Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
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: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 15
Found at i:2188003 original size:19 final size:19
Alignment explanation
Indices: 2187979--2188022 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2187969 CGAGCTGAGT
*
2187979 CGTTGACAGAGCCGTTGAC
1 CGTTGACAGAGCAGTTGAC
*
2187998 CGTTGACCGAGCAGTTGAC
1 CGTTGACAGAGCAGTTGAC
2188017 CGTTGA
1 CGTTGA
2188023 TCGACCGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (19 bp):
CGTTGACAGAGCAGTTGAC
Found at i:2189627 original size:12 final size:12
Alignment explanation
Indices: 2189571--2189630 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
2189561 TGGATGTTTT
*
2189571 CTCTGATTTTTG
1 CTCTGATTTCTG
* *
2189583 TTCTGATTTATG
1 CTCTGATTTCTG
2189595 CTCTGATTTCT-
1 CTCTGATTTCTG
**
2189606 CTTCAAATTTCTG
1 C-TCTGATTTCTG
2189619 CTCTGATTTCTG
1 CTCTGATTTCTG
2189631 ATATCTCTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 1 0.03
12 36 0.95
13 1 0.03
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (12 bp):
CTCTGATTTCTG
Found at i:2191857 original size:10 final size:10
Alignment explanation
Indices: 2191842--2191866 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2191832 TGCTGAGTTG
2191842 AGCCGAGCCA
1 AGCCGAGCCA
2191852 AGCCGAGCCA
1 AGCCGAGCCA
2191862 AGCCG
1 AGCCG
2191867 TTGCCCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.40, G:0.32, T:0.00
Consensus pattern (10 bp):
AGCCGAGCCA
Found at i:2195006 original size:22 final size:22
Alignment explanation
Indices: 2194981--2195022 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2194971 ATTATAAACA
2194981 AAAATAA-ATATTTATATAATAT
1 AAAATAAGATATTTAT-TAATAT
*
2195003 AAAATAAGTTATTTATTAAT
1 AAAATAAGATATTTATTAAT
2195023 TTTATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATAAGATATTTATTAATAT
Found at i:2198432 original size:16 final size:17
Alignment explanation
Indices: 2198401--2198435 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2198391 TATTTTAACA
*
2198401 TATATACGTAAATAAGT
1 TATATACATAAATAAGT
2198418 TATATACAT-AATAAGT
1 TATATACATAAATAAGT
2198434 TA
1 TA
2198436 CAAAGCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (17 bp):
TATATACATAAATAAGT
Found at i:2198887 original size:26 final size:28
Alignment explanation
Indices: 2198849--2198904 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
2198839 TTTTATAATA
2198849 ATAAATATTTTATA-ATTT-AAAAAATT
1 ATAAATATTTTATATATTTGAAAAAATT
*
2198875 ATAAA-ATTCTTATATTTTTGAAAAAATT
1 ATAAATATT-TTATATATTTGAAAAAATT
2198903 AT
1 AT
2198905 TGATTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 10 0.38
27 3 0.12
28 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
ATAAATATTTTATATATTTGAAAAAATT
Found at i:2199037 original size:26 final size:28
Alignment explanation
Indices: 2198992--2199047 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
2198982 TTAAAAGGCA
2198992 ATAATTTTTTTAAAAATATATAAA-ATTT
1 ATAATTTTTTTAAAAATATA-AAATATTT
*
2199020 ATAA-TTTTTT-AAATTATAAAATATTT
1 ATAATTTTTTTAAAAATATAAAATATTT
2199046 AT
1 AT
2199048 CATCATCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 13 0.50
27 6 0.23
28 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATTTTTTTAAAAATATAAAATATTT
Found at i:2199247 original size:14 final size:14
Alignment explanation
Indices: 2199230--2199256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2199220 ATTGTTAAAA
2199230 AATAAAAATTAATG
1 AATAAAAATTAATG
2199244 AATAAAAATTAAT
1 AATAAAAATTAAT
2199257 TTAATCCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AATAAAAATTAATG
Found at i:2199367 original size:26 final size:26
Alignment explanation
Indices: 2199338--2199401 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
2199328 CAATAATTTT
* *
2199338 TTTTCAAAAATATATAAGATTTATAA
1 TTTTAAAAAATATAAAAGATTTATAA
* * * *
2199364 TTTTTAAAATTATAAAATATTTATTA
1 TTTTAAAAAATATAAAAGATTTATAA
*
2199390 TTATAAAAAATA
1 TTTTAAAAAATA
2199402 AACTTATAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTTAAAAAATATAAAAGATTTATAA
Found at i:2200626 original size:12 final size:10
Alignment explanation
Indices: 2200585--2200625 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2200575 TTTATCACAC
2200585 CAAATTCTCT
1 CAAATTCTCT
2200595 CAAATTCTCT
1 CAAATTCTCT
2200605 -AAATTTCTCT
1 CAAA-TTCTCT
*
2200615 CAAATACTCT
1 CAAATTCTCT
2200625 C
1 C
2200626 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:2200889 original size:110 final size:111
Alignment explanation
Indices: 2200749--2200951 Score: 345
Period size: 110 Copynumber: 1.8 Consensus size: 111
2200739 TGGAAATCAT
*
2200749 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* **
2200814 TATTTAGTT-ATTTGTTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
* *
2200859 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2200924 TAATTAGTTGATTCATTTAATGCATGAT
66 TAATTAGTTGATTCATTTAATGCATGAT
2200952 CATTTAACGC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
110 70 0.81
111 16 0.19
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
Found at i:2206108 original size:49 final size:51
Alignment explanation
Indices: 2205998--2206120 Score: 171
Period size: 49 Copynumber: 2.5 Consensus size: 51
2205988 TTATACAAAA
2205998 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAATGT
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAATGT
* *
2206049 CGCGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGTAGTAAAGGTATAG-
1 CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAAT-GT
* **
2206098 CGCGATACCTGATCCGCGCTATA
1 CGCGGTACCTGCCCCGCGCTATA
2206121 CCCCTACGTG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 32 0.48
50 2 0.03
51 32 0.48
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (51 bp):
CGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAATGT
Found at i:2206227 original size:51 final size:51
Alignment explanation
Indices: 2206132--2206243 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
2206122 CCCTACGTGG
* * * *
2206132 CGTATAGCGC-ACTGCAGGGGCCGCGATATACCCACGTGGTGCCAACTCAT
1 CGTATAGCGCGACTACAGGGGCCGCGATATACCCACGTAGCGCCAAATCAT
* *
2206182 CGTATAGCGCGA-TACAGGGGGCGCGCTATACCCCACGTAGCGCCAAATCAT
1 CGTATAGCGCGACTACAGGGGCCGCGATATA-CCCACGTAGCGCCAAATCAT
2206233 CGTATAGCGCG
1 CGTATAGCGCG
2206244 GTGTAGGGCG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
50 25 0.46
51 29 0.54
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGACTACAGGGGCCGCGATATACCCACGTAGCGCCAAATCAT
Found at i:2206257 original size:51 final size:50
Alignment explanation
