Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 158 of 373
Found at i:52669140 original size:46 final size:46
Alignment explanation
Indices: 52669088--52669360 Score: 352
Period size: 46 Copynumber: 5.9 Consensus size: 46
52669078 GTGTGCTCTC
* * *
52669088 TGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAACT
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
52669134 TGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
52669180 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
52669226 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * ** *
52669272 TGACATGAAAAT-AATAAGACCATGGTTGAAAGAAACCATGATAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * *
52669318 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
52669361 TTATGTCAAA
Statistics
Matches: 207, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 6 0.03
46 197 0.95
47 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:52678673 original size:42 final size:43
Alignment explanation
Indices: 52678583--52678719 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 43
52678573 TCCACGTAGC
* * * *
52678583 CTTACATGTAATCAAATATCGATGCCACTGTCCC-GACAGGGT
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACATGGT
* *
52678625 ATTACACGAAATCATATA-CGATGCCAATGTCCCAGACATGGT
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACATGGT
* * *
52678667 CTTACACGTAAATCACAA-ATCGATGCCAACGTCCCAAACGTGGT
1 CTTACACG-AAATCA-AATATCGATGCCAATGTCCCAGACATGGT
52678711 CTTACACGA
1 CTTACACGA
52678720 TAACACATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 14 0.17
42 28 0.35
43 8 0.10
44 30 0.38
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACATGGT
Found at i:52684699 original size:43 final size:43
Alignment explanation
Indices: 52684651--52684820 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 43
52684641 GTTACCGAGA
52684651 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
52684694 TGTGATTACGTGTAAAACCATGTCTGGGACATTGACATTGCTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* *** * * **
52684738 T-CGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCA-TCAAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
52684779 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
52684821 CAAGCGATAT
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 87 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:52691183 original size:27 final size:26
Alignment explanation
Indices: 52691127--52691237 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
52691117 AGCAAGGCTG
* *
52691127 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52691153 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
* *
52691180 CCAGAATAGATATATGTGGCAGAGCTA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
52691207 CCAGATCAGATAATTTTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
52691234 CCAG
1 CCAG
52691238 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52692659 original size:24 final size:24
Alignment explanation
Indices: 52692631--52692682 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
52692621 CAACACTGTC
*
52692631 CTCCCTTATCAGTTCCTAAATCCT
1 CTCCCTTATCAGCTCCTAAATCCT
52692655 CTCCCTTATCAGCTCCTAAATCCT
1 CTCCCTTATCAGCTCCTAAATCCT
52692679 CTCC
1 CTCC
52692683 TGACAGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.42, G:0.04, T:0.35
Consensus pattern (24 bp):
CTCCCTTATCAGCTCCTAAATCCT
Found at i:52698218 original size:48 final size:47
Alignment explanation
Indices: 52698099--52698336 Score: 287
Period size: 48 Copynumber: 4.9 Consensus size: 47
52698089 AAAAGGGTAA
* ** *
52698099 AATGCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACT-GCTCACATA-A-C
* *
52698149 AGTGCCGATGCCATGTCCCAAACATGGTCTTACACTGCCTCACATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTG-CTCACATAAC
* **
52698197 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACT-GCTCACATAAC
* * * *
52698245 GAGGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAAC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACT-GCTCACATAAC
*
52698293 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACT-GCTCACA
52698337 CATAACCCTA
Statistics
Matches: 164, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
48 121 0.74
49 3 0.02
50 40 0.24
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGCTCACATAAC
Found at i:52698291 original size:96 final size:98
Alignment explanation
Indices: 52698099--52698333 Score: 341
Period size: 96 Copynumber: 2.4 Consensus size: 98
52698089 AAAAGGGTAA
* ** * *
52698099 AATGCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCAGTGCCGATGCCATG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATACATCAGTGCCGATGCCATG
52698164 TCCCAAACATGGTCTTACACTGCCTCACATAAC
66 TCCCAAACATGGTCTTACACTGCCTCACATAAC
* *
52698197 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATA-TTGAG-GCCGATGCCATG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATACATCAGTGCCGATGCCATG
* * *
52698260 TTCCAGACATGGTCTTACACTAG-CTCTCATAAC
66 TCCCAAACATGGTCTTACACT-GCCTCACATAAC
*
52698293 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
52698334 ACACATAACC
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
96 80 0.64
97 4 0.03
98 41 0.33
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (98 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATACATCAGTGCCGATGCCATG
TCCCAAACATGGTCTTACACTGCCTCACATAAC
Found at i:52699505 original size:24 final size:26
Alignment explanation
Indices: 52699453--52699505 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
52699443 TTTTTGTCTT
*
52699453 ATTATACCTTTTTAACTTTATTACCA
1 ATTATACCTTTTTAACTTTATAACCA
* *
52699479 ATTA-ACCTTTTTAA-TTTCTAACTA
1 ATTATACCTTTTTAACTTTATAACCA
52699503 ATT
1 ATT
52699506 TCAATAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.42
25 10 0.42
26 4 0.17
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATACCTTTTTAACTTTATAACCA
Found at i:52713427 original size:20 final size:20
Alignment explanation
Indices: 52713404--52713445 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
52713394 AGAAGTTAGC
*
52713404 TAGCTGTTAAGTAAAGTAGT
1 TAGCTATTAAGTAAAGTAGT
* *
52713424 TAGCTATTAGGTGAAGTAGT
1 TAGCTATTAAGTAAAGTAGT
52713444 TA
1 TA
52713446 CTTCTAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (20 bp):
TAGCTATTAAGTAAAGTAGT
Found at i:52728362 original size:23 final size:23
Alignment explanation
Indices: 52728333--52728410 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
52728323 CTGATGAACA
52728333 GTAAGCTTTATCGAGCTGAAACG
1 GTAAGCTTTATCGAGCTGAAACG
** * *
52728356 GTAAGCTCCATTGAGCTG-AACA
1 GTAAGCTTTATCGAGCTGAAACG
*
52728378 GTAAACTCTTA-CGAGCTGATATATCG
1 GTAAGCT-TTATCGAGCTGA-A-A-CG
52728404 GTAAGCT
1 GTAAGCT
52728411 CATACGAGCT
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
22 15 0.38
23 16 0.40
24 1 0.03
25 1 0.03
26 7 0.17
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (23 bp):
GTAAGCTTTATCGAGCTGAAACG
Found at i:52741122 original size:46 final size:45
Alignment explanation
Indices: 52741046--52741217 Score: 163
Period size: 47 Copynumber: 3.7 Consensus size: 45
52741036 TATCTCAAGT
*
52741046 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATTTCGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAACT-T-ATATCGTAGC
* * * *
52741094 CGATGTATGTCCCA-AGCAT-GTCTTACACTAGCACTTGTCTCGTTGC
1 CGATGCATGTCCCAGA-CATGGTCTTACACTA--ACTTATATCGTAGC
* *
52741140 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAAT-GTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTA--ACTTAT-ATCGTAGC
52741188 CGATGCATGTCCCAGACAT-GTCTTACACTA
1 CGATGCATGTCCCAGACATGGTCTTACACTA
52741218 GCCCACAACA
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
46 35 0.32
47 37 0.34
48 35 0.32
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAACTTATATCGTAGC
Found at i:52741151 original size:47 final size:47
Alignment explanation
Indices: 52741046--52741219 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 47
52741036 TATCTCAAGT
*
52741046 CGATGCCATGTCCCAGACATGGTCTTACACTA--ACTATCATTTCGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCACT-T-ATATCGTAGC
* * * *
52741094 CGATGTATGTCCCA-AGCAT-GTCTTACACTAGCACTTGTCTCGTTGC
1 CGATGCATGTCCCAGA-CATGGTCTTACACTAGCACTTATATCGTAGC
* *
52741140 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAAT-GTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCACTTAT-ATCGTAGC
52741188 CGATGCATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC
52741220 CCACAACAAC
Statistics
Matches: 110, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
46 37 0.34
47 37 0.34
48 35 0.32
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCACTTATATCGTAGC
Found at i:52741190 original size:94 final size:94
Alignment explanation
Indices: 52741046--52741219 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
52741036 TATCTCAAGT
* *
52741046 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATTTCGTAGCCGATGTATGTCCCA-AG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGA-
52741110 CATGTCTTACACTAGCACTTGTCTCGTTGC
65 CATGTCTTACACTAGCACTTGTCTCGTTGC
* * * *
52741140 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAAT-GTGGCCGATGCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGA
52741204 CATGTCTTACACTAGC
65 CATGTCTTACACTAGC
52741220 CCACAACAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
94 70 0.97
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTTGTCTCGTTGC
Found at i:52741643 original size:30 final size:30
Alignment explanation
