 0.01
216 30 0.13
217 194 0.85
218 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (215 bp):
AATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCAT
GAAGTTACAGTGAGGCGGATAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
CATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAGA
AATTGCAGTGAGGCAGACTG
Found at i:47885271 original size:19 final size:20
Alignment explanation
Indices: 47885230--47885271 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47885220 ATTTCTATGC
* *
47885230 CATTGTGATATTTATTATTG
1 CATTGTGATATTTACTATAG
*
47885250 CATTGT-ATATTTACTGTAG
1 CATTGTGATATTTACTATAG
47885269 CAT
1 CAT
47885272 CACATCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTGATATTTACTATAG
Found at i:47894818 original size:19 final size:19
Alignment explanation
Indices: 47894794--47894831 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47894784 TCCTGACCTC
47894794 TCGTCACTAAAATTCAATT
1 TCGTCACTAAAATTCAATT
*
47894813 TCGTCACTAAAATTGAATT
1 TCGTCACTAAAATTCAATT
47894832 ATCTCATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
TCGTCACTAAAATTCAATT
Found at i:47895901 original size:50 final size:50
Alignment explanation
Indices: 47895759--47896099 Score: 362
Period size: 50 Copynumber: 6.8 Consensus size: 50
47895749 GAATATAACA
* * * ** * * * *
47895759 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * * ** *
47895808 TGCCAATGCCATATCCCAGATATGGTTTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
** * * ** *
47895858 CACCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
47895908 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* *
47895958 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
** * * * * *
47896008 TGCCAATTCCATATCCCAAACATGGTCTTACATGGGACCCCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
47896058 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47896100 TTACCCAAAT
Statistics
Matches: 242, Mismatches: 47, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
49 36 0.15
50 206 0.85
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:47896025 original size:150 final size:149
Alignment explanation
Indices: 47895759--47896099 Score: 421
Period size: 150 Copynumber: 2.3 Consensus size: 149
47895749 GAATATAACA
* * * ** * * * *
47895759 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
* * ** * * *
47895824 CAGATATGGTTTTACATGAGAGTTCTCATATAGGCACCCATGCCATGTCCCAGACATGGTCTTAC
66 CAGACATGGTCTTACATGAGACCTCTCATATAGGCACCAATGCCATATCCCAAACATGGTCTTAC
* * *
47895889 GGGGGACCTCTCATCTTGG
131 AGGGGACCCCTCATCTCGG
* *
47895908 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-ACTGCCAACGCCATATC
* * ** *
47895973 CCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAATTCCATATCCCAAACATGGTCTTA
65 CCAGACATGGTCTTACATGAGACCTCTCATATAGGCACCAATGCCATATCCCAAACATGGTCTTA
* *
47896038 CATGGGACCCCTTATCTCGG
130 CAGGGGACCCCTCATCTCGG
47896058 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47896100 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
149 39 0.24
150 124 0.76
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (149 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
CAGACATGGTCTTACATGAGACCTCTCATATAGGCACCAATGCCATATCCCAAACATGGTCTTAC
AGGGGACCCCTCATCTCGG
Found at i:47896471 original size:29 final size:30
Alignment explanation
Indices: 47896438--47896494 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
47896428 CCTTGACTCT
47896438 AACTTTGACA-AAATATGA-TTTTGCCCCTA
1 AACTTTGACATAAATAT-ACTTTTGCCCCTA
* *
47896467 AACTTTTACATAATTATACTTTTGCCCC
1 AACTTTGACATAAATATACTTTTGCCCC
47896495 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGACATAAATATACTTTTGCCCCTA
Found at i:47898547 original size:13 final size:14
Alignment explanation
Indices: 47898531--47898572 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
47898521 TTTCAATTTT
47898531 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
47898544 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
47898559 ATTTTAAATAATAT
1 ATTTT-AATAATAT
47898573 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:47898557 original size:16 final size:16
Alignment explanation
Indices: 47898535--47898571 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
47898525 AATTTTATTT
47898535 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
47898552 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
47898567 TAATA
1 TAATA
47898572 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:47900519 original size:43 final size:42
Alignment explanation
Indices: 47900471--47900631 Score: 196
Period size: 43 Copynumber: 3.8 Consensus size: 42
47900461 GTCGCTAACT
* *
47900471 TTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCA
1 TTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGA-CA
* * *
47900514 TTAGCGGCGCTTTTCGCACAAACGCCGCTATAGAACATGAGCT
1 TTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGA-CA
* * *
47900557 TTAGTGGCACTTTTCTCACAAACGCCGCTAAAGAACATGATA
1 TTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGACA
* * *
47900599 TTTAGCGACGCTTTTATCACAAACGCCACTAAA
1 -TTAGCGGCGCTTTTCTCACAAACGCCGCTAAA
47900632 AGTACAATTC
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
TTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATGACA
Found at i:47902764 original size:40 final size:40
Alignment explanation
Indices: 47902709--47902785 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
47902699 ACATCAGCAC
* * *
47902709 TTCAATATTTAATATGTAAGGAATTATCAAAAATCAACAT
1 TTCAATATTTAATATGCAAGAAATTAACAAAAATCAACAT
*
47902749 TTCAATAATTT-ATATGCAAGAAATTAACACAAATCAA
1 TTCAAT-ATTTAATATGCAAGAAATTAACAAAAATCAA
47902786 TCTTACAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (40 bp):
TTCAATATTTAATATGCAAGAAATTAACAAAAATCAACAT
Found at i:47902958 original size:86 final size:85
Alignment explanation
Indices: 47902861--47903048 Score: 268
Period size: 86 Copynumber: 2.2 Consensus size: 85
47902851 GGCATTAGGG
* * * *
47902861 CTAAATCTTCAATTTCTATAACGATTTATATGCAACAAATTAACAAAAATCAATGGTTCAAGTTC
1 CTAAATTTTCAATTT-TATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
** *
47902926 ATGTATTTACCAAAAATCAGA
65 ATCCATTTACCAAAAAGCAGA
* *
47902947 CTAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTC
1 CTAAATTTTCAAT-TTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
*
47903012 ATCCATTTACCAACAAGCAGA
65 ATCCATTTACCAAAAAGCAGA
47903033 CTAAATTTTCAATTTT
1 CTAAATTTTCAATTTT
47903049 CAATTTTTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
85 3 0.03
86 85 0.94
87 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (85 bp):
CTAAATTTTCAATTTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTCA
TCCATTTACCAAAAAGCAGA
Found at i:47903308 original size:88 final size:89
