Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 197 of 205
Found at i:58287276 original size:42 final size:41
Alignment explanation
Indices: 58287208--58287337 Score: 201
Period size: 42 Copynumber: 3.2 Consensus size: 41
58287198 GGGCATGAAA
*
58287208 GTGC-ATTCAGGAGTACCGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
*
58287248 GTGCAATTCAGGGGGTACCAAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCA-GGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
58287290 GTGCAATTCAAGGGCACCGAA-TACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
58287330 GTGCAATT
1 GTGCAATT
58287338 TACAATATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
40 31 0.37
41 13 0.16
42 39 0.47
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:58287554 original size:13 final size:14
Alignment explanation
Indices: 58287528--58287558 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
58287518 TCTAAATAAA
58287528 TAATTATATTCAAT
1 TAATTATATTCAAT
58287542 TAATTAT-TTCAAT
1 TAATTATATTCAAT
58287555 TAAT
1 TAAT
58287559 CATAAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATATTCAAT
Found at i:58295641 original size:14 final size:13
Alignment explanation
Indices: 58295608--58295642 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
58295598 GATTATTGTT
*
58295608 TTTATTTCGTTTA
1 TTTATTTTGTTTA
58295621 TTTATTTTGTTTA
1 TTTATTTTGTTTA
58295634 TATTATTTT
1 T-TTATTTT
58295643 TTATGCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTATTTTGTTTA
Found at i:58299772 original size:134 final size:133
Alignment explanation
Indices: 58299523--58299792 Score: 414
Period size: 134 Copynumber: 2.0 Consensus size: 133
58299513 GGTTAGTGCT
* *
58299523 CAACAATGAAGAAGGAGACAACGAGGGACCTTTTTATTCCTCAGGACTTACTTCTCAACAAGCGG
1 CAACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCAG
* * ** * * *
58299588 GGATATATTCGCGCAAATCCTCCGTTACTATCAAGCCTCATGACGGTACTGAAACACCGATAAAC
66 GGATATATCCGCGCAAATCCTCCGTCACTATCAAGCCTCAAAACGATACTGAAACAACAATAAAC
58299653 TTTC
131 -TTC
* * * *
58299657 CAACATTGAAGAAGGAGACAACGAGGGACCTGTTTATTTCTCAGGGCTTACTTCTTAACAAGCAG
1 CAACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCAG
58299722 GGATATATCCGCGCAAATCCTCCGTCACTATCAAGCCTCAAAACGATACTGAAACAACAATAAAC
66 GGATATATCCGCGCAAATCCTCCGTCACTATCAAGCCTCAAAACGATACTGAAACAACAATAAAC
58299787 TTC
131 TTC
58299790 CAA
1 CAA
58299793 TCTAGAGACA
Statistics
Matches: 123, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
133 6 0.05
134 117 0.95
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (133 bp):
CAACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCAG
GGATATATCCGCGCAAATCCTCCGTCACTATCAAGCCTCAAAACGATACTGAAACAACAATAAAC
TTC
Found at i:58304684 original size:54 final size:54
Alignment explanation
Indices: 58304602--58304927 Score: 508
Period size: 54 Copynumber: 6.2 Consensus size: 54
58304592 GGCTAGCAAG
* *
58304602 GGTGAGTTGAGCCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTACGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
*
58304656 GGTGAGTTGAGCCTTTTAATTCCTGTTTTTCAAAAAATCAACTCATATTGCGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTC-AAAAATCAACTCATATTGCGAGA
* *
58304711 GGTGAGTTGAACCTTTTAATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
* *
58304765 GGTGGGTTGAACCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
*
58304819 GGTGAGTTGAACCTTTTAATTCCTATTTTTCAAAAATCAACTCATATTGCGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
58304873 GGTGAGTTG-A-----T--TT-CTGTTTTTCAAAAATCAACTCATATTGCGAGA
1 GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
58304918 GGTGAGTTGA
1 GGTGAGTTGA
58304928 GCCTCGGGTC
Statistics
Matches: 260, Mismatches: 10, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
45 40 0.15
46 2 0.01
48 1 0.00
53 1 0.00
54 166 0.64
55 50 0.19
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGA
Found at i:58305541 original size:25 final size:25
Alignment explanation
Indices: 58305513--58305560 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
58305503 AAAAGTCTTT
58305513 ACTCTATTCTCGTTACACGACAACA
1 ACTCTATTCTCGTTACACGACAACA
*
58305538 ACTCTGTTCTCGTTACACGACAA
1 ACTCTATTCTCGTTACACGACAA
58305561 TGAGTAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (25 bp):
ACTCTATTCTCGTTACACGACAACA
Found at i:58305997 original size:17 final size:16
Alignment explanation
Indices: 58305977--58306123 Score: 175
Period size: 15 Copynumber: 9.4 Consensus size: 16
58305967 ATTTTTCCAC
58305977 CAAAAAAATTCCAGCAA
1 CAAAAAAATTCCAGC-A
*
58305994 CAAAAAATTTCCAG--
1 CAAAAAAATTCCAGCA
58306008 CAAAAAAATTCCAGCA
1 CAAAAAAATTCCAGCA
58306024 GCAAAAAAATTTCCAG--
1 -CAAAAAAA-TTCCAGCA
58306040 CAAAAAAATTCCAGCA
1 CAAAAAAATTCCAGCA
58306056 GCAAAAAAATTTCCAGCA
1 -CAAAAAAA-TTCCAGCA
58306074 -AAAAAAATTCCAGC-
1 CAAAAAAATTCCAGCA
58306088 CAAAAAAATTCCAGCA
1 CAAAAAAATTCCAGCA
*
58306104 -AAGAAAATTCCAGCA
1 CAAAAAAATTCCAGCA
58306119 -AAAAA
1 CAAAAA
58306124 TTTTTAGCAA
Statistics
Matches: 116, Mismatches: 4, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
14 19 0.16
15 47 0.41
16 7 0.06
17 29 0.25
18 14 0.12
ACGTcount: A:0.56, C:0.22, G:0.08, T:0.14
Consensus pattern (16 bp):
CAAAAAAATTCCAGCA
Found at i:58305998 original size:15 final size:14
Alignment explanation
Indices: 58305971--58306138 Score: 174
Period size: 15 Copynumber: 11.0 Consensus size: 14
58305961 AAAAAAATTT
*
58305971 TTCCACCAAAAAAA
1 TTCCAGCAAAAAAA
58305985 TTCCAGCAACAAAAAA
1 TTCCAGC-A-AAAAAA
58306001 TTTCCAGCAAAAAAA
1 -TTCCAGCAAAAAAA
58306016 TTCCAGCAGCAAAAAAA
1 TT-C--CAGCAAAAAAA
58306033 TTTCCAGCAAAAAAA
1 -TTCCAGCAAAAAAA
58306048 TTCCAGCAGCAAAAAAA
1 TT-C--CAGCAAAAAAA
58306065 TTTCCAGCAAAAAAAA
1 -TTCCAGC-AAAAAAA
58306081 TTCCAGCCAAAAAAA
1 TTCCAG-CAAAAAAA
58306096 TTCCAGCAAAGAAAA
1 TTCCAGCAAA-AAAA
*
58306111 TTCCAGCAAAAAAT
1 TTCCAGCAAAAAAA
**
58306125 TTTTAGCAAAAAAA
1 TTCCAGCAAAAAAA
58306139 AAAACAAAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 28
0.80 0.03 0.17
Matches are distributed among these distances:
14 28 0.21
15 57 0.42
16 15 0.11
17 31 0.23
18 4 0.03
ACGTcount: A:0.54, C:0.21, G:0.08, T:0.17
Consensus pattern (14 bp):
TTCCAGCAAAAAAA
Found at i:58306014 original size:32 final size:31
Alignment explanation
Indices: 58305970--58306139 Score: 208
Period size: 32 Copynumber: 5.5 Consensus size: 31
58305960 CAAAAAAATT
*
58305970 TTTCCA-CCAAAAAAATTCCAGCAACAAAAAA
1 TTTCCAGCAAAAAAAATTCCAGC-ACAAAAAA
58306001 TTTCCAGC-AAAAAAATTCCAGCAGCAAAAAAA
1 TTTCCAGCAAAAAAAATTCCAGCA-C-AAAAAA
58306033 TTTCCAGC-AAAAAAATTCCAGCAGCAAAAAAA
1 TTTCCAGCAAAAAAAATTCCAGCA-C-AAAAAA
58306065 TTTCCAGCAAAAAAAATTCCAGC-CAAAAAA
1 TTTCCAGCAAAAAAAATTCCAGCACAAAAAA
* *
58306095 ATTCCAGCAAAGAAAATTCCAG--CAAAAAA
1 TTTCCAGCAAAAAAAATTCCAGCACAAAAAA
**
58306124 TTTTTAGCAAAAAAAA
1 TTTCCAGCAAAAAAAA
58306140 AAACAAAAAA
Statistics
Matches: 129, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
29 19 0.15
30 27 0.21
31 22 0.17
32 47 0.36
33 14 0.11
ACGTcount: A:0.54, C:0.21, G:0.08, T:0.17
Consensus pattern (31 bp):
TTTCCAGCAAAAAAAATTCCAGCACAAAAAA
Found at i:58306206 original size:8 final size:8
Alignment explanation
Indices: 58306193--58306220 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
58306183 CAATATCCGG
58306193 CAAGCAAC
1 CAAGCAAC
58306201 CAAGCAAC
1 CAAGCAAC
58306209 CAAGCAAC
1 CAAGCAAC
58306217 CAAG
1 CAAG
58306221 GACTAACCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.36, G:0.14, T:0.00
Consensus pattern (8 bp):
CAAGCAAC
Found at i:58306641 original size:31 final size:34
Alignment explanation
Indices: 58306573--58306645 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
58306563 GGGTGATATG
* *
58306573 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
58306609 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
58306643 TTA
1 TTA
58306646 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:58313761 original size:29 final size:30
Alignment explanation
Indices: 58313714--58313781 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
58313704 TCGCCCAAGA
* *
58313714 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
58313744 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
58313774 GCAAATAT
1 GTAAATAT
58313782 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:58316007 original size:46 final size:46
Alignment explanation
Indices: 58315940--58316214 Score: 496
Period size: 46 Copynumber: 6.0 Consensus size: 46
58315930 GTGTGCTCTC
* *
58315940 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
58315986 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
58316032 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
58316078 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
* *
58316124 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
* *
58316170 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
58316215 NNNNNNNNNN
Statistics
Matches: 225, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 225 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACA
Found at i:58320565 original size:46 final size:46
Alignment explanation
Indices: 58320498--58320669 Score: 256
Period size: 46 Copynumber: 3.7 Consensus size: 46
58320488 AGTGTGCTCT
* **
58320498 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
58320544 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
58320590 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
58320636 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGACATG-AAATGAATAAGACCATGGTTGAAAGA
58320670 CACTATGGTA
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 117 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:58325548 original size:21 final size:19
Alignment explanation
Indices: 58325489--58325556 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
58325479 AAACTATGCC
58325489 AATATGAAAAATGAAATGAA
1 AATATGAAAAATGAAATG-A
* *
58325509 AAAATTGAAAAATG-TATGA
1 AATA-TGAAAAATGAAATGA
*
58325528 TAATATGAAAAAATGAGATGA
1 -AATATG-AAAAATGAAATGA
58325549 AA-ATGAAA
1 AATATGAAA
58325557 CCCCTACCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.08
19 6 0.15
20 18 0.45
21 13 0.32
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (19 bp):
AATATGAAAAATGAAATGA
Found at i:58328067 original size:443 final size:441
Alignment explanation
Indices: 58326856--58329412 Score: 3341
Period size: 443 Copynumber: 5.9 Consensus size: 441
58326846 TGAGGCAAGG
* * * ** *
58326856 AAGTTCAACTAAACTTTCACAGTTATAGCAATGAAGGAGTTT--AAGGTTGATAGCTCCCGAAAT
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGA-TTTCAAAGCTTGATAGCTCTTGAAAA
* * * * *
58326919 ATTAGGTATCTTCATTAAATTCACGCACCCACCACAA-CGAATTT-CTTTTAAGTTAACAAGGCT
65 ATTAGGTATCTTCCTTAAATTCACGCACCCA-CAAAAGCGAATTTGC-CTTAAATTAACAAGGCC
* * * * * *
58326982 CTGTATATAAAAAAATAATTGTATTACGTTTAAGCATCAACTATTTATTTTAAGCAGTAAAAAGT
128 CTGCATA-GAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAAT
* * ** *
58327047 -AAAA-AAAATAAAAAATTATAATACTATAAAAAAATAAAAATTTATATTTTACATATCAAGTGT
192 GAAAAGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGT
* * *
58327110 GAAAATTCATCCACAATTAATAAATCAAATGATGTCATTTATCTAAATAAACTAAAATCTTTTAT
257 GAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTAT
*
58327175 ATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATATATCAAATTATAAA
322 ATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAA
*
58327240 TCATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCTA
387 TCATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
* * * * * * * *
58327295 AAGCTCAACTAAACTTTCGCAGTTAGAGCATTCAAAGATTT-GAAGCTTGATGGCACTTGAAAGA
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
* * *
58327359 TTAGGTATCTTCCTTAAATTCACGCACCCGTC-AAAGCAAATTCGCCTTAAATTAACAAGGCCCT
66 TTAGGTATCTTCCTTAAATTCACGCACCC-ACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCT
* *
58327423 GTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAATAAAAAATGAA
130 GCATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAA
* * *
58327488 AAGAAAATAAATAATTATAATACTATAAAAAAATAAATATTTATATTTGACGTATCGAGCGTGAA
195 AAGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAA
* ** *
58327553 AATTCACCCACAAATAATAAATTGAATGATGTCATTTATCTAAATAAAATAAAATCTTTTATATT
260 AATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATT
*
58327618 TATTTTTTAAGAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAA-CA
325 TATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAATC-
* *
58327682 ATTTTTTTCGAAATAAATATGAAAACACATACCATATGGTCATCTTCATTCCA
389 ATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
* * * * *
58327735 AAGTTCAACTAAAGTTTCCCGGTAAGAGCGATCAAGGATTTCAAAG-TTGATAGCTCTTGAAAAA
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
*
58327799 TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGCGAATTTGCCTTATATTAACAAGGCCCTG
66 TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCTG
58327864 CATAGAAAAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATG
131 CATAG---AAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATG
* *
58327929 AAAAGAAAATAAATAATTATAATACTATAAAAAAATAAATATTTATATTTGACATATTGGGCGTG
193 AAAAGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGTG
* * *
58327994 AAAATTCACCCACAATTAATAAATTAAACGATGTCATTTATCTAAATAACATAAAATCTATTATA
258 AAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATA
58328059 TTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAAT
323 TTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAAT
* *
58328124 CATTTTTTTCGAAATAAATATGAAAACACATACCATATGGTCATCTTCATTCCA
388 CATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
* * *
58328178 AAGTTCAACTAAACTTTCCCCGTAAGAGCAATCAAGGATTTCAAAG-TTGATAGCTCTTGAAAAA
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
* * *
58328242 TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGTGAATTTGCCTTATATTAGCAAGGCCCTG
66 TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCTG
* *
58328307 CATAGAAAAAAAAATAATTGTATTACTTTTAAGCATAAACTATTTATGTTAGGCAATAAAAAATG
131 CATAG---AAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATG
* *
58328372 AAAAGAAAATAAATAATTATAATACTAT-AAAAAATAAAAATTTATATTTGACGTATCGGGCTTG
193 AAAAGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGTG
*
58328436 AAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAACAAAATAAAATCTTTTATA
258 AAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATA
* * *
58328501 TTTATTTTTTAAAAAAACTGTAAATAAAATGTTATAATACAAATATTTGATACATCAAATTATAA
323 TTTATTTTTT--AAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAA
58328566 ATCATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
386 ATCATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
* *
58328622 AAGTTCAACTAAA---T-----TTAGAGCAATCAAGGATTTC-AAGCTTGATGGCTCTTGAAAGA
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
* * ** *
58328678 TTAGGTATCTTCCTTAAATTCACACACCTCTC-AAAGTAAATTTCCCTTAAATTAACAAGGCCCT
66 TTAGGTATCTTCCTTAAATTCACGCACC-CACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCT
* * * *
58328742 GTATAGAAAAAATAATTGTATTACTTTTCAGCATCAGCTATTTATGTTAGGCATTAAAAAATGAA
130 GCATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAA
* * *
58328807 AAGAAAATAAATAATTATAATATTAT-AAAAAATAAATATTTATATTTGACATATCGGGCATGAA
195 AAGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAA
*
58328871 AA-T--------A--AATAAA--AAA--ATATCATTTATCTAAATAAAATAAAATCTTTTATATT
260 AATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATT
* *
58328921 TATTTTTTTAAAAA-TTTAAATAAAATGTTATCATATGAATATTTGATACATTAAATTAT-AA--
325 TA-TTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAATC
*
58328982 ATTTTTTT-GAAAAAAATATAAAAACACATACCATATGATCATCTTCATTCCA
389 ATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
* * * *
58329034 AAGTTCAACCAAATTTTCACAGTTAGAGCAATCAAGGATTTC-AAGTTTGATGGCTCTTGAAAAA
1 AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
* * ** * * * * *
58329098 TAAGGTATCTTTCTTAAATTCACGCACTGACCAAGGTGAATTTCCCTTAAATTAACAGGGCCCTG
66 TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCTG
* * * * * *
58329163 TC-TAGAAAAAATATTTATATTACTTTTAA-CTACCAACTATTTA--CTA--TAGTAACAAATGA
131 -CATAGAAAAAATAATTGTATTACTTTTAAGC-ATCAACTATTTATGTTAGGCAGTAAAAAATG-
* * * ** * *
58329222 AAAAGGAAATAAATAATTATAATA-T-TAAGAAAAATAAAAATTCATATTTTATGTATTGGGTGT
193 AAAAGAAAATAAATAATTATAATACTATAA-AAAAATAAAAATTTATATTTGACATATCGGGCGT
* * * * * * * *
58329285 GAAAATTAACCCACAATTAATACATCAAACGATGCCATTAATTTATATAAAATAAAATCCTTCA-
257 GAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTAT
** * * *
58329349 ATTTATTTTTTAAAAACTTTAAATAAGGTGTCATCATATGATTATTTGATACA-CTAAATTATAA
322 ATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC-AAATTATAA
58329413 TTTCTTTTTC
Statistics
Matches: 1909, Mismatches: 159, Indels: 107
0.88 0.07 0.05
Matches are distributed among these distances:
412 55 0.03
413 8 0.00
415 4 0.00
416 51 0.03
417 59 0.03
418 40 0.02
419 8 0.00
420 131 0.07
422 6 0.00
424 1 0.00
426 1 0.00
428 5 0.00
430 14 0.01
431 44 0.02
432 28 0.01
433 117 0.06
435 3 0.00
436 95 0.05
437 2 0.00
438 56 0.03
439 109 0.06
440 338 0.18
441 4 0.00
442 103 0.05
443 509 0.27
444 118 0.06
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (441 bp):
AAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAAGCTTGATAGCTCTTGAAAAA
TTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGCGAATTTGCCTTAAATTAACAAGGCCCTG
CATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAA
AGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAA
ATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTT
ATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATCAAATTATAAATCAT
TTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCA
Found at i:58328903 original size:23 final size:23
Alignment explanation
Indices: 58328873--58328917 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58328863 GGCATGAAAA
58328873 TAAATAAAA-AAATATCATTTATC
1 TAAATAAAATAAA-ATCATTTATC
*
58328896 TAAATAAAATAAAATCTTTTAT
1 TAAATAAAATAAAATCATTTAT
58328918 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATAAAATAAAATCATTTATC
Found at i:58328983 original size:883 final size:864
Alignment explanation
Indices: 58326882--58329364 Score: 3202
Period size: 883 Copynumber: 2.9 Consensus size: 864
58326872 TCACAGTTAT
* * ** * * *
58326882 AGCAATGAAGGAGTTT-AAGGTTGATAGCTCCCGAAATATTAGGTATCTTCATTAAATTCACGCA
1 AGCAATCAAGGA-TTTCAAAGTTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACACA
* * ** * * * * *
58326946 CCCACCACAA-CGAATTTCTTTTAAGTTAACAAGGCTCTGTATATAAAAAAATAATTGTATTACG
65 CCCA-CAAAAGCAAATTTCCCTTAAATTAACAAGGCCCTGCATAGAAAAAAATAATTGTATTACT
* * * *
58327010 TTTAAGCATCAACTATTTATTTTAAGCAGTAAAAAGT-AAAA-AAAATAAAAAATTATAATACTA
129 TTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAGAAAATAAATAATTATAATACTA
* * ** ** *
58327073 TAAAAAAATAAAAATTTATATTTTACATATCAAGTGTGAAAATTCATCCACAATTAATAAATCAA
194 TAAAAAAATAAATATTTATATTTGACATATCGGGCATGAAAATTCAT----AATAAATAAA-C--
* *
58327138 ATGATGTCATTTATCTAAATAAACTAAAATCTTTTATATTTATTTTTTAAAAACTTTAAATAAAA
252 AT-A--TCATTTATCTAAATAAAATAAAATCTATTATATTTATTTTTTAAAAACTTTAAATAAAA
58327203 TGTTATCATATAAATATTTGATATATCAAATTATAAATCATTTTTTTCGAAATAAATATAAAAAC
314 TGTTATCATATAAATATTTGATA-ATCAAATTATAAATCATTTTTTTCGAAATAAATAT-AAAAC
* * * * *
58327268 ACATACCATATGATCATCTTCATTCTAAAGCTCAACTAAACTTTCGCAGTTAGAGCATTCAAAGA
377 ACATACCATATGATCATCTTCATTCCAAAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGA
* * * * **
58327333 TTTGAAGCTTGATGGCACTTGAAAGATTAGGTATCTTCCTTAAATTCACGCACCCGTCAAAGCAA
442 TTTCAAGCTTGATGGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCACCC-ACAAAGTGA
* * *
58327398 ATTCGCCTTAAATTAACAAGGCCCTGTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTA
506 ATTTGCCTTAAATTAACAAGGCCCTGCATAGAAAAAATAATTGTATTACTTTTAAGCATAAACTA
*
58327463 TTTATGTTAGGCAATAAAAAATGAAAAGAAAATAAATAATTATAATACTATAAAAAAATAAATAT
571 TTTATGTTAGGCAATAAAAAATGAAAAGAAAATAAATAATTATAATACTAT-AAAAAATAAAAAT
* * * ** *
58327528 TTATATTTGACGTATCGAGCGTGAAAATTCACCCACAAATAATAAATTGAATGATGTCATTTATC
635 TTATATTTGACGTATCGGGCTTGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATC
* * * *
58327593 TAAATAAAATAAAATCTTTTATATTTATTTTTT--AAGAACTTTAAATAAAATGTTATCATATAA
700 TAAATAAAATAAAATCTTTTATATTTATTTTTTAAAAAAACTGTAAATAAAATGTTATAATACAA
* *
58327656 ATATTTGATACATCAAATTATAAACAATTTTTTTCGAAATAAATATGAAAACACATACCATATGG
765 ATATTTGATACATCAAATTATAAACAATTTTTTTCGAAATAAATATAAAAACACATACCATATGA
58327721 TCATCTTCATTCCAAAGTTCAACTAAAGTTTCCCGGTAAG
830 TCATCTTCATTCCAAAGTTCAACTAAAG-TT--C--TAAG
* *
58327761 AGCGATCAAGGATTTCAAAGTTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCAC
1 AGCAATCAAGGATTTCAAAGTTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACACAC
* * *
58327826 CCACAAAAGCGAATTTGCCTTATATTAACAAGGCCCTGCATAGAAAAAAAAATAATTGTATTACT
66 CCACAAAAGCAAATTTCCCTTAAATTAACAAGGCCCTGCATAG--AAAAAAATAATTGTATTACT
58327891 TTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAGAAAATAAATAATTATAATACTA
129 TTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAGAAAATAAATAATTATAATACTA
* *
58327956 TAAAAAAATAAATATTTATATTTGACATATTGGGCGTGAAAATTCACCCACAATTAATAAATTAA
194 TAAAAAAATAAATATTTATATTTGACATATCGGGCATGAAAATT------C-A-TAATAAA-TAA
* *
58328021 ACGATGTCATTTATCTAAATAACATAAAATCTATTATATTTATTTTTTAAAAACTTTAAATAAAA
250 AC-ATATCATTTATCTAAATAAAATAAAATCTATTATATTTATTTTTTAAAAACTTTAAATAAAA
58328086 TGTTATCATATAAATATTTGATACATCAAATTATAAATCATTTTTTTCGAAATAAATATGAAAAC
314 TGTTATCATATAAATATTTGATA-ATCAAATTATAAATCATTTTTTTCGAAATAAATAT-AAAAC
* * * *
58328151 ACATACCATATGGTCATCTTCATTCCAAAGTTCAACTAAACTTTCCCCGTAAGAGCAATCAAGGA
377 ACATACCATATGATCATCTTCATTCCAAAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGA
*
58328216 TTTCAAAG-TTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCACCCACAAAAGTG
442 TTTC-AAGCTTGATGGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCACCCAC-AAAGTG
* *
58328280 AATTTGCCTTATATTAGCAAGGCCCTGCATAGAAAAAAAAATAATTGTATTACTTTTAAGCATAA
505 AATTTGCCTTAAATTAACAAGGCCCTGCATAG---AAAAAATAATTGTATTACTTTTAAGCATAA
58328345 ACTATTTATGTTAGGCAATAAAAAATGAAAAGAAAATAAATAATTATAATACTATAAAAAATAAA
567 ACTATTTATGTTAGGCAATAAAAAATGAAAAGAAAATAAATAATTATAATACTATAAAAAATAAA
58328410 AATTTATATTTGACGTATCGGGCTTGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTT
632 AATTTATATTTGACGTATCGGGCTTGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTT
*
58328475 ATCTAAACAAAATAAAATCTTTTATATTTATTTTTTAAAAAAACTGTAAATAAAATGTTATAATA
697 ATCTAAATAAAATAAAATCTTTTATATTTATTTTTTAAAAAAACTGTAAATAAAATGTTATAATA
58328540 CAAATATTTGATACATCAAATTATAAATC-ATTTTTTTCGAAATAAATATAAAAACACATACCAT
762 CAAATATTTGATACATCAAATTATAAA-CAATTTTTTTCGAAATAAATATAAAAACACATACCAT
58328604 ATGATCATCTTCATTCCAAAGTTCAACTAAA-TT-T-AG
826 ATGATCATCTTCATTCCAAAGTTCAACTAAAGTTCTAAG
* *
58328640 AGCAATCAAGGATTTC-AAGCTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAAATTCACACA
1 AGCAATCAAGGATTTCAAAG-TTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACACA
* * *
58328704 CCTCTC-AAAGTAAATTTCCCTTAAATTAACAAGGCCCTGTATAG-AAAAAATAATTGTATTACT
65 CC-CACAAAAGCAAATTTCCCTTAAATTAACAAGGCCCTGCATAGAAAAAAATAATTGTATTACT
* * * *
58328767 TTTCAGCATCAGCTATTTATGTTAGGCATTAAAAAATGAAAAGAAAATAAATAATTATAATATTA
129 TTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAGAAAATAAATAATTATAATACTA
58328832 T-AAAAAATAAATATTTATATTTGACATATCGGGCATGAAAA-T-A-AATAAA-AAA-ATATCAT
194 TAAAAAAATAAATATTTATATTTGACATATCGGGCATGAAAATTCATAATAAATAAACATATCAT
*
58328891 TTATCTAAATAAAATAAAATCTTTTATATTTATTTTTTTAAAAA-TTTAAATAAAATGTTATCAT
259 TTATCTAAATAAAATAAAATCTATTATATTTA-TTTTTTAAAAACTTTAAATAAAATGTTATCAT
* * *
58328955 ATGAATATTTGATACATTAAATTAT-AA--ATTTTTTT-GAAAAAAATATAAAAACACATACCAT
323 ATAAATATTTGATA-ATCAAATTATAAATCATTTTTTTCGAAATAAATAT-AAAACACATACCAT
* * *
58329016 ATGATCATCTTCATTCCAAAGTTCAACCAAATTTTCACAGTTAGAGCAATCAAGGATTTCAAGTT
386 ATGATCATCTTCATTCCAAAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAGCT
* * ** * *
58329081 TGATGGCTCTTGAAAAATAAGGTATCTTTCTTAAATTCACGCACTGACCAAGGTGAATTTCCCTT
451 TGATGGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCACCCA-CAAAGTGAATTTGCCTT
* * *
58329146 AAATTAACAGGGCCCTGTC-TAGAAAAAATATTTATATTACTTTTAA-C-TACCAACTATTTACT
515 AAATTAACAAGGCCCTG-CATAGAAAAAATAATTGTATTACTTTTAAGCATA--AACTATTTA-T
* * * * *
58329208 -ATA-G---TAACAAATGAAAAAGGAAATAAATAATTATAATATTA-AGAAAAATAAAAATTCAT
576 GTTAGGCAATAAAAAATG-AAAAGAAAATAAATAATTATAATACTATA-AAAAATAAAAATTTAT
* * * * * * * * *
58329267 ATTTTATGTATTGGG-TGTGAAAATTAACCCACAATTAATACATCAAACGATGCCATTAATTTAT
639 ATTTGACGTATCGGGCT-TGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAA
* *
58329331 ATAAAATAAAATCCTTCA-ATTTATTTTTTAAAAA
