Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 79 of 135
Found at i:26425063 original size:78 final size:78
Alignment explanation
Indices: 26424964--26425653 Score: 678
Period size: 78 Copynumber: 8.9 Consensus size: 78
26424954 CCATAATCAG
* * * * * * * ** *
26424964 GGTAACAGA-TTGACTGATGGTGATCTACCCTAGGCTTGGGGTAAAAGATCGAATGATTGTAATC
1 GGTAAGAGATTTG-CTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATC
26425028 TGCCCTAGGCTCGA
65 TGCCCTAGGCTCGA
* * * * * * **
26425042 GGTAAGAGATTGGTTGATGGTGATCTGCTCGAGGCTCGGGGTAAAAGATAAGATGGCTGCAATCT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
* * * *
26425107 GCCCCATGATCGG
66 GCCCTAGGCTCGA
* * * *
26425120 GGTAAGAGATTTGCTAAAGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATTT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
*
26425185 G-CCTCAGGCT-TA
66 GCCCT-AGGCTCGA
* * * * *
26425197 GGGTAAGAGATTTACTAATGATGATCTGCCTCAAGCTCGGGGTAAGAGATCGGATAGCTGCAATC
1 -GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATC
* * *
26425262 TG-CCTCATGATCGG
65 TGCCCT-AGGCTCGA
* * * *
26425276 GGTAAGAGATTTGCTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCTGATGGCTGTAATCT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
*
26425341 GCCC-AGGCTCGG
66 GCCCTAGGCTCGA
* * * * *
26425353 GGTGAGAGATTTACTGATGATGATCTTCCCTAGGCTCGAGGTAAGAGATCGGATGGCTGCAATCT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
* *
26425418 ACCCCAGGCTC-A
66 GCCCTAGGCTCGA
* ** *
26425430 GGGTAAGAGATTTGCTGATGATGATCTACCCCAGGCTCGGGGTAAGAGATCCAATGGCTGCGATC
1 -GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATC
*
26425495 TG-CCTCAGGCTCAA
65 TGCCCT-AGGCTCGA
* * * * ** *
26425509 GGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCTCAAGGTAAAAGATCGGATGGCTGCAATCT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
* * * *
26425574 GCCCTATGATTGG
66 GCCCTAGGCTCGA
* *
26425587 GGTAAGAGATTTGTTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGAT--CTTCAATCT
1 GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
26425650 GCCC
66 GCCC
26425654 CCTTGATTAA
Statistics
Matches: 505, Mismatches: 97, Indels: 22
0.81 0.16 0.04
Matches are distributed among these distances:
76 12 0.02
77 71 0.14
78 414 0.82
79 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
GGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGGCTGCAATCT
GCCCTAGGCTCGA
Found at i:26425235 original size:156 final size:157
Alignment explanation
Indices: 26424946--26425652 Score: 788
Period size: 156 Copynumber: 4.5 Consensus size: 157
26424936 GAATGACTGT
* * * * * * * *
26424946 AATCTGCCCCATAATCAGGGTAACAGA-TTGACTGATGGTGATCTACCCTAGGCTTGGGGTAAAA
1 AATCTGCCCCATGATCGGGGTAAGAGATTTG-CTGATGATGATCTGCCCCAGGCTCGGGGTAAGA
* ** * *** *
26425010 GATCGAATGATTGTAATCTGCC-CTAGGCTC-GAGGTAAGAGATTGGTTGATGGTGATCTG-CTC
65 GATCGGATGGCTGCAATCTGCCTC-AGGCTCAG-GGTAAGAGATTTACTGATGATGATCTGCCTC
* **
26425072 GAGGCTCGGGGTAAAAGATAAGATGGCTGC
128 GAGGCTCGAGGTAAAAGATCGGATGGCTGC
* * *
26425102 AATCTGCCCCATGATCGGGGTAAGAGATTTGCTAAAGATGATCTGCCCCAAGCTCGGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
* * * *
26425167 ATCGGATGGCTGCAATTTGCCTCAGGCTTAGGGTAAGAGATTTACTAATGATGATCTGCCTC-AA
66 ATCGGATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAGATTTACTGATGATGATCTGCCTCGAG
* * *
26425231 GCTCGGGGTAAGAGATCGGATAGCTGC
131 GCTCGAGGTAAAAGATCGGATGGCTGC
* * *
26425258 AATCTGCCTCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCTAGGCTCGGGGTAAAAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
* * * * * *
26425323 ATCTGATGGCTGTAATCTGCC-CAGGCTCGGGGTGAGAGATTTACTGATGATGATCTTCC-CTAG
66 ATCGGATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAGATTTACTGATGATGATCTGCCTCGAG
*
26425386 GCTCGAGGTAAGAGATCGGATGGCTGC
131 GCTCGAGGTAAAAGATCGGATGGCTGC
* * * * *
26425413 AATCTACCCCAGGCTCAGGGTAAGAGATTTGCTGATGATGATCTACCCCAGGCTCGGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
** * * * * * *
26425478 ATCCAATGGCTGCGATCTGCCTCAGGCTCAAGGTAAGAGATTGGA-TGACGGTGATCTGCC-CCA
66 ATCGGATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAGATT-TACTGATGATGATCTGCCTCGA
*
26425541 GGCTCAAGGTAAAAGATCGGATGGCTGC
130 GGCTCGAGGTAAAAGATCGGATGGCTGC
* * *
26425569 AATCTGCCCTATGATTGGGGTAAGAGATTTGTTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
1 AATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
*
26425634 ATCGGAT--CTTCAATCTGCC
66 ATCGGATGGCTGCAATCTGCC
26425653 CCCTTGATTA
Statistics
Matches: 466, Mismatches: 78, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
154 11 0.02
155 133 0.29
156 313 0.67
157 9 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (157 bp):
AATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGATGATCTGCCCCAGGCTCGGGGTAAGAG
ATCGGATGGCTGCAATCTGCCTCAGGCTCAGGGTAAGAGATTTACTGATGATGATCTGCCTCGAG
GCTCGAGGTAAAAGATCGGATGGCTGC
Found at i:26437929 original size:29 final size:29
Alignment explanation
Indices: 26437890--26437978 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
26437880 TGAAAATTAC
26437890 AATTTAGGGATCAAAATTGAATTTTTGGAA
1 AATTT-GGGATCAAAATTGAATTTTTGGAA
* * *
26437920 AATTTGGGATTAAAATTGAACTTTTAGAA
1 AATTTGGGATCAAAATTGAATTTTTGGAA
* *
26437949 AATTTGAGGTTGAAAATGTG-ATTTTTGGAA
1 AATTTG-GGATCAAAAT-TGAATTTTTGGAA
26437979 GTTTGAGGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 27 0.54
30 21 0.42
31 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (29 bp):
AATTTGGGATCAAAATTGAATTTTTGGAA
Found at i:26437983 original size:29 final size:29
Alignment explanation
Indices: 26437961--26438120 Score: 128
Period size: 29 Copynumber: 5.5 Consensus size: 29
26437951 TTTGAGGTTG
26437961 AAAAT-GTGATTTTTGGAAGTTTGAGGGC
1 AAAATGGTGATTTTTGGAAGTTTGAGGGC
* * *
26437989 AAAATGGTGATTTTTGGATGCTCGAGGGC
1 AAAATGGTGATTTTTGGAAGTTTGAGGGC
* * * * *
26438018 AAAATGGTAATTTTTGGATGTTCGGGGGT
1 AAAATGGTGATTTTTGGAAGTTTGAGGGC
* * *
26438047 AAAATGGTAATTTTTAGAAAGTTT-AGGATC
1 AAAATGGTGATTTTT-GGAAGTTTGAGG-GC
* * *
26438077 AAAATGGT-AATTTTGGAAAGTTCGAGGGT
1 AAAATGGTGATTTTTGG-AAGTTTGAGGGC
* *
26438106 GAAATGGTAATTTTT
1 AAAATGGTGATTTTT
26438121 AGAAAGTTCG
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
28 6 0.06
29 79 0.75
30 21 0.20
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (29 bp):
AAAATGGTGATTTTTGGAAGTTTGAGGGC
Found at i:26438111 original size:59 final size:59
Alignment explanation
Indices: 26437941--26438242 Score: 191
Period size: 59 Copynumber: 5.2 Consensus size: 59
26437931 AAAATTGAAC
* * * * * * *
26437941 TTTTAGAAAATTTGAGGTTGAAAAT-GTGATTTTTGGAAGTTTGAGGGCAAAATGGTGAT
1 TTTTAGAAAGTTT-AGGATCAAAATGGTAATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
* * ** * * *
26438000 TTTT-GGATGCTCGAGG-GCAAAATGGTAATTTTTGGATGTTCGGGGGTAAAATGGTAAT
1 TTTTAGAAAG-TTTAGGATCAAAATGGTAATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
*
26438058 TTTTAGAAAGTTTAGGATCAAAATGGTAA-TTTTGGAAAGTTCGAGGGTGAAATGGTAAT
1 TTTTAGAAAGTTTAGGATCAAAATGGTAATTTTTGG-AAGTTCGAGGGTAAAATGGTAAT
** * * * * *
26438117 TTTTAGAAAGTTCGGGGGTTAAAAT-GTGATTTTTTGAAAGTT-TAGGAGTAAAAAT-GTAA-
1 TTTTAGAAAGTT-TAGGATCAAAATGGT-AATTTTTGGAAGTTCGAGG-GT-AAAATGGTAAT
* *
26438176 TTTTAGAAAGTTTCAAGG-TC-AAAT-GTGATTTTTGAAAGTTC-AGGGGTAAAAAT-GTAA-
1 TTTTAGAAAGTTT--AGGATCAAAATGGTAATTTTTGGAAGTTCGA-GGGT-AAAATGGTAAT
26438233 TTTTAGAAAG
1 TTTTAGAAAG
26438243 CTCGGGGGTT
Statistics
Matches: 195, Mismatches: 34, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
57 40 0.21
58 55 0.28
59 69 0.35
60 22 0.11
61 9 0.05
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (59 bp):
TTTTAGAAAGTTTAGGATCAAAATGGTAATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
Found at i:26438169 original size:29 final size:28
Alignment explanation
Indices: 26438043--26438287 Score: 158
Period size: 29 Copynumber: 8.3 Consensus size: 28
26438033 GGATGTTCGG
26438043 GGGTAAAATGGTAATTTTTAGAAAGTTTA
1 GGGTAAAAT-GTAATTTTTAGAAAGTTTA
* * *
26438072 GGATCAAAATGGTAA-TTTTGGAAAGTTCGA
1 GGGT-AAAAT-GTAATTTTTAGAAAGTT-TA
* **
26438102 GGGTGAAATGGTAATTTTTAGAAAGTTCGG
1 GGGTAAAAT-GTAATTTTTAGAAAGTT-TA
* *
26438132 GGGTTAAAATGTGATTTTTTGAAAGTTTA
1 GGG-TAAAATGTAATTTTTAGAAAGTTTA
26438161 GGAGTAAAAATGTAA-TTTTAGAAAGTTTCA
1 GG-GT-AAAATGTAATTTTTAGAAAGTTT-A
* * * *
26438191 AGGTCAAATGTGATTTTT-GAAAGTTCA
1 GGGTAAAATGTAATTTTTAGAAAGTTTA
***
26438218 GGGGTAAAAATGTAA-TTTTAGAAAGCTCGG
1 -GGGT-AAAATGTAATTTTTAGAAAG-TTTA
*
26438248 GGGTTAAAATGTAA-TTTTGGAAAAGTTTGA
1 GGG-TAAAATGTAATTTTTAG-AAAGTTT-A
26438278 GGGTCAAAAT
1 GGGT-AAAAT
26438288 ATGATTATTG
Statistics
Matches: 172, Mismatches: 28, Indels: 31
0.74 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 21 0.12
29 75 0.44
30 70 0.41
31 5 0.03
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGTAATTTTTAGAAAGTTTA
Found at i:26438266 original size:57 final size:58
Alignment explanation
Indices: 26438037--26438266 Score: 197
Period size: 57 Copynumber: 3.9 Consensus size: 58
26438027 ATTTTTGGAT
* ** * *
26438037 GTTCGGGGGT-AAAATGGTAATTTTTAGAAAGTT-TAGGATCAAAATG-GTAATTTTGGAAA
1 GTTCAGGGGTAAAAAT-GTAA-TTTTAGAAAGTTCGGGGGTTAAAATGTG-AATTTT-GAAA
* *
26438096 GTTC-GAGGGT-GAAATGGTAATTTTTAGAAAGTTCGGGGGTTAAAATGTGATTTTTTGAAA
1 GTTCAG-GGGTAAAAAT-GTAA-TTTTAGAAAGTTCGGGGGTTAAAATGTGA-ATTTTGAAA
* * ** * *
26438156 GTTTAGGAGTAAAAATGTAATTTTAGAAAGTTTC-AAGG-TCAAATGTGATTTTTGAAA
1 GTTCAGGGGTAAAAATGTAATTTTAGAAAG-TTCGGGGGTTAAAATGTGAATTTTGAAA
*
26438213 GTTCAGGGGTAAAAATGTAATTTTAGAAAGCTCGGGGGTTAAAATGT-AATTTTG
1 GTTCAGGGGTAAAAATGTAATTTTAGAAAGTTCGGGGGTTAAAATGTGAATTTTG
26438267 GAAAAGTTTG
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
56 2 0.01
57 45 0.31
58 17 0.12
59 42 0.29
60 27 0.19
61 10 0.07
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (58 bp):
GTTCAGGGGTAAAAATGTAATTTTAGAAAGTTCGGGGGTTAAAATGTGAATTTTGAAA
Found at i:26440110 original size:17 final size:17
Alignment explanation
Indices: 26440085--26440147 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
26440075 AATTAAATTT
*
26440085 AAAATTTAAAATTTAAA
1 AAAAATTAAAATTTAAA
26440102 AAAAATT-AAATTTAAA
1 AAAAATTAAAATTTAAA
* * *
26440118 ATAAATTTAAACTTAAA
1 AAAAATTAAAATTTAAA
* *
26440135 ATAATTTAAAATT
1 AAAAATTAAAATT
26440148 GGGTTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 15 0.38
17 24 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATTAAAATTTAAA
Found at i:26440112 original size:16 final size:17
Alignment explanation
Indices: 26440074--26440138 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
26440064 TTTGGACTTT
26440074 AAATTAAATTTAAAAT-
1 AAATTAAATTTAAAATA
26440090 ---TTAAAATTTAAAA-A
1 AAATT-AAATTTAAAATA
26440104 AAATTAAATTTAAAATA
1 AAATTAAATTTAAAATA
* *
26440121 AATTTAAACTTAAAATA
1 AAATTAAATTTAAAATA
26440138 A
1 A
26440139 TTTAAAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
14 10 0.24
16 10 0.24
17 19 0.46
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAAATTTAAAATA
Found at i:26440140 original size:16 final size:16
Alignment explanation
Indices: 26440077--26440144 Score: 77
Period size: 16 Copynumber: 4.3 Consensus size: 16
26440067 GGACTTTAAA
26440077 TTAAATTTAAAAT--T
1 TTAAATTTAAAATAAT
* * *
26440091 TAAAATTTAAAAAAAA
1 TTAAATTTAAAATAAT
26440107 TTAAATTTAAAATAAAT
1 TTAAATTTAAAAT-AAT
*
26440124 TTAAACTTAAAATAAT
1 TTAAATTTAAAATAAT
26440140 TTAAA
1 TTAAA