Alignment explanation
Indices: 47903151--47903314 Score: 204
Period size: 88 Copynumber: 1.9 Consensus size: 89
47903141 CAATTTACAA
* * * * ** *
47903151 GCAAAAAATTAACAAAAATAAACAATTCATGTATAATGTATTTACCAAAAACTGGACCAACTTGT
1 GCAAAAAATTAACAAAAATAAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGT
47903216 CAATTTTTATATAACATTTTAAAT
66 CAATTTTTATATAACATTTTAAAT
* * * * * *
47903240 GCAACAAATTAACACAAATTAACAATACAAGT-TCATATATTCACCAAAAACCAGACTAAATTTT
1 GCAAAAAATTAACAAAAATAAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGT
47903304 CAATTTTTATA
66 CAATTTTTATA
47903315 AAATAAGAGG
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
88 35 0.56
89 27 0.44
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (89 bp):
GCAAAAAATTAACAAAAATAAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGT
CAATTTTTATATAACATTTTAAAT
Found at i:47905272 original size:21 final size:21
Alignment explanation
Indices: 47905248--47905293 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47905238 TTTTGGATGT
47905248 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
* *
47905269 GGGAAAGTTTGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
47905290 GGGA
1 GGGA
47905294 GGGGGAGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.24, C:0.02, G:0.48, T:0.26
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:47907160 original size:41 final size:41
Alignment explanation
Indices: 47907115--47907341 Score: 318
Period size: 41 Copynumber: 5.5 Consensus size: 41
47907105 ATTTTATTAT
*
47907115 TATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCTGAG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
*
47907156 TATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGG-CTCGAG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCT-GAG
*
47907197 TATTAGCGGCGCATT-TTCAAAAACGCCGCTAAAGGCCAGAG
1 TATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCTGAG
* * *
47907238 CATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
* *
47907279 CATTAGCAGCGCTTCTTCAAAAACGCCGCTAAAGG-CT-AG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
47907318 ATCATTAGCGGCGCTTCTTCAAAA
1 -T-ATTAGCGGCGCTTCTTCAAAA
47907342 TTGCCGTTAA
Statistics
Matches: 169, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 159 0.94
42 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
Found at i:47907339 original size:123 final size:123
Alignment explanation
Indices: 47907116--47907341 Score: 377
Period size: 123 Copynumber: 1.8 Consensus size: 123
47907106 TTTTATTATT
* *
47907116 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCTGAGTATTAGCGACGCTTCTTCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGACGCTTCTTCAAAAACG
*
47907181 CCGCTAAAGGCTCGAGTATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCTAGAGTATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCAGAGC
47907239 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGC-AGCGCTTCTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGA-CGCTTCTTCAAAAAC
47907303 GCCGCTAAAGGCTAGA-TCATTAGCGGCGC-TTCTTCAAAA
65 GCCGCTAAAGGCTAGAGT-ATTAGCGGCGCATT-TTCAAAA
47907342 TTGCCGTTAA
Statistics
Matches: 97, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
122 4 0.04
123 93 0.96
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (123 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGACGCTTCTTCAAAAACG
CCGCTAAAGGCTAGAGTATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:47914191 original size:24 final size:24
Alignment explanation
Indices: 47914162--47914216 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
47914152 CAAGATCTAT
* * *
47914162 ATAATAAGATTAAGTAAAAA-ACTA
1 ATAATAAAAATAA-TAAAAATAATA
47914186 ATAATAAAAATAATAAAAATAATA
1 ATAATAAAAATAATAAAAATAATA
47914210 ATAATAA
1 ATAATAA
47914217 TGGAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAATAAAAATAATAAAAATAATA
Found at i:47914192 original size:3 final size:3
Alignment explanation
Indices: 47914184--47914217 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
47914174 AGTAAAAAAC
* *
47914184 TAA TAA TAA AAA TAA TAA AAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
47914218 GGAAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:47914199 original size:9 final size:9
Alignment explanation
Indices: 47914185--47914217 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
47914175 GTAAAAAACT
47914185 AATAATAAA
1 AATAATAAA
47914194 AATAATAAA
1 AATAATAAA
*
47914203 AATAATAAT
1 AATAATAAA
47914212 AATAAT
1 AATAAT
47914218 GGAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AATAATAAA
Found at i:47919927 original size:25 final size:25
Alignment explanation
Indices: 47919873--47919961 Score: 115
Period size: 25 Copynumber: 3.5 Consensus size: 25
47919863 CCCACAACTT
* * *
47919873 GTGTGAGCATGCCCATTTTCACAGTTC
1 GTGTGAGCATACCGA-TTT-ACAGCTC
47919900 GTGTGAGCATACCGATTTACAGCTC
1 GTGTGAGCATACCGATTTACAGCTC
*
47919925 GTGTGAGCATACCGATTCACAGCTC
1 GTGTGAGCATACCGATTTACAGCTC
*
47919950 GTGTGAGTATAC
1 GTGTGAGCATAC
47919962 ATGTACAGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 41 0.72
26 3 0.05
27 13 0.23
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (25 bp):
GTGTGAGCATACCGATTTACAGCTC
Found at i:47929460 original size:20 final size:20
Alignment explanation
Indices: 47929437--47929474 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47929427 ATGTATACAG
47929437 GGGCACCGAAGTGCAAATAA
1 GGGCACCGAAGTGCAAATAA
47929457 GGGCACCGAAGTGCAAAT
1 GGGCACCGAAGTGCAAAT
47929475 CCCGTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGCACCGAAGTGCAAATAA
Found at i:47931244 original size:4 final size:4
Alignment explanation
Indices: 47931209--47931260 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
47931199 ATTTTTTATA
* * *
47931209 ATTT CATTT ATTT GATTC ATTT ATTC ATTT ATTT ATTT ACTT ATTT ATTT
1 ATTT -ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
47931259 AT
1 AT
47931261 CCATTATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
4 33 0.82
5 7 0.17
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:47931244 original size:12 final size:12
Alignment explanation
Indices: 47931211--47931270 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
47931201 TTTTTATAAT
47931211 TTCATTTATTTGA
1 TTCATTTATTT-A
*
47931224 TTCATTTATTCA
1 TTCATTTATTTA
*
47931236 TTTATTTATTTA
1 TTCATTTATTTA
47931248 CTT-ATTTATTTA
1 -TTCATTTATTTA
*
47931260 TCCATTATATT
1 TTCATT-TATT
47931271 CATTTTTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 1 0.03
12 23 0.57
13 16 0.40
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (12 bp):
TTCATTTATTTA
Found at i:47937945 original size:44 final size:44
Alignment explanation
Indices: 47937885--47938123 Score: 199
Period size: 43 Copynumber: 5.5 Consensus size: 44
