Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 129 of 345
Found at i:34727203 original size:27 final size:27
Alignment explanation
Indices: 34727066--34727222 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
34727056 TGGTATTTTA
* * **
34727066 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
34727093 GTAATTCTGCAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
34727120 GTAATTCTATAAATCGAGGTTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
34727147 ATAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
34727174 GTAATTATGTAAATCGAGGGTAATTTG
1 GTAATTCTGTAAATCGAGGGTAAAATG
34727201 GTAATT-T-TACAAGTCGAGGGTA
1 GTAATTCTGTA-AA-TCGAGGGTA
34727223 TTTCAATAAT
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.02
26 3 0.03
27 104 0.95
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:34727232 original size:81 final size:81
Alignment explanation
Indices: 34727024--34727233 Score: 195
Period size: 81 Copynumber: 2.6 Consensus size: 81
34727014 AATTTTACTG
* * * * * * * *
34727024 ATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCAAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCAAGGGTAA
*
34727089 AACAGTAATTCTGCAA
66 AACAGTAATTATGCAA
* ** * * * *** * **
34727105 ATCAAGGGTAAAATAGTAATTCTATAAATCGAGGTTAAAACGATAATTCTGTAAATTGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCAAGGGTAA
* *
34727170 AACGGTAATTATGTAA
66 AACAGTAATTATGCAA
* *
34727186 ATCGAGGGTAATTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATT
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATT
34727234 GGTAAACTAA
Statistics
Matches: 94, Mismatches: 35, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTATTTCAATAATTCTGTAAATCAAGGGTAA
AACAGTAATTATGCAA
Found at i:34729547 original size:31 final size:31
Alignment explanation
Indices: 34729504--34729612 Score: 182
Period size: 31 Copynumber: 3.5 Consensus size: 31
34729494 TTTAACAGTT
* * *
34729504 ACTGGGCTGAAGCCTTTTCATAAATCACATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
34729535 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
34729566 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
34729597 TCTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
34729613 TACTGTAAAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:34732796 original size:24 final size:24
Alignment explanation
Indices: 34732652--34732799 Score: 224
Period size: 24 Copynumber: 6.2 Consensus size: 24
34732642 GAGGAAGTGC
*
34732652 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
34732676 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
34732700 AAAAGGGCTTATGCCCTAATTACT
1 AAAAGGGCTTATGCCCCAGTTATT
34732724 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34732748 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34732772 AAAAGGGCTTTTGCCCCAGTAATT
1 AAAAGGGCTTATGCCCCAGTTATT
34732796 AAAA
1 AAAA
34732800 AAGGCTAGGC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 112 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34733904 original size:27 final size:27
Alignment explanation
Indices: 34733874--34733934 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
34733864 GGGCATATTC
*
34733874 GTCATTTTACCATACAGGGGTTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
* *
34733901 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
34733928 GTC-TTTT
1 GTCATTTT
34733935 CACCTAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:34734022 original size:27 final size:27
Alignment explanation
Indices: 34733969--34734354 Score: 233
Period size: 27 Copynumber: 14.3 Consensus size: 27
34733959 TTTCACCCTA
* * * *
34733969 CAAGGGTATTTTGGTAAATCTAAAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
34733996 CAAGGTTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
34734023 CAAAGGTATTTCTA-TAATTTTCAGAAAGT
1 CAAGGGTATTT-TAGTAATTTT-ATAAA-C
* *
34734052 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
34734079 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * ** *
34734106 TGAGGGTATCTCGGTAATTTCA-AAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
34734132 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * *
34734159 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
34734186 CAGGGGTATTTTAGCAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
34734213 C-AGGGTATTTTGGTAATTTTACAGAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
34734239 CGAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
34734266 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* **** * *
34734293 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*** * *
34734320 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
34734347 GAAGGGTA
1 CAAGGGTA
34734355 AAACGGTAAT
Statistics
Matches: 291, Mismatches: 59, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 40 0.14
27 222 0.76
28 8 0.03
29 19 0.07
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:34734149 original size:53 final size:54
Alignment explanation
Indices: 34734055--34734231 Score: 189
Period size: 53 Copynumber: 3.3 Consensus size: 54
34734045 AGAAAGTCAA
* * ** * *
34734055 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATCTCGGTAATTTCATAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
*
34734108 AGGGTATCTCGGTAATTTCA-AAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATCTCGGTAATTTCATAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
* * * * * *
34734162 GGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGCAATTTTACAAACCA-
1 GGGTATCTCGGTAATTTCATAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
* *
34734215 GGGTATTTTGGTAATTT
1 GGGTATCTCGGTAATTT
34734232 TACAGATCGA
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 61 0.57
54 46 0.43
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATCTCGGTAATTTCATAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
Found at i:34734275 original size:80 final size:81
Alignment explanation
Indices: 34733973--34734286 Score: 246
Period size: 80 Copynumber: 3.9 Consensus size: 81
34733963 ACCCTACAAG
* * * * * * * * *
34733973 GGTATTTTGGTAAATCTAAAAACCAAGGTTATTTCAGTAATTTTGTAAACCAAAGGTATTTCTA-
1 GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT-TAG
* * *
34734037 TAATTTTCAGAAAGTCAAG-
65 CAATTTT-ACAAA--CCAGT
** * * *** * **
34734056 GGTATTTCT-GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATCTCG
1 GGTATTT-TGGTAATTTTACAAA-CGAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTA
* *
34734119 GTAATTTCA-AAACCAGT
64 GCAATTTTACAAACCAGT
* * *
34734136 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGC
1 GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGC
34734201 AATTTTACAAACCAG-
66 AATTTTACAAACCAGT
* *
34734216 GGTATTTTGGTAATTTTACAGATCGA-GGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGTATTTTGGTAATTTTACA-AACGAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAG
*
34734280 TAATTTT
65 CAATTTT
34734287 GTAAATCGAG
Statistics
Matches: 186, Mismatches: 37, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
79 5 0.03
80 117 0.63
81 13 0.07
82 1 0.01
83 48 0.26
84 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGC
AATTTTACAAACCAGT
Found at i:34734309 original size:54 final size:54
Alignment explanation
Indices: 34734251--34734407 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
34734241 AGGGTATTTT
*** *
34734251 AGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAAC
* * * *
34734305 AGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAAT-GAAGGGTAAAAC
1 AGTAATTTTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCG-AGGGTAAAAC
* * * * * *
34734359 GGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATGTAAATCG-GGGTA
1 AGTAATTTTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTA
34734408 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 6 0.07
54 79 0.92
55 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (54 bp):
AGTAATTTTGTAAACCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:34734355 original size:27 final size:27
Alignment explanation
Indices: 34734277--34734407 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 27
34734267 AAGGGTATTT
* *
34734277 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
34734304 CAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
34734331 TAGTAATTCTATAAAT-GAAGGGTAAAA
1 TAGTAATTCTATAAATCG-AGGGTAAAA
** * *
34734358 CGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* * *
34734385 TGGTAATTATGTAAATCG-GGGTA
1 TAGTAATTCTATAAATCGAGGGTA
34734408 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.06
27 84 0.93
28 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:34739925 original size:48 final size:48
Alignment explanation
Indices: 34739830--34739965 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 48
34739820 CACCATATTA
* *
34739830 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGCTGATGAT
* *
34739878 ATGTGTGCCTGTGTAAAAACATGTCTGGGACATGGCATTGACT-ATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTG-CTGATGAT
** * *
34739926 ATGTG-GATTCATGTAAGACCATGTCGGGGACATGGCATTG
1 ATGTGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATTG
34739966 GTACTTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
47 2 0.03
48 73 0.96
49 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGCTGATGAT
Found at i:34743721 original size:39 final size:39
Alignment explanation
Indices: 34743678--34743757 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
34743668 CGAAGACCTC
34743678 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
1 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
*
34743717 ATCACACTATCAAGCTATCAGTTTGGTACTTTTGAATCT
1 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
34743756 AT
1 AT
34743758 GTATTTTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (39 bp):
ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
Found at i:34753581 original size:15 final size:16
Alignment explanation
Indices: 34753561--34753593 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34753551 AAGAATCTTC
34753561 AAAAATT-AATAAAAT
1 AAAAATTAAATAAAAT
34753576 AAAAATTAAATAAAAT
1 AAAAATTAAATAAAAT
34753592 AA
1 AA
34753594 GATAGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTAAATAAAAT
Found at i:34759541 original size:43 final size:42
Alignment explanation
Indices: 34759494--34759586 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
34759484 GACGTGGTCT
*
34759494 TACACGTAATCAAATATTGATGCC-ACTGTCCCAGACAAAGTCA
