Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 193 of 253
Found at i:63287870 original size:32 final size:32
Alignment explanation
Indices: 63287834--63287940 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 32
63287824 CTATTTAAAC
*
63287834 AAAATTTAAAAATTATAATTTTTAAAATATAT
1 AAAATTTAAAAATAATAATTTTTAAAATATAT
* * * *
63287866 AAAA-TGAAAAATAAAAATTCTTTAAAATTTAA
1 AAAATTTAAAAATAATAATT-TTTAAAATATAT
* * *
63287898 AAAATTAAAAAATGAT--TTTTTAAAATATTTT
1 AAAATTTAAAAATAATAATTTTTAAAATA-TAT
*
63287929 AAAATATAAAAA
1 AAAATTTAAAAA
63287941 ATTCCAAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
30 8 0.14
31 25 0.42
32 18 0.31
33 8 0.14
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (32 bp):
AAAATTTAAAAATAATAATTTTTAAAATATAT
Found at i:63292497 original size:25 final size:25
Alignment explanation
Indices: 63292479--63292530 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
63292469 TAAAGTATTT
*
63292479 TTAACATATTCAACATAAAATGTAG
1 TTAACATATTCAACATAAAATATAG
*
63292504 TTAACATATTCAACATAAAATGTAG
1 TTAACATATTCAACATAAAATATAG
63292529 TT
1 TT
63292531 TTATTTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAACATATTCAACATAAAATATAG
Found at i:63304045 original size:18 final size:17
Alignment explanation
Indices: 63304024--63304067 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
63304014 GGAACAAAAT
*
63304024 AAAATTTAGAGATTTTAA
1 AAAATTTAGAGACTTT-A
*
63304042 AAAATTTA-AGGCTTTA
1 AAAATTTAGAGACTTTA
63304058 AAAATTTAGA
1 AAAATTTAGA
63304068 AAATTTTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (17 bp):
AAAATTTAGAGACTTTA
Found at i:63306794 original size:28 final size:28
Alignment explanation
Indices: 63306754--63306812 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
63306744 TGGCATAATA
63306754 CATGGCATGTTTAAACAACCAAAACATC
1 CATGGCATGTTTAAACAACCAAAACATC
63306782 CATGGCATGTTTAAACAACCAAAACATC
1 CATGGCATGTTTAAACAACCAAAACATC
63306810 CAT
1 CAT
63306813 AATCAAGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.22
Consensus pattern (28 bp):
CATGGCATGTTTAAACAACCAAAACATC
Found at i:63311275 original size:26 final size:26
Alignment explanation
Indices: 63311246--63311353 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
63311236 TGGTACAAAT
63311246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
63311272 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63311298 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
63311324 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
63311350 TGAT
1 TGAT
63311354 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:63315005 original size:28 final size:28
Alignment explanation
Indices: 63314965--63315020 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
63314955 ACAGCTTGTG
63314965 TGAGCAGCACCGAGTAGCTATGTAACAC
1 TGAGCAGCACCGAGTAGCTATGTAACAC
63314993 TGAGCAGCACCGAGTAGCTATGTAACAC
1 TGAGCAGCACCGAGTAGCTATGTAACAC
63315021 CCCTATACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (28 bp):
TGAGCAGCACCGAGTAGCTATGTAACAC
Found at i:63329339 original size:10 final size:10
Alignment explanation
Indices: 63329305--63329343 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
63329295 TTTAACCAGT
63329305 TCAAAACATG
1 TCAAAACATG
63329315 ATCAAATACAT-
1 -TCAAA-ACATG
63329326 TCAAAACATG
1 TCAAAACATG
63329336 TCAAAACA
1 TCAAAACA
63329344 ATCATCCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 5 0.19
12 4 0.15
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (10 bp):
TCAAAACATG
Found at i:63336512 original size:11 final size:11
Alignment explanation
Indices: 63336496--63336524 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
63336486 CTTACATTTG
63336496 TTTCTTTCCTT
1 TTTCTTTCCTT
63336507 TTTC-TTCCTT
1 TTTCTTTCCTT
63336517 TTTCTTTC
1 TTTCTTTC
63336525 TTTGTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTCTTTCCTT
Found at i:63342199 original size:21 final size:21
Alignment explanation
Indices: 63342170--63342217 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
63342160 AAGTATTTAC
*
63342170 TTATTATTTAAGAA-ATAATAA
1 TTATAATTTAA-AATATAATAA
63342191 TTATAATTTAAAATATAATAA
1 TTATAATTTAAAATATAATAA
63342212 -TATAAT
1 TTATAAT
63342218 AGTTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATAATTTAAAATATAATAA
Found at i:63342308 original size:17 final size:16
Alignment explanation
Indices: 63342286--63342322 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
63342276 AGCAGGGAAA
63342286 GAAAGAAGAAAAAAAAG
1 GAAAGAA-AAAAAAAAG
*
63342303 GAAAGAAAAAGAAAAG
1 GAAAGAAAAAAAAAAG
63342319 GAAA
1 GAAA
63342323 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAAAAAG
Found at i:63346115 original size:45 final size:41
Alignment explanation
Indices: 63346033--63346111 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
63346023 GTCCCTAAGT
63346033 CGTGCGTCTTTCTTTCTTCTTTCTCTTTTTCTTTTTCTAGC
1 CGTGCGTCTTTCTTTCTTCTTTCTCTTTTTCTTTTTCTAGC
*
63346074 CGTGCGTCTTTCTTTCTTCTTTCTCTTTTACTTTTTCT
1 CGTGCGTCTTTCTTTCTTCTTTCTCTTTTTCTTTTTCT
63346112 TTCTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.03, C:0.27, G:0.09, T:0.62
Consensus pattern (41 bp):
CGTGCGTCTTTCTTTCTTCTTTCTCTTTTTCTTTTTCTAGC
Found at i:63348135 original size:2 final size:2
Alignment explanation
Indices: 63348128--63348155 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63348118 GCAAACTCAT
63348128 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
63348156 ACAATCAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:63349319 original size:18 final size:18
Alignment explanation
Indices: 63349280--63349377 Score: 146
Period size: 18 Copynumber: 5.5 Consensus size: 18
63349270 AATGATATGT
63349280 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
63349297 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
63349315 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
63349332 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
63349350 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
63349369 AATCTTAGA
1 AATCTTAGA
63349378 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 29 0.40
18 32 0.44
19 11 0.15
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:63349320 original size:35 final size:35
Alignment explanation
Indices: 63349271--63349375 Score: 165
Period size: 35 Copynumber: 2.9 Consensus size: 35
63349261 ATAATCTTCA
*
63349271 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
63349307 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
63349342 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
63349376 GAAGATATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 49 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:63349697 original size:12 final size:11
Alignment explanation
Indices: 63349682--63349715 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
63349672 TATTTTTAAT
63349682 TTATTATATATA
1 TTATT-TATATA
63349694 TTATTTATTATA
1 TTATTTA-TATA
63349706 TTATTTATAT
1 TTATTTATAT
63349716 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:63349713 original size:16 final size:16
Alignment explanation
Indices: 63349680--63349710 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63349670 CTTATTTTTA
63349680 ATTTATTATATATATT
1 ATTTATTATATATATT
63349696 ATTTATTATAT-TATT
1 ATTTATTATATATATT
63349711 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:63353172 original size:2 final size:2
Alignment explanation
Indices: 63353167--63353195 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
63353157 AGAAAGAAAA
63353167 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
63353196 GGTCACGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63356771 original size:40 final size:40
Alignment explanation
Indices: 63356712--63356863 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
63356702 CATTTGAATG
* * *
63356712 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
63356752 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63356792 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
63356832 ATATCCGGGCTAAGACCTGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
63356864 TTGTGGTTAT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 101 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:63356875 original size:40 final size:40
Alignment explanation
Indices: 63356712--63356883 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
63356702 CATTTGAATG
* * *
63356712 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGT-GATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGA-T
* *
63356752 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGAT
*
63356792 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGAT
* * ** *
63356832 ATATCCGGGCTAAGACCTGAGGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGAT
63356872 ATATCC-GGCTAA
1 ATATCCGGGCTAA
63356884 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 6 0.05
40 112 0.93
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGAT
Found at i:63364803 original size:40 final size:40
Alignment explanation
Indices: 63364744--63364893 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
63364734 CATTTGAATG
* * *