47937875 GAAGCAGGTC
*
47937885 GAAGACACAA-ACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * * *
47937928 GAAGACAAAAGATCTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTC
1 GAAGACAAAAGACCTTGCCTCTCTCGGT-TGTGA-TG-G-AGCTGGTT
* *
47937973 GAAGACACAA-ACCTTGCCTCTCTTGGTTGTGATGGAGCTGGTT
1 GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * * *
47938016 GAAGACAAAAGATCTTGCCT-TCT-TGTAT-TGACAGCGAAGCAGGTC
1 GAAGACAAAAGACCTTGCCTCTCTCGGT-TGTGA-TG-G-AGCTGGTT
*
47938061 GAAGACACAA-ACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* *
47938104 GAAGATAAAAGAACTTGCCT
1 GAAGACAAAAGACCTTGCCT
47938124 TCCTGTACTA
Statistics
Matches: 151, Mismatches: 28, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
42 11 0.07
43 47 0.31
44 44 0.29
45 39 0.26
46 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (44 bp):
GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
Found at i:47938001 original size:88 final size:88
Alignment explanation
Indices: 47937849--47938153 Score: 531
Period size: 88 Copynumber: 3.5 Consensus size: 88
47937839 ATGAAGTTGC
*
47937849 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
47937914 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
47937937 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTTGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
47938002 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
47938025 AGATCTTGCCTTCTTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
47938090 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
47938113 AGAACTTGCCTTCCTGTACT-AGCAGCGAAGCAGATCGAAGA
1 AGATCTTGCCTTCCTGTATTGA-CAGCGAAGCAGGTCGAAGA
47938154 TGGCGGATTT
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
87 1 0.00
88 206 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:47940186 original size:4 final size:4
Alignment explanation
Indices: 47940151--47940202 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
47940141 TTTTTTTATA
* * *
47940151 ATTT CATTT ATTT GATTC ATTT ATTC ATTT ATTT ATTT ACTT ATTT ATTT
1 ATTT -ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
47940201 AT
1 AT
47940203 CCATTATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
4 33 0.82
5 7 0.17
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:47940186 original size:12 final size:12
Alignment explanation
Indices: 47940153--47940212 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
47940143 TTTTTATAAT
47940153 TTCATTTATTTGA
1 TTCATTTATTT-A
*
47940166 TTCATTTATTCA
1 TTCATTTATTTA
*
47940178 TTTATTTATTTA
1 TTCATTTATTTA
47940190 CTT-ATTTATTTA
1 -TTCATTTATTTA
*
47940202 TCCATTATATT
1 TTCATT-TATT
47940213 CATTTTTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 1 0.03
12 23 0.57
13 16 0.40
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (12 bp):
TTCATTTATTTA
Found at i:47946928 original size:69 final size:69
Alignment explanation
Indices: 47946789--47947460 Score: 287
Period size: 69 Copynumber: 9.7 Consensus size: 69
47946779 TAGCAGCAAC
* * * * ** * * * * * **
47946789 CTCCAAAACAGTTAGTGAGATCAAAGCTCCCAACTATCATATTAGGGTTCACAGGCGAAAAACCG
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTCG
*
47946854 CAAT
66 TAAT
* * * * * ** *
47946858 CTTCAAAGCAATTAGCGAAAGCAAAGCTCTTAGTTGTCATATTAAGGTTCGCAGGCAAAGAGTCG
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTCG
47946923 TAAT
66 TAAT
* * * * * *
47946927 CTCCAAAATAGTTAG-TAAGAG-AAAGCTCCTAGCTGTTATATTAAGGTTCTTAGGTGAAGAGTC
1 CTCCAAAACAGTTAGCGAA-AGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTC
*
47946990 GTAAC
65 GTAAT
* * * * * *
47946995 CTCCAAAATAGTTAGCGATAGAAAAACTCCTAGTTGTAACATTAAGGTTCATAGGCGAAGAGCCG
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTCG
47947060 TAA-
66 TAAT
* * ** * * ** * *
47947063 CTTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGTAAATATTC
1 C-TCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTC
** *
47947128 ACAAC
65 GTAAT
* * ** ** * * * * * *
47947133 CTCTAAAATAGTTAATGAGGGCAAAGCTCCCAGTTGTAATAGTAAGGTTCACAGACGAAGAGCCA
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTCG
*
47947198 TAAC
66 TAAT
* * * * * * * * ** *
47947202 CTCTAAAATAATTAGTGAGAGTAAAGCT-CTCAATTGTCATATTAAGGTTCGCAAGCGAAGA-TC
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCT-AGTTGTAATATTAAGGTTCATAGGCGAAGAGT-
* *
47947265 CGCAAC
64 CGTAAT
* ** ** * * * * * ** *
47947271 CTCTAAAGTAGTTAGCGGGAGCAAAACTCCCCAGCTT-TCATATTAAAGTTCGTAGAAGAAGAGC
1 CTCCAAAACAGTTAGCGAAAGCAAAGCT-CCTAG-TTGTAATATTAAGGTTCATAGGCGAAGAGT
*
47947335 CGTAAC
64 CGTAAT
* * * ** * * * *
47947341 CTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAGTCATAATATTAAGG-CCAGCAGGCAAAGAGTT
1 CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCA-TAGGCGAAGAGTC
* *
47947405 GCAAC
65 GTAAT
* * * * *
47947410 CTCCAAAACAGTTAGCGAGAGCAAAAGCTCCCAGCTATCATATTAAGGTTC
1 CTCCAAAACAGTTAGCGAAAGC-AAAGCTCCTAGTTGTAATATTAAGGTTC
47947461 GCAAAAGAAG
Statistics
Matches: 463, Mismatches: 125, Indels: 28
0.75 0.20 0.05
Matches are distributed among these distances:
68 62 0.13
69 326 0.70
70 71 0.15
71 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (69 bp):
CTCCAAAACAGTTAGCGAAAGCAAAGCTCCTAGTTGTAATATTAAGGTTCATAGGCGAAGAGTCG
TAAT
Found at i:47947383 original size:139 final size:137
Alignment explanation
Indices: 47946758--47947485 Score: 536
Period size: 138 Copynumber: 5.3 Consensus size: 137
47946748 CGTTCATGTG
* * * * * * * * *
47946758 ATATTAAGGTTTGTAGGAGAATAGCAGCAACCTCCAAAACAGTTAGTGAGATCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAAC
* * * * * * ** * * *
47946823 TATCATATTAGGGTTCACAGGCGAAAAACCGCAATCT-TCAAAGCAATTAGCGAAAGCAAAGCTC
66 TGTAATATTAAGGTTCACAGGCG-AAGATCGCAACCTCT-AAAATAGTTAGCGAGAGCAAAACTC
**
47946887 TTAGTTGTC
129 CCAGTTGTC
* * * * *
47946896 ATATTAAGGTTCGCAGGCA-AAGAGTCGTAATCTCCAAAATAGTTAGTAAGAG-AAAGCTCCTAG
1 ATATTAAGGTTCGCA-GAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAA
* ** * * * * *
47946959 CTGTTATATTAAGGTTCTTAGGTGAAGAGTCGTAACCTCCAAAATAGTTAGCGATAGAAAAACTC
65 CTGTAATATTAAGGTTCACAGGCGAAGA-TCGCAACCTCTAAAATAGTTAGCGAGAGCAAAACTC
* *
47947024 CTAGTTGTA
129 CCAGTTGTC
* ** ** * * * *
47947033 ACATTAAGGTTCATAGGCGAAGAGCCGTAACTTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAAC
* ** * * ** * *
47947098 TGTAACATTAAGGTTCACAGGTAAATATTCACAACCTCTAAAATAGTTAATGAGGGCAAAGCTCC
66 TGTAATATTAAGGTTCACAGGCGAAGA-TCGCAACCTCTAAAATAGTTAGCGAGAGCAAAACTCC
*
47947163 CAGTTGTA
130 CAGTTGTC
* * * * * * *
47947171 ATAGTAAGGTTCACAGACGAAGAGCCATAACCTCTAAAATAATTAGTGAGAGTAAAGCT-CTCAA
1 ATATTAAGGTTCGCAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCT-AA
* * * * * *
47947235 TTGTCATATTAAGGTTCGCAAGCGAAGATCCGCAACCTCTAAAGTAGTTAGCGGGAGCAAAACTC
