Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 6 of 16
Found at i:962408 original size:116 final size:110
Alignment explanation
Indices: 962164--962479 Score: 339
Period size: 116 Copynumber: 2.8 Consensus size: 110
962154 AAAGAAGAGA
**
962164 GCGTCCAGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCA
1 GCGTCCAGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G---ACG--
*
962228 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
59 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
962280 GCTTCCCGCTCTTTGAGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCT
1 GCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCT
*
962345 CTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
66 CTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* * * * * * *
962396 GCGTCCTGCTCTTTGAAGACTAAAAGGTGCCGCCAGCTTGTGTGGACTTTAAAAGGCATCCTGCT
1 GCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCT
* *
962461 TTTTGAGGACAAAAAGGTG
66 CTTTGAGGACTAAAAGGTG
962480 AAAGGAGGGA
Statistics
Matches: 170, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
110 42 0.25
111 2 0.01
112 3 0.02
115 7 0.04
116 116 0.68
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (110 bp):
GCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCT
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:962468 original size:171 final size:171
Alignment explanation
Indices: 962165--962477 Score: 509
Period size: 171 Copynumber: 1.8 Consensus size: 171
962155 AAGAAGAGAG
*
962165 CGTCCAGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATC
1 CGTCCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATC
* * * *
962230 CTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCTTCCCGCTCTTTG
66 CTGCTCTTTGAAGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCCGCTCTTTG
*
962295 AGGACTAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGA
131 AGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGA
* * * *
962336 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
1 CGTCCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATC
* * *
962401 CTGCTCTTTGAAGACTAAAAGGTGCCGCCAGCTTGTGTGGACTTTAAAAGGCATCCTGCTTTTTG
66 CTGCTCTTTGAAGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCCGCTCTTTG
962466 AGGACAAAAAGG
131 AGGACAAAAAGG
962478 TGAAAGGAGG
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
171 129 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (171 bp):
CGTCCAGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACGCATC
CTGCTCTTTGAAGACTAAAAGGTGCCACCAGCTTGTGTGGACTTTAAAAGGCATCCCGCTCTTTG
AGGACAAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGA
Found at i:962633 original size:62 final size:60
Alignment explanation
Indices: 962490--963049 Score: 660
Period size: 62 Copynumber: 9.3 Consensus size: 60
962480 AAAGGAGGGA
* * * *
962490 GCGTCTTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAG
1 GCGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * * *
962551 GTGTCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTCTGGGCTTTAAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAG
* * * *
962613 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAC
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* *
962673 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G--AAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
*
962728 GCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----G--AAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * *
962783 GCATCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAG
* * * *
962845 GCATCCTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * *
962905 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACGAACTCGTGTGGGCTTTAAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAG
* **
962967 GCGTCCTGCTCTTTGAGGATTGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAG
*
963029 GTGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
963050 GGAAGGGCTA
Statistics
Matches: 436, Mismatches: 48, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
54 27 0.06
55 72 0.17
57 1 0.00
59 3 0.01
60 66 0.15
61 115 0.26
62 152 0.35
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
Found at i:962667 original size:122 final size:122
Alignment explanation
Indices: 962490--963055 Score: 768
Period size: 122 Copynumber: 4.7 Consensus size: 122
962480 AAAGGAGGGA
* * *
962490 GCGTCTTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTG
1 GCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
* *
962554 TCCTGCTCTTTGAGGACT-AAAGGTGCCACTAACTCGTCTGGGCTTTAAAAAGAAAAAAG
64 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAG
* *
962613 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTC
* *
962678 CTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G--AAAG
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* * **
962728 GCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCAT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
*
962787 CCTGCTTTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAG
65 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAG
* *
962845 GCATCCTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTC
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTC
*
962910 CTGCTCTTTGAGGACTGAAAGGTGCCACGAACTCGTGTGGGCTTTAAAAAGAAAAAG
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
* * *
962967 GCGTCCTGCTCTTTGAGGATTGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGGTG
1 GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGTG
*
963032 TCCTGCTCTTTGAGGACTGGAAGG
64 TCCTGCTCTTTGAGGACTGAAAGG
963056 GCTAAAAGCG
Statistics
Matches: 391, Mismatches: 32, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
109 27 0.07
110 20 0.05
111 1 0.00
114 1 0.00
115 24 0.06
116 53 0.14
117 22 0.06
118 1 0.00
121 4 0.01
122 124 0.32
123 83 0.21
124 31 0.08
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (122 bp):
GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTC
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAG
Found at i:962725 original size:29 final size:29
Alignment explanation
Indices: 962692--962783 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 29
962682 TCTTTGAGGA
962692 TTGAAAGGTGCCACCAACTTGTGTGGGCT
1 TTGAAAGGTGCCACCAACTTGTGTGGGCT
** ** * * *
962721 TTGAAA-G-GCGTCCTGCTCTCTGAGGAC-
1 TTGAAAGGTGCCACCAACT-TGTGTGGGCT
*
962748 -TAAAAGGTGCCACCAACTTGTGTGGGCT
1 TTGAAAGGTGCCACCAACTTGTGTGGGCT
962776 TTGAAAGG
1 TTGAAAGG
962784 CATCCTGCTT
Statistics
Matches: 42, Mismatches: 16, Indels: 10
0.62 0.24 0.15
Matches are distributed among these distances:
26 4 0.10
27 13 0.31
28 13 0.31
29 12 0.29
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (29 bp):
TTGAAAGGTGCCACCAACTTGTGTGGGCT
Found at i:962854 original size:232 final size:234
Alignment explanation
Indices: 962490--963019 Score: 762
Period size: 232 Copynumber: 2.2 Consensus size: 234
962480 AAAGGAGGGA
* * **
962490 GCGTCTTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTG
1 GCGTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTT-----GAA-AGGCA
* *
962554 TCCTGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCGTCC
59 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCATCC
962619 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTC
124 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTC
* *
962684 TTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAG
189 TTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAGAAAAG
* *
962728 GCGTCCTGCTCTCTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
* * *
962793 TTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTTTT
66 CTTTGAGGACTAAAGGTGCCACCAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTT
* *
962858 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGG
131 TGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTCTTTGAGG
*
962923 ACTGAAAGGTGCCACGAACTCGTGTGGGCTTTAAAAAGAAAAAG
196 ACTGAAAGGTGCCACCAACTCGTGTGGGCTTT----AG-AAAAG
* *
962967 GCGTCCTGCTCTTTGAGGA-TTGGAGGTGCCACCAACTTGTGTGGGCTTTGAAA
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
963020 AGAAAAAAGG
Statistics
Matches: 264, Mismatches: 20, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
232 162 0.61
233 3 0.01
237 3 0.01
238 74 0.28
239 22 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (234 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTCGTCTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTT
TGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAACGTGTCCTGCTCTTTGAGG
ACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAGAAAAG
Found at i:969237 original size:79 final size:79
Alignment explanation
Indices: 969143--969344 Score: 244
Period size: 79 Copynumber: 2.6 Consensus size: 79
969133 AATAACGGGG
* * *
969143 TTGGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGA-TTAC
1 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTAC
*
969207 GAAATAAAATCGAGA
65 GAAATAAAACCGAGA
* * * **
969222 TTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTACG
* * *
969287 GAATAAAGCCGAGG
66 AAATAAAACCGAGA
* ** *
969301 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGAT
1 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGAT
969345 GAAATAACGA
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 103 0.99
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTACG
AAATAAAACCGAGA
Found at i:969425 original size:52 final size:51
Alignment explanation
Indices: 969356--969488 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 51
969346 AAATAACGAG
* * *
969356 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATC-GGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAA-CAGGA
* * *
969408 GTTGGAGTATCCCCGATTAATGGATAATTGGTGTTTTGAAAATAAAACAGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAACAGGA
*
969460 GTTGGAGTATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
969489 AGAAACTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
51 10 0.14
52 50 0.70
53 11 0.15
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACAGGA
Found at i:971354 original size:21 final size:20
Alignment explanation
Indices: 971308--971362 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
971298 GTATCGATAC
*
971308 AATGTATCGATACATGACCA
1 AATGTATCGATACATGACAA
971328 AATGTATCGATACATGA-AA
1 AATGTATCGATACATGACAA
971347 TGAATGTATCGATACA
1 --AATGTATCGATACA
971363 GGTCATTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 17 0.53
21 14 0.44
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACATGACAA
Found at i:971435 original size:32 final size:33
Alignment explanation
Indices: 971394--971461 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
971384 GTAGCCAAAT
* *
971394 TTGTATCGATACA-CACAATATGTATCGGTACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
*
971426 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
971459 TTG
1 TTG
971462 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:973067 original size:20 final size:19
Alignment explanation
Indices: 973042--973117 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
973032 AAACTTCCTA
973042 GATGTATCGATACAAAGA-T
1 GATGTATCGATACAAA-ACT
973061 CGATGTATCGATACAAAACT
1 -GATGTATCGATACAAAACT
* **
973081 TATGTATCGATACATTTACT
1 GATGTATCGATACA-AAACT
973101 GAATGTATCGATACAAA
1 G-ATGTATCGATACAAA
973118 TTATTGAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.30
20 20 0.43
21 13 0.28
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
GATGTATCGATACAAAACT
Found at i:979512 original size:21 final size:20
Alignment explanation
Indices: 979487--979540 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
979477 TTACAAGCCA
979487 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
979507 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
979527 ATGTATCGATACAA
1 ATGTATCGATACAA
979541 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:979610 original size:22 final size:22
Alignment explanation
Indices: 979582--979636 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
979572 CCAATCACCT
**
979582 GTATCGATACAATTTTTTTCAA
1 GTATCGATACAATTTTGGTCAA
*
979604 GTATCGATAC-A-TTTGGTCAT
1 GTATCGATACAATTTTGGTCAA
979624 GTATCGATACAAT