26440145 ATTGGGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.25
16 19 0.43
17 14 0.32
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:26441406 original size:188 final size:185
Alignment explanation
Indices: 26441158--26441554 Score: 559
Period size: 188 Copynumber: 2.1 Consensus size: 185
26441148 AACTCAATAA
* * * *
26441158 AACACTTAAATATAGTAATATATGTTTTGGATTCAAACCCCATTATGGGTAAGTATTTTTCTAGA
1 AACACTTAAATATAGTAATAGATGTTTTGGATTCAAACACCATTAAGCGTAAGTATTTTTCTAGA
* * * *
26441223 TTTTATTTGAAAAGATAAAATTGCTGTCAAAATAATATCTATTGCTTCTTATTAAATATCA-AGG
66 TTTTATTTGAAAAGACAAAAGTGCTATCAAAATAATATCTATTG---CTTATT-AAGATCAGAGG
* *
26441287 CTTTT-GATATATTCATTTCTGAATTGGTAACCTG-GTTGT-GAGTGACACCAAATCAATCT
127 CTTTTAG-TAAATTCATTTCTGAATTGATAA-CTGAGTTGTGGA-TGACACCAAATCAATCT
*
26441346 AACACTTAAATATACTAATAGATGTTTTGGATTCAAACACCATTAAGCGTAAGTATTTTTCTAGA
1 AACACTTAAATATAGTAATAGATGTTTTGGATTCAAACACCATTAAGCGTAAGTATTTTTCTAGA
* *
26441411 TTTTATTTGAAAAGACAAAAGTGCTATCAAAATAATATCTATTGCTTATTAAGGTCAGCGGCTTT
66 TTTTATTTGAAAAGACAAAAGTGCTATCAAAATAATATCTATTGCTTATTAAGATCAGAGGCTTT
* *
26441476 TAGTAAATTCATTTTTGAGTTGATAACTGAGTTGTGGATGACACCAAATCAATCT
131 TAGTAAATTCATTTCTGAATTGATAACTGAGTTGTGGATGACACCAAATCAATCT
*
26441531 AACACTTAAATATAGTAACAGATG
1 AACACTTAAATATAGTAATAGATG
26441555 CATCATTTAA
Statistics
Matches: 188, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
184 8 0.04
185 76 0.40
186 3 0.02
188 101 0.54
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (185 bp):
AACACTTAAATATAGTAATAGATGTTTTGGATTCAAACACCATTAAGCGTAAGTATTTTTCTAGA
TTTTATTTGAAAAGACAAAAGTGCTATCAAAATAATATCTATTGCTTATTAAGATCAGAGGCTTT
TAGTAAATTCATTTCTGAATTGATAACTGAGTTGTGGATGACACCAAATCAATCT
Found at i:26445138 original size:68 final size:68
Alignment explanation
Indices: 26445029--26445200 Score: 272
Period size: 68 Copynumber: 2.5 Consensus size: 68
26445019 GTTAATGCCA
* * *
26445029 GTCATTCGGTTGGATTAAAATTATGTTTCAATTGAAGTTAGTTGCTATCCAAAGCTGGACACTTC
1 GTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGTTGCTATCCAAAGCTGGACAATCC
26445094 CAT
66 CAT
* * *
26445097 GTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGTTGCTGTCCAGAGTTGGACAATCC
1 GTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGTTGCTATCCAAAGCTGGACAATCC
26445162 CAT
66 CAT
*
26445165 GTCATTTGGTTGGATTAAAATACATGTTTCAATTGA
1 GTCATTCGGTTGGATTAAAAT-CATGTTTCAATTGA
26445201 TGTTGTAGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 82 0.85
69 14 0.15
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (68 bp):
GTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGTTGCTATCCAAAGCTGGACAATCC
CAT
Found at i:26448195 original size:21 final size:22
Alignment explanation
Indices: 26448161--26448203 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
26448151 TATTTCTTTC
26448161 AATTCTGTTTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
26448183 AATTCTG-TTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
26448204 CCTCAGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (22 bp):
AATTCTGTTTTCTTTTATTTTT
Found at i:26450974 original size:4 final size:4
Alignment explanation
Indices: 26450940--26450990 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
26450930 GGCAACCCAA
*
26450940 TTAT TT-T TT-T TTAT TT-T TT-T CTAT CTTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT
26450985 TTAT TT
1 TTAT TT
26450991 TTGTCCAGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 11 0.26
4 28 0.67
5 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (4 bp):
TTAT
Found at i:26452529 original size:19 final size:19
Alignment explanation
Indices: 26452507--26452551 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
26452497 TTATATTAGG
26452507 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
26452526 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
26452545 ATTTAAT
1 ATTTAAT
26452552 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:26454971 original size:43 final size:43
Alignment explanation
Indices: 26454905--26455186 Score: 280
Period size: 43 Copynumber: 6.6 Consensus size: 43
26454895 TGGTTATACA
*
26454905 ATGATGCACTGTGTGTGCTAGTATAGTTGCTTCGGTTTATCCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
** * * **
26454948 ATGATGCGTTGTGTATGCCAGTATAGTTGCTTCGATTTATCTA
1 ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
* * * * * *
26454991 ATGATGCACTGTGTGTGCTAGTATATTTTCTTTGATTTATCCA
1 ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
* * *
26455034 ATGATGCATTGTATGTGCCAGTATAGTTACTTCGGTTTAT-CG
1 ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
* * * * *
26455076 AATGATGCACTATATGTG-CAGTATAGTTACTTCGGTATATTCG
1 -ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
* ** * * *
26455119 ATGATGCACTGTGTGTGCCAATGCAGTTGCTTTGGTATATTCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
* *
26455162 ATGATGCACTGTATGTGCCAATATA
1 ATGATGCACTGTGTGTGCCAGTATA
26455187 ATTATGCCAG
Statistics
Matches: 200, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
42 37 0.19
43 163 0.81
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (43 bp):
ATGATGCACTGTGTGTGCCAGTATAGTTGCTTCGGTTTATCCG
Found at i:26455997 original size:22 final size:22
Alignment explanation
Indices: 26455966--26456013 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
26455956 CCTATGTCGT
26455966 GACACAGATACATGGTTGTTGC
1 GACACAGATACATGGTTGTTGC
* *
26455988 GACACGGATACGTGGTTGTTGC
1 GACACAGATACATGGTTGTTGC
26456010 GACA
1 GACA
26456014 TCATCATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (22 bp):
GACACAGATACATGGTTGTTGC
Found at i:26460497 original size:23 final size:22
Alignment explanation
Indices: 26460471--26460514 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26460461 AAAATATTTC
*
26460471 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAATTTAGGTT-AATTA
*
26460494 ATTAATTAATTTAGGTTAATT
1 ATTAAATAATTTAGGTTAATT
26460515 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
ATTAAATAATTTAGGTTAATTA
Found at i:26465970 original size:23 final size:22
Alignment explanation
Indices: 26465944--26465987 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26465934 AAAATATTTC
*
26465944 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
26465967 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
26465988 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:26472950 original size:18 final size:17
Alignment explanation
Indices: 26472924--26472980 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
26472914 ACCAGATAAT
*
26472924 ATGCAATCACATGACCAA
1 ATGC-ATCACATAACCAA
* *
26472942 ATGCGATCACAAAATCAA
1 ATGC-ATCACATAACCAA
*
26472960 ATGCATACACATTACCAA
1 ATGCAT-CACATAACCAA
26472978 ATG
1 ATG
26472981 TAGTCACAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 2 0.06
18 29 0.94
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.19
Consensus pattern (17 bp):
ATGCATCACATAACCAA
Found at i:26481433 original size:68 final size:68
Alignment explanation
Indices: 26481324--26481498 Score: 287
Period size: 68 Copynumber: 2.6 Consensus size: 68
26481314 AAGTTAAATG
* *
26481324 CATGTCATTCGGTTGGATTAAAATCATGTTTCAATCGAAGTTAGTTGTTATCCAAAGCTAGACAA
1 CATGTCATTCGGTTAGATTAAAATCATGTTTCAATTGAAGTTAGTTGTTATCCAAAGCTAGACAA
26481389 TTC
66 TTC
* * * *
26481392 CATGTCATTTGGCTAGATTAAAATCATGTTTCAATTGAAGTTAGTTGTTGTCCAAAGTTAGACAA
1 CATGTCATTCGGTTAGATTAAAATCATGTTTCAATTGAAGTTAGTTGTTATCCAAAGCTAGACAA
26481457 TTC
66 TTC
26481460 CATGTCATTCGGTTAGATTAAAATACATGTTTCAATTGA
1 CATGTCATTCGGTTAGATTAAAAT-CATGTTTCAATTGA
26481499 TGTTGCGATG
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 84 0.86
69 14 0.14
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (68 bp):
CATGTCATTCGGTTAGATTAAAATCATGTTTCAATTGAAGTTAGTTGTTATCCAAAGCTAGACAA
TTC
Found at i:26482806 original size:68 final size:68
Alignment explanation
Indices: 26482718--26482889 Score: 220
Period size: 68 Copynumber: 2.5 Consensus size: 68
26482708 AAGTTAAATG
** *
26482718 AATGTCATTCGATTGGATTAAAATCATGTTTCAATGGAAGTTAGATGCTATCCAATGCTT-GACA
1 AATGTCATTCGGCTGGATTAAAATCATGTTTCAATGGAAGTTAGATGCTATCCAAAG-TTGGACA
26482782 ATTC
65 ATTC
* * * * * * *
26482786 TATGTCATTTGGCTGGATTAAAATCATGTTTCAATTGAAGTTAGTTGTTGTCCAAAGTTGGATAA
1 AATGTCATTCGGCTGGATTAAAATCATGTTTCAATGGAAGTTAGATGCTATCCAAAGTTGGACAA
26482851 TTC
66 TTC
*
26482854 AATGTCATTCGGTTGGATTAAAATACATGTTTCAAT
1 AATGTCATTCGGCTGGATTAAAAT-CATGTTTCAAT
26482890 TGATGTTGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 2 0.02
68 76 0.85
69 11 0.12
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (68 bp):
AATGTCATTCGGCTGGATTAAAATCATGTTTCAATGGAAGTTAGATGCTATCCAAAGTTGGACAA
TTC
Found at i:26484167 original size:68 final size:68
Alignment explanation
Indices: 26484056--26484235 Score: 252
Period size: 68 Copynumber: 2.6 Consensus size: 68
26484046 AAGTTAAATG
* * * * *
26484056 CATGTCATTCGATTGGACTAAAATCATGTTTTAATGGAAGTTAGTTGCTATCCAAAGCTGGACAA
1 CATGTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGGTGCTATCCAAAGCTGGACAA
26484121 TTC
66 TTC
* * * * *
26484124 CATGTCATTCGGTTGGATTAAAATCATGTTTCAATTGAGGTTAGGTGTTGTTCAAAGTTGGACAA
1 CATGTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGGTGCTATCCAAAGCTGGACAA
26484189 TTC
66 TTC
*
26484192 CATGTCATTCGGTTGGATTAAAATACATGTTTCAATTGATGTTA
1 CATGTCATTCGGTTGGATTAAAAT-CATGTTTCAATTGAAGTTA
26484236 TAATGTAGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 82 0.82
69 18 0.18
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (68 bp):
CATGTCATTCGGTTGGATTAAAATCATGTTTCAATTGAAGTTAGGTGCTATCCAAAGCTGGACAA
TTC
Found at i:26489281 original size:18 final size:18
Alignment explanation
Indices: 26489258--26489319 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
26489248 AAGGAAGAGT
*
26489258 ATACTGGCTCGTTTGAGC
1 ATACTGGCTCATTTGAGC
*
26489276 ATACTGGCTTATTTGAGC
1 ATACTGGCTCATTTGAGC
* **
26489294 ATACTAGCTCATAAGAGC
1 ATACTGGCTCATTTGAGC
26489312 ATTACTGG
1 A-TACTGG
26489320 ATCACATGAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 31 0.86
19 5 0.14
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (18 bp):
ATACTGGCTCATTTGAGC
Found at i:26501136 original size:9 final size:9
Alignment explanation
Indices: 26501099--26501141 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
26501089 GTCATTTGAG
26501099 AAAGAAAAA
1 AAAGAAAAA
* *
26501108 AATGAGAAA
1 AAAGAAAAA
* *
26501117 AAGGAAGAA
1 AAAGAAAAA
26501126 AAAGAAAAA
1 AAAGAAAAA
26501135 AAAGAAA
1 AAAGAAA
26501142 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:26505752 original size:38 final size:38
Alignment explanation
Indices: 26505710--26505795 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 38
26505700 TACAACAAAT
* *
26505710 TTAAAAAATA-TATAATATATCAAATACACTTAAAA-ACA
1 TTAAAAAA-ACTATAAAATAT-AAATAAACTTAAAATACA
* *
26505748 TTAAAACAAACTTTAAAATATAAATAAATTTAAAATACA
1 TTAAAA-AAACTATAAAATATAAATAAACTTAAAATACA
26505787 TTAAAAAAA
1 TTAAAAAAA
26505796 ATTTATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 22 0.54
39 19 0.46
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (38 bp):
TTAAAAAAACTATAAAATATAAATAAACTTAAAATACA
Found at i:26505933 original size:21 final size:22
Alignment explanation
Indices: 26505906--26505973 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