Indices: 52741562--52741645 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
52741552 CATCTTCGGT
*
52741562 AAAATGACCATTTTGCCCCTAAACTTTGAC
1 AAAATGACCATTTTGCCCCTAGACTTTGAC
52741592 AAAATGACCATTTTGCCCCTAGACTTTGAC
1 AAAATGACCATTTTGCCCCTAGACTTTGAC
*
52741622 AAAATGACCATTTTACCCCTAGAC
1 AAAATGACCATTTTGCCCCTAGAC
52741646 CCGAAAATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (30 bp):
AAAATGACCATTTTGCCCCTAGACTTTGAC
Found at i:52742585 original size:22 final size:22
Alignment explanation
Indices: 52742529--52742589 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
52742519 TTTGTAAGTT
52742529 TTTGGTGCTA-TTTTGGTGTTC
1 TTTGGTGCTATTTTTGGTGTTC
* * *
52742550 TTGGTGATGCTATTTTTTGTGTTG
1 TT--TGGTGCTATTTTTGGTGTTC
52742574 TTTGGTGCTATTTTTG
1 TTTGGTGCTATTTTTG
52742590 TGGAGTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 12 0.38
23 7 0.22
24 11 0.34
ACGTcount: A:0.07, C:0.07, G:0.28, T:0.59
Consensus pattern (22 bp):
TTTGGTGCTATTTTTGGTGTTC
Found at i:52742597 original size:21 final size:22
Alignment explanation
Indices: 52742557--52742597 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52742547 TTCTTGGTGA
**
52742557 TGCTATTTTTTGTGTTGTTTGG
1 TGCTATTTTTTGTGGAGTTTGG
52742579 TGCTA-TTTTTGTGGAGTTT
1 TGCTATTTTTTGTGGAGTTT
52742598 TTATGCCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.07, C:0.05, G:0.27, T:0.61
Consensus pattern (22 bp):
TGCTATTTTTTGTGGAGTTTGG
Found at i:52742620 original size:11 final size:11
Alignment explanation
Indices: 52742606--52742630 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52742596 TTTTATGCCG
52742606 TTTGGTGTTGT
1 TTTGGTGTTGT
52742617 TTTGGTGTTGT
1 TTTGGTGTTGT
52742628 TTT
1 TTT
52742631 TATACTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (11 bp):
TTTGGTGTTGT
Found at i:52742914 original size:15 final size:15
Alignment explanation
Indices: 52742891--52742921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52742881 ATAATAGAAC
52742891 TAAAAGTACAGCTTT
1 TAAAAGTACAGCTTT
*
52742906 TAAAGGTACAGCTTT
1 TAAAAGTACAGCTTT
52742921 T
1 T
52742922 TCTAATATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (15 bp):
TAAAAGTACAGCTTT
Found at i:52747440 original size:16 final size:16
Alignment explanation
Indices: 52747419--52747449 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52747409 CAGATTTCAG
52747419 AAAAGAAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
*
52747435 AAAAGAAAGGAAAAA
1 AAAAGAAAAGAAAAA
52747450 CCCATAAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAA
Found at i:52749002 original size:20 final size:20
Alignment explanation
Indices: 52748965--52749002 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52748955 AATAAATTTT
*
52748965 TTTATATTTTAGATAAAACA
1 TTTATATTTTAGAAAAAACA
52748985 TTTATAATTTTA-AAAAAA
1 TTTAT-ATTTTAGAAAAAA
52749003 TAAAAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTATATTTTAGAAAAAACA
Found at i:52756688 original size:12 final size:12
Alignment explanation
Indices: 52756671--52756700 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52756661 CCTCACACGC
52756671 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
52756683 CCGTGTGCTAGG
1 CCGTGTGCCAGG
52756695 CCGTGT
1 CCGTGT
52756701 AACAACCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:52760659 original size:61 final size:61
Alignment explanation
Indices: 52760590--52760971 Score: 426
Period size: 61 Copynumber: 6.3 Consensus size: 61
52760580 TACTCTTCAT
* * * *
52760590 AAAGGCTATCCTTTACATTCAGTACTCACCATAAAGGCTTTCTTATCCAGAGTTGTTCCAC
1 AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
* * * * * *
52760651 AAAGGCTATCCTTTACATTTAGTACT-AGCCACAAAGGCTTTCCTGTCGAGATTTATGCCTC
1 AAAGGCTATCCTTTACATTCAGTACTCA-CCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
* * * * * * * * *
52760712 AAAGGCTGTCCTTTACATTAAGTACTCGCTACAAAGGCTTTCTTGTATAGAGTTGTACCTC
1 AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
* * * * *
52760773 AAAGGCTATCCTTTACGTTCAGTACT-AGCCACAAAGGCTTTCTTATCCAAATTTGTGCCAC
1 AAAGGCTATCCTTTACATTCAGTACTCA-CCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
* * * *
52760834 GAAGGCTATCCTTTACATTCAGTACTCGCCGCAAAGGCTTTCCTATCTAGAGTTGTGCCTC
1 AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
* * * ** *
52760895 AAAGGTTATCCTTTACATTTAGTATTTGCCACAAAGGCTTTCCTATCTAGAGTTGTACCAC
1 AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
52760956 AAAGGCTATCCTTTAC
1 AAAGGCTATCCTTTAC
52760972 TGGTGTTTCG
Statistics
Matches: 268, Mismatches: 49, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
60 1 0.00
61 267 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (61 bp):
AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCAC
Found at i:52760738 original size:122 final size:122
Alignment explanation
Indices: 52760590--52760971 Score: 512
Period size: 122 Copynumber: 3.1 Consensus size: 122
52760580 TACTCTTCAT
* * * * *
52760590 AAAGGCTATCCTTTACATTCAGTACTCACCATAAAGGCTTTCTTATCCAGAGTTGTTCCACAAAG
1 AAAGGCTATCCTTTACATTCAGTACTCGCCACAAAGGCTTTCTTATCTAGAGTTGTACCTCAAAG
* * * *
52760655 GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTGTCGAGATTTATGCCTC
66 GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTATCCAGATTTGTGCCAC
* * * * *
52760712 AAAGGCTGTCCTTTACATTAAGTACTCGCTACAAAGGCTTTCTTGTATAGAGTTGTACCTCAAAG
1 AAAGGCTATCCTTTACATTCAGTACTCGCCACAAAGGCTTTCTTATCTAGAGTTGTACCTCAAAG
* * * *
52760777 GCTATCCTTTACGTTCAGTACTAGCCACAAAGGCTTTCTTATCCAAATTTGTGCCAC
66 GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTATCCAGATTTGTGCCAC
* * * *
52760834 GAAGGCTATCCTTTACATTCAGTACTCGCCGCAAAGGCTTTCCTATCTAGAGTTGTGCCTCAAAG
1 AAAGGCTATCCTTTACATTCAGTACTCGCCACAAAGGCTTTCTTATCTAGAGTTGTACCTCAAAG
* * * * * *
52760899 GTTATCCTTTACATTTAGTATTTGCCACAAAGGCTTTCCTATCTAGAGTTGTACCAC
66 GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTATCCAGATTTGTGCCAC
52760956 AAAGGCTATCCTTTAC
1 AAAGGCTATCCTTTAC
52760972 TGGTGTTTCG
Statistics
Matches: 222, Mismatches: 38, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
122 222 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (122 bp):
AAAGGCTATCCTTTACATTCAGTACTCGCCACAAAGGCTTTCTTATCTAGAGTTGTACCTCAAAG
GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTATCCAGATTTGTGCCAC
Found at i:52760811 original size:183 final size:183
Alignment explanation
Indices: 52760590--52760971 Score: 541
Period size: 183 Copynumber: 2.1 Consensus size: 183
52760580 TACTCTTCAT
* * *
52760590 AAAGGCTATCCTTTACATTCAGTACTCACCATAAAGGCTTTCTTATCCAGAGTTGTTCCACAAAG
1 AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCTTATCCAAAGTTGTGCCACAAAG
* * * *
52760655 GCTATCCTTTACATTTAGTACTAGCCACAAAGGCTTTCCTGTCGAGATTTATGCCTCAAAGGCTG
66 GCTATCCTTTACATTCAGTACTAGCCACAAAGGCTTTCCTATCGAGAGTTATGCCTCAAAGGCTA
* * * *
52760720 TCCTTTACATTAAGTACTCGCTACAAAGGCTTTCTTGTATAGAGTTGTACCTC
131 TCCTTTACATTAAGTACTCGCCACAAAGGCTTTCCTATATAGAGTTGTACCAC
* * *
52760773 AAAGGCTATCCTTTACGTTCAGTACT-AGCCACAAAGGCTTTCTTATCCAAATTTGTGCCACGAA
1 AAAGGCTATCCTTTACATTCAGTACTCA-CCACAAAGGCTTTCTTATCCAAAGTTGTGCCACAAA
* * * * *
52760837 GGCTATCCTTTACATTCAGTACTCGCCGCAAAGGCTTTCCTATCTAGAGTTGTGCCTCAAAGGTT
65 GGCTATCCTTTACATTCAGTACTAGCCACAAAGGCTTTCCTATCGAGAGTTATGCCTCAAAGGCT
* * * *
52760902 ATCCTTTACATTTAGTATTTGCCACAAAGGCTTTCCTATCTAGAGTTGTACCAC
130 ATCCTTTACATTAAGTACTCGCCACAAAGGCTTTCCTATATAGAGTTGTACCAC
52760956 AAAGGCTATCCTTTAC
1 AAAGGCTATCCTTTAC
52760972 TGGTGTTTCG
Statistics
Matches: 175, Mismatches: 23, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
182 1 0.01
183 174 0.99
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (183 bp):
AAAGGCTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCTTATCCAAAGTTGTGCCACAAAG
GCTATCCTTTACATTCAGTACTAGCCACAAAGGCTTTCCTATCGAGAGTTATGCCTCAAAGGCTA
TCCTTTACATTAAGTACTCGCCACAAAGGCTTTCCTATATAGAGTTGTACCAC
Found at i:52760898 original size:29 final size:29
Alignment explanation
Indices: 52760865--52760967 Score: 100
Period size: 29 Copynumber: 3.4 Consensus size: 29
52760855 GTACTCGCCG
*
52760865 CAAAGGCTTTCCTATCTAGAGTTGTGCCT
1 CAAAGGCTTTCCTATCTAGAGTTGTGCCA
* ** *
52760894 CAAAGG-TTATCCTTTACATTTAGTATTTGCCA
1 CAAAGGCTT-TCCTAT-C-TAGAGT-TGTGCCA
*
52760926 CAAAGGCTTTCCTATCTAGAGTTGTACCA
1 CAAAGGCTTTCCTATCTAGAGTTGTGCCA
*
52760955 CAAAGGCTATCCT
1 CAAAGGCTTTCCT
52760968 TTACTGGTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
28 2 0.03
29 28 0.48
30 5 0.09
31 5 0.09
32 16 0.28
33 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (29 bp):
CAAAGGCTTTCCTATCTAGAGTTGTGCCA
Found at i:52761187 original size:53 final size:53
Alignment explanation
Indices: 52761081--52761215 Score: 134
Period size: 53 Copynumber: 2.6 Consensus size: 53
52761071 CCTTGATTTT
* * * **
52761081 TTCC-ATATGATGTCATAACCCATTTGTTACAGTTTTACATAATATTTTATTC
1 TTCCTATATGATGTCATAACCCACTAGTTACAGTCTTACATAATATGGTATTC
* * *
52761133 TTCCTATATGATGTCATAACCCACCAGTTAC-GATCTTACATGATATGGTCTTC
1 TTCCTATATGATGTCATAACCCACTAGTTACAG-TCTTACATAATATGGTATTC
*
52761186 TT-CTCATATGAT-TCCATAAGCCACTAGTTA
1 TTCCT-ATATGATGT-CATAACCCACTAGTTA
52761216 TGGTCTTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
52 8 0.12
53 61 0.88
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.40
Consensus pattern (53 bp):
TTCCTATATGATGTCATAACCCACTAGTTACAGTCTTACATAATATGGTATTC
Found at i:52768343 original size:10 final size:10
Alignment explanation
Indices: 52768314--52768349 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
52768304 AATGGACATG
52768314 AAAATAAATA
1 AAAATAAATA
52768324 AAAATGAAATA
1 AAAAT-AAATA
*
52768335 AGAATAAATA