703 ATAAAATAAAATCTTTTATATTTATTTTTTAAAAA
58329365 CTTTAAATAA
Statistics
Matches: 1442, Mismatches: 127, Indels: 100
0.86 0.08 0.06
Matches are distributed among these distances:
849 26 0.02
850 108 0.07
851 2 0.00
852 2 0.00
853 33 0.02
854 1 0.00
855 3 0.00
856 152 0.11
857 10 0.01
859 2 0.00
860 79 0.05
861 11 0.01
862 3 0.00
864 6 0.00
866 1 0.00
874 1 0.00
875 38 0.03
876 81 0.06
878 10 0.01
879 176 0.12
880 3 0.00
881 53 0.04
882 5 0.00
883 314 0.22
884 3 0.00
885 105 0.07
886 86 0.06
887 120 0.08
888 5 0.00
889 1 0.00
890 1 0.00
891 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (864 bp):
AGCAATCAAGGATTTCAAAGTTGATAGCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACACAC
CCACAAAAGCAAATTTCCCTTAAATTAACAAGGCCCTGCATAGAAAAAAATAATTGTATTACTTT
TAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAGAAAATAAATAATTATAATACTATA
AAAAAATAAATATTTATATTTGACATATCGGGCATGAAAATTCATAATAAATAAACATATCATTT
ATCTAAATAAAATAAAATCTATTATATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATA
AATATTTGATAATCAAATTATAAATCATTTTTTTCGAAATAAATATAAAACACATACCATATGAT
CATCTTCATTCCAAAGTTCAACTAAACTTTCACAGTTAGAGCAATCAAGGATTTCAAGCTTGATG
GCTCTTGAAAAATTAGGTATCTTCCTTAAATTCACGCACCCACAAAGTGAATTTGCCTTAAATTA
ACAAGGCCCTGCATAGAAAAAATAATTGTATTACTTTTAAGCATAAACTATTTATGTTAGGCAAT
AAAAAATGAAAAGAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACGTATC
GGGCTTGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATC
TTTTATATTTATTTTTTAAAAAAACTGTAAATAAAATGTTATAATACAAATATTTGATACATCAA
ATTATAAACAATTTTTTTCGAAATAAATATAAAAACACATACCATATGATCATCTTCATTCCAAA
GTTCAACTAAAGTTCTAAG
Found at i:58335485 original size:18 final size:18
Alignment explanation
Indices: 58335462--58335554 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
58335452 CCCAACTACT
*
58335462 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
58335480 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
58335498 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
58335516 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
58335534 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
58335552 GTA
1 GTA
58335555 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:58335514 original size:36 final size:36
Alignment explanation
Indices: 58335462--58335554 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
58335452 CCCAACTACT
*
58335462 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
58335498 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
58335534 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
58335555 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:58338066 original size:26 final size:26
Alignment explanation
Indices: 58338037--58338138 Score: 86
Period size: 26 Copynumber: 3.9 Consensus size: 26
58338027 CTTTTAATTT
*
58338037 TTTATACTATTTACTTTAAATTGTCA
1 TTTATATTATTTACTTTAAATTGTCA
* * **
58338063 TTTATAGTATTTATTTTAAAATTCGTTT
1 TTTATATTATTTACTTT-AAATT-GTCA
*
58338091 TTATATATTATTTA-TTTAAA--ATCA
1 TT-TATATTATTTACTTTAAATTGTCA
58338115 TTT-TGATTATTTACTTTAAATTGT
1 TTTAT-ATTATTTACTTTAAATTGT
58338139 TATACCTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
22 1 0.02
23 9 0.15
24 9 0.15
26 16 0.27
27 8 0.13
28 7 0.12
29 10 0.17
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (26 bp):
TTTATATTATTTACTTTAAATTGTCA
Found at i:58338117 original size:52 final size:53
Alignment explanation
Indices: 58338034--58338134 Score: 118
Period size: 52 Copynumber: 1.9 Consensus size: 53
58338024 ATTCTTTTAA
* *
58338034 TTTTTTATACTATTTACTTTAAATTGTCATTTAT-AGTATTTATTTTAAAATTCG
1 TTTTTTATACTATTTACTTTAAA-TATCATTT-TGAGTATTTACTTTAAAATTCG
* *
58338088 TTTTTATATATTATTTA-TTTAAA-ATCATTTTGATTATTTACTTTAAA
1 TTTTT-TATACTATTTACTTTAAATATCATTTTGAGTATTTACTTTAAA
58338135 TTGTTATACC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
51 1 0.02
52 19 0.46
54 11 0.27
55 10 0.24
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (53 bp):
TTTTTTATACTATTTACTTTAAATATCATTTTGAGTATTTACTTTAAAATTCG
Found at i:58338118 original size:27 final size:29
Alignment explanation
Indices: 58338065--58338118 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58338055 AATTGTCATT
*
58338065 TATAGTATTTATTTTAAAATTCGTTTTTA
1 TATAGTATTTATTTTAAAATTCATTTTTA
*
58338094 TATATTATTTA-TTTAAAA-TCATTTT
1 TATAGTATTTATTTTAAAATTCATTTT
58338119 GATTATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 7 0.30
29 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (29 bp):
TATAGTATTTATTTTAAAATTCATTTTTA
Found at i:58343077 original size:439 final size:438
Alignment explanation
Indices: 58341651--58346465 Score: 7181
Period size: 439 Copynumber: 11.0 Consensus size: 438
58341641 ATCAAATTAT
* ** *
58341651 AAATTATAAATCTTTTTTTTTTAAAATAAATATGAAAACACATACTATATGATCATCTTCATTCC
1 AAATTATAAATC-ATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCC
* * ** * *
58341716 AAAGTTCAACCAAACTTTGGCAGCCAGAGAAATTAAGGATTTCAAGGTTGATGGCTCTTGAAAGA
65 AAAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGA
* * * * * *
58341781 TTATGTATGTTCCTTAAATTCACGCACCCATCAAAGTCAATTTCCCATAAATTAACAAGACCCTG
130 TTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTT-CCTTAAATTAACAAGGCCCTG
* *
58341846 TATAGAAAAAATAATTATATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAGATGAAA
194 TATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAA
*
58341911 AGAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCGGCCGTGAAA
259 AGAAAATAAATAATTATAATACTAT-AAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAA
*
58341976 ATTCATCCACAATTAATAAATCAAATGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTT
323 ATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTT
*
58342041 ATTTTTTAAAAACTTTAAATAAAATGTTGTCATATAAATATTTGATACATC
388 ATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58342092 AAATTATAAATCATTTTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTC
1 AAATTATAAATCA--TTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTC
* * *** ** *
58342157 CAAAGTTCAACCAAACTTTGGCAACCAGATAAATTAAGGATTTCAAGGTTGATGGCTCTTGAAAG
64 CAAAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAG
* * * *
58342222 GTTAGGTATCTTCCCTAAATTCACGCACCCCTCAAAGTGAATTTCCCTTAAATTAACAAGGCCTT
129 ATTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTT-CCTTAAATTAACAAGGCCCT
* * *
58342287 GTATAGAAAAAATAATTGTATTACTTTTAACCATCAACTATTTATTTTAGGCAGTAAAAAATAAA
193 GTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAA
* **
58342352 AATAAAATAAATAATTATAATACTATAAAAAAATAAAAATTTATATTTGACATATCAAGCGTGAA
258 AAGAAAATAAATAATTATAATACTAT-AAAAAATAAAAATTTATATTTGACATATCGGGCGTGAA
* * *
58342417 AATTCATCTACAATTAATAAATCAAATGATGTCATTTATCTAAATAAAATAAAATATTTTATATT
322 AATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATT
*
58342482 TATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGCTACATC
387 TATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58342534 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
* * ** * * *
58342599 AAGTTCAACCAAACTTTGGCAGCCAGAGAAATTAAGGATTTCAAGGTTGATGGCTCTTGAAAGGT
66 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
* *
58342664 TAGGTATCTTCCTTAAATTCATGCACCCCTCAAAGTGAATTTCCATTAAATTAACAAGGCCCTGT
131 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTTCC-TTAAATTAACAAGGCCCTGT
*
58342729 ATAGAAAAAATAATTGTATTACTTTTAAGCATAAACTATTTATGTTAGGCAGTAAAAAATGAAAA
195 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
*
58342794 GAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGGGTGAAAAT
260 GAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAAAT
* *
58342859 TCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAA
325 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
58342924 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
390 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58342973 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
*
58343038 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGCTTGATGGCTCTTGAAAGAT
66 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
* * *
58343103 TAAGTATCTTCCTTAAATTCACACACCCCTCAAAGTAAATTTTCCTTAAATTAACAAAGCCCTGT
131 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAA-TTTCCTTAAATTAACAAGGCCCTGT
*
58343168 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATTTTAGGCAGTAAAAAATGAAAA
195 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
** *
58343233 GAAAATAAATAATTATAATAGAATAAAAAATAAAAATTTATATTTGACGTATCGGGCGTGAAAAT
260 GAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAAAT
58343298 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
325 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
58343363 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
390 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58343412 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
*
58343477 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGCTTGATGGCTCTTGAAAGAT
66 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
* * *
58343542 TAAGTATCTTCCTTAAATTCACACACCCCTCAAAGTAAATTTTCCTTAAATTAACAAAGCCCTGT
131 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAA-TTTCCTTAAATTAACAAGGCCCTGT
*
58343607 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATTTTAGGCAGTAAAAAATGAAAA
195 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
** *
58343672 GAAAATAAATAATTATAATAGAATAAAAAATAAAAATTTATATTTGACGTATCGGGCGTGAAAAT
260 GAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAAAT
58343737 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
325 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
*
58343802 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACTTC
390 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58343851 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
* * *
58343916 AAGTTCAACTAAACTTTTGCAGTTAGAGCAATCAAGGATTTTAAGCTTGATGGCTCTTGAAAGAT
66 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
*
58343981 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTCAATTTCCCTTAAATTAACAAGGCCCTGT
131 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTT-CCTTAAATTAACAAGGCCCTGT
*
58344046 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCGGTAAAAAATGAAAA
195 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
** * * *
58344111 GAAAATAAATAATTATAATAGAATAAAAAATAAAAATTTATACTTGACGTATCGGACGTGAAAAT
260 GAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAAAT
58344176 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
325 TCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTAT
*
58344241 TTTTTCAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
390 TTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
* ** * *
58344290 AAATTATAAATTATAAATCATTTTTTAAAAATAAATATAAAAATACATACCATATGATCATCTTC
1 AAATTAT-AA--AT-CAT--TTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTC
* * * *
58344355 ATTCCAAAGTTCAACCAAAC-TTCGGCAGTTAAAGAAAAT-AAGGAATTCAAGGTTGATGGCTCT
60 ATTCCAAAGTTCAACTAAACTTTC-GCAGTTAGAG-CAATCAAGGATTTCAAGGTTGATGGCTCT
* * * *
58344418 TGAAAGGTTAGGTATCTTTCTTAAATTCACGCACCCCTCAAAGTGAATTTCCCTTATATTAACAA
123 TGAAAGATTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTT-CCTTAAATTAACAA
*
58344483 GGCCCTATATAG-AAAAATAATTGTATTAC-TTT-----T-AA--A---A----A---A-T----
187 GGCCCTGTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAA
** * * *
58344523 -A--AAAAGAAAATAAATAATTATAATAGAATAAAAAATAAAAATTTATATTTGACGTGTCAGGC
252 AATGAAAAGAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGC
*
58344585 GTGAAAATTCATCCACAATTAATAAATCAAACGATATCATTTATCTAAATAAAATAAAATCTTTT
317 GTGAAAATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTT
58344650 ATATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
382 ATATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58344707 AAATTTTAAATTAAAAAT-ATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTT
1 AAA--TT--A-T--AAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTT
* ** *
58344771 CATTCCAAAGTTCAACTAAACTTTGGCAGCCAGAGCAATCAAGGATTTCAAGCTTGATGGCTCTT
59 CATTCCAAAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTT
*
58344836 GAAAGATTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTTTTCTTAAATTAACAAG
124 GAAAGATTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAA-TTTCCTTAAATTAACAAG
* *