1 TACACGTAATCAAATA-CGATGCCTA-TGTCCCAGACAAAGTCA
* * ** *
34759537 TACACGAAATCATATACGATGCCTATGTCCCAGACATGGTCT
1 TACACGTAATCAAATACGATGCCTATGTCCCAGACAAAGTCA
34759579 TACACGTA
1 TACACGTA
34759587 GATCTCAAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.64
43 15 0.36
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TACACGTAATCAAATACGATGCCTATGTCCCAGACAAAGTCA
Found at i:34759583 original size:42 final size:42
Alignment explanation
Indices: 34759483--34759634 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 42
34759473 CCAGCATCCT
* * * *
34759483 AGACGTGGTCTTACACGTAATCAAATATTGATGCCACTGTCCC
1 AGACATGGTCTTACACGAAATCATATATCGATGCCA-TGTCCC
** *
34759526 AGACAAAGTCATACACGAAATCATATA-CGATGCCTATGTCCC
1 AGACATGGTCTTACACGAAATCATATATCGATGCC-ATGTCCC
* * *
34759568 AGACATGGTCTTACACGTAGATC-TCA-AGTCGATGCAAATTTCCC
1 AGACATGGTCTTACACG-AAATCAT-ATA-TCGATGC-CATGTCCC
34759612 AGACATGGTCTTACACGAAATCA
1 AGACATGGTCTTACACGAAATCA
34759635 CATGTCGGAA
Statistics
Matches: 88, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.32
43 31 0.35
44 29 0.33
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCATATATCGATGCCATGTCCC
Found at i:34762285 original size:39 final size:39
Alignment explanation
Indices: 34762203--34762326 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
34762193 TATGGTAACC
** * *
34762203 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
34762243 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
34762282 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
34762321 CGCACA
1 CGCACA
34762327 TTCATTCACA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 64 0.80
40 16 0.20
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:34773907 original size:48 final size:46
Alignment explanation
Indices: 34773841--34773961 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
34773831 AAGCTGACGC
* * * *
34773841 CATGTCCCAGAGAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GAGGCCGATA
* * * *
34773889 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATA
*
34773935 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34773962 ACACATATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 32 0.52
47 1 0.02
48 28 0.45
49 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATA
Found at i:34777386 original size:43 final size:44
Alignment explanation
Indices: 34777308--34777472 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 44
34777298 AGCCTGTACA
* * * * *
34777308 ATGCCAGC-GTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
34777351 ATGCC-ACTGTCCCAGACAAGGTCATACACGAAATCATATA-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * *
34777393 ATGCCTA-TGTCCCAGACATGGTTTTACACGTAGATCTCAA-GTCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
34777437 ATGCCAACT-TCCCAGACATGGTCTTACACGAAATCA
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCA
34777473 CATGTTGGAA
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:34778856 original size:27 final size:27
Alignment explanation
Indices: 34778808--34778859 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34778798 GCTAGGCTGC
*
34778808 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
34778835 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
34778860 ATATATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:34778867 original size:2 final size:2
Alignment explanation
Indices: 34778860--34778911 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
34778850 GGCCACCAGA
34778860 AT AT 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 AT AT
34778902 AT AT AT AT AT
1 AT AT AT AT AT
34778912 GTGGCGAAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34782202 original size:37 final size:37
Alignment explanation
Indices: 34782149--34782270 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
34782139 TTATTACGAA
*
34782149 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
34782186 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
34782223 GTCTTACCCGATCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
34782260 GTCTCACCCGG
1 GTCTTACCCGG
34782271 AACATATTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:34782264 original size:21 final size:21
Alignment explanation
Indices: 34782166--34782264 Score: 56
Period size: 18 Copynumber: 5.2 Consensus size: 21
34782156 CCGGACATAA
34782166 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
* * **
34782187 TCT-TACCCG--GTCAT--AA
1 TCTCCACACGTAGTCATCGGG
34782203 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
* * **
34782224 TCT-TACCCG-A-TCAT--AA
1 TCTCCACACGTAGTCATCGGG
34782240 TCTCCACACGTAGTCATCGGG
1 TCTCCACACGTAGTCATCGGG
34782261 TCTC
1 TCTC
34782265 ACCCGGAACA
Statistics
Matches: 52, Mismatches: 16, Indels: 20
0.59 0.18 0.23
Matches are distributed among these distances:
16 6 0.12
17 8 0.15
18 10 0.19
19 10 0.19
20 8 0.15
21 10 0.19
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.27
Consensus pattern (21 bp):
TCTCCACACGTAGTCATCGGG
Found at i:34782425 original size:49 final size:49
Alignment explanation
Indices: 34782371--34782589 Score: 345
Period size: 49 Copynumber: 4.5 Consensus size: 49
34782361 TTTTACATTA
34782371 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
34782420 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
34782469 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* * * *
34782518 GCCATTAGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
34782565 GCCATTCGGCCTTATCACA-ATATAT
1 GCCATTAGGCCTTATCACATATATAT
34782590 GTATATCATA
Statistics
Matches: 161, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
47 42 0.26
48 5 0.03
49 114 0.71
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:34783535 original size:29 final size:29
Alignment explanation
Indices: 34783499--34783662 Score: 274
Period size: 29 Copynumber: 5.7 Consensus size: 29
34783489 TGTTGAAAAA
* *
34783499 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
34783528 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
34783557 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
* *
34783586 CTCGCGCACATAGTGCCTCGATTATTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
34783615 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
34783644 CTCGTACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
34783663 TAATCATTCG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:34785196 original size:37 final size:37
Alignment explanation
Indices: 34785143--34785233 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
34785133 TTATTACGAA
34785143 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
34785180 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
34785217 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
34785234 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:34785388 original size:49 final size:49
Alignment explanation
Indices: 34785329--34785590 Score: 438
Period size: 49 Copynumber: 5.4 Consensus size: 49
34785319 TTTTACATTA
* *
34785329 GCCATAAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
34785378 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
34785427 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
34785476 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
34785525 GCCATTAGGCCTTATCACACAT--ATGCACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
34785572 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
34785591 CATATATGTA
Statistics
Matches: 206, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 41 0.20
49 165 0.80
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:34793320 original size:30 final size:30
Alignment explanation
Indices: 34793284--34793414 Score: 164
Period size: 30 Copynumber: 4.5 Consensus size: 30
34793274 GACAAGATTG
* * *
34793284 GCACTAAGTGTGCG-GATTTAAAATTGTACA
1 GCACTAAGTGTGCGAG-TTGAAAATTATATA
34793314 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATTATATA
*
34793342 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTGAAAATTATATA
*
34793372 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTGAAAATTATATA
34793401 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34793415 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 45 0.49
31 3 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTGAAAATTATATA
Found at i:34793375 original size:58 final size:58
Alignment explanation
Indices: 34793284--34793416 Score: 171
Period size: 58 Copynumber: 2.3 Consensus size: 58
34793274 GACAAGATTG
* * * * *
34793284 GCACTAAGTGTGCGGATTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGGACTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
34793342 GCACTAAGTGTGC-GAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGGA-CTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
34793401 GCACTAAGTGTGCGGA
1 GCACTAAGTGTGCGGA
34793417 TTCACTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 4 0.06
58 39 0.60
59 20 0.31
60 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGGACTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:34798604 original size:23 final size:23
Alignment explanation
Indices: 34798565--34798608 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
34798555 ATTTAAATCC
*
34798565 ATATATTTAACTGAATTGAATGT
1 ATATATTTAACTAAATTGAATGT
34798588 ATATAATTTAA-TAAATTGAAT
1 ATAT-ATTTAACTAAATTGAAT
34798609 TATTGATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
ATATATTTAACTAAATTGAATGT
Found at i:34798834 original size:23 final size:23
Alignment explanation
Indices: 34798806--34798883 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
34798796 TTCAACTCAT
34798806 TAGAGCTTACCATTTCAGCTAG-
1 TAGAGCTTACCATTTCAGCTAGA
*
34798828 TATGAGCTTA-C-TGTTCAGCTTGA
1 TA-GAGCTTACCAT-TTCAGCTAGA
*
34798851 TAGAGCTTACCATTTCAGTTCA-A
1 TAGAGCTTACCATTTCAGCT-AGA
34798874 TAGAGCTTAC
1 TAGAGCTTAC
34798884 TGTTCATCCG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.02
22 18 0.38
23 27 0.57
24 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (23 bp):
TAGAGCTTACCATTTCAGCTAGA
Found at i:34809208 original size:28 final size:28
Alignment explanation
Indices: 34809176--34809245 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
34809166 ATAGTAAGTC
34809176 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
34809204 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
34809232 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34809246 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:34819815 original size:10 final size:10
