Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 214 of 259
Found at i:67767932 original size:21 final size:21
Alignment explanation
Indices: 67767906--67767957 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
67767896 ATGTGTCATA
67767906 TATCAGGCACCTCGCGTGTCG
1 TATCAGGCACCTCGCGTGTCG
*
67767927 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGCGTGTCG
* *
67767948 TTTTAGGCAC
1 TATCAGGCAC
67767958 TTTATGTGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (21 bp):
TATCAGGCACCTCGCGTGTCG
Found at i:67771719 original size:16 final size:17
Alignment explanation
Indices: 67771688--67771720 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67771678 TTAATAAGTA
67771688 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
*
67771705 TATATTAAT-ATTTCAT
1 TATATCAATCATTTCAT
67771721 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:67772066 original size:46 final size:46
Alignment explanation
Indices: 67772001--67772274 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
67771991 TTATCTTTGA
* * * * *
67772001 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
67772047 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
67772093 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
67772139 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
67772185 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
67772231 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
67772275 ATCAGAGAGC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:67772163 original size:92 final size:92
Alignment explanation
Indices: 67772006--67772278 Score: 429
Period size: 92 Copynumber: 3.0 Consensus size: 92
67771996 TTTGACATGA
* * * *
67772006 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
67772071 CATGGTCTTATTCATTTCATGTCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* *
67772098 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
67772163 CACGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * * *
67772190 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
67772255 CATGGTCTTATACATTTCATATCA
66 CATGGTCTTATTCATTTCATATCA
67772279 GAGAGCACAC
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 165 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:67776385 original size:18 final size:18
Alignment explanation
Indices: 67776364--67776646 Score: 142
Period size: 18 Copynumber: 15.3 Consensus size: 18
67776354 GAACAATTAT
67776364 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * * *
67776382 TTATTCGGTAACAATAAA
1 TTATTCAGTAACAGTCAG
* * **
67776400 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
67776418 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
67776444 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAG
*
67776462 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
67776479 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
67776498 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
67776515 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
67776534 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
67776552 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
67776570 TTATTCAGTAACAGCCTA-
1 TTATTCAGTAACAGTC-AG
* * *
67776588 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
67776606 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
67776624 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
67776642 TTATT
1 TTATT
67776647 TTATACCTTT
Statistics
Matches: 197, Mismatches: 52, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
17 17 0.09
18 147 0.75
19 18 0.09
21 2 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:67776579 original size:72 final size:71
Alignment explanation
Indices: 67776445--67776646 Score: 201
Period size: 72 Copynumber: 2.8 Consensus size: 71
67776435 ATTGATCGGT
* * * * *
67776445 TATCCAGTAATAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
* *
67776509 CAGTC-AT
64 CAGCCTAA
* * * *
67776516 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
67776581 CAGCCTAA
64 CAGCCTAA
* * * * *
67776589 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
67776647 TTATACCTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 89 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GCCTAA
Found at i:67780196 original size:12 final size:12
Alignment explanation
Indices: 67780153--67780188 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
67780143 AAAACAAATA
*
67780153 AAAGAAATAGAAT
1 AAAGAAA-AGAAC
67780166 AAAGAAAAGAAC
1 AAAGAAAAGAAC
67780178 AAAGAAAAGAA
1 AAAGAAAAGAA
67780189 AACAGAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAGAAAAGAAC
Found at i:67780459 original size:16 final size:17
Alignment explanation
Indices: 67780435--67780468 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
67780425 GTATTGATAT
*
67780435 TTGAGTTGAATGG-GAA
1 TTGAATTGAATGGTGAA
67780451 TTGAATTGAATGGTGAA
1 TTGAATTGAATGGTGAA
67780468 T
1 T
67780469 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
TTGAATTGAATGGTGAA
Found at i:67790109 original size:7 final size:7
Alignment explanation
Indices: 67790097--67790124 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
67790087 TCGGGGCTTC
67790097 TTTGGCA
1 TTTGGCA
67790104 TTTGGCA
1 TTTGGCA
67790111 TTTGGCA
1 TTTGGCA
67790118 TTTGGCA
1 TTTGGCA
67790125 ATCAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (7 bp):
TTTGGCA
Found at i:67792465 original size:50 final size:50
Alignment explanation
Indices: 67792341--67792589 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
67792331 GATAATAACA
* * ** * *
67792341 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
67792392 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
67792442 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
67792492 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
67792547 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
67792590 TTACCCAATG
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:67792516 original size:100 final size:105
Alignment explanation
Indices: 67792340--67792586 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 105
67792330 TGATAATAAC
* **
67792340 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGATGGTGCCCATGCCATG
* *
67792405 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
67792442 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGAT-GGTGCCCATGCCAT
67792504 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
67792547 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATC
67792587 TCTTTACCCA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.39
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 35 0.27
107 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:67792704 original size:13 final size:13
Alignment explanation
Indices: 67792683--67792714 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
67792673 GCTTGGATCA
*
67792683 TCATCAAATAAAT
1 TCATAAAATAAAT
67792696 TCATAAAATAAAT
1 TCATAAAATAAAT
67792709 TCATAA
1 TCATAA
67792715 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:67793007 original size:5 final size:5
Alignment explanation
Indices: 67792986--67793029 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
67792976 TTTCTTTTGT
67792986 TATATA TATATA TATAA TATAA TATAA TATAA TATAA TAATAA T
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA T
67793030 CATTACTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 22 0.59
6 15 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:67794371 original size:91 final size:91
Alignment explanation
Indices: 67794206--67794375 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 91
67794196 TAACTTGTTA
* *
67794206 AGTTTTGAAGGATGCTAATGTTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTG
1 AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
*
67794271 TCTTGAAGATTAGAACAAAATCTTTG
66 TCTTAAAGATTAGAACAAAATCTTTG
* * * *
67794297 AGTTTTGAAGGATGCTAATATTGTGCAAGTATAAAAGTCAATATCAATTCATTTTAAACAATTTA
1 AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
67794362 TCTTAAAGATTAGA
66 TCTTAAAGATTAGA
67794376 TTAGATCGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (91 bp):
AGTTTTGAAGGATGCTAATATTATGAAAGTATAAAAGCCAATATCAATTCATTTGAAACAATTTA
TCTTAAAGATTAGAACAAAATCTTTG