26505896 AGTAAAAACG
*
26505906 CACAAAAATAACATCCAAAC-A
1 CACAAAAATAACATCAAAACAA
* *
26505927 -ACAAAAATAATAATCAAAACAG
1 CACAAAAATAA-CATCAAAACAA
*
26505949 CAGCAAAAATAACAGCAAAACAA
1 CA-CAAAAATAACATCAAAACAA
26505972 CA
1 CA
26505974 TTAAAAACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 10 0.27
21 7 0.19
23 11 0.30
24 9 0.24
ACGTcount: A:0.65, C:0.22, G:0.04, T:0.09
Consensus pattern (22 bp):
CACAAAAATAACATCAAAACAA
Found at i:26505982 original size:56 final size:56
Alignment explanation
Indices: 26505922--26506035 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
26505912 AATAACATCC
* * *
26505922 AAACAACAAAAATAATAATC-AAAACAGCAGCAAAAATAACAGCAAAACAACATTAA
1 AAACAACAAAAATAACAA-CAAAAACAGCAACAAAAATAACAGCAAAACAACATGAA
* *
26505978 AAACAACAAAAATAGCAACAAAAACAGCAACAAAAATAATAGCAAAACAACATGAA
1 AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAGCAAAACAACATGAA
26506034 AA
1 AA
26506036 TAGCAACCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
55 1 0.02
56 51 0.98
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.09
Consensus pattern (56 bp):
AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAGCAAAACAACATGAA
Found at i:26505996 original size:12 final size:12
Alignment explanation
Indices: 26505981--26506015 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
26505971 ACATTAAAAA
26505981 CAACAAAAATAG
1 CAACAAAAATAG
*
26505993 CAACAAAAACAG
1 CAACAAAAATAG
26506005 CAACAAAAATA
1 CAACAAAAATA
26506016 ATAGCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.20, G:0.06, T:0.06
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:26506000 original size:21 final size:21
Alignment explanation
Indices: 26505976--26506136 Score: 69
Period size: 20 Copynumber: 7.5 Consensus size: 21
26505966 AAACAACATT
26505976 AAAAACAACAAAAATAGCAAC
1 AAAAACAACAAAAATAGCAAC
** *
26505997 AAAAACAGCAACAAAAATAATAGC
1 -AAAA-A-CAACAAAAATAGCAAC
26506021 -AAAACAACATGAAAATAGCAAC
1 AAAAACAACA--AAAATAGCAAC
* ** *
26506043 CAAAACAGTAAAAAAAGC-AC
1 AAAAACAACAAAAATAGCAAC
* * * * *
26506063 TAAAATAATAAAAAAAAC-AC
1 AAAAACAACAAAAATAGCAAC
* *
26506083 AAAAACAATAAAAAAAGCAAC
1 AAAAACAACAAAAATAGCAAC
* * *
26506104 CAAAACAGTAAAAAAATAG-TAC
1 AAAAACA--ACAAAAATAGCAAC
*
26506126 CAAAACAACAA
1 AAAAACAACAA
26506137 TATAATTTTT
Statistics
Matches: 110, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
20 41 0.37
21 16 0.15
22 24 0.22
23 16 0.15
24 13 0.12
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAAACAACAAAAATAGCAAC
Found at i:26506000 original size:44 final size:44
Alignment explanation
Indices: 26505900--26506001 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 44
26505890 AACAATAGTA
* * *
26505900 AAAAC-GC-ACAAAAATAACATCCAAACAACAAAAATAATAATC
1 AAAACAGCAACAAAAATAACAGCAAAACAACAAAAATAACAATC
* *
26505942 AAAACAGCAGCAAAAATAACAGCAAAACAACATTAAA-AACAA-C
1 AAAACAGCAACAAAAATAACAGCAAAACAACA-AAAATAACAATC
*
26505985 AAAAATAGCAACAAAAA
1 -AAAACAGCAACAAAAA
26506002 CAGCAACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 5 0.10
43 3 0.06
44 38 0.78
45 3 0.06
ACGTcount: A:0.67, C:0.20, G:0.05, T:0.09
Consensus pattern (44 bp):
AAAACAGCAACAAAAATAACAGCAAAACAACAAAAATAACAATC
Found at i:26506057 original size:56 final size:56
Alignment explanation
Indices: 26505942--26506135 Score: 179
Period size: 56 Copynumber: 3.6 Consensus size: 56
26505932 AATAATAATC
* * * *
26505942 AAAACAGCAGCAAAAATAACAGCAAAACAACATTAAAAACAACAAAAATAGCAACA
1 AAAACAGCAACAAAAATAATAGCAAAACAACATGAAAAACAACAAAAACAGCAACA
* *
26505998 AAAACAGCAACAAAAATAATAGCAAAACAACATGAAAATAGCAACCAAAACAG-TA-A
1 AAAACAGCAACAAAAATAATAGCAAAACAACATGAAAA-A-CAACAAAAACAGCAACA
* * * * * *
26506054 AAAA-AGC-ACTAAAATAATA--AAAAAAACA-CAAAAACAATAAAAAAAGCAACC
1 AAAACAGCAACAAAAATAATAGCAAAACAACATGAAAAACAACAAAAACAGCAACA
* * *
26506105 AAAACAGTAA-AAAAATAGTACCAAAACAACA
1 AAAACAGCAACAAAAATAATAGCAAAACAACA
26506136 ATATAATTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
49 9 0.08
50 2 0.02
51 8 0.07
52 18 0.16
53 1 0.01
54 19 0.17
55 3 0.03
56 40 0.36
57 2 0.02
58 10 0.09
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.08
Consensus pattern (56 bp):
AAAACAGCAACAAAAATAATAGCAAAACAACATGAAAAACAACAAAAACAGCAACA
Found at i:26506077 original size:19 final size:20
Alignment explanation
Indices: 26506044--26506119 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
26506034 AATAGCAACC
* * *
26506044 AAAACAGTAAAAAAAGCACT
1 AAAACAATAAAAAAAACACA
*
26506064 AAAATAATAAAAAAAACACA
1 AAAACAATAAAAAAAACACA
* *
26506084 AAAACAATAAAAAAAGCAACC
1 AAAACAATAAAAAAAAC-ACA
*
26506105 AAAACAGTAAAAAAA
1 AAAACAATAAAAAAA
26506120 TAGTACCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.74, C:0.13, G:0.05, T:0.08
Consensus pattern (20 bp):
AAAACAATAAAAAAAACACA
Found at i:26510712 original size:20 final size:22
Alignment explanation
Indices: 26510687--26510731 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
26510677 TATTATATAT
*
26510687 TATTTTTAA-ACATAAA-TTTA
1 TATTTTAAATACATAAATTTTA
*
26510707 TATTTTAAATACGTAAATTTTA
1 TATTTTAAATACATAAATTTTA
26510729 TAT
1 TAT
26510732 GCATATTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTTTAAATACATAAATTTTA
Found at i:26511252 original size:29 final size:30
Alignment explanation
Indices: 26511184--26511255 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
26511174 GTTAATAATT
* *
26511184 TATAATAATTAGATCAAATCAAAATTTCATG
1 TATAA-AATTACATAAAATCAAAATTTCATG
*
26511215 TATAAAATTACATAAAATTAAAA-TTCATG
1 TATAAAATTACATAAAATCAAAATTTCATG
*
26511244 TATACAATTACA
1 TATAAAATTACA
26511256 CATTAAACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 17 0.46
30 15 0.41
31 5 0.14
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAATTACATAAAATCAAAATTTCATG
Found at i:26511619 original size:27 final size:30
Alignment explanation
Indices: 26511556--26511619 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
26511546 CAAATTTCTG
* * *
26511556 TATTTTTATATATTTGGAATTTAGTTTTTT
1 TATTTTTATATATTTGAAATTTAGATTTTC
26511586 TATTTTTAT-T-TTTGAAATTTA-ATTTTC
1 TATTTTTATATATTTGAAATTTAGATTTTC
26511613 TATTTTT
1 TATTTTT
26511620 TAGATTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 11 0.35
28 10 0.32
29 1 0.03
30 9 0.29
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (30 bp):
TATTTTTATATATTTGAAATTTAGATTTTC
Found at i:26511620 original size:28 final size:27
Alignment explanation
Indices: 26511556--26511621 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
26511546 CAAATTTCTG
* *
26511556 TATTTTTATATATTTGGAATTTAGTTTT
1 TATTTTT-TATATTTGAAATTTAATTTT
* *
26511584 TTTATTTTTATTTTTGAAATTTAATTTT
1 TAT-TTTTTATATTTGAAATTTAATTTT
26511612 CTATTTTTTA
1 -TATTTTTTA
26511622 GATTACATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (27 bp):
TATTTTTTATATTTGAAATTTAATTTT
Found at i:26513555 original size:2 final size:2
Alignment explanation
Indices: 26513548--26513587 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
26513538 TATGGTAGGA
*
26513548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26513588 TTTCAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26514427 original size:30 final size:31
Alignment explanation
Indices: 26514391--26514457 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
26514381 TTTAAAGGCT
*
26514391 AAATTTTTTT-TAC-AACTTTTAAGGCACTTA
1 AAATTTTTTTCT-CTAACTTTTAAGGAACTTA
* *
26514421 AAATTTTTTTCTCTAATTTTTAAGGAATTTA
1 AAATTTTTTTCTCTAACTTTTAAGGAACTTA
26514452 AAATTT
1 AAATTT
26514458 GATTTTATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (31 bp):
AAATTTTTTTCTCTAACTTTTAAGGAACTTA
Found at i:26518682 original size:31 final size:31
Alignment explanation
Indices: 26518646--26518725 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
26518636 TTTATGATCC
* *
26518646 AATTTGATACTTAAATTTGATA-TTTTTTTCT
1 AATTTGATATTTAAATTTGACACTTTTTTT-T
*
26518677 AATTTGGTATTTAAATTTGACACTTTTTTTT
1 AATTTGATATTTAAATTTGACACTTTTTTTT
*
26518708 AAGTTGATATTTAAATTT
1 AATTTGATATTTAAATTT
26518726 TTTTTGATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 36 0.84
32 7 0.16
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (31 bp):
AATTTGATATTTAAATTTGACACTTTTTTTT
Found at i:26519048 original size:18 final size:20
Alignment explanation
Indices: 26519025--26519062 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26519015 ATTTAGGTAC
26519025 CAAA-TTAAA-AAAAAATGT
1 CAAATTTAAATAAAAAATGT
*
26519043 CAAATTTAAATAACAAATGT
1 CAAATTTAAATAAAAAATGT
26519063 TATATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (20 bp):
CAAATTTAAATAAAAAATGT
Found at i:26520706 original size:25 final size:23
Alignment explanation
Indices: 26520678--26520723 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
26520668 GTTGGATTCA
26520678 AATTAAATTCTAAAAAGATAATTGG
1 AATTAAA-TCTAAAAA-ATAATTGG
*
26520703 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
26520724 TCCTAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTGG
Found at i:26522734 original size:6 final size:6
Alignment explanation
Indices: 26522715--26522773 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
26522705 TTGCATAATT
* * *
26522715 AAAATA AAATTA AAAAT- AAAAT- AAACTA AAACTA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
26522760 AATATG AAAATA AA
1 AAAATA AAAATA AA
26522774 TATACTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 14 0.33
6 29 0.67
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:26522734 original size:17 final size:17
Alignment explanation
Indices: 26522715--26522773 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
26522705 TTGCATAATT
26522715 AAAATAAAATTAAAAAT-
1 AAAATAAAA-TAAAAATA
* *
26522732 AAAATAAACTAAAACTA
1 AAAATAAAATAAAAATA
* *
26522749 AAAATAAAATAAATATG
1 AAAATAAAATAAAAATA
26522766 AAAATAAA
1 AAAATAAA
26522774 TATACTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 6 0.17
17 29 0.83
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:26522739 original size:22 final size:22
Alignment explanation
Indices: 26522714--26522770 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
26522704 ATTGCATAAT
26522714 TAAAATAAAATTAAAAATAAAA
1 TAAAATAAAATTAAAAATAAAA
* *
26522736 TAAACTAAAACTAAAAATAAAA
1 TAAAATAAAATTAAAAATAAAA
26522758 TAAATATGAAAAT
1 TAAA-AT-AAAAT
26522771 AAATATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 24 0.83
23 1 0.03
24 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (22 bp):
TAAAATAAAATTAAAAATAAAA
Found at i:26522805 original size:20 final size:20
Alignment explanation
Indices: 26522780--26522817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26522770 TAAATATACT
**
26522780 AATTTTTTTTTAATTTTTCA
1 AATTTTTTAATAATTTTTCA
26522800 AATTTTTTAATAATTTTT
1 AATTTTTTAATAATTTTT
26522818 TTTTCCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTAATAATTTTTCA
Found at i:26532448 original size:20 final size:20
Alignment explanation
Indices: 26532423--26532464 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26532413 AGCTACTATC
*
26532423 TTTCACGTTTCAAATAGTCA
1 TTTCACATTTCAAATAGTCA
* *
26532443 TTTCACATTTCCAATATTCA
1 TTTCACATTTCAAATAGTCA
26532463 TT
1 TT
26532465 AGAAAGCAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTCACATTTCAAATAGTCA
Found at i:26533042 original size:17 final size:17