1 AAAATAAATA
52768345 AAAAT
1 AAAAT
52768350 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:52769327 original size:20 final size:20
Alignment explanation
Indices: 52769287--52769330 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
52769277 AGTTGAAAAA
**
52769287 AAAAATTAAAACTTTGTTTT
1 AAAAATTAAAACTTTCCTTT
*
52769307 AAAAATTTAAACTTTCCTTT
1 AAAAATTAAAACTTTCCTTT
52769327 AAAA
1 AAAA
52769331 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATTAAAACTTTCCTTT
Found at i:52770233 original size:42 final size:42
Alignment explanation
Indices: 52770181--52770652 Score: 590
Period size: 42 Copynumber: 11.3 Consensus size: 42
52770171 CTTCATATAC
* * * *
52770181 AATGAAATGAAAAGTAAATGGACCTCCACACCAGAGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
52770223 AATGCAATGAAAAGTAAACGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
52770265 AATGCAATGAAAAGTCAATAGACCTCCACACCTGGATCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
52770307 AATGCAATGAATAG-AGAAT-GAACTCCACACCTGAGCCTCTA
1 AATGCAATGAAAAGTA-AATGGACCTCCACACCTGGGCCTCTA
* * * * ** *
52770348 AATGTAATGAAAAGCAAGTGGACTTCCACATTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
52770390 AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
52770432 AATGCAATGAAAAGTTAATGGAACTCTACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
52770474 AATGCAATAAAAAGTAAATGGATCTCCACACATGTGCC-CTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTC-TA
* * *
52770516 AATGCAATGTAAAGTAAATGGAACTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
52770558 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
52770600 AATGCAATAAAAAGTAAATGGACCTCTAGGCCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
52770642 AATGCAATGAA
1 AATGCAATGAA
52770653 TGTTTTCCTT
Statistics
Matches: 368, Mismatches: 57, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
41 33 0.09
42 334 0.91
43 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:52772627 original size:39 final size:39
Alignment explanation
Indices: 52772572--52772761 Score: 292
Period size: 39 Copynumber: 4.8 Consensus size: 39
52772562 CGGATGATAA
52772572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
52772611 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-T
*
52772651 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAT
* *
52772690 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* *
52772730 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52772762 AGCTATATCC
Statistics
Matches: 138, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 73 0.53
40 65 0.47
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52772723 original size:79 final size:79
Alignment explanation
Indices: 52772568--52772761 Score: 302
Period size: 79 Copynumber: 2.5 Consensus size: 79
52772558 TATTCGGATG
* *
52772568 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATCCGGGCTAAGTCCCGAAGGCAT
*
52772633 TTGTGCGAGTTACT
66 TGGTGCGAGTTACT
*
52772647 A-ATTCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGCTAAGTCCCGAAGGC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAATCCGGGCTAAGTCCCGAAGGC
52772710 ATTGGTGCGAGTTACT
64 ATTGGTGCGAGTTACT
* *
52772726 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52772762 AGCTATATCC
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
78 32 0.31
79 44 0.42
80 28 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATCCGGGCTAAGTCCCGAAGGCAT
TGGTGCGAGTTACT
Found at i:52780668 original size:40 final size:40
Alignment explanation
Indices: 52780609--52780800 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
52780599 CGGATGATAA
52780609 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
52780649 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
52780689 CCGGGCTAAGTCCCGAAGGGATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
52780729 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
52780769 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52780801 AGCTATATCC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
40 136 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:52787255 original size:14 final size:15
Alignment explanation
Indices: 52787229--52787262 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
52787219 GAAAATAAAG
52787229 AAGAAGCAAAAAGAA
1 AAGAAGCAAAAAGAA
*
52787244 TAGAAG-AAAAAGAA
1 AAGAAGCAAAAAGAA
52787258 AAGAA
1 AAGAA
52787263 AAGTGAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (15 bp):
AAGAAGCAAAAAGAA
Found at i:52787668 original size:47 final size:48
Alignment explanation
Indices: 52787610--52787741 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 48
52787600 CACAATCGAT
* *
52787610 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATTTC-A
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
* * *
52787657 GAGTACATATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
* *
52787705 AAATACCTATACCATAGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
52787742 TCATTCGCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 41 0.55
48 34 0.45
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
Found at i:52792375 original size:7 final size:7
Alignment explanation
Indices: 52792341--52792386 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
52792331 AAGAGAATGA
*
52792341 ATGAGGA
1 ATGAGGG
52792348 ATGAGGG
1 ATGAGGG
*
52792355 ATGAGTG
1 ATGAGGG
*
52792362 ATTAGGG
1 ATGAGGG
*
52792369 ATAAGGG
1 ATGAGGG
52792376 ATGAGGG
1 ATGAGGG
52792383 ATGA
1 ATGA
52792387 TTAGAAATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.46, T:0.20
Consensus pattern (7 bp):
ATGAGGG
Found at i:52804050 original size:27 final size:28
Alignment explanation
Indices: 52804019--52804096 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 28
52804009 AATCTCATAT
* *
52804019 CTGTAGGCTAGAATTACTGAAATATC-C
1 CTGTAGGGTAGAATTACTGAAATAGCTC
52804046 CTGTAGGGTAGAATTACTGAAAT-GCTC
1 CTGTAGGGTAGAATTACTGAAATAGCTC
52804073 CTGTAGGGTAGAATTACTGAAATA
1 CTGTAGGGTAGAATTACTGAAATA
52804097 CCCATGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (28 bp):
CTGTAGGGTAGAATTACTGAAATAGCTC
Found at i:52804427 original size:27 final size:27
Alignment explanation
Indices: 52804119--52804444 Score: 201
Period size: 27 Copynumber: 12.0 Consensus size: 27
52804109 AAAATTACTG
* ** *
52804119 AATACCCTTGGTTTACAAAATTAGCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
52804146 AATACCCATGGTTTGTAAAATTAACAA
1 AATACCCTTGATTTGTAAAATTACCAA
* ***
52804173 AATA-CCTCTGATTTGTGAAATTATTGA
1 AATACCCT-TGATTTGTAAAATTACCAA
* *
52804200 AATA-CCTTCGACTTATAAAATTACCAA
1 AATACCCTT-GATTTGTAAAATTACCAA
* * * *
52804227 AATACCCTCGACTTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
52804254 AATACCCTCGATTTTTAAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * **
52804281 AATACCCCTAATTTGGAAAATTACTGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * * *
52804308 AATATCTTTGATTTGGAAGATTA-TAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
* * **
52804335 AATACCCCTAATTTACAAAATTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
** *
52804362 AATACCCTTGACTTTCAAAAATTACAAA
1 AATACCCTTGA-TTTGTAAAATTACCAA
* *
52804390 AATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
52804417 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
52804444 A
1 A
52804445 TCACCATTGT
Statistics
Matches: 235, Mismatches: 58, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
26 4 0.02
27 207 0.88
28 23 0.10
29 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:52804748 original size:41 final size:41
Alignment explanation
Indices: 52804691--52804769 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
52804681 GGAGGAAGAA
*
52804691 ATTAAGGATCGCATGGTTGCTTGACAACCGTTGATCCATCG
1 ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCATCG
*
52804732 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
1 ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCA
52804770 CCGGTGGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCATCG
Found at i:52804957 original size:22 final size:22
Alignment explanation
Indices: 52804914--52804974 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
52804904 GCCAATTATT
* * * *
52804914 CTGATTATGGCTTTGCGCCAAC
1 CTGAATATGGCTCTGTGACAAC
52804936 CT-ACATATGGCTCTGTGACAAC
1 CTGA-ATATGGCTCTGTGACAAC
*
52804958 CTGATTATGGCTCTGTG
1 CTGAATATGGCTCTGTG
52804975 CCAAACGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGACAAC
Found at i:52806559 original size:23 final size:23
Alignment explanation
Indices: 52806533--52806710 Score: 209
Period size: 23 Copynumber: 7.8 Consensus size: 23
52806523 GGCTACATCT
*
52806533 CAGTGGTAGCTTCAGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
*
52806556 CAGTGGTAGCTTTGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
* * *
52806579 TAGTGGTAGCTTCAGCTAC-ATCT
1 CAGTGGTAGCTTCGGCTACAAT-A
52806602 CAGTGGTAGCTTCGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
* *
52806625 CAGTGGTAGCTTTGGCTAC-ATCT
1 CAGTGGTAGCTTCGGCTACAAT-A
*
52806648 CAGTGGTAGCTTCGGCTACAGTA
1 CAGTGGTAGCTTCGGCTACAATA
* *
52806671 CAATGGTAGCTTCGGCTAC-TTA
1 CAGTGGTAGCTTCGGCTACAATA
* *
52806693 CAGTGATAGCTTCAGCTA
1 CAGTGGTAGCTTCGGCTA
52806711 TATTACAATG
Statistics
Matches: 132, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
22 21 0.16
23 108 0.82
24 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACAATA
Found at i:52806635 original size:69 final size:69
Alignment explanation
Indices: 52806524--52806704 Score: 260