Indices: 2206132--2206259 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 50
2206122 CCCTACGTGG
* * * * *
2206132 CGTATAGCGC-ACTGCAGGG-GCCGCGATATACCCACGTGGTGCCAACTCAT
1 CGTATAGCGCGA-TACAGGGCG-CGCGCTATACCCACGTAGCGCCAAATCAT
*
2206182 CGTATAGCGCGATACAGGGGGCGCGCTATACCCCACGTAGCGCCAAATCAT
1 CGTATAGCGCGATACAGGGCGCGCGCTATA-CCCACGTAGCGCCAAATCAT
* **
2206233 CGTATAGCGCGGTGTAGGGCGCGCGCT
1 CGTATAGCGCGATACAGGGCGCGCGCT
2206260 TTACTACTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 24 0.36
51 42 0.64
ACGTcount: A:0.21, C:0.30, G:0.31, T:0.17
Consensus pattern (50 bp):
CGTATAGCGCGATACAGGGCGCGCGCTATACCCACGTAGCGCCAAATCAT
Found at i:2207235 original size:16 final size:16
Alignment explanation
Indices: 2207214--2207247 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2207204 AGAGCCCCCG
2207214 TTCTTGTTCATGAAAA
1 TTCTTGTTCATGAAAA
2207230 TTCTTGTTCATGAAAA
1 TTCTTGTTCATGAAAA
2207246 TT
1 TT
2207248 ATCTGCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TTCTTGTTCATGAAAA
Found at i:2207623 original size:3 final size:3
Alignment explanation
Indices: 2207615--2207639 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2207605 AAATACAATA
2207615 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2207640 TTTAGGACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2208046 original size:115 final size:115
Alignment explanation
Indices: 2207841--2208051 Score: 298
Period size: 115 Copynumber: 1.8 Consensus size: 115
2207831 TTCAAGGAAG
* * * * ** *
2207841 ATTGAATCTGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAGGATAGGAATA
1 ATTGAATCTGGGAAGACTTGTTCCGCTGTCACTCAAGGAATATCAAATATGGAAAAAGAGGAATA
*
2207906 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAAAGATATGCGATCC
66 TGTTCCGCTTCTTCTGAAGGAAATATCAGATCTGGAAAGATATGCGATCC
* * *
2207956 ATTGAAT-TAGGGAAGATTTGTTCCGTTGTCACTCAAGGAATATCAAATATGGAAAAAGAGGGAT
1 ATTGAATCT-GGGAAGACTTGTTCCGCTGTCACTCAAGGAATATCAAATATGGAAAAAGAGGAAT
*
2208020 ATGTTCCTCTTCTTCTGAAGGAAATATCAGAT
65 ATGTTCCGCTTCTTCTGAAGGAAATATCAGAT
2208052 TTTTTCAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
114 1 0.01
115 82 0.99
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (115 bp):
ATTGAATCTGGGAAGACTTGTTCCGCTGTCACTCAAGGAATATCAAATATGGAAAAAGAGGAATA
TGTTCCGCTTCTTCTGAAGGAAATATCAGATCTGGAAAGATATGCGATCC
Found at i:2208505 original size:151 final size:148
Alignment explanation
Indices: 2208233--2208637 Score: 589
Period size: 151 Copynumber: 2.7 Consensus size: 148
2208223 ACTGATTACC
* *
2208233 CGAAGGACTTATAAATTTTGGAAATAGTTTATTAAG-AAGAAACCTTTCTTACTTTTCAAAATTT
1 CGAAGGACTTATAAATTTTGGAAATA-TTTATTAGGTAAGAAACCTTTCTTACTTTTAAAAATTT
* * * * * *
2208297 C-AATTTTCAGATTTAATATGAGAAACATTTCTCATATCTCAAAAGACATGTGAAAACATCCTGC
65 CAAATTTT-AAATTTGA-ATGAGAAACCTTTCTCATATTTTAAAAGACATATGAAAACATCCTGC
* *
2208361 CCGAAGGTCTTATGGATGGCT
128 CCAAAGGTCTTACGGATGGCT
*
2208382 CGAAGGACTTATAAATTTTGGAAATATTTCACTAGGTAAGAAACCTTTCTTACTTTTAAAAAATT
1 CGAAGGACTTATAAATTTTGGAAATATTT-ATTAGGTAAGAAACCTTTCTTACTTTT-AAAAATT
* *
2208447 TCAAAATTTTAAATTTGAATGAGAAACCTTTCTCATATTTTGATAGACATATGAAAACATCCTGC
64 TC-AAATTTTAAATTTGAATGAGAAACCTTTCTCATATTTTAAAAGACATATGAAAACATCCTGC
2208512 CCAAAGGTCTTACGGATGGCT
128 CCAAAGGTCTTACGGATGGCT
2208533 CGAAGGACTTATAAATTTTGGAAATATTTTATTAGGTAAGAAACCTTTCTTACTTTTCAAAAATT
1 CGAAGGACTTATAAATTTTGGAAATA-TTTATTAGGTAAGAAACCTTTCTTACTTTT-AAAAATT
* *
2208598 TCAAATTTCAAATTTGAATGAGAAACCTTTCTCATTTTTT
64 TCAAATTTTAAATTTGAATGAGAAACCTTTCTCATATTTT
2208638 CCACTTATAA
Statistics
Matches: 233, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
148 3 0.01
149 30 0.13
150 56 0.24
151 129 0.55
152 9 0.04
153 6 0.03
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (148 bp):
CGAAGGACTTATAAATTTTGGAAATATTTATTAGGTAAGAAACCTTTCTTACTTTTAAAAATTTC
AAATTTTAAATTTGAATGAGAAACCTTTCTCATATTTTAAAAGACATATGAAAACATCCTGCCCA
AAGGTCTTACGGATGGCT
Found at i:2215787 original size:16 final size:17
Alignment explanation
Indices: 2215756--2215790 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2215746 TATATTAACA
2215756 TATATACATAAATAAGT
1 TATATACATAAATAAGT
2215773 TATATACAT-AATAAGT
1 TATATACATAAATAAGT
2215789 TA
1 TA
2215791 CAAAGCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
TATATACATAAATAAGT
Found at i:2218066 original size:32 final size:30
Alignment explanation
Indices: 2217996--2218066 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 30
2217986 CTTTATTCTA
* *
2217996 TTTTTTAATTTATATTTTTATTTCATGTATT
1 TTTTTTAATATATATTTTTA-TGCATGTATT
2218027 TTGTTTTAATATATACTTTTTA-GCATGTATT
1 TT-TTTTAATATATA-TTTTTATGCATGTATT
2218058 CTCTTTTTA
1 -T-TTTTTA
2218067 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.29
32 17 0.50
33 7 0.21
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.65
Consensus pattern (30 bp):
TTTTTTAATATATATTTTTATGCATGTATT
Found at i:2221983 original size:2 final size:2
Alignment explanation
Indices: 2221976--2222027 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2221966 TATTGTACCT
2221976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2222018 TA TA TA TA TA
1 TA TA TA TA TA
2222028 CACATCATCC
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):
TA
Found at i:2222228 original size:29 final size:29
Alignment explanation
Indices: 2222172--2222228 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
2222162 GTACATTATT
* **
2222172 CTTTTACTCAACAATGTTTAAATTTTCAC
1 CTTTTACTCAACAATGGTTAAACGTTCAC
* *
2222201 CTTTTACTCAACAGTGGTTAACCGTTCA
1 CTTTTACTCAACAATGGTTAAACGTTCA
2222229 TCTAACTGGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (29 bp):
CTTTTACTCAACAATGGTTAAACGTTCAC
Found at i:2222552 original size:55 final size:55
Alignment explanation
Indices: 2222426--2223096 Score: 764
Period size: 55 Copynumber: 12.3 Consensus size: 55
2222416 TTTATTAAGA
* * ** *
2222426 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCTTTGGA-A
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * * * * *
2222480 TACACACTTAGTGCCTGTACGATTATTTATCAACTCATGACGCATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
2222535 TACACACATACTTCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
2222590 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-A
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * ** *
2222644 TGCACACTTAGTGCCTGAATGATTATTCATCAACTCATGATGAATTATGTGGA-G
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
2222698 TGCACACTTAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
2222753 TGCACACATAGTGTCTGTACGGTTTTTCATCAACTCATGATGAA-TCTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTC-CGTGGATT
* ** * * *
2222808 TGCATATTTAGTACATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