Found at i:67809997 original size:30 final size:30
Alignment explanation
Indices: 67809963--67810021 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
67809953 TCCTTGACTC
67809963 AAACTTTTACAAAATTATA-TTTTAGCCCCT
1 AAACTTTTACAAAATTATACTTTT-GCCCCT
* *
67809993 AAACTTTTACATATTTATACTTTTGCCCC
1 AAACTTTTACAAAATTATACTTTTGCCCC
67810022 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
AAACTTTTACAAAATTATACTTTTGCCCCT
Found at i:67811289 original size:14 final size:14
Alignment explanation
Indices: 67811270--67811300 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
67811260 TACAAAAAGG
67811270 ATATCTAATCTAGA
1 ATATCTAATCTAGA
67811284 ATATCTAATCTAGA
1 ATATCTAATCTAGA
67811298 ATA
1 ATA
67811301 ATAATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATCTAATCTAGA
Found at i:67819619 original size:45 final size:45
Alignment explanation
Indices: 67819533--67819646 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
67819523 TCGGCATTTC
* * * *
67819533 GCCTGCTAGGCTCG-AGGCCCG-ATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTTGAAAGCCCGAATATCATCTCACCGACATTATA
67819576 GCCTGCTAGGCTTGAAAGCCCGAATAGT-ATCTCACCGACATTATA
1 GCCTGCTAGGCTTGAAAGCCCGAATA-TCATCTCACCGACATTATA
*
67819621 GCCTGCTAGGC-TCAAAGGCCCGAATA
1 GCCTGCTAGGCTTGAAA-GCCCGAATA
67819647 ATATTTCCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 13 0.21
44 10 0.16
45 38 0.61
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTTGAAAGCCCGAATATCATCTCACCGACATTATA
Found at i:67819875 original size:43 final size:43
Alignment explanation
Indices: 67819814--67820009 Score: 295
Period size: 43 Copynumber: 4.6 Consensus size: 43
67819804 CAACAAACTT
* * * *
67819814 GCACACTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
67819857 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
67819900 GCACACTTAGTGCCAGTTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
67819943 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
67819986 ACACACTTAGTGCC-ATTACATTAA
1 GCACACTTAGTGCCAATTA-ATTAA
67820010 ACTAAACTTA
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
42 4 0.03
43 138 0.97
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
Found at i:67821876 original size:20 final size:18
Alignment explanation
Indices: 67821842--67821878 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
67821832 GCAACTCATA
67821842 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
67821860 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
67821879 ACTTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:67833862 original size:21 final size:21
Alignment explanation
Indices: 67833836--67833880 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
67833826 GGAATAGGGT
67833836 TACGAGGTATTACCAGACTTA
1 TACGAGGTATTACCAGACTTA
* *
67833857 TACGAGGTATTATCGGACTTA
1 TACGAGGTATTACCAGACTTA
67833878 TAC
1 TAC
67833881 ACTAACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (21 bp):
TACGAGGTATTACCAGACTTA
Found at i:67836083 original size:16 final size:18
Alignment explanation
Indices: 67836047--67836083 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
67836037 AAAGCGCTAA
*
67836047 TTTTCTCTTTTCTCTTTC
1 TTTTCTCTTTTCTCCTTC
67836065 TTTTC-CTTTT-TCCTTC
1 TTTTCTCTTTTCTCCTTC
67836081 TTT
1 TTT
67836084 CTTTCCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTCTTTTCTCCTTC
Found at i:67839871 original size:39 final size:39
Alignment explanation
Indices: 67839759--67840021 Score: 343
Period size: 39 Copynumber: 6.7 Consensus size: 39
67839749 CCACCACAAA
* *
67839759 GCCTGCGGGACTTTAAGCCCGGATATAATACCAGCAC-AAA
1 GCCTGCGGGAC-TT-AGCCCGGATATAACACCAGCACGAAT
* *
67839799 GCCTGCGGGACTTTAAGCCCGGATATAATACCAGCAC-AAA
1 GCCTGCGGGAC-TT-AGCCCGGATATAACACCAGCACGAAT
67839839 GCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAAT
1 GCCTGCGGGAC-TTAGCCCGGATATAACACCAGCACGAAT
* *
67839879 GCCTTCGGGACTTAGCCCGGATATAACACCAGTACGAAT
1 GCCTGCGGGACTTAGCCCGGATATAACACCAGCACGAAT
*
67839918 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
1 GCCTGCGGGACTTAGCCCGGATATAACACCAGCACGAAT
* * *
67839957 GCTTTCGGGACTTAGCCCAGATATAACACCAGCACGAAT
1 GCCTGCGGGACTTAGCCCGGATATAACACCAGCACGAAT
* *
67839996 GCCAT-TGGGACTTAGCCCGAATATAA
1 GCC-TGCGGGACTTAGCCCGGATATAA
67840022 TTCTCCATTA
Statistics
Matches: 210, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 143 0.68
40 67 0.32
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
GCCTGCGGGACTTAGCCCGGATATAACACCAGCACGAAT
Found at i:67847502 original size:5 final size:5
Alignment explanation
Indices: 67847497--67847530 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
67847487 TTTGATTGTA
* *
67847497 GGGTA GGGTA GGGTT GGGTT GGGTT GGGTT GGGT
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT GGGT
67847531 CTGAAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.62, T:0.32
Consensus pattern (5 bp):
GGGTT
Found at i:67859368 original size:18 final size:20
Alignment explanation
Indices: 67859335--67859371 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
67859325 TATTATGAGC
67859335 TTTTTATAATTTTTTAAATA
1 TTTTTATAATTTTTTAAATA
67859355 TTTTTAT-A-TTTTTAAAT
1 TTTTTATAATTTTTTAAAT
67859372 TACTTATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATAATTTTTTAAATA
Found at i:67859859 original size:20 final size:21
Alignment explanation
Indices: 67859826--67859869 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
67859816 ATTTTCCAAT
*
67859826 AAAAATTATCAAAAAGATTAA
1 AAAAATCATCAAAAAGATTAA
**
67859847 AAAAATCAT-AAAACTATTAA
1 AAAAATCATCAAAAAGATTAA
67859867 AAA
1 AAA
67859870 CTTATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATCATCAAAAAGATTAA
Found at i:67860084 original size:22 final size:22
Alignment explanation
Indices: 67860037--67860084 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
67860027 CAATGACTTT
*
67860037 TTATAATTTTTTAAAAAATAAT
1 TTATAATTTTTTAAAAAATAAC
* * *
67860059 TTATATTTTTTTATAACATAAC
1 TTATAATTTTTTAAAAAATAAC
67860081 TTAT
1 TTAT
67860085 GAAATATAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATAATTTTTTAAAAAATAAC
Found at i:67865491 original size:3 final size:3
Alignment explanation
Indices: 67865483--67865511 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
67865473 GCTCTCTCTT
67865483 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
67865512 TCAACTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:67877320 original size:20 final size:20
Alignment explanation
Indices: 67877295--67877344 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67877285 TGGCTTAAAA
67877295 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67877315 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67877332 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67877345 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67881959 original size:20 final size:20
Alignment explanation
Indices: 67881934--67881983 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67881924 TGGCTTAAAA
67881934 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67881954 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67881971 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67881984 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67884976 original size:18 final size:17
Alignment explanation
Indices: 67884953--67884997 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
67884943 TAAAAAGTAG
67884953 TATATAATATTTTAAAT
1 TATATAATATTTTAAAT
* * *
67884970 ATATATAAAAGTTTACAT
1 -TATATAATATTTTAAAT
67884988 TATATAATAT
1 TATATAATAT
67884998 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATAATATTTTAAAT
Found at i:67885031 original size:8 final size:8
Alignment explanation
Indices: 67885018--67885068 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
67885008 ATTTAAATTT
67885018 TTTATAAA
1 TTTATAAA
67885026 TTTATAAAA
1 TTTAT-AAA
67885035 CTTTATAAA
1 -TTTATAAA
67885044 TAATTA-AAA
1 T--TTATAAA
67885053 TTTTATAAA
1 -TTTATAAA
67885062 TTTATAA
1 TTTATAA
67885069 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 16 0.43
9 12 0.32
10 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTATAAA
Found at i:67885041 original size:18 final size:18
Alignment explanation
Indices: 67885018--67885068 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