Alignment explanation
Indices: 26533022--26533110 Score: 94
Period size: 17 Copynumber: 5.2 Consensus size: 17
26533012 TGCTTTGAAA
26533022 TTAAATTTATTCTAAAT
1 TTAAATTTATTCTAAAT
26533039 TTAAATTTATTTCT-AAT
1 TTAAATTTA-TTCTAAAT
*
26533056 TTAAATTTAATT-TAAGT
1 TTAAATTT-ATTCTAAAT
* *
26533073 TTGAATTTAATCTAAAT
1 TTAAATTTATTCTAAAT
*
26533090 TT-AATATTATTGTAAAT
1 TTAAAT-TTATTCTAAAT
26533107 TTAA
1 TTAA
26533111 TGTCCTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.10
17 48 0.80
18 6 0.10
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTCTAAAT
Found at i:26533066 original size:11 final size:11
Alignment explanation
Indices: 26533022--26533111 Score: 55
Period size: 11 Copynumber: 8.0 Consensus size: 11
26533012 TGCTTTGAAA
26533022 TTAAATTT-AT
1 TTAAATTTAAT
26533032 TCTAAATTTAAAT
1 T-TAAATTT-AAT
*
26533045 TT-ATTTCTAAT
1 TTAAATT-TAAT
26533056 TTAAATTTAAT
1 TTAAATTTAAT
*
26533067 TTAAGTTTGAAT
1 TTAAATTT-AAT
*
26533079 TT-AATCTAAAT
1 TTAAAT-TTAAT
26533090 TT-AATATT-AT
1 TTAAAT-TTAAT
26533100 TGTAAATTTAAT
1 T-TAAATTTAAT
26533112 GTCCTTTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.06
11 40 0.63
12 16 0.25
13 3 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:26533067 original size:28 final size:28
Alignment explanation
Indices: 26533036--26533094 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
26533026 ATTTATTCTA
* *
26533036 AATTTAAATTT-ATTTCTAATTTAAATTT
1 AATTTAAATTTGAATT-TAATCTAAATTT
*
26533064 AATTTAAGTTTGAATTTAATCTAAATTT
1 AATTTAAATTTGAATTTAATCTAAATTT
26533092 AAT
1 AAT
26533095 ATTATTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTAAATTTGAATTTAATCTAAATTT
Found at i:26533860 original size:25 final size:22
Alignment explanation
Indices: 26533818--26533869 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
26533808 ATATTTAATA
26533818 AATAATAAATTTTTATATTATT
1 AATAATAAATTTTTATATTATT
26533840 AATAATAATATTTATTA-A-TATT
1 AATAATAA-ATTT-TTATATTATT
26533862 AA-AATAAA
1 AATAATAAA
26533870 AAGAAAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 5 0.18
22 14 0.50
23 5 0.18
24 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAATAAATTTTTATATTATT
Found at i:26535008 original size:29 final size:30
Alignment explanation
Indices: 26534934--26535195 Score: 149
Period size: 30 Copynumber: 8.9 Consensus size: 30
26534924 CCCTAAAAGT
26534934 CCCTAAACTATC-TAAAAATTACA-TTTTGA
1 CCCTAAACT-TCTTAAAAATTACATTTTTGA
* *
26534963 CCCCATACTTCTCT-AAAATTACATTTTTGA
1 CCCTAAACTTCT-TAAAAATTACATTTTTGA
26534993 CCCTAACACTT-TTAAAAATTACATTTTTG-
1 CCCTAA-ACTTCTTAAAAATTACATTTTTGA
* *
26535022 CCCTTAAACTT-TTGAAAATTACATTTTTAA
1 CCC-TAAACTTCTTAAAAATTACATTTTTGA
* *
26535052 CCTTAAAACTTC-CAAAAATTACATTTTT-A
1 CCCT-AAACTTCTTAAAAATTACATTTTTGA
* * * *
26535081 -CCTCGAATTTC-CAAAAATTCCA-TTTTGA
1 CCCT-AAACTTCTTAAAAATTACATTTTTGA
* * ** *
26535109 -CCTAGAAATGCCCAAAAATTACGTTTTT-A
1 CCCTA-AACTTCTTAAAAATTACATTTTTGA
* *
26535138 CCCCTAAACATC-TAAAAATTCCATTTTTGA
1 -CCCTAAACTTCTTAAAAATTACATTTTTGA
* **
26535168 CCTTGAAAC-TCGCAAAAATTACCATTTT
1 CCCT-AAACTTCTTAAAAATTA-CATTTT
26535196 ACCCCCGGAT
Statistics
Matches: 186, Mismatches: 28, Indels: 36
0.74 0.11 0.14
Matches are distributed among these distances:
27 4 0.02
28 27 0.15
29 70 0.38
30 71 0.38
31 14 0.08
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTCTTAAAAATTACATTTTTGA
Found at i:26535079 original size:30 final size:30
Alignment explanation
Indices: 26534938--26535195 Score: 151
Period size: 29 Copynumber: 8.7 Consensus size: 30
26534928 AAAAGTCCCT
* **
26534938 AAACTATCTAAAAATTACA-TTTTGACC-CC
1 AAACT-TCCAAAAATTACATTTTTGACCTTA
* * *
26534967 ATACTTCTCTAAAATTACATTTTTGACCCTA
1 AAACTTC-CAAAAATTACATTTTTGACCTTA
* ** *
26534998 ACACTTTTAAAAATTACATTTTTGCCCTT-
1 AAACTTCCAAAAATTACATTTTTGACCTTA
*** *
26535027 AAACTTTTGAAAATTACATTTTTAACCTTA
1 AAACTTCCAAAAATTACATTTTTGACCTTA
*
26535057 AAACTTCCAAAAATTACATTTTT-ACC-TC
1 AAACTTCCAAAAATTACATTTTTGACCTTA
* * *
26535085 GAATTTCCAAAAATTCCA-TTTTGACC-TA
1 AAACTTCCAAAAATTACATTTTTGACCTTA
* * *
26535113 GAAA-TGCCCAAAAATTACGTTTTT-ACCCCT-
1 -AAACT-TCCAAAAATTACATTTTTGA-CCTTA
* * * *
26535143 AAACATCTAAAAATTCCATTTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTTGACCTTA
26535173 AAAC-TCGCAAAAATTACCATTTT
1 AAACTTC-CAAAAATTA-CATTTT
26535196 ACCCCCGGAT
Statistics
Matches: 179, Mismatches: 35, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
27 4 0.02
28 23 0.13
29 76 0.42
30 64 0.36
31 12 0.07
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCTTA
Found at i:26535187 original size:59 final size:58
Alignment explanation
Indices: 26534947--26535200 Score: 205
Period size: 59 Copynumber: 4.3 Consensus size: 58
26534937 TAAACTATCT
* * * * * **
26534947 AAAAATTACATTTTGACCCC-ATACTTCTCTAAAATTACATTTTTGACCCT-AACACTTTT
1 AAAAATTACATTTTTACCCCTAAACTTCT-AAAAATTCCATTTTTGACCTTGAA-AC-TCC
* * * * * * *
26535006 AAAAATTACATTTTTGCCCTTAAACTTTTGAAAATTACATTTTTAACCTTAAAACTTCC
1 AAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTTGAAAC-TCC
* * * * *
26535065 AAAAATTACATTTTTACCTC-GAATTTCCAAAAATTCCA-TTTTGACCTAGAAA-TGCCC
1 AAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTTGAAACT--CC
* *
26535122 AAAAATTACGTTTTTACCCCTAAACATCTAAAAATTCCATTTTTGACCTTGAAACTCGC
1 AAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTTGAAACTC-C
26535181 AAAAATTACCA-TTTTACCCC
1 AAAAATTA-CATTTTTACCCC
26535201 CGGATGTCCA
Statistics
Matches: 156, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
55 1 0.01
57 31 0.20
58 27 0.17
59 87 0.56
60 10 0.06
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCATTTTTGACCTTGAAACTCC
Found at i:26536432 original size:20 final size:21
Alignment explanation
Indices: 26536396--26536445 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
26536386 TCATTAAGCT
*
26536396 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTACA-C
26536416 TTAATTAAATC-TATTTACAC
1 TTAATTAAATCATATTTACAC
26536436 TTAATATAAA
1 TTAAT-TAAA
26536446 CCATTCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTAAATCATATTTACAC
Found at i:26544399 original size:27 final size:27
Alignment explanation
Indices: 26544369--26544442 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 27
26544359 AATAATAATG
* **
26544369 TTAAAATATAATTAAATTATTTTTTTA
1 TTAAAATATAATTAAATAATAATTTTA
* *
26544396 TTAAATTAT-ATTTAATAATAATTTTA
1 TTAAAATATAATTAAATAATAATTTTA
*
26544422 TTAAAATTTAA-TAAA-AATAAT
1 TTAAAATATAATTAAATAATAAT
26544443 CATATACCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.16
26 23 0.61
27 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTAAAATATAATTAAATAATAATTTTA
Found at i:26544420 original size:26 final size:26
Alignment explanation
Indices: 26544340--26544426 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
26544330 ATTAAAAATG
* *
26544340 TTATTAAATTGTATTTAATAATAATA
1 TTATTAAATTATATTTAATAATAATT
* * * * * **
26544366 ATGTTAAAATATAATTAAATTATTTTT
1 TTATTAAATTAT-ATTTAATAATAATT
26544393 TTATTAAATTATATTTAATAATAATT
1 TTATTAAATTATATTTAATAATAATT
26544419 TTATTAAA
1 TTATTAAA
26544427 ATTTAATAAA
Statistics
Matches: 44, Mismatches: 16, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
26 26 0.59
27 18 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATATTTAATAATAATT
Found at i:26544611 original size:16 final size:16
Alignment explanation
Indices: 26544590--26544645 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
26544580 TAAATTACTG
*
26544590 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
** * *
26544606 ATTACAATTATATTAC
1 ATTACAGCTCTATTCC
26544622 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
26544638 ATTACAGC
1 ATTACAGC
26544646 GAACCAAACG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:26553831 original size:24 final size:24
Alignment explanation
Indices: 26553804--26553878 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
26553794 AGTTTGACTT
*
26553804 AAACAACTAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
26553828 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* * * *
26553852 AAATAATTAAATAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
26553876 AAA
1 AAA
26553879 GATTATTTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.27
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:26563037 original size:165 final size:160
Alignment explanation
Indices: 26562769--26563087 Score: 548
Period size: 165 Copynumber: 2.0 Consensus size: 160
26562759 TTCAAAAAGC
*
26562769 AGAAAAATTTTGCGTAAAAGAAAATTTGTTTAAAACACAACAAATAAGTAAAAAAAATTTATAAT
1 AGAAAAATTTTGCGTAAAAGAAAATTTGTTTAAAACACAACAAATAAATAAAAAAAATTTATAAT
*
26562834 CCAGGTTTACCACCGGAGTTATACAATTTTATTAATGAAATATGAAAAACTCATATTATTGATCA
66 CCAGGTTTACCACCGAAGTTATACAATTTTATTAATGAAATATGAAAAACTCATATTATTGATCA
26562899 AAGAGCAAATTTCAGGAGAACTAAAGAACA
131 AAGAGCAAATTTCAGGAGAACTAAAGAACA
* *
26562929 AGAAAAATTTTGCGTAAAAGAAAATTTGTTTAAAACATAACAAATAAATAAGGTAAAAGATTTTT
1 AGAAAAATTTTGCGTAAAAGAAAATTTGTTTAAAACACAACAAATAAATAA---AAAA-A-ATTT
*
26562994 ATAATCCAGGTTTACCACCGAAGTTATACAATTTTATTAATGAAATATGGAAAACTCATATTATT
61 ATAATCCAGGTTTACCACCGAAGTTATACAATTTTATTAATGAAATATGAAAAACTCATATTATT
26563059 GATCAAAGAGCAAATTTCAGGAGAACTAA
126 GATCAAAGAGCAAATTTCAGGAGAACTAA
26563088 GCTTTCACAA
Statistics
Matches: 149, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
160 49 0.33
163 4 0.03
164 1 0.01
165 95 0.64
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.29
Consensus pattern (160 bp):
AGAAAAATTTTGCGTAAAAGAAAATTTGTTTAAAACACAACAAATAAATAAAAAAAATTTATAAT
CCAGGTTTACCACCGAAGTTATACAATTTTATTAATGAAATATGAAAAACTCATATTATTGATCA
AAGAGCAAATTTCAGGAGAACTAAAGAACA
Found at i:26564067 original size:9 final size:9
Alignment explanation
Indices: 26564053--26564081 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
26564043 ATTAACTTTA
26564053 AAAGAAATT
1 AAAGAAATT
26564062 AAAGAAATT
1 AAAGAAATT
26564071 AAAGAAATT
1 AAAGAAATT
26564080 AA
1 AA
26564082 TCTTTACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (9 bp):
AAAGAAATT
Found at i:26566013 original size:61 final size:60
Alignment explanation
Indices: 26565946--26566428 Score: 384
Period size: 61 Copynumber: 8.1 Consensus size: 60
26565936 TTTTCTAGTA
* **
26565946 TTGGCCATGCATTAGCCGACACCACTTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
1 TTGGCCATGCA-TGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
* * * *
26566007 TCGGCCATGCAATGGCCGACACC-TCCTTTTTGTCAGATAAAAAA-T-ATTTTTTTTGGTG
1 TTGGCCATGC-ATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
** * * * *
26566065 TTCACCATGCCTTGGCTGACACCACCTTTTTTATCTGGA-AAAAAATTAATTTTTTTTTGTG
1 TTGGCCATG-CATGGCCGACACCACCCTTTTTATCT-GATAAAAAATTAATTTTTTTTGGTG
*** * * * *
26566126 TTGGTTGTTGCATGGCCGACACCACCTTTTTTATCTGGTAAAAACTCAATTTTTTTTGGTG
1 TTGG-CCATGCATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
* * * * *
26566187 TTGACCATTGCATGGTCGACACC-CCCTTTTTGTCAGATAAAAAA-T-ATTTTTTTTGATG
1 TTGGCCA-TGCATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
* * * * * * *
26566245 TTAGTCATTGTATAGCCGACACC-CCCTATTTATCTAATAACAAAATCAA-TTTTTTTGGTG
1 TTGGCCA-TGCATGGCCGACACCACCCTTTTTATCTGATAA-AAAATTAATTTTTTTTGGTG
* * * * * *
26566305 TTGACAATTGCATGGCTGACACCA-CCTTTTTATCTAATAAAAAATCAA-ATTTTTTGGTG