2222863 TGCACAC-TCAGTGCCTGTACGGTTATTCATCAACTCATGATGAATCCCGTGGCTT
1 TGCACACAT-AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * *
2222918 TGTACAAATAGTGCCTGTAAGATTATTCATCAAGTCATGATGAATTCCCTGG-TA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
** * * * * *
2222972 TGCACATTTAGTGCCTGTATGATTATTCATCAATTCATGTTGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
2223027 TGTACAAATAGTGCCTCTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-A
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
2223081 TGCACACTTAGTGCCT
1 TGCACACATAGTGCCT
2223097 TTACACAATC
Statistics
Matches: 521, Mismatches: 88, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
54 195 0.37
55 323 0.62
56 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:2222680 original size:109 final size:110
Alignment explanation
Indices: 2222425--2223096 Score: 809
Period size: 109 Copynumber: 6.2 Consensus size: 110
2222415 ATTTATTAAG
* * * * * *
2222425 ATGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCTTTGGA-ATACACACT
1 ATGCACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGGATTTGCACACA
* * * *
2222488 TAGTGCCTGTACGATTATTTATCAACTCATGACGCATTCCGTGGAT
65 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
* * * * *
2222534 TTACACACATACTTCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
*
2222599 AGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-
66 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
* * * * * *
2222643 ATGCACACTTAGTGCCTGAATGATTATTCATCAACTCATGATGAATTATGTGGA-GTGCACACTT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
*
2222707 AGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
66 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
* * * * * **
2222752 TTGCACACATAGTGTCTGTACGGTTTTTCATCAACTCATGATGAA-TCTCGTGGATTTGCATATT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATTTGCACACA
* * *
2222816 TAGTACATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGAT
65 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
* * * * * * *
2222862 TTGCACACTCAGTGCCTGTACGGTTATTCATCAACTCATGATGAATCCCGTGGCTTTGTACAAAT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
* * * *
2222927 AGTGCCTGTAAGATTATTCATCAAGTCATGATGAATTCCCTGG-T
66 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
* * * * * * *
2222971 ATGCACATTTAGTGCCTGTATGATTATTCATCAATTCATGTTGAATTCTGTGGATTTGTACAAAT
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
*
2223036 AGTGCCTCTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-
66 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
2223080 ATGCACACTTAGTGCCT
1 ATGCACACTTAGTGCCT
2223097 TTACACAATC
Statistics
Matches: 481, Mismatches: 75, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
108 53 0.11
109 242 0.50
110 185 0.38
111 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (110 bp):
ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAT
AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAT
Found at i:2223050 original size:164 final size:164
Alignment explanation
Indices: 2222426--2223096 Score: 839
Period size: 164 Copynumber: 4.1 Consensus size: 164
2222416 TTTATTAAGA
* * ** *
2222426 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCTTTGGAATACACACTTA
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTA
* * * * * * * *
2222490 GTGCCTGTACGATTATTTATCAACTCATGACGCATTCCGTGGATTTACACACATACTTCCTGTAC
65 GTGCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATTTGCACAAATAGTGCCTGTAC
*
2222555 GGTTATTCATCAACTCATGATGAATTCTGTGGATT
130 GGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
2222590 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
* * * * ** *
2222655 TGCCTGAATGATTATTCATCAACTCATGATGAATTATGTGGA-GTGCACACTTAGTGCTTGTACG
66 TGCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATTTGCACAAATAGTGCCTGTACG
2222719 GTTATTCATCAACTCATGATGAATTCCGTGGATT
131 GTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
2222753 TGCACACATAGTGTCTGTACGGTTTTTCATCAACTCATGATGAA-TCTCGTGGATTTGCATATTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTC-CGTGGA-ATGCACACTT
* * * *
2222817 AGTACATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCAC-ACTCAGTGCCTGT
64 AGTGCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATTTGCACAAAT-AGTGCCTGT
* *
2222881 ACGGTTATTCATCAACTCATGATGAATCCCGTGGCTT
128 ACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * * *
2222918 TGTACAAATAGTGCCTGTAAGATTATTCATCAAGTCATGATGAATTCCCTGGTATGCACATTTAG
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
* * * * *
2222983 TGCCTGTATGATTATTCATCAATTCATGTTGAATTCTGTGGATTTGTACAAATAGTGCCTCTACG
66 TGCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATTTGCACAAATAGTGCCTGTACG
*
2223048 GTTATTCATCAACTCATGATGAATTCCGTGGA-A
131 GTTATTCATCAACTCATGATGAATTCCGTGGATT
*
2223081 TGCACACTTAGTGCCT
1 TGCACACATAGTGCCT
2223097 TTACACAATC
Statistics
Matches: 436, Mismatches: 64, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
162 2 0.00
163 109 0.25
164 230 0.53
165 93 0.21
166 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (164 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
TGCCTGTACGATTATTCATCAACTCATGATGAATTCTGTGGATTTGCACAAATAGTGCCTGTACG
GTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:2223647 original size:21 final size:21
Alignment explanation
Indices: 2223623--2223679 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2223613 ATACTACCTC
* * *
2223623 ATCAATATTGATATTGATTGA
1 ATCAATATCGATACTGATTCA
2223644 ATCAATATCGATACTGATTCA
1 ATCAATATCGATACTGATTCA
*
2223665 ATCAGTATCGATACT
1 ATCAATATCGATACT
2223680 ACTTAGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (21 bp):
ATCAATATCGATACTGATTCA
Found at i:2226179 original size:51 final size:54
Alignment explanation
Indices: 2226060--2226179 Score: 174
Period size: 51 Copynumber: 2.3 Consensus size: 54
2226050 ATAAAAAAAA
*
2226060 CAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTAAAAAGTAG
1 CAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTAAAAAGCAG
* *
2226114 CAACATTTATCAAAA-TT-AAA-AAAAAACTAACAATTATTTTGTAAAAAGCAG
1 CAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTAAAAAGCAG
**
2226165 CAGTGTTTAGCAAAA
1 CAACGTTTAGCAAAA
2226180 AATCAGAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 41 0.69
52 3 0.05
53 2 0.03
54 13 0.22
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.28
Consensus pattern (54 bp):
CAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTATTTTGTAAAAAGCAG
Found at i:2231344 original size:81 final size:81
Alignment explanation
Indices: 2231217--2231374 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 81
2231207 TTTACTTAAT
* * *