58344901 GCACTGTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAG
188 GCCCTGTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAA
*
58344966 TTGAAAAGAAAATAAATAATTATAATACTAT-AAAAATAAAAATTTATATTTGACATATCGGG-G
253 ATGAAAAGAAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCG
*
58345029 TGAAAATTCACCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTA
318 TGAAAATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTA
58345094 TATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
383 TATTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
58345150 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
*
58345215 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGCTTGATGGCTCTTGAAAGAT
66 AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
* *
58345280 TAGGTATCTTCCTTAAATTCACGCACCCCTTAAAGTAAATTTTCCTTAAATTAACAAGGCCTTGT
131 TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAA-TTTCCTTAAATTAACAAGGCCCTGT
*
58345345 ATAGAAAAAATAAGTGTATTAC-TTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
195 ATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAA
**
58345409 GAAAATAAATAATTATAATAGAATAAAAAATAAAAAATTTATATTTGACATATCGGGCGTGAAAA
260 GAAAATAAATAATTATAATACTATAAAAAAT-AAAAATTTATATTTGACATATCGGGCGTGAAAA
* * * *
58345474 TTCATCCACAATTAATAAATCAAACAATTTTATTTATCTAAATAAAATAAAATATTTTATATTTA
324 TTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTA
*
58345539 TTTTTTAAAAACTTTAAATAAAATGTAATCATATAAATATTTGATACATC
389 TTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
* *
58345589 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATTCCATATGATCACCTTCATTCCA
1 AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
** *
58345654 AAGTTCAACTAAACTTTTACA-TTGAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAAA
66 AAGTTCAACTAAACTTTCGCAGTT-AGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGA
* * * * *** * * *
58345718 TTACGTATCTTCATTAAAATCAAGCACTTATCAGAA-TAAATTGCGGTTAAATTAACAGGGCCCT
130 TTAGGTATCTTCCTTAAATTCACGCACCCCTCA-AAGTAAATTTC-CTTAAATTAACAAGGCCCT
* *
58345782 GTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAATAACAAATGAA
193 GTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAA
* *
58345847 AAGAAAATAAATAATTATAATATTATAAAAAAATAAAAATTTATATTTGAC-TATCGGGCATGAA
258 AAGAAAATAAATAATTATAATACTAT-AAAAAATAAAAATTTATATTTGACATATCGGGCGTGAA
* * * *
58345911 AATTCACCCACAATTAATAAATTATACGATGTCATTTGTCTAAATAAAATAAAATCTTTTATATT
322 AATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATT
* *
58345976 TATTTTTTAAAAACTTTAAATAAAATGTTATCATATGAATATTTAATACATC
387 TATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
* * * * * *
58346028 AAATTATAAATCATTGTTTTCAAAAAAAAAATTGAAAACATATACCATATGATCATCTTCATTTC
1 AAATTATAAATCATTTTTTTCGAAATAAATA-TGAAAACACATACCATATGATCATCTTCATTCC
* * * * * *
58346093 AAAGTTCAATTAAACTTTTGCAGTTAGTGCAATCAAGGATTTCAAAGTTGATGTCTCTTGATAGA
65 AAAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGA
* * ** * * * * *
58346158 TTATGAATCTTTTTTAAATTCACGCACCCATC-AAGTTGAATTGCGGTTAAATTAACAAGGTCCT
130 TTAGGTATCTTCCTTAAATTCACGCACCCCTCAAAG-TAAATTTC-CTTAAATTAACAAGGCCCT
* * * * * * *** *
58346222 ATATAGAAAAAATATTTTTGTTACTTTTAAGTATCAACTACTTACT-TTAAATAGTAACAAATGA
193 GTATAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTA-TGTTAGGCAGTAAAAAATG-
* * ** ** *
58346286 AAAAGGAAATAAATAATTATAATACTA-AGAAAAATAAAAATTCATATTTGATGTATTAGGTGTG
256 AAAAGAAAATAAATAATTATAATACTATA-AAAAATAAAAATTTATATTTGACATATCGGGCGTG
* * * * * * * * * *
58346350 AAAATTAACCCACAATTAATACATCAAACCATGCCACTAATTTATATAAAATAAAATCTTTCATA
320 AAAATTCATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATA
* * * *
58346415 TTTATTTTTTAAAAACTTTAAATAAGATGTCATCATATGATTATTTGATAC
385 TTTATTTTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATAC
58346466 GCTAAATTAT
Statistics
Matches: 4062, Mismatches: 245, Indels: 134
0.91 0.06 0.03
Matches are distributed among these distances:
416 3 0.00
417 335 0.08
418 22 0.01
419 8 0.00
421 3 0.00
422 1 0.00
423 3 0.00
424 2 0.00
425 2 0.00
427 1 0.00
428 1 0.00
430 1 0.00
432 1 0.00
434 1 0.00
435 1 0.00
436 66 0.02
437 206 0.05
438 38 0.01
439 1879 0.46
440 551 0.14
441 156 0.04
442 415 0.10
443 128 0.03
444 47 0.01
445 188 0.05
446 3 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (438 bp):
AAATTATAAATCATTTTTTTCGAAATAAATATGAAAACACATACCATATGATCATCTTCATTCCA
AAGTTCAACTAAACTTTCGCAGTTAGAGCAATCAAGGATTTCAAGGTTGATGGCTCTTGAAAGAT
TAGGTATCTTCCTTAAATTCACGCACCCCTCAAAGTAAATTTCCTTAAATTAACAAGGCCCTGTA
TAGAAAAAATAATTGTATTACTTTTAAGCATCAACTATTTATGTTAGGCAGTAAAAAATGAAAAG
AAAATAAATAATTATAATACTATAAAAAATAAAAATTTATATTTGACATATCGGGCGTGAAAATT
CATCCACAATTAATAAATCAAACGATGTCATTTATCTAAATAAAATAAAATCTTTTATATTTATT
TTTTAAAAACTTTAAATAAAATGTTATCATATAAATATTTGATACATC
Found at i:58350068 original size:21 final size:21
Alignment explanation
Indices: 58350042--58350082 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58350032 ATCTGCTCAA
* *
58350042 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
58350063 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
58350083 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:58368631 original size:20 final size:20
Alignment explanation
Indices: 58368606--58368651 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
58368596 TTGATGAAGA
58368606 AGAAGGCATGAAAGAGTACT
1 AGAAGGCATGAAAGAGTACT
58368626 AGAAGGCATGAAAGAGTACT
1 AGAAGGCATGAAAGAGTACT
*
58368646 AAAAGG
1 AGAAGG
58368652 AGTTTTGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.09, G:0.30, T:0.13
Consensus pattern (20 bp):
AGAAGGCATGAAAGAGTACT
Found at i:58371057 original size:18 final size:18
Alignment explanation
Indices: 58370985--58371054 Score: 95
Period size: 18 Copynumber: 3.9 Consensus size: 18
58370975 CATTTATGGA
*
58370985 ACTATTCATGTATACAAT
1 ACTATTCACGTATACAAT
58371003 ACTATTCACGTATACAAT
1 ACTATTCACGTATACAAT
* *
58371021 ACTATTTACGTATACAGT
1 ACTATTCACGTATACAAT
* *
58371039 ACTGTTCACATATACA
1 ACTATTCACGTATACA
58371055 GTAGTTGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACAAT
Found at i:58373796 original size:22 final size:22
Alignment explanation
Indices: 58373768--58373809 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
58373758 GTGAAGAGTA
58373768 CGTTTTTACACGGTAATTTGAG
1 CGTTTTTACACGGTAATTTGAG
*
58373790 CGTTTTTACACGGTGATTTG
1 CGTTTTTACACGGTAATTTG
58373810 GAAGAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (22 bp):
CGTTTTTACACGGTAATTTGAG
Found at i:58377926 original size:24 final size:24
Alignment explanation
Indices: 58377882--58377933 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
58377872 TTTCTAGAAG
* *
58377882 ATTTAGTATTTATGAGTATAATAA
1 ATTTAGCATTTATGAGCATAATAA
*
58377906 ATTTAGCATTTAAT-AGCATAATAT
1 ATTTAGCATTT-ATGAGCATAATAA
58377930 ATTT
1 ATTT
58377934 GACTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAA
Found at i:58381640 original size:32 final size:32
Alignment explanation
Indices: 58381604--58381707 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
58381594 TAAAAATAGG
*
58381604 AACAAACTTTGACATAATCAACTTAACAAAAA
1 AACAAACTTTGACACAATCAACTTAACAAAAA
58381636 AACAAACTTTGACACAATCAACTTAACCAAAAA
1 AACAAACTTTGACACAATCAACTTAA-CAAAAA
58381669 AA-AAACTTTGACACAATCAACTTAACAAAGAA
1 AACAAACTTTGACACAATCAACTTAACAAA-AA
*
58381701 AAAAAAC
1 AACAAAC
58381708 ATATGTGGAC
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
31 4 0.06
32 52 0.76
33 12 0.18
ACGTcount: A:0.58, C:0.20, G:0.04, T:0.18
Consensus pattern (32 bp):
AACAAACTTTGACACAATCAACTTAACAAAAA
Found at i:58386546 original size:202 final size:202
Alignment explanation
Indices: 58386197--58386599 Score: 628
Period size: 202 Copynumber: 2.0 Consensus size: 202
58386187 TTACGAGGAT
** * * *
58386197 ATAATTAATTTTTAGGGAAGAAGAGTCGGAACTGTTAGACAGCAGAACAGGGGTAACTTTAAAGA
1 ATAATTAATTTTTAGGGAAGAAGAGTCACAACTGTCAGACAGCAGAACAGAGATAACTTTAAAGA
* * * *
58386262 ATAAACTGTACTTATTGGCTAAACCAAAAATTTTGAAAATTTTTTGGTAAGAATATATATGATTC
66 ATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGATATATGAGTC
* *
58386327 TAGTTTCAGGGAAAATTAGTAGATCTTAATTTGGAGTTATATAGCTCCATATATAAATAATTTAT
131 TAGTTTCAGGGAAAATTAGTAGATCTTAATTTGGAGTTATATAGCTCCAGATATAAATAATTTAG
58386392 TGACTAG
196 TGACTAG
* * *
58386399 ATAATTAATTTTTAGTGAAGAAGGGTCACAACTGTCAGACAGCAGAATAGAGATAACTTTAAAGA
1 ATAATTAATTTTTAGGGAAGAAGAGTCACAACTGTCAGACAGCAGAACAGAGATAACTTTAAAGA
*
58386464 ATAAACTGTACTTATTGAG-TAAACTAAAAATTCTGAAAATTTTATGGTAAGAAGATATATGAGT
66 ATAAACTGTACTTATTG-GCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGATATATGAGT
* * *
58386528 CTAGTTTCAGGTAAAATTATTGGATCTTAATTTGGAGTTATATAGCTCCAGATATAAATAATTTA
130 CTAGTTTCAGGGAAAATTAGTAGATCTTAATTTGGAGTTATATAGCTCCAGATATAAATAATTTA
58386593 GTGACTA
195 GTGACTA
58386600 TGACACAGAT
Statistics
Matches: 182, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
202 181 0.99
203 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (202 bp):
ATAATTAATTTTTAGGGAAGAAGAGTCACAACTGTCAGACAGCAGAACAGAGATAACTTTAAAGA
ATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGATATATGAGTC
TAGTTTCAGGGAAAATTAGTAGATCTTAATTTGGAGTTATATAGCTCCAGATATAAATAATTTAG
TGACTAG
Found at i:58387732 original size:46 final size:46
Alignment explanation
Indices: 58387680--58387861 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
58387670 AGTGTGCTCT
*
58387680 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
58387726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
58387772 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
58387818 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
58387862 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:58396945 original size:33 final size:33
Alignment explanation
Indices: 58396908--58396982 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
58396898 GTCTGCTTTA
*
58396908 TGTTTCTCTATTTTCTGTTTCTGTACCGTGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
58396941 TGTTTCTTTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
58396974 TGTTCCTCT
1 TGTTTCTCT
58396983 TGCCATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.07, C:0.19, G:0.13, T:0.61
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:58396946 original size:18 final size:17
Alignment explanation
Indices: 58396923--58396977 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
58396913 CTCTATTTTC
58396923 TGTTTCTGTACCGTGTTT
1 TGTTTCTGTACC-TGTTT
*
58396941 TGTTTCTTTA--T-TTT
1 TGTTTCTGTACCTGTTT
58396955 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACC-TGTTT
58396974 TGTT
1 TGTT
58396978 CCTCTTGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.07, C:0.15, G:0.16, T:0.62
Consensus pattern (17 bp):
TGTTTCTGTACCTGTTT
Found at i:58398651 original size:808 final size:808
Alignment explanation
Indices: 58397095--58400074 Score: 5951
Period size: 808 Copynumber: 3.7 Consensus size: 808
58397085 CTAACAATGG
58397095 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
1 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
58397160 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
66 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
58397225 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
131 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
*
58397290 TTGTTTGTGTTCCAACTTGTCCAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
196 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
58397355 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
261 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
58397420 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
326 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
58397485 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
391 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
58397550 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
456 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
58397615 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
521 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
58397680 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
586 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
58397745 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
651 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