1 TTGGCCA-TGCATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
* * * *
26566364 TTGGCCATTACATGGCCGGCACCA-TCTATTTATCTGAT-AAAAATT--TTTTTTTTGGTG
1 TTGGCCA-TGCATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
*
26566421 TCGGCCAT
1 TTGGCCAT
26566429 TATCTGATAA
Statistics
Matches: 336, Mismatches: 72, Indels: 33
0.76 0.16 0.07
Matches are distributed among these distances:
56 1 0.00
57 16 0.05
58 77 0.23
59 68 0.20
60 77 0.23
61 94 0.28
62 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (60 bp):
TTGGCCATGCATGGCCGACACCACCCTTTTTATCTGATAAAAAATTAATTTTTTTTGGTG
Found at i:26566112 original size:119 final size:120
Alignment explanation
Indices: 26565963--26566421 Score: 410
Period size: 119 Copynumber: 3.9 Consensus size: 120
26565953 TGCATTAGCC
* *
26565963 GACACCACTTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTCGGCCATGCAATGGCCGACA
1 GACACCACCTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTTGGCCATGCAATGGCCGACA
* * * *
26566028 CCTCCTTTTTGTCAGATAAAAAAT-ATTTTTTTTGGTGTTCACCA-TGCCTTGGCT
66 CCTCCTATTTATCAGATAAAAAATCATTTTTTTTGGTGTTGACCATTG-CATGGCT
* ***
26566082 GACACCACCTTTTTTATCTGGA-AAAAAATTAATTTTTTTTTGTGTTGGTTGTTGC-ATGGCCGA
1 GACACCACCTTTTTTATCT-GATAAAAAATTAATTTTTTTTGGTGTTGG-CCATGCAATGGCCGA
* * * * *
26566145 CACCACCTTTTTTATCTGGTAAAAACTCAATTTTTTTTGGTGTTGACCATTGCATGG-T
64 CACCTCC-TATTTATCAGATAAAAAATC-ATTTTTTTTGGTGTTGACCATTGCATGGCT
* * * * * * * *
26566203 CGACACC-CCCTTTTTGTCAGATAAAAAA-T-ATTTTTTTTGATGTTAGTCATTG-TATAGCCGA
1 -GACACCACCTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTTGGCCA-TGCAATGGCCGA
* * *
26566264 CACCCCCTATTTATCTA-ATAACAAAATCAATTTTTTTGGTGTTGACAATTGCATGGCT
64 CACCTCCTATTTATC-AGATAA-AAAATCATTTTTTTTGGTGTTGACCATTGCATGGCT
* * * * *
26566322 GACACCACC-TTTTTATCTAATAAAAAATCAA-ATTTTTTGGTGTTGGCCAT-TACATGGCCGGC
1 GACACCACCTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTTGGCCATGCA-ATGGCCGAC
* *
26566384 ACCAT-CTATTTATCTGAT-AAAAAT-TTTTTTTTTGGTGT
65 ACC-TCCTATTTATCAGATAAAAAATCATTTTTTTTGGTGT
26566422 CGGCCATTAT
Statistics
Matches: 276, Mismatches: 44, Indels: 43
0.76 0.12 0.12
Matches are distributed among these distances:
116 12 0.04
117 5 0.02
118 60 0.22
119 128 0.46
120 24 0.09
121 16 0.06
122 29 0.11
123 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (120 bp):
GACACCACCTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTTGGCCATGCAATGGCCGACA
CCTCCTATTTATCAGATAAAAAATCATTTTTTTTGGTGTTGACCATTGCATGGCT
Found at i:26566265 original size:58 final size:59
Alignment explanation
Indices: 26565973--26566421 Score: 345
Period size: 60 Copynumber: 7.6 Consensus size: 59
26565963 GACACCACTT
* *
26565973 TTTTTATCT-GATAAAAAATTAATTTTTTTTGGTGTCGGCCA-TGCAATGGCCGACACCTCC
1 TTTTTATCTAGATAAAAAA-TAATTTTTTTTGGTGT-TGCCATTGC-ATGGCCGACACCCCC
* * * * *
26566033 TTTTTGTC-AGATAAAAAAT-ATTTTTTTTGGTGTTCACCA-TGCCTTGGCTGACACCACCT
1 TTTTTATCTAGATAAAAAATAATTTTTTTTGGTGTT-GCCATTG-CATGGCCGACACC-CCC
* * *** *
26566092 TTTTTATCTGGA-AAAAAATTAATTTTTTTTTGTGTTGGTTGTTGCATGGCCGACACCACCT
1 TTTTTATCTAGATAAAAAA-TAATTTTTTTTGGTGTT-GCCATTGCATGGCCGACACC-CCC
* * *
26566153 TTTTTATCT-GGTAAAAACTCAATTTTTTTTGGTGTTGACCATTGCATGGTCGACACCCCC
1 TTTTTATCTAGATAAAAAAT-AATTTTTTTTGGTGTTG-CCATTGCATGGCCGACACCCCC
* * * * *
26566213 TTTTTGTC-AGATAAAAAAT-ATTTTTTTTGATGTTAGTCATTGTATAGCCGACACCCCC
1 TTTTTATCTAGATAAAAAATAATTTTTTTTGGTGTT-GCCATTGCATGGCCGACACCCCC
* * * *
26566271 TATTTATCTA-ATAACAAAATCAA-TTTTTTTGGTGTTGACAATTGCATGGCTGACACCACC
1 TTTTTATCTAGATAA-AAAAT-AATTTTTTTTGGTGTTG-CCATTGCATGGCCGACACCCCC
* * * **
26566331 TTTTTATCTA-ATAAAAAATCAA-ATTTTTTGGTGTTGGCCATTACATGGCCGGCACCATC
1 TTTTTATCTAGATAAAAAAT-AATTTTTTTTGGTGTT-GCCATTGCATGGCCGACACCCCC
* *
26566390 TATTTATCT-GAT-AAAAAT-TTTTTTTTTGGTGT
1 TTTTTATCTAGATAAAAAATAATTTTTTTTGGTGT
26566422 CGGCCATTAT
Statistics
Matches: 316, Mismatches: 52, Indels: 45
0.77 0.13 0.11
Matches are distributed among these distances:
57 11 0.03
58 77 0.24
59 71 0.22
60 81 0.26
61 74 0.23
62 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (59 bp):
TTTTTATCTAGATAAAAAATAATTTTTTTTGGTGTTGCCATTGCATGGCCGACACCCCC
Found at i:26566298 original size:180 final size:178
Alignment explanation
Indices: 26565960--26566417 Score: 500
Period size: 180 Copynumber: 2.6 Consensus size: 178
26565950 CCATGCATTA
* * *
26565960 GCCGACACCACTTTTTTTATCTGATAAAAAATTAATTTTTTTTGGTGTCGGCCA-TGCAATGGCC
1 GCCGACACCACCTTTTTTATCTGATAAAAAATCAATTTTTTTTGGTGTTGGCCATTGC-ATGGCC
* * * *
26566024 GACACCTCCTTTTTGTCAGATAAAAAATATTTTTTTTGGTGTTCACCATGCCTTGGCTGACACCA
65 GACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTGATGTTCACCATG-CTTAGCCGACACCA
* * * * * ****
26566089 CCTTTTTTATCTGGAAAAAAATTAATTTTTTTTTGTGTTGGTTGTTGCATG
129 CCCTATTTATCTGAAAAAAAATCAA-TTTTTTTGGTGTTGACAATTGCATG
* * * *
26566140 GCCGACACCACCTTTTTTATCTGGTAAAAACTCAATTTTTTTTGGTGTTGACCATTGCATGGTCG
1 GCCGACACCACCTTTTTTATCTGATAAAAAATCAATTTTTTTTGGTGTTGGCCATTGCATGGCCG
*
26566205 ACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTGATGTT-AGTCATTG-TATAGCCGACACC
66 ACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTGATGTTCA-CCA-TGCT-TAGCCGACACC
26566268 -CCCTATTTATCT-AATAACAAAATCAATTTTTTTGGTGTTGACAATTGCATG
128 ACCCTATTTATCTGAA-AA-AAAATCAATTTTTTTGGTGTTGACAATTGCATG
* * * *
26566319 GCTGACACCACC-TTTTTATCTAATAAAAAATCAA-ATTTTTTGGTGTTGGCCATTACATGGCCG
1 GCCGACACCACCTTTTTTATCTGATAAAAAATCAATTTTTTTTGGTGTTGGCCATTGCATGGCCG
* ** * * * *
26566382 GCACCATCTATTTATCTGAT-AAAAATTTTTTTTTTG
66 ACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTG
26566418 GTGTCGGCCA
Statistics
Matches: 236, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
176 15 0.06
177 39 0.17
178 20 0.08
179 45 0.19
180 112 0.47
181 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (178 bp):
GCCGACACCACCTTTTTTATCTGATAAAAAATCAATTTTTTTTGGTGTTGGCCATTGCATGGCCG
ACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTGATGTTCACCATGCTTAGCCGACACCACC
CTATTTATCTGAAAAAAAATCAATTTTTTTGGTGTTGACAATTGCATG
Found at i:26566358 original size:118 final size:119
Alignment explanation
Indices: 26566140--26566358 Score: 277
Period size: 118 Copynumber: 1.8 Consensus size: 119
26566130 TTGTTGCATG
* * ** * *
26566140 GCCGACACCACCTTTTTTATCTGGTAAAAACTCAATTTTTTTTGGTGTTGACCATTGCATGGTCG
1 GCCGACACCACCCTATTTATCTAATAAAAAATCAATTTTTTTTGGTGTTGACAATTGCATGGTCG
* * **
26566205 ACACCCCCTTTTTGTCAGATAAAAAATATTTTTTTTGATGTTAGTCATTGTATA
66 ACACCACCTTTTTATCAGATAAAAAATATAATTTTTGATGTTAGTCATTGTATA
26566259 GCCGACACC-CCCTATTTATCTAATAACAAAATCAA-TTTTTTTGGTGTTGACAATTGCATGG-C
1 GCCGACACCACCCTATTTATCTAATAA-AAAATCAATTTTTTTTGGTGTTGACAATTGCATGGTC
26566321 TGACACCACCTTTTTATCTA-ATAAAAAATCA-AATTTTT
65 -GACACCACCTTTTTATC-AGATAAAAAAT-ATAATTTTT
26566359 TGGTGTTGGC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
117 1 0.01
118 67 0.78
119 18 0.21
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (119 bp):
GCCGACACCACCCTATTTATCTAATAAAAAATCAATTTTTTTTGGTGTTGACAATTGCATGGTCG
ACACCACCTTTTTATCAGATAAAAAATATAATTTTTGATGTTAGTCATTGTATA
Found at i:26573203 original size:24 final size:24
Alignment explanation
Indices: 26573176--26573259 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
26573166 TATTGATGCC
26573176 TTTACGCTTGCCAGCTTGCACACG
1 TTTACGCTTGCCAGCTTGCACACG
* * * *
26573200 TTTACACTCGTCAGC-T-CAATTATGCG
1 TTTACGCTTGCCAGCTTGC-A-CA--CG
26573226 TTTACGCTTGCCAGCTTGCACACG
1 TTTACGCTTGCCAGCTTGCACACG
26573250 TTTACGCTTG
1 TTTACGCTTG
26573260 TTAGCTTAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.02
23 2 0.04
24 25 0.54
26 15 0.33
27 2 0.04
28 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33
Consensus pattern (24 bp):
TTTACGCTTGCCAGCTTGCACACG
Found at i:26573235 original size:50 final size:50
Alignment explanation
Indices: 26573171--26573379 Score: 220
Period size: 50 Copynumber: 4.2 Consensus size: 50
26573161 CATCATATTG
* * * *
26573171 ATGCCTTTACGCTTGCCAGCTTGCACACGTTTACACTCGTCAGCTCAATT
1 ATGCATTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTAATT
* * * *
26573221 ATGCGTTTACGCTTGCCAGCTTGCACACGTTTACGCTTGTTAGCTTAATT
1 ATGCATTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTAATT
* * * * * * *
26573271 ACGTATTTGCGCTCACCAGCTTGCACACGTTTATGCTAGTTAGCTTAATT
1 ATGCATTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTAATT
* ** * * *
26573321 ATTCATTTACGCTCGTTAGCTTGCACACATTTATGCTCGTCAGCTTAAAT
1 ATGCATTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTAATT
*
26573371 ATGCGTTTA
1 ATGCATTTA
26573380 TTCAATTTAA
Statistics
Matches: 133, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 133 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (50 bp):
ATGCATTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTAATT
Found at i:26573358 original size:24 final size:24
Alignment explanation
Indices: 26573288--26573366 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
26573278 TGCGCTCACC
* *
26573288 AGCTTGCACACGTTTATGCTAGTT
1 AGCTTGCACACATTTATGCTCGTT
* * *
26573312 AGCTT-AATTATTCATTTACGCTCGTT
1 AGCTTGCA-CA--CATTTATGCTCGTT
*
26573338 AGCTTGCACACATTTATGCTCGTC
1 AGCTTGCACACATTTATGCTCGTT
26573362 AGCTT
1 AGCTT
26573367 AAATATGCGT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.02
24 23 0.55
26 17 0.40
27 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (24 bp):
AGCTTGCACACATTTATGCTCGTT
Found at i:26583195 original size:23 final size:22
Alignment explanation
Indices: 26583164--26583207 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26583154 AAAGAAATAA
*
26583164 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
26583186 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
26583208 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:26584494 original size:26 final size:25
Alignment explanation
Indices: 26584465--26584565 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
26584455 CCATTTAGGC
* *
26584465 TCTTTTAATAGAATTTGCCACAAGGG
1 TCTTATAACAGAA-TTGCCACAAGGG
* *
26584491 TCTTATCACAGTATTGCCACAAGGG
1 TCTTATAACAGAATTGCCACAAGGG
* * *
26584516 TCTTATCACAGTATTGCCACAAGAG
1 TCTTATAACAGAATTGCCACAAGGG
* * * **
26584541 CCTTATCATATTATTGCCACAAGGG
1 TCTTATAACAGAATTGCCACAAGGG
26584566 AACTTTCAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 57 0.86
26 9 0.14
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (25 bp):
TCTTATAACAGAATTGCCACAAGGG
Found at i:26584507 original size:25 final size:25
Alignment explanation
Indices: 26584479--26584565 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
26584469 TTAATAGAAT
26584479 TTGCCACAAGGGTCTTATCACAGTA
1 TTGCCACAAGGGTCTTATCACAGTA
26584504 TTGCCACAAGGGTCTTATCACAGTA
1 TTGCCACAAGGGTCTTATCACAGTA
* * * *
26584529 TTGCCACAAGAGCCTTATCATATTA
1 TTGCCACAAGGGTCTTATCACAGTA
26584554 TTGCCACAAGGG
1 TTGCCACAAGGG
26584566 AACTTTCAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
TTGCCACAAGGGTCTTATCACAGTA
Found at i:26584775 original size:28 final size:28
Alignment explanation
Indices: 26584734--26584795 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
26584724 ATGGTAACAG
*
26584734 AAATAGCCACAAAGGCTTCCACATATCA
1 AAATAGCCACAAAGGATTCCACATATCA
* *
26584762 CAATAGCCATAAAGGATTCCACATATCA
1 AAATAGCCACAAAGGATTCCACATATCA
26584790 AAATAG
1 AAATAG
26584796 TTCTAACGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.19
Consensus pattern (28 bp):