67885008 ATTTAAATTT
67885018 TTTATAAATTTATAAAAC
1 TTTATAAATTTATAAAAC
* *
67885036 TTTATAAA-TAATTAAAAT
1 TTTATAAATTTA-TAAAAC
67885054 TTTATAAATTTATAA
1 TTTATAAATTTATAA
67885069 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATAAATTTATAAAAC
Found at i:67891899 original size:20 final size:20
Alignment explanation
Indices: 67891874--67891914 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
67891864 AATACAAAAT
67891874 TGGGAGAAATGTCAAAAAGC
1 TGGGAGAAATGTCAAAAAGC
67891894 TGGGAGAAATGTCAAAAAGC
1 TGGGAGAAATGTCAAAAAGC
67891914 T
1 T
67891915 AACGAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
TGGGAGAAATGTCAAAAAGC
Found at i:67893373 original size:11 final size:11
Alignment explanation
Indices: 67893357--67893387 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67893347 AAGTATGGGT
67893357 AGGTATGGGAA
1 AGGTATGGGAA
*
67893368 AGGTATGGGCA
1 AGGTATGGGAA
67893379 AGGTATGGG
1 AGGTATGGG
67893388 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:67897458 original size:18 final size:18
Alignment explanation
Indices: 67897435--67897527 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
67897425 CCCAACTACT
*
67897435 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
67897453 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
67897471 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
67897489 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
67897507 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
67897525 GTA
1 GTA
67897528 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:67897480 original size:36 final size:36
Alignment explanation
Indices: 67897433--67897527 Score: 154
Period size: 36 Copynumber: 2.6 Consensus size: 36
67897423 ATCCCAACTA
*
67897433 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
67897469 CTGTATACGTGAATAGTACTGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
**
67897505 CCATATACGTGAATAGTACCGTA
1 CTGTATACGTGAATAGTACCGTA
67897528 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
Found at i:67898088 original size:11 final size:11
Alignment explanation
Indices: 67898072--67898102 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67898062 AAGTATGGGT
67898072 AGGTATGGGAA
1 AGGTATGGGAA
*
67898083 AGGTATGGGCA
1 AGGTATGGGAA
67898094 AGGTATGGG
1 AGGTATGGG
67898103 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:67900884 original size:33 final size:34
Alignment explanation
Indices: 67900847--67900922 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 34
67900837 AAAAAATCAA
*
67900847 TTTAAAGA-AAAAATGTTGAGATTAATCCTTTCT
1 TTTAAAAATAAAAATGTTGAGATTAATCCTTTCT
67900880 TTTAAAAAATAAAAATGTTGAGATTAATCCTTTCT
1 TTT-AAAAATAAAAATGTTGAGATTAATCCTTTCT
67900915 TTTAAAAA
1 TTTAAAAA
67900923 ATAATTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 3 0.08
34 9 0.22
35 28 0.70
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (34 bp):
TTTAAAAATAAAAATGTTGAGATTAATCCTTTCT
Found at i:67900895 original size:35 final size:35
Alignment explanation
Indices: 67900855--67900926 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
67900845 AATTTAAAGA
67900855 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
1 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
67900890 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
1 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
67900925 AA
1 AA
67900927 TTTAATTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (35 bp):
AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
Found at i:67905018 original size:6 final size:6
Alignment explanation
Indices: 67905007--67905035 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
67904997 AGCTAAGGCC
67905007 GGCGGA GGCGGA GGCGGA GGCGGA GGCGG
1 GGCGGA GGCGGA GGCGGA GGCGGA GGCGG
67905036 TGGCCACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.69, T:0.00
Consensus pattern (6 bp):
GGCGGA
Found at i:67910853 original size:96 final size:96
Alignment explanation
Indices: 67910687--67910880 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
67910677 TCGCTTCTTT
* *
67910687 TTGCTCCTCTTAGCCCTCTTGGTTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTC
1 TTGCTCATCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTC
* * *
67910752 GTCTGCTCCATCGTTCCCCTTGATGATAGAC
66 GTCTGCTCCATCGTTCCCATGGATGACAGAC
* * * * * *
67910783 TTGCTCATCTTTGCCCTCTTGGCTTCGGCCTTTTCCTTGCTCGAACCAAGCTTTTTGGGC-CC-C
1 TTGCTCATCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTC
* *
67910846 GTATCTGCTTCATCTTTCCCATGGATGACAGAC
66 G--TCTGCTCCATCGTTCCCATGGATGACAGAC
67910879 TT
1 TT
67910881 CCTCGGGCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
94 2 0.02
95 2 0.02
96 79 0.95
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (96 bp):
TTGCTCATCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTC
GTCTGCTCCATCGTTCCCATGGATGACAGAC
Found at i:67915098 original size:52 final size:48
Alignment explanation
Indices: 67915079--67915281 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
67915069 TGACAAGTGG
* *
67915079 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
67915125 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
67915177 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
67915223 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
67915269 AAAGTGATAAGTG
1 AAAGTGATAAGTG
67915282 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:67915133 original size:98 final size:98
Alignment explanation
Indices: 67915013--67915281 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
67915003 TTTGAGTACT
*
67915013 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
67915078 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
67915111 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
67915176 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
67915209 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
67915274 GATAAGTG
65 GAAAAGTG
67915282 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:67915289 original size:37 final size:37
Alignment explanation
Indices: 67915245--67915390 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
67915235 GATAGCTTTA
*
67915245 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
67915282 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
67915319 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
67915356 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
67915391 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:67916723 original size:58 final size:58
Alignment explanation
Indices: 67916646--67916813 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
67916636 CATGTGAACA
67916646 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
67916705 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
67916761 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
67916812 TG
1 TG
67916814 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:67916755 original size:28 final size:28
Alignment explanation
Indices: 67916665--67916755 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
67916655 GTGATTCCGT
67916665 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
67916693 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
67916722 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
67916751 GTAAG
1 GTAAG
67916756 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:67916778 original size:49 final size:49
Alignment explanation
Indices: 67916706--67916848 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
67916696 AGTGATATGT
* *
67916706 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
67916755 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
67916804 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
67916849 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:67920056 original size:52 final size:48
Alignment explanation
Indices: 67920037--67920239 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
67920027 TGACAAGTGG
* *
67920037 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
67920083 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
67920135 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
67920181 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