2231217 AGTGGTTAACCATTCATCTAACTGACATAATTGACACATTTTTGCCAATTGCACAGTTAGTCCAT
1 AGTGGTTAACCATTCATCTAACTGACATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCAT
2231282 TATTCTTTTATTCAAC
66 TATTCTTTTATTCAAC
* * ** ** *
2231298 AGTGTTTAACCGTTCATCTAACTGGTATAATTGATGCCTTTCTGCCAATTGCACAGCTAGGCCAT
1 AGTGGTTAACCATTCATCTAACTGACATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCAT
*
2231363 TTTTCTTTTATT
66 TATTCTTTTATT
2231375 TTGGACTAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (81 bp):
AGTGGTTAACCATTCATCTAACTGACATAATTGACACATTTCTGCCAATTGCACAGCTAGGCCAT
TATTCTTTTATTCAAC
Found at i:2231646 original size:55 final size:55
Alignment explanation
Indices: 2231511--2232125 Score: 701
Period size: 55 Copynumber: 11.3 Consensus size: 55
2231501 TTTATTAAGA
* * * * * * *
2231511 TGCACACGTAGTGCCTATAC-GATAGTTCATCAACTCATGATGAATTATTTAGA-A
1 TGCACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGGATT
* * * * *
2231565 TGCACTCTTAGTGCCTGTATGATTATTTATCAACTCACGATGAATTCTGTGGATT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
2231620 TGCACACATAGTGCCTTTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * * *
2231675 TGCACACATAGTGCCTGTACGGTTATTCATTAACTCATAATGAATTCCGTGGAAT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
2231730 T-CACACTTAGTGCTTGTACGGTTATTTATCAACTCATGATGAATTCTG-GGA-A
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * * * *
2231782 AGTACACATAGTGCCAGTACGGTTATTCATCAACTCTTGATGAATTCCGTGGATT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
2231837 TACCCACATT-GTTCCTGTACGGTTATTCATCAACTCATGATGAATCCTGTGGATT
1 TGCACAC-TTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * **
2231892 TGCACACTTAGTGCATGAACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
2231947 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGAAGAATT-TCGTGGA-A
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
2232001 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT-TCGTGGATT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
** ** * * *
2232056 TATACAAATAGTTCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-A
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
2232110 TGCACACTTAGTGCCT
1 TGCACACTTAGTGCCT
2232126 ATCTGGTAAT
Statistics
Matches: 473, Mismatches: 78, Indels: 20
0.83 0.14 0.04
Matches are distributed among these distances:
53 43 0.09
54 147 0.31
55 282 0.60
56 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (55 bp):
TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:2231649 original size:109 final size:109
Alignment explanation
Indices: 2231511--2232125 Score: 761
Period size: 109 Copynumber: 5.6 Consensus size: 109
2231501 TTTATTAAGA
* * * *** * *
2231511 TGCACACGTAGTGCCTATAC-GATAGTTCATCAACTCATGATGAATTATTTAGAATGCACTCTTA
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTA
* * * * *
2231575 GTGCCTGTATGATTATTTATCAACTCACGATGAATTCTGTGGATT
65 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
2231620 TGCACACATAGTGCCTTTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-ATGCACACTTA
* * *
2231685 GTGCCTGTACGGTTATTCATTAACTCATAATGAATTCCGTGGAAT
65 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * *
2231730 T-CACACTTAGTGCTTGTACGGTTATTTATCAACTCATGATGAATTCTG-GGAAAGTACACATAG
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
* *
2231793 TGCCAGTACGGTTATTCATCAACTCTTGATGAATTCCGTGGATT
66 TGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
2231837 TACCCACATTGTTCCTGTACGGTTATTCATCAACTCATGATGAA-TCCTGTGGATTTGCACACTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCC-GTGGA-ATGCACACTT
* * *
2231901 AGTGCATGAACGGTTATTCATCAACTCATGATGAATTCCATGGATT
64 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
2231947 TGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGAAGAATTTCGTGGAATGCACACTTAG
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
*
2232012 TGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
66 TGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
** * *
2232056 TATACAAATAGTTCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
2232121 TGCCT
66 TGCCT
2232126 ATCTGGTAAT
Statistics
Matches: 431, Mismatches: 68, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
107 51 0.12
108 40 0.09
109 200 0.46
110 138 0.32
111 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (109 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAG
TGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:2232642 original size:94 final size:95
Alignment explanation
Indices: 2232469--2232667 Score: 294
Period size: 94 Copynumber: 2.1 Consensus size: 95
2232459 TACTACCCTA
** * *
2232469 GTATCGATACTTCTATACTATAGTATCGATACCCCTTTCATGTATCGATACCGATTTTAGGGTCG
1 GTATCGATACCACCATACTATAGTATCGATACCCCTTTCATGTATCGATACCGATTTTAGAGTCG
2232534 ATGTTGCCTGGTATCGATACCCTTACCATG
66 ATGTTGCCTGGTATCGATACCCTTACCATG
* * *
2232564 GTATCGATACCACCATACTATTGTATTGATACCCC-TTC-TGGTATCGATACCGATTTTAGATTC
1 GTATCGATACCACCATACTATAGTATCGATACCCCTTTCAT-GTATCGATACCGATTTTAGAGTC
* *
2232627 GATGTTGCTTGGTATCGATACTCTTACCATG
65 GATGTTGCCTGGTATCGATACCCTTACCATG
2232658 GTATCGATAC
1 GTATCGATAC
2232668 TACCTCATCA
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 1 0.01
94 63 0.67
95 30 0.32
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (95 bp):
GTATCGATACCACCATACTATAGTATCGATACCCCTTTCATGTATCGATACCGATTTTAGAGTCG
ATGTTGCCTGGTATCGATACCCTTACCATG
Found at i:2235140 original size:3 final size:3
Alignment explanation
Indices: 2235134--2235180 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2235124 CAAATTATTA
2235134 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2235181 ATTAATTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2241516 original size:13 final size:13
Alignment explanation
Indices: 2241500--2241529 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2241490 TTATGACACG
*
2241500 CATTTATGACTTA
1 CATTTACGACTTA
2241513 CATTTACGACTTA
1 CATTTACGACTTA
2241526 CATT
1 CATT
2241530 GCGTGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (13 bp):
CATTTACGACTTA
Found at i:2241542 original size:99 final size:98
Alignment explanation
Indices: 2241380--2241573 Score: 221
Period size: 99 Copynumber: 2.0 Consensus size: 98
2241370 ATGCAATTGT
** * * * *
2241380 GTGTCATAAATCTATGATGCGCATTTATGACATGCATTTATGACGAGCATTTCACGTCTTTGAAG
1 GTGTCATAAATCTATGACACGCATTTATGACATACATTTACGACGAGCATTGCACGTCATTGAAG
* * *
2241445 CCCCCCGTCA-TAAATGAAGATGACACACATTTGC
66 -CACACGTCATTAAA-AAAGATGACACACATTTGC
* * * **
2241479 GTGTCATAAATTTATGACACGCATTTATGACTTACATTTACGACTTA-CATTGCGTGTCATTGAA
1 GTGTCATAAATCTATGACACGCATTTATGACATACATTTACGAC-GAGCATTGCACGTCATTGAA
2241543 GCACACGTCATTAAAAAAGATGACACACATT