Alignment explanation
Indices: 34819791--34819839 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
34819781 GATTCAGTCG
*
34819791 AAAATT-ATC
1 AAAATTAATT
34819800 AAAATTAATT
1 AAAATTAATT
34819810 AAAATTTAATAT
1 AAAA-TTAAT-T
*
34819822 AAATTTAATT
1 AAAATTAATT
34819832 AAAATTAA
1 AAAATTAA
34819840 ACATATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 6 0.18
10 14 0.41
11 10 0.29
12 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTAATT
Found at i:34825618 original size:40 final size:40
Alignment explanation
Indices: 34825573--34825740 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
34825563 CGGAATATAA
34825573 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
34825613 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34825653 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
34825693 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
34825733 CCGGATAT
1 CCGGATAT
34825741 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34825723 original size:80 final size:80
Alignment explanation
Indices: 34825589--34825738 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
34825579 ATAACCACGT
* *
34825589 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
34825654 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
34825669 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
34825732 CCCGGAT
64 CCCGGAT
34825739 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:34833615 original size:40 final size:40
Alignment explanation
Indices: 34833570--34833737 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
34833560 CGGAATATAA
34833570 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34833610 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34833650 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
34833690 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
34833730 CCGGATAT
1 CCGGATAT
34833738 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34833720 original size:80 final size:80
Alignment explanation
Indices: 34833586--34833735 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
34833576 ATAACCACGT
* *
34833586 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
34833651 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
34833666 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
34833729 CCCGGAT
64 CCCGGAT
34833736 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:34838808 original size:20 final size:20
Alignment explanation
Indices: 34838783--34838820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34838773 GTTTATTCGC
*
34838783 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
34838803 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
34838821 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:34846792 original size:20 final size:20
Alignment explanation
Indices: 34846767--34846804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34846757 GTTTATTCGC
*
34846767 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
34846787 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
34846805 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:34848380 original size:28 final size:28
Alignment explanation
Indices: 34848348--34848406 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34848338 GCGTAGATCA
34848348 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
34848376 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
34848404 CGA
1 CGA
34848407 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:34849938 original size:14 final size:14
Alignment explanation
Indices: 34849919--34849954 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
34849909 GACTCTCATT
34849919 TATCATCATCATAA
1 TATCATCATCATAA
34849933 TATCATCATCATAA
1 TATCATCATCATAA
34849947 TATCATCA
1 TATCATCA
34849955 CAGTTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (14 bp):
TATCATCATCATAA
Found at i:34852690 original size:42 final size:42
Alignment explanation
Indices: 34852643--34852796 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
34852633 TACCGTACCA
* * * *
34852643 ATGCCATATCCCAAATCTAGTCTTACACGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
34852685 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
34852728 ATGCCATATCCTAGATATGGTTTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
34852770 ATGCCATATCCTAGATATGGTTTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
34852797 AGTAGTATTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:34854086 original size:19 final size:19
Alignment explanation
Indices: 34854059--34854096 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34854049 TATTTGTGGG
*
34854059 AGTCTGGAGATCCGTTTAT
1 AGTCCGGAGATCCGTTTAT
34854078 AGTCCGGAGATCCGTTTAT
1 AGTCCGGAGATCCGTTTAT
34854097 CCGATGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (19 bp):
AGTCCGGAGATCCGTTTAT
Found at i:34855866 original size:43 final size:42
Alignment explanation
Indices: 34855818--34855975 Score: 108
Period size: 43 Copynumber: 3.7 Consensus size: 42
34855808 AACATATACA
* * *
34855818 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
*
34855861 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAATCAAA-ATCG
*** ** * *
34855903 ATGTTGATGTCCCAGACATGGTATTACACGTAAAAT-AAAATTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGT--AATCAAAA-TCG
* *
34855947 ATGCCAACATCCTAGATGTGGTCTTACAC
1 ATGCCAACATCCCAGACGTGGTCTTACAC
34855976 AAAATCACAT
Statistics
Matches: 86, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
42 25 0.29
43 36 0.42
44 25 0.29
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:34862485 original size:172 final size:172
Alignment explanation
Indices: 34862199--34862543 Score: 663
Period size: 172 Copynumber: 2.0 Consensus size: 172
34862189 AACAATGGTT
34862199 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
34862264 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
34862329 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
*
34862371 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTTAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
**
34862436 CATCTGAAGTTCTGAATCAGAAATCAATTTATGCTGAAATCCTTTTTAACTTATAATTAATAACA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
34862501 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
34862543 A
1 A
34862544 CTTCTAATCC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (172 bp):
ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
CATCTGAAGTTCTGAATCAGAAATCAATTTAAACTGAAATCCTTTTTAACTTATAATTAATAACA
CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
Found at i:34863551 original size:27 final size:27
Alignment explanation
Indices: 34863521--34863575 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34863511 TACCTTTCCA
34863521 AGGTTCAATTCGTCATGATTATAGTTT
1 AGGTTCAATTCGTCATGATTATAGTTT
34863548 AGGTTCAATTCGTCATGATTATAGTTT
1 AGGTTCAATTCGTCATGATTATAGTTT
34863575 A
1 A
34863576 CTCAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (27 bp):
AGGTTCAATTCGTCATGATTATAGTTT
Found at i:34872497 original size:30 final size:30
Alignment explanation
Indices: 34872459--34872519 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
34872449 ACTAAGCAAC
*
34872459 TTTCATATA-CATGTATTATCCA-TTTCATG
1 TTTCATATACCATGTAATAT-CATTTTCATG
34872488 TTTCAATATACCATGTAATATCATTTTCATG
1 TTTC-ATATACCATGTAATATCATTTTCATG
34872519 T
1 T
34872520 ATTTCATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 7 0.25
31 17 0.61
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTCATATACCATGTAATATCATTTTCATG
Found at i:34874296 original size:38 final size:38
Alignment explanation
Indices: 34874245--34874321 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
34874235 CCTTTGAAAC
*
34874245 AAAGGACACCTTCAGCATTGAGACCAAAATCTCCAAGA
1 AAAGGACACCTTCAGCATTGAGAACAAAATCTCCAAGA
34874283 AAAGGACACCTTCAGCATTGAGAACAAAATCTCCAAGA
1 AAAGGACACCTTCAGCATTGAGAACAAAATCTCCAAGA
34874321 A
1 A
34874322 CACCCAACTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.16
Consensus pattern (38 bp):
AAAGGACACCTTCAGCATTGAGAACAAAATCTCCAAGA
Found at i:34875963 original size:18 final size:18
Alignment explanation
Indices: 34875919--34875964 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
34875909 TCAAACCCTA
*
34875919 AGATTAAAAAATAAAACC
1 AGATTAAATAATAAAACC
*
34875937 AGATTAAATAATAAAAGC
1 AGATTAAATAATAAAACC
34875955 AGATTAAATA
1 AGATTAAATA
34875965 TGCTAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (18 bp):
AGATTAAATAATAAAACC
Found at i:34889949 original size:44 final size:44
Alignment explanation
Indices: 34889899--34890057 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 44
34889889 TATGTGTTAT
***
34889899 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATAAATGATTTA
* * *
34889943 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATAAATAATTT-
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATAAATGATTTA
* * * * *
34889985 CGTGTAAGACCCTGTCTAGGATGGTGGCATCGATACATGA-CTA
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATAAATGATTTA
* * *
34890028 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACGTTGGCAT
34890058 GGTATGATCT
Statistics
Matches: 93, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 29 0.31
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTAGGACGTTGGCATCGATAAATGATTTA
Found at i:34892183 original size:7 final size:7
Alignment explanation
Indices: 34892160--34892238 Score: 52
Period size: 7 Copynumber: 10.6 Consensus size: 7
34892150 CACATAATGT
34892160 TTATATA
1 TTATATA
*
34892167 TCTTTATA
1 T-TATATA
34892175 TTATATA
1 TTATATA
34892182 TTATATAA
1 TTATAT-A
*
34892190 TTATTTTA
1 TTA-TATA
34892198 TTATACATTA
1 TTAT--A-TA
*
34892208 TTTTATA
1 TTATATA
*
34892215 TTGT-TA
1 TTATATA
*
34892221 TTATTTA
1 TTATATA
34892228 TTATATA
1 TTATATA
34892235 TTAT
1 TTAT
34892239 TTTTTACAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 5 0.09
7 30 0.53
8 15 0.26
9 2 0.04
10 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (7 bp):
TTATATA
Found at i:34892221 original size:23 final size:23
Alignment explanation
Indices: 34892173--34892241 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
34892163 TATATCTTTA
*
34892173 TATTATATATTATATAATTATTT
1 TATTATACATTATATAATTATTT
* *
34892196 TATTATACATTATTTTA-TATTGT
1 TATTATACATTATATAATTATT-T
**
34892219 TATTATTTATTATAT-ATTATTT
1 TATTATACATTATATAATTATTT
34892241 T
1 T
34892242 TTACAAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 7 0.18