1 GTATCGATACAAT
979637 GTATCGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 16 0.57
21 2 0.07
22 10 0.36
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (22 bp):
GTATCGATACAATTTTGGTCAA
Found at i:980343 original size:19 final size:19
Alignment explanation
Indices: 980309--980347 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
980299 ACCACGCATT
*
980309 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
980329 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
980347 T
1 T
980348 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:987672 original size:27 final size:27
Alignment explanation
Indices: 987615--987755 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
987605 AGTCCATGAT
* *
987615 TCAGTGGCATTTCTTTTCAAAGTCCATAAC
1 TCAGTGGCA--TCTTTT-TAAGTCCACAAC
987645 TCAGTGGCATCTTTTTAAGTCCACAAC
1 TCAGTGGCATCTTTTTAAGTCCACAAC
* * * *
987672 TCCGTGGCACCCTTTTAAGTCCACAGC
1 TCAGTGGCATCTTTTTAAGTCCACAAC
* * *
987699 TTAGTGGCACTCTTTTAAAGTCCACCAC
1 TCAGTGGCA-TCTTTTTAAGTCCACAAC
* * *
987727 TCTGTGGCACCCTTTTAAGTCCACAAC
1 TCAGTGGCATCTTTTTAAGTCCACAAC
987754 TC
1 TC
987756 TGTGACACCC
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
27 56 0.62
28 26 0.29
30 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (27 bp):
TCAGTGGCATCTTTTTAAGTCCACAAC
Found at i:987735 original size:55 final size:56
Alignment explanation
Indices: 987634--987796 Score: 199
Period size: 55 Copynumber: 3.0 Consensus size: 56
987624 TTTCTTTTCA
* * *
987634 AAGTCCATAACTC-AGTGGCA-TCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTAGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCTTTT
* *
987688 AAGTCCACAGCT-TAGTGGCACTCTTTTAAAGTCCACCACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTAGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCTTTT
* * ** * *
987743 AAGTCCACAACTCT-GTGACACCCTTTCGAAGCCCACAAGTCTGTGGCACCCTTT
1 AAGTCCACAACTCTAGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCTTT
987797 CAAAGCCCAC
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
54 17 0.18
55 75 0.81
56 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (56 bp):
AAGTCCACAACTCTAGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:987756 original size:27 final size:27
Alignment explanation
Indices: 987634--987796 Score: 184
Period size: 27 Copynumber: 6.0 Consensus size: 27
987624 TTTCTTTTCA
* * * *
987634 AAGTCCATAACTCAGTGGCATCTTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
*
987661 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
* *
987688 AAGTCCACAGCT-TAGTGGCACTCTTTT
1 AAGTCCACAACTCT-GTGGCACCCTTTT
*
987715 AAAGTCCACCACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCTGTGGCACCCTTTT
* *
987743 AAGTCCACAACTCTGTGACACCCTTTCG
1 AAGTCCACAACTCTGTGGCACCCTTT-T
* *
987771 AAGCCCACAAGTCTGTGGCACCCTTT
1 AAGTCCACAACTCTGTGGCACCCTTT
987797 CAAAGCCCAC
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
27 70 0.60
28 45 0.39
29 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCCTTTT
Found at i:987871 original size:29 final size:28
Alignment explanation
Indices: 987764--988499 Score: 312
Period size: 32 Copynumber: 24.6 Consensus size: 28
987754 TCTGTGACAC
* *
987764 CCTTTCGAAGCCCACAAGTCT-GTGGCAC
1 CCTTTCAAAGCCCACAAGT-TAGTGGCAT
*
987792 CCTTTCAAAGCCCACAAGTTAGTGGTAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
987820 CCTTTTAAAGCCCACGAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
987848 CCTTCTCAAGGCCCACAAGTTAGTGGCAT
1 CCTT-TCAAAGCCCACAAGTTAGTGGCAT
* * *
987877 CCTTCTCAAAGCCAACACAAATCAGTGG-TT
1 CCTT-TCAAAGCC--CACAAGTTAGTGGCAT
* *
987907 CTTTTCAAAGCCCACATAAGTTGGTGGCAATT
1 CCTTTCAAAGCCCAC--AAGTTAGTGGC-A-T
* * * * *
987939 CATTTGAAAGCCTACACATGTTCGTGGCAAC
1 CCTTTCAAAGCC--CACAAGTTAGTGGC-AT
** * *
987970 CCGTTTCAAAGCCCACACAAGTCGGCGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTTAGTGGC-AT
*
988002 CCATTTCAAAGCCCATAAGTTAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTTAGTGGCAT
** ** *
988031 TATTTCAAAGCCCACACAAGTCGGTGGCCT
1 CCTTTCAAAG-CC-CACAAGTTAGTGGCAT
* * **
988061 CATTTGAAAGCCCACACAAGTCGGTGGCAACT
1 CCTTTCAAAG-CC-CACAAGTTAGTGGC-A-T
* * * ** *
988093 CATTTGAAAACCCACACAAATCGATGGCAAT
1 CCTTTCAAAGCCCACA-AGTTAG-TGGC-AT
**
988124 CCATTTCAAAGCCCACACAAGTCGGTGGCAACT
1 CC-TTTCAAAG-CC-CACAAGTTAGTGGC-A-T
* **
988157 CATTT-AAAGGCCCACACAAGTCGGTGGCAACT
1 CCTTTCAAA-G-CC-CACAAGTTAGTGGC-A-T
* * *
988189 CATTTGAAAGCCCACACAAGTCAGTGGCAATT
1 CCTTTCAAAG-CC-CACAAGTTAGTGGC-A-T
* * *
988221 CATTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTTCAAAG-CC-CACAAGTTAGTGGC-AT
* * * *
988252 CCATTTCAAAGCCTAGAGAAG-TCGATGGCACCC
1 CC-TTTCAAAGCC--CACAAGTTAG-TGGCA--T
* * * *
988285 CCTTTCAAAGTCCACAAGTCAGCGGCAC
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
988313 CCTTTTAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
988341 CCTTTCAAAGTCCACAAGTTGGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
988369 CATTTTCAAAGTCCACAAGTCAGTGGCGT
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
** *
988398 CCTTTCAAAATCCACAAGTCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTTAGTGGCA-T
* *
988427 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
988455 CCTTTTCAAAGCCCATAAG-TCGATGGCAT
1 CC-TTTCAAAGCCCACAAGTTAG-TGGCAT
* *
988484 CTTTTTAAAGCCCACA
1 CCTTTCAAAGCCCACA
988500 CAAGTCTATG
Statistics
Matches: 575, Mismatches: 98, Indels: 70
0.77 0.13 0.09
Matches are distributed among these distances:
27 4 0.01
28 148 0.26
29 122 0.21
30 64 0.11
31 30 0.05
32 186 0.32
33 14 0.02
34 7 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTTAGTGGCAT
Found at i:987879 original size:57 final size:57
Alignment explanation
Indices: 987665--988548 Score: 232
Period size: 64 Copynumber: 14.9 Consensus size: 57
987655 CTTTTTAAGT
* * * * * *
987665 CCACAACTCCGTGGCACCCTTT-TAAGTCCAC-AGCTTAGTGGCA-CTCTT-TTAAAGT
1 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAG-TTAGTGGCATC-CTTCTCAAAGC
* * * * * * * *
987720 CCACCACTCTGTGGCACCCTTT-TAAGTCCACAACTCT-GTGACACCCTT-TCGAAGC
1 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGT-TAGTGGCATCCTTCTCAAAGC
* *
987775 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGTATCCTT-TTAAAGC
1 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
* * *
987831 CCACGAGT-TAGTGGCATCCTTCTCAAGGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
1 CCACAAGTCT-GTGGCACCCTT-TCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
* * ** * * * *
987889 CAACACAAATCAGTGG-TTCTTTTCAAAGCCCACATAAGTTGGTGGCAATTCATT-TGAAAGC
1 C--CACAAGTCTGTGGCACCCTTTCAAAGCCCAC--AAGTTAGTGGC-A-TCCTTCTCAAAGC
* ** * *
987950 CTACACATGT-TCGTGGCAACCCGTTTCAAAGCCCACACAAGTCGGCGGCAACCCATT-TCAAAG
1 C--CACAAGTCT-GTGGC-ACCC-TTTCAAAG-CC-CACAAGTTAGTGGC-ATCC-TTCTCAAAG
988013 C
57 C
* *** ** * * *
988014 CCATAAGT-TAGTGGCATTATTTCAAAGCCCACACAAGTCGGTGGCCTCATT-TGAAAGCC
1 CCACAAGTCT-GTGGCACCCTTTCAAAG-CC-CACAAGTTAGTGGCATCCTTCTCAAAG-C
* * * * ** *
988073 CACACAAGTCGGTGGCAACTCATTTGAAAACCCACACAAATCGATGGCAATCCATT-TCAAAGCC
1 C-CACAAGTCTGTGGC-AC-CCTTTCAAAGCCCACA-AGTTAG-TGGC-ATCC-TTCTCAAAG-C
* * ** * *
988137 CACACAAGTCGGTGGCAACTCATTT-AAAGGCCCACACAAGTCGGTGGCAACTCATT-TGAAAGC
1 C-CACAAGTCTGTGGC-AC-CCTTTCAAA-G-CC-CACAAGTTAGTGGC-A-TCCTTCTCAAAG-
988200 C
57 C
* * * * *
988201 CACACAAGTCAGTGGCAATTCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATT-TCAAAGC
1 C-CACAAGTCTGTGGC-A-CCCTTTCAAAG-CC-CACAAGTTAGTGGC-ATCC-TTCTCAAAGC
* * * * * * *
988264 CTAGAGAAGTC-GATGGCACCCCCTTTCAAAGTCCACAAGTCAGCGGCACCCTT-TTAAAGC
1 C--CACAAGTCTG-TGGCA--CCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
* * * * * * *
988324 CCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTTGGTGGCATCATTTTCAAAGT
1 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
* ** ** * * *
988381 CCACAAGTCAGTGGCGTCCTTTCAAAATCCACAAGTCAGTGGCATTCTTTTCAAAGC
1 CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
* * * * * *
988438 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCATAAG-TCGATGGCAT-CTTTTTAAAGCC
1 CCACAAGTCTGTGGCA-CCCTTTCAAAGCCCACAAGTTAG-TGGCATCCTTCTCAAAG-C
* ** *
988496 CACACAAGTCTATGGCAACTTTTTTCAAAGCGTACACAAGTTAGTGGCA-CCTT
1 C-CACAAGTCTGTGGC-AC-CCTTTCAAAGC--CCACAAGTTAGTGGCATCCTT
988549 TTTTTAAAAA
Statistics
Matches: 654, Mismatches: 122, Indels: 99
0.75 0.14 0.11
Matches are distributed among these distances:
55 64 0.10
56 70 0.11
57 106 0.16
58 57 0.09
59 21 0.03
60 79 0.12
61 28 0.04
62 50 0.08
63 15 0.02
64 146 0.22
65 11 0.02
66 7 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (57 bp):
CCACAAGTCTGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGC
Found at i:987949 original size:32 final size:32
Alignment explanation
Indices: 987909--988536 Score: 417
Period size: 32 Copynumber: 20.6 Consensus size: 32
987899 CAGTGGTTCT
* * *
987909 TTTCAAAGCCCACATAAGTTGGTGGCAATTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * *
987941 TTTGAAAGCCTACACATGTTC-GTGGCAACCCG
1 TTTCAAAGCCCACACAAG-TCGGTGGCAACTCA
* *
987973 TTTCAAAGCCCACACAAGTCGGCGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* ** *
988005 TTTCAAAG-CC-CATAAGTTAGTGGC-A-TTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
988033 TTTCAAAGCCCACACAAGTCGGTGGC--CTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
988063 TTTGAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
988095 TTTGAAAACCCACACAAATCGATGGCAA-TCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACT-CA
988127 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
988159 TTT-AAAGGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAA-GCCCACACAAGTCGGTGGCAACTCA
* * *
988191 TTTGAAAGCCCACACAAGTCAGTGGCAATTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
988223 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * * * *
988255 TTTCAAAGCCTAGAGAAGTCGATGGCACCCCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
988287 TTTCAAAG-TC-CACAAGTCAGCGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
988315 TTTTAAAG-CC-CACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
988343 TTTCAAAG-TC-CACAAGTTGGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
988371 TTTTCAAAG-TC-CACAAGTCAGTGGC--GTCC
1 -TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** * * *
988400 TTTCAAA-ATC-CACAAGTCAGTGGC-ATTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
988429 TTTCAAAG-CC-CACAAGTCAGTGGCATC-CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
988458 TTTCAAAG-CC-CATAAGTCGATGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* ** **
988486 TTTTAAAGCCCACACAAGTCTATGGCAACTTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
**
988518 TTTCAAAGCGTACACAAGT
1 TTTCAAAGCCCACACAAGT
988537 TAGTGGCACC
Statistics
Matches: 493, Mismatches: 80, Indels: 46
0.80 0.13 0.07
Matches are distributed among these distances:
28 90 0.18
29 77 0.16
30 69 0.14
31 9 0.02
32 243 0.49
33 5 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
Found at i:988512 original size:30 final size:28
Alignment explanation
Indices: 987615--988499 Score: 208
Period size: 28 Copynumber: 29.9 Consensus size: 28
987605 AGTCCATGAT
* * * *
987615 TCAGTGGCATTTCTTTTCAAAGTCCATAAC
1 TCAGTGGCA--TCTTTTTAAAGCCCACAAG
* *
987645 TCAGTGGCATCTTTTT-AAGTCCACAAC
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * *
987672 TCCGTGGCACCCTTTT-AAGTCCAC-AG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * *
987698 CTTAGTGGCA-CTCTTTTAAAGTCCACCAC
1 -TCAGTGGCATCT-TTTTAAAGCCCACAAG
* * * * *
987727 TCTGTGGCACCCTTTT-AAGTCCACAAC
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * * **
987754 TCTGTGACACCCTTTCGAAGCCCACAAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * *
987782 TCTGTGGCACCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * *
987810 TTAGTGGTATCCTTTTAAAGCCCACGAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * * *
987838 TTAGTGGCATCCTTCTCAAGGCCCACAAG
1 TCAGTGGCAT-CTTTTTAAAGCCCACAAG
* * * *
987867 TTAGTGGCATCCTTCTCAAAGCCAACACAAA
1 TCAGTGGCAT-CTTTTTAAAGCC--CACAAG
* *
987898 TCAGTGG-TTCTTTTCAAAGCCCACATAAG
1 TCAGTGGCATCTTTTTAAAGCCCAC--AAG
** * * *
987927 TTGGTGGCAATTCATTTGAAAGCCTACACATG
1 TCAGTGGC-A-TCTTTTTAAAGCC--CACAAG
* * *
987959 TTC-GTGGCAACCCGTTTCAAAGCCCACACAAG
1 -TCAGTGGC-A-TCTTTTTAAAG-CC-CACAAG
* * * * * *