63364744 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
63364784 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63364824 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63364864 ATATCCGGGCTAAGA-CCG-AGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
63364894 TTGTGGTTAT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
38 12 0.12
39 3 0.03
40 86 0.83
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:63367009 original size:21 final size:21
Alignment explanation
Indices: 63366952--63367009 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
63366942 CTATTTCAAA
*
63366952 AAAAAGAGAAAAAAAGAAAAG
1 AAAAAGAGAAAAAAATAAAAG
63366973 AAAAAGAGAAAAAAATAAAGAG
1 AAAAAGAGAAAAAAATAAA-AG
63366995 AAAAA-AGAAAAAAAT
1 AAAAAGAGAAAAAAAT
63367010 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 28 0.80
22 7 0.20
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (21 bp):
AAAAAGAGAAAAAAATAAAAG
Found at i:63367015 original size:21 final size:22
Alignment explanation
Indices: 63366951--63367015 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
63366941 TCTATTTCAA
* *
63366951 AAAAAAGAGAAAAAAAGAAAAG
1 AAAAAAGAGAAAAAATGAAGAG
*
63366973 -AAAAAGAGAAAAAAATAAAGAG
1 AAAAAAGAG-AAAAAATGAAGAG
*
63366995 AAAAAAGA-AAAAAATGGAGAG
1 AAAAAAGAGAAAAAATGAAGAG
63367016 GCCAAAGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 19 0.53
22 10 0.28
23 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (22 bp):
AAAAAAGAGAAAAAATGAAGAG
Found at i:63368027 original size:44 final size:44
Alignment explanation
Indices: 63367872--63368065 Score: 139
Period size: 44 Copynumber: 4.4 Consensus size: 44
63367862 GGGACAATGT
* * *
63367872 AGATCAAAGA-AACAAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAAGGAAC
* * * * * *
63367916 AGATCAAAGATAGTAGATCTGACATTCCTGTGCTCTCT--GCGAAGC
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTG-TTTATAAG-GAA-C
** **
63367961 AGATTGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAAGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAAGGAAC
** * *
63368004 A-AGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAAC
63368048 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
63368066 CTAACCTTCA
Statistics
Matches: 116, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 17 0.15
44 78 0.67
45 18 0.16
46 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAAC
Found at i:63368262 original size:119 final size:119
Alignment explanation
Indices: 63368051--63368531 Score: 800
Period size: 119 Copynumber: 4.0 Consensus size: 119
63368041 AGGGAACAGA
* * *
63368051 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATTCGAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
63368116 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
*
63368170 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
63368235 TTGTGTTTACAAGGAACAAATCGAGGACATAACAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* *
63368289 TCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * *
63368354 TTGTGTTTACAAGAAACAAATCGAGGAAATAGCAGATTTGACTCTCATACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* * *
63368408 TCAAATATAGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * * * *
63368473 TTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
63368527 TCAAA
1 TCAAA
63368532 CAGACTTAAG
Statistics
Matches: 340, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 340 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
Found at i:63368686 original size:84 final size:83
Alignment explanation
Indices: 63368455--63368724 Score: 441
Period size: 83 Copynumber: 3.2 Consensus size: 83
63368445 GAAGCAGATC
*
63368455 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
63368520 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
63368538 TAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
63368603 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
63368621 CAAGATGGTTTAGGCATCCTTGTTCTTACAAGCAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
63368686 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
63368705 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
63368725 ACAAATCGAA
Statistics
Matches: 173, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 97 0.56
84 76 0.44
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:63369154 original size:18 final size:18
Alignment explanation
Indices: 63369115--63369212 Score: 146
Period size: 18 Copynumber: 5.5 Consensus size: 18
63369105 AATGATATGT
63369115 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
63369132 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
63369150 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
63369167 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
63369185 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
63369204 AATCTTAGA
1 AATCTTAGA
63369213 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 29 0.40
18 32 0.44
19 11 0.15
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:63369155 original size:35 final size:35
Alignment explanation
Indices: 63369106--63369210 Score: 165
Period size: 35 Copynumber: 2.9 Consensus size: 35
63369096 ATAATCTTCA
*
63369106 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
63369142 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
63369177 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
63369211 GAAGATATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 49 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:63369610 original size:21 final size:21
Alignment explanation
Indices: 63369568--63369702 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
63369558 TGTAAATTAT
*
63369568 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
63369589 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
63369610 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
63369629 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
63369650 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
63369671 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
63369687 TATACTATCATATATT
1 TATA-TATTATATATT
63369703 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:63369648 original size:77 final size:76
Alignment explanation
Indices: 63369519--63369689 Score: 174
Period size: 77 Copynumber: 2.3 Consensus size: 76
63369509 TTTTTAATTA
** ** *
63369519 TTATATATTATTTATTATATTATTTATATTTTCAAAATTTGTAAATTATTATA-TATTATATTTT
1 TTATATATTATTTATTATATTATACATATTTTCAAAAACTGTAAATTATTATATTA-TATATTAT
*
63369583 AACTTATATATC
65 AAATTATATATC
* *
63369595 TTATATATTTATTTATTTATATTATACATTATTTT-AAAAACT-TACATTTTTATATTATATATT
1 TTATATA-TTATTTA-TTATATTATACA-TATTTTCAAAAACTGTAAATTATTATATTATATATT
*
63369658 ATAAATTATTTCAT-
63 ATAAATTATAT-ATC
63369672 TTAT-TATTATTT-TTATAT
1 TTATATATTATTTATTATAT
63369690 ACTATCATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
73 6 0.07
75 6 0.07
76 9 0.11
77 35 0.43
78 19 0.23
79 6 0.07
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (76 bp):
TTATATATTATTTATTATATTATACATATTTTCAAAAACTGTAAATTATTATATTATATATTATA
AATTATATATC
Found at i:63375478 original size:21 final size:21
Alignment explanation
Indices: 63375417--63375478 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
63375407 CTTCTATTTC
*
63375417 AAAA-AAAAAGAGAAAAAAAG
1 AAAAGAAAAAGAGAAAAAAAT
63375437 AAAAGAAAAAGAGAAAAAAAT
1 AAAAGAAAAAGAGAAAAAAAT
63375458 AAAGAGAAAAA-AGAAAAAAAT
1 AAA-AGAAAAAGAGAAAAAAAT
63375479 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 4 0.10
21 28 0.72
22 7 0.18
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAGAGAAAAAAAT
Found at i:63376481 original size:43 final size:41
Alignment explanation
Indices: 63376448--63376532 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 41
63376438 GATTTCAGCA
63376448 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCAT-CCTGTGTTTATA-GGAACAAGTTGAAGATAGCAGA-T
**
63376492 TGGCATCCTGTGTTTATAGGAAC-AGATCAAAGATAGCAGAT
1 TGGCATCCTGTGTTTATAGGAACAAG-TTGAAGATAGCAGAT
63376533 CTAACCTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
41 3 0.08
42 17 0.45
43 12 0.32
44 6 0.16
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (41 bp):
TGGCATCCTGTGTTTATAGGAACAAGTTGAAGATAGCAGAT
Found at i:63376496 original size:44 final size:44
Alignment explanation
Indices: 63376355--63376532 Score: 161
Period size: 44 Copynumber: 4.1 Consensus size: 44
63376345 CAAAGAAACA
* *
63376355 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
63376399 AGATCTGACATTCCTGTGCTCTCT-GCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTG-TTTATAGGGAA-CAGATCGAAGATAGC
*
63376444 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
*
63376487 AGATTTGGCAT-CCTGTGTTTATA-GGAACAGATCAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
63376529 AGAT
1 AGAT
63376533 CTAACCTTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
42 21 0.20
43 29 0.27
44 39 0.37
45 16 0.15
46 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:63376729 original size:119 final size:119
Alignment explanation
Indices: 63376518--63376997 Score: 818
Period size: 119 Copynumber: 4.0 Consensus size: 119
63376508 TAGGAACAGA
* *