23 31 0.82
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTATACATTATATAATTATTT
Found at i:34892282 original size:30 final size:29
Alignment explanation
Indices: 34892174--34892288 Score: 90
Period size: 30 Copynumber: 3.8 Consensus size: 29
34892164 ATATCTTTAT
*
34892174 ATTATATATTATATAATTATT-TTATTATAC
1 ATTATAT-TTATAT-ACTATTATTATTATAC
** *
34892204 ATTAT-TTTATATTGTTATTATTTATTATAT
1 ATTATATTTATA-TACTATTA-TTATTATAC
* * * *
34892234 ATTATTTTTTACAAACTATTATTATTTTAC
1 ATTA-TATTTATATACTATTATTATTATAC
34892264 ATTATTATTTATATACTATTATTAT
1 ATTA-TATTTATATACTATTATTAT
34892289 ATTTCTACTT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 10 0.14
29 2 0.03
30 46 0.67
31 6 0.09
32 5 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTATATTTATATACTATTATTATTATAC
Found at i:34892676 original size:81 final size:84
Alignment explanation
Indices: 34892532--34892697 Score: 186
Period size: 86 Copynumber: 2.0 Consensus size: 84
34892522 TATAATATTA
34892532 TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATATAAATTCTTTCATATT-
1 TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATAT-AATTCTTTCATATTA
*
34892596 TGATATTTTAT-ACATTATTTT
65 T-ATATTATATCACATT-TTTT
* * *
34892617 TTCTAAACCATTATATTT-TATATTTTATATAATTATTATTCTTAT-AA-AT-ATT-TTT-ATAT
1 TTCTAAA-C-TTATATTTATATATATTATACAATTATT-TTATTATAAATATAATTCTTTCATAT
34892676 TATATATTATATCACATTTTTT
63 TATATATTATATCACATTTTTT
34892698 ATATATGCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
81 17 0.24
82 9 0.12
83 3 0.04
85 9 0.12
86 20 0.28
87 14 0.19
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (84 bp):
TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATATAATTCTTTCATATTAT
ATATTATATCACATTTTTT
Found at i:34892682 original size:15 final size:15
Alignment explanation
Indices: 34892627--34892683 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 15
34892617 TTCTAAACCA
*
34892627 TTATATTTTATATTT
1 TTATATTATATATTT
*
34892642 TATATAATTAT-TATTC
1 T-TAT-ATTATATATTT
34892658 TTATA--A-ATATTT
1 TTATATTATATATTT
34892670 TTATATTATATATT
1 TTATATTATATATT
34892684 ATATCACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
12 10 0.30
14 2 0.06
15 9 0.27
16 8 0.24
17 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATATTATATATTT
Found at i:34904822 original size:205 final size:204
Alignment explanation
Indices: 34904515--34905097 Score: 923
Period size: 204 Copynumber: 2.8 Consensus size: 204
34904505 TAGGCCGCAG
** *
34904515 CATAGCAGATCTGGCCTTCAAATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAG-AAGATCCAAGATGATTTGGCATCCTTGT
* * * *
34904580 GCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTTTTTACGATGAAGCAAATC
65 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * *
34904645 TAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTCTGGCATCTCTACTTCGACG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGA-G
34904710 GGGAGAAGATA
194 GGGAGAAGATA
* * * *
34904721 CATAGCAGATCTCACCTTTAGATGTTTATACTGAAGGAGATCCGAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* * *
34904786 CTTACAAGGAGTGAATCGAAGACATAGCTAATTTGGCTTTCATGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * *
34904851 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACATATTGAATTCTGGCATCTCCACTTCGATGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGAGGG
*
34904916 GAGCAGATA
196 GAGAAGATA
* *
34904925 CACAGCAGATCTCACCTTCAGATGTTTATTCTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
*
34904990 CTTACAAGGAGCGAATCGAAGACATAGCCGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
34905055 AAGTTGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAG
34905098 AAACAGATTT
Statistics
Matches: 343, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
204 170 0.50
205 141 0.41
206 32 0.09
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (204 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGAGGG
GAGAAGATA
Found at i:34905697 original size:15 final size:15
Alignment explanation
Indices: 34905677--34905711 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
34905667 CATCAGCGCT
34905677 GTGATTCCAGGATCC
1 GTGATTCCAGGATCC
34905692 GTGATTCCAGGATCC
1 GTGATTCCAGGATCC
34905707 GTGAT
1 GTGAT
34905712 CGGTACACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (15 bp):
GTGATTCCAGGATCC
Found at i:34906858 original size:15 final size:14
Alignment explanation
Indices: 34906826--34906956 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
34906816 CACATAATGT
*
34906826 TTATATATCTTTATA
1 TTATATAT-TATATA
34906841 TTATATATTATATAA
1 TTATATATTATAT-A
*
34906856 TTATTTTATTATACATTA
1 TTA-TATATTAT--A-TA
*
34906874 TTTTATATTAT-TA
1 TTATATATTATATA
*
34906887 TTATTTATTATATA
1 TTATATATTATATA
* * *
34906901 TTATTTTTTACAAACTA
1 TTATATATT--ATA-TA
* *
34906918 TTAT-TATTTTACA
1 TTATATATTATATA
34906931 TTAT-TATTTATATA
1 TTATATA-TTATATA
34906945 TTAT-TATTATAT
1 TTATATATTATAT
34906957 TTCTACTTGT
Statistics
Matches: 92, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
13 24 0.26
14 26 0.28
15 12 0.13
16 12 0.13
17 13 0.14
18 4 0.04
19 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:34906859 original size:20 final size:18
Alignment explanation
Indices: 34906839--34906904 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 18
34906829 TATATCTTTA
34906839 TATTATATATTATATAA-T
1 TATT-TATATTATATAATT
*
34906857 TATTT-TATTATA-CA-T
1 TATTTATATTATATAATT
*
34906872 TATTTTATATTATTATTATT
1 TA-TTTATATTA-TATAATT
34906892 TATTATATATTAT
1 TATT-TATATTAT
34906905 TTTTTACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.10
16 10 0.25
17 6 0.15
18 6 0.15
19 4 0.10
20 10 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTATATAATT
Found at i:34906874 original size:30 final size:30
Alignment explanation
Indices: 34906840--34906954 Score: 112
Period size: 30 Copynumber: 3.8 Consensus size: 30
34906830 ATATCTTTAT
34906840 ATTATATATTATATAATTATT-TTATTATAC
1 ATTAT-TATTATATAATTATTATTATTATAC
* *
34906870 ATTATT-TTATATTATTATTATTTATTATAT
1 ATTATTATTATATAATTATTA-TTATTATAC
* * * *
34906900 ATTATT-TTTTACAAACTATTATTATTTTAC
1 ATTATTATTATA-TAATTATTATTATTATAC
34906930 ATTATTATT-TATATATTATTATTAT
1 ATTATTATTATATA-ATTATTATTAT
34906955 ATTTCTACTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
28 12 0.17
29 2 0.03
30 48 0.69
31 8 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTATTATTATATAATTATTATTATTATAC
Found at i:34906885 original size:3 final size:3
Alignment explanation
Indices: 34906839--34906954 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
34906829 TATATCTTTA
* *
34906839 TAT TAT ATAT TA- TAT AAT TAT T-T TAT TAT ACAT TAT T-T TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
34906882 TAT TAT TATT TAT TAT ATAT TAT T-T T-T TACA AAC TAT TAT TAT T-T
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
34906927 TA- CAT TAT TATT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
34906955 ATTTCTACTT
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
2 15 0.17
3 55 0.62
4 18 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34906905 original size:20 final size:20
Alignment explanation
Indices: 34906837--34906905 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
34906827 TATATATCTT
*
34906837 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TTATTA
* *
34906859 T-T-TTATTA-TACATTATTT
1 TATATTATTATTA-TTTATTA
34906877 TATATTATTATTATTTATTA
1 TATATTATTATTATTTATTA
34906897 TATATTATT
1 TATATTATT
34906906 TTTTACAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 24 0.63
21 3 0.08
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATTATTATTTATTA
Found at i:34906941 original size:20 final size:20
Alignment explanation
Indices: 34906861--34906946 Score: 54
Period size: 20 Copynumber: 4.2 Consensus size: 20
34906851 TATAATTATT
*
34906861 TTATTATACATTATT-TTATA
1 TTATTTTACATTATTATT-TA
* *
34906881 TTATTATTA-TTTATTATATA
1 TTATT-TTACATTATTATTTA
* *
34906901 TTATTTTTTACA-AACTA-TTA
1 TTA--TTTTACATTATTATTTA
34906921 TTATTTTACATTATTATTTA
1 TTATTTTACATTATTATTTA
34906941 TATATT
1 T-TATT
34906947 ATTATTATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
18 7 0.14
19 3 0.06
20 24 0.49
21 13 0.27
22 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTACATTATTATTTA
Found at i:34906987 original size:9 final size:9
Alignment explanation
Indices: 34906973--34906998 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34906963 TTGTATTACG
34906973 TATTATTTA
1 TATTATTTA
34906982 TATTATTTA
1 TATTATTTA
34906991 TATTATTT
1 TATTATTT
34906999 TTACATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TATTATTTA
Found at i:34916507 original size:24 final size:24
Alignment explanation
Indices: 34916475--34916571 Score: 115
Period size: 24 Copynumber: 4.1 Consensus size: 24
34916465 CTTATCGATA
*
34916475 TTTCAGCTCATAAGAGCTTACTGT
1 TTTCAGCTCGTAAGAGCTTACTGT
**
34916499 TTTCAGCTCGTTGGAGCTTACTG-
1 TTTCAGCTCGTAAGAGCTTACTGT
* * *
34916522 TTTCAGCTTGTAAAAGCTTACTAT
1 TTTCAGCTCGTAAGAGCTTACTGT
* *
34916546 TTTCAGCTCGTCAGAGCTTACCGT
1 TTTCAGCTCGTAAGAGCTTACTGT
34916570 TT
1 TT
34916572 AAGCTCAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
23 18 0.31
24 41 0.69
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTCAGCTCGTAAGAGCTTACTGT
Found at i:34916541 original size:47 final size:47
Alignment explanation
Indices: 34916475--34916578 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
34916465 CTTATCGATA
* * ** *
34916475 TTTCAGCTCATAAGAGCTTACTGTTTTCAGCTCGTTGGAGCTTACTG
1 TTTCAGCTCATAAAAGCTTACTATTTTCAGCTCGTCAGAGCTTACCG
**
34916522 TTTCAGCTTGTAAAAGCTTACTATTTTCAGCTCGTCAGAGCTTACCG
1 TTTCAGCTCATAAAAGCTTACTATTTTCAGCTCGTCAGAGCTTACCG
*
34916569 TTTAAGCTCA
1 TTTCAGCTCA
34916579 ATAGAGATTG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (47 bp):
TTTCAGCTCATAAAAGCTTACTATTTTCAGCTCGTCAGAGCTTACCG
Found at i:34916729 original size:20 final size:20
Alignment explanation
Indices: 34916704--34916741 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
34916694 CTGGTATAAA
34916704 TATTGTTTATATGGATGAAT
1 TATTGTTTATATGGATGAAT
34916724 TATTGTTTATATGGATGA
1 TATTGTTTATATGGATGA
34916742 GCTACTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TATTGTTTATATGGATGAAT
Found at i:34916750 original size:20 final size:20
Alignment explanation
Indices: 34916707--34916751 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34916697 GTATAAATAT
* *
34916707 TGTTTATATGGATGAATTAT
1 TGTTTATATGGATGAACTAC
*
34916727 TGTTTATATGGATGAGCTAC