987991 TCGGCGGCAACCCATTTCAAAGCCCATAAG
1 TCAGTGGC-A-TCTTTTTAAAGCCCACAAG
* *
988021 TTAGTGGCAT-TATTTCAAAGCCCACACAAG
1 TCAGTGGCATCT-TTTTAAAG-CC-CACAAG
* * * *
988051 TCGGTGGCCTCATTTGAAAGCCCACACAAG
1 TCAGTGGCATCTTTTTAAAG-CC-CACAAG
* ** * *
988081 TCGGTGGCAACTCATTTGAAAACCCACACAAA
1 TCAGTGGC-A-TC-TTTTTAAAGCC-CACAAG
* *
988113 TC-GATGGCAATCCATTTCAAAGCCCACACAAG
1 TCAG-TGGC-AT-CTTTTTAAAG-CC-CACAAG
* * *
988145 TCGGTGGCAACTCATTTAAAGGCCCACACAAG
1 TCAGTGGCATCT-TTTTAAA-G-CC-CACAAG
* * *
988177 TCGGTGGCAACTCATTTGAAAGCCCACACAAG
1 TCAGTGGC-A-TCTTTTTAAAG-CC-CACAAG
* *
988209 TCAGTGGCAATTCATTTCAAAGCCCACACAAG
1 TCAGTGGC-A-TCTTTTTAAAG-CC-CACAAG
** * * * * *
988241 TTGGTGGCAACCCATTTCAAAGCCTAGAGAAG
1 TCAGTGGC-A-TCTTTTTAAAGCC--CACAAG
* * * *
988273 TC-GATGGCACCCCCTTTCAAAGTCCACAAG
1 TCAG-TGGCA--TCTTTTTAAAGCCCACAAG
* * *
988303 TCAGCGGCACCCTTTTAAAGCCCACAAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
* * *
988331 TCAGTGGCATCCTTTCAAAGTCCACAAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
** * *
988359 TTGGTGGCATCATTTTCAAAGTCCACAAG
1 TCAGTGGCATC-TTTTTAAAGCCCACAAG
* * * **
988388 TCAGTGGCGTCCTTTCAAAATCCACAAG
1 TCAGTGGCATCTTTTTAAAGCCCACAAG
*
988416 TCAGTGGCATTCTTTTCAAAGCCCACAAG
1 TCAGTGGCA-TCTTTTTAAAGCCCACAAG
* *
988445 TCAGTGGCATCCTTTTCAAAGCCCATAAG
1 TCAGTGGCAT-CTTTTTAAAGCCCACAAG
988474 TC-GATGGCATCTTTTTAAAGCCCACA
1 TCAG-TGGCATCTTTTTAAAGCCCACA
988500 CAAGTCTATG
Statistics
Matches: 694, Mismatches: 119, Indels: 86
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.00
27 69 0.10
28 188 0.27
29 132 0.19
30 68 0.10
31 33 0.05
32 183 0.26
33 15 0.02
34 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (28 bp):
TCAGTGGCATCTTTTTAAAGCCCACAAG
Found at i:988518 original size:30 final size:31
Alignment explanation
Indices: 988428--988551 Score: 100
Period size: 29 Copynumber: 4.1 Consensus size: 31
988418 AGTGGCATTC
* *
988428 TTTTCAAAG-CC-CACAAGTC-AGTGGCATCC
1 TTTTCAAAGCCCACACAAGTCTA-TGGCAACT
* * *
988457 TTTTCAAAG-CC-CATAAGTCGATGGCATCT
1 TTTTCAAAGCCCACACAAGTCTATGGCAACT
988486 TTTT-AAAGCCCACACAAGTCTATGGCAACTT
1 TTTTCAAAGCCCACACAAGTCTATGGCAAC-T
** *
988517 TTTTCAAAGCGTACACAAGT-TAGTGGCACCT
1 TTTTCAAAGCCCACACAAGTCTA-TGGCAACT
988548 TTTT
1 TTTT
988552 TTAAAAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.05
29 31 0.38
30 15 0.19
31 12 0.15
32 19 0.23
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
TTTTCAAAGCCCACACAAGTCTATGGCAACT
Found at i:988722 original size:48 final size:48
Alignment explanation
Indices: 988661--988792 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
988651 GGCACCTTTA
988661 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
** * *
988709 TTAGCTCTTTGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
988757 TTAGCTCGATGTCG-TCGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGCT-AGCCTTGAATCAGCACATTG
988793 GCACTCTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 74 0.99
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:989551 original size:20 final size:20
Alignment explanation
Indices: 989526--989600 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
989516 TTTTACCCAG
*
989526 ATGTATTGATACATTTTTAA
1 ATGTATCGATACATTTTTAA
* * *
989546 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTAA
* *
989566 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTAA
989586 ATGTATCGATACATT
1 ATGTATCGATACATT
989601 CTGTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTAA
Found at i:990825 original size:20 final size:20
Alignment explanation
Indices: 990799--990853 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
990789 CTGCCAATTT
*
990799 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAA
990818 CAATGTATCGATACAA-TGAA
1 C-ATGTATCGATACAATTGAA
990838 CATGTATCGATACAAT
1 CATGTATCGATACAAT
990854 ATATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:993354 original size:13 final size:13
Alignment explanation
Indices: 993336--993395 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
993326 ATAGTAACCC
993336 ATGTATCGATACA
1 ATGTATCGATACA
993349 ATGTATCGATACA
1 ATGTATCGATACA
*
993362 A-G----GA-ATA
1 ATGTATCGATACA
*
993369 TTGTATCGATACA
1 ATGTATCGATACA
993382 ATGTATCGATACA
1 ATGTATCGATACA
993395 A
1 A
993396 GGAATATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
12 3 0.08
13 29 0.78
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:993375 original size:20 final size:20
Alignment explanation
Indices: 993350--993414 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
993340 ATCGATACAA
993350 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
993370 TGTATCGATAC-----A-A-
1 TGTATCGATACAAGGAATAT
993383 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
993403 TGTATCGATACA
1 TGTATCGATACA
993415 TCTGGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 23 0.61
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAGGAATAT
Found at i:993379 original size:33 final size:33
Alignment explanation
Indices: 993337--993414 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
993327 TAGTAACCCA
993337 TGTATCGATACAATGTATCGATACAAGGAATAT
1 TGTATCGATACAATGTATCGATACAAGGAATAT
993370 TGTATCGATACAATGTATCGATACAAGGAATAT
1 TGTATCGATACAATGTATCGATACAAGGAATAT
993403 TGTATCGATACA
1 TGTATCGATACA
993415 TCTGGGTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAGGAATAT
Found at i:1011883 original size:79 final size:79
Alignment explanation
Indices: 1011751--1012158 Score: 392
Period size: 79 Copynumber: 5.2 Consensus size: 79
1011741 TCATCGATCT
* * * * * * *
1011751 TTTTATTTCCAAAATAT-AATTTTCCATC-ATGGGGGACACTCCAACCCCGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACATCAATTTTTCA-CAATCGGGGATACTCCAACCCCATTATTTCTGAGGGG
* *
1011814 ATACTCTAACCTTGA
65 ATACTCCAACCCTGA
* * * * * * *
1011829 TTTTATTTTTAAAAGAGT-AATTTTTCACAATTGGGGATACTCCAATCCTATTATTTTTGAGGAG
1 TTTTATTTCTAAAACA-TCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGG
*
1011893 ATACTCCAACCCTGG
65 ATACTCCAACCCTGA
* * * * * * * * * * *
1011908 TTTTATTTCCAAAACACCGATGTTCCACCATTGAGGATACTCTAACCCCATAATCTTC-GAGAGG
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTAT-TTCTGAGGGG
*
1011972 ATACTCCAACCTTGA
65 ATACTCCAACCCTGA
* * * * *
1011987 CTTTATTTCTAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
*
1012052 TACTCCATCCCTGA
66 TACTCCAACCCTGA
* *
1012066 TTTTATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
* * *
1012131 TACTCTAACCCCGT
66 TACTCCAACCCTGA
*
1012145 TTTTATCTCTAAAA
1 TTTTATTTCTAAAA
1012159 TATTAAACTT
Statistics
Matches: 264, Mismatches: 61, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
78 17 0.06
79 245 0.93
80 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
TACTCCAACCCTGA
Found at i:1012150 original size:158 final size:157
Alignment explanation
Indices: 1011751--1012158 Score: 460
Period size: 158 Copynumber: 2.6 Consensus size: 157
1011741 TCATCGATCT
* * * * * *
1011751 TTTTATTTCCAAAATAT-AATTTTCCATCATGGGGGACACTCCAACCCCGTTATTTCCGAGGGGA
1 TTTTATTTCCAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCATTATTT-CGAGGGGA
* * * * *
1011815 TACTCTAACCTTGATTTTATTTTTAAAAGAGTAATTTTTCACAATTGGGGATACTCCAATCCTAT
65 TACTCTAACCTTGATTTTATTTCTAAAACAGTAATTTTTCACAATCGGGGATACTCCAACCCCAT
* * *
1011880 TATTTTTGAGGAGATACTCCAACCCTGG
130 TATTTCTAAGGAGATACTCCAACCCTGA
* * * * * * *
1011908 TTTTATTTCCAAAACACCGATGTTCCACCATTGAGGATACTCTAACCCCATAATCTTCGAGAGGA
1 TTTTATTTCCAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCATTAT-TTCGAGGGGA
* * * * *
1011973 TACTCCAACCTTGACTTTATTTCTAAAACA-TCGATTTTTCATAATCGGGGATACTCCAACCCCG
65 TACTCTAACCTTGATTTTATTTCTAAAACAGT-AATTTTTCACAATCGGGGATACTCCAACCCCA
* *
1012037 TTATTTCTAAGGGGATACTCCATCCCTGA
129 TTATTTCTAAGGAGATACTCCAACCCTGA
* *
1012066 TTTTATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTCTGAGGGGA
1 TTTTATTTCCAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCATTATTTC-GAGGGGA
** * *
1012131 TACTCTAACCCCGTTTTTATCTCTAAAA
65 TACTCTAACCTTGATTTTATTTCTAAAA
1012159 TATTAAACTT
Statistics
Matches: 205, Mismatches: 42, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
157 19 0.09
158 184 0.90
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (157 bp):
TTTTATTTCCAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCATTATTTCGAGGGGAT
ACTCTAACCTTGATTTTATTTCTAAAACAGTAATTTTTCACAATCGGGGATACTCCAACCCCATT
ATTTCTAAGGAGATACTCCAACCCTGA
Found at i:1013210 original size:20 final size:20
Alignment explanation
Indices: 1013185--1013276 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 20
1013175 CATTTCTATT
1013185 GATACACATGAAAATGTATC
1 GATACACATGAAAATGTATC
* *
1013205 GATACAAATTACAATGTAATGTATC
1 GATACACA-T-GAA---AATGTATC
* *
1013230 GATACAACTTG-CAATGTATC
1 GATAC-ACATGAAAATGTATC
**
1013250 GATACATCATGTGAATGTATC
1 GATACA-CATGAAAATGTATC
1013271 GATACA
1 GATACA
1013277 AGTCATTGGC
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
19 1 0.02
20 23 0.41
21 15 0.27
22 2 0.04
25 14 0.25
26 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
GATACACATGAAAATGTATC
Found at i:1013225 original size:25 final size:25
Alignment explanation
Indices: 1013197--1013247 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1013187 TACACATGAA
1013197 AATGTATCGATACAAATTACAATGT
1 AATGTATCGATACAAATTACAATGT
* *
1013222 AATGTATCGATACAACTTGCAATGT
1 AATGTATCGATACAAATTACAATGT
1013247 A
1 A
1013248 TCGATACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (25 bp):
AATGTATCGATACAAATTACAATGT
Found at i:1013268 original size:21 final size:21
Alignment explanation
Indices: 1013218--1013277 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
1013208 ACAAATTACA
1013218 ATGT-AATGTATCGATACAAC
1 ATGTGAATGTATCGATACAAC
*
1013238 -T-TGCAATGTATCGATACATC
1 ATGTG-AATGTATCGATACAAC
1013258 ATGTGAATGTATCGATACAA
1 ATGTGAATGTATCGATACAA
1013278 GTCATTGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 15 0.44
21 15 0.44
22 2 0.06
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
ATGTGAATGTATCGATACAAC
Found at i:1013372 original size:20 final size:21
Alignment explanation
Indices: 1013322--1013381 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
1013312 TACACACATA
1013322 AGAATGTATCGATACAATTCC
1 AGAATGTATCGATACAATTCC
*
1013343 AAAATGTATCGATAC-A-TCC
1 AGAATGTATCGATACAATTCC
*
1013362 AGAATTGTATCGATATAATT
1 AGAA-TGTATCGATACAATT
1013382 ATCCCAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 15 0.45
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (21 bp):
AGAATGTATCGATACAATTCC
Found at i:1013989 original size:20 final size:19
Alignment explanation
Indices: 1013965--1014039 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
1013955 ACACACTCAG
*
1013965 ATGTATCGATACATGCTGCC
1 ATGTATCGATACATG-TGCA
* *
1013985 TTGTATCGATACATGTTCA
1 ATGTATCGATACATGTGCA
1014004 ATGTATCGATACATG-GACAA
1 ATGTATCGATACATGTG-C-A
1014024 ATTGTATCGATACATG
1 A-TGTATCGATACATG
1014040 AAATTGGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.36
20 16 0.34
21 14 0.30
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATGTGCA
Found at i:1014031 original size:21 final size:21
Alignment explanation
Indices: 1013985--1014123 Score: 87
Period size: 21 Copynumber: 6.7 Consensus size: 21
1013975 ACATGCTGCC
**
1013985 TTGTATCGATACATGTTC-AA
1 TTGTATCGATACATGGACAAA
1014005 -TGTATCGATACATGGACAAA
1 TTGTATCGATACATGGACAAA
1014025 TTGTATCGATACAT-G--AAA
1 TTGTATCGATACATGGACAAA
* * * * * *
1014043 TTGGCAGTAGCTACCCTAT-CACTAT
1 TT-GTA-TCGATA--C-ATGGACAAA
*
1014068 TTTTATCGATACATGGTAC-AA
1 TTGTATCGATACATGG-ACAAA
1014089 -TGTATCGATACATGGACAAA
1 TTGTATCGATACATGGACAAA
1014109 TTGTATCGATACATG
1 TTGTATCGATACATG
1014124 AAATTGGCAG
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
18 5 0.05
19 19 0.21
20 25 0.27
21 29 0.32
22 3 0.03
23 6 0.07
24 1 0.01
25 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGACAAA
Found at i:1014096 original size:20 final size:21
Alignment explanation
Indices: 1014071--1014123 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1014061 TCACTATTTT
1014071 TATCGATACATGGTAC-AA-TG
1 TATCGATACATGG-ACAAATTG
1014091 TATCGATACATGGACAAATTG
1 TATCGATACATGGACAAATTG
1014112 TATCGATACATG
1 TATCGATACATG
1014124 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.06
20 15 0.48