67920227 AAAGTGATAAGTG
1 AAAGTGATAAGTG
67920240 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:67920091 original size:98 final size:98
Alignment explanation
Indices: 67919971--67920239 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
67919961 TTTGAGTACT
*
67919971 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
67920036 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
67920069 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
67920134 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
67920167 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
67920232 GATAAGTG
65 GAAAAGTG
67920240 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:67920247 original size:37 final size:37
Alignment explanation
Indices: 67920203--67920348 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
67920193 GATAGCTTTA
*
67920203 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
67920240 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
67920277 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
67920314 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
67920349 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:67936613 original size:46 final size:46
Alignment explanation
Indices: 67936345--67936603 Score: 351
Period size: 46 Copynumber: 5.6 Consensus size: 46
67936335 GCTTTCTGAA
* * *
67936345 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
67936391 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
67936437 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAGA-ATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA-ACATGAT
* ** * *
67936483 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
67936529 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
67936575 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
67936604 CATTATGGCA
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 186 0.98
47 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:67936613 original size:138 final size:138
Alignment explanation
Indices: 67936345--67936605 Score: 452
Period size: 138 Copynumber: 1.9 Consensus size: 138
67936335 GCTTTCTGAA
* *
67936345 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAATGAACAAGACCAT
* *
67936410 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGC
67936475 AGAATGAT
131 AGAATGAT
*
67936483 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAATGAACAAGACCAT
*
67936548 GGTTGAAAGATACCATGGCAACCTGATA-GAAAATGAGTAAGACCATAGTTGAAAGACA
66 GGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAAGACCATAGTTGAAAGACA
67936606 TTATGGCATC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
137 1 0.01
138 115 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAATGAACAAGACCAT
GGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGC
AGAATGAT
Found at i:67937946 original size:11 final size:12
Alignment explanation
Indices: 67937930--67937958 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
67937920 AAAACCCTAA
67937930 TTTTTCTTT-CC
1 TTTTTCTTTCCC
67937941 TTTTTCTTTCCC
1 TTTTTCTTTCCC
67937953 TTTTTC
1 TTTTTC
67937959 CTTCTCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:67938149 original size:17 final size:17
Alignment explanation
Indices: 67938109--67938158 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
67938099 ATATATGTAT
*
67938109 ATTATTTATACACATCGAA
1 ATTATTTTTAC-CA-CGAA
*
67938128 GTTATTTTTACCACGAA
1 ATTATTTTTACCACGAA
67938145 ATTATTTTTACCAC
1 ATTATTTTTACCAC
67938159 ATATGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 17 0.61
18 2 0.07
19 9 0.32
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTATTTTTACCACGAA
Found at i:67939823 original size:14 final size:13
Alignment explanation
Indices: 67939799--67939833 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
67939789 AATTACGAGA
*
67939799 AATTGTGAAAAAGG
1 AATT-TGAAAAAAG
67939813 AATTTGAAAAAAG
1 AATTTGAAAAAAG
67939826 AATTTGAA
1 AATTTGAA
67939834 TTACTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (13 bp):
AATTTGAAAAAAG
Found at i:67948390 original size:77 final size:78
Alignment explanation
Indices: 67948305--67948457 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 78
67948295 TTCAGACTAA
* *
67948305 AATTATAATGAATAATACTTTTAAGTATTAATGTGAATAAATTAATATAAC-TGAAAGGG-AAAT
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATAT-ACTTGAAAGGGAAAAT
*
67948368 CATGAATTAAACTT
65 CATAAATTAAACTT
*
67948382 AATTATAATGAATAATACTTCTAAGTCTTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
67948447 ATAAATTAAAC
66 ATAAATTAAAC
67948458 GTAGTGTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 2 0.03
77 53 0.76
78 15 0.21
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (78 bp):
AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
ATAAATTAAACTT
Found at i:67955397 original size:40 final size:40
Alignment explanation
Indices: 67955284--67955415 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
67955274 CTCAAGAATA
* * ** *
67955284 TAAAGTGGATAGGATTCGTTCCTGATTTACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
67955324 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
67955364 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
67955404 TAAGGCGGATAG
1 TAAAGTGGATAG
67955416 CTTTTGACCT
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:67955480 original size:78 final size:78
Alignment explanation
Indices: 67955386--67955537 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 78
67955376 GATTTATTCC
* * * *
67955386 TGATTCACTATGGTAACTTAAGGCGGATAGCTTTTGACCTAAAAAGGTAATCCTGATTCGCTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTAATTCACTACA
67955451 GTTACATGATATA
66 GTTACATGATATA
* * * *
67955464 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTAATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTAATTCACTACA
67955529 GTTACATGA
66 GTTACATGA
67955538 GATGTGACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTAATTCACTACA
GTTACATGATATA
Found at i:67962719 original size:46 final size:46
Alignment explanation
Indices: 67962653--67962867 Score: 268
Period size: 46 Copynumber: 4.7 Consensus size: 46
67962643 GTGTGCTCTC
* * *
67962653 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATAAGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
67962699 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACA
1 TGATAAGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * ***
67962745 TGATGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTG
1 TGATAAGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
67962791 TGACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATAAGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
67962837 TGGCAAAAAATGAGTAAGACCATAGTTGAAA
1 TGATAAGAAATGAGTAAGACCATGGTTGAAA
67962868 TACACTATGG
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 149 1.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATAAGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:67963186 original size:16 final size:17
Alignment explanation
Indices: 67963165--67963197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67963155 ATGATAGTGC
67963165 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
67963181 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
67963198 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:67965552 original size:40 final size:41
Alignment explanation
Indices: 67965463--67965558 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
67965453 GACTATGTTC
*
67965463 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACAAAT
1 GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACAAAT
* * * *
67965503 GGCATTAAGTGTGCGAGTT-GGAATAGCCTCGGCTATATGA-
1 GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACA-AAT
67965543 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
67965559 TACGAGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCCTCGGCTACAAAT
Found at i:67968346 original size:29 final size:30
Alignment explanation
Indices: 67968314--67968370 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
67968304 TAGTTAAACC
67968314 TAAATTT-TAAAATTAAAAAAATAAAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAAAA
*
67968343 TAAATTTCTAAAATTAAAAATATAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAA
67968371 CTAAATTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATTTCTAAAATTAAAAAAATAAAAAAA
Found at i:67968375 original size:29 final size:29
Alignment explanation
Indices: 67968313--67968377 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
67968303 ATAGTTAAAC
67968313 CTAAATTTTAAAATTAAAAAAATAAAAAA
1 CTAAATTTTAAAATTAAAAAAATAAAAAA
* *
67968342 ATAAATTTCTAAAATTAAAAATAT-AAAAA
1 CTAAATTT-TAAAATTAAAAAAATAAAAAA
67968371 CTAAATT
1 CTAAATT
67968378 CAGGAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (29 bp):
CTAAATTTTAAAATTAAAAAAATAAAAAA
Found at i:67969438 original size:3 final size:3
Alignment explanation
Indices: 67969430--67969458 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
67969420 AAAGCTAGGT
67969430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
67969459 TGCTTCTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67988786 original size:52 final size:52
Alignment explanation
Indices: 67988708--67988813 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
67988698 TCAAATATAA
67988708 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
67988760 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
67988812 AA
1 AA
67988814 CTTTTTTTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (52 bp):
AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
Found at i:67991569 original size:13 final size:15
Alignment explanation
Indices: 67991551--67991582 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
67991541 CTAAGGTATG
67991551 GCTAGTTT-A-CCTA
1 GCTAGTTTAATCCTA
67991564 GCTAGTTTAATCCTA
1 GCTAGTTTAATCCTA
67991579 GCTA
1 GCTA
67991583 TCTCCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (15 bp):
GCTAGTTTAATCCTA
Found at i:68001557 original size:16 final size:18
Alignment explanation
Indices: 68001536--68001572 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
68001526 TCTGTTTGCA
68001536 AAAAGAA-AAA-AAAAAG
1 AAAAGAATAAACAAAAAG
*
68001552 AAAAGAATAAACAATAAG
1 AAAAGAATAAACAAAAAG
68001570 AAA
1 AAA
68001573 CCCAAGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAGAATAAACAAAAAG
Found at i:68008924 original size:21 final size:21
Alignment explanation
Indices: 68008898--68008938 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68008888 TCCAGCAACC
*
68008898 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
68008919 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
68008939 CTGTCCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:68009989 original size:15 final size:15
Alignment explanation
Indices: 68009969--68010003 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
68009959 ATGCCTAGTA
68009969 AAAGAATTCGAAGTC
1 AAAGAATTCGAAGTC
68009984 AAAGAATTCGAAGTC
1 AAAGAATTCGAAGTC
68009999 AAAGA
1 AAAGA
68010004 GCTAGGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.17
Consensus pattern (15 bp):
AAAGAATTCGAAGTC
Found at i:68014803 original size:15 final size:15
Alignment explanation
Indices: 68014783--68014814 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
68014773 CAAAAACGCC
68014783 ATGAATTAGAAAGTA
1 ATGAATTAGAAAGTA
68014798 ATGAATTAGAAAGTA
1 ATGAATTAGAAAGTA
68014813 AT
1 AT
68014815 CATAAACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (15 bp):
ATGAATTAGAAAGTA
Found at i:68015147 original size:43 final size:42
Alignment explanation
Indices: 68015097--68015179 Score: 148
Period size: 43 Copynumber: 2.0 Consensus size: 42
68015087 ACTGAGAACC
*
68015097 GGGCAATAAATTCACTATAATAGATTGGATAGGAGAAAAGTCA
1 GGGCAATAAATTCACTATAATAGATAGGATA-GAGAAAAGTCA
68015140 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
1 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
68015180 TAAATTCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 9 0.23
43 30 0.77
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (42 bp):
GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGTCA
Found at i:68017520 original size:10 final size:10
Alignment explanation
Indices: 68017507--68017539 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
68017497 TTTATAACTT
*
68017507 TTTTTAATTA
1 TTTTTAATAA
68017517 TTTTTAATAA
1 TTTTTAATAA
68017527 TTTTTAA-AA
1 TTTTTAATAA
68017536 TTTT
1 TTTT
68017540 AAAAGCGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:68017537 original size:22 final size:22
Alignment explanation
Indices: 68017494--68017537 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
68017484 TAATTTTAAA
**
68017494 ATTTTTATAACTTTTTTTAATT
1 ATTTTTATAACTTTTTAAAATT
68017516 ATTTTTAATAA-TTTTTAAAATT
1 ATTTTT-ATAACTTTTTAAAATT
68017538 TTAAAAGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATAACTTTTTAAAATT
Found at i:68023834 original size:32 final size:32
Alignment explanation
Indices: 68023793--68023858 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
68023783 CGTCCTATGG
68023793 AAGTTAGGTTTCAAGGTGACAATGCTTGATAC
1 AAGTTAGGTTTCAAGGTGACAATGCTTGATAC
68023825 AAGTTAGGTTTCAAGGTGACAATGCTTGATAC
1 AAGTTAGGTTTCAAGGTGACAATGCTTGATAC
68023857 AA
1 AA
68023859 CCATGGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (32 bp):
AAGTTAGGTTTCAAGGTGACAATGCTTGATAC
Found at i:68026398 original size:15 final size:16
Alignment explanation
Indices: 68026378--68026411 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
68026368 ATCATTAAAA
68026378 AAAAATATATAAT-AT
1 AAAAATATATAATAAT
68026393 AAAAATATATAATAAT
1 AAAAATATATAATAAT
68026409 AAA
1 AAA
68026412 TTAAAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:68026407 original size:18 final size:17
Alignment explanation
Indices: 68026376--68026409 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68026366 CAATCATTAA
68026376 AAAAAAATATATAATAT
1 AAAAAAATATATAATAT
*
68026393 AAAAATATATAATAATA
1 AAAAAAATAT-ATAATA
68026410 AATTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAATATATAATAT
Found at i:68042332 original size:27 final size:27
Alignment explanation
Indices: 68042302--68042356 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
68042292 AACTGCTTTT
68042302 CAAACTTATAAGAAAGCATATTTCAGG
1 CAAACTTATAAGAAAGCATATTTCAGG
68042329 CAAACTTATAAGAAAGCATATTTCAGG
1 CAAACTTATAAGAAAGCATATTTCAGG
68042356 C
1 C
68042357 TTTGTCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (27 bp):
CAAACTTATAAGAAAGCATATTTCAGG
Found at i:68045380 original size:14 final size:14
Alignment explanation
Indices: 68045361--68045390 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68045351 GGCGGCCCAC
68045361 TTTATTTTAATATT
1 TTTATTTTAATATT
*
68045375 TTTATTTTGATATT
1 TTTATTTTAATATT
68045389 TT
1 TT
68045391 CCCATTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATTTTAATATT
Found at i:68053775 original size:50 final size:50
Alignment explanation
Indices: 68053696--68054042 Score: 380
Period size: 50 Copynumber: 6.8 Consensus size: 50
68053686 GATAATAACA
* ** *
68053696 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-ATCGG
* * * *
68053747 TGCCCATGCCATGT-CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
68053796 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-ATCGG
* * *
68053847 TGCCCATGCCATGT-CCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
68053895 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
68053945 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATC----GG
*
68054000 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
68054043 TTACCCAAAT
Statistics
Matches: 248, Mismatches: 35, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
47 1 0.00
48 20 0.08
49 39 0.16
50 113 0.46
51 33 0.13
52 1 0.00
55 2 0.01
56 39 0.16
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:68053869 original size:100 final size:100
Alignment explanation
Indices: 68053696--68054038 Score: 530
Period size: 100 Copynumber: 3.4 Consensus size: 100
68053686 GATAATAACA
*
68053696 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
68053761 CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
68053796 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
68053861 CCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
66 CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
** *
68053895 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGCCATG
* *