58397810 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
716 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
58397875 TATCATTTACACACTGCTGTTACTGAAA
781 TATCATTTACACACTGCTGTTACTGAAA
58397903 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
1 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
58397968 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
66 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
58398033 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
131 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
58398098 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
196 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
58398163 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
261 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
58398228 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
326 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
58398293 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
391 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
58398358 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
456 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
58398423 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
521 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
58398488 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
586 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
58398553 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
651 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
58398618 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
716 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
58398683 TATCATTTACACACTGCTGTTACTGAAA
781 TATCATTTACACACTGCTGTTACTGAAA
58398711 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
1 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
58398776 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
66 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
58398841 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
131 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
58398906 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
196 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
58398971 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
261 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
58399036 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
326 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
58399101 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
391 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
58399166 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
456 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
58399231 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
521 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
58399296 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
586 TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
58399361 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
651 ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
58399426 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
716 TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
58399491 TATCATTTACACACTGCTGTTACTGAAA
781 TATCATTTACACACTGCTGTTACTGAAA
58399519 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
1 ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
58399584 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
66 TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
58399649 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
131 AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
58399714 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
196 TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
58399779 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
261 ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
58399844 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
326 TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
58399909 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
391 CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
58399974 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
456 AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
58400039 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATA
521 CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATA
58400075 TATTTAATAA
Statistics
Matches: 2171, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
808 2171 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (808 bp):
ATTAAATCTAAATTCAACCGAATGACATGGAATTATACAACAACTAACTTCAAATAAAAACATGA
TTTCAATCCATTGTTAGAAGTTAATAATCCTTTTCCTCACTTATAAACCATGAACGCATATCAGT
AGTGGGACATTTGTAGAGAAATTAACAGATCTGTTCCAACTGATATTCCTAGAGGTCTCATATTC
TTGTTTGTGTTCCAACTTGTCAAGGAAAGGCTAGATTTTGTATTTCCATTTAAATAATCTTCTTG
ACCTTAATTTGTTTGTCATTTGGCATTGTGCATTGTTAAAGGCTTGTTGTCAGTATTTCATAATT
TTCCTTATAATTTTCCCATCCATTAATTTTTTGTTTTCTATAATTCTTTAATATTGTCTCAAGTT
CCCATCTGCAGTTTAATATATTGATTATGTAATCCACACATCATTATCTATCAAACTAAAGCAGT
AGAGACAAGATTGTGAAATATTAAAACCAGTGCAACCAGCTCATGATATTGTTATGATGAAAGTA
CTTGCTGTGCATTTTTCTTAGTCATTTAAATCAATAAACTCATTTAACAATCTTGTGCTTTTCCA
TGACAGAAATAAGAATATTATTTATCTTTTGTAATTAAATTATCTTTGAAAGGCTGTATGAGAAT
ATGTATGTAAGCAAACTCTAATTGCACTGGTATTCCATTTTCATTTTTGTGAAAACATGTTTATT
TTTCTAGTCAAATGCCTATATGATGGTTCTTGTGTAGCCATTTTATTTAGCATGTTTTGTTTCTC
TATCATTTACACACTGCTGTTACTGAAA
Found at i:58400227 original size:18 final size:18
Alignment explanation
Indices: 58400199--58400249 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
58400189 AATAATAAGA
58400199 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
58400216 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
58400232 A-TTTAATTATAATTATAT
1 ATTTTAATTA-AATTATAT
58400250 TTAAATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 5 0.17
18 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:58400233 original size:16 final size:16
Alignment explanation
Indices: 58400199--58400251 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
58400189 AATAATAAGA
58400199 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
58400216 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
58400232 A-TTTAATTATAATTAT
1 ATTTTAATTA-AAATAT
58400248 ATTT
1 ATTT
58400252 AAATATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
17 7 0.22
18 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:58400238 original size:15 final size:16
Alignment explanation
Indices: 58400212--58400253 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
58400202 TTATTAAATT
58400212 ATATATTTTAATTA-AA
1 ATATA-TTTAATTATAA
58400228 ATATATTTAATTATAA
1 ATATATTTAATTATAA
*
58400244 TTATATTTAA
1 ATATATTTAA
58400254 ATATGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTTAATTATAA
Found at i:58400262 original size:16 final size:16
Alignment explanation
Indices: 58400229--58400262 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58400219 TTAATTAAAA
*
58400229 TATATTTAATTATAAT
1 TATATTTAAATATAAT
*
58400245 TATATTTAAATATGAT
1 TATATTTAAATATAAT
58400261 TA
1 TA
58400263 AAATATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TATATTTAAATATAAT
Found at i:58400511 original size:16 final size:16
Alignment explanation
Indices: 58400469--58400521 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
58400459 GATTAGCTAT
58400469 TACACCTCTAATCTCAA
1 TACACCTCTAATC-CAA
58400486 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* * *
58400502 TATACTTCTAGTCCAA
1 TACACCTCTAATCCAA
58400518 TACA
1 TACA
58400522 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 19 0.59
17 13 0.41
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58400641 original size:18 final size:18
Alignment explanation
Indices: 58400618--58400656 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
58400608 GGAGCTTTTT
58400618 TTTTTTCACTTCAGGCGC
1 TTTTTTCACTTCAGGCGC
*
58400636 TTTTTTCGCTTCAGGCGC
1 TTTTTTCACTTCAGGCGC
58400654 TTT
1 TTT
58400657 AGGTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.26, G:0.18, T:0.49
Consensus pattern (18 bp):
TTTTTTCACTTCAGGCGC
Found at i:58400797 original size:72 final size:74
Alignment explanation
Indices: 58400645--58400814 Score: 211
Period size: 72 Copynumber: 2.3 Consensus size: 74
58400635 CTTTTTTCGC
* * * * * *
58400645 TTCAGGCGCTTTAGGTTTTTTGGGTCTTGGTAAAGGGTGGGGGAAATAGGATGACGATGAACATG
1 TTCAGGCTCTTTAGGTTTTTCGGGTCTCGGT-AAGAGTGGGAGAAATAGGATGACGAGGAACATG
*
58400710 GAAGGGGCTT
65 GAAGGCGCTT
*
58400720 TTCAGGCTCTTTAGGTTTTTCGGGTCTCGGT-AGAG-GGGAGAAATAGTAT-ATCGAGGAACATG
1 TTCAGGCTCTTTAGGTTTTTCGGGTCTCGGTAAGAGTGGGAGAAATAGGATGA-CGAGGAACATG
**
58400782 GCTGGCGCTT
65 GAAGGCGCTT
58400792 TTCAGGCTCTTTAGGTTTTTCGG
1 TTCAGGCTCTTTAGGTTTTTCGG
58400815 TCTTCGTAGA
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
71 1 0.01
72 52 0.62
73 3 0.04
75 28 0.33
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.32
Consensus pattern (74 bp):
TTCAGGCTCTTTAGGTTTTTCGGGTCTCGGTAAGAGTGGGAGAAATAGGATGACGAGGAACATGG
AAGGCGCTT
Found at i:58404097 original size:51 final size:51
Alignment explanation
Indices: 58404021--58404177 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
58404011 TTCATTTGAC
*
58404021 GAGAAGAAGAAGAAGAAACCAAAGAGTATGGATTGTCTGATTGAGGCAAAA
1 GAGAAGAAGAAGAAGAAGCCAAAGAGTATGGATTGTCTGATTGAGGCAAAA
58404072 GAGAAGAAGAAGAAGAAGCCAAAGAGTATGGATTGTCTGATTGAGGCAAAA
1 GAGAAGAAGAAGAAGAAGCCAAAGAGTATGGATTGTCTGATTGAGGCAAAA
*
58404123 GAGAAGAAGAAGAAGAAGTCAAAGAGTATGGATTGTGC-GATTGAGGCAAAA
1 GAGAAGAAGAAGAAGAAGCCAAAGAGTATGGATTGT-CTGATTGAGGCAAAA
58404174 GAGA
1 GAGA
58404178 TGCACCATGG
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
51 102 0.99
52 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.32, T:0.15
Consensus pattern (51 bp):
GAGAAGAAGAAGAAGAAGCCAAAGAGTATGGATTGTCTGATTGAGGCAAAA
Found at i:58406386 original size:23 final size:23
Alignment explanation
Indices: 58406360--58406408 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
58406350 CAGCAGGATG
*
58406360 AGTTTCACTCTACCTCCACCTCC
1 AGTTTCACTCCACCTCCACCTCC
*
58406383 AGTTTCACTCCACCTCCACCTTC
1 AGTTTCACTCCACCTCCACCTCC
58406406 AGT
1 AGT
58406409 GTTTGATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.45, G:0.06, T:0.31
Consensus pattern (23 bp):
AGTTTCACTCCACCTCCACCTCC
Found at i:58406406 original size:17 final size:17
Alignment explanation
Indices: 58406373--58406406 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58406363 TTCACTCTAC
**
58406373 CTCCACCTCCAGTTTCA
1 CTCCACCTCCACCTTCA
58406390 CTCCACCTCCACCTTCA
1 CTCCACCTCCACCTTCA
58406407 GTGTTTGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.53, G:0.03, T:0.26
Consensus pattern (17 bp):
CTCCACCTCCACCTTCA
Found at i:58416777 original size:13 final size:13
Alignment explanation
Indices: 58416759--58416785 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58416749 CTAATTGACC
58416759 ATACTTTTTTATT
1 ATACTTTTTTATT
58416772 ATACTTTTTTATT
1 ATACTTTTTTATT
58416785 A
1 A
58416786 CAAGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
ATACTTTTTTATT
Found at i:58420002 original size:15 final size:15
Alignment explanation
Indices: 58419982--58420014 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
58419972 TCGTACTTCT
58419982 GAAGAAGAAAT-ACAA
1 GAAGAAG-AATGACAA
58419997 GAAGAAGAATGACAA
1 GAAGAAGAATGACAA
58420012 GAA
1 GAA
58420015 TTATTAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.64, C:0.06, G:0.24, T:0.06
Consensus pattern (15 bp):
GAAGAAGAATGACAA
Found at i:58423644 original size:21 final size:21
Alignment explanation
Indices: 58423620--58423684 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
58423610 AAGTCTAGCT
*
58423620 GAAGCACATAAGTGTTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
58423641 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
58423659 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
58423680 GAAGC
1 GAAGC
58423685 CCAAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 7 0.21
21 13 0.38
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:58423649 original size:39 final size:39
Alignment explanation
Indices: 58423606--58423702 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