63376518 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCGAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
63376583 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
63376637 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
63376702 TTGTGTTTACAAGGAACAAATCGAGGACATAACAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* *
63376756 TCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* *
63376821 TTGTGTTTACAA-GAACAAATCGAGGAAATAGCAGATTTGACTCTCATACGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
* * *
63376874 TCAAATATAGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * * * *
63376939 TTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTC
66 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
63376993 TCAAA
1 TCAAA
63376998 CAGACTCAAG
Statistics
Matches: 341, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
118 109 0.32
119 232 0.68
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTC
Found at i:63376951 original size:237 final size:238
Alignment explanation
Indices: 63376518--63376997 Score: 818
Period size: 237 Copynumber: 2.0 Consensus size: 238
63376508 TAGGAACAGA
* *
63376518 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCGAGATGATTTGGCATTC
1 TCAAAGATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
63376583 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGC
66 TTGTGTTTACAAGGAACAAATCGAGGAAATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGC
* *
63376648 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
131 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACA
* *
63376713 AGGAACAAATCGAGGACATAACAGATTTGACTCTCAGACGTTC
196 AGGAACAAATCGAGGACATAACAGATATGACTCTCAAACGTTC
* *
63376756 TCAAATATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAAGATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
63376821 TTGTGTTTACAA-GAACAAATCGAGGAAATAGCAGATTTGACTCTCATACGTTCTCAAATATAGC
66 TTGTGTTTACAAGGAACAAATCGAGGAAATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGC
* *
63376885 AGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACA
** *
63376950 AGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTC
196 AGGAACAAATCGAGGACATAACAGATATGACTCTCAAACGTTC
63376993 TCAAA
1 TCAAA
63376998 CAGACTCAAG
Statistics
Matches: 227, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
237 154 0.68
238 73 0.32
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (238 bp):
TCAAAGATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCGAGGAAATAGCAGATTTGACTCTCAGACGTTCTCAAATATAGC
AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACA
AGGAACAAATCGAGGACATAACAGATATGACTCTCAAACGTTC
Found at i:63377026 original size:83 final size:83
Alignment explanation
Indices: 63376921--63377187 Score: 466
Period size: 83 Copynumber: 3.2 Consensus size: 83
63376911 GAAGCAGATC
*
63376921 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
63376986 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
63377004 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
63377069 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
63377087 CAAGATGGTTTGGCATCCTTGT--TTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
63377150 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
63377168 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
63377188 ACAAATCCAA
Statistics
Matches: 177, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
81 74 0.42
83 103 0.58
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:63377237 original size:110 final size:108
Alignment explanation
Indices: 63377087--63377297 Score: 359
Period size: 110 Copynumber: 1.9 Consensus size: 108
63377077 CAAACAGACT
* * *
63377087 CAAGATGGTTTGGCATCCTTGTTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTCAAA
1 CAAGATGGTTTGGCATCCTTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAA
63377152 TGTTCTCAAACAGACTCAAGATGATTTGACATCCTTACAAATC
66 TGTTCTCAAACAGACTCAAGATGATTTGACATCCTTACAAATC
63377195 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGT--TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
63377260 AATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTT
64 AATGTTCTCAAACAGACTCAAGATGATTTGACATCCTT
63377298 GTGCTTACAA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
108 22 0.23
110 74 0.77
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (108 bp):
CAAGATGGTTTGGCATCCTTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAA
TGTTCTCAAACAGACTCAAGATGATTTGACATCCTTACAAATC
Found at i:63377334 original size:83 final size:83
Alignment explanation
Indices: 63377195--63377546 Score: 623
Period size: 83 Copynumber: 4.2 Consensus size: 83
63377185 CTTACAAATC
63377195 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
63377260 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
63377278 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
63377343 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
63377361 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
63377426 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
63377444 CAAGATGGTTTAGACATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
63377509 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
63377528 CAAGATGATTTGACATCCT
1 CAAGATGGTTTGGCATCCT
63377547 CACAAATCGA
Statistics
Matches: 261, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 183 0.70
84 78 0.30
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:63377983 original size:18 final size:18
Alignment explanation
Indices: 63377944--63378076 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
63377934 AATGATATGT
63377944 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
63377961 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
63377979 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
63377996 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
63378014 AATCTTAGATAT-AATAC
1 AATCTTAGATATGATTAC
*
63378031 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
63378049 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
63378068 AATCTTAGA
1 AATCTTAGA
63378077 AGATATGATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 44 0.43
18 47 0.46
19 11 0.11
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:63377984 original size:35 final size:35
Alignment explanation
Indices: 63377935--63378076 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
63377925 ATAATCTTCA
* *
63377935 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
63377971 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
63378006 ATGATTGCAATCTTAGATATAATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
63378041 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
63378077 AGATATGATT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 82 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:63378396 original size:12 final size:11
Alignment explanation
Indices: 63378381--63378414 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
63378371 TATTTTTAAT
63378381 TTATTATATATA
1 TTATT-TATATA
63378393 TTATTTATTATA
1 TTATTTA-TATA
63378405 TTATTTATAT
1 TTATTTATAT
63378415 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:63378406 original size:21 final size:21
Alignment explanation
Indices: 63378382--63378490 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
63378372 ATTTTTAATT
63378382 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
63378403 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
63378421 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
63378440 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
63378463 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
63378484 TATTATA
1 TATTATA
63378491 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:63378412 original size:16 final size:16
Alignment explanation
Indices: 63378379--63378409 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63378369 CTTATTTTTA
63378379 ATTTATTATATATATT
1 ATTTATTATATATATT
63378395 ATTTATTATAT-TATT
1 ATTTATTATATATATT
63378410 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:63378447 original size:7 final size:7
Alignment explanation
Indices: 63378430--63378579 Score: 56
Period size: 7 Copynumber: 22.4 Consensus size: 7
63378420 AAATTTGTAA
63378430 ATTAT-T
1 ATTATAT
63378436 ATTATAT
1 ATTATAT
63378443 ATTATAT
1 ATTATAT
63378450 -TT-TA-
1 ATTATAT
63378454 ACTTATAT
1 A-TTATAT
63378462 ATCTTATAT
1 A--TTATAT
*
63378471 ATTTATTT
1 A-TTATAT
63378479 ATT-TAT
1 ATTATAT
*
63378485 ATTATAC
1 ATTATAT
63378492 ATTAT-T
1 ATTATAT
* *
63378498 -TTAAAA
1 ATTATAT
*
63378504 ACTTACAT
1 A-TTATAT
*
63378512 -TTTTAT
1 ATTATAT
63378518 ATTATAT
1 ATTATAT
*
63378525 ATTATAA
1 ATTATAT
63378532 ATTAT-T
1 ATTATAT
*
63378538 -TTATTT
1 ATTATAT
63378544 ATTAT-T
1 ATTATAT
*
63378550 ATT-TTT
1 ATTATAT
63378556 A-TATACT
1 ATTATA-T
*
63378563 ATCATAT
1 ATTATAT
*
63378570 ATTATCT
1 ATTATAT
63378577 ATT
1 ATT
63378580 TTAAAATTCA
Statistics
Matches: 109, Mismatches: 18, Indels: 33
0.68 0.11 0.21
Matches are distributed among these distances:
5 11 0.10
6 26 0.24
7 50 0.46
8 14 0.13
9 8 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:63381325 original size:28 final size:30
Alignment explanation