65 GCACACGTCATTAAAAAAGATGACACACATT
2241574 CATGTATCGT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
98 22 0.28
99 56 0.71
100 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (98 bp):
GTGTCATAAATCTATGACACGCATTTATGACATACATTTACGACGAGCATTGCACGTCATTGAAG
CACACGTCATTAAAAAAGATGACACACATTTGC
Found at i:2241608 original size:2 final size:2
Alignment explanation
Indices: 2241601--2241640 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2241591 TGTCGTAAAT
2241601 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2241641 GATTGACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2249639 original size:22 final size:21
Alignment explanation
Indices: 2249587--2249650 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 21
2249577 ACCAGAACCC
2249587 CAGGGGGTATCGATTCCCC-T
1 CAGGGGGTATCGATTCCCCTT
* *
2249607 -AGGGGGAATCGGTTCCCCTT
1 CAGGGGGTATCGATTCCCCTT
2249627 CAAGGGGGTATCGATTCCCTCTT
1 C-AGGGGGTATCGATTCCC-CTT
2249650 C
1 C
2249651 CCTATAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 16 0.44
20 1 0.03
22 15 0.42
23 4 0.11
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.27
Consensus pattern (21 bp):
CAGGGGGTATCGATTCCCCTT
Found at i:2253506 original size:22 final size:21
Alignment explanation
Indices: 2253463--2253502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2253453 GAGACTATTT
2253463 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
2253484 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
2253503 ATATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:2258319 original size:65 final size:65
Alignment explanation
Indices: 2258193--2258326 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 65
2258183 ACCCATTTCA
* * * *
2258193 AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATACACTCTTAAATATTTTGAAACATCG
1 AATGCATTTTGTGTACCAATGCACAAGCCAAGAATCGATACACTCTTAAATATTTTAAAACATCG
* ** *
2258258 AATGCATTTTGTGTACCAATGCAC-AGACCAAGAATCGATGCACTCCTT-TCTCTTTTAAAACAT
1 AATGCATTTTGTGTACCAATGCACAAG-CCAAGAATCGATACACT-CTTAAATATTTTAAAACAT
2258321 CG
64 CG
2258323 AATG
1 AATG
2258327 TAATTAGTGC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.03
65 54 0.92
66 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (65 bp):
AATGCATTTTGTGTACCAATGCACAAGCCAAGAATCGATACACTCTTAAATATTTTAAAACATCG
Found at i:2264426 original size:24 final size:25
Alignment explanation
Indices: 2264398--2264444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2264388 GTTTCAGAAT
* *
2264398 AAAAC-TTAAAATAAAATAAAAATG
1 AAAACTTTAAAAGAAAAGAAAAATG
2264422 AAAACTTTAAAAGAAAAGAAAAA
1 AAAACTTTAAAAGAAAAGAAAAA
2264445 AAAAGAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAACTTTAAAAGAAAAGAAAAATG
Found at i:2271356 original size:14 final size:14
Alignment explanation
Indices: 2271333--2271386 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
2271323 TAATCAAAAT
* *
2271333 TATTACATATTTAA
1 TATTATATATATAA
2271347 TATTATATATAT-A
1 TATTATATATATAA
2271360 TA-TATATATAT-A
1 TATTATATATATAA
2271372 TATATATATATATAA
1 TAT-TATATATATAA
2271387 GGTCAAACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 12 0.34
13 3 0.09
14 19 0.54
15 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTATATATATAA
Found at i:2271357 original size:2 final size:2
Alignment explanation
Indices: 2271346--2271385 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2271336 TACATATTTA
2271346 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2271386 AGGTCAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2271579 original size:27 final size:29
Alignment explanation
Indices: 2271540--2271597 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
2271530 GATTCCGCTT
2271540 AATTCGATTCGATTAAAAATTAAA-AAAA
1 AATTCGATTCGATTAAAAATTAAAGAAAA
* *
2271568 AATT-GATTCGATTAACAGTTAAAGAAAA
1 AATTCGATTCGATTAAAAATTAAAGAAAA
2271596 AA
1 AA
2271598 ATCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (29 bp):
AATTCGATTCGATTAAAAATTAAAGAAAA
Found at i:2278133 original size:20 final size:21
Alignment explanation
Indices: 2278108--2278149 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2278098 GAGAAAGTAC
2278108 AAGTTAA-AATGAAAGAGAAA
1 AAGTTAATAATGAAAGAGAAA
2278128 AAGTTAATAATGAAAGAGAAA
1 AAGTTAATAATGAAAGAGAAA
2278149 A
1 A
2278150 GAAAAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (21 bp):
AAGTTAATAATGAAAGAGAAA
Found at i:2282436 original size:12 final size:12
Alignment explanation
Indices: 2282419--2282443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2282409 CTGGTGCCTT
2282419 AGTAGAATCATC
1 AGTAGAATCATC
2282431 AGTAGAATCATC
1 AGTAGAATCATC
2282443 A
1 A
2282444 TTCTTGTCTT
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AGTAGAATCATC
Found at i:2298255 original size:21 final size:22
Alignment explanation
Indices: 2298221--2298265 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
2298211 TTCACATAGT
2298221 CTTATATTTCATTATCATATGA
1 CTTATATTTCATTATCATATGA
*
2298243 CTTATATTT-ATTATCCTATGA
1 CTTATATTTCATTATCATATGA
2298264 CT
1 CT
2298266 CTTCATAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (22 bp):
CTTATATTTCATTATCATATGA
Found at i:2298795 original size:24 final size:20
Alignment explanation
Indices: 2298742--2298799 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2298732 ACCCCTTTGA
*
2298742 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
2298762 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2298785 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2298800 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2303586 original size:24 final size:20
Alignment explanation
Indices: 2303530--2303587 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2303520 ACCCCTTTGA
*
2303530 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
2303550 AGTGCATCAATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2303573 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2303588 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2303703 original size:65 final size:63
Alignment explanation
Indices: 2303575--2303712 Score: 145
Period size: 65 Copynumber: 2.2 Consensus size: 63
2303565 TCTTTAACAT
* * *
2303575 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCAATTTTTTTCATTTTAAGAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCAATTTTCTTCA-TTTAA-AGA
* * * ** *
2303640 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTT-ATTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACCAATCACATTCAAT-TTTCTTCATTTAAAGA
2303703 GTGCATCGAT
1 GTGCATCGAT
2303713 ACACCTTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
63 12 0.19
64 7 0.11
65 38 0.61
66 5 0.08