68053958 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 T-CCAGACATGGTCTTATAGGGGACCTCTC---ATC-T-CGG
*
68054000 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAT
68054039 CTCTTTACCC
Statistics
Matches: 226, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
97 1 0.00
98 22 0.10
99 70 0.31
100 91 0.40
103 3 0.01
104 1 0.00
105 2 0.01
106 36 0.16
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
Found at i:68054158 original size:13 final size:13
Alignment explanation
Indices: 68054137--68054168 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68054127 GCTTGGATCA
*
68054137 TCATCAAATAAAT
1 TCATAAAATAAAT
68054150 TCATAAAATAAAT
1 TCATAAAATAAAT
68054163 TCATAA
1 TCATAA
68054169 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:68054414 original size:30 final size:30
Alignment explanation
Indices: 68054380--68054437 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
68054370 CCTCGACTCT
*
68054380 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
68054410 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
68054438 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:68061509 original size:50 final size:50
Alignment explanation
Indices: 68061385--68061734 Score: 389
Period size: 50 Copynumber: 6.8 Consensus size: 50
68061375 GATAATAACA
* * ** * *
68061385 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
68061436 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * ** * *
68061486 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
68061537 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
68061587 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
68061637 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
68061692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
68061735 TTACCCAAAT
Statistics
Matches: 252, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
49 2 0.01
50 132 0.52
51 73 0.29
52 1 0.00
53 2 0.01
54 1 0.00
55 2 0.01
56 39 0.15
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:68061560 original size:101 final size:101
Alignment explanation
Indices: 68061385--68061730 Score: 552
Period size: 101 Copynumber: 3.4 Consensus size: 101
68061375 GATAATAACA
*
68061385 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
68061450 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
68061486 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
68061551 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
** *
68061587 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGCCATG
* *
68061650 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTATAGGGGACCTCTC---ATC-T-CGG
*
68061692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAT
68061731 CTCTTTACCC
Statistics
Matches: 230, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
99 1 0.00
100 50 0.22
101 137 0.60
103 3 0.01
104 1 0.00
105 2 0.01
106 36 0.16
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (101 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
Found at i:68061667 original size:151 final size:154
Alignment explanation
Indices: 68061384--68061731 Score: 436
Period size: 151 Copynumber: 2.3 Consensus size: 154
68061374 TGATAATAAC
* * ** * * *
68061384 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGATGGTGCCAACGCCATG
*
68061449 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
* ** *
68061514 TACATGGGATGTTCTCGTGA-T-GG
131 TACAGGGGA-CCTCTCATGATTAGG
* * *
68061537 -TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGA-CCTCTCAT-CTCGGTGCCAACGCCAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGAT-GGTGCCAACGCCAT
* * * *
68061599 GTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGTCCCAGACATGGTC
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTC
68061664 TTACAGGGGACCTCTCATGATCTTAAGG
130 TTACAGGGGACCTCTCATGA--TT-AGG
*
68061692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATC
68061732 TCTTTACCCA
Statistics
Matches: 165, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
150 8 0.05
151 86 0.52
152 33 0.20
153 1 0.01
155 2 0.01
156 34 0.21
157 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (154 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGATGGTGCCAACGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
TACAGGGGACCTCTCATGATTAGG
Found at i:68061850 original size:13 final size:13
Alignment explanation
Indices: 68061829--68061860 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68061819 GCTTGGATCA
*
68061829 TCATCAAATAAAT
1 TCATAAAATAAAT
68061842 TCATAAAATAAAT
1 TCATAAAATAAAT
68061855 TCATAA
1 TCATAA
68061861 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:68062104 original size:29 final size:30
Alignment explanation
Indices: 68062072--68062128 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
68062062 CCTCGACTCT
*
68062072 AACTTTTTCAAAATTACA-ATTTGCCCCTA
1 AACTTTTACAAAATTACATATTTGCCCCTA
* *
68062101 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATATTTGCCCC
68062129 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACATATTTGCCCCTA
Found at i:68067011 original size:46 final size:46
Alignment explanation
Indices: 68066959--68067083 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
68066949 GTGTGCTTTC
* * *
68066959 TGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
68067005 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
68067051 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
68067084 CACTATGACA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:68072321 original size:23 final size:22
Alignment explanation
Indices: 68072291--68072333 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
68072281 ACCCTTCTTA
68072291 TTTTTAAATTCTATCAAATTTTT
1 TTTTTAAATTCTA-CAAATTTTT
*
68072314 TTTTTAAATTTTACAAATTT
1 TTTTTAAATTCTACAAATTT
68072334 ATGGATATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTAAATTCTACAAATTTTT
Found at i:68072416 original size:22 final size:22
Alignment explanation
Indices: 68072391--68072436 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
68072381 AAGTTTAAGG
68072391 ATAAAAATGATAGAATTTA-TAA
1 ATAAAAA-GATAGAATTTATTAA
* *
68072413 ATAAAAAGGTTGAATTTATTAA
1 ATAAAAAGATAGAATTTATTAA
68072435 AT
1 AT
68072437 TATTTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAAAAAGATAGAATTTATTAA
Found at i:68074515 original size:30 final size:31
Alignment explanation
Indices: 68074475--68074540 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
68074465 AGTTTATATC
* * *
68074475 TTTATAATTTTTA-AATGATTAAATTAAATT
1 TTTATAATTTTTAGAAAGATTAAAATAAAAT
*
68074505 TTTATTATTTTTAGAAAGATTAAAATAAAAT
1 TTTATAATTTTTAGAAAGATTAAAATAAAAT
68074536 TTTAT
1 TTTAT
68074541 CTTTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTAGAAAGATTAAAATAAAAT
Found at i:68074826 original size:20 final size:20
Alignment explanation
Indices: 68074788--68074824 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68074778 TTAAAAAACC
*
68074788 TATTTTAAATTTTAATTTAT
1 TATTTTAAATATTAATTTAT
68074808 TATTTTAAA-ATTAATTT
1 TATTTTAAATATTAATTT
68074825 TACATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTAAATATTAATTTAT
Found at i:68076064 original size:24 final size:24
Alignment explanation
Indices: 68076012--68076066 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
68076002 AATAAATGTT
*
68076012 TAGATTCATATACAAATGCAGACA
1 TAGATTCAGATACAAATGCAGACA
* * *
68076036 CAGATTCAGATACAAGTGCAGACG
1 TAGATTCAGATACAAATGCAGACA
68076060 TAGATTC
1 TAGATTC
68076067 TACCTCCATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (24 bp):
TAGATTCAGATACAAATGCAGACA
Found at i:68076257 original size:25 final size:25
Alignment explanation
Indices: 68076223--68076272 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
68076213 AAAATTGTAG
68076223 TAAAACTACTAGAACACACTTCCTC
1 TAAAACTACTAGAACACACTTCCTC
68076248 TAAAACTACTAGAACACACTTCCTC
1 TAAAACTACTAGAACACACTTCCTC
68076273 CATCACATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.24
Consensus pattern (25 bp):
TAAAACTACTAGAACACACTTCCTC
Found at i:68088469 original size:29 final size:29
Alignment explanation
Indices: 68088437--68088494 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
68088427 GTTCATAAGA
68088437 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
1 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