65 CTGTAATATTAAGGTTCACAGGCGAAGAT-CGCAACCTCTAAAATAGTTAGCGAGAGCAAAACT-
47947300 CCCAGCTT-TC
128 CCCAG-TTGTC
* * *
47947310 ATATTAAAGTTCGTAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCT-AG
1 ATATTAAGGTTCGCAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAAC
* * * * * *
47947374 TCATAATATTAAGG-CCAGCAGGCAAAGAGTTGCAACCTCCAAAACAGTTAGCGAGAGCAAAAGC
66 T-GTAATATTAAGGTTCA-CAGGCGAAGA-TCGCAACCTCTAAAATAGTTAGCGAGAGCAAAA-C
* *
47947438 TCCCAGCTATC
127 TCCCAGTTGTC
* *
47947449 ATATTAAGGTTCGCAAAAGAAGAGTCC-CAACCTCCAA
1 ATATTAAGGTTCGCAGAAGAAGAG-CCGTAACCTCCAA
47947486 GTGTAACAGC
Statistics
Matches: 458, Mismatches: 116, Indels: 31
0.76 0.19 0.05
Matches are distributed among these distances:
136 4 0.01
137 100 0.22
138 205 0.45
139 140 0.31
140 9 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (137 bp):
ATATTAAGGTTCGCAGAAGAAGAGCCGTAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAAC
TGTAATATTAAGGTTCACAGGCGAAGATCGCAACCTCTAAAATAGTTAGCGAGAGCAAAACTCCC
AGTTGTC
Found at i:47955701 original size:25 final size:26
Alignment explanation
Indices: 47955657--47955744 Score: 92
Period size: 25 Copynumber: 3.5 Consensus size: 26
47955647 CAGGTATGCC
*
47955657 CATTCGAG-CATATAATCGGGAAGCT
1 CATTTGAGCCATATAATCGGGAAGCT
*
47955682 CTTTTGAGCCATATAA-CGGGAAGCT
1 CATTTGAGCCATATAATCGGGAAGCT
*** *
47955707 CATTTGAGTTGTATAAT-AGGAAGCT
1 CATTTGAGCCATATAATCGGGAAGCT
*
47955732 CATTAGAGCCATA
1 CATTTGAGCCATA
47955745 ATCGGAAAGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 43 0.86
26 7 0.14
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
CATTTGAGCCATATAATCGGGAAGCT
Found at i:47955861 original size:25 final size:25
Alignment explanation
Indices: 47955794--47955863 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
47955784 AGAGTCATTA
47955794 ATCAGGAAGCTCATAAGAGCCAGTT
1 ATCAGGAAGCTCATAAGAGCCAGTT
**
47955819 ATCAGGAAGCTCCGAAGAGCCTA-TT
1 ATCAGGAAGCTCATAAGAGCC-AGTT
** *
47955844 ATTGGGATGCTCATAAGAGC
1 ATCAGGAAGCTCATAAGAGC
47955864 TACGGTGTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (25 bp):
ATCAGGAAGCTCATAAGAGCCAGTT
Found at i:47964916 original size:5 final size:5
Alignment explanation
Indices: 47964906--47964935 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
47964896 TTTCCCTGTG
47964906 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
47964936 GTAAAATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:47965341 original size:16 final size:16
Alignment explanation
Indices: 47965319--47965387 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
47965309 TTTGGTTCGC
47965319 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
47965335 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47965351 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
47965368 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47965384 TGTA
1 TGTA
47965388 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47965365 original size:33 final size:32
Alignment explanation
Indices: 47965319--47965387 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
47965309 TTTGGTTCGC
47965319 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
47965351 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
47965384 TGTA
1 TGTA
47965388 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:47965452 original size:44 final size:45
Alignment explanation
Indices: 47965368--47965458 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47965358 GGATTAGAGG
* * *
47965368 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
47965413 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
47965457 TG
1 TG
47965459 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:47965644 original size:18 final size:17
Alignment explanation
Indices: 47965623--47965657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47965613 TTATTATTAA
*
47965623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47965641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47965658 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47965847 original size:121 final size:121
Alignment explanation
Indices: 47965606--47967194 Score: 2788
Period size: 121 Copynumber: 13.2 Consensus size: 121
47965596 ATCATATTTA
* *
47965606 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
47965669 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47965726 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47965791 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47965847 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
*
47965912 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAACATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47965968 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
****
47966033 ATATAAGAATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* ** *
47966089 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
47966152 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47966208 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47966273 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47966329 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
****
47966394 ATATAAGAATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* ** *
47966450 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
47966513 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47966570 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47966635 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47966691 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47966756 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
47966812 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
47966874 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
47966931 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
47966994 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
47967051 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAGTTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47967116 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47967172 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
47967195 AACTTGAAAA
Statistics
Matches: 1406, Mismatches: 50, Indels: 25
0.95 0.03 0.02
Matches are distributed among these distances:
118 1 0.00
119 172 0.12
120 391 0.28
121 839 0.60
122 3 0.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:47966302 original size:361 final size:362
Alignment explanation
Indices: 47965606--47967194 Score: 2913
Period size: 361 Copynumber: 4.4 Consensus size: 362
47965596 ATCATATTTA
* *
47965606 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
*
47965669 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
65 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