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCAATTTTCTTCATTTAAAGA
Found at i:2305857 original size:68 final size:68
Alignment explanation
Indices: 2305773--2305908 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
2305763 GTGACTATTC
*
2305773 CAAGACTTGTGTCTATTATAGATATAAAGGACATAAGGATGTAATACACAAAAGAGTAATCACCA
1 CAAGACTTGTGCCTATTATAGATATAAAGGACATAAGGATGTAATACACAAAAGAGTAATCACCA
2305838 AGA
66 AGA
* *
2305841 CAAGACTTGTGCCTATTCTAGATATAAAGGACATAAGGATGTAATACATAAAAGAGTAATCACCA
1 CAAGACTTGTGCCTATTATAGATATAAAGGACATAAGGATGTAATACACAAAAGAGTAATCACCA
2305906 AGA
66 AGA
2305909 TGATATGTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.24
Consensus pattern (68 bp):
CAAGACTTGTGCCTATTATAGATATAAAGGACATAAGGATGTAATACACAAAAGAGTAATCACCA
AGA
Found at i:2306782 original size:8 final size:8
Alignment explanation
Indices: 2306765--2306798 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2306755 CCCACAACGA
2306765 TTAATATG
1 TTAATATG
*
2306773 TTAATTTG
1 TTAATATG
*
2306781 TTAATTTG
1 TTAATATG
2306789 TTAATATG
1 TTAATATG
2306797 TT
1 TT
2306799 TTTCAATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (8 bp):
TTAATATG
Found at i:2313116 original size:90 final size:89
Alignment explanation
Indices: 2312998--2313170 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
2312988 TAATCCTAAA
* *
2312998 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
2313063 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
*
2313088 TATTAAATTCCAATTTATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
2313153 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
2313171 AAGGGTGTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 30 0.38
90 49 0.62
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:2317083 original size:38 final size:38
Alignment explanation
Indices: 2317032--2317117 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
2317022 AGGAATCCAA
*
2317032 CATTTCATTCAAGGACAAAACACATACGAGTTCAGTAC
1 CATTTCATTCAAGGACAAAACACATACGAGTTCAATAC
*
2317070 CATTTCATTCAAGGACAAAACACATATGAGTTCAATAC
1 CATTTCATTCAAGGACAAAACACATACGAGTTCAATAC
2317108 CATTTCATTC
1 CATTTCATTC
2317118 GTGAAATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (38 bp):
CATTTCATTCAAGGACAAAACACATACGAGTTCAATAC
Found at i:2320183 original size:41 final size:41
Alignment explanation
Indices: 2320138--2320397 Score: 272
Period size: 41 Copynumber: 6.4 Consensus size: 41
2320128 ACTTCACAAA
* *
2320138 AGACTCGTATTTTAGTGGCATTTTTATACAAACGCCGTTAT
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
** *
2320179 AGACTCGTACTTTAGTGGTGTTTTTATACAAATGCCGCTAT
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
* * * * * * *
2320220 AGACTCATACTTTATTGGCGTTTCTATACAAAGGCCGTTAA
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
* * *
2320261 AGAATCCTACTTTAGTGGCA-TTTTGTACAAACGCCGCTAT
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
* * * *
2320301 AGACTCGTACTTTAGTGACGTTTTTGTACAAACGCTGCTAT
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
* * * * *
2320342 AGATTAGTTCTTTAGTGGCATTTTTATAC-AACGCCACTAA
1 AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
* *
2320382 AAACTTGTACTTTAGT
1 AGACTCGTACTTTAGT
2320398 ATCGTTTTTT
Statistics
Matches: 179, Mismatches: 39, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
40 51 0.28
41 128 0.72
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (41 bp):
AGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAT
Found at i:2320341 original size:122 final size:123
Alignment explanation
Indices: 2320104--2320383 Score: 332
Period size: 122 Copynumber: 2.3 Consensus size: 123
2320094 CTACAAACTG
** * * *
2320104 TACTTTATTGGCGTTTCTATACAAACTTCACAAAAGACTCGTATTTTAGTGGCATTTTTATACAA
1 TACTTTATTGGCGTTTCTATACAAACGCCACAAAAGAATCCTACTTTAGTGGCATTTTTATACAA
* ** *
2320169 ACGCCGTTATAGACTCGTACTTTAGTGGTGTTTTTATACAAATGCCGCTATAGACTCA
66 ACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCA
* *** *
2320227 TACTTTATTGGCGTTTCTATACAAAGGCCGTTAAAGAATCCTACTTTAGTGGCA-TTTTGTACAA
1 TACTTTATTGGCGTTTCTATACAAACGCCACAAAAGAATCCTACTTTAGTGGCATTTTTATACAA
* * *
2320291 ACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTGTACAAACGCTGCTATAGA-TTA
66 ACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCA
* * * *
2320348 GTTCTTTAGTGGCATTTTTATAC-AACGCCACTAAAA
1 -TACTTTATTGGCGTTTCTATACAAACGCCAC-AAAA
2320384 ACTTGTACTT
Statistics
Matches: 130, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
121 7 0.05
122 78 0.60
123 45 0.35
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (123 bp):
TACTTTATTGGCGTTTCTATACAAACGCCACAAAAGAATCCTACTTTAGTGGCATTTTTATACAA
ACGCCGCTATAGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTCA
Found at i:2320355 original size:81 final size:80
Alignment explanation
Indices: 2320138--2320406 Score: 261
Period size: 81 Copynumber: 3.3 Consensus size: 80
2320128 ACTTCACAAA
* * * * **
2320138 AGACTCGTATTTTAGTGGCATTTTTATACAAACGCCGTTATAGACTCGTACTTTAGTGGTGTTTT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGTTATAGAATCGTACTTTAGTGG-CATTT
*
2320203 TATACAAATGCCGCTAT
65 T-TACAAACGCCGCTAT
* * * * * * *
2320220 AGACTCATACTTTATTGGCGTTTCTATACAAAGGCCGTTAAAGAATCCTACTTTAGTGGCATTTT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGTTATAGAATCGTACTTTAGTGGCATTTT
2320285 GTACAAACGCCGCTAT
66 -TACAAACGCCGCTAT
* * * * * *
2320301 AGACTCGTACTTTAGTGACGTTTTTGTACAAACGCTGCTATAGATTAGTTCTTTAGTGGCATTTT
1 AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGTTATAGAATCGTACTTTAGTGGCATTTT
* * *
2320366 TATACAACGCCACTAA
66 TACA-AACGCCGCTAT
* *
2320382 AAACTTGTACTTTAGT-ATCGTTTTT
1 AGACTCGTACTTTAGTGA-CGTTTTT
2320407 TGAATAAATG
Statistics
Matches: 154, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.03
81 100 0.65
82 50 0.32
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (80 bp):
AGACTCGTACTTTAGTGACGTTTTTATACAAACGCCGTTATAGAATCGTACTTTAGTGGCATTTT
TACAAACGCCGCTAT
Found at i:2325523 original size:55 final size:55
Alignment explanation
Indices: 2325455--2325601 Score: 213
Period size: 55 Copynumber: 2.7 Consensus size: 55
2325445 TCGAAATTGC
* *
2325455 AAGGGTATTGATACACTCCTCAATGTACTGATACACAAATGGCACTCGATGTTTT
1 AAGGGTATCGATACACTCCTCAATGTACTGATACACAAATGACACTCGATGTTTT
* * * * * *
2325510 GAGGGTATCGATACACTCCTTATTCTACCGATACACAAATGATACTCGATGTTTT
1 AAGGGTATCGATACACTCCTCAATGTACTGATACACAAATGACACTCGATGTTTT
*
2325565 AAGGGTATCGATACACTCCTCAGTGTACTGATACACA
1 AAGGGTATCGATACACTCCTCAATGTACTGATACACA
2325602 TTCCTTCAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 79 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (55 bp):
AAGGGTATCGATACACTCCTCAATGTACTGATACACAAATGACACTCGATGTTTT