58423596 TGATCTAAAA
* * *
58423606 CCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
58423645 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
*
58423684 CCCAAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
58423703 TCATCAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
Found at i:58431508 original size:69 final size:69
Alignment explanation
Indices: 58431336--58431745 Score: 358
Period size: 69 Copynumber: 5.9 Consensus size: 69
58431326 TTATCGTCTA
* * * * * * * *
58431336 TAAAATTAAGGTTCACAGGCGAAGAGCCGTGACCTCCAACACAATTAGTGAGAACAAAGGTCCCA
1 TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCA
*
58431401 GCTG
66 GTTG
* *** *
58431405 TAAAATTAAGGTT--CATAGATGAGGAGTTACGACCTTCAACATAGTTAGTGAGAGCAAAGCTCC
1 TAAAATTAAGGTTCGCA-AG-TGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCC
58431468 CAGTTG
64 CAGTTG
* * * * *
58431474 TAAAATTAAGGTTTGCAAGCGAAGAGCCGTGACCTCCAACATAGTTAGCGAGAGTAAAGCTCCCA
1 TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCA
*
58431539 ATTG
66 GTTG
* * * * * *
58431543 TAAAATTAAGGTTCGTATGTGAAAAGTCGCGACCTTCAACATAGTTAGCT-AGAGTAAAGCTCCC
1 TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAG-TGAGAGCAAAGCTCCC
*
58431607 AGCTG
65 AGTTG
* * * * * * * * * ** * *
58431612 TAAAATTAAGGTTTGTAGGTGAAGAGTCGCGGCGTCCAATACAGATAGCAAGATCAAAGTTCCCA
1 TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCA
58431677 GTTG
66 GTTG
* * * * * *
58431681 TAAAATTAATGTTCACAAGTGAAGAGCCACGGCCTCAAACATAGTTAGTAAGAGCAAAGCTCCCA
1 TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCA
58431746 ACTGTAAGAC
Statistics
Matches: 272, Mismatches: 63, Indels: 12
0.78 0.18 0.03
Matches are distributed among these distances:
67 2 0.01
68 1 0.00
69 265 0.97
70 2 0.01
71 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (69 bp):
TAAAATTAAGGTTCGCAAGTGAAGAGCCGCGACCTCCAACATAGTTAGTGAGAGCAAAGCTCCCA
GTTG
Found at i:58431584 original size:138 final size:135
Alignment explanation
Indices: 58431336--58431752 Score: 449
Period size: 138 Copynumber: 3.0 Consensus size: 135
58431326 TTATCGTCTA
** * * * *
58431336 TAAAATTAAGGTTCACAGGCGAAGAGCCGTGACCTCCAACACAATTAGTGAGAACAAAGGTCCCA
1 TAAAATTAAGGTTTGCAGGCGAAGAGCCGTGACCTCCAACACAGTTAGCGAG-ATAAAGCTCCCA
* * *
58431401 GCTGTAAAATTAAGGTTCATAGATGAGGAGTTACGACCTTCAACATAGTTAGTGAGAGCAAAGCT
65 GTTGTAAAATTAAGGTTCATAG-TGAAGAGTCACGACCTTCAACATAGTTAGT-AGAGCAAAGCT
*
58431466 CCCAGTTG
128 CCCAGCTG
* *
58431474 TAAAATTAAGGTTTGCAAGCGAAGAGCCGTGACCTCCAACATAGTTAGCGAGAGTAAAGCTCCCA
1 TAAAATTAAGGTTTGCAGGCGAAGAGCCGTGACCTCCAACACAGTTAGCGAGA-TAAAGCTCCCA
* * * * *
58431539 ATTGTAAAATTAAGGTTCGTATGTGAAAAGTCGCGACCTTCAACATAGTTAGCTAGAGTAAAGCT
65 GTTGTAAAATTAAGGTTCATA-GTGAAGAGTCACGACCTTCAACATAGTTAG-TAGAGCAAAGCT
58431604 CCCAGCTG
128 CCCAGCTG
* * * * * * * * * *
58431612 TAAAATTAAGGTTTGTAGGTGAAGAGTCGCGGCGTCCAATACAGATAGCAAGATCAAAGTTCCCA
1 TAAAATTAAGGTTTGCAGGCGAAGAGCCGTGACCTCCAACACAGTTAGCGAGAT-AAAGCTCCCA
* * * *
58431677 GTTGTAAAATTAATGTTCACAAGTGAAGAGCCACGGCC-TCAAACATAGTTAGTAAGAGCAAAGC
65 GTTGTAAAATTAAGGTTCA-TAGTGAAGAGTCACGACCTTC-AACATAGTTAGT-AGAGCAAAGC
*
58431741 TCCCAACTG
127 TCCCAGCTG
58431750 TAA
1 TAA
58431753 GACCAAGGTT
Statistics
Matches: 233, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
137 5 0.02
138 225 0.97
139 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (135 bp):
TAAAATTAAGGTTTGCAGGCGAAGAGCCGTGACCTCCAACACAGTTAGCGAGATAAAGCTCCCAG
TTGTAAAATTAAGGTTCATAGTGAAGAGTCACGACCTTCAACATAGTTAGTAGAGCAAAGCTCCC
AGCTG
Found at i:58434637 original size:40 final size:40
Alignment explanation
Indices: 58434576--58434653 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
58434566 AAACCATAAG
* * * *
58434576 GAGAGCTCGCGTAAGCTTCGTAGGAATGAGGTCGCAAGAA
1 GAGAGCTCGAGTAAACCTCGTAGGAACGAGGTCGCAAGAA
*
58434616 GAGAGCTCGAGTAAACCTCGTAGGGACGAGGTCGCAAG
1 GAGAGCTCGAGTAAACCTCGTAGGAACGAGGTCGCAAG
58434654 CCGTATCTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.36, T:0.15
Consensus pattern (40 bp):
GAGAGCTCGAGTAAACCTCGTAGGAACGAGGTCGCAAGAA
Found at i:58435299 original size:3 final size:3
Alignment explanation
Indices: 58435291--58435316 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58435281 CATCTTAGAT
58435291 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
58435317 TTGATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:58436857 original size:21 final size:21
Alignment explanation
Indices: 58436831--58436873 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
58436821 TCTTTTTTCA
58436831 TTTCGGTTCAAATGAAATCCG
1 TTTCGGTTCAAATGAAATCCG
58436852 TTTCGGTTCAAATGAAATCCG
1 TTTCGGTTCAAATGAAATCCG
58436873 T
1 T
58436874 AAATGATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (21 bp):
TTTCGGTTCAAATGAAATCCG
Found at i:58439494 original size:22 final size:22
Alignment explanation
Indices: 58439450--58439496 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
58439440 TTGAATAAGA
* *
58439450 TTAATTTTGAATTGATTCCAAT
1 TTAAATTTGAATTGATTCAAAT
58439472 TTAAATTTGAATT-ATTTCAAAT
1 TTAAATTTGAATTGA-TTCAAAT
58439494 TTA
1 TTA
58439497 TTTGATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (22 bp):
TTAAATTTGAATTGATTCAAAT
Found at i:58454628 original size:18 final size:18
Alignment explanation
Indices: 58454605--58454641 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
58454595 TAGGCTCCTA
58454605 TAGGTTGACTCACATACC
1 TAGGTTGACTCACATACC
58454623 TAGGTTGACTCACATACC
1 TAGGTTGACTCACATACC
58454641 T
1 T
58454642 TCTCAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (18 bp):
TAGGTTGACTCACATACC
Found at i:58466533 original size:16 final size:17
Alignment explanation
Indices: 58466509--58466543 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
58466499 GAATTATAAA
*
58466509 AAATGATTAAAAA-ATT
1 AAATCATTAAAAATATT
58466525 AAATCATTAAAAATATT
1 AAATCATTAAAAATATT
58466542 AA
1 AA
58466544 TTTTCAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATCATTAAAAATATT
Found at i:58468382 original size:11 final size:11
Alignment explanation
Indices: 58468366--58468397 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
58468356 TTAGCATTGT
58468366 CTACTTACTTA
1 CTACTTACTTA
58468377 CTACTTACTTA
1 CTACTTACTTA
58468388 CTACTTACTT
1 CTACTTACTT
58468398 TGGGCAGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (11 bp):
CTACTTACTTA
Found at i:58472404 original size:28 final size:28
Alignment explanation
Indices: 58472369--58472425 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58472359 CATATTATCA
58472369 TTCTTATCCAAGAGATATATCCAAAATC
1 TTCTTATCCAAGAGATATATCCAAAATC
*
58472397 TTCTTATCCAATAGATATATCCAAAATC
1 TTCTTATCCAAGAGATATATCCAAAATC
58472425 T
1 T
58472426 ACTGCAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (28 bp):
TTCTTATCCAAGAGATATATCCAAAATC
Found at i:58476781 original size:9 final size:9
Alignment explanation
Indices: 58476767--58476802 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
58476757 TTTTCAGTAG
58476767 CATCTGTAT
1 CATCTGTAT
*
58476776 CATCTGTAG
1 CATCTGTAT
58476785 CATCTGTAT
1 CATCTGTAT
58476794 CATCTGTAT
1 CATCTGTAT
58476803 AACTCTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (9 bp):
CATCTGTAT
Found at i:58476784 original size:18 final size:18
Alignment explanation
Indices: 58476763--58476801 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
58476753 TCTCTTTTCA
58476763 GTAGCATCTGTATCATCT
1 GTAGCATCTGTATCATCT
58476781 GTAGCATCTGTATCATCT
1 GTAGCATCTGTATCATCT
58476799 GTA
1 GTA
58476802 TAACTCTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (18 bp):
GTAGCATCTGTATCATCT
Found at i:58476897 original size:3 final size:3
Alignment explanation
Indices: 58476889--58476959 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
58476879 TACTTCATAA
*
58476889 TCT TCT TCT TCT TCT TCT TCA TCT TCT TCT TCT T-T ATCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT
*
58476934 TCT TCT TCA TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
58476960 AGGGTAAACG
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 60 0.97
4 1 0.02
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:58476959 original size:18 final size:18
Alignment explanation
Indices: 58476874--58476960 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
58476864 CTTGAAATCG
* * *
58476874 TCTTCTACTTCATAATCT
1 TCTTCTTCTTCTTCATCT
* *
58476892 TCTTCTTCTTCTTCTTCA
1 TCTTCTTCTTCTTCATCT
*
58476910 TCTTCTTCTTCTTTATCT
1 TCTTCTTCTTCTTCATCT
58476928 TCTTCTTCTTCTTCATCT
1 TCTTCTTCTTCTTCATCT
58476946 TCTTCTTCTTCTTCA
1 TCTTCTTCTTCTTCA
58476961 GGGTAAACGT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (18 bp):
TCTTCTTCTTCTTCATCT
Found at i:58486136 original size:27 final size:26
Alignment explanation
Indices: 58486106--58486167 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
58486096 AGATAATTAA
58486106 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
58486133 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
58486160 AATAAAAT
1 AATAAAAT
58486168 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:58489248 original size:33 final size:33
Alignment explanation
Indices: 58489206--58489275 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
58489196 TTGACTACTG
* *
58489206 GGGAGAGTGATGTTGAAAGAGTAGAAACTGATT
1 GGGAGAGTGATATTGAAAGAGTAGAAACTGATA
* * *
58489239 GGGAGAGTGATATTGAAATAGTGGAAGCTGATA
1 GGGAGAGTGATATTGAAAGAGTAGAAACTGATA
58489272 GGGA
1 GGGA
58489276 TGGTGTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.23
Consensus pattern (33 bp):
GGGAGAGTGATATTGAAAGAGTAGAAACTGATA
Found at i:58492487 original size:20 final size:21
Alignment explanation
Indices: 58492459--58492497 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
58492449 AAACAAAAGT
*
58492459 ATGACAATAT-GAAAAATGAA
1 ATGAAAATATGGAAAAATGAA
58492479 ATGAAAATATGGAAAAATG
1 ATGAAAATATGGAAAAATG
58492498 TCTGATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (21 bp):
ATGAAAATATGGAAAAATGAA
Found at i:58493710 original size:189 final size:189
Alignment explanation
Indices: 58493461--58493979 Score: 840
Period size: 189 Copynumber: 2.7 Consensus size: 189
58493451 CTCTGAGAGT
* * * * * *
58493461 AATTCGACCTTTGGGCAACCACTAAGATCCAGATAATGAAGAGATTCCAACTTGATCGATACATT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
* *
58493526 TTTGACCACTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCAAAAGGCAACGACA
66 TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
*
58493591 CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTTCTGGGATTTCTGGA
131 CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
58493650 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
* ** * *
58493715 TTTGACTGCTGAGCCACTCATATTTAAAAGCTGAAGATTACATAGAGATTCGAAAGGCAACGATA
66 TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
* ** *
58493780 CTTTTTCAATTTGAGTGCCAGATAAGTTTAATTTTATTAAGCTTCCTGGGATTTCTGGA
131 CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
*
58493839 AATTTGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
* * *
58493904 TTTGACCGCTGAGCCACTCATTTTTAAGTGCTGAAGATTACATAGGGGGTCGAAAGGCAACGACA
66 TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
58493969 CTTCTTCAATT
131 CTTCTTCAATT
58493980 GGGCAACCAC
Statistics
Matches: 302, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 302 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (189 bp):
AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
Found at i:58499830 original size:16 final size:16
Alignment explanation
Indices: 58499811--58499854 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
58499801 TTCTTATTTC
58499811 TCCTTTCTTTTTCAAT
1 TCCTTTCTTTTTCAAT
* **
58499827 TCCTTTGTTTTTCTTT
1 TCCTTTCTTTTTCAAT
58499843 TCCTTTTCTTTT
1 TCC-TTTCTTTT
58499855 GATTTTCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (16 bp):
TCCTTTCTTTTTCAAT
Found at i:58502697 original size:12 final size:12
Alignment explanation
Indices: 58502680--58502704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58502670 GGTGTTCATT
58502680 CGGTTAACCGAC
1 CGGTTAACCGAC
58502692 CGGTTAACCGAC
1 CGGTTAACCGAC
58502704 C
1 C
58502705 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:58502879 original size:9 final size:9
Alignment explanation