Indices: 63381290--63381357 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
63381280 CAATACAAGT
*
63381290 TATAAAAATTA-TTAAACTTTAATAAAAA-
1 TATAAAAATTATTTAAAATTTAATAAAAAG
* *
63381318 TATAAAAAATATTTAAAATTTACTAAAAAG
1 TATAAAAATTATTTAAAATTTAATAAAAAG
63381348 TAGTAAAAAT
1 TA-TAAAAAT
63381358 ATAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 10 0.30
29 15 0.45
30 2 0.06
31 6 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
TATAAAAATTATTTAAAATTTAATAAAAAG
Found at i:63381399 original size:20 final size:21
Alignment explanation
Indices: 63381376--63381414 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
63381366 TTGTAAATTT
63381376 TTATAAAAATCAT-AAAAAAA
1 TTATAAAAATCATCAAAAAAA
*
63381396 TTATAAAACTCATCAAAAA
1 TTATAAAAATCATCAAAAA
63381415 GGCCCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (21 bp):
TTATAAAAATCATCAAAAAAA
Found at i:63381620 original size:19 final size:20
Alignment explanation
Indices: 63381573--63381627 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
63381563 TTTTGGTATG
*
63381573 ACAATTTTTATAATTCTTTT
1 ACAATTTTTATATTTCTTTT
*
63381593 ACAAATTTTATATTTC-TTT
1 ACAATTTTTATATTTCTTTT
*
63381612 ACATTTTTTATCATTT
1 ACAATTTTTAT-ATTT
63381628 TATTATGACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (20 bp):
ACAATTTTTATATTTCTTTT
Found at i:63384910 original size:24 final size:24
Alignment explanation
Indices: 63384857--63384923 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
63384847 GAGTTGATGG
* *
63384857 ACAGTAAGCTC-TATTGAGCT-GAA
1 ACAGTAAGCTCTTA-CGAGCTAAAA
*
63384880 ACGGTAAGCT-TTGACGAGCTAAAA
1 ACAGTAAGCTCTT-ACGAGCTAAAA
63384904 ACAGTAAGCTCTTACGAGCT
1 ACAGTAAGCTCTTACGAGCT
63384924 GATATATCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 15 0.42
24 19 0.53
25 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTTACGAGCTAAAA
Found at i:63386845 original size:17 final size:17
Alignment explanation
Indices: 63386820--63386853 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63386810 CAGCATTTAA
*
63386820 TTAATTTTTTAAAAAAT
1 TTAAATTTTTAAAAAAT
*
63386837 TTAAATTTTTTAAAAAT
1 TTAAATTTTTAAAAAAT
63386854 ATTATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTTTTAAAAAAT
Found at i:63388330 original size:13 final size:13
Alignment explanation
Indices: 63388312--63388341 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
63388302 CATTTATTTT
63388312 TTTTTGAAAAATA
1 TTTTTGAAAAATA
*
63388325 TTTTTGAAAATTA
1 TTTTTGAAAAATA
63388338 TTTT
1 TTTT
63388342 ATTCCAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTTTGAAAAATA
Found at i:63388375 original size:15 final size:16
Alignment explanation
Indices: 63388353--63388390 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
63388343 TTCCAATTCG
63388353 AATAATTT-TTTGAAA
1 AATAATTTCTTTGAAA
*
63388368 AGTAATTTTCTTTGAAA
1 AATAA-TTTCTTTGAAA
63388385 AATAAT
1 AATAAT
63388391 AAAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (16 bp):
AATAATTTCTTTGAAA
Found at i:63392826 original size:20 final size:19
Alignment explanation
Indices: 63392803--63392851 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
63392793 AACCCTTTTT
63392803 AAAATTTTAAAATTATATAA
1 AAAATTTTAAAATTATA-AA
* *
63392823 AAAATCATAAAAATTATAAA
1 AAAAT-TTTAAAATTATAAA
*
63392843 CAAATTTTA
1 AAAATTTTA
63392852 TAAAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 10 0.43
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTTAAAATTATAAA
Found at i:63392905 original size:23 final size:20
Alignment explanation
Indices: 63392847--63392905 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
63392837 TATAAACAAA
63392847 TTTTATAAAAATATT-TATT
1 TTTTATAAAAATATTATATT
* *
63392866 TTTTAAAAAAAAAATTATAATT
1 TTTT-ATAAAAATATTAT-ATT
63392888 TTTTATTAAAGAATATTA
1 TTTTA-TAAA-AATATTA
63392906 ATACTGACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 4 0.13
20 9 0.29
21 2 0.06
22 10 0.32
23 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTATAAAAATATTATATT
Found at i:63393638 original size:3 final size:3
Alignment explanation
Indices: 63393630--63393655 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63393620 TGACCATTTG
63393630 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
63393656 GAAATAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:63398326 original size:21 final size:22
Alignment explanation
Indices: 63398281--63398326 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
63398271 AAATGAGAGC
* *
63398281 AAACAGTGGGAAAACAATAGCA
1 AAACAGTGGAAAAACAACAGCA
63398303 AAACA-TGGAAAAACAACAGCA
1 AAACAGTGGAAAAACAACAGCA
63398324 AAA
1 AAA
63398327 TAGTAGAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.61, C:0.15, G:0.17, T:0.07
Consensus pattern (22 bp):
AAACAGTGGAAAAACAACAGCA
Found at i:63398723 original size:26 final size:25
Alignment explanation
Indices: 63398668--63398739 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
63398658 TCTAATCCTT
* * *
63398668 ATTTTACCCCTAGCAAAATTTGACA
1 ATTTTACCCTTGGTAAAATTTGACA
*
63398693 ATTTTACCCTTGGTAAAATCTTGACG
1 ATTTTACCCTTGGTAAAAT-TTGACA
* *
63398719 ATTTTGCCATTGGTAAAATTT
1 ATTTTACCCTTGGTAAAATTT
63398740 CAAGAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (25 bp):
ATTTTACCCTTGGTAAAATTTGACA
Found at i:63405122 original size:30 final size:30
Alignment explanation
Indices: 63405088--63405149 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
63405078 ATATTATTAT
* *
63405088 AATAAATAAAGTAAATAAAAGAAA-TAAAAG
1 AATAAACAAA-TAAATAAAAGAAAGGAAAAG
63405118 AATAAACAAATAAATAAAAGAAAGGAAAAG
1 AATAAACAAATAAATAAAAGAAAGGAAAAG
63405148 AA
1 AA
63405150 ACAAAAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (30 bp):
AATAAACAAATAAATAAAAGAAAGGAAAAG
Found at i:63405123 original size:8 final size:9
Alignment explanation
Indices: 63405091--63405158 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
63405081 TTATTATAAT
63405091 AAAT-AAAG
1 AAATAAAAG
63405099 TAAATAAAAG
1 -AAATAAAAG
63405109 AAATAAAAG
1 AAATAAAAG
* *
63405118 AATAAACAAAT
1 AA-ATA-AAAG
63405129 AAATAAAAG
1 AAATAAAAG
*
63405138 AAAGGAAAAG
1 AAA-TAAAAG
*
63405148 AAACAAAAG
1 AAATAAAAG
63405157 AA
1 AA
63405159 CAGAGAAGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 28 0.57
10 16 0.33
11 5 0.10
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (9 bp):
AAATAAAAG
Found at i:63411065 original size:48 final size:48
Alignment explanation
Indices: 63411005--63411219 Score: 201
Period size: 46 Copynumber: 4.6 Consensus size: 48
63410995 AAGCTGACGC
*
63411005 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * * *** * * *
63411053 TATGTCCCAGACATGTCTTACATTAGC-TCT-CGGCTCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * *
63411099 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * * *
63411147 TATGTCCCAGTCATGTCTTACAC-AGGCTCT-CATAATGT---GGCCGATG
1 CATGTCCCAGACATGTCTTACACTA-GCT-TGTAT-ATCTCAAGGCCGATG
63411193 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
63411220 ACACATATCA
Statistics
Matches: 131, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
46 64 0.49
47 5 0.04
48 58 0.44
49 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:63411228 original size:94 final size:93
Alignment explanation
Indices: 63411005--63411219 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 93
63410995 AAGCTGACGC
*
63411005 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATGTATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGTATGTCCCAGACATGTC
* *
63411070 TTACATTAGCTCTCGGCTCAATGTCAATG
66 TTACATCAGCTCTC-GATCAATGTCAATG
* * * *
63411099 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTGATGTATGTCCCAGTCATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGTATGTCCCAGACATGTC
*
63411164 TTACA-CAGGCTCTC-AT-AATGTGGCCGATG
66 TTACATCA-GCTCTCGATCAATGT---CAATG
63411193 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
63411220 ACACATATCA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
91 5 0.05
92 1 0.01
93 1 0.01
94 101 0.94
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGTATGTCCCAGACATGTC
TTACATCAGCTCTCGATCAATGTCAATG
Found at i:63414470 original size:15 final size:17
Alignment explanation
Indices: 63414440--63414471 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
63414430 CTCTTTTTGT
63414440 AGTAGCCTAGTCATCGA
1 AGTAGCCTAGTCATCGA
63414457 AGTAG-CTA-TCATCGA
1 AGTAGCCTAGTCATCGA
63414472 GAACCCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (17 bp):
AGTAGCCTAGTCATCGA
Found at i:63419047 original size:48 final size:47
Alignment explanation
Indices: 63418972--63419134 Score: 161
Period size: 46 Copynumber: 3.5 Consensus size: 47
63418962 AAACTAACGC
*
63418972 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * * ** * *
63419020 CATGTCCTAGACATGTCTTACATTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * * * *
63419066 CATATCCCAGACTTGTCTTACACTGGCTCTCATA-AT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
63419112 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
63419135 AAGCACACAT
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 63 0.70
47 2 0.02
48 25 0.28
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:63423057 original size:26 final size:26