AAATAGCCACAAAGGATTCCACATATCA
Found at i:26587600 original size:21 final size:21
Alignment explanation
Indices: 26587576--26587619 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
26587566 CAAGCATTCC
*
26587576 ATAACTCAAGATAACAT-AAAA
1 ATAACT-AAGATAAAATCAAAA
*
26587597 ATAACTTAGATAAAATCAAAA
1 ATAACTAAGATAAAATCAAAA
26587618 AT
1 AT
26587620 CATGCTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAACTAAGATAAAATCAAAA
Found at i:26590082 original size:79 final size:80
Alignment explanation
Indices: 26589924--26590075 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 80
26589914 AGATGTGACG
* * * ** * *
26589924 ATGATTTCTGTATATCCTCTATTCACTGAATATACCAAGGTCTTGCATTTGTTGTGGACTATTGT
1 ATGATTTCTGTATATCCTCTATTCACTAAATATACCAAGGTCGTACATTTGTTGCAGACCATCGT
26589989 GTTATATTTCAGTGT
66 GTTATATTTCAGTGT
* *
26590004 ATGATTT-TGTATATCCTCTATTTACTAAATATACCGAGGTCGTACATTTGTTGCAGACCATCGT
1 ATGATTTCTGTATATCCTCTATTCACTAAATATACCAAGGTCGTACATTTGTTGCAGACCATCGT
26590068 GTTATATT
66 GTTATATT
26590076 ATAGTGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
79 56 0.89
80 7 0.11
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (80 bp):
ATGATTTCTGTATATCCTCTATTCACTAAATATACCAAGGTCGTACATTTGTTGCAGACCATCGT
GTTATATTTCAGTGT
Found at i:26594489 original size:33 final size:33
Alignment explanation
Indices: 26594451--26594517 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
26594441 TAGATAATTA
26594451 TCATACTTAGATTTAATTACAGTAGAGATCATC
1 TCATACTTAGATTTAATTACAGTAGAGATCATC
26594484 TCATACTTAGATTTAATTACAGTAGAGATCATC
1 TCATACTTAGATTTAATTACAGTAGAGATCATC
26594517 T
1 T
26594518 TTCATTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
TCATACTTAGATTTAATTACAGTAGAGATCATC
Found at i:26594836 original size:21 final size:22
Alignment explanation
Indices: 26594812--26594856 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
26594802 ATCTTACTAA
*
26594812 TTAATTCTTTATTC-TTTATTT
1 TTAATTATTTATTCATTTATTT
*
26594833 TTAATTATTTTTTCATTTTATTT
1 TTAATTATTTATTCA-TTTATTT
26594856 T
1 T
26594857 CAAGACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (22 bp):
TTAATTATTTATTCATTTATTT
Found at i:26596175 original size:24 final size:24
Alignment explanation
Indices: 26596146--26596202 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
26596136 AATATGGGTA
26596146 ATTGCGAACTCTTGCGAATTGTGC
1 ATTGCGAACTCTTGCGAATTGTGC
*
26596170 ATTGCGAGCTCTTGCGAATTGTGC
1 ATTGCGAACTCTTGCGAATTGTGC
*
26596194 ATTTCGAAC
1 ATTGCGAAC
26596203 CCCTATGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (24 bp):
ATTGCGAACTCTTGCGAATTGTGC
Found at i:26601311 original size:44 final size:44
Alignment explanation
Indices: 26601248--26601335 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
26601238 CCATGCTCCA
*
26601248 TTGGAAACCATTATTTAGGTAAAGCTCTATGTGACCTAGGAGCT
1 TTGGAAACCATTATTTAGGTAAAACTCTATGTGACCTAGGAGCT
*
26601292 TTGGAAATCATTATTTAGGTAAAACTCTATGTGACCTAGGAGCT
1 TTGGAAACCATTATTTAGGTAAAACTCTATGTGACCTAGGAGCT
26601336 AGCATTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (44 bp):
TTGGAAACCATTATTTAGGTAAAACTCTATGTGACCTAGGAGCT
Found at i:26606596 original size:12 final size:12
Alignment explanation
Indices: 26606536--26606596 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
26606526 GGTGTTGAAG
26606536 AGGAAGAAGAGAA
1 AGGAAGAAGA-AA
*
26606549 AAG-AGAAGAAGA
1 AGGAAGAAGAA-A
26606561 AGGAATAGAAGAAA
1 AGG-A-AGAAGAAA
*
26606575 AGGAAAAAGAAA
1 AGGAAGAAGAAA
*
26606587 ATGAAGAAGA
1 AGGAAGAAGA
26606597 TTTTGTGCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.03
12 24 0.62
13 3 0.08
14 4 0.10
15 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (12 bp):
AGGAAGAAGAAA
Found at i:26612680 original size:16 final size:15
Alignment explanation
Indices: 26612661--26612719 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
26612651 TTAATTAGTA
26612661 TAAAATATTAACAATT
1 TAAAATATTAA-AATT
26612677 TAAAA-A-T-AAATT
1 TAAAATATTAAAATT
*
26612689 AAAAAT-TTAACAATT
1 TAAAATATTAA-AATT
*
26612704 TAAAAAATTAAAATT
1 TAAAATATTAAAATT
26612719 T
1 T
26612720 TGGAGAGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
12 8 0.23
13 2 0.06
14 2 0.06
15 14 0.40
16 9 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATATTAAAATT
Found at i:26616362 original size:16 final size:16
Alignment explanation
Indices: 26616341--26616442 Score: 71
Period size: 16 Copynumber: 5.8 Consensus size: 16
26616331 CTAAAAATTC
26616341 AGGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGT
26616357 AGGCTTTGTGCCGGT-GTTTT
1 AGGCTTTGTGCC--TAG---T
*
26616377 CAGTCTTTGTGCCTAGT
1 -AGGCTTTGTGCCTAGT
*
26616394 AGGCTTTGTGCCGATGTTTTT
1 AGGCTTTGTGCCTA-G----T
26616415 AGGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGT
*
26616431 AGTCTTTGTGCC
1 AGGCTTTGTGCC
26616443 GGTTTATTCG
Statistics
Matches: 69, Mismatches: 5, Indels: 24
0.70 0.05 0.24
Matches are distributed among these distances:
16 36 0.52
17 3 0.04
18 1 0.01
19 1 0.01
20 3 0.04
21 25 0.36
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.42
Consensus pattern (16 bp):
AGGCTTTGTGCCTAGT
Found at i:26616388 original size:37 final size:37
Alignment explanation
Indices: 26616338--26616483 Score: 213
Period size: 37 Copynumber: 3.9 Consensus size: 37
26616328 CATCTAAAAA
26616338 TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTT
1 TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* *
26616375 TTCAGTCTTTGTGCCTAGTAGGCTTTGTGCCGATGTT
1 TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* *
26616412 TTTAGGCTTTGTGCCTAGTAGTCTTTGTGCCGGT-TT
1 TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTT
* * *
26616448 ATTCGGGCTATGTGCCTAGTAGGTTTTGTGCCGGTG
1 -TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTG
26616484 ATCCAAGAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
36 2 0.02
37 94 0.98
ACGTcount: A:0.10, C:0.18, G:0.31, T:0.42
Consensus pattern (37 bp):
TTCAGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTT
Found at i:26616419 original size:21 final size:21
Alignment explanation
Indices: 26616356--26616426 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
26616346 TTGTGCCTAG
*
26616356 TAGGCTTTGTGCCGGTGTTTT
1 TAGGCTTTGTGCCGATGTTTT
* * *
26616377 CAGTCTTTGTGCCTA-G----
1 TAGGCTTTGTGCCGATGTTTT
26616393 TAGGCTTTGTGCCGATGTTTT
1 TAGGCTTTGTGCCGATGTTTT
26616414 TAGGCTTTGTGCC
1 TAGGCTTTGTGCC
26616427 TAGTAGTCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
16 12 0.32
17 1 0.03
20 1 0.03
21 24 0.63
ACGTcount: A:0.08, C:0.18, G:0.30, T:0.44
Consensus pattern (21 bp):
TAGGCTTTGTGCCGATGTTTT
Found at i:26618176 original size:15 final size:15
Alignment explanation
Indices: 26618156--26618184 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26618146 GTATTGTTGC
26618156 TTGATAACACGGTGA
1 TTGATAACACGGTGA
26618171 TTGATAACACGGTG
1 TTGATAACACGGTG
26618185 TGTGAGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:26619438 original size:29 final size:29
Alignment explanation
Indices: 26619384--26619439 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
26619374 CTGTTTTAAA
* *
26619384 ATATTTATAAAAAAAGACAACTAATTTCG
1 ATATTTACAAAAAAAGACAACAAATTTCG
*
26619413 ATATTTACAAAAAGA-ACAACCAAATTT
1 ATATTTACAAAAAAAGACAA-CAAATTT
26619440 TATAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAAAAAGACAACAAATTTCG
Found at i:26637571 original size:18 final size:18
Alignment explanation
Indices: 26637544--26637578 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26637534 CACTAACACT
*
26637544 AAAATGCAATGACAATGG
1 AAAATACAATGACAATGG
26637562 AAAATACAATGACAATG
1 AAAATACAATGACAATG
26637579 CTTACTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (18 bp):
AAAATACAATGACAATGG
Found at i:26645916 original size:18 final size:18
Alignment explanation
Indices: 26645893--26645929 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26645883 ACAATTCATA
26645893 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
26645911 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
26645929 T
1 T
26645930 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:26653233 original size:22 final size:21
Alignment explanation
Indices: 26653156--26653248 Score: 80
Period size: 22 Copynumber: 4.3 Consensus size: 21
26653146 ATCAAAACCA
26653156 ATCGACCTGACCCAACCGTTG
1 ATCGACCTGACCCAACCGTTG
* * *
26653177 A-CTGACCTGACTCGACCATTG
1 ATC-GACCTGACCCAACCGTTG
**
26653198 ATCGAACCCAACCCAACCGTTG
1 ATCG-ACCTGACCCAACCGTTG
* *
26653220 ATCGAACCTGACCCGATCGTTG
1 ATCG-ACCTGACCCAACCGTTG
*
26653242 ACCGACC
1 ATCGACC
26653249 CGTTAACCGT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.02
21 21 0.38
22 34 0.61
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.18
Consensus pattern (21 bp):
ATCGACCTGACCCAACCGTTG
Found at i:26660006 original size:21 final size:21
Alignment explanation
Indices: 26659960--26660008 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26659950 CCTAAACCCT
* *
26659960 CTAAA-CCTAAACCATTAGAC
1 CTAAACCCTAAACCAGTAAAC
26659980 CTAAACCCTAAACCAAGTAAAC
1 CTAAACCCTAAACC-AGTAAAC
26660002 C-AAACCC
1 CTAAACCC
26660009 AATCAACCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.47, C:0.35, G:0.04, T:0.14
Consensus pattern (21 bp):
CTAAACCCTAAACCAGTAAAC
Found at i:26660099 original size:13 final size:14
Alignment explanation
Indices: 26660067--26660104 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
26660057 GACCGACCTG
*
26660067 TTGACCGTTGACGA
1 TTGACCATTGACGA
*
26660081 TTGACCATTGAC-T
1 TTGACCATTGACGA
26660094 TTGACCATTGA
1 TTGACCATTGA
26660105 TTTTTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (14 bp):
TTGACCATTGACGA
Found at i:26660726 original size:2 final size:2
Alignment explanation
Indices: 26660719--26660746 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26660709 ATGCATTGAG
26660719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26660747 GAGAAATAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26674336 original size:40 final size:39
Alignment explanation
Indices: 26674258--26674395 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
26674248 CACACCGGCA
*
26674258 CAAAGCCCGATAAATACACTG-AAATAGAGCCTGCTAGGCT
1 CAAAGCCCGATAAATACACTGCACA-A-AGCCTGCTAGGCT
* * *
26674298 CAAGGCCCGATAAATACACTAGCACAAAGCTTGGTAGGCAT
1 CAAAGCCCGATAAATACACT-GCACAAAGCCTGCTAGGC-T
** * * *
26674339 -AAAGCCTAATAAATACGCTGGCACAAAGCCTGCTACGCA
1 CAAAGCCCGATAAATACACT-GCACAAAGCCTGCTAGGCT
*
26674378 CAAAGCCCGCTAAATACA
1 CAAAGCCCGATAAATACA
26674396 ATACCATAGC
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
40 72 0.94
41 3 0.04
42 2 0.03
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (39 bp):
CAAAGCCCGATAAATACACTGCACAAAGCCTGCTAGGCT
Found at i:26674380 original size:16 final size:16
Alignment explanation
Indices: 26674359--26674389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26674349 AAATACGCTG
*
26674359 GCACAAAGCCTGCTAC
1 GCACAAAGCCCGCTAC
26674375 GCACAAAGCCCGCTA
1 GCACAAAGCCCGCTA
26674390 AATACAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.39, G:0.19, T:0.10
Consensus pattern (16 bp):
GCACAAAGCCCGCTAC
Found at i:26679288 original size:19 final size:19
Alignment explanation
Indices: 26679261--26679338 Score: 106