Indices: 58502865--58502907 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
58502855 TTTGGTTAAA
58502865 AATTACCCG
1 AATTACCCG
58502874 AATTACCCG
1 AATTACCCG
58502883 AATTACCCG
1 AATTACCCG
*
58502892 AATTAACCG
1 AATTACCCG
58502901 AATTACC
1 AATTACC
58502908 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:58503540 original size:27 final size:27
Alignment explanation
Indices: 58503509--58503561 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
58503499 ATTTAACCTT
*
58503509 CATAGTAGAGTCAACAGTATAAGTTTC
1 CATAGTAGAGTCAACAGTACAAGTTTC
*
58503536 CATAGTAGAGTCAATAGTACAAGTTT
1 CATAGTAGAGTCAACAGTACAAGTTT
58503562 TCTTCACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (27 bp):
CATAGTAGAGTCAACAGTACAAGTTTC
Found at i:58503870 original size:14 final size:14
Alignment explanation
Indices: 58503851--58503881 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
58503841 AATGTAAAAA
58503851 AATAAAAAAGGGCC
1 AATAAAAAAGGGCC
58503865 AATAAAAAAGGGCC
1 AATAAAAAAGGGCC
58503879 AAT
1 AAT
58503882 TGGTTATGTA
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:0.58, C:0.13, G:0.19, T:0.10
Consensus pattern (14 bp):
AATAAAAAAGGGCC
Found at i:58505081 original size:2 final size:2
Alignment explanation
Indices: 58505076--58505102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58505066 AAAACACACG
58505076 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
58505103 TCTAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58505526 original size:15 final size:16
Alignment explanation
Indices: 58505487--58505534 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
58505477 AATGTTTTAT
*
58505487 TTTATATAATTTATAA
1 TTTATAAAATTTATAA
**
58505503 TACATAAAATTTA-AA
1 TTTATAAAATTTATAA
*
58505518 TTTATAAAATATATAA
1 TTTATAAAATTTATAA
58505534 T
1 T
58505535 ACTACTATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTATAAAATTTATAA
Found at i:58505608 original size:9 final size:9
Alignment explanation
Indices: 58505574--58505625 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 9
58505564 TAATATCGCT
58505574 ATATATAAA
1 ATATATAAA
58505583 AT-TATAAA
1 ATATATAAA
*
58505591 AAATA-AAA
1 ATATATAAA
58505599 ATATATAAA
1 ATATATAAA
*
58505608 AT-TA-ATA
1 ATATATAAA
58505615 ATAT-TAAA
1 ATATATAAA
58505623 ATA
1 ATA
58505626 AAATAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
7 4 0.11
8 22 0.63
9 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATATAAA
Found at i:58505630 original size:16 final size:16
Alignment explanation
Indices: 58505585--58505638 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
58505575 TATATAAAAT
*
58505585 TATAAAAAATAAA-AA
1 TATATAAAATAAATAA
*
58505600 TATATAAAATTAATAA
1 TATATAAAATAAATAA
58505616 TAT-TAAAATAAAATAA
1 TATATAAAAT-AAATAA
58505632 T-TATAAA
1 TATATAAA
58505639 TATATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 18 0.55
16 15 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TATATAAAATAAATAA
Found at i:58506427 original size:22 final size:23
Alignment explanation
Indices: 58506387--58506436 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
58506377 TATAATGACG
58506387 GAAAAATATAATTATTTTATAAA-
1 GAAAAATATAATTATTTTA-AAAT
*
58506410 GAAAAATGTAATTA-TTTAAAAT
1 GAAAAATATAATTATTTTAAAAT
58506432 GAAAA
1 GAAAA
58506437 TTTTACACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 9 0.36
23 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (23 bp):
GAAAAATATAATTATTTTAAAAT
Found at i:58511347 original size:61 final size:61
Alignment explanation
Indices: 58511260--58511430 Score: 193
Period size: 61 Copynumber: 2.8 Consensus size: 61
58511250 GATAAAGAGG
* * * * *
58511260 GTTTAAGGTTTAATAAATTT-GAGGTTTGGGGTTTGATTTTGAGGATAAGGATGATAAGAAG
1 GTTTAAGGTTTAAT-GATTTAGGGGTTTAGGGTTTGATTTTAAGGATAAGGATGATAAGAAA
* * * * *
58511321 GTTTATA-GTTTAATGGTTTAGGGGTTTAAGGATTGATTTTAAGGATAAAGATGATAATAAA
1 GTTTA-AGGTTTAATGATTTAGGGGTTTAGGGTTTGATTTTAAGGATAAGGATGATAAGAAA
* * *
58511382 GTTTAAGGTTTAATGATTTGGGGGTTTAGAGTTTGATTTTAAGGTTAAG
1 GTTTAAGGTTTAATGATTTAGGGGTTTAGGGTTTGATTTTAAGGATAAG
58511431 AATGGTATGT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
60 4 0.04
61 85 0.94
62 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (61 bp):
GTTTAAGGTTTAATGATTTAGGGGTTTAGGGTTTGATTTTAAGGATAAGGATGATAAGAAA
Found at i:58514687 original size:36 final size:36
Alignment explanation
Indices: 58514639--58514710 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
58514629 GAGTGAGACA
58514639 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
* * *
58514675 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
58514711 GCGTATTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (36 bp):
TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:58525645 original size:20 final size:19
Alignment explanation
Indices: 58525620--58525671 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
58525610 AACGTTATAG
58525620 AATATTTTTTAATTTTTTT
1 AATATTTTTTAATTTTTTT
58525639 AAATATTTTTATAA-TTTTTT
1 -AATATTTTT-TAATTTTTTT
*
58525659 AATATTTGTTAAT
1 AATATTTTTTAAT
58525672 ATGACATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 15 0.52
21 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
AATATTTTTTAATTTTTTT
Found at i:58525649 original size:19 final size:18
Alignment explanation
Indices: 58525620--58525671 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
58525610 AACGTTATAG
58525620 AATATTTTTTAATTTTTTT
1 AATA-TTTTTAATTTTTTT
*
58525639 AAATATTTTTATAATTTTTT
1 -AATATTTTTA-ATTTTTTT
58525659 AATATTTGTTAAT
1 AATATTT-TTAAT
58525672 ATGACATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
AATATTTTTAATTTTTTT
Found at i:58525671 original size:10 final size:10
Alignment explanation
Indices: 58525620--58525673 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
58525610 AACGTTATAG
58525620 AATATTTTTT
1 AATATTTTTT
58525630 AAT-TTTTTT
1 AATATTTTTT
58525639 AA-ATATTTTT
1 AATAT-TTTTT
58525649 -ATAATTTTTT
1 AAT-ATTTTTT
*
58525659 AATATTTGTT
1 AATATTTTTT
58525669 AATAT
1 AATAT
58525674 GACATGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 10 0.26
10 24 0.63
11 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
AATATTTTTT
Found at i:58525851 original size:16 final size:15
Alignment explanation
Indices: 58525809--58525865 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
58525799 TGGATAGCTA
58525809 AATTTAAC-AAAAAT
1 AATTTAACTAAAAAT
* *
58525823 AA-ATAAATAAAAACT
1 AATTTAACTAAAAA-T
58525838 AATTTAACTAAAAAAT
1 AATTTAACT-AAAAAT
58525854 AATTTAA-TAAAA
1 AATTTAACTAAAA
58525866 TATATAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 11 0.31
15 4 0.11
16 12 0.34
17 5 0.14
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AATTTAACTAAAAAT
Found at i:58529880 original size:15 final size:15
Alignment explanation
Indices: 58529856--58529885 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58529846 ATATAATTTT
*
58529856 AAAATTTTTAAAGGA
1 AAAATATTTAAAGGA
58529871 AAAATATTTAAAGGA
1 AAAATATTTAAAGGA
58529886 TAATCATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAATATTTAAAGGA
Found at i:58532401 original size:68 final size:67
Alignment explanation
Indices: 58532325--58532501 Score: 173
Period size: 67 Copynumber: 2.6 Consensus size: 67
58532315 CATCATGTGT
* * * *
58532325 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
58532387 ATGTAG
62 ATGTAG
** * *
58532393 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
58532458 AG
66 AG
* * * * *
58532460 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGG
58532502 TACTGAGTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 20 0.22
65 7 0.08
66 21 0.23
67 32 0.34
68 13 0.14
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:58532430 original size:64 final size:64
Alignment explanation
Indices: 58532349--58532532 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
58532339 AGACATTATG
* *
58532349 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
58532413 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58532478 AA
63 AA
* * * *
58532480 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
58532533 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 7 0.07
66 18 0.18
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58537414 original size:27 final size:27
Alignment explanation
Indices: 58537379--58537437 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
58537369 AATTTGCCAT
*
58537379 AAGGCAATCCATTCAGAGTACGCCACA
1 AAGGTAATCCATTCAGAGTACGCCACA
*
58537406 AAGGTAATCCATTTAGAGTACGCCACA
1 AAGGTAATCCATTCAGAGTACGCCACA
58537433 AAGGT
1 AAGGT
58537438 TAACATGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (27 bp):
AAGGTAATCCATTCAGAGTACGCCACA
Found at i:58546910 original size:3 final size:3
Alignment explanation
Indices: 58546895--58546933 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
58546885 ATTGTTTGGT
58546895 TTA TTA TCT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58546934 GTAGTAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 32 0.94
4 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58547386 original size:18 final size:20
Alignment explanation
Indices: 58547363--58547402 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
58547353 CCCCTTTTAC
58547363 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
58547381 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
58547401 AT
1 AT
58547403 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:58549807 original size:50 final size:50
Alignment explanation
Indices: 58549732--58549827 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
58549722 GTGTTAGTGT
*
58549732 AAGCTTCTCAATGATCCGCTTGACACACTCAGCAAGTTGGTAATCTGTAG
1 AAGCTTCTCAATGATCCGCTTGACACACTCAACAAGTTGGTAATCTGTAG
* *
58549782 AAGCTTCTCGATGATTCGCTTGACACACTCAACAAGTTGGTAATCT
1 AAGCTTCTCAATGATCCGCTTGACACACTCAACAAGTTGGTAATCT
58549828 ATAGGGAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (50 bp):
AAGCTTCTCAATGATCCGCTTGACACACTCAACAAGTTGGTAATCTGTAG
Found at i:58551346 original size:25 final size:25
Alignment explanation
Indices: 58551307--58551428 Score: 96
Period size: 23 Copynumber: 5.1 Consensus size: 25
58551297 ACGCCAAGCA
* * * *
58551307 TTATAAAATATGCCACACAAATGTG
1 TTATAATATACGCCACACAAAGGCG
58551332 TTATAATATACG-C-CACAAAGGCG
1 TTATAATATACGCCACACAAAGGCG
*
58551355 TTATAGA-ATACACCACACAAAGGCG
1 TTATA-ATATACGCCACACAAAGGCG
* *
58551380 TTACAATATACG-C-CACAAAGGTG
1 TTATAATATACGCCACACAAAGGCG
* * *
58551403 TTACAAAATACG--TCACAAAGGCG
1 TTATAATATACGCCACACAAAGGCG
58551426 TTA
1 TTA
58551429 CAGAATATGA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
23 49 0.60
24 5 0.06
25 28 0.34
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (25 bp):
TTATAATATACGCCACACAAAGGCG
Found at i:58551348 original size:23 final size:23
Alignment explanation
Indices: 58551322--58551430 Score: 112
Period size: 23 Copynumber: 4.7 Consensus size: 23
58551312 AAATATGCCA
* * *
58551322 CACAAATGTGTTATAATATACGC
1 CACAAAGGCGTTACAATATACGC
* *
58551345 CACAAAGGCGTTATAGA-ATACACC
1 CACAAAGGCGTTACA-ATATAC-GC
58551369 ACACAAAGGCGTTACAATATACGC
1 -CACAAAGGCGTTACAATATACGC
* * *
58551393 CACAAAGGTGTTACAAAATACGT
1 CACAAAGGCGTTACAATATACGC
58551416 CACAAAGGCGTTACA
1 CACAAAGGCGTTACA
58551431 GAATATGACA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
23 51 0.70
24 4 0.05
25 18 0.25
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (23 bp):
CACAAAGGCGTTACAATATACGC
Found at i:58551413 original size:48 final size:46
Alignment explanation
Indices: 58551319--58551447 Score: 134
Period size: 48 Copynumber: 2.8 Consensus size: 46
58551309 ATAAAATATG
* * * * * *
58551319 CCACACAAATGTGTTATAATATACGCCACAAAGGCGTTATAGAATACA
1 CCACACAAAGGCGTTACAATATACGCCACAAAGGTGTTACA-AA-ATA
58551367 CCACACAAAGGCGTTACAATATACGCCACAAAGGTGTTACAAAATA
1 CCACACAAAGGCGTTACAATATACGCCACAAAGGTGTTACAAAATA
** * *
58551413 CGTCACAAAGGCGTTACAGA-ATATGACACAAAGGT
1 CCACACAAAGGCGTTACA-ATATACGCCACAAAGGT
58551448 TTCATAGAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 31 0.44
47 3 0.04
48 36 0.51
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (46 bp):
CCACACAAAGGCGTTACAATATACGCCACAAAGGTGTTACAAAATA
Found at i:58551435 original size:23 final size:23