Alignment explanation
Indices: 63423021--63423102 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
63423011 TGAAATTCCA
63423021 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
63423047 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
63423073 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63423099 ATCA
1 ATCA
63423103 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63427210 original size:13 final size:13
Alignment explanation
Indices: 63427194--63427230 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
63427184 TTTAAATCAA
63427194 ACTTTTCAAAATC
1 ACTTTTCAAAATC
63427207 ACTTTTCAAAATC
1 ACTTTTCAAAATC
63427220 ACTTTTCAAAA
1 ACTTTTCAAAA
63427231 GCATTGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAATC
Found at i:63427458 original size:76 final size:76
Alignment explanation
Indices: 63427348--63427604 Score: 286
Period size: 76 Copynumber: 3.4 Consensus size: 76
63427338 AGGACGTATA
* * * * *
63427348 CACACATTTAATATTGTCAG-TT-T-CGGCTAGCGTTGGGCACAAATCTTTGTTGGTTAATTCGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
*
63427410 CTAGTGTTGGG
66 CTAGTGCTGGG
* * *
63427421 CACATATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCAGTCAATCCGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
* *
63427486 CAAGTGGTGGG
66 CTAGTGCTGGG
* ** * ** *
63427497 CACACATTTAATATCGTCGGTTTATCTGACTAATGCTGGGCGTAAATCTTTGACGGTTAATCCGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
63427562 CTAGTGCTGGG
66 CTAGTGCTGGG
* * * * *
63427573 TACACATTTAGTATCGTTGATTTATCCAACTA
1 CACACATTTAATATCGTCGGTTTATCCGACTA
63427605 ACGCTAGATG
Statistics
Matches: 153, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
73 17 0.11
74 2 0.01
75 1 0.01
76 133 0.87
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
CTAGTGCTGGG
Found at i:63427459 original size:40 final size:40
Alignment explanation
Indices: 63427407--63427537 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 40
63427397 TTGGTTAATT
*
63427407 CGACTAGTGTTGGGCACATATTTAATATCGTCGGTTTATC
1 CGACTAGTGTTGGGCACAAATTTAATATCGTCGGTTTATC
* * * **
63427447 CGACTAGCGTTGGGCACAAATCT--T-T-GTCAGTCAATC
1 CGACTAGTGTTGGGCACAAATTTAATATCGTCGGTTTATC
* * *
63427483 CGACAAGTGGTGGGCACACATTTAATATCGTCGGTTTATC
1 CGACTAGTGTTGGGCACAAATTTAATATCGTCGGTTTATC
* * *
63427523 TGACTAATGCTGGGC
1 CGACTAGTGTTGGGC
63427538 GTAAATCTTT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
36 26 0.38
37 1 0.01
38 2 0.03
39 1 0.01
40 39 0.57
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (40 bp):
CGACTAGTGTTGGGCACAAATTTAATATCGTCGGTTTATC
Found at i:63428615 original size:79 final size:79
Alignment explanation
Indices: 63428480--63428637 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
63428470 ATGGTTTGGG
* * * *
63428480 ACACGGTCCACTTACACGACCGTGTGTCTTATTGTCTTTAGGTGCAGGTTTTACACAGCTTGCGA
1 ACACGATCCACTTACACGACCGTGTGTCATATTGTCTTTAGATGCAGGTTTCACACAGCTTGCGA
*
63428545 CATGGACGTGTGAC
66 CAAGGACGTGTGAC
63428559 ACACGATCCACTTACACGACCGTGTGTCATATTGTCTTTAGATGCAGGTTTCACACAGCTTGCGA
1 ACACGATCCACTTACACGACCGTGTGTCATATTGTCTTTAGATGCAGGTTTCACACAGCTTGCGA
*
63428624 CAAGGCCGTGTGAC
66 CAAGGACGTGTGAC
63428638 CTTAATTTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (79 bp):
ACACGATCCACTTACACGACCGTGTGTCATATTGTCTTTAGATGCAGGTTTCACACAGCTTGCGA
CAAGGACGTGTGAC
Found at i:63447595 original size:19 final size:20
Alignment explanation
Indices: 63447557--63447598 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
63447547 CAAGCGTTTA
*
63447557 TTTTAAAAATATTCATATTAT
1 TTTTAAAAATA-TAATATTAT
63447578 TTTTAAAAATA-AATATTAT
1 TTTTAAAAATATAATATTAT
63447597 TT
1 TT
63447599 ATATATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATATAATATTAT
Found at i:63448872 original size:5 final size:5
Alignment explanation
Indices: 63448860--63448891 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
63448850 GAAATGAAAT
*
63448860 TCGAG TCGTG TCGAG TCGAG TCGAG TCGAG TC
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TC
63448892 AAGTGAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.25
Consensus pattern (5 bp):
TCGAG
Found at i:63448977 original size:7 final size:7
Alignment explanation
Indices: 63448965--63448990 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63448955 TTTTATAAAT
63448965 ATTTTAA
1 ATTTTAA
63448972 ATTTTAA
1 ATTTTAA
63448979 ATTTTAA
1 ATTTTAA
63448986 ATTTT
1 ATTTT
63448991 TTGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:63450154 original size:16 final size:16
Alignment explanation
Indices: 63450131--63450166 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
63450121 TAGTTTCCTC
63450131 TATTTTTTTAA-AATT
1 TATTTTTTTAATAATT
63450146 TATTTTTTTAATAATT
1 TATTTTTTTAATAATT
63450162 TATTT
1 TATTT
63450167 GATTGAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTTTAATAATT
Found at i:63452904 original size:117 final size:117
Alignment explanation
Indices: 63452696--63452906 Score: 318
Period size: 117 Copynumber: 1.8 Consensus size: 117
63452686 TTTGATTTGT
** *
63452696 TGGTTATTTGTGGTTTATTATTGCAATTTCAATGTCACAATGTAGGATTTGTTTTGTCGATTTGT
1 TGGTTATTTGTAATTTATTATTGCAATTTCAATGCCACAATGTAGGATTTGTTTTGTCGATTTGT
*
63452761 GATGCAAAAGTGGTCCCGATGTTGTTGATAAAGCTATTGTTAAAATTGTAGA
66 GATGCAAAAGTGGTCCCGATGATGTTGATAAAGCTATTGTTAAAATTGTAGA
* *
63452813 TGGTTATTTGTAATTTATTATTGCAATTTCAGTGCCACAATGTAAGG-TTTGTTTTGTCTATTTG
1 TGGTTATTTGTAATTTATTATTGCAATTTCAATGCCACAATGT-AGGATTTGTTTTGTCGATTTG
* *
63452877 TGATGCGATAA-TGGTCCCGGTGATGTTGAT
65 TGATGC-AAAAGTGGTCCCGATGATGTTGAT
63452907 TTCTGTTACC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
117 78 0.93
118 6 0.07
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.44
Consensus pattern (117 bp):
TGGTTATTTGTAATTTATTATTGCAATTTCAATGCCACAATGTAGGATTTGTTTTGTCGATTTGT
GATGCAAAAGTGGTCCCGATGATGTTGATAAAGCTATTGTTAAAATTGTAGA
Found at i:63459919 original size:26 final size:26
Alignment explanation
Indices: 63459884--63459934 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
63459874 AATGTGAAAG
*
63459884 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
63459910 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
63459935 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:63459946 original size:103 final size:104
Alignment explanation
Indices: 63459806--63460035 Score: 383
Period size: 103 Copynumber: 2.2 Consensus size: 104
63459796 TGTATATAAA
** * *
63459806 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
63459870 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
63459909 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
63459974 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
63460013 AGGGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC
63460036 ATTGTATATT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.76
104 29 0.24
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:63460069 original size:70 final size:71
Alignment explanation
Indices: 63459972--63460105 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 71
63459962 CCACCATATC
*
63459972 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCA
1 TTTGAAA-GTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGATGATTCCA
63460037 TTGTATA
65 TTGTATA
63460044 TTTGAAA-TGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGATGATTCC
1 TTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGATGATTCC
63460106 CCGATTCAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
70 54 0.89
72 7 0.11
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (71 bp):
TTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGATGATTCCAT
TGTATA
Found at i:63467368 original size:27 final size:27
Alignment explanation
Indices: 63467326--63467377 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
63467316 GAAATGTGAA
*
63467326 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
63467353 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
63467378 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:63467429 original size:103 final size:100
Alignment explanation
Indices: 63467287--63467471 Score: 302
Period size: 103 Copynumber: 1.8 Consensus size: 100
63467277 ATGATGGTGC
63467287 TGGTGCTAGTGCGTGCATCCACCATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCC
1 TGGTGCTAGTGCGT-CATCCACCATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCC
63467351 CGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGG
64 CGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGG
63467388 TGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTC
1 TGGTGCT-AGTGCG-TCATCCACC--ATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTC
63467452 CCCGAGGGGTTGCTAAGTGC
62 CCCGAGGGGTTGCTAAGTGC
63467472 GATATCCATT
Statistics
Matches: 79, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
101 14 0.18
102 6 0.08
103 39 0.49
104 20 0.25
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (100 bp):
TGGTGCTAGTGCGTCATCCACCATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGG
Found at i:63467447 original size:77 final size:70
Alignment explanation
Indices: 63467353--63467539 Score: 227
Period size: 69 Copynumber: 2.6 Consensus size: 70
63467343 GATTCCCCCG
* *