21 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (21 bp):
TATCGATACATGGACAAATTG
Found at i:1014097 original size:84 final size:84
Alignment explanation
Indices: 1013985--1014185 Score: 359
Period size: 84 Copynumber: 2.4 Consensus size: 84
1013975 ACATGCTGCC
*
1013985 TTGTATCGATACAT-GTTCAATGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCA
1 TTGTATCGATACATGGTACAATGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCA
1014049 GTAGCTACCCTATCACTAT
66 GTAGCTACCCTATCACTAT
*
1014068 TTTTATCGATACATGGTACAATGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCA
1 TTGTATCGATACATGGTACAATGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCA
*
1014133 GTAGCTACCCTATCCCTAT
66 GTAGCTACCCTATCACTAT
*
1014152 TTGCATCGATACATGGTACAATGTATCGATACAT
1 TTGTATCGATACATGGTACAATGTATCGATACAT
1014186 TGTATCGATA
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 13 0.12
84 99 0.88
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (84 bp):
TTGTATCGATACATGGTACAATGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCA
GTAGCTACCCTATCACTAT
Found at i:1014189 original size:13 final size:13
Alignment explanation
Indices: 1014168--1014198 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1014158 CGATACATGG
*
1014168 TACAATGTATCGA
1 TACATTGTATCGA
1014181 TACATTGTATCGA
1 TACATTGTATCGA
1014194 TACAT
1 TACAT
1014199 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1016511 original size:481 final size:481
Alignment explanation
Indices: 1015609--1017053 Score: 2809
Period size: 481 Copynumber: 3.0 Consensus size: 481
1015599 AGATGGTGAA
1015609 GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
1 GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
* *
1015674 ATCCCGACACACTATCCTTGGATAAGCTCATAGGTTTACTACTAACCTATGAAATGAAGATTAAG
66 ATCCCGACACACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
1015739 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
131 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
*
1015804 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGACGGCCA
196 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
1015869 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
261 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
1015934 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
326 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
1015999 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
391 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
*
1016064 CATGGAGTGATATTGACTCATCTGAT
456 CATGGAGTGATATTGACTCATCTGAC
*
1016090 GAAGCTACTAAATAGTCTTCCTAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
1 GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
*
1016155 ATCCCGACATACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
66 ATCCCGACACACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
1016220 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
131 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
1016285 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
196 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
1016350 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
261 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
1016415 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
326 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
1016480 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
391 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
1016545 CATGGAGTGATATTGACTCATCTGAC
456 CATGGAGTGATATTGACTCATCTGAC
1016571 GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
1 GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
1016636 ATCCCGACACACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
66 ATCCCGACACACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
1016701 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
131 CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
1016766 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
196 TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
1016831 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
261 GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
1016896 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
326 GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
*
1016961 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGATGGCTA
391 ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
**
1017026 CATGGAGTGATAGCGACTCATCTGAC
456 CATGGAGTGATATTGACTCATCTGAC
1017052 GA
1 GA
1017054 TGATGAAGAA
Statistics
Matches: 953, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
481 953 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (481 bp):
GAAGCTACTAAATAGTCTTCCCAAATCATGGGAAGCCAAAGTCACCGCCATCAAAGAATCCAAGG
ATCCCGACACACTATCCTTGGATGAGCTCATAGGTTCACTACTAACCTATGAAATGAAGATTAAG
CACGCGCATGTGCAAGAACCACCAAGGAAGGCAAGTGTCACCTTCAAGTCAACCATCAAGGACGA
TGAGGATAATAATGATGATGATGGTGACGATGGTGACTCAGATGAAGAGATAGCAATGATGGCCA
GAAGATTTAACAAGTTTTTGAAAATGAAATCAAGAAGGCCACAAAAGAAGGTTATGTTCAAGGGG
GAAACGAGCAAGAAGGACAAGGAACAAATCATATGGTATGAGTGCAAGAAGCCGGGGCATATTAA
ATTTGATTGTCCAAATTTAAAGAAGAAAGGCATGAGCAAACCGAAGAAGAAAGCCATGGTGGCTA
CATGGAGTGATATTGACTCATCTGAC
Found at i:1019251 original size:1 final size:1
Alignment explanation
Indices: 1019245--1019292 Score: 69
Period size: 1 Copynumber: 48.0 Consensus size: 1
1019235 AAAGTGTTTG
***
1019245 AAAAAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1019293 TTTAAATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:1019272 original size:23 final size:23
Alignment explanation
Indices: 1019242--1019287 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1019232 GATAAAGTGT
1019242 TTGAAAAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAAAAA
1019265 TTGAAAAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAAAAA
1019288 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.04, T:0.09
Consensus pattern (23 bp):
TTGAAAAAAAAAAAAAAAAAAAA
Found at i:1019321 original size:21 final size:21
Alignment explanation
Indices: 1019297--1019353 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1019287 AAAAAATTTA
1019297 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1019318 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1019339 AATGTATCGATACAT
1 AATGTATCGATACAT
1019354 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1019433 original size:19 final size:19
Alignment explanation
Indices: 1019409--1019476 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1019399 AATTCAACAA
1019409 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1019428 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1019443 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1019460 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1019477 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1019448 original size:13 final size:13
Alignment explanation
Indices: 1019430--1019454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1019420 ACATAAGTTT
1019430 TGTATCGATACAA
1 TGTATCGATACAA
1019443 TGTATCGATACA
1 TGTATCGATACA
1019455 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1019452 original size:32 final size:32
Alignment explanation
Indices: 1019411--1019473 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1019401 TTCAACAATT
*
1019411 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1019443 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1019474 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1019534 original size:13 final size:13
Alignment explanation
Indices: 1019516--1019541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019506 CATTTTTCTG
1019516 TGTATCGATACAT
1 TGTATCGATACAT
1019529 TGTATCGATACAT
1 TGTATCGATACAT
1019542 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1019538 original size:33 final size:33
Alignment explanation
Indices: 1019496--1019562 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1019486 GCCAAGGAAA
***
1019496 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1019529 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1019562 T
1 T
1019563 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1022084 original size:28 final size:27
Alignment explanation
Indices: 1022017--1022089 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1022007 CTTCACGATC
* **
1022017 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1022044 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1022072 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1022090 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.37, G:0.22, T:0.18
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1022222 original size:78 final size:79
Alignment explanation
Indices: 1022043--1022244 Score: 219
Period size: 78 Copynumber: 2.6 Consensus size: 79
1022033 CGTTAATCAT
* * *
1022043 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * * *
1022108 TGATTTCTCATAAT
66 CGATTCCTCACAAC
* * * * ** *
1022122 TGGGGGTACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
1022185 TCGATTCCTCACAAC
65 TCGATTCCTCACAAC
* * * *
1022200 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
1022245 TGTTATTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 57 0.56
79 41 0.41
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTCCTCACAAC
Found at i:1034667 original size:7 final size:7
Alignment explanation
Indices: 1034650--1034686 Score: 53
Period size: 6 Copynumber: 5.7 Consensus size: 7
1034640 ACCTTCTCTT
1034650 CAAAAAA
1 CAAAAAA
1034657 -AAAAAA
1 CAAAAAA
1034663 C-AAAAA
1 CAAAAAA
1034669 -AAAAAA
1 CAAAAAA
1034675 CAAAAAA
1 CAAAAAA
1034682 CAAAA
1 CAAAA
1034687 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 16 0.59
7 11 0.41
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:1034669 original size:12 final size:12
Alignment explanation
Indices: 1034652--1034696 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
1034642 CTTCTCTTCA
1034652 AAAAAAAAAAAC
1 AAAAAAAAAAAC
1034664 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
1034676 AAAAAACAAAAC
1 AAAAAAAAAAAC
1034688 AAAGAAAAA
1 AAA-AAAAA
1034697 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1034679 original size:19 final size:18
Alignment explanation
Indices: 1034651--1034696 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
1034641 CCTTCTCTTC
1034651 AAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAACAAAAA
1034669 AAAAAACAAAAAACAAAACA
1 AAAAAA-AAAAAACAAAA-A
1034689 AAGAAAAA
1 AA-AAAAA
1034697 GAGAGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.24
19 11 0.44
20 4 0.16
21 4 0.16
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAACAAAAA
Found at i:1035763 original size:55 final size:55
Alignment explanation
Indices: 1035678--1036300 Score: 944
Period size: 55 Copynumber: 11.3 Consensus size: 55
1035668 TCCGCTTTTT
*
1035678 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1035733 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
1035788 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1035843 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1035898 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
1035953 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1036008 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1036063 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1036118 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1036173 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
1036228 ATTCCCCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1036283 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1036301 TACAATTTAT
Statistics
Matches: 533, Mismatches: 18, Indels: 34
0.91 0.03 0.06
Matches are distributed among these distances:
53 4 0.01
54 13 0.02
55 501 0.94
56 11 0.02
57 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1036291 original size:165 final size:165
Alignment explanation
Indices: 1035678--1036276 Score: 1094
Period size: 165 Copynumber: 3.6 Consensus size: 165
1035668 TCCGCTTTTT
1035678 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1035743 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