Period size: 69 Copynumber: 2.6 Consensus size: 69
52806514 GAATCTATTG
*
52806524 GCTACATCTCAGTGGTAGCTTCAGCTACAATACAGTGGTAGCTTTGGCTACAATAT-AGTGGTAG
1 GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTAC-ATATCAGTGGTAG
52806588 CTTCA
65 CTTCA
*
52806593 GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGC
1 GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATATCAGTGGTAGC
*
52806658 TTCG
66 TTCA
* * * *
52806662 GCTACAGT-ACAATGGTAGCTTCGGCTAC-TTACAGTGATAGCTT
1 GCTACA-TCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTT
52806705 CAGCTATATT
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 16 0.16
69 86 0.83
70 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (69 bp):
GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATATCAGTGGTAGC
TTCA
Found at i:52809569 original size:8 final size:8
Alignment explanation
Indices: 52809558--52809600 Score: 77
Period size: 8 Copynumber: 5.4 Consensus size: 8
52809548 AACGAATGGA
*
52809558 TGAATGCT
1 TGAATGAT
52809566 TGAATGAT
1 TGAATGAT
52809574 TGAATGAT
1 TGAATGAT
52809582 TGAATGAT
1 TGAATGAT
52809590 TGAATGAT
1 TGAATGAT
52809598 TGA
1 TGA
52809601 TTGAAATTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (8 bp):
TGAATGAT
Found at i:52814120 original size:33 final size:34
Alignment explanation
Indices: 52814074--52814144 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
52814064 ACAGTGCATG
* * *
52814074 CAGTAACAGTCTGGACCTGAGCCCTATTCAGTAT
1 CAGTAACAATCTGGACCTGAGCCCTATACAGTAA
* *
52814108 CAGT-ACAATCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAACAATCTGGACCTGAGCCCTATACAGTAA
52814141 CAGT
1 CAGT
52814145 GTGGCCCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (34 bp):
CAGTAACAATCTGGACCTGAGCCCTATACAGTAA
Found at i:52814541 original size:26 final size:26
Alignment explanation
Indices: 52814508--52814595 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
52814498 TCATACAGAA
52814508 CATA-AGGGCATAATCGTCATTTTAC
1 CATACAGGGCATAATCGTCATTTTAC
* *
52814533 CATACAGGG-GTATTACGGTCATTTTAC
1 CATACAGGGCATAAT-C-GTCATTTTAC
* * * *
52814560 CCTTCAGGGACATTATGGTCATTTTAC
1 CATACAGGG-CATAATCGTCATTTTAC
*
52814587 CCTACAGGG
1 CATACAGGG
52814596 GTATTACGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
25 7 0.14
26 5 0.10
27 35 0.71
29 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (26 bp):
CATACAGGGCATAATCGTCATTTTAC
Found at i:52814553 original size:27 final size:27
Alignment explanation
Indices: 52814523--52814695 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
52814513 GGGCATAATC
*
52814523 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* ** *
52814550 GTCATTTTACCCTTCAGGGACATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
52814577 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
52814604 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
52814631 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
52814658 GCCATTTTATCCTAAAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
52814685 GTCATTTTACC
1 GTCATTTTACC
52814696 TATTTTGAGG
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:52817680 original size:28 final size:27
Alignment explanation
Indices: 52817623--52817774 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
52817613 TAAATTGTGC
* *
52817623 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
52817650 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
52817678 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
52817705 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
52817733 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
52817760 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52817775 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:52817688 original size:55 final size:55
Alignment explanation
Indices: 52817623--52817774 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
52817613 TAAATTGTGC
* *
52817623 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
52817678 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
52817733 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
52817775 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:52831742 original size:37 final size:37
Alignment explanation
Indices: 52831683--52831828 Score: 240
Period size: 37 Copynumber: 3.9 Consensus size: 37
52831673 AGCTCAGACG
* *
52831683 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52831720 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52831757 TAATCTCCACACGTAGTCATCGGGTCTTACCTC-GACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACC-CGGACA
*
52831794 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52831829 ATATATTTCC
Statistics
Matches: 104, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
36 1 0.01
37 102 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52832109 original size:47 final size:47
Alignment explanation
Indices: 52832030--52832223 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
52832020 CATACATATT
* * * * *
52832030 TCACATTAGCCATTCGGCTTTACCACATATATGCTTGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52832077 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52832124 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
52832171 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52832218 TCACAT
1 TCACAT
52832224 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52832150 original size:22 final size:22
Alignment explanation
Indices: 52832123--52832194 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
52832113 GCTCACATTC
52832123 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
52832145 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
52832169 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52832192 ATC
1 ATC
52832195 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52832224 original size:25 final size:25
Alignment explanation
Indices: 52832145--52832224 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
52832135 ATTCGGCCTT
**
52832145 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
52832170 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
52832192 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
52832217 ATCACATA
1 ATCACATA
52832225 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:52836138 original size:40 final size:40
Alignment explanation
Indices: 52836106--52836413 Score: 508
Period size: 40 Copynumber: 7.7 Consensus size: 40
52836096 CCAGCTTGAT
* * * *
52836106 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
52836146 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAG
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
52836186 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAG
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52836226 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52836266 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52836306 TGCTCTTCGGGACTTAGCCCGGATACATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52836346 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52836386 TGCTCTTCGGGACTTAGCCCGGATACAT
1 TGCTCTTCGGGACTTAGCCCGGATACAT
52836414 TACCCTCAAT
Statistics
Matches: 254, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:52838038 original size:47 final size:47
Alignment explanation
Indices: 52837959--52838152 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
52837949 CATACATATT
* * * * *
52837959 TCACATTAGCCATTCGGCTTTACCACATATATGCTTGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52838006 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52838053 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
52838100 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52838147 TCACAT
1 TCACAT
52838153 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52838079 original size:22 final size:22
Alignment explanation
Indices: 52838052--52838123 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
52838042 GCTCACATTC
52838052 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
52838074 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
52838098 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52838121 ATC
1 ATC
52838124 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52838153 original size:25 final size:25
Alignment explanation
Indices: 52838074--52838153 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
52838064 ATTCGGCCTT
**
52838074 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
52838099 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
52838121 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
52838146 ATCACATA
1 ATCACATA
52838154 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:52841964 original size:24 final size:26
Alignment explanation
Indices: 52841937--52841991 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
52841927 AATTAATATA
* *
52841937 CCAACTTACAACTAT-CCAAAA-TAG
1 CCAACTCACAACTATACCAAAACAAG
*
52841961 CCAACTCATAACTATACCAAAACAAG
1 CCAACTCACAACTATACCAAAACAAG
52841987 CCAAC
1 CCAAC
52841992 ATATAAGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 6 0.23
26 7 0.27
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (26 bp):
CCAACTCACAACTATACCAAAACAAG
Found at i:52842294 original size:18 final size:18
Alignment explanation
Indices: 52842271--52842310 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
52842261 CACAAAAAGT
52842271 AAGCTTTAAAAGCTTAGC
1 AAGCTTTAAAAGCTTAGC
* *
52842289 AAGCTTTAAAATCTTAGT
1 AAGCTTTAAAAGCTTAGC
52842307 AAGC
1 AAGC