* ** *
47965734 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCT
130 TATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATTAATATTCT
*
47965798 TATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
193 TATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
47965863 AATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAAT
258 AATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAAT
*
47965928 TTACTGAAATCATAATATATGATACTGTAAAACATAAATT
323 TTACTGAAATCATAATATATGATACTGTAAAATATAAATT
47965968 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
****
47966033 ATATAAGAATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
47966098 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
131 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
47966163 ATTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
47966227 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
261 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
47966292 CTGAAATCATAATATATGATACTGTAAAATATAAATT
326 CTGAAATCATAATATATGATACTGTAAAATATAAATT
47966329 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
****
47966394 ATATAAGAATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
47966459 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
131 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
47966524 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
47966589 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
261 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
47966654 CTGAAATCATAATATATGATACTGTAAAATATAAATT
326 CTGAAATCATAATATATGATACTGTAAAATATAAATT
47966691 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47966756 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
47966821 ATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAATATTCTTAT
131 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
47966885 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
* *
47966950 ATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTATATTAATTT
261 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTATATTAATTT
47967013 ACTGAAATCATAATATATGATACTGTAAAATATAAATT
325 ACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
47967051 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAGTTGGATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
47967116 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
66 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
47967181 ATTATTAAATATAT
131 ATTATTAAATATAT
47967195 AACTTGAAAA
Statistics
Matches: 1202, Mismatches: 20, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
359 1 0.00
360 202 0.17
361 493 0.41
362 396 0.33
363 109 0.09
364 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (362 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATA
ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
CTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:47966910 original size:602 final size:601
Alignment explanation
Indices: 47965606--47967194 Score: 2821
Period size: 602 Copynumber: 2.6 Consensus size: 601
47965596 ATCATATTTA
47965606 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
47965671 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
47965736 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
47965801 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
47965866 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
261 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAA-TGGATAATATTCTTATATTAATTTA
*
47965931 CTGAAATCATAATATATGATACTGTAAAACATAAATTAACATAATTATTATTAAATATATTTTAA
325 CTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAA
47965996 TTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGAATATTAATTTACTGAAATCA
390 TTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGAATATTAATTTACTGAAATCA
*
47966061 TAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTAT
455 TAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAAATAT
47966126 ATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGA
520 ATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGA
47966191 TACTGTAAATATAAATT
585 TACTGTAAATATAAATT
* *
47966208 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
*
47966272 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
64 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
****
47966337 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGA
129 TATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTT
47966402 ATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
194 ATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAA
* ** *
47966467 ATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAAT-AATTAATATTCTTATATTAATT
259 ATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATGGA-TAATATTCTTATATTAATT
*
47966531 TACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTT
323 TACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTT
****
47966596 AATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTACTGAAAT
388 AATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGAATATTAATTTACTGAAAT
47966661 CATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAAAT
453 CATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAAAT
** * *
47966726 ATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTATATTAATTTACTGAAATCATAATAT
518 ATATAATTTAAAAAAATTCTTAA-T-AATTAATATTCTTATATTAATTTACTCAAATCATAATAT
47966790 ATGATACTGTAAAATATAAATT
581 ATGATACTGT-AAATATAAATT
*
47966812 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
47966876 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* *
47966941 TTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTA
47967004 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
195 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
*
47967069 TATATTTTAATTAAAATATATAATTTAATGAAATTCTTAGTTGGATAATATTCTTATATTAATTT
260 TATATTTTAATTAAAATATATAATTTAATGAAATTCTTA-ATGGATAATATTCTTATATTAATTT
47967134 ACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATAT
324 ACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATAT
47967195 AACTTGAAAA
Statistics
Matches: 939, Mismatches: 38, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
600 1 0.00
601 111 0.12
602 482 0.51
603 287 0.31
604 58 0.06
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (601 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATGGATAATATTCTTATATTAATTTAC
TGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAAT
TAAAATATATAATTTAATGAAATTCTTAATTGGATAATATAAGAATATTAATTTACTGAAATCAT
AATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAAATATA
TAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGAT
ACTGTAAATATAAATT