66 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
1035808 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
131 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1035843 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1035908 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
66 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
1035973 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
131 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1036008 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* *
1036073 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACA
66 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
*
1036138 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
131 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * *
1036173 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCATTCCCCAAA
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* *
1036238 GAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
66 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1036277 CTTTTTACTC
Statistics
Matches: 424, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
164 5 0.01
165 419 0.99
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (165 bp):
AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTGTCCAGTCCTCAAAGAGCAGGACA
CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1036873 original size:1 final size:1
Alignment explanation
Indices: 1036867--1036899 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
1036857 AAAGTGTTTG
1036867 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1036900 TTTAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1036928 original size:21 final size:21
Alignment explanation
Indices: 1036904--1036960 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1036894 AAAAAATTTA
1036904 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1036925 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1036946 AATGTATCGATACAT
1 AATGTATCGATACAT
1036961 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1037040 original size:19 final size:19
Alignment explanation
Indices: 1037016--1037083 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1037006 AATTCAACAA
1037016 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1037035 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1037050 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1037067 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1037084 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1037055 original size:13 final size:13
Alignment explanation
Indices: 1037037--1037061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1037027 ACATAAGTTT
1037037 TGTATCGATACAA
1 TGTATCGATACAA
1037050 TGTATCGATACA
1 TGTATCGATACA
1037062 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1037059 original size:32 final size:32
Alignment explanation
Indices: 1037018--1037080 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1037008 TTCAACAATT
*
1037018 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1037050 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1037081 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1037141 original size:13 final size:13
Alignment explanation
Indices: 1037123--1037148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1037113 CATTTTTCTG
1037123 TGTATCGATACAT
1 TGTATCGATACAT
1037136 TGTATCGATACAT
1 TGTATCGATACAT
1037149 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1037145 original size:33 final size:33
Alignment explanation
Indices: 1037103--1037169 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1037093 GCCAAGGAAA
***
1037103 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1037136 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1037169 T
1 T
1037170 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1039606 original size:28 final size:27
Alignment explanation
Indices: 1039539--1039611 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1039529 CTTCACGATC
* **
1039539 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1039566 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1039594 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1039612 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.37, G:0.22, T:0.18
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1039744 original size:78 final size:79
Alignment explanation
Indices: 1039565--1039766 Score: 219
Period size: 78 Copynumber: 2.6 Consensus size: 79
1039555 CGTTAATCAT
* * *
1039565 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * * *
1039630 TGATTTCTCATAAT
66 CGATTCCTCACAAC
* * * * ** *
1039644 TGGGGGTACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
1039707 TCGATTCCTCACAAC
65 TCGATTCCTCACAAC
* * * *
1039722 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
1039767 TGTTATTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 57 0.56
79 41 0.41
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTCCTCACAAC
Found at i:1042799 original size:19 final size:19
Alignment explanation
Indices: 1042773--1042813 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1042763 TTGATGTTTT
1042773 TTATGTTGTATGAT-TGAA
1 TTATGTTGTATGATATGAA
*
1042791 TTATGGTTGTTTGATATGAA
1 TTAT-GTTGTATGATATGAA
1042811 TTA
1 TTA
1042814 GGGTCTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (19 bp):
TTATGTTGTATGATATGAA
Found at i:1044855 original size:15 final size:16
Alignment explanation
Indices: 1044824--1044863 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
1044814 GGGAGAAGAT
1044824 AATTGTTTAAGGGGGAG
1 AATT-TTTAAGGGGGAG
1044841 AATTTTTAA-GGGGAG
1 AATTTTTAAGGGGGAG
1044856 AATTTTTA
1 AATTTTTA
1044864 CATAAAGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.61
16 5 0.22
17 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (16 bp):
AATTTTTAAGGGGGAG
Found at i:1044888 original size:58 final size:58
Alignment explanation
Indices: 1044800--1044915 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
1044790 AATAAATTTT
* *
1044800 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAATTTTTAAGGGGAGAA
1 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGAGAGAATTTTTAAGGAGAGAA
1044858 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGAGAGAATTTTTAAGGAGAGAA
1 TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGAGAGAATTTTTAAGGAGAGAA
1044916 AAACGAAAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (58 bp):
TTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGAGAGAATTTTTAAGGAGAGAA
Found at i:1044914 original size:17 final size:17
Alignment explanation
Indices: 1044824--1044915 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 17
1044814 GGGAGAAGAT
*
1044824 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGAGAG
1044841 AATT-TTTAAGGG-GAG
1 AATTGTTTAAGGGAGAG
*
1044856 AATTTTTACATAAAGGGGGAGAAG
1 AATTGTT---T-AA--GGGAG-AG
1044880 ATAATTGTTTAAGGGAGAG
1 --AATTGTTTAAGGGAGAG
1044899 AATT-TTTAA-GGAGAG
1 AATTGTTTAAGGGAGAG
1044914 AA
1 AA
1044916 AAACGAAAAC
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
15 15 0.24
16 15 0.24
17 8 0.13
19 3 0.05
20 7 0.11
22 5 0.08
23 2 0.03
24 2 0.03
26 6 0.10
ACGTcount: A:0.38, C:0.01, G:0.32, T:0.29
Consensus pattern (17 bp):
AATTGTTTAAGGGAGAG
Found at i:1045590 original size:97 final size:97
Alignment explanation
Indices: 1045462--1045648 Score: 329
Period size: 97 Copynumber: 1.9 Consensus size: 97
1045452 TAATGTATCG
* *
1045462 ATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTATTTGTATCAA
1 ATACATGGACAAATTGTATCAATACACGAAATTGGCAGTAGCTACCCTATCACTATTTGTATCAA
*
1045527 TACATGGTAGAATGTATCGATACATTGAATCA
66 TACATGGTACAATGTATCGATACATTGAATCA
* *
1045559 ATACATGGACAGATTGTATCAATACACGAAATTGGCAGTAGCTACCCTATCACTATTTGTATCGA
1 ATACATGGACAAATTGTATCAATACACGAAATTGGCAGTAGCTACCCTATCACTATTTGTATCAA
1045624 TACATGGTACAATGTATCGATACAT
66 TACATGGTACAATGTATCGATACAT
1045649 GAAGAAATGT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (97 bp):
ATACATGGACAAATTGTATCAATACACGAAATTGGCAGTAGCTACCCTATCACTATTTGTATCAA
TACATGGTACAATGTATCGATACATTGAATCA
Found at i:1045641 original size:20 final size:19
Alignment explanation
Indices: 1045616--1045668 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1045606 TATCACTATT
1045616 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1045636 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1045656 TGTATCGATACAT
1 TGTATCGATACAT
1045669 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1047443 original size:20 final size:20
Alignment explanation
Indices: 1047418--1047472 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1047408 TTTTATCGAG
* *
1047418 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATAA
*
1047438 ATGTATCGATACATGTATAA
1 ATGTATCGATACATTTATAA
1047458 ATGTATCGATACATT
1 ATGTATCGATACATT
1047473 CTATCCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:1047494 original size:51 final size:49
Alignment explanation
Indices: 1047438--1047576 Score: 161
Period size: 51 Copynumber: 2.7 Consensus size: 49
1047428 ACATTTTTCA
*
1047438 ATGTATCGATACATGTATAAATGTATCGATACATTCTATCCTTTTCCCCAG
1 ATGTATCGATACAT-TATAAATGTATCGATAC-TTCTATCCTTTTACCCAG
* * * **
1047489 ATGTATCGATACATTCTTTAATGCATCGATACCTTCTATTTTTTTACCCAG
1 ATGTATCGATACATT-ATAAATGTATCGATA-CTTCTATCCTTTTACCCAG
* *
1047540 ATGTATCGATACATTATTCAATGTATCAATACTTCTA
1 ATGTATCGATACATTA-TAAATGTATCGATACTTCTA
1047577 GTTAAAATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
50 7 0.09
51 67 0.89
52 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (49 bp):
ATGTATCGATACATTATAAATGTATCGATACTTCTATCCTTTTACCCAG
Found at i:1049868 original size:27 final size:27
Alignment explanation
Indices: 1049830--1049898 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
1049820 TGTCATCATC
1049830 GGGGATACTCTAACCCCATTCCTCCGA
1 GGGGATACTCTAACCCCATTCCTCCGA
1049857 GGGGATACTCTAACCCCATTCCTCCGA
1 GGGGATACTCTAACCCCATTCCTCCGA
*
1049884 GGGGATACTCCAACC
1 GGGGATACTCTAACC
1049899 TTGTTTTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.20
Consensus pattern (27 bp):
GGGGATACTCTAACCCCATTCCTCCGA
Found at i:1055904 original size:22 final size:22
Alignment explanation
Indices: 1055876--1055920 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1055866 GAGTTTGGGA
1055876 TAGGTTAAGGACCAAACATTGC
1 TAGGTTAAGGACCAAACATTGC
1055898 TAGGTTAAGGACCAAACATTGC
1 TAGGTTAAGGACCAAACATTGC
1055920 T
1 T
1055921 GCTAACCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (22 bp):
TAGGTTAAGGACCAAACATTGC
Found at i:1063094 original size:20 final size:19
Alignment explanation
Indices: 1063065--1063103 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1063055 AGGTCAAAAC
*
1063065 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCAATACA
1063084 CCTTCAAATGTATCAATACA
1 CCTT-AAATGTATCAATACA
1063104 TAATGCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCAATACA
Found at i:1063131 original size:13 final size:13
Alignment explanation
Indices: 1063113--1063137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1063103 ATAATGCACA
1063113 GTATCGATACATT
1 GTATCGATACATT
1063126 GTATCGATACAT
1 GTATCGATACAT
1063138 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1063456 original size:72 final size:72
Alignment explanation
Indices: 1063332--1063480 Score: 280
Period size: 72 Copynumber: 2.1 Consensus size: 72
1063322 GGGGATTTCT
*
1063332 ATGGCATAATGGGAAGTGTGTTGATTAAAAGGGGAAGATCAGTAGATAAATCGCCCATTTAATTG
1 ATGGTATAATGGGAAGTGTGTTGATTAAAAGGGGAAGATCAGTAGATAAATCGCCCATTTAATTG
1063397 ATCTTCA
66 ATCTTCA
*
1063404 ATGGTATAATGGGAAGTGTGTTGATTAAAAGGGGAAGATCAGTAGATGAATCGCCCATTTAATTG
1 ATGGTATAATGGGAAGTGTGTTGATTAAAAGGGGAAGATCAGTAGATAAATCGCCCATTTAATTG
1063469 ATCTTCA
66 ATCTTCA
1063476 ATGGT
1 ATGGT
1063481 CACTATGATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (72 bp):
ATGGTATAATGGGAAGTGTGTTGATTAAAAGGGGAAGATCAGTAGATAAATCGCCCATTTAATTG
ATCTTCA
Found at i:1066549 original size:32 final size:32
Alignment explanation
Indices: 1066511--1066596 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
1066501 AACTTCGTAG
*
1066511 CGATACATTATATCGATGCAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* * *
1066543 CGATACATTGTATCGATACCACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* *
1066575 CGATACATTTTATTGATACAAA
1 CGATACATTATATCGATACAAA
1066597 TCGTTGAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:1068812 original size:13 final size:12
Alignment explanation
Indices: 1068786--1068893 Score: 76
Period size: 13 Copynumber: 8.4 Consensus size: 12
1068776 CCTTCGAACC
*
1068786 AAAAAAA-AACA
1 AAAAAAACAAAA
**
1068797 AAAAAATTAAAA
1 AAAAAAACAAAA
1068809 AAAAAAACAAAGA
1 AAAAAAACAAA-A
1068822 AAAAAAACAAATA
1 AAAAAAACAAA-A
1068835 AAATAGAAACAGAAA
1 AAA-A-AAACA-AAA
1068850 AAACCAAAAGCAAAA
1 AAA--AAAA-CAAAA
*
1068865 AAATAAA-AAAA
1 AAAAAAACAAAA
*
1068876 AAAAGAACAAACA
1 AAAAAAACAAA-A
1068889 AAAAA
1 AAAAA
1068894 GGGGTCCAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
11 15 0.19
12 15 0.19
13 24 0.31
14 1 0.01
15 18 0.23
16 5 0.06
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.05
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1070173 original size:28 final size:28
Alignment explanation
Indices: 1070162--1070540 Score: 381
Period size: 28 Copynumber: 13.4 Consensus size: 28
1070152 ATAGGTCACG
1070162 GGCATCCTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
*
1070190 GGCA-CCTTTTCAAAGCCCACAAGTTAGT
1 GGCATCC-TTTCAAAGCCCACAAGTCAGT
*
1070218 GGCATCCTTTCAAAGCCTACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
**
1070246 GGCAT-CTCTTCAAAAGAGCACAAGTCAGT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGT
*
1070275 GGCATCCTTTCAAAGCCCACAAATCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
* *
1070303 GGCACCCTTCTAAAAGCCCACAAGTCAGT
1 GGCATCCTT-TCAAAGCCCACAAGTCAGT
*
1070332 GGCACCCTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
* * * *
1070360 GGCACCCTTTAAAAGCCCACACAAATTAGT
1 GGCATCCTTTCAAAG-CC-CACAAGTCAGT
* * * *
1070390 GGCACCCTTCCAAAGCCCATAAGTTAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
* * *
1070418 GGCACCCTTTTAAGGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
* *
1070446 GGAACCCTTTCAAAGCCCACAAGTCAGT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
* * * * * *
1070474 GGCA-CC-CTCAATGCCTATAAATCAAT
1 GGCATCCTTTCAAAGCCCACAAGTCAGT
*
1070500 GGCATATCCTTTCAAAGCCCACACAAGTTAGT
1 GGC--ATCCTTTCAAAG-CC-CACAAGTCAGT
1070532 GGCA-CCTTT
1 GGCATCCTTT
1070541 TTTTAAAAAA
Statistics
Matches: 295, Mismatches: 42, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
26 17 0.06
27 6 0.02
28 170 0.58
29 61 0.21
30 30 0.10
31 2 0.01
32 9 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
GGCATCCTTTCAAAGCCCACAAGTCAGT
Found at i:1070290 original size:57 final size:56
Alignment explanation
Indices: 1070162--1070481 Score: 408
Period size: 57 Copynumber: 5.6 Consensus size: 56
1070152 ATAGGTCACG
* * *
1070162 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTTAGT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC-CTTCAAAAGCCCACAAGTCAGT
* * * **
1070218 GGCATCCTTTCAAAGCCTACAAGTCAGTGGCATCTCTTCAAAAGAGCACAAGTCAGT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTCAAAAGCCCACAAGTCAGT
* *
1070275 GGCATCCTTTCAAAGCCCACAAATCAGTGGCACCCTTCTAAAAGCCCACAAGTCAGT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC-AAAAGCCCACAAGTCAGT
* * *
1070332 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACACAAATTAGT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAG-CC-CACAAGTCAGT
* * * ** *
1070390 GGCACCCTTCCAAAGCCCATAAGTTAGTGGCACCCTTTTAAGGCCCACAAGTCAGT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCCCACAAGTCAGT
*
1070446 GGAACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1070482 CAATGCCTAT
Statistics
Matches: 232, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
56 85 0.37
57 100 0.43
58 47 0.20
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (56 bp):
GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCCCACAAGTCAGT
Found at i:1070354 original size:114 final size:112
Alignment explanation
Indices: 1070162--1070537 Score: 445
Period size: 114 Copynumber: 3.3 Consensus size: 112
1070152 ATAGGTCACG
* * * *
1070162 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
* * *
1070227 TCAAAGCCTACAAGTCAGTGGCATCTCTTCAAAAG-AGCACAAGTCAGT
66 TCAAAGCCCACAAGTCAGTGGCA-CCCTTCAAAAGCA-CACAAATCAGT
*
1070275 GGCATCCTTTCAAAGCCCACAAATCAGTGGCACCCTTCTAAAAGCCCACAAGTCAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT-TAAAAGCCCACAAGTCAGTGGCACCCT
* *
1070340 TTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACACAAATTAGT
65 TTCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAG--CACACAAATCAGT
* * * * * * *
1070390 GGCACCCTTCCAAAGCCCATAAGTTAGTGGCACCCTTTTAAGGCCCACAAGTCAGTGGAACCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
* * *
1070455 TCAAAGCCCACAAGTCAGTGGCACCC-TC-AATGC-CTATAAATCAAT
66 TCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCAC-ACAAATCAGT
*
1070500 GGCATATCCTTTCAAAGCCCACACAAGTTAGTGGCACC
1 GGC--ATCCTTTCAAAG-CC-CACAAGTCAGTGGCACC
1070538 TTTTTTTAAA
Statistics
Matches: 228, Mismatches: 26, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
109 1 0.00
110 11 0.05
112 13 0.06
113 47 0.21
114 114 0.50
115 41 0.18
116 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (112 bp):
GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCACCCTT
TCAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCACACAAATCAGT
Found at i:1070461 original size:142 final size:142
Alignment explanation
Indices: 1070167--1070537 Score: 462
Period size: 142 Copynumber: 2.6 Consensus size: 142
1070157 TCACGGGCAT
* *
1070167 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * * * *
1070232 G-CC-TACAAGTCAGTGGCATCTCTTCAAAAGAGCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
66 GCCCACACAAGTTAGTGGCA-CCCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
1070295 AAATCAGTGGCAC
130 AAATCAGTGGAAC
* * *
1070308 CCTTCTAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTAAA
1 CCTT-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * * * * * *
1070373 AGCCCACACAAATTAGTGGCACCCTTCCAAAGCCCATAAGTTAGTGGCACCCTTTTAAGGCCCAC
65 AGCCCACACAAGTTAGTGGCACCCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
1070438 AAGTCAGTGGAAC
130 AAATCAGTGGAAC
* * * * *
1070451 CCTTTCAAAGCCCACAAGTCAGTGGCACCC--TCAATGCCTATAAATCAATGGCATATCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ATCCTTTCA
1070514 AAGCCCACACAAGTTAGTGGCACC
64 AAGCCCACACAAGTTAGTGGCACC
1070538 TTTTTTTAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
140 17 0.09
141 4 0.02
142 112 0.57
143 52 0.26
144 12 0.06
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (142 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
GCCCACACAAGTTAGTGGCACCCTTCAAAAGACCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
AATCAGTGGAAC
Found at i:1070682 original size:45 final size:47
Alignment explanation
Indices: 1070618--1070735 Score: 141
Period size: 49 Copynumber: 2.5 Consensus size: 47
1070608 AAGTCCCATA
* *
1070618 TCGCTGGCATTGAATCAGCATATTGG-CACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAATG
* * *
1070663 TCGCTAGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CATTAGCCCAATG
**
1070712 TCGCTGGCCTTGAATTGGCACATT
1 TCGCTGGCCTTGAATCAGCACATT
1070736 AGCACTCCTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 23 0.38
47 6 0.10
49 32 0.52
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAATG
Found at i:1071756 original size:457 final size:457
Alignment explanation
Indices: 1070902--1072272 Score: 2512
Period size: 457 Copynumber: 3.0 Consensus size: 457
1070892 TCAGCAACGG
* * *
1070902 CCAAAGAAGGGAAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATTAGGCCATCTTTGATT
1 CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
* *
1070967 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTATTTTAATTTGGACTTATTTG-AAAAAATA
66 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
* *
1071031 CAACAAAAAAAGAGAAAAATGGGGATGCAAAACGACGACTT-CCTAGAAGGTTATCCATCATAGT
131 CAACAAAAAAA-AGAAAAATGGGGATGCAAAACGACGACTTCCCTAG-AGGTTACCCATCCTAGT
* *
1071095 ACTAATCTCACCCAAGCACGCTTAACTACAGAGTTCTGATAGGATCCAGTGCATTAGTGCTGGTA
194 ACTAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTA
1071160 TGATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGA
259 TGATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGA
*
1071225 CCAATCTTTAGCACCCCAATGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACAT
324 CCAATCTTTAGCACCCCAAGGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACAT
1071290 CGCCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTC
389 CGCCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTC
1071355 AAAT
454 AAAT
1071359 CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
1 CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
1071424 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
66 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
1071489 CAACAAAAAAAAGAAAAATGGGGATGCAAAACGACGACTTCCCTAGAGGTTACCCATCCTAGTAC
131 CAACAAAAAAAAGAAAAATGGGGATGCAAAACGACGACTTCCCTAGAGGTTACCCATCCTAGTAC
1071554 TAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTATG
196 TAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTATG
1071619 ATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGACC
261 ATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGACC
*
1071684 AATCTTTAGCACCCCAAGGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACATTG
326 AATCTTTAGCACCCCAAGGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACATCG
1071749 CCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTCAA
391 CCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTCAA
1071814 AT
456 AT
1071816 CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
1 CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
1071881 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
66 TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
1071946 CAACAAAAAAAAGAAAAATGGGGATGCAAAACGACGACTTCCCTAGAGGTTACCCATCCTAGTAC
131 CAACAAAAAAAAGAAAAATGGGGATGCAAAACGACGACTTCCCTAGAGGTTACCCATCCTAGTAC
1072011 TAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTATG
196 TAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTATG
* * *
1072076 ATCGCACCCATCCCTTATTGCAAGAACAATCTACAAATGCCATTCTTTCTCATTTTGTTCGGACC
261 ATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGACC
* ** * *
1072141 AATCTTTAACACCCCAAGGCAATCGTAGTAGGTGAAGGATCAGAGATATGTGGGGACGAACATCG
326 AATCTTTAGCACCCCAAGGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACATCG
* * *
1072206 CCGAGTGCCAACGGCGCCTAGCGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCGAATTCAA
391 CCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTCAA
1072271 AT
456 AT
1072273 TCATTTCCCA
Statistics
Matches: 889, Mismatches: 23, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
457 865 0.97
458 24 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (457 bp):
CCAAAGAGGGGCAGCTGTAGACATTTTGGGACACTTGTTTTTAATTAATCAGGCCATCTTTGATT
TTGATTTGTAAGATCCGAATTAGTTAGGTTTAATTCTTTTAATTTGGACATATTTGAAAAAAATA
CAACAAAAAAAAGAAAAATGGGGATGCAAAACGACGACTTCCCTAGAGGTTACCCATCCTAGTAC
TAATCTCACCCAAGCACGCTTAACTATAGAGTTCTGATAGGATCCGGTGCATTAGTGCTGGTATG
ATCGCACCCATCCCTTATTGCAACAACAAACTACAAATGCCATTCTTTTTCATTTTGTTCGGACC
AATCTTTAGCACCCCAAGGCAATCGTAGTAGGTGAAGGATTGGAGATATGTGTGGATGAACATCG
CCGGGTGCCAACGGCGCCTAGTGAAATTGGACTTTTAGATTATTAGGGCTTTTTGGCAAATTCAA
AT
Found at i:1072373 original size:20 final size:20
Alignment explanation
Indices: 1072348--1072473 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
1072338 TTTTACCCAG
1072348 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1072368 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1072388 ATTTATCGATACATTCAATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
1072418 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
*
1072439 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
1072459 ATTTATAGATACATT
1 ATGTATCGATACATT
1072474 CTATCTTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 58 0.69
21 2 0.02
22 1 0.01
24 6 0.07
25 1 0.01
26 1 0.01
27 4 0.05
29 1 0.01
30 1 0.01
31 9 0.11
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1072523 original size:71 final size:71
Alignment explanation
Indices: 1072338--1072504 Score: 273