Found at i:2333803 original size:20 final size:20
Alignment explanation
Indices: 2333769--2333806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2333759 TGGGCAAGGG
**
2333769 GAATCGGTATTCATTCAAGA
1 GAATCGGTACCCATTCAAGA
2333789 GAATCGGTACCCATTCAA
1 GAATCGGTACCCATTCAA
2333807 TGGGGAATCG
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:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
GAATCGGTACCCATTCAAGA
Found at i:2333900 original size:23 final size:22
Alignment explanation
Indices: 2333855--2333900 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2333845 GAATCTCATA
*
2333855 AGGGAACCGATTCCCCCACAGG
1 AGGGAACCGATTCCCCCAAAGG
*
2333877 AGGGAATCGATTCCCCCTAAAGG
1 AGGGAACCGATTCCCCC-AAAGG
2333900 A
1 A
2333901 AAAATATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCAAAGG
Found at i:2335418 original size:103 final size:103
Alignment explanation
Indices: 2335198--2335410 Score: 365
Period size: 103 Copynumber: 2.1 Consensus size: 103
2335188 GGGTCTACGC
*
2335198 GGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGCGAAGTCTTGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGCGAAGTCTGGTGAGACACATACTTGAT
*
2335263 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCTTAGCATATGTATATGATTCTTAAGGAATGATATGT
* *
2335301 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGCGAAGTCTGGTGAGACACATACTTGAT
*
2335366 -CTCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCT-TAGCATATGTATATGATTCTTAAGGAATGATATGT
2335404 GGTCCTT
1 GGTCCTT
2335411 ATGGACATTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
102 2 0.02
103 102 0.98
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGCGAAGTCTGGTGAGACACATACTTGAT
CCTTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:2335460 original size:23 final size:23
Alignment explanation
Indices: 2335427--2335494 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
2335417 ATTATTATAT
2335427 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
2335450 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
2335473 GGCACTTCGGTACAATTATACG
1 GGCACTACGGTGCAATTCTACG
2335495 AGCTGTAGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2338244 original size:16 final size:16
Alignment explanation
Indices: 2338223--2338265 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2338213 AGTAATTAAA
2338223 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
2338239 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
2338256 GAGTGATAAG
1 GATTGATAAG
2338266 AACTGATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:2339153 original size:22 final size:21
Alignment explanation
Indices: 2339101--2339160 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
2339091 GATTTCTGGG
2339101 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
2339122 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
2339142 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
2339161 CTCAAGCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 20 0.56
21 3 0.08
22 13 0.36
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:2339238 original size:23 final size:22
Alignment explanation
Indices: 2339193--2339238 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2339183 GAATCTCATA
*
2339193 AGGGAACCGATTCCCCCAGAGG
1 AGGGAACCGATTCCCCCAAAGG
*
2339215 AGGGAATCGATTCCCCCTAAAGG
1 AGGGAACCGATTCCCCC-AAAGG
2339238 A
1 A
2339239 AAAATATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.13
Consensus pattern (22 bp):
AGGGAACCGATTCCCCCAAAGG
Found at i:2340385 original size:23 final size:23
Alignment explanation
Indices: 2340359--2340410 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2340349 TAAGTGAACC
*
2340359 ATGTG-TTTATATGTATATGGGAT
1 ATGTGATTTATATG-ATATGAGAT
*
2340382 ATGTGATTTATATGATATGAGCT
1 ATGTGATTTATATGATATGAGAT
2340405 ATGTGA
1 ATGTGA
2340411 AAGAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (23 bp):
ATGTGATTTATATGATATGAGAT
Found at i:2340650 original size:96 final size:94
Alignment explanation
Indices: 2340527--2340725 Score: 269
Period size: 96 Copynumber: 2.1 Consensus size: 94
2340517 AGGTCTACGC
* * *
2340527 GGTCCTTCGGGACATAGGTATTCTTGGAATATGTGTGAAGTCTGGTGAGACACATACTTGATCCT
1 GGTCCTTCGGGACATAGGTATTCTTGGAACATGTGTAAAGTCT-GTGAGACA-ATAC-TGATCCC
*
2340592 TGGCATATG-TATGATTCTTAAGGAATG-ATGT
63 TAG-ATATGATATGATTCTTAAGGAATGAATGT
*
2340623 GGTCCTTC-GGACATATGTATTCTTTGGAACATGTGTAAAGTCTGTGAGACAATACTGATCCCTA
1 GGTCCTTCGGGACATAGGTATTC-TTGGAACATGTGTAAAGTCTGTGAGACAATACTGATCCCTA
2340687 GATATGTATATGATTCTTAAGGAATGATATGT
65 GATATG-ATATGATTCTTAAGGAATGA-ATGT
2340719 GGTCCTT
1 GGTCCTT
2340726 ATGGACATTA
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
92 5 0.05
93 8 0.09
94 22 0.24
95 21 0.23
96 37 0.40
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (94 bp):
GGTCCTTCGGGACATAGGTATTCTTGGAACATGTGTAAAGTCTGTGAGACAATACTGATCCCTAG
ATATGATATGATTCTTAAGGAATGAATGT
Found at i:2340768 original size:23 final size:23
Alignment explanation
Indices: 2340742--2340804 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
2340732 ATTATTATAT
2340742 GGCACTACGGTGCAATTCTA-TGC
1 GGCACTACGGTGCAATTCTACT-C
* * *
2340765 GGCACTCCGATGCAATTCTACTT
1 GGCACTACGGTGCAATTCTACTC
*
2340788 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
2340805 ATACGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACTC
Found at i:2344835 original size:38 final size:38
Alignment explanation
Indices: 2344781--2345269 Score: 480
Period size: 38 Copynumber: 12.4 Consensus size: 38
2344771 ATAAAAAATG
* * * * *
2344781 AAAGATTGACTCCTCTTTATGATGAAGTCAAGAATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
2344819 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-C
** *
2344860 AAAAGATTGACACCTCTTCACAAGGAAGTCAAGAATAAC
1 -AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
2344899 AAATATTGACTTCTCTTCACAAGGAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
2344937 AAAGATTGACTTCTTTTCACAAGGAAGTCAAGAATGACATTT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A--C
* * * * *
2344979 AAAGATTGAGTCCTCTTCACGAGGGAGTCAAGGACAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
2345017 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
2345055 ATTGAAAGATTGAC-TCATTTTCAAGAGGGAGTCAAGAATAAC
1 ----AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* *
2345097 AAAGATTGACTTCTCTTCATGATGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * **
2345135 ATTGAAAGATTAACTCCTCTTCAC-AATAGAGTCAAGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAAC
*
2345177 AAAGATTGACTTCTCTTCACAATGG-AGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGA-GGAAGTCAAGAATAAC
* *