Found at i:47970254 original size:33 final size:33
Alignment explanation
Indices: 47970215--47970290 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
47970205 ATTATAAAGC
*
47970215 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
47970248 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
47970281 ATGTATAATT
1 ATGTATAATT
47970291 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:47970388 original size:37 final size:37
Alignment explanation
Indices: 47970333--47970414 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
47970323 GTATAAATAT
* * *
47970333 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
47970370 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
47970407 ATTGATTA
1 ATTGATTA
47970415 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:47976574 original size:117 final size:120
Alignment explanation
Indices: 47976430--47976646 Score: 361
Period size: 117 Copynumber: 1.8 Consensus size: 120
47976420 AGATTATATT
47976430 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATT-A-TATT-GAAT
1 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAAT-ATTGATTATTAGAAT
*
47976492 TTTATTAAATTATATATTTTAACTAAATTATATTTCATATTAATTATTTTAAATTA
65 TTTATTAAATTATATATTTTAACTAAAATATATTTCATATTAATTATTTTAAATTA
*
47976548 TATTTT-ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAAT
*
47976612 TTTATTAAATTATATATTTTAATTAAAATATATTT
65 TTTATTAAATTATATATTTTAACTAAAATATATTT
47976647 TATTAAATCA
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 3 0.03
117 42 0.46
118 10 0.11
120 37 0.40
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTGATTATTAGAATT
TTATTAAATTATATATTTTAACTAAAATATATTTCATATTAATTATTTTAAATTA
Found at i:47976644 original size:16 final size:16
Alignment explanation
Indices: 47976610--47976654 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
47976600 ATTATTAAGA
47976610 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
47976627 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
47976643 ATTTTATTAAAT
1 ATTTTATTAAAT
47976655 CATTTATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.23
16 9 0.35
17 5 0.19
18 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:47976758 original size:39 final size:40
Alignment explanation
Indices: 47976715--47976819 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
47976705 TTCCCTTATG
47976715 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
47976754 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
47976799 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
47976820 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:47976813 original size:45 final size:44
Alignment explanation
Indices: 47976713--47976822 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
47976703 TTTTCCCTTA
47976713 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
47976752 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
47976797 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
47976823 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:47976822 original size:16 final size:16
Alignment explanation
Indices: 47976803--47976854 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
47976793 GATTTGCTAT
* *
47976803 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
47976819 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47976835 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47976851 TACA
1 TACA
47976855 ACAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47984358 original size:41 final size:41
Alignment explanation
Indices: 47984260--47984421 Score: 234
Period size: 41 Copynumber: 3.9 Consensus size: 41
47984250 GTATATCCAA
* * *
47984260 GGGTACCGTAGTACAAACAGGGGCACGTATGTGCAATTTAGG
1 GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATTTA-G
* *
47984302 GGGTACCAAAGTACAAAAAAGGGCACATATGTGCAATTTAG
1 GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATTTAG
*
47984343 GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATTCAG
1 GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATTTAG
* * *
47984384 GGGTACCGAAGTACAAATAGGGGCACATATGTGTAATT
1 GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATT
47984422 CAACATTATT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 74 0.68
42 35 0.32
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAAGGGCACATATGTGCAATTTAG
Found at i:47990474 original size:23 final size:23
Alignment explanation
Indices: 47990448--47990491 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47990438 AAAAAATTAT
*
47990448 AAATTCATAACGAAAAAATCTGG
1 AAATTCATAAAGAAAAAATCTGG
**
47990471 AAATTTTTAAAGAAAAAATCT
1 AAATTCATAAAGAAAAAATCT
47990492 TTTGACTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (23 bp):
AAATTCATAAAGAAAAAATCTGG
Found at i:47991730 original size:25 final size:25
Alignment explanation
Indices: 47991700--47991750 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
47991690 ATTATTATTA
* *
47991700 ATGATTAGTTTAAGTTAA-TTAAATT
1 ATGATTAGGTT-ACTTAAGTTAAATT
47991725 ATGATTAGGTTACTTAAGTTAAATT
1 ATGATTAGGTTACTTAAGTTAAATT
47991750 A
1 A
47991751 ATTAAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGATTAGGTTACTTAAGTTAAATT
Found at i:47993210 original size:28 final size:28
Alignment explanation
Indices: 47993162--47993293 Score: 149
Period size: 28 Copynumber: 4.7 Consensus size: 28
47993152 AACATGACAG
* *
47993162 GAAAGAATAAGCTTTTGTGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* *
47993190 GAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* * *
47993218 GAAAGAATAAGCCTTTGGGGAGAA-TAAT
1 GAAAGAATAAACCTTTGTGGTGAACT-AT
* **
47993246 GAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
*
47993274 GAAAGAATAAGCCTTTGTGG
1 GAAAGAATAAACCTTTGTGG
47993294 CGGACTCCGT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 85 0.98
29 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (28 bp):
GAAAGAATAAACCTTTGTGGTGAACTAT
Found at i:47993248 original size:56 final size:56
Alignment explanation
Indices: 47993162--47993290 Score: 170
Period size: 56 Copynumber: 2.3 Consensus size: 56
47993152 AACATGACAG
* * * * **
47993162 GAAAGAATAAGCTTTTGTGGTGAACTATGAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
* *
47993218 GAAAGAATAAGCCTTTGGGGAGAA-TAATGAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACT-ATGAAAGAACAAACATTTATGGCAAACTAT
47993274 GAAAGAATAAGCCTTTG
1 GAAAGAATAAGCCTTTG
47993291 TGGCGGACTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.02
56 63 0.98
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (56 bp):
GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
Found at i:47995083 original size:25 final size:25
Alignment explanation
Indices: 47995055--47995114 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