Period size: 19 Copynumber: 4.2 Consensus size: 19
26679251 TGCGATCCAA
26679261 TATTGCTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
*
26679280 TATTACTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
*
26679299 TATTGCTCTTACGATCCAG
1 TATTGCTCTTACGAGCCAG
*
26679318 TA-TGCT-TAAACGAGCCAG
1 TATTGCTCT-TACGAGCCAG
26679336 TAT
1 TAT
26679339 GCTATTCCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
17 1 0.02
18 14 0.27
19 37 0.71
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (19 bp):
TATTGCTCTTACGAGCCAG
Found at i:26683516 original size:23 final size:23
Alignment explanation
Indices: 26683483--26683543 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
26683473 ACTATTTGAA
26683483 TAAATGGAAGACTTAGTGATTAT
1 TAAATGGAAGACTTAGTGATTAT
*
26683506 TAAATGAAAGACTCT-GTGATTAT
1 TAAATGGAAGACT-TAGTGATTAT
*
26683529 TGAATGGAAGACTTA
1 TAAATGGAAGACTTA
26683544 TGTTTCGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (23 bp):
TAAATGGAAGACTTAGTGATTAT
Found at i:26684829 original size:12 final size:12
Alignment explanation
Indices: 26684812--26684836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26684802 TGTTATCATG
26684812 ATGAATGCTATT
1 ATGAATGCTATT
26684824 ATGAATGCTATT
1 ATGAATGCTATT
26684836 A
1 A
26684837 ATTCTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:26687341 original size:36 final size:36
Alignment explanation
Indices: 26687290--26687385 Score: 156
Period size: 36 Copynumber: 2.7 Consensus size: 36
26687280 TTGTAACAGG
* *
26687290 CATGACCTTTAGGTCAATAGGGAGAAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGAAAAATGAGCAT
*
26687326 CATGACCTTTGGGTCAACAGGGAGGAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGAAAAATGAGCAT
*
26687362 CATGACCTTTGGGTCAACAAGGAG
1 CATGACCTTTGGGTCAACAGGGAG
26687386 TATGCATGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGAAAAATGAGCAT
Found at i:26687402 original size:28 final size:28
Alignment explanation
Indices: 26687362--26687415 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
26687352 AAATGAGCAT
*
26687362 CATGACCTTTGGGTCAACAAGGAGTATG
1 CATGACCTTTGGGGCAACAAGGAGTATG
26687390 CATGACCTTTGGGGCAACAAGGAGTA
1 CATGACCTTTGGGGCAACAAGGAGTA
26687416 AATCAGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (28 bp):
CATGACCTTTGGGGCAACAAGGAGTATG
Found at i:26691637 original size:21 final size:21
Alignment explanation
Indices: 26691613--26691663 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
26691603 TTTTAGTACT
*
26691613 GGTAGAAGCGTGATTTGTTTC
1 GGTAGAAGCATGATTTGTTTC
26691634 GGTAGAAGCATGATTTGTTTC
1 GGTAGAAGCATGATTTGTTTC
26691655 GGTAGAAGC
1 GGTAGAAGC
26691664 TTCACTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (21 bp):
GGTAGAAGCATGATTTGTTTC
Found at i:26696652 original size:24 final size:25
Alignment explanation
Indices: 26696610--26696657 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
26696600 ACATTCACAT
* * *
26696610 TCATCTAATTCATGTATT-AGCATC
1 TCATATAATTCAAGAATTAAGCATC
26696634 TCATATAATTCAAGAATTAAGCAT
1 TCATATAATTCAAGAATTAAGCAT
26696658 AAAATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (25 bp):
TCATATAATTCAAGAATTAAGCATC
Found at i:26705014 original size:27 final size:26
Alignment explanation
Indices: 26704984--26705036 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
26704974 ATTAAAACCC
26704984 AAATTATTAATGAAAT-ATTTTATATTT
1 AAATTATTAA--AAATAATTTTATATTT
*
26705011 AAATTATTAAATATAATTTTATATTT
1 AAATTATTAAAAATAATTTTATATTT
26705037 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 11 0.46
27 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTATTAAAAATAATTTTATATTT
Found at i:26706874 original size:23 final size:22
Alignment explanation
Indices: 26706843--26706973 Score: 109
Period size: 23 Copynumber: 5.5 Consensus size: 22
26706833 GAACACTAGC
26706843 GTGCCCTCTGTTTAGCACGTTTT
1 GTGCCCTCTGTTTAGCAC-TTTT
* * *
26706866 GTGCTCTCTGTTCAGCACTGTGT
1 GTGCCCTCTGTTTAGCACT-TTT
* *
26706889 GTGCCCTCTATTATTAGCACTTCAT
1 GTGCCCTCT-GT-TTAGCACTT-TT
*
26706914 GTGCCCTCTGATTAGCACTTTGT
1 GTGCCCTCTGTTTAGCACTTT-T
* *
26706937 GTGCCCTCTGTTACCCAGCACTTAT
1 GTGCCCTCTGTT---TAGCACTTTT
26706962 GTGCCCTCTGTT
1 GTGCCCTCTGTT
26706974 AAGTACTTCG
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
22 1 0.01
23 47 0.54
24 2 0.02
25 30 0.34
26 7 0.08
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (22 bp):
GTGCCCTCTGTTTAGCACTTTT
Found at i:26706917 original size:48 final size:47
Alignment explanation
Indices: 26706856--26706974 Score: 141
Period size: 48 Copynumber: 2.5 Consensus size: 47
26706846 CCCTCTGTTT
* * **
26706856 AGCACGTTTTGTGCTCTCTGTTCAGCACTGTGTGTGCCCTCTATTA-TT
1 AGCAC-TTATGTGCCCTCTGTT-AGCACTGTGTGTGCCCTCTATTACCC
* *
26706904 AGCACTTCATGTGCCCTCTGATTAGCACTTTGTGTGCCCTCTGTTACCC
1 AGCACTT-ATGTGCCCTCTG-TTAGCACTGTGTGTGCCCTCTATTACCC
26706953 AGCACTTATGTGCCCTCTGTTA
1 AGCACTTATGTGCCCTCTGTTA
26706975 AGTACTTCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
47 5 0.08
48 48 0.77
49 9 0.15
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (47 bp):
AGCACTTATGTGCCCTCTGTTAGCACTGTGTGTGCCCTCTATTACCC
Found at i:26720586 original size:37 final size:37
Alignment explanation
Indices: 26720536--26720709 Score: 201
Period size: 37 Copynumber: 4.8 Consensus size: 37
26720526 TTCTTCGATT
**
26720536 ACCGGCACAAAGCCTGTTAGGCACATAGCCCGAATAC
1 ACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAC
** * * *
26720573 ACCGGCATGAAGCCTACTAGACACATAGCCTGAAAAC
1 ACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAC
** *
26720610 ACCGGCATGAAGCCTACTAGGCACATAGCCTGAATAC
1 ACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAC
* *
26720647 ACCGGCACAAAACCTACTAGGCACATAACCTC-AATAC
1 ACCGGCACAAAGCCTACTAGGCACATAGCC-CGAATAC
*
26720684 ACCGGCAC--AGCCTAATAGGCACATAG
1 ACCGGCACAAAGCCTACTAGGCACATAG
26720710 ACTGAATATT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
35 15 0.13
37 104 0.87
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.14
Consensus pattern (37 bp):
ACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAC
Found at i:26720692 original size:21 final size:20
Alignment explanation
Indices: 26720629--26720692 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
26720619 AAGCCTACTA
*
26720629 GGCACATAGCCTGAATACACC
1 GGCACATAACCT-AATACACC
* *
26720650 GGCACAAAACCTACT--A--
1 GGCACATAACCTAATACACC
26720666 GGCACATAACCTCAATACACC
1 GGCACATAACCT-AATACACC
26720687 GGCACA
1 GGCACA
26720693 GCCTAATAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 11 0.33
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 16 0.48
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.12
Consensus pattern (20 bp):
GGCACATAACCTAATACACC
Found at i:26723260 original size:6 final size:6
Alignment explanation
Indices: 26723245--26723276 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
26723235 ATTTAAATTA
26723245 TTTA-T TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
26723277 CAAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:26733535 original size:216 final size:215
Alignment explanation
Indices: 26733161--26736592 Score: 4021
Period size: 216 Copynumber: 15.9 Consensus size: 215
26733151 ACGTGTTACA
* * * *
26733161 ATCGTCTTGAATACTTTAAAGAACCGAAGTTATAAAATAACTTGGAAAAGTTTGAAAAGTTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * *
26733226 AGTTCGGCCAAGAACCAAGAGAGAGACAATTCTCATGTAAATAAGGTTTTAATCCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* *
26733291 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAGTGTTCG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-
*
26733356 GAAAAATACTCGAAGGAATGG
195 GAAAAATGCTCGAAGGAATGG
* * * * *
26733377 ATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTTACAACTTCGAA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * *
26733442 AGTTTGGCTAAGAACCAAGAGAGAAATAATTCTTACGTAAAAAAGTTTTTAATTCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * **
26733507 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATTATGTGATTTCTTGAGCATGGAATGTTCG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-
* *
26733572 GAAAATTGCTCGATGGAATGG
195 GAAAAATGCTCGAAGGAATGG
** * * * ** *
26733593 ATCGTCTTGAATACTTTAAGGAAAAGAAGTTATAAAAAAACTCATAACAGTTTGGTAAGTTCGGT
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * *
26733658 AGTTTGGCCAAGAACTAAGAGAGAAACAAGTCTCACGTAAATAAGTTTTTAATTCAAATACCGAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
26733723 AGTTTTTTAGAAAATGACAAACTATTTTGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATG-TTC
* *
26733788 GAAAATTGCTCGAATGAATGG
195 GAAAAATGCTCGAAGGAATGG
* * * **
26733809 ATCATCTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTCAAAAAAGTTTGAAAAGTTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* *
26733874 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * *
26733939 ATTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATCTCTCGAGCATGGAATGTTTG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATG-TTC
* **
26734004 GAAAATTGCTCGAAGGAATCA
195 GAAAAATGCTCGAAGGAATGG
* * * * * *
26734025 ATCATCTTGAATACTGTAAGGAAACAAAGTTATAAAAGAACTCGAAAAAGTTTGAAAAGCTC-GA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * *
26734089 ATGTTCGACCAAGAACCAAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAATCCAAACACCAA
66 A-GTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
* *
26734154 AAGTTGTTTACAAGATGACAAACTATTTGGACCAAATGATCCGATTTCCCGAGCATGGAATGTTC
130 AAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* * *
26734219 GGAAAATTGGTCAAAGGAATGG
195 -GAAAAATGCTCGAAGGAATGG
* * * * *
26734241 ATCGTCTTGAATACTTTAAAGAACCGAAGTTATAAAAGAACTCATAAAAGTTTTACAAGTTCGAA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* *
26734306 AGTTCGGCCAAGAA-CAAGGAGAAAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
66 AGTTCGGCCAAGAACCAA-GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
* *
26734370 AAGTTGTTTACAAAATGACAAACTATTTAGATCAAATGATGCGATTTCCCGAGCAT-G---G--C
130 AAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* *
26734429 GAAAAATTTCTCGTAGGAATGG
195 GAAAAA-TGCTCGAAGGAATGG
* * * * * *
26734451 ATCATATTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTC-AAAAAATTTAAAAAGTTTGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * * *
26734515 AGTTCGGCTAAGAACCAAAAGAGAAACATTTCTCATGGAAATAAGTTTTTAATCCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * * * *
26734580 ATTTGTTTACAAATTGACAAACTTTTTGGACTAAATGATGTGATTTCCCGAGCATGGAATATTCA
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
*
26734645 AAAAATTGCTCGAAGGAATGA
196 AAAAA-TGCTCGAAGGAATGG
* * * * ** *
26734666 ATCGTCTAGAATACTATAAGGAACTGAAGTTATAAAAGAACTCGCAAAAGTTTGACTAGGTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* *** * *
26734731 TGTTTATCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * *
26734796 AGTTGTTTACAAAATGACAAATTATTTGGACCAAATGACGCGATTTCCCGAGCATGGAGTGTTCA
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* *
26734861 AAAAATTTCTCGAAGGAACGG
196 AAAAA-TGCTCGAAGGAATGG
* * * *
26734882 ATTGTCTTGAATACTTTAAGGAACTGAAGTTATAAAATAACTTGTAAAAGTTTG---A---C--A
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * *
26734939 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATACGTTTTTAATTTAAAAACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