68088466 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
1 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
68088495 TTGATGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.41, G:0.07, T:0.14
Consensus pattern (29 bp):
AAGAAACCCCCTCCCCCAAGTTCCAAAAT
Found at i:68098139 original size:3 final size:3
Alignment explanation
Indices: 68097994--68098127 Score: 55
Period size: 3 Copynumber: 45.0 Consensus size: 3
68097984 AATCGTACAC
* * * *
68097994 TAA TAA TAA TAA TAA TAA TAA TATG TAT TAA -AA GGTAA -AA GAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA --TAA TAA TAA TAA
* * * * * *
68098040 TAG TAA TAA TAA T-T TAA -AA -AA TGA TAA TAG TAA TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
68098085 TAA TAG TGA TAA TAA TGA TAAA TACA -AA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA
68098128 GACAGATAAT
Statistics
Matches: 95, Mismatches: 26, Indels: 20
0.67 0.18 0.14
Matches are distributed among these distances:
2 10 0.11
3 78 0.82
4 5 0.05
5 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:68098316 original size:3 final size:3
Alignment explanation
Indices: 68098308--68098632 Score: 89
Period size: 3 Copynumber: 107.3 Consensus size: 3
68098298 AAAGGAAAAT
** * *
68098308 ATA ATA ATA ATA ATA ATA ATA GCA ATA ATA CT- ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
68098355 AAA AGGT- ATA ATA ATA CATTA GATA GTA A-A A-A AGGTA ATA ATA ATA
1 ATA A--TA ATA ATA ATA -A-TA -ATA ATA ATA ATA A--TA ATA ATA ATA
* * * * * *
68098401 ATA ATA ATG ATA ATA GTG ATA TTA GTA ATA ATA ATA ATA ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * * * *
68098447 ATA TTA GTA CGTTA CTA ACA ATA ATA TATG TTA ATA ACA ATA ATA A-C
1 ATA ATA ATA --ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* ** * * * *
68098494 ATA A-A A-A ATA ATA AT- ATG GCA A-A AGTTA GTA ATA GT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
* * ** *
68098536 ATA AAA ATA ATA CTA ATGA A-A ATA ATA ATA ACG GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
68098581 ATA ATA ATA GA-A ATA AAA ATA ATA GTA ATA ATA TTA ATA ATA TTA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
68098626 AAA ATA A
1 ATA ATA A
68098633 AAAAATAAAG
Statistics
Matches: 228, Mismatches: 70, Indels: 48
0.66 0.20 0.14
Matches are distributed among these distances:
2 19 0.08
3 190 0.83
4 11 0.05
5 8 0.04
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:68100407 original size:64 final size:64
Alignment explanation
Indices: 68100306--68100431 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
68100296 AAAGAGTAAA
* ** *
68100306 AAATTGAAAATACCTCAGTGTGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
1 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
68100370 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
1 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
68100432 TTTTTTGAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (64 bp):
AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
Found at i:68100645 original size:74 final size:75
Alignment explanation
Indices: 68100370--68100682 Score: 457
Period size: 75 Copynumber: 4.2 Consensus size: 75
68100360 GAGTTGATAG
** *** *
68100370 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGCGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
68100435 TTTGAAACAT
66 TTTGAAACAT
* * *
68100445 AAACTAAAAATACCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGCGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
68100510 TTTGAAACAT
66 TTTGAAACAT
* * *
68100520 AAATTGAAAATACCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGCGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
68100585 TTTGAAACAT
66 TTTGAAACAT
* * *
68100595 AAATTGAAAATACCTCAGCGTGTGA-TTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGCGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
68100659 TTTGAAAAACAA
66 TTTG--AAACAT
68100671 AAATTAAAAATA
1 AAATTAAAAATA
68100683 TCAGGAAACA
Statistics
Matches: 219, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
74 41 0.19
75 162 0.74
76 16 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (75 bp):
AAATTAAAAATACCTCAGCGCGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAACAT
Found at i:68110910 original size:93 final size:93
Alignment explanation
Indices: 68110798--68110969 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
68110788 CGCCCATAAG
* * *
68110798 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
68110863 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
68110891 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
68110956 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
68110970 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:68110966 original size:46 final size:46
Alignment explanation
Indices: 68110799--68110966 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
68110789 GCCCATAAGC
* * * *
68110799 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
* * ** *
68110845 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA-TAAAT
68110892 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
*
68110938 GAACTCGGACTCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
68110967 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 60 0.59
47 32 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
Found at i:68113813 original size:22 final size:21
Alignment explanation
Indices: 68113788--68113839 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
68113778 AATAATAGTG
*
68113788 ATAATAATGATAAATACAAATA
1 ATAATAATAATAAA-ACAAATA
*
68113810 ATAATAATAATAAAACAGATA
1 ATAATAATAATAAAACAAATA
68113831 ATAAATAAT
1 AT-AATAAT
68113840 CAAAGGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAATAATAATAAAACAAATA
Found at i:68113834 original size:3 final size:3
Alignment explanation
Indices: 68113687--68113822 Score: 73
Period size: 3 Copynumber: 45.0 Consensus size: 3
68113677 AAACGTACAC
* * * *
68113687 TAA TAT TAA TAA TAA TAA TAA TAA TATG TAT TAA -AA GGTAA -AA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA --TAA TAA TAA
* * * * * * *
68113733 TAA TAG TAA TAA TAA T-T TAA AAA TGA TAA TAG TAA TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
68113780 TAA TAG TGA TAA TAA TGA TAAA TACA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA
68113823 AACAGATAAT
Statistics
Matches: 98, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
2 6 0.06
3 85 0.87
4 5 0.05
5 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:68114008 original size:3 final size:3
Alignment explanation
Indices: 68114000--68114230 Score: 98
Period size: 3 Copynumber: 77.0 Consensus size: 3
68113990 AAAAGGAAAT
* * * *
68114000 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTG ATA TTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
68114048 ATA ATA ATA GAAA ATA TTA GTA CGTTA ATA ACA ATA ATA TATG TTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA --ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * * *
68114097 ACA ATA ATA A-C ATA A-A A-A ATA ATA AT- ATG GTA AAA ATTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * * * **
68114139 ATA AT- ATG TTA ATA AAA ATA ATA GTA ATGA A-A ATA ATA CTA ACG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * *
68114183 GTA ATA ATA ATA ATA GA-A ATA AAA ATA ATA GTA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
68114228 ATA
1 ATA
68114231 TTAAAAAATA
Statistics
Matches: 164, Mismatches: 51, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
2 12 0.07
3 142 0.87
4 8 0.05
5 2 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:68114664 original size:8 final size:7
Alignment explanation
Indices: 68114635--68114661 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68114625 ATAAAAGGCC
68114635 TTTTTTA
1 TTTTTTA
68114642 TTTTTTA
1 TTTTTTA
68114649 TTTTTTA
1 TTTTTTA
68114656 TTTTTT
1 TTTTTT
68114662 TATGCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:68115160 original size:7 final size:7
Alignment explanation
Indices: 68115148--68115174 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68115138 ATTTAGAAAT
68115148 TTGGGTA
1 TTGGGTA
68115155 TTGGGTA
1 TTGGGTA
68115162 TTGGGTA
1 TTGGGTA
68115169 TTGGGT
1 TTGGGT
68115175 TGTAATGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