47995045 TCACAGCTTG
*
47995055 TGTGAGCATTTACAGTTATAGCTCA
1 TGTGAGCATTTACAGTTATAACTCA
* * **
47995080 TGTGAGCAATTATAGTTATAACTTG
1 TGTGAGCATTTACAGTTATAACTCA
47995105 TGTGAGCATT
1 TGTGAGCATT
47995115 ATTTCCGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (25 bp):
TGTGAGCATTTACAGTTATAACTCA
Found at i:48003066 original size:16 final size:16
Alignment explanation
Indices: 48003042--48003073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48003032 AATGTGTGGT
48003042 ACATCGAGTCTCCGGC
1 ACATCGAGTCTCCGGC
*
48003058 ACATTGAGTCTCCGGC
1 ACATCGAGTCTCCGGC
48003074 GCCGATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (16 bp):
ACATCGAGTCTCCGGC
Found at i:48010095 original size:18 final size:18
Alignment explanation
Indices: 48010055--48010110 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
48010045 TTCTGTGATA
*
48010055 AATAACATTTTGAAAATT
1 AATAACATTTTGAAAATG
*
48010073 TATAACATTTTGAAAGA-G
1 AATAACATTTTGAAA-ATG
* *
48010091 AATAAC-TTATGAATATG
1 AATAACATTTTGAAAATG
48010108 AAT
1 AAT
48010111 CACGTTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 19 0.61
19 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (18 bp):
AATAACATTTTGAAAATG
Found at i:48012834 original size:37 final size:37
Alignment explanation
Indices: 48012784--48012862 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48012774 TTATTACGAA
* * *
48012784 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
48012821 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
48012858 GTCTT
1 GTCTT
48012863 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:48013066 original size:47 final size:47
Alignment explanation
Indices: 48012981--48013439 Score: 733
Period size: 47 Copynumber: 9.7 Consensus size: 47
48012971 CCCTTCGGGA
* * * * * *
48012981 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
48013028 CCTGTGACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48013075 CTTATTACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48013121 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48013168 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48013215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48013262 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48013311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48013358 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48013405 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
48013440 AGAATCCTAA
Statistics
Matches: 390, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 46 0.12
47 297 0.76
49 47 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48013342 original size:143 final size:143
Alignment explanation
Indices: 48012981--48013418 Score: 724
Period size: 143 Copynumber: 3.1 Consensus size: 143
48012971 CCCTTCGGGA
* * * * * * * *
48012981 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTGACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
48013044 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48013109 TC-GCCATTAGGC
131 TCGGCCATTAGGC
*
48013121 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
48013184 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48013249 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48013262 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
48013327 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48013392 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
48013405 CTTATCTCATATAT
1 CTTATCACATATAT
48013419 GCATGTTCAC
Statistics
Matches: 278, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
139 1 0.00
140 115 0.41
141 18 0.06
143 144 0.52
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:48015420 original size:13 final size:13
Alignment explanation
Indices: 48015402--48015426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48015392 TACTAAATTT
48015402 TCATGGATTCAAA
1 TCATGGATTCAAA
48015415 TCATGGATTCAA
1 TCATGGATTCAA
48015427 TATACCATTA
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):
TCATGGATTCAAA
Found at i:48016574 original size:39 final size:38
Alignment explanation
Indices: 48016503--48017291 Score: 239
Period size: 39 Copynumber: 20.4 Consensus size: 38
48016493 AAAAATGAAA
*** * *
48016503 GTCGTGATCGTAAATCAAAAAACTGTTTAAAAAACTAATG
1 GTCGTGATCGTAAATCAATGGACCG--TAAAAAACTAAAG
* ** *
48016543 GTCGTGATCGTAAATCAGTGGTTCGTAAAAAAGCCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAA-CTAAAG
* * *
48016582 GTCGTAATCGTAAATCAATGGACCGTAAGAAAGTCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAACT-AAAG
* *** * * *
48016621 GTCGTGATCGTAAATTAGCAGACAGTAAGAAAGCTGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * *
48016660 GTCTTGATC----AT-AA---ACCGTAAAAAGGCCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAA-ACTAAAG
* * * * * *
48016691 GCCGTGATCGTAAATCAATGGACCATGAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAACT-AAAG
* * * * * *
48016730 GTCGTGACCATAAATAAATGGACCATAAGAAAATTGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * * * * *
48016769 GTCATGATCGTAAATTAACGGACTGTAAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAACT-AAAG
* ** *
48016808 GTCGTGATCGTAAATCAACGGACCGTAAGAAAGTTGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * * **
48016847 GTCGTGATTGTAAATCAATGGACTGTAGGAAACCCGAAG
1 GTCGTGATCGTAAATCAATGGACCGTA-AAAAACTAAAG
* * * * * **
48016886 GACATGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAG
1 GTCGTGATCGT-AAATCAATGGACCGTAA-AAAACTAAAG
* * * * * * * **
48016925 ATCATGATCGTAAATTAGTGGGCCATAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * *** * *
48016964 GTCATGATCATAAATTAACATACCGTAAGAAAGTAGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAACTA-AAG
* * * * *
48017003 GTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * *** **
48017042 GTCGTGATCATAAATCAACGGATTTTAAGAAAGTTAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * * * * *
48017081 GTCATGATCGTGATTCAGTGAACCGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * * * * *
48017120 GTCATGATCATAAATCAACGAACTGTAAGAAAGTCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAAAAAACT-AAAG
* * * ** * *
48017159 GTTGTAATCGTGAATCAGCGGACCGTAAGAAATCCAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * **
48017198 GTCATGATCGTAAATCAATGGACC-TAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* * * * *
48017236 GTCGTGATCGTGAATCAACGAATCGTAAGAAAGCTAAAG
1 GTCGTGATCGTAAATCAATGGACCGTAA-AAAACTAAAG
* *
48017275 GTCATGATCATAAATCA
1 GTCGTGATCGTAAATCA
48017292 GCGAACCGTG
Statistics
Matches: 558, Mismatches: 166, Indels: 51
0.72 0.21 0.07
Matches are distributed among these distances:
30 3 0.01
31 18 0.03
34 1 0.00
35 4 0.01
36 2 0.00
38 47 0.08
39 449 0.80
40 34 0.06