Period size: 71 Copynumber: 2.4 Consensus size: 71
1072328 AAAGTTACAG
* *
1072338 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATTTATCGATACATT
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATTTATAGATACATT
1072403 CAATCT
66 CAATCT
*
1072409 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT-TCTTCAATTTATAGATACAT
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGT-ATCAATTTATAGATACAT
*
1072473 TCTATCT
65 TCAATCT
*
1072480 TTTTACCTAGATGTATCGATACATT
1 TTTTACCCAGATGTATCGATACATT
1072505 GAATAATATA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 1 0.01
71 89 0.99
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (71 bp):
TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATCAATTTATAGATACATT
CAATCT
Found at i:1072954 original size:19 final size:19
Alignment explanation
Indices: 1072930--1073025 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1072920 TTTCAGCTAT
*
1072930 TTGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
1072949 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1072963 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1072981 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1072995 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
*
1073013 TTCTATCGATACA
1 TTGTATCGATACA
1073026 ATGTATCGCT
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 33 0.52
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1072968 original size:13 final size:13
Alignment explanation
Indices: 1072950--1073006 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1072940 ACATAAGTGT
1072950 TGTATCGATACAA
1 TGTATCGATACAA
1072963 TGTATCGATACATAA
1 TGTATCGATAC--AA
1072978 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1072995 TGTATCGATACA
1 TGTATCGATACA
1073007 TAAGTTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1072973 original size:32 final size:32
Alignment explanation
Indices: 1072931--1073033 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
1072921 TTCAGCTATT
*
1072931 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1072963 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
1072995 TGTATCGATACATAAGTTTTCTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1073027 TGTATCG
1 TGTATCG
1073034 CTAGAAAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1075439 original size:51 final size:52
Alignment explanation
Indices: 1075383--1075504 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 52
1075373 AATTCTCCAC
* * * * *
1075383 AATCGGGGATATTCCCACTCCGATTTTATTTTC-AAAACGCTAA-TTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
1075434 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCAT
1075487 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1075505 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 29 0.47
53 28 0.45
54 5 0.08
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:1075495 original size:53 final size:51
Alignment explanation
Indices: 1075383--1075504 Score: 156
Period size: 53 Copynumber: 2.4 Consensus size: 51
1075373 AATTCTCCAC
* * * * *
1075383 AATCGGGGATATTCCCACTCCGATTTTATTTTCAAAACGCTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTAT
*
1075434 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTT-TCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-AT
1075487 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
1075505 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 29 0.47
52 1 0.02
53 32 0.52
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:1075577 original size:78 final size:80
Alignment explanation
Indices: 1075435--1075586 Score: 236
Period size: 78 Copynumber: 1.9 Consensus size: 80
1075425 ATTTTCTATA
* * *
1075435 ATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTTTCATAATCGGGGATACT
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACT
1075500 CCAACCCCGTTAATC
66 CCAACCCCGTTAATC
* **
1075515 ATCGGGGATACTCCAACCCCGATTTTATTT-C-TAAAACATTAATTTTTCACAATCGGGGATACT
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACT
1075578 CCAACCCCG
66 CCAACCCCG
1075587 ATTTTATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 37 0.56
79 1 0.02
80 28 0.42
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACT
CCAACCCCGTTAATC
Found at i:1075591 original size:51 final size:52
Alignment explanation
Indices: 1075515--1075690 Score: 248
Period size: 52 Copynumber: 3.4 Consensus size: 52
1075505 CCCGTTAATC
*
1075515 ATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACATTAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCACA
* ** **
1075566 ATCGGGGATACTCCAACCCCGATTTTATTT-TCAAAACACTAATTTGCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTC-ACA
* *
1075618 ATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCACA
*
1075670 ATCGAGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1075691 TTATCTCCGA
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 43 0.40
52 50 0.46
53 14 0.13
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCACA
Found at i:1075751 original size:183 final size:180
Alignment explanation
Indices: 1075378--1075949 Score: 745
Period size: 183 Copynumber: 3.1 Consensus size: 180
1075368 TTCTCAATTC
* * * * * *
1075378 TCCACAATCGGGGATATTCCCACTCCGATTTTATTTTCAAAACGCTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTCCTTTAATCGGGGA
* * *
1075443 TACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCC
66 TACTCCAACTCCGATTTTATTT-CAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
* * *
1075508 GTTAATCAT-CGGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTT
130 GTT-ATC-TCCGGGGATACTCCAACCCCGATTTTATTTCCAAATCATTGATTT
*
1075560 TTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTGCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTT-CCTTTAATCGGGG
*
1075625 ATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
65 ATACTCCAACTCCGATTTTATTTCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
* *
1075690 GTTATCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTT
130 GTTATCTCC--GGGGATACTCCAACCCCGATTTTATTTCCAAATCATTGATTT
* * *** *
1075743 TCCACAATCGGGGATACTCTAACCTCGGCATTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAA-TTTCCTTTAATCGGGG
* * * *
1075808 ATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTC
65 ATACTCCAACTCCGATTTTATTTCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
* * *
1075873 GTTATTTCATCGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATTGA-TT
130 GTTATCTC--CGGGGATACTCCAACCCCGATTTTATTTCC-AAATCATTGATTT
* *
1075925 TCTCATAATTGGGGATACTCCAACC
1 TC-CACAATCGGGGATACTCCAACC
1075950 TCATTATTTC
Statistics
Matches: 346, Mismatches: 35, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
180 1 0.00
181 4 0.01
182 92 0.27
183 241 0.70
184 7 0.02
185 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (180 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTCCTTTAATCGGGGA
TACTCCAACTCCGATTTTATTTCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCG
TTATCTCCGGGGATACTCCAACCCCGATTTTATTTCCAAATCATTGATTT
Found at i:1075761 original size:51 final size:51
Alignment explanation
Indices: 1075701--1075870 Score: 178
Period size: 52 Copynumber: 3.3 Consensus size: 51
1075691 TTATCTCCGA
* * *
1075701 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
* * ** * **
1075752 GGGGATACTCTAACCTCGGCATTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCC-ACAATC
* * * * *
1075804 GGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCACAATC
*
1075856 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1075871 TCGTTATTTC
Statistics
Matches: 93, Mismatches: 24, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
51 37 0.40
52 41 0.44
53 15 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:1075957 original size:79 final size:78
Alignment explanation
Indices: 1075803--1076086 Score: 240
Period size: 79 Copynumber: 3.6 Consensus size: 78
1075793 TTCCTTTAAT
* * * * * * *
1075803 CGGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCA
1 CGGGGATACTCCAACCCCGATTTTA-TTCCCAAAATATCAATTTCTCACAATTGGGGATACTCCA
1075868 ACCTCGTTATTTCA
65 ACCTCGTTATTTCA
* ** *
1075882 TCGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCA
1 -CGGGGATACTCCAACCCCGATTTTATTCCCAAAATATCAATTTCTCACAATTGGGGATACTCCA
*
1075947 ACCTCATTATTTC-
65 ACCTCGTTATTTCA
* * * * **
1075960 CGAGGGAGTACTCCAATCCCGATTTT-TT-TC-TAATCATCGATTTCTCACAACCGGGGATACTC
1 CG-GGGA-TACTCCAACCCCGATTTTATTCCCAAAAT-ATCAATTTCTCACAATTGGGGATACTC
1076022 CAAGCC-CGTTATTTTCA
63 CAA-CCTCGTTA-TTTCA
* * *
1076039 AGGGGACACTCCAACCCCG-TTATTA-TCTCCAAAATATTAAATTTCTCA
1 CGGGGATACTCCAACCCCGATT-TTATTC-CCAAAATA-TCAATTTCTCA
1076087 TCGGGAAATA
Statistics
Matches: 164, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
76 5 0.03
77 47 0.29
78 16 0.10
79 62 0.38
80 34 0.21
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGATTTTATTCCCAAAATATCAATTTCTCACAATTGGGGATACTCCAA
CCTCGTTATTTCA
Found at i:1087009 original size:13 final size:13
Alignment explanation
Indices: 1086991--1087016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1086981 TACAGCAAGT
1086991 ATGTATCGATACA
1 ATGTATCGATACA
1087004 ATGTATCGATACA
1 ATGTATCGATACA
1087017 CGAAAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1087061 original size:86 final size:86
Alignment explanation
Indices: 1086916--1087089 Score: 330
Period size: 86 Copynumber: 2.0 Consensus size: 86
1086906 ATACATGTTG
*
1086916 CAATGTATCGATACATGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGA
1 CAATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGA
1086981 TACAGCAAGTATGTATCGATA
66 TACAGCAAGTATGTATCGATA
*
1087002 CAATGTATCGATACACGAAAAAGATGTATCGATGCATTTCTTGGCAGTAGCCAAACTTGTATCGA
1 CAATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGA
1087067 TACAGCAAGTATGTATCGATA
66 TACAGCAAGTATGTATCGATA
1087088 CA
1 CA
1087090 CAAAAAATTG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (86 bp):
CAATGTATCGATACACGAAAAAGATGTATCGATACATTTCTTGGCAGTAGCCAAACTTGTATCGA
TACAGCAAGTATGTATCGATA
Found at i:1089338 original size:21 final size:21
Alignment explanation
Indices: 1089305--1089349 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1089295 TTGCAAGTTG
*
1089305 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1089327 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1089347 AAA
1 AAA
1089350 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1091187 original size:16 final size:16
Alignment explanation
Indices: 1091151--1091187 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1091141 GATAAAAATG
1091151 TCCAAAATGAGGAAGC
1 TCCAAAATGAGGAAGC
1091167 T-CAAAATGAAGG-AGC
1 TCCAAAATG-AGGAAGC
1091182 TCCAAA
1 TCCAAA
1091188 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (16 bp):
TCCAAAATGAGGAAGC
Found at i:1093223 original size:20 final size:20
Alignment explanation
Indices: 1093198--1093294 Score: 95
Period size: 20 Copynumber: 4.6 Consensus size: 20
1093188 ATGTCCAAAA
*
1093198 TGTATCGATACATGTTTCTG
1 TGTATCGATACATGTTTCTT
* **
1093218 TGTATCGATACATCTGGAAATTCAA
1 TGTATCGATACA--T-G--TTTCTT
*
1093243 TGTATCGATACATTTTTCTT
1 TGTATCGATACATGTTTCTT
*
1093263 TGTATCGATACATTTTTCTT
1 TGTATCGATACATGTTTCTT
1093283 TGTATCGATACA
1 TGTATCGATACA
1093295 GGGTGATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 47 0.72
22 1 0.02
23 2 0.03
25 15 0.23
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATGTTTCTT
Found at i:1093457 original size:20 final size:20
Alignment explanation
Indices: 1093414--1093459 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1093404 AAATCTTTTG
1093414 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1093435 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1093455 CAAAA
1 CAAAA
1093460 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1095620 original size:13 final size:13
Alignment explanation
Indices: 1095602--1095627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1095592 TACAGCAAGT
1095602 ATGTATCGATACA
1 ATGTATCGATACA
1095615 ATGTATCGATACA
1 ATGTATCGATACA
1095628 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1097278 original size:79 final size:79
Alignment explanation
Indices: 1097070--1097436 Score: 341
Period size: 80 Copynumber: 4.6 Consensus size: 79