TTGGGTA
Found at i:68115188 original size:45 final size:44
Alignment explanation
Indices: 68115111--68115197 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 44
68115101 GTTAAGTCTG
* * *
68115111 TTGGGTTTGGGTTTTGGGTTTTCATGGATTTAGAAATTTGGGTA
1 TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGAAATTTGGGTA
* **
68115155 TTGGGTATTGGGTATTGGGTTGTAATGGGTTTAGGGATTTGGG
1 TTGGGT-TTGGGTATTGGGTTGTAATGGATTTAGAAATTTGGG
68115198 GAGGTTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 6 0.17
45 30 0.83
ACGTcount: A:0.15, C:0.01, G:0.39, T:0.45
Consensus pattern (44 bp):
TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGAAATTTGGGTA
Found at i:68116256 original size:45 final size:45
Alignment explanation
Indices: 68116180--68116287 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 45
68116170 TTTCGCCTGT
68116180 TAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATAGCCTAC
1 TAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAGCCTAC
** *
68116223 TAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAGTTTGC
1 TAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGGCATTATAGCCTAC
* *
68116268 TAAGCTCAAAGGCCCGAATA
1 TAGGCTCGAAGGCCCGAATA
68116288 ATCAAGTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 8 0.14
44 8 0.14
45 39 0.70
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (45 bp):
TAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAGCCTAC
Found at i:68116687 original size:59 final size:59
Alignment explanation
Indices: 68116617--68116735 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
68116607 CCGGTATTAC
*
68116617 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTGCTAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTGCTAGGCACGAA
*
68116676 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTGCTAGGCACGAA
68116735 G
1 G
68116736 GCCCGAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (59 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAACCTGCTAGGCACGAA
Found at i:68116692 original size:16 final size:16
Alignment explanation
Indices: 68116652--68116692 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
68116642 ACACATCACC
*
68116652 GGCACGAAACCTGCTA
1 GGCACGAAGCCTGCTA
68116668 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
68116684 GGCACGAAG
1 GGCACGAAG
68116693 GCCCGAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.32, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:68116785 original size:38 final size:38
Alignment explanation
Indices: 68116737--68116937 Score: 269
Period size: 38 Copynumber: 5.3 Consensus size: 38
68116727 GGCACGAAGG
* * * * *
68116737 CCCGAATATAATACCAGCACTAGGCCTGCGGAATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
68116775 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * **
68116813 CCCGGATATTTTACCAGCACGAAGCCTGTAGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTG-CGGGATTTAA
68116852 GCCCGGATATAATACCAG-ACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
68116890 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
68116928 CCCTGATATA
1 CCCGGATATA
68116938 CTTCGAATAT
Statistics
Matches: 142, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
37 16 0.11
38 94 0.66
39 17 0.12
40 15 0.11
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:68121501 original size:7 final size:7
Alignment explanation
Indices: 68121491--68121524 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
68121481 AGAGTTTTGA
68121491 GTTTAAG
1 GTTTAAG
68121498 GTTTAAG
1 GTTTAAG
*
68121505 GTCTAAG
1 GTTTAAG
*
68121512 GTATAAG
1 GTTTAAG
68121519 GTTTAA
1 GTTTAA
68121525 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (7 bp):
GTTTAAG
Found at i:68125520 original size:27 final size:26
Alignment explanation
Indices: 68125490--68125544 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
68125480 AAAAATATAT
*
68125490 AAAATA-TAAAATATAAAAAATTCAAAA
1 AAAATATTAAAA-ATAAAAAA-GCAAAA
*
68125517 AAAATATTAGAAATAAAAAAGCAAAA
1 AAAATATTAAAAATAAAAAAGCAAAA
68125543 AA
1 AA
68125545 TTGTCCTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAATATTAAAAATAAAAAAGCAAAA
Found at i:68125676 original size:17 final size:17
Alignment explanation
Indices: 68125654--68125686 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68125644 AATTTTAAAA
68125654 TATTTT-AATTGTTTATT
1 TATTTTCAATT-TTTATT
68125671 TATTTTCAATTTTTAT
1 TATTTTCAATTTTTAT
68125687 AATTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TATTTTCAATTTTTATT
Found at i:68143580 original size:18 final size:17
Alignment explanation
Indices: 68143557--68143600 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
68143547 CCGCAACAGT
68143557 AAAAAAATATTGAAAAAG
1 AAAAAAA-ATTGAAAAAG
*
68143575 AAAAAAAATTGAAAACG
1 AAAAAAAATTGAAAAAG
68143592 AAAAAAAAT
1 AAAAAAAAT
68143601 AAAAAATGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAAAAAATTGAAAAAG
Found at i:68144117 original size:216 final size:214
Alignment explanation
Indices: 68143755--68144216 Score: 807
Period size: 216 Copynumber: 2.1 Consensus size: 214
68143745 GCCTATGTAC
*
68143755 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCAGTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
* *
68143820 TATGATTATATATATATAGATATTTAGGCATGTATCACATTACAAAAATAAAAATTTAAATACTT
66 TATGATTATATATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTT
*
68143885 ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTATA
131 ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATA
68143950 ATTTTATTTCTTATTTAAT
196 ATTTTATTTCTTATTTAAT
* * * *
68143969 ATTTTAGTTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGTAGATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
*
68144034 TATGATTATATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATAC
66 TATGATTATATATATATAGAT--ATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATAC
68144099 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
129 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
68144164 TAATTTTATTTCTTATTTAAT
194 TAATTTTATTTCTTATTTAAT
* *
68144185 ATTTTATTTTAATTTTAATAATGCATATTTTA
1 ATTTTAATTTAATTTTAATAATGCATACTTTA
68144217 ATTTTATTTT
Statistics
Matches: 235, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
214 80 0.34
216 155 0.66
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (214 bp):
ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
TATGATTATATATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTT
ATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATA
ATTTTATTTCTTATTTAAT
Found at i:68144201 original size:19 final size:19
Alignment explanation
Indices: 68144166--68144204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68144156 TTGTTTTATA
*
68144166 ATTTTATTTCTTATTTAAT
1 ATTTTATTTCTAATTTAAT
68144185 ATTTTATTT-TAATTTTAAT
1 ATTTTATTTCTAA-TTTAAT
68144204 A
1 A
68144205 ATGCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATTTCTAATTTAAT
Found at i:68144299 original size:17 final size:17
Alignment explanation
Indices: 68144279--68144321 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
68144269 CATTTTTTAT
68144279 TTTTTTTTCGTTTTCAG
1 TTTTTTTTCGTTTTCAG
*
68144296 TTTTTTTTCTTTTTCAG
1 TTTTTTTTCGTTTTCAG
68144313 TGTTTTTTT
1 T-TTTTTTT
68144322 TTACTGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCGTTTTCAG
Found at i:68155421 original size:15 final size:16
Alignment explanation
Indices: 68155401--68155430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68155391 GCATTATTGC
68155401 AATT-AAATGTAGTTT
1 AATTAAAATGTAGTTT
68155416 AATTAAAATGTAGTT
1 AATTAAAATGTAGTT
68155431 CACTTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
AATTAAAATGTAGTTT
Found at i:68156305 original size:16 final size:15
Alignment explanation
Indices: 68156284--68156353 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
68156274 AATAAATATT
68156284 TTATTTTCATAATTAA
1 TTATTTT-ATAATTAA
* *
68156300 TTATTTTTTTATT--
1 TTATTTTATAATTAA
68156313 TTATTTTTATAATTAA
1 TTA-TTTTATAATTAA
68156329 TTAATTTT-TAA-T-A
1 TT-ATTTTATAATTAA
68156342 TTATTTTTATAA
1 TTA-TTTTATAA
68156354 AAATCACATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 12 0.27
15 7 0.16
16 13 0.30
17 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTATAATTAA
Done.