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (38 bp):
GTCGTGATCGTAAATCAATGGACCGTAAAAAACTAAAG
Found at i:48016654 original size:78 final size:78
Alignment explanation
Indices: 48016542--48017291 Score: 533
Period size: 78 Copynumber: 9.7 Consensus size: 78
48016532 AAAAACTAAT
* * * * * * *
48016542 GGTCGTGATCGTAAATCAGTGGTTC-GTAAAAAAGCCAAAGGTCGTAATCGTAAATCAATGGACC
1 GGTCGTGATCGTAAATCAGCGG-ACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACC
48016606 GTAAGAAAGTCAAA
65 GTAAGAAAGTCAAA
* * * *
48016620 GGTCGTGATCGTAAATTAGCAGACAGTAAGAAAGCTGAAGGTCTTGATC----AT-AA---ACCG
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
*
48016677 TAA-AAAGGCCAAA
66 TAAGAAA-GTCAAA
* ** * * * * *
48016690 GGCCGTGATCGTAAATCAATGGACCA-TGAGAAAGTCGAAGGTCGTGACCATAAATAAATGGACC
1 GGTCGTGATCGTAAATCAGCGGA-CAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACC
* * **
48016754 ATAAGAAAATTGAA
65 GTAAGAAAGTCAAA
* * * * * * * *
48016768 GGTCATGATCGTAAATTAACGGACTGTAAGAAAGTCGAAGGTCGTGATCGTAAATCAACGGACCG
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
**
48016833 TAAGAAAGTTGAA
66 TAAGAAAGTCAAA
* ** * * * * * *
48016846 GGTCGTGATTGTAAATCAATGGACTGTAGGAAACCCGAAGGACATGATC-TCAAATCAATAGTCC
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCAT-AAATCAATGGACC
* *
48016910 GTAAGAAAGCCGAA
65 GTAAGAAAGTCAAA
* * * * * * ***
48016924 GATCATGATCGTAAATTAGTGGGCCA-TAAGAAAGCCGAAGGTCATGATCATAAATTAACATACC
1 GGTCGTGATCGTAAATCAG-CGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACC
48016988 GTAAGAAAGT-AGAA
65 GTAAGAAAGTCA-AA
* * * * * * ***
48017002 GGTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAGGTCGTGATCATAAATCAACGGATTT
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
*
48017067 TAAGAAAGTTAAA
66 TAAGAAAGTCAAA
* * * * * * * * * *
48017080 GGTCATGATCGTGATTCAGTGAACCGTAAGAAAGCCAAAGGTCATGATCATAAATCAACGAACTG
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
48017145 TAAGAAAGTCAAA
66 TAAGAAAGTCAAA
* * * * * * *
48017158 GGTTGTAATCGTGAATCAGCGGACCGTAAGAAATCCAAAGGTCATGATCGTAAATCAATGGACC-
1 GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
* *
48017222 TAAGAAAGCCGAA
66 TAAGAAAGTCAAA
* * * **
48017235 GGTCGTGATCGTGAATCAACGAATC-GTAAGAAAGCTAAAGGTCATGATCATAAATCA
1 GGTCGTGATCGTAAATCAGCGGA-CAGTAAGAAAGCCGAAGGTCATGATCATAAATCA
48017292 GCGAACCGTG
Statistics
Matches: 538, Mismatches: 114, Indels: 41
0.78 0.16 0.06
Matches are distributed among these distances:
69 3 0.01
70 48 0.09
71 2 0.00
73 2 0.00
74 4 0.01
75 2 0.00
77 65 0.12
78 404 0.75
79 8 0.01
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (78 bp):
GGTCGTGATCGTAAATCAGCGGACAGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACCG
TAAGAAAGTCAAA
Found at i:48016759 original size:109 final size:109
Alignment explanation
Indices: 48016566--48016782 Score: 274
Period size: 109 Copynumber: 2.0 Consensus size: 109
48016556 ATCAGTGGTT
* * * *
48016566 CGTAAAAAAGCCAAAGGTCGTAATCGTAAATCAATGGACCGTAAGAAAGTCAAAGGTCGTGATCG
1 CGTAAAAAAGCCAAAGGCCGTAATCGTAAATCAATGGACCATAAGAAAGTCAAAGGTCGTGACCA
* * * *
48016631 TAAATTAGCAGACAGTAAGAAAGCTGAAGGTCTTGATCATAAAC
66 TAAATAAACAGACAGTAAGAAAACTGAAGGTCATGATCATAAAC
* * * *
48016675 CGTAAAAAGGCCAAAGGCCGTGATCGTAAATCAATGGACCATGAGAAAGTCGAAGGTCGTGACCA
1 CGTAAAAAAGCCAAAGGCCGTAATCGTAAATCAATGGACCATAAGAAAGTCAAAGGTCGTGACCA
** * *
48016740 TAAATAAATGGACCA-TAAGAAAATTGAAGGTCATGATCGTAAA
66 TAAATAAACAGA-CAGTAAGAAAACTGAAGGTCATGATCATAAA
48016783 TTAACGGACT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
109 89 0.98
110 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (109 bp):
CGTAAAAAAGCCAAAGGCCGTAATCGTAAATCAATGGACCATAAGAAAGTCAAAGGTCGTGACCA
TAAATAAACAGACAGTAAGAAAACTGAAGGTCATGATCATAAAC
Found at i:48016914 original size:117 final size:117
Alignment explanation
Indices: 48016676--48017291 Score: 513
Period size: 117 Copynumber: 5.3 Consensus size: 117
48016666 ATCATAAACC
* * * * * *
48016676 GTAA-AAAGGCCAAAGGCCGTGATCGTAAATCAATGGACCATGAGAAAGTCGAAGGTCGTGACCA
1 GTAAGAAA-GCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGTCGAAGGTCATGATCG
* * *** * * *
48016740 TAAATAAATGGACCATAAGAAAATTGAAGGTCATGATCGTAAATTAACGGACT
65 TAAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACT
* * * * * *
48016793 GTAAGAAAGTCGAAGGTCGTGATCGTAAATCAACGGACCGTAAGAAAGTTGAAGGTCGTGATTGT
1 GTAAGAAAGCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGTCGAAGGTCATGATCGT
* * * * * * *
48016858 AAATCAATGGACTGTAGGAAACCCGAAGGACATGATC-TCAAATCAATAGTCC
66 AAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCAT-AAATCAATGGACT
* * * * ** * * *
48016910 GTAAGAAAGCCGAAGATCATGATCGTAAATTAGTGGGCCATAAGAAAGCCGAAGGTCATGATCAT
1 GTAAGAAAGCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGTCGAAGGTCATGATCGT
* *** ** * *
48016975 AAATTAACATACCGTAAGAAAGTAGAAGGTCGTGATCATAAATCAGTGGACT
66 AAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACT
* *** **
48017027 GTAAGAAAGCCAAAGGTCGTGATCATAAATCAACGGATTTTAAGAAAGTTAAAGGTCATGATCGT
1 GTAAGAAAGCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGTCGAAGGTCATGATCGT
* * * * * * *
48017092 GATTCAGTGAACCGTAAGAAAGCCAAAGGTCATGATCATAAATCAACGAACT
66 AAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACT
* * * * * * *
48017144 GTAAGAAAGTCAAAGGTTGTAATCGTGAATCAGCGGACCGTAAGAAA-TCCAAAGGTCATGATCG
1 GTAAGAAAGCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGT-CGAAGGTCATGATCG
* * * * *
48017208 TAAATCAATGGACC-TAAGAAAGCCGAAGGTCGTGATCGTGAATCAA-CGAAT
65 TAAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACT
* * *
48017259 CGTAAGAAAGCTAAAGGTCATGATCATAAATCA
1 -GTAAGAAAGCCAAAGGTCGTGATCGTAAATCA
48017292 GCGAACCGTG
Statistics
Matches: 386, Mismatches: 108, Indels: 11
0.76 0.21 0.02
Matches are distributed among these distances:
115 2 0.01
116 55 0.14
117 325 0.84
118 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (117 bp):
GTAAGAAAGCCAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGTCGAAGGTCATGATCGT
AAATCAATGGACCGTAAGAAAGCCGAAGGTCATGATCATAAATCAATGGACT
Found at i:48023344 original size:13 final size:14
Alignment explanation
Indices: 48023318--48023346 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48023308 TTAACTAATG
48023318 AATAAAAGGAATAA
1 AATAAAAGGAATAA
48023332 AATAAAA-GAATAA
1 AATAAAAGGAATAA
48023345 AA
1 AA
48023347 GAAACAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AATAAAAGGAATAA
Found at i:48023357 original size:17 final size:17
Alignment explanation
Indices: 48023335--48023369 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48023325 GGAATAAAAT
*
48023335 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
48023352 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
48023369 A
1 A
48023370 GAGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Done.