Alignment explanation
Indices: 58551339--58551446 Score: 110
Period size: 23 Copynumber: 4.6 Consensus size: 23
58551329 GTGTTATAAT
* *
58551339 ATACGCCACAAAGGCGTTATAGA
1 ATACGACACAAAGGCGTTACAGA
*
58551362 ATACACCACACAAAGGCGTTACA-A
1 AT--ACGACACAAAGGCGTTACAGA
* * *
58551386 TATACGCCACAAAGGTGTTACAAA
1 -ATACGACACAAAGGCGTTACAGA
*
58551410 ATACGTCACAAAGGCGTTACAGA
1 ATACGACACAAAGGCGTTACAGA
*
58551433 ATATGACACAAAGG
1 ATACGACACAAAGG
58551447 TTTCATAGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
23 50 0.71
24 2 0.03
25 18 0.26
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.17
Consensus pattern (23 bp):
ATACGACACAAAGGCGTTACAGA
Found at i:58562270 original size:3 final size:3
Alignment explanation
Indices: 58562257--58562289 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
58562247 CATGCGCATG
58562257 AAT AA- AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
58562290 GATACAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:58562279 original size:13 final size:13
Alignment explanation
Indices: 58562261--58562288 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58562251 CGCATGAATA
58562261 AAATAATAATAAT
1 AAATAATAATAAT
58562274 AAATAATAATAAT
1 AAATAATAATAAT
58562287 AA
1 AA
58562289 TGATACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:58562794 original size:19 final size:19
Alignment explanation
Indices: 58562770--58562823 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
58562760 AATCATAACT
58562770 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58562789 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
58562808 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
58562824 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58562819 original size:38 final size:41
Alignment explanation
Indices: 58562747--58562823 Score: 115
Period size: 38 Copynumber: 1.9 Consensus size: 41
58562737 AAATTAAATC
58562747 TCTAAGATTACAAAATCATAACTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATAAC-TCTAAGATTGCATATCATA
*
58562789 TCTAAGATTAC-ATATCAT-A-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATAACTCTAAGATTGCATATC
58562824 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
40 1 0.03
41 6 0.18
42 11 0.32
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (41 bp):
TCTAAGATTACAAAATCATAACTCTAAGATTGCATATCATA
Found at i:58572700 original size:3 final size:3
Alignment explanation
Indices: 58572694--58572726 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58572684 AAAAAAAGGG
58572694 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
58572727 AACAGAGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:58575212 original size:29 final size:29
Alignment explanation
Indices: 58575144--58575212 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
58575134 TGGAAGACTT
58575144 ATTGATTTTT-TTATTTTACAAGGATTTA
1 ATTGATTTTTATTATTTTACAAGGATTTA
* *
58575172 ATT-ATTTTT-TTATTTTTTACGAGGGTTTA
1 ATTGATTTTTATTA--TTTTACAAGGATTTA
58575201 ATTGATTATTTA
1 ATTGATT-TTTA
58575213 AGTACAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 3 0.09
29 16 0.47
30 3 0.09
31 3 0.09
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (29 bp):
ATTGATTTTTATTATTTTACAAGGATTTA
Found at i:58575358 original size:20 final size:20
Alignment explanation
Indices: 58575329--58575366 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58575319 TAAGAAAATA
*
58575329 TAAAAAATTATTAAAATTGT
1 TAAAAAATTATAAAAATTGT
*
58575349 TAAAATATTATAAAAATT
1 TAAAAAATTATAAAAATT
58575367 AAAAATTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TAAAAAATTATAAAAATTGT
Found at i:58575371 original size:18 final size:20
Alignment explanation
Indices: 58575323--58575372 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
58575313 GTTTTTTAAG
58575323 AAAATATAAAAA-ATTATTA
1 AAAATATAAAAATATTATTA
* * *
58575342 AAATTGTTAAAATATTA-TA
1 AAAATATAAAAATATTATTA
58575361 AAAAT-TAAAAAT
1 AAAATATAAAAAT
58575373 TACTAGACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATATAAAAATATTATTA
Found at i:58576080 original size:17 final size:18
Alignment explanation
Indices: 58576040--58576072 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58576030 ATTTTTATTT
58576040 AAAT-TTAATTATAAAAA
1 AAATATTAATTATAAAAA
58576057 AAATATTAA-TATAAAA
1 AAATATTAATTATAAAA
58576073 TTAATATTTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATTAATTATAAAAA
Found at i:58576555 original size:3 final size:3
Alignment explanation
Indices: 58576547--58576585 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
58576537 AAACATTTGG
58576547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58576586 GAGAATGCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:58580312 original size:50 final size:50
Alignment explanation
Indices: 58580237--58580339 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
58580227 CTTAAAGGAA
*
58580237 GAAAACATCACCAAAATCTTTATGCTGGAGTCGAGATTGTCCTGGATGCT
1 GAAAACATCACCAAAATCTTCATGCTGGAGTCGAGATTGTCCTGGATGCT
*
58580287 GAAAACATCACCAAAATCTTCATGCTGGAGTCGGGATTGTCCTGGATGCT
1 GAAAACATCACCAAAATCTTCATGCTGGAGTCGAGATTGTCCTGGATGCT
58580337 GAA
1 GAA
58580340 CCAAGACTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (50 bp):
GAAAACATCACCAAAATCTTCATGCTGGAGTCGAGATTGTCCTGGATGCT
Found at i:58583775 original size:14 final size:14
Alignment explanation
Indices: 58583756--58583783 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58583746 TGCATCTTCC
58583756 CATGCATGAATCTA
1 CATGCATGAATCTA
58583770 CATGCATGAATCTA
1 CATGCATGAATCTA
58583784 TCCAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:58585987 original size:21 final size:19
Alignment explanation
Indices: 58585959--58585999 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
58585949 AACTCTGACC
*
58585959 AGCTCAATTGAGCTCAATTT
1 AGCTCAATTCAGCTC-ATTT
58585979 AGCTACAATTCAGCTCATTT
1 AGCT-CAATTCAGCTCATTT
58585999 A
1 A
58586000 TTTTATTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (19 bp):
AGCTCAATTCAGCTCATTT
Found at i:58607659 original size:20 final size:20
Alignment explanation
Indices: 58607633--58607701 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
58607623 ATTCCAGCAA
*
58607633 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGAG
* * * *
58607653 GGAGCTGACTTGAGCTCAAA
1 TGAGCTGAATTGAGCTCGAG
*
58607673 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
58607693 TGAGCTGAA
1 TGAGCTGAA
58607702 CTGCATGGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:58609479 original size:18 final size:18
Alignment explanation
Indices: 58609426--58609486 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
58609416 TCTCTTTCAA
*
58609426 TTTCTTTTTCAATTTCCT
1 TTTCTTTTTCAATTTCTT
* **
58609444 GTTCTTTAGCAATTTCTT
1 TTTCTTTTTCAATTTCTT
*
58609462 TTTCTTTTTCAATGTCTT
1 TTTCTTTTTCAATTTCTT
58609480 TTTCTTT
1 TTTCTTT
58609487 CATTTCACCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:58609548 original size:36 final size:36
Alignment explanation
Indices: 58609502--58609585 Score: 141
Period size: 36 Copynumber: 2.3 Consensus size: 36
58609492 CACCAAACTT
* *
58609502 ATCTTTTTTTTCAATTTTCTTTTCGTTCTCACACTC
1 ATCTTCTTTTTCAATTTTCTTTTCATTCTCACACTC
*
58609538 ATCTTCTTTTTCAATTTTCTTTTCATTCTCACATTC
1 ATCTTCTTTTTCAATTTTCTTTTCATTCTCACACTC
58609574 ATCTTCTTTTTC
1 ATCTTCTTTTTC
58609586 TTTCATTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.14, C:0.25, G:0.01, T:0.60
Consensus pattern (36 bp):
ATCTTCTTTTTCAATTTTCTTTTCATTCTCACACTC
Found at i:58610692 original size:20 final size:20
Alignment explanation
Indices: 58610667--58610712 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
58610657 AAATAAACTT
*
58610667 TTTTTTGAATTTTTTTTGAA
1 TTTTTTGAATTTTTTTTCAA
*
58610687 TTTTTTGATTTTTTTTTCAA
1 TTTTTTGAATTTTTTTTCAA
58610707 TTTTTT
1 TTTTTT
58610713 TTCACAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTTGAATTTTTTTTCAA
Found at i:58610716 original size:11 final size:11
Alignment explanation
Indices: 58610665--58610714 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
58610655 CAAAATAAAC
58610665 TTTTTTTTGAA
1 TTTTTTTTGAA
58610676 TTTTTTTTGAA
1 TTTTTTTTGAA
*
58610687 --TTTTTTGAT
1 TTTTTTTTGAA
*
58610696 TTTTTTTTCAA
1 TTTTTTTTGAA
58610707 TTTTTTTT
1 TTTTTTTT
58610715 CACAATGACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:58612141 original size:20 final size:20
Alignment explanation
Indices: 58612117--58612183 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
58612107 AAAAGCTCAA
58612117 TGAGCTGAATTGAGCTCATG
1 TGAGCTGAATTGAGCTCATG
* * *
58612137 GGAGCTGACTTGAGGTCGA-G
1 TGAGCTGAATTGAGCTC-ATG
* *
58612157 TGAACTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCATG
58612177 TGAGCTG
1 TGAGCTG
58612184 TACCGCATGG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCATG
Found at i:58615649 original size:20 final size:20
Alignment explanation
Indices: 58615605--58615679 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
58615595 GAGCTAATAA
*
58615605 TGAGCTC-AATGAGCTGAA-T
1 TGAGCTCGAGTGAGCT-AACT
* *
58615624 TCAGCTCGTGTGAGCTAACT
1 TGAGCTCGAGTGAGCTAACT
* *
58615644 TGAGCTCGAATGAACTAACT
1 TGAGCTCGAGTGAGCTAACT
58615664 TGAGCTCGAGTGAGCT
1 TGAGCTCGAGTGAGCT
58615680 GAACCACATG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 8 0.18
20 37 0.82
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (20 bp):
TGAGCTCGAGTGAGCTAACT
Found at i:58617078 original size:20 final size:20
Alignment explanation
Indices: 58617045--58617088 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
58617035 AGCTTAAACG
* *
58617045 AGCTGATTTAAGCTCAAATA
1 AGCTGATTGAAGCTCAAAGA
* *
58617065 AGCTGATTGGAGCTGAAAGA
1 AGCTGATTGAAGCTCAAAGA
58617085 AGCT
1 AGCT
58617089 TGGGAAGCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (20 bp):
AGCTGATTGAAGCTCAAAGA
Found at i:58624310 original size:54 final size:53
Alignment explanation
Indices: 58624244--58624368 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 53
58624234 ACATTAAAAG
* * * *
58624244 TTTAATCCAGCAACTAAGTGAACTAAGTTGAACTTAATTAACTAAGAT-GAGTAA
1 TTTATTCCAGCAACTAA-TGAACAAAGATGAACTCAATTAACTAAG-TCGAGTAA
*
58624298 TTTATTCCAGCAACTTAATTAACAAAGATGAACTCAATTAACTAAGTCGAGTAA
1 TTTATTCCAGCAAC-TAATGAACAAAGATGAACTCAATTAACTAAGTCGAGTAA
*
58624352 TTTATTACAGCAACTAA
1 TTTATTCCAGCAACTAA
58624369 ATACTTATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
53 4 0.06
54 56 0.89
55 3 0.05
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (53 bp):
TTTATTCCAGCAACTAATGAACAAAGATGAACTCAATTAACTAAGTCGAGTAA
Found at i:58626069 original size:22 final size:22
Alignment explanation
Indices: 58626018--58626083 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
58626008 GGTATTTGGG
* *
58626018 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
58626039 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
58626061 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
58626084 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:58633618 original size:11 final size:11
Alignment explanation
Indices: 58633604--58633642 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
58633594 GAACGAGCTC
58633604 ATTGAGCTAGA
1 ATTGAGCTAGA
58633615 ATTGAGCTA-A
1 ATTGAGCTAGA
*
58633625 ATTGAGCTCG-
1 ATTGAGCTAGA
58633635 ATTGAGCT
1 ATTGAGCT
58633643 GGATCGAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAGA
Found at i:58633630 original size:21 final size:20
Alignment explanation
Indices: 58633604--58633642 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
58633594 GAACGAGCTC
58633604 ATTGAGCTAGAATTGAGCTAA
1 ATTGAGCTAG-ATTGAGCTAA
*
58633625 ATTGAGCTCGATTGAGCT
1 ATTGAGCTAGATTGAGCT
58633643 GGATCGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (20 bp):
ATTGAGCTAGATTGAGCTAA
Found at i:58640981 original size:25 final size:27
Alignment explanation
Indices: 58640953--58641002 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
58640943 TTGTTAAAAC
*
58640953 TCTTCTAA-AAAAACTCAAA-AGAAAT
1 TCTTCAAAGAAAAACTCAAAGAGAAAT
*
58640978 TCTTGAAAGAAAAACTCAAAGAGAA
1 TCTTCAAAGAAAAACTCAAAGAGAA
58641003 TTTATTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 11 0.52
27 4 0.19
ACGTcount: A:0.56, C:0.14, G:0.10, T:0.20
Consensus pattern (27 bp):
TCTTCAAAGAAAAACTCAAAGAGAAAT
Done.