1 TGTTTATATGGATGAACTAC
34916747 TGTTT
1 TGTTT
34916752 GCAAATGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (20 bp):
TGTTTATATGGATGAACTAC
Found at i:34918300 original size:50 final size:51
Alignment explanation
Indices: 34918181--34918312 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
34918171 GTTGTGAGAA
* * * * *
34918181 CACATGTGTAGTACTATGTGTAGGCTACTATGTGATTAAAATGTTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGACTAAAATG-TGTTAGGT
* *
34918233 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATG-GTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG-ACTAAAATGTGTTAGGT
*
34918283 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
34918313 TGCGTACCCG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 34 0.49
52 34 0.49
53 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGACTAAAATGTGTTAGGT
Found at i:34919179 original size:12 final size:12
Alignment explanation
Indices: 34919162--34919186 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34919152 TTAGAGGATC
34919162 TTAATTTGGAGT
1 TTAATTTGGAGT
34919174 TTAATTTGGAGT
1 TTAATTTGGAGT
34919186 T
1 T
34919187 ACGTGGCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
TTAATTTGGAGT
Found at i:34928472 original size:40 final size:40
Alignment explanation
Indices: 34928413--34928599 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
34928403 CATTGGAATG
* * * *
34928413 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
34928453 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
34928493 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
34928533 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
34928573 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
34928600 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:34928515 original size:80 final size:80
Alignment explanation
Indices: 34928413--34928566 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
34928403 CATTGGAATG
* * ** *
34928413 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
34928478 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
34928493 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
34928558 ATCGTGCGA
66 ATCGTGCGA
34928567 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:34928581 original size:80 final size:80
Alignment explanation
Indices: 34928417--34928599 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
34928407 GGAATGATAT
* ** * *
34928417 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
34928482 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
34928497 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
34928562 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
34928577 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
34928600 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:34928619 original size:80 final size:80
Alignment explanation
Indices: 34928417--34928634 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
34928407 GGAATGATAT
* * * * * * * *
34928417 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
34928481 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
34928497 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
34928562 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
34928577 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
34928635 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:34936516 original size:40 final size:40
Alignment explanation
Indices: 34936457--34936643 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
34936447 CATTGGAATG
* * * *
34936457 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
34936497 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
34936537 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
34936577 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
34936617 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
34936644 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:34936559 original size:80 final size:80
Alignment explanation
Indices: 34936457--34936610 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
34936447 CATTGGAATG
* * ** *
34936457 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
34936522 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
34936537 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
34936602 ATCGTGCGA
66 ATCGTGCGA
34936611 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:34936625 original size:80 final size:80
Alignment explanation
Indices: 34936461--34936643 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
34936451 GGAATGATAT
* ** * *
34936461 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
34936526 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
34936541 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
34936606 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
34936621 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
34936644 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:34936663 original size:80 final size:80
Alignment explanation
Indices: 34936461--34936678 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
34936451 GGAATGATAT
* * * * * * * *
34936461 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
34936525 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
34936541 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
34936606 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
34936621 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
34936679 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:34939602 original size:38 final size:39
Alignment explanation
Indices: 34939560--34939738 Score: 222
Period size: 38 Copynumber: 4.6 Consensus size: 39
34939550 GCGAATTGTG
34939560 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTT-T
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
* *
34939598 ATATCCGGGCTAAG-CCCGAAGGC-ATGGTGCGAGCTAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
*
34939635 GATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGT
1 -ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
* * * *
34939674 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-T
* *
34939714 ATANACCGGGCTATGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGC
34939739 GTTTGAACGC
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
36 10 0.08
37 10 0.08
38 50 0.41
39 31 0.25
40 3 0.02
41 18 0.15
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTAT
Found at i:34939639 original size:76 final size:77
Alignment explanation
Indices: 34939558--34939699 Score: 252
Period size: 76 Copynumber: 1.9 Consensus size: 77
34939548 TTGCGAATTG
34939558 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTT-TATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTATATCCGGGCTAAGTCCCGAAGGC
34939621 ATGGTGCGAGCTA
65 ATGGTGCGAGCTA
*
34939634 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTATATCCGGGTTAAGTCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTATATCCGGGCTAAGTCCCGAAGGCA
34939699 T
66 T
34939700 TTGTGCGGGT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
75 22 0.35
76 30 0.48
77 11 0.17
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (77 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTATATCCGGGCTAAGTCCCGAAGGCA
TGGTGCGAGCTA
Found at i:34947612 original size:40 final size:39
Alignment explanation
Indices: 34947450--34947614 Score: 260
Period size: 39 Copynumber: 4.2 Consensus size: 39
34947440 GATGTGTATG
*
34947450 AATT-TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
34947488 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
* * *
34947527 AATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
*
34947566 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
*
34947606 ATTTGTGCG
1 AATTGTGCG
34947615 GGTTACCATA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 4 0.03
39 95 0.82
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:34947630 original size:40 final size:39
Alignment explanation
Indices: 34947450--34947645 Score: 250
Period size: 39 Copynumber: 5.0 Consensus size: 39
34947440 GATGTGTATG
* *
34947450 AATT-TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
*
34947488 AATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* *
34947527 AATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
* *
34947566 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
* * ** * *
34947606 ATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 AATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
34947646 GTTTGAACGA
Statistics
Matches: 140, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 4 0.03
39 95 0.68
40 41 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
AATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
Found at i:34951408 original size:11 final size:11
Alignment explanation
Indices: 34951392--34951417 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34951382 CGAAGCCCAC
34951392 ATCACAATAAT
1 ATCACAATAAT
34951403 ATCACAATAAT
1 ATCACAATAAT
34951414 ATCA
1 ATCA
34951418 TACATGCAAT
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:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:34951726 original size:22 final size:22
Alignment explanation
Indices: 34951701--34951764 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
34951691 GTAAATACGT
*
34951701 TTGGCACACAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* * *
34951723 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAAG
*
34951745 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
34951765 GAATAATTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:34951996 original size:41 final size:41
Alignment explanation
Indices: 34951907--34952027 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
34951897 TATAAGCCAC
* *
34951907 TAGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTTAA-
1 TAGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
34951947 TCGATGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 TAG-TGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* * *
34951989 TAGTGGAT---CTGTCGTCAAGGAACCATGCGATCTTCAAT
1 TAGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
34952027 T
1 T
34952028 TCTTCCTCTA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
38 28 0.39
40 2 0.03
41 40 0.56
42 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
TAGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:34952316 original size:27 final size:27