52842311 CATATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (18 bp):
AAGCTTTAAAAGCTTAGC
Found at i:52842674 original size:43 final size:43
Alignment explanation
Indices: 52842588--52842737 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
52842578 TATCCCATAT
** * *
52842588 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTGT-CTCAGAC
1 ATGGTCTTACACATAATCACAATA-CGATGCCAATGTCCT-AGAC
* * *
52842631 AGGGTCTTACACGA-AATC-GATTAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACAC-ATAATCACAAT-ACGATGCCAATGTCCTAGAC
* *
52842674 ATGGT-TATACACATAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCT-TACACATAATCACAATACGATGCCAATGTCCTAGAC
**
52842717 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACATAATCACA
52842738 TTTCGGTAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 77 0.91
44 6 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACAATACGATGCCAATGTCCTAGAC
Found at i:52846240 original size:43 final size:41
Alignment explanation
Indices: 52846093--52846261 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 41
52846083 ATAGGATCCG
* *
52846093 ATATGTGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATC
1 ATAT-TGATTACGTGTAAGACC-CTGTCTGGGACATTGGCATC
* *
52846135 GACT-TCTGATTCACGTGTAAGACCATGTCTGGGACATTGACATC
1 -A-TAT-TGATT-ACGTGTAAGACCCTGTCTGGGACATTGGCATC
* * *
52846179 ATATTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCGTC
1 ATATTGATTACGTGTAAGACCCTGTCTGGGACATTGGCATC
*
52846220 AATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGCAT
1 -ATA-TTGATTACGTGTAAGACC-CTGTCTGGGACATTGGCAT
52846262 TGTATGAGAT
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
41 27 0.26
42 9 0.09
43 40 0.38
44 29 0.28
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
ATATTGATTACGTGTAAGACCCTGTCTGGGACATTGGCATC
Found at i:52846274 original size:85 final size:86
Alignment explanation
Indices: 52846093--52846257 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 86
52846083 ATAGGATCCG
* *
52846093 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTCTGATTCACGTGTAAGAC
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTCTGATTCACATGTAAGAC
*
52846158 CATGTCTGGGACATTGACATC
66 CACGTCTGGGACATTGACATC
* *
52846179 ATAT-TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCGTC-AATATTTGATT-ACATGTAA
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAT-TCTGATTCACATGTAA
52846239 GACCACGTCTGGGACATTG
63 GACCACGTCTGGGACATTG
52846258 GCATTGTATG
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
84 28 0.39
85 38 0.54
86 5 0.07
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (86 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTCTGATTCACATGTAAGAC
CACGTCTGGGACATTGACATC
Found at i:52854761 original size:25 final size:25
Alignment explanation
Indices: 52854716--52854763 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52854706 TGGTGCAATG
* *
52854716 TATTAAATATTTATATGTGATTACT
1 TATTAAATATATATATATGATTACT
52854741 TATTAAAT-TATATAATATGATTA
1 TATTAAATATATAT-ATATGATTA
52854764 AATGCTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (25 bp):
TATTAAATATATATATATGATTACT
Found at i:52856105 original size:43 final size:43
Alignment explanation
Indices: 52856054--52856204 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
52856044 TATCCTAGAT
* * *
52856054 ATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
52856097 AGGGTCTTACATGAAATCGA-TTAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAGAC
* * *
52856140 ATGGTTTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
52856183 ATGGTCGTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
52856205 CTCGGTAACT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.02
43 82 0.96
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:52859419 original size:22 final size:22
Alignment explanation
Indices: 52859393--52859436 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52859383 GAAAATAATC
*
52859393 AAAATTAA-TCAAAATTTATTAT
1 AAAATTAACT-AAAATTCATTAT
52859415 AAAATTAACTAAAATTCATTAT
1 AAAATTAACTAAAATTCATTAT
52859437 GTTAATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAACTAAAATTCATTAT
Found at i:52863413 original size:15 final size:15
Alignment explanation
Indices: 52863381--52863409 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52863371 ATTTTCTATG
52863381 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
52863396 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
52863410 ATTTTCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:52865701 original size:37 final size:37
Alignment explanation
Indices: 52865638--52865783 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
52865628 AGCCCAGACG
* * *
52865638 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52865675 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
52865712 TAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52865749 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52865784 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52866075 original size:49 final size:50
Alignment explanation
Indices: 52865932--52866076 Score: 226
Period size: 49 Copynumber: 3.0 Consensus size: 50
52865922 CATCGCCTAC
* *
52865932 ATATTTCACACT-AGCCATTCGGCTTTACCACATAT-AATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
52865981 ATATTTCACATTGACCATTCGGCTTTACCAC-TATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
52866030 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
52866077 TCACCACAGT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
48 3 0.03
49 78 0.87
50 9 0.10
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:52866179 original size:47 final size:47
Alignment explanation
Indices: 52866035--52866179 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
52866025 TATATATATT
* * *
52866035 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * *
52866080 CCACAGTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
52866127 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
52866174 TCACAT
1 TCACAT
52866180 AAAATCCTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 18 0.20
46 1 0.01
47 69 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:52870372 original size:40 final size:40
Alignment explanation
Indices: 52870340--52870730 Score: 606
Period size: 40 Copynumber: 9.8 Consensus size: 40
52870330 CCAGCATGAT
* * * *
52870340 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
52870380 TGCTCTTCAGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTC-GGGACTTAGCCCGGATACATCACTAGCACGAA
**
52870420 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52870460 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
52870500 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
52870540 TGCTCTTCGGGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52870580 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52870620 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52870660 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52870700 T-CTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
52870731 CTCAATTCTC
Statistics
Matches: 328, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 31 0.09
40 294 0.90
41 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:52872059 original size:37 final size:37
Alignment explanation
Indices: 52872000--52872146 Score: 222
Period size: 37 Copynumber: 4.0 Consensus size: 37
52871990 AGCTCAGACG
* *
52872000 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
52872037 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* * *
52872074 TAATCTCCACACTTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* *
52872111 TAATCTCCACACGTAGTCATCGGGTCTTGCCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
52872147 TATATTTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:52872430 original size:50 final size:50
Alignment explanation
Indices: 52872295--52872441 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
52872285 CATCGCCTAC
* *
52872295 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
52872345 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
52872395 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
52872442 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 6 0.06
50 86 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:52872491 original size:47 final size:47
Alignment explanation
Indices: 52872400--52872544 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
52872390 TATATATATT
* * *
52872400 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
52872445 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
52872492 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
52872539 TCACAT
1 TCACAT
52872545 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 19 0.21
46 1 0.01
47 70 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:52885014 original size:30 final size:30
Alignment explanation
Indices: 52884980--52885076 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
52884970 TAAACTAAAA
52884980 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* ** * *
52885010 TGAGCTGAGGCTAAACGC-C-TAAGCTGAAGT
1 TGAGCT-AAGCTTTA-GCTCGTGAGCTAAAGT
* *
52885040 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
52885070 TGAGCTA
1 TGAGCTA
52885077 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 32 0.64
31 9 0.18
32 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:52887260 original size:30 final size:30
Alignment explanation