63467353 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGG-TGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTATGTGCTGATTCCCCGG---A--GG-GGTTGCTAAGTGCGATATCCACCATATAT
63467417 TTGAAATGTGAAA
60 TTGAAA--TGAAA
* ***
63467430 GGGGGTTGCTATGTGCTGATTCCCC-GAGGGGTTGCTAAGTGCGATATCCATTGTATATTTGAAA
1 AGGGGTTGCTATGTGCTGATTCCCCGGAGGGGTTGCTAAGTGCGATATCCACCATATATTTGAAA
63467494 TGAAA
66 TGAAA
63467499 AGGGGTTGCTATGTGCTGATTCCCC-GAGGGGTTGCTAAGTG
1 AGGGGTTGCTATGTGCTGATTCCCCGGAGGGGTTGCTAAGTG
63467540 ATGATTCCCC
Statistics
Matches: 102, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
69 45 0.44
70 2 0.02
71 30 0.29
73 1 0.01
76 1 0.01
77 23 0.23
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (70 bp):
AGGGGTTGCTATGTGCTGATTCCCCGGAGGGGTTGCTAAGTGCGATATCCACCATATATTTGAAA
TGAAA
Found at i:63467521 original size:69 final size:70
Alignment explanation
Indices: 63467391--63467539 Score: 237
Period size: 69 Copynumber: 2.1 Consensus size: 70
63467381 TCATTGGTGG
* *
63467391 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTGAAAAGGGGTTGCTATGTGCTGATTCCCCG
63467456 AGGGGT
65 AGGGGT
***
63467462 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
1 TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
63467526 GGGGT
66 GGGGT
63467531 TGCTAAGTG
1 TGCTAAGTG
63467540 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 45 0.62
71 28 0.38
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
GGGGT
Found at i:63467535 original size:26 final size:26
Alignment explanation
Indices: 63467499--63467551 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
63467489 TGAAATGAAA
* *
63467499 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCG
63467525 AGGGGTTGCTAAGTGATGATTCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCG
63467551 A
1 A
63467552 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGATGATTCCCCG
Found at i:63469849 original size:16 final size:16
Alignment explanation
Indices: 63469828--63469866 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
63469818 TTTTTGGTTG
*
63469828 GTATAGAGTGGATGGT
1 GTATAGAGTGAATGGT
*
63469844 GTATAGGGTGAATGGT
1 GTATAGAGTGAATGGT
63469860 GTATAGA
1 GTATAGA
63469867 CTAATCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.41, T:0.31
Consensus pattern (16 bp):
GTATAGAGTGAATGGT
Found at i:63470274 original size:211 final size:212
Alignment explanation
Indices: 63469891--63470313 Score: 735
Period size: 211 Copynumber: 2.0 Consensus size: 212
63469881 TTATAAAGTG
*
63469891 CATTTATCCAAATTGCAATGTGGAAATCATATGCTTAAATAATCAAATTTGTCCTTTTAGTTTTA
1 CATTTATCCAAATTGCAATGTGGAAATCATATGCTTAAATAATCAAATTTGTCCTTTTAGTCTTA
* *
63469956 TGTTTATTGTCACTGTATTATTTATTAAGCTAAATTAAATTAGGCATAAACAACAAATATTGGTC
66 TGTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTGGTC
63470021 ATTACTTCCAAGCATAATGTTAAATTACATAAAAAAAACAACCAATATTGATCAATCAACATTTG
131 ATTACTTCCAAGCATAATGTTAAATTACATAAAAAAAACAACCAATATTGATCAATCAACATTTG
63470086 CAATTGCTAGCTGCATA
196 CAATTGCTAGCTGCATA
*
63470103 CATTTATCC-AATTGCAATAG-GGAAATCATATGCTTAAATGATCAAATTTGTCCTTTTAGTCTT
1 CATTTATCCAAATTGCAAT-GTGGAAATCATATGCTTAAATAATCAAATTTGTCCTTTTAGTCTT
* *
63470166 ATGTTTATTGTCATTGCATTATTTACTAAG-TAAATTAAATTAGGCATAAATAACAAATATTGGT
65 ATGTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTGGT
* *
63470230 CATTACTTCGAAGCATAATGTTAAATTACATAAAAAACAACAACCAATATTGGTCAATCAACATT
130 CATTACTTCCAAGCATAATGTTAAATTACATAAAAAA-AACAACCAATATTGATCAATCAACATT
63470295 TGCAATTGCTAGCTGCATA
194 TGCAATTGCTAGCTGCATA
63470314 TGCCTCTTAT
Statistics
Matches: 201, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
210 69 0.34
211 122 0.61
212 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (212 bp):
CATTTATCCAAATTGCAATGTGGAAATCATATGCTTAAATAATCAAATTTGTCCTTTTAGTCTTA
TGTTTATTGTCACTGCATTATTTACTAAGCTAAATTAAATTAGGCATAAACAACAAATATTGGTC
ATTACTTCCAAGCATAATGTTAAATTACATAAAAAAAACAACCAATATTGATCAATCAACATTTG
CAATTGCTAGCTGCATA
Found at i:63479092 original size:48 final size:52
Alignment explanation
Indices: 63479006--63479110 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 52
63478996 CCCTACTAAT
*
63479006 TTATATAAAATTATCCAATTTAATGCTAGCTTTAACCTTACCACCCTTTTATAG
1 TTATATAAAATTATCCAATTTAA--CTAGCTTTAACCTTACCACCCTCTTATAG
*
63479060 TTATAT-AAATTATCCAATTTAA-T-GC-TTAACCTTACCGCCCTCTTATAG
1 TTATATAAAATTATCCAATTTAACTAGCTTTAACCTTACCACCCTCTTATAG
63479108 TTA
1 TTA
63479111 GGGGTGGCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
48 24 0.49
49 2 0.04
50 1 0.02
53 16 0.33
54 6 0.12
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (52 bp):
TTATATAAAATTATCCAATTTAACTAGCTTTAACCTTACCACCCTCTTATAG
Found at i:63479209 original size:13 final size:15
Alignment explanation
Indices: 63479191--63479222 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
63479181 TCATTTTTGG
63479191 TTTTTTA-TAT-AAT
1 TTTTTTATTATGAAT
63479204 TTTTTTATTATGAAT
1 TTTTTTATTATGAAT
63479219 TTTT
1 TTTT
63479223 AAACTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTTATTATGAAT
Found at i:63488120 original size:21 final size:21
Alignment explanation
Indices: 63488096--63488136 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
63488086 ATTTATGAAA
63488096 CTACTTACTTCCATCTCAAAC
1 CTACTTACTTCCATCTCAAAC
63488117 CTACTTACTTCCATCTCAAA
1 CTACTTACTTCCATCTCAAA
63488137 AAAGTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (21 bp):
CTACTTACTTCCATCTCAAAC
Found at i:63488586 original size:30 final size:30
Alignment explanation
Indices: 63488550--63488607 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
63488540 CAATTTAACA
63488550 AGCAAATG-CCTCTAAAATAATAACAAAATT
1 AGCAAATGTCCT-TAAAATAATAACAAAATT
* *
63488580 AGCAAATGTCGTTAAAATAATAATAAAA
1 AGCAAATGTCCTTAAAATAATAACAAAA
63488608 ATTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (30 bp):
AGCAAATGTCCTTAAAATAATAACAAAATT
Found at i:63494659 original size:11 final size:11
Alignment explanation
Indices: 63494643--63494667 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
63494633 TCTTAAATTC
63494643 AAAAAAAAAGA
1 AAAAAAAAAGA
63494654 AAAAAAAAAGA
1 AAAAAAAAAGA
63494665 AAA
1 AAA
63494668 GAATAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:63495076 original size:27 final size:28
Alignment explanation
Indices: 63495020--63495078 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
63495010 AATTATTAAT
* *
63495020 TTAATTCTATAATTTAATTTAATAACTA
1 TTAATTCTATAATGTAATTTAATAAATA
*
63495048 TTAATTTTA-AATGTAATTATAA-AAATA
1 TTAATTCTATAATGTAATT-TAATAAATA
63495075 TTAA
1 TTAA
63495079 AATGATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
TTAATTCTATAATGTAATTTAATAAATA
Found at i:63495126 original size:22 final size:22
Alignment explanation
Indices: 63495068--63495128 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
63495058 ATGTAATTAT
63495068 AAAAATATTAAAATGATTAAAATA
1 AAAAATATTAAAA--ATTAAAATA
* **
63495092 AAAAA-ATAAAAAATTAATTTA
1 AAAAATATTAAAAATTAAAATA
63495113 AAAAATATTAAAAATT
1 AAAAATATTAAAAATT
63495129 TGCATCAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.38
22 9 0.28
23 6 0.19
24 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATATTAAAAATTAAAATA
Found at i:63504664 original size:46 final size:47
Alignment explanation
Indices: 63504515--63504688 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
63504505 TCATTTGTGT
* * *
63504515 GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTTGT-AGA
* * * * **
63504561 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGTTGTAGA
* *
63504609 GCTATTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTTGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTTGTAGA
*
63504655 GCTAGTGTAAGACATGTTTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
63504689 TACAAAATGT
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 55 0.53
47 26 0.25
48 21 0.20
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTTGTAGA
Found at i:63504724 original size:45 final size:49
Alignment explanation
Indices: 63504662--63504782 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 49
63504652 TAAGCTAGTG
*
63504662 TAAGA-CATGTTTGGGACAT-GCATCGGCTAC-AA-A-AT-GTGTCAGTC
1 TAAGACCATGTTTGGGACATGGCATCGGC-ACGAATACATAGAGTCAGTC
* *
63504706 TAAGACCATGTTTGGGACATGGCATCGGCACGAATACGTGAGAGTCAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCACGAATACAT-AGAGTCAGTC
63504756 TAAGACCATGTTTGGGACATGGCATCG
1 TAAGACCATGTTTGGGACATGGCATCG
63504783 ACTTGATGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 5 0.07
45 16 0.24
46 10 0.15
47 1 0.01
48 1 0.01
50 34 0.51
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
TAAGACCATGTTTGGGACATGGCATCGGCACGAATACATAGAGTCAGTC
Found at i:63504830 original size:47 final size:45
Alignment explanation
Indices: 63504518--63504831 Score: 176
Period size: 47 Copynumber: 6.7 Consensus size: 45
63504508 TTTGTGTGCT
*
63504518 AGTGTAAGACATTTCTGGGACAT-GCATCGGCCACATT-AT-GAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-G--AC-TTGATGGAGAGCC
* * *
63504564 AGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGA-GACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGAC-TTGATG--GAGAGCC
* * * * *
63504612 ATTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGTTGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGGCATC-GACTTGA--TGGAGAGCC