Alignment explanation
Indices: 34952286--34952742 Score: 218
Period size: 27 Copynumber: 16.9 Consensus size: 27
34952276 GGTAAATCTA
* *
34952286 CAAACCAAGGGTGTTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * **
34952313 CAAACCAATGGTATTTCAATAATTTTTG
1 CAAATCAAGGGTATTTCGGTAA-TTTTG
**
34952341 -AAAGTCAAGGGTATTTTTGTAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* ** *
34952368 TAAATCAAGGGTATTTTTGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
34952395 CAAATCAATGGTATTTCGGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * * * * *
34952422 CAAATTAGGGGTATTTTGGTAACTATA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** *
34952449 CAAATCGAGGGTATTTCAATAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * * *
34952476 CAAGTCGAGGGTATTTCGATAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** * * * *
34952503 CAGGTCGAGGGTATTTCGATAAATTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** ** * * *
34952530 CAGGTTGAGGGTATTTCGATTATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** ** * *
34952557 TAGGTTGAGGGTATTTCGTTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** ** ** *
34952584 CAGGTTGAGGGTATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * * *
34952611 CAAGTTC-AGGGTATTTAGGTTATTTTA
1 CAA-ATCAAGGGTATTTCGGTAATTTTG
* * * *
34952638 CAAGTCGAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
34952665 CAAGTCGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
34952692 CAAACCAAGGGTATTTCGATAATTTTAG
1 CAAATCAAGGGTATTTCGGTAATTTT-G
* * *
34952720 -AAATCAGGGGCATTTCAGTAATT
1 CAAATCAAGGGTATTTCGGTAATT
34952743 CTACCCTACA
Statistics
Matches: 360, Mismatches: 64, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 336 0.93
28 22 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:34952488 original size:54 final size:54
Alignment explanation
Indices: 34952375--34952718 Score: 305
Period size: 54 Copynumber: 6.4 Consensus size: 54
34952365 TTGTAAATCA
** * * * * * * * *
34952375 AGGGTATTTTTGTAATTTTCCAAATCAATGGTATTTCGGTAATTTTCCAAAT-T
1 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
* * * * *
34952428 AGGGGTATTTTGGTAACTATACAAATCGAGGGTATTTCAATAATTTTACAAGTCG
1 A-GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
* * * * *
34952483 AGGGTATTTCGATAATTTTACAGGTCGAGGGTATTTCGATAAATTTACAGGTTG
1 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
* * * * * * * *
34952537 AGGGTATTTCGATTATTTTATAGGTTGAGGGTATTTCGTTAATTTTACAGGTTG
1 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
** * * *
34952591 AGGGTATTTTAGTAATTTTACAAGTTC-AGGGTATTTAGGTTATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTACAAG-TCGAGGGTATTTCGATAATTTTACAAGTCG
* * ** *
34952645 AGGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
*
34952699 AGGGTATTTCGATAATTTTA
1 AGGGTATTTCGGTAATTTTA
34952719 GAAATCAGGG
Statistics
Matches: 241, Mismatches: 46, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
53 3 0.01
54 236 0.98
55 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAGTCG
Found at i:34952735 original size:54 final size:55
Alignment explanation
Indices: 34952284--34952742 Score: 287
Period size: 54 Copynumber: 8.5 Consensus size: 55
34952274 TTGGTAAATC
* * * * * *
34952284 TACAAACCA-AGGGTGTTTCGGTAATTTTGCAAACCAATGGTATTTCAATAATTT
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
** ** ** *
34952338 TTGAAAGTCA-AGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTTTG-TAATTT
1 TACAAA-TCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTA-TTTCGATAATTT
* * * * * * * * *
34952393 TCCAAATCA-ATGGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTGGTAACTA
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
** * *
34952447 TACAAATC-GAGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCGATAATTT
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
** * * ** ** *
34952501 TACAGGTC-GAGGGTATTTCGATAAATTTACAGGTTGAGGGTATTTCGATTATTT
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
* ** * * ** ** *
34952555 TATAGGT-TGAGGGTATTTCGTTAATTTTACAGGTTGAGGGTATTT-TAGTAATTT
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGA-TAATTT
* * * * *
34952609 TACAAGTTC--AGGGTATTTAGGTTATTTTACAAGTCGAGGGTATTTC-AGTAATTT
1 TACAA-ATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGA-TAATTT
* *
34952663 TACAAGTC-GAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
* * *
34952717 TAGAAATCAG-GGGCATTTCAGTAATT
1 TACAAATCAGAGGGTATTTCGGTAATT
34952743 CTACCCTACA
Statistics
Matches: 328, Mismatches: 65, Indels: 24
0.79 0.16 0.06
Matches are distributed among these distances:
53 8 0.02
54 275 0.84
55 42 0.13
56 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (55 bp):
TACAAATCAGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTT
Found at i:34952735 original size:81 final size:82
Alignment explanation
Indices: 34952274--34952742 Score: 341
Period size: 81 Copynumber: 5.8 Consensus size: 82
34952264 CAAGGGTGTA
* * * * * * * * *
34952274 TTGGTAAATCTACAAACCAAGGGTGTTTCGGTAATTTTGCAAACCA-ATGGTATTTCAATAATTT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAGTAA-TT
*
34952338 TTGA-AAGTCAAGGGTATT
65 TT-ACAAGTCGAGGGTATT
* ** * * * *
34952356 TTTGTAATTTTGTAAATCAAGGGTATTTTTG-TAATTTTCCAAATCA-ATGGTATTTCGGTAATT
1 TTGGTAATTTTACAAATCAAGGGTA-TTTCGATAATTTTACAAATCAGAGGGTATTTCAGTAATT
* * *
34952419 TTCCAAAT-TAGGGGTATT
65 TTACAAGTCGA-GGGTATT
* * * * *
34952437 TTGGTAACTATACAAATCGAGGGTATTTCAATAATTTTACAAGTC-GAGGGTATTTC-GATAATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAG-TAATT
*
34952500 TTACAGGTCGAGGGTATT
65 TTACAAGTCGAGGGTATT
* * * ** ** * * ** *
34952518 TCGATAAATTTACAGGTTGAGGGTATTTCGATTATTTTATAGGT-TGAGGGTATTTC-GTTAATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAG-TAATT
* *
34952581 TTACAGGTTGAGGGTATT
65 TTACAAGTCGAGGGTATT
* * * * * *
34952599 TTAGTAATTTTACAAGTTC-AGGGTATTTAGGTTATTTTACAAGTC-GAGGGTATTTCAGTAATT
1 TTGGTAATTTTACAA-ATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAGTAATT
34952662 TTACAAGTCGAGGGTATT
65 TTACAAGTCGAGGGTATT
* * * *
34952680 TCGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTAGAAATCAG-GGGCATTTCAGTAATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAGTAATT
34952743 CTACCCTACA
Statistics
Matches: 308, Mismatches: 66, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
80 6 0.02
81 250 0.81
82 48 0.16
83 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (82 bp):
TTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGAGGGTATTTCAGTAATTT
TACAAGTCGAGGGTATT
Found at i:34952904 original size:10 final size:10
Alignment explanation
Indices: 34952881--34952915 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
34952871 GGGTCCATTG
34952881 GGCCCA-CAT
1 GGCCCATCAT
*
34952890 GGCCCATCCT
1 GGCCCATCAT
34952900 GGCCCATCAT
1 GGCCCATCAT
34952910 GGCCCA
1 GGCCCA
34952916 AAGCAACCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (10 bp):
GGCCCATCAT
Found at i:34956278 original size:27 final size:27
Alignment explanation
Indices: 34956100--34956516 Score: 203
Period size: 27 Copynumber: 15.4 Consensus size: 27
34956090 TTTCACCCTA
* * * * * *
34956100 CAAGGGTGTATTGGTAAATCTACGAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
34956127 CAAGGGTGTTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
34956154 CAATGGTATTTCT-GTAATTTTTGAAAGT
1 CAAGGGTATTT-TGGTAATTTTACAAA-T
* * **
34956182 CAAAGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * * *
34956209 -TAGGAGTATTTCT-ATAAATTTCCAAAT
1 CAAGG-GTATTT-TGGTAATTTTACAAAT
* * *
34956236 TAAGTGTATTTTGGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
34956263 TAAGGGTATTTAGGTAACTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
34956290 CGAGAGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
34956317 CAAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * * **
34956344 CGAGGGAATTTCGATAATTTTACAAGG
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * ***
34956371 CGAGGGTATTTCGATAATTTTACTGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
34956398 CGATGGTATTTTGGTAGTTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** * *
34956425 CGAGGGTATTTCAGTAATTTTACTAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
34956452 TGAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
34956479 CAAGGATATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
34956506 CGAGGGTATTT
1 CAAGGGTATTT
34956517 CAGTAATTCT
Statistics
Matches: 313, Mismatches: 72, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.01
27 286 0.91
28 24 0.08
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:34956326 original size:81 final size:81
Alignment explanation
Indices: 34956214--34956524 Score: 286
Period size: 81 Copynumber: 3.8 Consensus size: 81
34956204 TAAATTAGGA
* * * * * * * * **
34956214 GTATTTCTATAAATTTCCAAATTAAGTGTATTTTGGTAATTTTCCAAATTAAGGGTATTTAGGTA
1 GTATTTCGATAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTAGGTA
* * *
34956279 ACTTTACAAATCGAGA
66 ATTTTACAAGTCGAGG
* * * * * * *
34956295 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGGGAATTTCGATA
1 GTATTTCGATAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTAGGTA
*
34956360 ATTTTACAAGGCGAGG
66 ATTTTACAAGTCGAGG
** * * *
34956376 GTATTTCGATAATTTTACTGGTCGATGGTATTTTGGTAGTTTTACAAGTCGAGGGTATTTCA-GT
1 GTATTTCGATAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTT-AGGT
* *
34956440 AATTTTACTAGTTGAGG
65 AATTTTACAAGTCGAGG
* * * *
34956457 GTATTTCGATAATTTCACAAATCAAGGATATTTTGGTAATTTTGCTAA-TCGAGGGTATTTCA-G
1 GTATTTCGATAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTT-AGG
34956520 TAATT
64 TAATT
34956525 CTACCCTACA
Statistics
Matches: 183, Mismatches: 45, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
81 181 0.99
82 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTAGGTA
ATTTTACAAGTCGAGG
Found at i:34956347 original size:54 final size:54
Alignment explanation
Indices: 34956241--34956516 Score: 268
Period size: 54 Copynumber: 5.1 Consensus size: 54
34956231 CAAATTAAGT
* * * * * * * *
34956241 GTATTTTGGTAATTTTCCAAATTAAGGGTATTTAGGTAACTTTACAAATCGAGA
1 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGG
34956295 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGG
1 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGG
* * * * * ** *
34956349 GAATTTCGATAATTTTACAAGGCGAGGGTATTTCGATAATTTTACTGGTCGATG
1 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGG
* * * *
34956403 GTATTTTGGTAGTTTTACAAGTCGAGGGTATTTC-AGTAATTTTACTAGTTGAGG