26735004 AGTTGTTTACAAAATGACAAACTATTTAGACTAAATGATGCAATTTCGCGAGCATGGAATGTTAG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
*
26735069 AAAAATTGCTTGAAGGAATGG
196 AAAAA-TGCTCGAAGGAATGG
* * * *
26735090 ATCGTCTTAAATACTTTAAGGAACCGAATTTATAAAAGAACTCGAAAAAGTTTTAAAAGTTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * ** * *
26735155 AGTTTGGCCAATAACAAATAGAGAAACAATTCTCATATAAATAAGTTTTTAATCCAAAGAACAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* *
26735220 AGTTGTTTACAAATTGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCG
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
26735285 AAAAATTGCTCGAAGGAATGG
196 AAAAA-TGCTCGAAGGAATGG
* * *** * * * **
26735306 ATCGCCTCGAATACGAAGGAATGGATCGTCTTGAA-TACTTTAAGGAATCGAAGTTATAAAAAAC
1 ATCGTCTTGAATAC--TTTAA-GGAAC--C--GAAGT--TATAA--AA--GAACTCGT--AAAA-
* * *** *
26735370 TCGTAAAATTTTACAAGTTCGGAAGTTTTACCAAGAACCAACAGAGAAACAATT-TGCACGTAAA
50 --G-----TTTGAAAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCT-CACGTAAA
*
26735434 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGT
107 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGC
** * * **
26735499 GATTTCTTGAGCATGGAATCTTCGAAAAATTTCTCGAAAAAATGG
172 GATTTCCCGAGCATGGAATGTTCGAAAAA-TGCTCGAAGGAATGG
** * * * *
26735544 ATTATCTTGAATACTTTAAGGAACCGAAGTTATAAAAAAACTCATAAAAGTTTGAAACGTTTGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * *
26735609 AGTTCGACCTAGAACCTAA-AGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAA
66 AGTTCGGCCAAGAACC-AAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
* *
26735673 AAGTT-TTTACAAAATGACAATCTATTTGGACCAAATGATACGATTTCCCGAGCATGGAATGTTC
130 AAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* *
26735737 AAAAAATTACTCGAAGGAATGG
195 GAAAAA-TGCTCGAAGGAATGG
* * * * *
26735759 ATCATTTTGAATACTTTAAAGAACTGAAGTTATAAAATAACTCGTAAAAGTTTGAAAAGTTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * *
26735824 AGTTCGGCCAAAAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * **
26735889 AGTTGTTTACAAAATGACAAATTATTTGGACCAGATGATGAGATTTCCTAAGCATGGAATGTTCA
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-
**
26735954 GAAATTTGCTCGAAGGAATGG
195 GAAAAATGCTCGAAGGAATGG
* ** * ** * *
26735975 ATTGTCTTGAATACTTTAAGGAATTGAAGTTGTAAAAGAACTCGTAAAACATTGACAAGTTTGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* * * * * **
26736040 AGTTCGACCATGAACCAAGAGAGAAACAATTTTCACGTAAATAAATTTTTAATTTAAAGACTGAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * ** *
26736105 AGTTGTGTACAAAATGTCAAACTATTTGGATCAAATGATGCAATTTCCTAAGCATGAAATGTTCA
131 AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-
* *
26736170 GAAAATTGCTCGAAGGAATGA
195 GAAAAATGCTCGAAGGAATGG
* * ** *
26736191 ATCATCTTTAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGGCAAGTTCGAA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
*
26736256 AGTTCGGCCAAGAATCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* *
26736321 AGTTTTTTACAAAATGACAAACTATTTGGACCAGAA-GATGCGATTTCTCGAGCATGGAATGTTT
131 AGTTGTTTACAAAATGACAAACTATTTGGACCA-AATGATGCGATTTCCCGAGCATGGAATG-TT
* * *
26736385 GGAAAATTGCTCGAAGGAATTG
194 CGAAAAATGCTCGAAGGAATGG
* * * * **
26736407 ATCGTCTTTAATACTTTAAGAAACCGATGTTATAAAAGAACTCGTAAAAGATTGGTAAGTTCGGA
1 ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
* *
26736472 AATTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAGAA-ACTAA
66 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAA
* * * * *
26736536 AAGTTGTTTACAAAATAAAAAACTATTTGGGCTAAATGATGCGATTTCTCGAGCATG
130 AAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATG
26736593 AAGTGTTTTA
Statistics
Matches: 2758, Mismatches: 402, Indels: 112
0.84 0.12 0.03
Matches are distributed among these distances:
208 177 0.06
209 121 0.04
210 57 0.02
211 1 0.00
212 1 0.00
213 1 0.00
214 3 0.00
215 256 0.09
216 1916 0.69
217 16 0.01
218 2 0.00
219 4 0.00
221 2 0.00
222 1 0.00
223 3 0.00
224 8 0.00
226 7 0.00
228 6 0.00
230 8 0.00
231 3 0.00
232 1 0.00
233 2 0.00
235 4 0.00
236 2 0.00
237 1 0.00
238 155 0.06
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (215 bp):
ATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCGGA
AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
AGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
AAAAATGCTCGAAGGAATGG
Found at i:26735322 original size:24 final size:24
Alignment explanation
Indices: 26735295--26735343 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
26735285 AAAAATTGCT
26735295 CGAAGGAATGGATCGCCTCGAATA
1 CGAAGGAATGGATCGCCTCGAATA
* *
26735319 CGAAGGAATGGATCGTCTTGAATA
1 CGAAGGAATGGATCGCCTCGAATA
26735343 C
1 C
26735344 TTTAAGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (24 bp):
CGAAGGAATGGATCGCCTCGAATA
Found at i:26735514 original size:238 final size:240
Alignment explanation
Indices: 26735080--26735545 Score: 695
Period size: 238 Copynumber: 1.9 Consensus size: 240
26735070 AAAATTGCTT
*
26735080 GAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAATTTATAAAAGAACTCGAAAAAGTTTTA
1 GAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTTA
* * * *
26735145 AAAGTTCGGAAGTTTGGCCAATAACAAATAGAGAAACAATTCTCATATAAATAAGTTTTTAATCC
66 AAAGTTCGGAAGTTTGACCAAGAACAAACAGAGAAACAATTCTCACATAAATAAGTTTTTAATCC
*
26735210 AAAGAACAAAAGTTGTTTACAAATTGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCAT
131 AAAGAACAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCAT
* **
26735275 GGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGCCTCGAATAC
196 GGAATCTTCGAAAAATTGCTCGAAAAAATGGATCGCCTCGAATAC
* * *
26735320 GAAGGAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAA-AACTCGTAAAA-TTTTA
1 GAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTTA
* * * * *
26735383 CAAGTTCGGAAGTTTTACCAAGAACCAACAGAGAAACAATT-TGCACGTAAATAAGTTTTTAATT
66 AAAGTTCGGAAGTTTGACCAAGAACAAACAGAGAAACAATTCT-CACATAAATAAGTTTTTAATC
* * ***
26735447 CAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGTGATTTCTTGAGCA
130 CAAAGAACAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCA
*
26735512 TGGAATCTTCGAAAAATTTCTCGAAAAAATGGAT
195 TGGAATCTTCGAAAAATTGCTCGAAAAAATGGAT
26735546 TATCTTGAAT
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
237 1 0.00
238 147 0.73
239 10 0.05
240 44 0.22
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (240 bp):
GAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTTA
AAAGTTCGGAAGTTTGACCAAGAACAAACAGAGAAACAATTCTCACATAAATAAGTTTTTAATCC
AAAGAACAAAAGTTGTTTACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCAT
GGAATCTTCGAAAAATTGCTCGAAAAAATGGATCGCCTCGAATAC
Found at i:26738608 original size:15 final size:15
Alignment explanation
Indices: 26738573--26738610 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
26738563 TCTGAGTTAA
26738573 TATTTTCTTTATTGC
1 TATTTTCTTTATTGC
*
26738588 TGTTTTCTTT-TTGC
1 TATTTTCTTTATTGC
26738602 TTATTTTCT
1 -TATTTTCT
26738611 AGTGGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.71
Consensus pattern (15 bp):
TATTTTCTTTATTGC
Found at i:26746672 original size:19 final size:19
Alignment explanation
Indices: 26746648--26746694 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
26746638 TAATGGTGTT
* *
26746648 TGATTAGTTGAATTATGTC
1 TGATTAGTGGAATTATGTA
*
26746667 TGATTAGTGGAATTGTGTA
1 TGATTAGTGGAATTATGTA
26746686 TGATTAGTG
1 TGATTAGTG
26746695 AAATCATGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.45
Consensus pattern (19 bp):
TGATTAGTGGAATTATGTA
Found at i:26748488 original size:43 final size:43
Alignment explanation
Indices: 26748440--26748528 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
26748430 ATCTCGATGA
* *
26748440 AATTTGGATTGTATTTAAAGAGTAATTTAAATTTTAAACAAGT
1 AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
*
26748483 AATTTGGGTTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
1 AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
26748526 AAT
1 AAT
26748529 CTTAATACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (43 bp):
AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
Found at i:26751993 original size:2 final size:2
Alignment explanation
Indices: 26751986--26752021 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26751976 TGTATCAGTC
26751986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26752022 GCACTCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26752540 original size:36 final size:37
Alignment explanation
Indices: 26752476--26752554 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 37
26752466 AGCAGGACAG
26752476 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
1 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
26752513 CACGTTGGCGTCATGG-TTCTTTCATCTGTTAGTCAA
1 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
26752549 CACGTT
1 CACGTT
26752555 CTTCCTCCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 26 0.62
37 16 0.38
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (37 bp):
CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
Found at i:26757631 original size:19 final size:19
Alignment explanation
Indices: 26757607--26757653 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
26757597 TAATGGTGTT
* *
26757607 TGATTAGTTGAATTATGTC
1 TGATTAGTGGAATTATGTA
*
26757626 TGATTAGTGGAATTGTGTA
1 TGATTAGTGGAATTATGTA
26757645 TGATTAGTG
1 TGATTAGTG
26757654 AAATCATGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.45
Consensus pattern (19 bp):
TGATTAGTGGAATTATGTA
Found at i:26759449 original size:43 final size:43
Alignment explanation
Indices: 26759401--26759489 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
26759391 ATCTCGATGA
* *
26759401 AATTTGGATTGTATTTAAAGAGTAATTTAAATTTTAAACAAGT
1 AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
*
26759444 AATTTGGGTTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
1 AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
26759487 AAT
1 AAT
26759490 CTTAATACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (43 bp):
AATTTGGATTGCATTTAAAGAGTAAATTAAATTTTAAACAAGT
Found at i:26762956 original size:2 final size:2
Alignment explanation
Indices: 26762949--26762986 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
26762939 GTATCAGTCA
26762949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26762987 GCACTCAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26763491 original size:37 final size:37
Alignment explanation
Indices: 26763441--26763520 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
26763431 AGCAGGACAG
26763441 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
1 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
26763478 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
1 CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
26763515 CACGTT
1 CACGTT
26763521 CTTCCTCGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (37 bp):
CACGTTGGCGTCATGGCTTCTTTCATCTGTTAGTCAA
Found at i:26785643 original size:9 final size:11
Alignment explanation
Indices: 26785619--26785644 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26785609 AAATCATGTT
26785619 TATATTTGTAA
1 TATATTTGTAA
26785630 TATATTTGTAA
1 TATATTTGTAA
26785641 TATA
1 TATA
26785645 ACGAATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TATATTTGTAA
Done.