1097060 ATATTTCCCG
* * *
1097070 ATGAGAAATTTAATATTTTGGAGAAAGT--AA-CGGGGTTAGAGTATCCCTTTGAAAATAACGGG
1 ATGAGAAA-TTAATATTTT--AGAAA-TAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
*
1097132 ATTGGAGTATCCCCGATT
62 GTTGGAGTATCCCCGATT
* * ** * ** *
1097150 GTGAAAAAATCGATGA-TTTGGAAATAAAACTAGGGTTGGAGTATCCCCTC-AGAGATAACGGGG
1 ATG-AGAAATTAAT-ATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGG
1097213 TTGGAGTATCCCCGATT
63 TTGGAGTATCCCCGATT
* *
1097230 ATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
*
1097295 GAGTATGCCCGATT
66 GAGTATCCCCGATT
* * * * *
1097309 ATGAGAAATCAATATTTGAGGAAA-AAAGCCGGGGGTTGGAGTATCCCATCGACAATAACGGGGT
1 ATGAGAAATTAATATTTTA-GAAATAAAACC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
* *
1097373 TGGAGTATCCTCAATT
64 TGGAGTATCCCCGATT
* * * * * * *
1097389 GTGAAAAATTAGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 ATGAGAAATTAAT-ATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1097437 GATTAAAGGA
Statistics
Matches: 233, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
77 1 0.00
78 5 0.02
79 88 0.38
80 127 0.55
81 12 0.05
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:1097398 original size:159 final size:160
Alignment explanation
Indices: 1097100--1097436 Score: 396
Period size: 159 Copynumber: 2.1 Consensus size: 160
1097090 GAGAAAGTAA
* * * *
1097100 CGGGGTTAGAGTATCCCTTTGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAAATCGATG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAATCAATG
* * * *
1097165 ATTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAGAGATAACGGGGTTGGAGTATCCCCGATT
66 ATTTGGAAATAAAACGAGGGTTGGAGTATCCCATCAGAAATAACGGGGTTGGAGTATCCCCAATT
* *
1097230 ATGAGAAATTAAT-ATTTTAGAAATAAAGC
131 ATGAAAAATTAATGATTTTAGAAATAAAAC
* * *
1097259 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATGCCCGATTATG-AGAAATCAAT-
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAATCAATG
* * *
1097322 ATTTGAGGAAA-AAAGCCGGGGGTTGGAGTATCCCATC-GACAATAACGGGGTTGGAGTATCCTC
66 ATTT--GGAAATAAA-ACGAGGGTTGGAGTATCCCATCAGA-AATAACGGGGTTGGAGTATCCCC
* * * * *
1097385 AATTGTGAAAAATTAGTGTTTTTGGAAATAAAAT
127 AATTATGAAAAATTAATGATTTTAGAAATAAAAC
* *
1097419 CGGAGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1097437 GATTAAAGGA
Statistics
Matches: 150, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
157 4 0.03
158 13 0.09
159 105 0.70
160 28 0.19
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (160 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAATCAATG
ATTTGGAAATAAAACGAGGGTTGGAGTATCCCATCAGAAATAACGGGGTTGGAGTATCCCCAATT
ATGAAAAATTAATGATTTTAGAAATAAAAC
Found at i:1097460 original size:52 final size:52
Alignment explanation
Indices: 1097393--1097526 Score: 205
Period size: 52 Copynumber: 2.6 Consensus size: 52
1097383 TCAATTGTGA
* * * **
1097393 AAAATTAGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTG-TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGAAAAAAGG
*
1097446 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAAAAAAGG
1 AAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGAAAAAAGG
1097498 AAAATTGGTGTTTTGAAAATAAAACCGGA
1 AAAATTGGTGTTTTGAAAATAAAACCGGA
1097527 TTGTGAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 65 0.88
53 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.27
Consensus pattern (52 bp):
AAAATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGAAAAAAGG
Found at i:1099838 original size:13 final size:13
Alignment explanation
Indices: 1099820--1099845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1099810 ACGAAGATCG
1099820 ATGTATCGATACA
1 ATGTATCGATACA
1099833 ATGTATCGATACA
1 ATGTATCGATACA
1099846 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1099901 original size:19 final size:19
Alignment explanation
Indices: 1099877--1099926 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1099867 AGCGATACAT
1099877 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1099896 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1099915 TGTATCGATACA
1 TGTATCGATACA
1099927 TTTTCTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1102033 original size:3 final size:3
Alignment explanation
Indices: 1102027--1102063 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1102017 AGACGAAGAA
* *
1102027 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1102064 TTGACTCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:1102999 original size:19 final size:19
Alignment explanation
Indices: 1102975--1103057 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
1102965 TTTCAGCGAT
*
1102975 TTGTATCGATACATCAGTG
1 TTGTATCGATACATAAGTG
*
1102994 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
1103008 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
1103026 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1103045 TTGTATCGATACA
1 TTGTATCGATACA
1103058 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 1 0.02
19 41 0.76
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1103017 original size:32 final size:32
Alignment explanation
Indices: 1102976--1103038 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1102966 TTCAGCGATT
* *
1102976 TGTATCGATACATCAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1103008 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1103039 TAAGTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1105582 original size:51 final size:51
Alignment explanation
Indices: 1105493--1105590 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
1105483 AATTCTCCGC
1105493 AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACA-CTAATTTTCTAT
1 AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACATC-AATTTTCTAT
*
1105544 AATCGGGGATA-CTCCAACTCCGATTTTA-TTTCTGAAACATCAATTTT
1 AATCGGGGATATC-CCAACTCCGATTTTATTTTC-AAAACATCAATTTT
1105591 TCATCGGGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
50 5 0.12
51 37 0.86
52 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (51 bp):
AATCGGGGATATCCCAACTCCGATTTTATTTTCAAAACATCAATTTTCTAT
Found at i:1105661 original size:28 final size:27
Alignment explanation
Indices: 1105591--1105667 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
1105581 CATCAATTTT
*
1105591 TCATCGGGGATACTTCAACCCCGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
1105618 TCATCGGGGATACTCCAACCCCGTT-A
1 TCATCGGGGATACTCCAACCCCGTTAA
**
1105644 TTTTCGAGGGGATACTCCAACCCC
1 TCATC--GGGGATACTCCAACCCC
1105668 CGGCTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 24 0.53
28 17 0.38
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:1105795 original size:51 final size:49
Alignment explanation
Indices: 1105733--1105900 Score: 140
Period size: 52 Copynumber: 3.3 Consensus size: 49
1105723 ATCTCCGAGG
* * *
1105733 GGATACCCCAACCCCGATATTATTTCCAAATCATCGATTTTCCACAATCGA
1 GGATACTCCAACCCCGAT-TTATTTCCAAAACA-CAATTTTCCACAATCGA
* * * ** *
1105784 GGATACTCCAACCCTGGCTTTATTTTCAAAACACTAATTTTCCTTTAATCGG
1 GGATACTCCAACCC-CGATTTATTTCCAAAACAC-AATTTTCC-ACAATCGA
* * *
1105836 GGATACTCCAACTCCGATTTTATTTCAAAAAACACCAAGTTTT-CACAATTGA
1 GGATACTCCAACCCCGA-TTTATTTC-CAAAACA-CAA-TTTTCCACAATCGA
1105888 GGATACTCCAACC
1 GGATACTCCAACC
1105901 TCGTTATTTC
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
50 1 0.01
51 33 0.36
52 43 0.47
53 9 0.10
54 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (49 bp):
GGATACTCCAACCCCGATTTATTTCCAAAACACAATTTTCCACAATCGA
Found at i:1105796 original size:79 final size:80
Alignment explanation
Indices: 1105620--1105797 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
1105610 CCCGTTAATC
* * * *
1105620 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCCGGATTTATTTCTAAAA
* *
1105685 TATTAATTTCTCATA
66 TATGAATTTCTCACA
*
1105700 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAA-CCCC-GATATTATTTC-CAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCCGGAT-TTATTTCTAAA
*
1105762 ATCATCGATTTTC-CACA
65 AT-AT-GAATTTCTCACA
*
1105779 ATCGAGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
1105798 TGGCTTTATT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 6 0.07
79 34 0.40
80 46 0.53
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCCGGATTTATTTCTAAAA
TATGAATTTCTCACA
Found at i:1106059 original size:290 final size:285
Alignment explanation
Indices: 1105517--1106081 Score: 810
Period size: 290 Copynumber: 2.0 Consensus size: 285
1105507 CAACTCCGAT
**
1105517 TTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCTGAAAC
1 TTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCAAAAAC
* * * * * **
1105582 ATCAATTTTTCATCGGGGATACTTCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTT
66 ACCAATTTTACATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCATTACCT
* * *
1105647 TCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACT
131 CCGAGGGGATACTCCAACCCCCGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGGGATACT
1105712 CCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCGATATTATTTCCAAATCATCGATTT-TCC
196 CCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCGATATTATTTCCAAATCATCGATTTCT-C
1105776 ACAATCGAGGATACTCCAACCCTGGC
260 ACAATCGAGGATACTCCAACCCTGGC
*
1105802 TTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCAAAAA
1 TTTATTTTCAAAACACTAATTTT-CTATAATCGGGGATACTCCAACTCCGATTTTATTTC-AAAA
* * *
1105867 ACACCAAGTTTTCACAATTGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCA
64 ACACCAA-TTTT-AC-ATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCA
* *
1105932 TTACCTCCGAGGGGATACTCCAA-CCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGG
125 TTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGG
* * * * * * * *
1105996 GATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAATCATCGAT
190 GATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCGATATTATTTCCAAATCATCGAT
*
1106061 TTCTCACAATCGGGGATACTC
255 TTCTCACAATCGAGGATACTC
1106082 TAGCCCCGTT
Statistics
Matches: 246, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
285 23 0.09
286 35 0.14
287 8 0.03
288 4 0.02
289 1 0.00
290 132 0.54
291 43 0.17
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (285 bp):
TTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCAAAAAC
ACCAATTTTACATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCATTACCT
CCGAGGGGATACTCCAACCCCCGGCTTTATTCCCAAAATATTAATTTCTCATAATCGGGGATACT
CCAACCCCGTTATCTCCGAGGGGATACCCCAACCCCGATATTATTTCCAAATCATCGATTTCTCA
CAATCGAGGATACTCCAACCCTGGC
Found at i:1106062 original size:79 final size:79
Alignment explanation
Indices: 1105911--1106117 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
1105901 TCGTTATTTC
* ** *
1105911 ATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
* *
1105976 ATTGATTTCTCATA
66 ATCGATTTCTCACA
* * * * * ** *
1105990 ATTGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
1106054 CATCGATTTCTCACA
66 -ATCGATTTCTCACA
* * * * * *
1106069 ATCGGGGATACTCTAGCCCCGTTATTTTCAAGGGGACATTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
1106118 TTATTATCTC
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
78 3 0.03
79 101 0.97
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
ATCGATTTCTCACA
Found at i:1116713 original size:10 final size:10
Alignment explanation
Indices: 1116698--1116757 Score: 61
Period size: 10 Copynumber: 6.2 Consensus size: 10
1116688 TTCTCTTCAA
1116698 AAAAAAAAAG
1 AAAAAAAAAG
1116708 AAAAAAAAAG
1 AAAAAAAAAG
*
1116718 -CAAAAAAA-
1 AAAAAAAAAG
* *
1116726 CAAAACAAAG
1 AAAAAAAAAG
* *
1116736 AAAAAGAGAG
1 AAAAAAAAAG
1116746 AAAAAAAAAG
1 AAAAAAAAAG
1116756 AA
1 AA
1116758 CCTGCTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 13 0.32
10 27 0.68
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1116730 original size:24 final size:25
Alignment explanation
Indices: 1116695--1116757 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1116685 ACCTTCTCTT
1116695 CAAAAAAAAAAAGAAA-AAAAA-AG
1 CAAAAAAAAAAAGAAAGAAAAAGAG
*
1116718 CAAAAAAACAAAACAAAGAAAAAGAG
1 CAAAAAAA-AAAAGAAAGAAAAAGAG
*
1116744 -AGAAAAAAAAAGAA
1 CAAAAAAAAAAAGAA
1116758 CCTGCTTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 8 0.24
24 13 0.38
25 11 0.32
26 2 0.06
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAAAGAAAGAAAAAGAG
Done.