1 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGA-TAATTTTACAAGTCGAGG
* * * * * * * *
34956457 GTATTTCGATAATTTCACAAATCAAGGATATTTTGGTAATTTTGCTAA-TCGAGG
1 GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTAC-AAGTCGAGG
34956511 GTATTT
1 GTATTT
34956517 CAGTAATTCT
Statistics
Matches: 183, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 181 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGG
Found at i:34956543 original size:27 final size:27
Alignment explanation
Indices: 34956509--34956611 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
34956499 TGCTAATCGA
34956509 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
34956536 GGGCATTTCAGTAATTCTACCCTTCAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
34956563 GGATATTTCA-T--TT-TACCCTACA-
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
34956585 GGGTATTTTAGTAATACTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
34956612 ATATGAGATT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
22 8 0.13
23 9 0.15
24 2 0.03
25 1 0.02
26 9 0.15
27 33 0.53
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:34957299 original size:22 final size:22
Alignment explanation
Indices: 34957273--34957336 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
34957263 AAATACATTT
*
34957273 GGCACACAGCCATAATCAGGTG
1 GGCACAAAGCCATAATCAGGTG
* * * *
34957295 GGCACAGAGCCAT-GTGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTG
34957317 GGCACAAAGCCATAATCAGG
1 GGCACAAAGCCATAATCAGG
34957337 ATAATTGACT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.30, T:0.16
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTG
Found at i:34957868 original size:27 final size:27
Alignment explanation
Indices: 34957822--34958327 Score: 290
Period size: 27 Copynumber: 18.7 Consensus size: 27
34957812 AATCTACGAA
* *
34957822 CAAGGGTGTTTC-GTTAATTTTACAAAC
1 CAAGGGTATTTCTG-TAATTTTACAAAT
* * **
34957849 CAATGGTATTTCTATAATTTTTGAAAGT
1 CAAGGGTATTTCTGTAATTTTACAAA-T
**
34957877 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * *
34957904 CAGGGGTATTTCTATAATTTTCCAAAT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * *
34957931 TAAGGGTATTTCGGTAATTTTTCAAAT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * *
34957958 TAAGGGTATTTCGGTAACTTTACAAAT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * * *
34957985 CGAGAGTATTTCGGTAAGTTTT-CAAGT
1 CAAGGGTATTTCTGTAA-TTTTACAAAT
* ** *
34958012 CGAGGGTATTTCAATAATTTTACAAGT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * ***
34958039 CGAGGGAATTTC-GATAATTTTACAGGG
1 CAAGGGTATTTCTG-TAATTTTACAAAT
* ***
34958066 CGAGGGTATTTC-GATAATTTTACTGGT
1 CAAGGGTATTTCTG-TAATTTTACAAAT
* * * * **
34958093 CGATGGTATTTCGGTAGTTTTACAGGT
1 CAAGGGTATTTCTGTAATTTTACAAAT
** * **
34958120 TGAGGGTATTTCGGTAATTTTACAGGT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * * *
34958147 CGAGGGTATTCCAGTAATTTTACAAGT
1 CAAGGGTATTTCTGTAATTTTACAAAT
** * *
34958174 TGAGGGTATTTCAGTAATTTTACAAGTT
1 CAAGGGTATTTCTGTAATTTTACAA-AT
*
34958202 C-AGGGTATTTC-GATAATTTCACAAAT
1 CAAGGGTATTTCTG-TAATTTTACAAAT
* *
34958228 CAAGGGTATTT-TGGTAATTTTGCTAAT
1 CAAGGGTATTTCT-GTAATTTTACAAAT
* * *
34958255 CGAGGGTATTTCGGTAATTTTAAAAAT
1 CAAGGGTATTTCTGTAATTTTACAAAT
* * * *
34958282 TAGGGGTATTT-TGGTAATTTTGCTAAT
1 CAAGGGTATTTCT-GTAATTTTACAAAT
* *
34958309 CGAGGGTATTTCAGTAATT
1 CAAGGGTATTTCTGTAATT
34958328 CTACCCTACC
Statistics
Matches: 394, Mismatches: 71, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.02
27 359 0.91
28 28 0.07
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCTGTAATTTTACAAAT
Found at i:34957965 original size:54 final size:54
Alignment explanation
Indices: 34957824--34958327 Score: 361
Period size: 54 Copynumber: 9.3 Consensus size: 54
34957814 TCTACGAACA
* * * * ** *
34957824 AGGGTGTTTCGTTAATTTTACAAACCAATGGTATTTCTATAATTTTTGAAAGTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAA-TCG
* ** * * **
34957879 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTCTATAATTTTCCAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
* * ** *
34957933 AGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTCGGTAACTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
* * * * *
34957987 AGAGTATTTCGGTAAGTTTT-CAAGTCGAGGGTATTTCAATAATTTTACAAGTCG
1 AGGGTATTTCGGTAA-TTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
* * *** * * ***
34958041 AGGGAATTTCGATAATTTTACAGGGCGAGGGTATTTCGATAATTTTACTGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
* * ** ** ** **
34958095 ATGGTATTTCGGTAGTTTTACAGGTTGAGGGTATTTCGGTAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
* * * ** *
34958149 AGGGTATTCCAGTAATTTTACAAGTTGAGGGTATTTC-AGTAATTTTACAAGTTC-
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTA-TAATTTTACAA-ATCG
* * * * *
34958203 AGGGTATTTCGATAATTTCACAAATCAAGGGTATTT-TGGTAATTTTGCTAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCT-ATAATTTTACAAATCG
* * * * * *
34958257 AGGGTATTTCGGTAATTTTAAAAATTAGGGGTATTT-TGGTAATTTTGCTAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCT-ATAATTTTACAAATCG
*
34958311 AGGGTATTTCAGTAATT
1 AGGGTATTTCGGTAATT
34958328 CTACCCTACC
Statistics
Matches: 371, Mismatches: 71, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
53 6 0.02
54 318 0.86
55 47 0.13
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTACAAATCG
Found at i:34957996 original size:81 final size:81
Alignment explanation
Indices: 34957824--34958320 Score: 399
Period size: 81 Copynumber: 6.1 Consensus size: 81
34957814 TCTACGAACA
* * ** * * ** ** *
34957824 AGGGTGTTTCGTTAATTTTACAAACCAATGGTATTTCTATAATTTTTGAAAGTCAAGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAA-TTAAGGGTATTTC
* **
34957889 TGTAATTTTGTAAATC-
65 GGTAATTTTACAAATCG
* * * ** *
34957905 AGGGGTATTTCTATAATTTTCCAAATTAAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTC
1 A-GGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTC
*
34957970 GGTAACTTTACAAATCG
65 GGTAATTTTACAAATCG
* * ** * ** *
34957987 AGAGTATTTCGGTAAGTTTT-CAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAGGGAATTTC
1 AGGGTATTTCGATAA-TTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTC
* ***
34958051 GATAATTTTACAGGGCG
65 GGTAATTTTACAAATCG
** * * ** *
34958068 AGGGTATTTCGATAATTTTACTGGTCGATGGTATTTCGGTAGTTTTACAGGTTGAGGGTATTTCG
1 AGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTCG
**
34958133 GTAATTTTACAGGTCG
66 GTAATTTTACAAATCG
* * * * *
34958149 AGGGTA-TTCCAGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAGTTCAGGGTATTTC
1 AGGGTATTTCGA-TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTC
* * *
34958213 GATAATTTCACAAATCA
65 GGTAATTTTACAAATCG
* * * * * *
34958230 AGGGTATTTTGGTAATTTTGCTAA-TCGAGGGTATTTCGGTAATTTTAAAAATTAGGGGTATTTT
1 AGGGTATTTCGATAATTTTAC-AAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTC
* *
34958294 GGTAATTTTGCTAATCG
65 GGTAATTTTACAAATCG
34958311 AGGGTATTTC
1 AGGGTATTTC
34958321 AGTAATTCTA
Statistics
Matches: 332, Mismatches: 77, Indels: 14
0.78 0.18 0.03
Matches are distributed among these distances:
80 8 0.02
81 275 0.83
82 49 0.15
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTAAGGGTATTTCG
GTAATTTTACAAATCG
Found at i:34958346 original size:27 final size:27
Alignment explanation
Indices: 34958312--34958415 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
34958302 TGCTAATCGA
*
34958312 GGGTATTTCAGTAATTCTACCCTACCG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
34958339 GGGCATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
34958366 GGGTATTTC----ATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
34958389 GGGTATTTCAGTAATACTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
34958416 ACATGAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
23 23 0.34
27 45 0.66
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:34958353 original size:54 final size:53
Alignment explanation
Indices: 34958241--34958354 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 53
34958231 GGGTATTTTG
* * * * **
34958241 GTAATTTTGCTAATCGAGGGTATTTCGGTAATTTTAAAAATTAGGGGTATTTTG
1 GTAATTTTGCTAATCGAGGGTATTTCAGTAATTCT-AAAACTAGGGGCATTTCA
**
34958295 GTAATTTTGCTAATCGAGGGTATTTCAGTAATTCT-ACCCTACCGGGGCATTTCA
1 GTAATTTTGCTAATCGAGGGTATTTCAGTAATTCTAAAACTA--GGGGCATTTCA
34958349 GTAATT
1 GTAATT
34958355 CTACCCTACA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 3 0.06
54 47 0.94
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.39
Consensus pattern (53 bp):
GTAATTTTGCTAATCGAGGGTATTTCAGTAATTCTAAAACTAGGGGCATTTCA
Found at i:34958379 original size:23 final size:23
Alignment explanation
Indices: 34958325--34958398 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 23
34958315 TATTTCAGTA
* *
34958325 ATTCTACCCTACCGGGGCATTTC
1 ATTCTACCCTACAGGGGTATTTC
34958348 AGTAATTCTACCCTACAGGGGTATTTC
1 ----ATTCTACCCTACAGGGGTATTTC
34958375 ATTCTACCCTACAGGGGTATTTC
1 ATTCTACCCTACAGGGGTATTTC
34958398 A
1 A
34958399 GTAATACTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 24 0.53
27 21 0.47
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (23 bp):
ATTCTACCCTACAGGGGTATTTC
Found at i:34963552 original size:55 final size:56
Alignment explanation
Indices: 34963459--34963603 Score: 159
Period size: 55 Copynumber: 2.6 Consensus size: 56
34963449 TGCAACATGG
* * *
34963459 CCGTGGGCGAACCTACCAAAACAACACGGGTG-GTCGACACGCCGGTGCCTTGAAA
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTCGACACGCCGGTGCCTTGAAA
* * * **
34963514 CTGTGGGCAAAACTACCAAAATAACACGGGCGTG-CGACACGCCTGTGTTTTGAAA
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTCGACACGCCGGTGCCTTGAAA
* ** **
34963569 CCATGGGCAAACCTGTCAATTTAACACGGGCGTGT
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGT
34963604 GCCTTCATAC
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
55 72 0.99
56 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (56 bp):
CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTCGACACGCCGGTGCCTTGAAA
Found at i:34972724 original size:30 final size:30
Alignment explanation
Indices: 34972690--34972750 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34972680 TCCTTAACTC
34972690 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34972720 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34972750 A
1 A
34972751 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34977159 original size:30 final size:30
Alignment explanation
Indices: 34977125--34977185 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34977115 TCCTTAACTC