* * ** ** * *
63504658 AGTGTAAGACATGTTTGGGACAT-GCATCGGCTACA-AAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACTTGATGGA-GAGCC
* * * ** *
63504702 AGTCTAAGACCATGTTTGGGACATGGCATCGGCACGAATACGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTTG-AT--G-GAGAGCC
*
63504752 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTTGATGGA-GAGCC
63504799 AGTGTAAGACTATGTCTGGGACATGGCATCGAC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGAC
63504832 ATTATACCCT
Statistics
Matches: 215, Mismatches: 32, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
44 9 0.04
45 22 0.10
46 59 0.27
47 65 0.30
48 19 0.09
49 3 0.01
50 36 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTTGATGGAGAGCC
Found at i:63517336 original size:51 final size:51
Alignment explanation
Indices: 63517260--63517414 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
63517250 CAGTTTAAAG
63517260 TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATATTATGATTTGAAT
1 TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATATTATGATTTGAAT
63517311 TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATATTATGATTTGAAT
1 TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATATTATGATTTGAAT
* * * * *
63517362 TAGGTGCTTGTCAATAAAACATTGAGAATTTATATATATTTGTGATTT-AAT
1 TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATA-TTATGATTTGAAT
63517413 TA
1 TA
63517415 TAATTTATGA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 90 0.92
52 8 0.08
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (51 bp):
TAGGTGCTTGTCACTAAAGCATTGAAAAGTTATATATATTATGATTTGAAT
Found at i:63522419 original size:25 final size:25
Alignment explanation
Indices: 63522385--63522491 Score: 85
Period size: 25 Copynumber: 4.3 Consensus size: 25
63522375 CGGACACACC
*
63522385 ACAGCTCTTATGAACTTCTCGATT-T
1 ACAGCTCTTATGAACTTC-CCATTAT
*
63522410 ACAGCTCTTATGAGCTTCCCATTAT
1 ACAGCTCTTATGAACTTCCCATTAT
***
63522435 ACAGCTAACAT-AAGCTTCCCGA-TAT
1 ACAGCTCTTATGAA-CTTCCC-ATTAT
* * *
63522460 TCAGCTCTCATGAGCTTCCCATTAT
1 ACAGCTCTTATGAACTTCCCATTAT
*
63522485 TCAGCTC
1 ACAGCTC
63522492 GGAGGAGCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.09
25 59 0.88
26 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (25 bp):
ACAGCTCTTATGAACTTCCCATTAT
Found at i:63522499 original size:25 final size:25
Alignment explanation
Indices: 63522447--63522501 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
63522437 AGCTAACATA
* *
63522447 AGCTTCCCGATATTCAGCTCTCATG
1 AGCTTCCCGATATTCAGCTCGCAGG
*
63522472 AGCTTCCC-ATTATTCAGCTCGGAGG
1 AGCTTCCCGA-TATTCAGCTCGCAGG
63522497 AGCTT
1 AGCTT
63522502 TCGATTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGATATTCAGCTCGCAGG
Found at i:63526211 original size:60 final size:61
Alignment explanation
Indices: 63526145--63526292 Score: 208
Period size: 61 Copynumber: 2.4 Consensus size: 61
63526135 TACCATAAAA
*
63526145 GCTTTCCTGTTTAGAGTTGTGCCACAAA-GGCATCATTTATATCCAAAACTCGCCACAAAG
1 GCTTTCCTGTTCAGAGTTGTGCCACAAATGGCATCATTTATATCCAAAACTCGCCACAAAG
* * * * * **
63526205 GTTTTCCTGTCCAGAGTTGTGCCACAAATGTCATCCTTTATATCTAGTACTCGCCACAAAG
1 GCTTTCCTGTTCAGAGTTGTGCCACAAATGGCATCATTTATATCCAAAACTCGCCACAAAG
*
63526266 GCTTTCATGTTCAGAGTTGTGCCACAA
1 GCTTTCCTGTTCAGAGTTGTGCCACAA
63526293 GGCTGTCCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
60 25 0.33
61 51 0.67
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (61 bp):
GCTTTCCTGTTCAGAGTTGTGCCACAAATGGCATCATTTATATCCAAAACTCGCCACAAAG
Found at i:63526281 original size:61 final size:60
Alignment explanation
Indices: 63526074--63526292 Score: 206
Period size: 60 Copynumber: 3.6 Consensus size: 60
63526064 CATTTAGTAA
* * * * * * * * * *
63526074 TCGCAACAAGGGCTTTCCTGTCCAGAGTT-TTCTACAAAGGTTATCTTTTACATTCAATAC
1 TCGCCACAAAGGCTTTCCTGTTCAGAGTTGTGCCACAAAGG-CATCATTTATATCCAAAAC
** * * *
63526134 TTACCATAAAAGCTTTCCTGTTTAGAGTTGTGCCACAAAGGCATCATTTATATCCAAAAC
1 TCGCCACAAAGGCTTTCCTGTTCAGAGTTGTGCCACAAAGGCATCATTTATATCCAAAAC
* * * * * **
63526194 TCGCCACAAAGGTTTTCCTGTCCAGAGTTGTGCCACAAATGTCATCCTTTATATCTAGTAC
1 TCGCCACAAAGGCTTTCCTGTTCAGAGTTGTGCCACAAA-GGCATCATTTATATCCAAAAC
*
63526255 TCGCCACAAAGGCTTTCATGTTCAGAGTTGTGCCACAA
1 TCGCCACAAAGGCTTTCCTGTTCAGAGTTGTGCCACAA
63526293 GGCTGTCCTT
Statistics
Matches: 127, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
60 67 0.53
61 60 0.47
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (60 bp):
TCGCCACAAAGGCTTTCCTGTTCAGAGTTGTGCCACAAAGGCATCATTTATATCCAAAAC
Found at i:63529413 original size:17 final size:18
Alignment explanation
Indices: 63529382--63529415 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63529372 CCCTAGCCCC
*
63529382 ATTTTTAATGTTCTTTGT
1 ATTTTTAAAGTTCTTTGT
63529400 ATTTTTAAAG-TCTTTG
1 ATTTTTAAAGTTCTTTG
63529416 AAGCATGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
ATTTTTAAAGTTCTTTGT
Found at i:63530413 original size:27 final size:27
Alignment explanation
Indices: 63530382--63530433 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
63530372 AACAGGTAAA
63530382 CTTATGAGTCAATCGATAAGTAAATAG
1 CTTATGAGTCAATCGATAAGTAAATAG
63530409 CTTATGAGTCAATCGATAAGTAAAT
1 CTTATGAGTCAATCGATAAGTAAAT
63530434 CAATGAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (27 bp):
CTTATGAGTCAATCGATAAGTAAATAG
Found at i:63537074 original size:21 final size:21
Alignment explanation
Indices: 63537048--63537089 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
63537038 AACAAAAAGG
63537048 GAAGTGCTAGCTGAATTTCTC
1 GAAGTGCTAGCTGAATTTCTC
63537069 GAAGTGCTAGCTGAATTTCTC
1 GAAGTGCTAGCTGAATTTCTC
63537090 AATATCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
GAAGTGCTAGCTGAATTTCTC
Found at i:63538431 original size:6 final size:6
Alignment explanation
Indices: 63538417--63538491 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
63538407 ACTAATGTTT
*
63538417 ATATAC ATATGC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
63538465 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
63538492 ACTATGATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:63550095 original size:19 final size:19
Alignment explanation
Indices: 63550071--63550118 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
63550061 GATCAAATAC
*
63550071 AAGAAAATATGGAACTAAA
1 AAGAAAATATGGAAATAAA
*
63550090 AAGAAAGGAATATGGAAATAAG
1 AAG-AA--AATATGGAAATAAA
63550112 AAGAAAA
1 AAGAAAA
63550119 GTTGTCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 2 0.08
22 15 0.62
ACGTcount: A:0.65, C:0.02, G:0.21, T:0.12
Consensus pattern (19 bp):
AAGAAAATATGGAAATAAA
Found at i:63550103 original size:22 final size:22
Alignment explanation
Indices: 63550076--63550117 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
63550066 AATACAAGAA
*
63550076 AATATGGAACTAAAAAGAAAGG
1 AATATGGAAATAAAAAGAAAGG
*
63550098 AATATGGAAATAAGAAGAAA
1 AATATGGAAATAAAAAGAAA
63550118 AGTTGTCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.14
Consensus pattern (22 bp):
AATATGGAAATAAAAAGAAAGG
Found at i:63554479 original size:36 final size:36
Alignment explanation
Indices: 63554399--63554483 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
63554389 CTACCTTCAT
* * *
63554399 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTG
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
* *
63554436 TCTATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
63554472 CCGATTTGCTCC
1 CCGATTTGCTCC
63554484 CCCCGTTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.03
36 32 0.80
37 7 0.17
ACGTcount: A:0.07, C:0.24, G:0.11, T:0.59
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:63557734 original size:91 final size:91
Alignment explanation
Indices: 63557587--63557794 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
63557577 TTGATTTTAG
* *
63557587 TAAATTCATATAAGAACATTTTATTATTAAGAATGTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTAT
* * *
63557652 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
63557679 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
63557744 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
63557770 AAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
63557795 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:63557755 original size:44 final size:43
Alignment explanation
Indices: 63557625--63557769 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
63557615 AAGAATGTTA
* *
63557625 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
63557669 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
63557715 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
63557760 TTAAATTATA
1 TGAAATTATA
63557770 AAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:63557761 original size:47 final size:46
Alignment explanation
Indices: 63557622--63557762 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 46
63557612 ATTAAGAATG
* *
63557622 TTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-T
1 TTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * * *
63557668 TT-T-AAATTGTATA-AATTCATATAAGA-AAAATT-ATTATCAATAATT
1 TTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATTATT
*