Indices: 52887189--52887270 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
52887179 CTTTTGTTTC
* *
52887189 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
52887220 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
52887249 ATTTTCTTTTTCATTTTCTTTT
1 AATTTCTTTTTC-TTCTCTTTT
52887271 CGCTTTTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 31 0.70
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:52887362 original size:5 final size:5
Alignment explanation
Indices: 52887352--52887408 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
52887342 CTCTTGCCTC
*
52887352 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
52887399 TCTTT TCTTT
1 TCTTT TCTTT
52887409 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:52887392 original size:15 final size:14
Alignment explanation
Indices: 52887352--52887408 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
52887342 CTCTTGCCTC
*
52887352 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
52887367 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
52887382 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
52887399 TCTTTTCTTT
1 TCTTTTCTTT
52887409 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:52887418 original size:21 final size:20
Alignment explanation
Indices: 52887350--52887419 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
52887340 GCCTCTTGCC
52887350 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
52887373 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
52887393 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
52887413 TCTCTTT
1 TCTCTTT
52887420 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:52888340 original size:13 final size:14
Alignment explanation
Indices: 52888322--52888385 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 14
52888312 CATTAAACAC
52888322 TTTTTTTTCAG-AT
1 TTTTTTTTCAGAAT
52888335 TTTTTTTTCATTTCG-AT
1 TTTTTTTTCA----GAAT
*
52888352 TTTTTTTT-TGAAT
1 TTTTTTTTCAGAAT
52888365 TTTTTTTTC-GAAT
1 TTTTTTTTCAGAAT
52888378 TTTTTTTT
1 TTTTTTTT
52888386 GACTTGTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
12 1 0.02
13 32 0.73
17 11 0.25
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (14 bp):
TTTTTTTTCAGAAT
Found at i:52888367 original size:12 final size:12
Alignment explanation
Indices: 52888352--52888387 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
52888342 TCATTTCGAT
52888352 TTTTTTTTTGAA
1 TTTTTTTTTGAA
52888364 TTTTTTTTTCGAA
1 TTTTTTTTT-GAA
52888377 TTTTTTTTTGA
1 TTTTTTTTTGA
52888388 CTTGTATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:52888367 original size:25 final size:25
Alignment explanation
Indices: 52888339--52888387 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
52888329 TCAGATTTTT
*
52888339 TTTTCATTTCGATTTTTTTTTTGAA
1 TTTTCATTTCGAATTTTTTTTTGAA
**
52888364 TTTTTTTTTCGAATTTTTTTTTGA
1 TTTTCATTTCGAATTTTTTTTTGA
52888388 CTTGTATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.71
Consensus pattern (25 bp):
TTTTCATTTCGAATTTTTTTTTGAA
Found at i:52890094 original size:30 final size:30
Alignment explanation
Indices: 52890060--52890156 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
52890050 TAAACTAAAA
52890060 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
52890090 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
52890120 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
52890150 TGAGCTA
1 TGAGCTA
52890157 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:52891502 original size:16 final size:17
Alignment explanation
Indices: 52891470--52891503 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52891460 TAATTTCCAT
*
52891470 GCTTGAGTTCGATTTTG
1 GCTTAAGTTCGATTTTG
52891487 GCTTAAGTTC-ATTTTG
1 GCTTAAGTTCGATTTTG
52891503 G
1 G
52891504 TTATCATGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.12, G:0.26, T:0.47
Consensus pattern (17 bp):
GCTTAAGTTCGATTTTG
Found at i:52892596 original size:27 final size:27
Alignment explanation
Indices: 52892566--52892617 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
52892556 GACTGAAATA
52892566 CCCCTAAAGGGTAAAATGACT-ATTTTG
1 CCCCTAAAGGGT-AAATGACTGATTTTG
**
52892593 CCCCTCGAGGGTAAATGACTGATTT
1 CCCCTAAAGGGTAAATGACTGATTT
52892618 GTCTGTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (27 bp):
CCCCTAAAGGGTAAATGACTGATTTTG
Found at i:52892933 original size:32 final size:32
Alignment explanation
Indices: 52892897--52892979 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
52892887 GGTTTGATAT
52892897 TGAAATGGGCTAGGCCCAACTGATATTGATTC
1 TGAAATGGGCTAGGCCCAACTGATATTGATTC
* * *
52892929 TGAAATAGGCTAGGCCCAACTGGTATTGATTT
1 TGAAATGGGCTAGGCCCAACTGATATTGATTC
* *
52892961 TGAGATGGTCTAGGCCCAA
1 TGAAATGGGCTAGGCCCAA
52892980 TTGAGACTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (32 bp):
TGAAATGGGCTAGGCCCAACTGATATTGATTC
Found at i:52896005 original size:20 final size:20
Alignment explanation
Indices: 52895980--52896022 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
52895970 ACCAAGTATT
52895980 TAATGG-TAGAATGATCTATA
1 TAATGGTTA-AATGATCTATA
*
52896000 TAATGGTTAAATGGTCTATA
1 TAATGGTTAAATGATCTATA
52896020 TAA
1 TAA
52896023 ACTGTGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (20 bp):
TAATGGTTAAATGATCTATA
Found at i:52897310 original size:33 final size:32
Alignment explanation
Indices: 52897251--52897312 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
52897241 ACAAAGTCAC
* *
52897251 CAGATATAGTTATTGTGGCTAGGCCACCAAAA
1 CAGATATAGTTATTGTGGCGAAGCCACCAAAA
52897283 CAGATATA-TATATATGTGGCGAAGCCACCA
1 CAGATATAGT-TAT-TGTGGCGAAGCCACCA
52897313 GATTGCAGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.04
32 11 0.42
33 14 0.54
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (32 bp):
CAGATATAGTTATTGTGGCGAAGCCACCAAAA
Found at i:52898065 original size:27 final size:27
Alignment explanation
Indices: 52898021--52898139 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
52898011 GGGGCAAAAT
* * *
52898021 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52898048 GGTGATTCTTCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52898075 GGTATTTCTACACTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52898102 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
52898129 GGTAATTCTAC
1 GGTAATTCTAC
52898140 AACCTATCCA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:52903832 original size:29 final size:29
Alignment explanation
Indices: 52903790--52903857 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
52903780 GCATGACTAT
52903790 GAATGTGATTTGGGCCTAATAGGCCATAC
1 GAATGTGATTTGGGCCTAATAGGCCATAC
* *
52903819 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATAGGCCATAC
*
52903848 GAATGAGATT
1 GAATGTGATT
52903858 AGGCCTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATAGGCCATAC
Found at i:52906757 original size:27 final size:27
Alignment explanation
Indices: 52906727--52906797 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
52906717 ACCTTACAGG
52906727 GGTATTTCGGTAATTTTGTAAATCGAA
1 GGTATTTCGGTAATTTTGTAAATCGAA
*** * **
52906754 GGTAAAACGGTAATTCTGTAAATCGGG
1 GGTATTTCGGTAATTTTGTAAATCGAA
52906781 GGTACTTT-GGTAATTTT
1 GGTA-TTTCGGTAATTTT
52906798 ACAAACCAGG
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTGTAAATCGAA
Found at i:52912279 original size:71 final size:67
Alignment explanation
Indices: 52912202--52912341 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 67
52912192 TAACCAGATA
* * *
52912202 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAAAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
52912267 GGCTGC
62 GGCTGC
* * *
52912273 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
52912338 GC
66 GC
52912340 CA
1 CA
52912342 AAACGCTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 39 0.62
71 24 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:52912321 original size:27 final size:26
Alignment explanation
Indices: 52912273--52912324 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52912263 GCGAGGCTGC
*
52912273 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
52912299 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
52912325 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:52919409 original size:28 final size:29
Alignment explanation
Indices: 52919337--52919410 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
52919327 TTTGATATGC
* * *
52919337 GCCTGATGGGCCATACGAATGTGATTTGG
1 GCCTAATGGGCCATATGAATGAGATTTGG
* *
52919366 GCCTAATAGGCTATATGAATGAGA-TTGG
1 GCCTAATGGGCCATATGAATGAGATTTGG
**
52919394 GCCTTGTGGGCCATATG
1 GCCTAATGGGCCATATG
52919411 CATGTATATA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
GCCTAATGGGCCATATGAATGAGATTTGG
Found at i:52921130 original size:40 final size:40
Alignment explanation
Indices: 52921082--52921348 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
52921072 GCAAACACAT
* *
52921082 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52921122 TTGCCTTCGGGTCTTAGCCCGGATATATCATC-CTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTC-GCATAA
*
52921162 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52921202 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52921242 TTGTCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52921282 TTGCCTTCGGGTCTTAGCCCGAATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52921322 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
52921349 ATCCAATGTT
Statistics
Matches: 213, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 211 0.99