34977125 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34977155 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34977185 A
1 A
34977186 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34981118 original size:47 final size:47
Alignment explanation
Indices: 34981000--34981173 Score: 287
Period size: 47 Copynumber: 3.7 Consensus size: 47
34980990 GGTTATATGT
* * * *
34981000 TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACA
1 TTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
*
34981047 TGTAACGTGGTGCTAGGTGGATATGCCACGGTTACATATATTGATTCA
1 T-TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
34981095 TTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
34981142 TTAACGTGGTGCTAAGTGGATAT-CCACGGTTA
1 TTAACGTGGTGCTAAGTGGATATGCCACGGTTA
34981174 TACATGTTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.08
47 69 0.57
48 42 0.35
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (47 bp):
TTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
Found at i:34981178 original size:95 final size:95
Alignment explanation
Indices: 34981000--34981173 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 95
34980990 GGTTATATGT
*
34981000 TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAGGT
1 TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGT
34981065 GGATATGCCACGGTTACATATATTGATTCA
66 GGATATGCCACGGTTACATATATTGATTCA
* * * *
34981095 TTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTGGTGCTAAGT
1 TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGT
34981159 GGATAT-CCACGGTTA
66 GGATATGCCACGGTTA
34981174 TACATGTTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 9 0.12
94 21 0.28
95 44 0.59
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (95 bp):
TTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGT
GGATATGCCACGGTTACATATATTGATTCA
Found at i:34987125 original size:37 final size:37
Alignment explanation
Indices: 34987083--34987158 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
34987073 TAAAAGTGTG
* * *
34987083 AATAAATTAAAGATATGGGCTGCTAGGGACTCCATGA
1 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
34987120 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
1 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
34987157 AA
1 AA
34987159 ATTCGGCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (37 bp):
AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
Found at i:34987732 original size:47 final size:47
Alignment explanation
Indices: 34987645--34987761 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 47
34987635 CAGCTTGAAT
* * * * **
34987645 GAGCTTACTGATATTTCAGCTCATAAGAGCTTATTGTTTTCAGGTCGTTG
1 GAGCTTACTG-T-TTT-AGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
**
34987695 GAGCTTACTGTTTTAGCTTGTAAAAGCTTACTATTTTCAGCTCGTCA
1 GAGCTTACTGTTTTAGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
* *
34987742 GAGCTTACCGTTTAAGCTCA
1 GAGCTTACTGTTTTAGCTCA
34987762 ATAGAGCTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
47 41 0.75
48 3 0.05
49 1 0.02
50 10 0.18
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (47 bp):
GAGCTTACTGTTTTAGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
Found at i:34987746 original size:24 final size:24
Alignment explanation
Indices: 34987645--34987749 Score: 95
Period size: 24 Copynumber: 4.3 Consensus size: 24
34987635 CAGCTTGAAT
*
34987645 GAGCTTACTGATATTTCAGCTCATAA
1 GAGCTTACT-AT-TTTCAGCTCGTAA
* * * **
34987671 GAGCTTATTGTTTTCAGGTCGTTG
1 GAGCTTACTATTTTCAGCTCGTAA
* *
34987695 GAGCTTACTGTTTT-AGCTTGTAA
1 GAGCTTACTATTTTCAGCTCGTAA
* *
34987718 AAGCTTACTATTTTCAGCTCGTCA
1 GAGCTTACTATTTTCAGCTCGTAA
34987742 GAGCTTAC
1 GAGCTTAC
34987750 CGTTTAAGCT
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 17 0.27
24 36 0.58
25 1 0.02
26 8 0.13
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (24 bp):
GAGCTTACTATTTTCAGCTCGTAA
Found at i:34987934 original size:20 final size:20
Alignment explanation
Indices: 34987909--34987947 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34987899 CAACAGGTAT
34987909 AAATATTGTTTATATGGATC
1 AAATATTGTTTATATGGATC
34987929 AAATATTGTTTATATGGAT
1 AAATATTGTTTATATGGAT
34987948 GAGCTACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (20 bp):
AAATATTGTTTATATGGATC
Found at i:34989502 original size:50 final size:52
Alignment explanation
Indices: 34989383--34989570 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 52
34989373 GTTGTGAGAA
* * *
34989383 CACATGTGTAGTACTATGTGTAGGCTACTATGTG-ATTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGG-TTTAGGT
* * *
34989435 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
* ** * * * *
34989485 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-CGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
* * *
34989536 CACA-GTGTGGTGCTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
34989571 AAAGATAGCT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 73 0.62
51 7 0.06
52 35 0.30
53 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
Found at i:34989578 original size:50 final size:50
Alignment explanation
Indices: 34989490--34989631 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 50
34989480 TAGGTCGCAT
* * *** *
34989490 GTGTAGTACTAAGTGCAGGCTACTATGTGTACTCGATAGCTTCGATCACA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAA
* * *
34989540 GTGTGGTGCTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCAAA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAA
* * *
34989590 GTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGATAGCTT
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTT
34989632 TGACTACGAG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 2 0.03
50 76 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (50 bp):
GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAA
Found at i:34993480 original size:24 final size:23
Alignment explanation
Indices: 34993428--34993482 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
34993418 CAATTGAATT
*
34993428 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCACAC
34993451 TCGCACACATAGTGCCATAG-CACAC
1 T-GCACACATAGTG-C-TAGTCACAC
34993476 TGCACAC
1 TGCACAC
34993483 TCAGTGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.64
25 7 0.25
26 2 0.07
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.18
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCACAC
Found at i:34994695 original size:19 final size:19
Alignment explanation
Indices: 34994671--34994709 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34994661 CTAAAGAAGA
34994671 ATGCCAAATTGCTTTTGGT
1 ATGCCAAATTGCTTTTGGT
34994690 ATGCCAAATTGCTTTTGGT
1 ATGCCAAATTGCTTTTGGT
34994709 A
1 A
34994710 AGTTCCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (19 bp):
ATGCCAAATTGCTTTTGGT
Found at i:35000863 original size:49 final size:49
Alignment explanation
Indices: 35000797--35001032 Score: 301
Period size: 49 Copynumber: 4.8 Consensus size: 49
35000787 TAACCAAAGC
* * *
35000797 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* ** *
35000846 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * *
35000896 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
35000947 TATCGGGTACGCATAGTAACCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
35000996 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACA
35001033 GACCTGACCT
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 75 0.47
50 46 0.29
51 38 0.24
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:35000980 original size:101 final size:98
Alignment explanation
Indices: 35000808--35001032 Score: 288
Period size: 101 Copynumber: 2.3 Consensus size: 98
35000798 ATCTGGTACG
* * * *
35000808 CATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACATAGTAACCTGCACT
*
35000873 TAGTACTACACACATGACCTAACCATCTGATACA
66 TAGTACTACACACATGACC-AACCATCCGATACA
* * * * *
35000907 CGTAGTAGCCTACACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGTAACCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACACATAGTAACCTGCA
** ** *
35000972 CTTAGTACTACACATGTGACCAATTATCCGGTACA
64 CTTAGTACTACACACATGACCAACCATCCGATACA
35001007 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
35001033 GACCTGACCT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
99 29 0.27
100 37 0.35
101 41 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACATAGTAACCTGCACT
TAGTACTACACACATGACCAACCATCCGATACA
Found at i:35004720 original size:20 final size:20
Alignment explanation
Indices: 35004695--35004732 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35004685 GTTTATTCGC
*
35004695 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35004715 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35004733 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35006311 original size:28 final size:28
Alignment explanation
Indices: 35006279--35006347 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35006269 GCGTAGATCA
35006279 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35006307 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35006335 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35006348 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35012649 original size:20 final size:20
Alignment explanation
Indices: 35012624--35012661 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35012614 GTTTATTCGC
*
35012624 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35012644 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35012662 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35014249 original size:28 final size:27
Alignment explanation
Indices: 35014203--35014269 Score: 109
Period size: 28 Copynumber: 2.5 Consensus size: 27
35014193 GCGTAGATCA
35014203 CGAAATTACCCTAAAGAGCAAAATTAC
1 CGAAATTACCCTAAAGAGCAAAATTAC
35014230 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTA-CCCTAAAGAGCAAAATTAC
*
35014258 CGATA-TACCCTA
1 CGAAATTACCCTA
35014270 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 5 0.13
27 10 0.26
28 23 0.61
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCTAAAGAGCAAAATTAC
Found at i:35015782 original size:14 final size:14
Alignment explanation
Indices: 35015763--35015798 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
35015753 GACTCTCATT
35015763 TATCATCATCATAA
1 TATCATCATCATAA
35015777 TATCATCATCATAA
1 TATCATCATCATAA
35015791 TATCATCA
1 TATCATCA
35015799 CAGTTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (14 bp):
TATCATCATCATAA
Done.