63557713 TTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 TTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
63557760 TTA
1 TTA
63557763 AATTATAAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 17 0.24
45 10 0.14
46 10 0.14
47 21 0.30
48 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (46 bp):
TTATGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:63557763 original size:26 final size:28
Alignment explanation
Indices: 63557709--63557769 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
63557699 TATTATCAAT
* *
63557709 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
63557737 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
63557763 AATTATA
1 AATTATA
63557770 AAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:63557965 original size:16 final size:16
Alignment explanation
Indices: 63557944--63557985 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63557934 TTATTAAATT
*
63557944 ATATATTTTAATTATA
1 ATATATTTTAATAATA
63557960 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
63557975 AT-TATGTTTAA
1 ATATAT-TTTAA
63557986 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:63557970 original size:15 final size:15
Alignment explanation
Indices: 63557935--63557976 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
63557925 TTAAGAATTT
*
63557935 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63557949 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63557963 TATTTAATAATAAT
1 TATTTAATTATAAT
63557977 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63558222 original size:16 final size:16
Alignment explanation
Indices: 63558201--63558268 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
63558191 GATTTGCTAT
63558201 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
63558217 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
63558233 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63558249 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63558265 TACA
1 TACA
63558269 GCGAACCTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63558734 original size:29 final size:29
Alignment explanation
Indices: 63558679--63558736 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
63558669 TGTTTTTTGG
*
63558679 CCCATTTCAATAAATAAAGTTTAAAATGA
1 CCCATTTCAATAAATAAAGTTAAAAATGA
**
63558708 CCCATTTCTGTAAATAAAG-TAAGAAATGA
1 CCCATTTCAATAAATAAAGTTAA-AAATGA
63558737 GTTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (29 bp):
CCCATTTCAATAAATAAAGTTAAAAATGA
Found at i:63570038 original size:32 final size:32
Alignment explanation
Indices: 63569995--63570090 Score: 138
Period size: 32 Copynumber: 3.0 Consensus size: 32
63569985 TTTTTTTTTT
* *
63569995 TTGCCAAGTTTTCTTTCTTGGAGGGGAAGTTA
1 TTGCCATGTTTTCTTTCTTGGAGGGGAAATTA
* *
63570027 TTGCCATGTTTTCTTTCTTAGAAGGGAAATTA
1 TTGCCATGTTTTCTTTCTTGGAGGGGAAATTA
* *
63570059 TTACCATGTTTTCTTTCTTGAAGGGGAAATTA
1 TTGCCATGTTTTCTTTCTTGGAGGGGAAATTA
63570091 GAGTCGTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (32 bp):
TTGCCATGTTTTCTTTCTTGGAGGGGAAATTA
Found at i:63585385 original size:50 final size:49
Alignment explanation
Indices: 63585307--63585401 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 49
63585297 TTATGGAGGG
* **
63585307 TGGTAATAAAGGCCTTGTTCCCAAACACATAGGGAAAGGCTTACAGAATA
1 TGGTAATAAAGGCCCTACTCCCAAACACAT-GGGAAAGGCTTACAGAATA
* * **
63585357 TGGTAATAAAGGCCCTACTCCTAGACACATGGGGGAGGCTTACAG
1 TGGTAATAAAGGCCCTACTCCCAAACACATGGGAAAGGCTTACAG
63585402 TAAAAAAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 13 0.34
50 25 0.66
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (49 bp):
TGGTAATAAAGGCCCTACTCCCAAACACATGGGAAAGGCTTACAGAATA
Found at i:63605121 original size:21 final size:22
Alignment explanation
Indices: 63605086--63605130 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
63605076 GAAAACAGGG
*
63605086 CACAGCCCGTGTAAGAGGGCAA
1 CACAGCCCATGTAAGAGGGCAA
63605108 CACA-CCCATGTAAGAGGGCAA
1 CACAGCCCATGTAAGAGGGCAA
63605129 CA
1 CA
63605131 TGCCTGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.29, G:0.27, T:0.09
Consensus pattern (22 bp):
CACAGCCCATGTAAGAGGGCAA
Found at i:63605140 original size:21 final size:20
Alignment explanation
Indices: 63605082--63605140 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
63605072 CTTTGAAAAC
63605082 AGGGC-ACAGCCCGTGTAAG
1 AGGGCAACAGCCCGTGTAAG
* *
63605101 AGGGCAACACACCCATGTAAG
1 AGGGCAACA-GCCCGTGTAAG
*
63605122 AGGGCAACATGCCTGTGTA
1 AGGGCAACA-GCCCGTGTA
63605141 GAACTTGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 24 0.75
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.14
Consensus pattern (20 bp):
AGGGCAACAGCCCGTGTAAG
Found at i:63606321 original size:47 final size:47
Alignment explanation
Indices: 63606252--63606561 Score: 276
Period size: 47 Copynumber: 6.7 Consensus size: 47
63606242 GGTATAATAC
* *
63606252 CGATGCCATGTGCCAAACATGGTCTTACACTGGCTCATCCATCAAGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCAAGTG
* * *
63606299 CGATGCCATGTCTCAGACATGGTCTTACACTGGCACATCTAT-ACGTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ATCAAGTG
* *
63606346 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TC--GTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAAGT-G
* *
63606392 CTGATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCGAG-G
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATCAAGTG
* *
63606438 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCCTCTCAA-TG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-C-ATCAAGTG
63606484 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT-AATGTGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAA-GT-G
63606532 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 C-GATGCCATGTCCCAGACATGGTCTTACACT
63606562 AGCACACAAA
Statistics
Matches: 227, Mismatches: 15, Indels: 43
0.80 0.05 0.15
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 20 0.09
46 65 0.29
47 67 0.30
48 60 0.26
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAAGTG
Found at i:63606449 original size:46 final size:46
Alignment explanation
Indices: 63606251--63606561 Score: 271
Period size: 46 Copynumber: 6.7 Consensus size: 46
63606241 GGGTATAATA
* * *
63606251 CCGATGCCATGTGCCAAACATGGTCTTACACTGGCTCATCCATC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-C-TCGAGG
* * * **
63606298 TCGATGCCATGTCTCAGACATGGTCTTACACTGGCACATCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGA-G-G
* *
63606346 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCG-AGG
* *
63606392 CTGATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTCGAGG
* * * *
63606438 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCCTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATCTCGAGG
* * *
63606484 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-T--CGAGG
*
63606532 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
63606562 AGCACACAAA
Statistics
Matches: 222, Mismatches: 28, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.05
45 17 0.08
46 70 0.32
47 65 0.29
48 57 0.26
49 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCGAGG
Found at i:63606516 original size:94 final size:95
Alignment explanation
Indices: 63606251--63606564 Score: 316
Period size: 94 Copynumber: 3.4 Consensus size: 95
63606241 GGGTATAATA
* * * * *
63606251 CCGATGCCATGTGCCAAACATGGTCTTACACTGGCTCATCC-ATCAA-G-TCGATGCCATGTCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCTCTCAATGCT-GATGCCATGTCCC
*
63606313 AGACATGGTCTTACACTGGC--ACATCTATACGTG
64 AGACATGGTCTTACACTGGCTTACATCT-GA-G-G
* * * * *
63606346 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTAGCTGATG-TATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAAT-GCTGATGCCATGTCCCA
63606407 GACAT-GTCTTACACTGGCTTACATCTCGAGG
65 GACATGGTCTTACACTGGCTTACATCT-GAGG
63606438 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCCTCTCAATGCTGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAATGCTGATGCCATGTCCCAG
* *
63606501 ACATGGTCTTACACTGGCTCT-CATAATGTGG
66 ACATGGTCTTACACTGGCT-TACAT-CTGAGG
*
63606532 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
63606565 ACACAAATAA
Statistics
Matches: 187, Mismatches: 19, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
90 10 0.05
91 15 0.08
92 34 0.18
93 30 0.16
94 65 0.35
95 33 0.18
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAATGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTTACATCTGAGG
Found at i:63609361 original size:16 final size:17
Alignment explanation
Indices: 63609331--63609363 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63609321 ATAGGTTAGA
*
63609331 ATTTTTTTTTATAATTT
1 ATTTTATTTTATAATTT
63609348 ATTTTATTTT-TAATTT
1 ATTTTATTTTATAATTT
63609364 TTGAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTATTTTATAATTT
Found at i:63613241 original size:18 final size:19
Alignment explanation
Indices: 63613218--63613256 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63613208 TACAAATACA
*
63613218 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
63613236 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
63613255 AA
1 AA
63613257 TCAAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Done.