41 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:52934411 original size:42 final size:43
Alignment explanation
Indices: 52934319--52934473 Score: 115
Period size: 43 Copynumber: 3.6 Consensus size: 43
52934309 GTCCCTGATG
* * *
52934319 TGGTCTTACTTGTAATCAAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACA
**
52934362 -GGCTCTTACATGAAATCAAATA-CGATGTTGA-TGTCCCAAACA
1 TGG-TCTTACATGAAATCAAATATCGATG-CCACTGTCCCAAACA
* * *
52934404 TGGTCTTACACAT-AAATCATAAGT-T-GATGCCAATGTCCCAGACG
1 TGGTCTT--ACATGAAATCA-AA-TATCGATGCCACTGTCCCAAACA
* * *
52934448 TGGTCTTACACGAAAACATATATCGA
1 TGGTCTTACATGAAATCAAATATCGA
52934474 ATCCCATGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
41 1 0.01
42 26 0.30
43 34 0.39
44 26 0.30
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACA
Found at i:52941705 original size:17 final size:18
Alignment explanation
Indices: 52941671--52941707 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52941661 GCCCATATTG
52941671 CAGGCCCATGTGGGCCCA
1 CAGGCCCATGTGGGCCCA
*
52941689 CAGGCTCATGT-GGCCCA
1 CAGGCCCATGTGGGCCCA
52941706 CA
1 CA
52941708 TAGCCTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.19, C:0.38, G:0.30, T:0.14
Consensus pattern (18 bp):
CAGGCCCATGTGGGCCCA
Found at i:52949224 original size:27 final size:27
Alignment explanation
Indices: 52949186--52949262 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
52949176 TCATACATCA
52949186 CATA-GGG-ATAACAGTCATTTTAGT-G
1 CATAGGGGCATAACAGTCATTTTA-TCG
* * *
52949211 CGTAGGGGCATAACAATCATTATATCG
1 CATAGGGGCATAACAGTCATTTTATCG
52949238 CATAGGGGCATAACAGTCATTTTAT
1 CATAGGGGCATAACAGTCATTTTAT
52949263 AAATTAGGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.07
26 4 0.09
27 36 0.84
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
CATAGGGGCATAACAGTCATTTTATCG
Found at i:52949270 original size:27 final size:27
Alignment explanation
Indices: 52949213--52949272 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
52949203 TTTTAGTGCG
**
52949213 TAGGGGCATAACAATCATTATATCGCA
1 TAGGGGCATAACAATCATTATATCAAA
* *
52949240 TAGGGGCATAACAGTCATTTTAT-AAA
1 TAGGGGCATAACAATCATTATATCAAA
52949266 TTAGGGG
1 -TAGGGG
52949273 GTCTAGGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (27 bp):
TAGGGGCATAACAATCATTATATCAAA
Found at i:52956754 original size:39 final size:40
Alignment explanation
Indices: 52956646--52956830 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
52956636 TCGAATGATG
* * *
52956646 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
52956685 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52956726 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
52956765 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52956804 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52956831 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52956852 original size:79 final size:79
Alignment explanation
Indices: 52956701--52956863 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
52956691 ACTAAGATCT
* **
52956701 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
52956766 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * *
52956780 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
52956843 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
52956859 GAAGG
1 GAAGG
52956864 TACGTGATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:52971806 original size:43 final size:43
Alignment explanation
Indices: 52971753--52971850 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
52971743 TAGCCCAGCT
* * * *
52971753 ATGGTGTTACACGAAATCAAATAGCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
* * * *
52971796 TTGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
52971839 ATGGTCTTACAC
1 ATGGTCTTACAC
52971851 ATAATCACAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
Found at i:52971856 original size:43 final size:43
Alignment explanation
Indices: 52971778--52971860 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
52971768 ATCAAATAGC
* * * *
52971778 GATGCCAATGTCCTAGACTTGGTCTTACACGTAATCACATAAT
1 GATGCCAATGTCCCAAACATGGTCTTACACATAATCACATAAT
52971821 GATGCCAATGTCCCAAACATGGTCTTACACATAATCACAT
1 GATGCCAATGTCCCAAACATGGTCTTACACATAATCACAT
52971861 CTCCTTAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
GATGCCAATGTCCCAAACATGGTCTTACACATAATCACATAAT
Found at i:52978609 original size:21 final size:21
Alignment explanation
Indices: 52978583--52978634 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
52978573 CACTTGACAT
* **
52978583 AGGGGCACATGCCCGTGTGAA
1 AGGGGCACACGCCAATGTGAA
*
52978604 AGGGGCGCACGCCAATGTGAA
1 AGGGGCACACGCCAATGTGAA
52978625 AGGGGCACAC
1 AGGGGCACAC
52978635 ACTCATGTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGGCACACGCCAATGTGAA
Found at i:52981560 original size:55 final size:53
Alignment explanation
Indices: 52981472--52981719 Score: 211
Period size: 55 Copynumber: 4.7 Consensus size: 53
52981462 CATTAGGGTT
* *
52981472 TAAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGG
* * * *
52981527 TAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGG
* ** * * *
52981582 CAAAGG-TCCCATATAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 -TAAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGG
* * * *
52981635 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA--
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGG
* * * * *
52981685 -AAGGATACCACGTAAGACCCTGACAAGTCATGGCA
1 TAAGGAAACCATGTAAGACCATGCCAAGACATGGCA
52981720 ATCATAAGGT
Statistics
Matches: 160, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 31 0.19
52 7 0.04
53 40 0.25
54 11 0.07
55 67 0.42
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
TAAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGG
Found at i:52981656 original size:53 final size:53
Alignment explanation
Indices: 52981473--52981680 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
52981463 ATTAGGGTTT
* *
52981473 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * *
52981528 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
52981583 AAAGG-TCCCATATAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
52981636 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
52981681 TCAAAAGGAT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 8 0.06
55 67 0.52
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:52981679 original size:108 final size:110
Alignment explanation
Indices: 52981480--52981680 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
52981470 TTTAAGGATA
* * *
52981480 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
52981545 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
52981590 CCATATAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
52981652 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
52981681 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:52989229 original size:53 final size:52
Alignment explanation
Indices: 52989034--52989277 Score: 210
Period size: 55 Copynumber: 4.6 Consensus size: 52
52989024 ATTAGGGTTT
* * * *
52989034 AAGGATACCATGTAAGACCATACCAGGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGGC
* * * * **
52989089 AAAGAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTACTATTAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTA--AGGC
* * * *
52989144 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTTGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGGC
* * *
52989197 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
* *
52989245 AAGGATACCATGTAAGACCATGGCAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
52989278 AAATGGTACG
Statistics
Matches: 155, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
48 31 0.20
51 2 0.01
52 6 0.04
53 42 0.27
54 7 0.05
55 64 0.41
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
Found at i:52992065 original size:43 final size:43
Alignment explanation
Indices: 52991924--52992090 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
52991914 AGCTCTTACA
* * * * **
52991924 ATGCC-ATATTCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
* * * ** * *
52991966 ATACCGATAGCCCAG-CTATTATCTTACACGAAATCAAATAACG
1 ATGCCAATATCCCAGAC-ATGGTCTTACACGTAATCACATAACG
* *
52992009 ATGTCACTATCCCAGACATGGTCTTACACGTAATCACATAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
* *
52992052 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT
52992091 CTCGTTAATC
Statistics
Matches: 97, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
42 4 0.04
43 92 0.95
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
Found at i:52996878 original size:17 final size:17
Alignment explanation
Indices: 52996856--52996889 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52996846 AGCTGGTAGT
52996856 CAATAACAAGTTCATAA
1 CAATAACAAGTTCATAA
52996873 CAATAACAAGTTCATAA
1 CAATAACAAGTTCATAA
52996890 TCTTTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
CAATAACAAGTTCATAA
Found at i:52998074 original size:19 final size:20
Alignment explanation
Indices: 52998046--52998092 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
52998036 AAGAACATGT
52998046 TATATAATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
52998067 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
52998086 TATATAT
1 TATATAT
52998093 ACTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:53009433 original size:40 final size:40
Alignment explanation
Indices: 53009352--53009571 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
53009342 AAACCAAGTA
** * *
53009352 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
53009391 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
53009431 CCTTCGGGACTTAGCCCGGTTATA-TAACTCGTACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
53009470 CCTTCGGGACTTGGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
53009510 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
53009550 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
53009572 CAATCCGAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 61 0.38
40 99 0.62
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:53009487 original size:79 final size:80
Alignment explanation
Indices: 53009352--53009571 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 80
53009342 AAACCAAGTA
** *
53009352 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
53009415 GTAACTCACACAATTG
65 GTAACTCACACAAATG
* * * * *
53009431 CCTTCGGGACTTAGCCCGGTTATA-TAACTCGTACAATTGCCTTCGGGACTTGGCCCGATTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
53009495 TAACTCGCACAAATG
66 TAACTCACACAAATG
*
53009510 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
53009572 CAATCCGAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 92 0.75
80 29 0.24
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCACACAAATG
Found at i:53021882 original size:44 final size:43
Alignment explanation
Indices: 53021807--53021892 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
53021797 TAAGATTCTG
**
53021807 ATTTGTGATTTCGTGTAAGACCACGCCTGGGACGTTGGCATCA
1 ATTTGTGATTTCGTGTAAGACCACGCCTGGGACAATGGCATCA
**
53021850 ATTTGTGATTTACGTGTAAGACC-CTGTTTGGGACAATGGCATC
1 ATTTGTGATTT-CGTGTAAGACCAC-GCCTGGGACAATGGCATC
53021893 GTTATTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 12 0.32
44 25 0.68
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (43 bp):
ATTTGTGATTTCGTGTAAGACCACGCCTGGGACAATGGCATCA
Found at i:53024578 original size:27 final size:27
Alignment explanation
Indices: 53024522--53024674 Score: 123
Period size: 27 Copynumber: 5.7 Consensus size: 27
53024512 TTAGTTTACC
* * *
53024522 AAATTACTGAAATACCCCCAG-TTGT-
1 AAATTACCGAAATACCCTCGGTTTGTA
* *
53024547 AAATTACCGAAGTACCCTCGGTTTATA
1 AAATTACCGAAATACCCTCGGTTTGTA
* * *
53024574 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGGTTTGTA
* * *
53024601 AAATTATCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCTCGGTTTGTA
** ***
53024628 AAATTACTAAAATACCCTCGACATGTA
1 AAATTACCGAAATACCCTCGGTTTGTA
*
53024655 AAATTATC-AAAGTACCCTCG
1 AAATTACCGAAA-TACCCTCG
53024675 AATTACAAAA
Statistics
Matches: 99, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
25 17 0.17
26 6 0.06
27 76 0.77
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGGTTTGTA
Found at i:53024684 original size:27 final size:26
Alignment explanation
Indices: 53024547--53025015 Score: 112
Period size: 27 Copynumber: 17.3 Consensus size: 26
53024537 CCCCAGTTGT
* * *
53024547 AAATTACCGAAGTACCCTCGGTTTATA
1 AAATTACC-AAATACCCTCGATTTACA
* **
53024574 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTACA
* *
53024601 AAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTA-CCAAATACCCTCGA-TTTACA
* ** **
53024628 AAATTACTAAAATACCCTCGACATGTA
1 AAATTAC-CAAATACCCTCGATTTACA
* *
53024655 AAATTATCAAAGTACCCTCGAATTACAA
1 AAATTACCAAA-TACCCTCGATTTAC-A
**** *
53024683 AAATTACTGTTTGACCCTCGATTTATA
1 AAATTACCAAAT-ACCCTCGATTTACA
* **** *
53024710 GAATTACTGTTTTACCCTCGATTTATA
1 AAATTAC-CAAATACCCTCGATTTACA
** * **
53024737 AAACAATCATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTACA
*** *
53024764 AAATTACCGTTTTACCCTCGATTTATA
1 AAATTACC-AAATACCCTCGATTTACA
* ***** *
53024791 GAATTATTGTTTTACCCTCGATTTATA
1 AAATTA-CCAAATACCCTCGATTTACA
* **
53024818 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTACA
* **
53024845 AAATTACTACTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTACA
*** * *
53024872 AAATTACCGTTTTACCCTTGATTGACA
1 AAATTACC-AAATACCCTCGATTTACA
* **** * *
53024899 GAATTACTGTTTTACTCTCGATTTATA
1 AAATTAC-CAAATACCCTCGATTTACA
* **
53024926 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTACA
*****
53024953 AAATTATTGTTTTACCCTCGATTTACA
1 AAATTA-CCAAATACCCTCGATTTACA
* ** *
53024980 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCA-AATACCCTCGATTTACA
53025007 AAATTACCA
1 AAATTACCA
53025016 TTTTACCCCT
Statistics
Matches: 351, Mismatches: 74, Indels: 34
0.76 0.16 0.07
Matches are distributed among these distances:
26 5 0.01
27 322 0.92
28 24 0.07
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.37
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTACA
Found at i:53024684 original size:54 final size:54
Alignment explanation
Indices: 53024516--53024690 Score: 160
Period size: 54 Copynumber: 3.3 Consensus size: 54
53024506 AATACTTTAG
* * * * * * *
53024516 TTTACCAAATTACTGAAATACCC-CCAGTTGT-AAATTACCGAAGTACCCTCGG
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
* ** * *
53024568 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC-A
1 TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTATC-AAAGTACCCTCGA
* *
53024621 GTTTGCAAAATTACTAAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
*
53024676 ATTACAAAAATTACT
1 TTTAC-AAAATTACT
53024691 GTTTGACCCT
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
52 18 0.19
53 9 0.09
54 58 0.60
55 12 0.12
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
Found at i:53024802 original size:81 final size:81
Alignment explanation
Indices: 53024667--53025023 Score: 462
Period size: 81 Copynumber: 4.4 Consensus size: 81
53024657 ATTATCAAAG
* * * * *
53024667 TACCCTCGAATTACAAAAATTACTGTTTGACCCTCGATTTATAGAATTACTGTTTTACCCTCGAT
1 TACCCTCGATTTAC-AAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGAT
* * ** *
53024732 TTATAAAACAATCATTT
65 TTACAGAATTACCATTT
** * * *
53024749 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
*
53024814 TATAGAATTACCATTT
66 TACAGAATTACCATTT
* * *
53024830 TACCCTCGATTTACAAAATTACTACTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
* **
53024895 GACAGAATTACTGTTT
66 TACAGAATTACCATTT
* * *
53024911 TACTCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
53024976 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* *
53024992 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTATTTTACCC
53025024 CTAGGGTGTT
Statistics
Matches: 244, Mismatches: 31, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
81 231 0.95
82 13 0.05
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:53025016 original size:27 final size:27
Alignment explanation
Indices: 53024667--53025023 Score: 401
Period size: 27 Copynumber: 13.2 Consensus size: 27
53024657 ATTATCAAAG
*
53024667 TACCCTCGAATTACAAAAATTACTGTTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* * *
53024695 GACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
53024722 TACCCTCGATTTATAAAA-CAATCATTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
53024749 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
53024776 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
53024803 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
53024830 TACCCTCGATTTACAAAATTACTACTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
53024857 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
53024884 TACCCTTGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
53024911 TACTCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
53024938 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
53024965 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
53024992 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
53025019 TACCC
1 TACCC
53025024 CTAGGGTGTT
Statistics
Matches: 279, Mismatches: 48, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 265 0.95
28 12 0.04
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:53025304 original size:27 final size:27
Alignment explanation
Indices: 53025259--53025311 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
53025249 CCTCGCTGCA
*
53025259 ATCTGGTGGCCTCGCCACAATATCTGT
1 ATCTGGTGACCTCGCCACAATATCTGT
* *
53025286 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTCGCCACAATATCTG
53025312 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (27 bp):
ATCTGGTGACCTCGCCACAATATCTGT
Found at i:53025472 original size:6 final size:6
Alignment explanation
Indices: 53025430--53025511 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
53025420 TTGCATTCAC
* * *
53025430 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
53025479 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
53025512 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 47 0.78
7 7 0.12
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:53025509 original size:31 final size:31
Alignment explanation
Indices: 53025430--53025502 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
53025420 TTGCATTCAC
* *
53025430 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
53025461 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
53025492 ATTCTGATTCT
1 ATTCTGATTCT
53025503 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:53028871 original size:20 final size:20
Alignment explanation
Indices: 53028832--53028871 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
53028822 GAACTTCTTC
* *
53028832 ACTTACTCACTTAGTTAAAT
1 ACTTACTCACTTAATCAAAT
*
53028852 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
53028872 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Done.