2345215 AAAGATTGATTTCTCTTCACGAGGAAGTCAAGAATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
**
2345253 TCAGATTGACTTCTCTT
1 AAAGATTGACTTCTCTT
2345270 ATTGACTTAT
Statistics
Matches: 377, Mismatches: 52, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.01
38 237 0.63
39 6 0.02
40 4 0.01
41 6 0.02
42 122 0.32
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:2344888 original size:80 final size:79
Alignment explanation
Indices: 2344781--2345269 Score: 507
Period size: 80 Copynumber: 6.2 Consensus size: 79
2344771 ATAAAAAATG
* * ** *
2344781 AAAGATTGACTCCTCTTTATGATGAAGTCAAGAAT-A-A-TAAAGATTGACTTCTCTTCACGAGG
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACATTAAAGATTGACTTCTCTTCACGAGG
2344843 AAGTCAAGAATAACATC
66 AAGTCAAGAAT-A-A-C
** * *
2344860 AAAAGATTGACACCTCTTCACAAGGAAGTCAAGAATAAC---AAATATTGACTTCTCTTCACAAG
1 -AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACATTAAAGATTGACTTCTCTTCACGAG
*
2344922 GAAGTCAATAATAAC
65 GAAGTCAAGAATAAC
* * * *
2344937 AAAGATTGACTTCTTTTCACAAGGAAGTCAAGAATGACATTTAAAGATTGAGTCCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACA-TTAAAGATTGACTTCTCTTCACGAG
* * *
2345002 GGAGTCAAGGACAAC
65 GAAGTCAAGAATAAC
** * *
2345017 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTGAAAGATTGAC-TCATTTTCAAGA
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACATT-AAAGATTGACTTC-TCTTCACGA
*
2345081 GGGAGTCAAGAATAAC
64 GGAAGTCAAGAATAAC
** * * * *
2345097 AAAGATTGACTTCTCTTCATGATGAAGTCAAGAATAACATTGAAAGATTAACTCCTCTTCAC-AA
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACATT-AAAGATTGACTTCTCTTCACGAG
*
2345161 TAGAGTCAAGAATAAC
65 GA-AGTCAAGAATAAC
*
2345177 AAAGATTGACTTCTCTTCACAATGG-AGTCAAGAATAAC---AAAGATTGATTTCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACAA-GGAAGTCAAGAATAACATTAAAGATTGACTTCTCTTCACGAG
*
2345238 GAAGTCAAGAATAAT
65 GAAGTCAAGAATAAC
**
2345253 TCAGATTGACTTCTCTT
1 AAAGATTGACTTCTCTT
2345270 ATTGACTTAT
Statistics
Matches: 348, Mismatches: 49, Indels: 28
0.82 0.12 0.07
Matches are distributed among these distances:
76 78 0.22
77 3 0.01
78 1 0.00
79 5 0.01
80 258 0.74
81 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (79 bp):
AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACATTAAAGATTGACTTCTCTTCACGAGG
AAGTCAAGAATAAC
Found at i:2344994 original size:118 final size:114
Alignment explanation
Indices: 2344781--2345269 Score: 482
Period size: 118 Copynumber: 4.1 Consensus size: 114
2344771 ATAAAAAATG
* * ** * * *
2344781 AAAGATTGACTCCTCTTTATGATGAAGTCAAGAATAATAAAGATTGACTTCTCTTCACGAGGAAG
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAAG
* *
2344846 TCAAGAATAACATCAAAAGATTGACACCTCTTCACAAGGAAGTCAAGAATAAC
66 TCAAGAAT-A-A-C-AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC
* * *
2344899 AAATATTGACTTCTCTTCACAAGGAAGTCAATAATAACAAAGATTGACTTCTTTTCACAAGGAAG
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAAG
* * * * *
2344964 TCAAGAATGACATTTAAAGATTGAGTCCTCTTCACGAGGGAGTCAAGGACAAC
66 TCAAGAAT-A-A--CAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC
** *
2345017 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTGAAAGATTGAC-TCATTTTCA-AG
1 AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAAC----AAAGATTGACTTC-TCTTCACA-
* * * *
2345080 AGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCATGATGAAGTCAAGAATAAC
60 AGGAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC
* * *
2345135 ATTGAAAGATTAACTCCTCTTCACAA-TAGAGTCAAGAATAACAAAGATTGACTTCTCTTCACAA
1 ----AAAGATTGACTTCTCTTCACAAGGA-AGTCAAGAATAACAAAGATTGACTTCTCTTCACAA
* * *
2345199 TGG-AGTCAAGAATAACAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAATAAT
61 -GGAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC
**
2345253 TCAGATTGACTTCTCTT
1 AAAGATTGACTTCTCTT
2345270 ATTGACTTAT
Statistics
Matches: 311, Mismatches: 45, Indels: 34
0.80 0.12 0.09
Matches are distributed among these distances:
114 13 0.04
118 226 0.73
119 6 0.02
120 1 0.00
121 5 0.02
122 60 0.19
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (114 bp):
AAAGATTGACTTCTCTTCACAAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACAAGGAAG
TCAAGAATAACAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:2345297 original size:51 final size:51
Alignment explanation
Indices: 2345219--2345320 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
2345209 AATAACAAAG
* * ** ***
2345219 ATTGATTTCTCTTCACGAGGAAGTCAAGAATAATTCAGATTGACTTCTCTT
1 ATTGACTTATCTTCACGAAAAAGTCAAGAATAACAAAGATTGACTTCTCTT
* *
2345270 ATTGACTTATCTTCACGAAAAATTCAAGTATAACAAAGATTGACTTCTCTT
1 ATTGACTTATCTTCACGAAAAAGTCAAGAATAACAAAGATTGACTTCTCTT
2345321 CACGAGGAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (51 bp):
ATTGACTTATCTTCACGAAAAAGTCAAGAATAACAAAGATTGACTTCTCTT
Found at i:2347186 original size:36 final size:37
Alignment explanation
Indices: 2347136--2347224 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 37
2347126 TTATTTTCCT
* *
2347136 TCTCCTTCTCCTTTTT-CTTTTTCTTTTTCTATCTTTTC
1 TCTCTTTCT-CTTTTTCCTTCTTC-TTTTCTATCTTTTC
*
2347174 TCT-TTTCTCTTTTTCCTTCTTCTTTTCTATGTTTTC
1 TCTCTTTCTCTTTTTCCTTCTTCTTTTCTATCTTTTC
*
2347210 TCTCTATCTCTTTTT
1 TCTCTTTCTCTTTTT
2347225 ATATATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 22 0.49
37 20 0.44
38 3 0.07
ACGTcount: A:0.03, C:0.27, G:0.01, T:0.69
Consensus pattern (37 bp):
TCTCTTTCTCTTTTTCCTTCTTCTTTTCTATCTTTTC
Found at i:2347196 original size:15 final size:14
Alignment explanation
Indices: 2347144--2347196 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
2347134 CTTCTCCTTC
2347144 TCCTTTT-TCTTTT
1 TCCTTTTCTCTTTT
* *
2347157 TCTTTTTCTATCTTT
1 TCCTTTTCTCT-TTT
2347172 TCTCTTTTCTCTTTT
1 TC-CTTTTCTCTTTT
2347187 TCCTTCTTCT
1 TCCTT-TTCT
2347197 TTTCTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 14 0.44
16 7 0.22
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (14 bp):
TCCTTTTCTCTTTT
Found at i:2348769 original size:28 final size:28
Alignment explanation
Indices: 2348715--2348769 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
2348705 GTATGATGTA
* * *
2348715 CATATGTGAATGTAAAAATGCCAAAATG
1 CATATATGAATGCAAAAATGACAAAATG
2348743 CATATATGAATGCAAAAAT-ACAGAAAT
1 CATATATGAATGCAAAAATGACA-AAAT
2348770 AAGAAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.24
Consensus pattern (28 bp):
CATATATGAATGCAAAAATGACAAAATG
Found at i:2351095 original size:30 final size:30
Alignment explanation
Indices: 2351028--2351098 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
2351018 AAATTATAAA
* * *
2351028 AAAAACAATCACTTTAGGTGACCATTTTGT
1 AAAAACAGTCCCTTCAGGTGACCATTTTGT
2351058 AAAAACAGTCCCTTCAGGTGACCATTTTGT
1 AAAAACAGTCCCTTCAGGTGACCATTTTGT
2351088 AAAAACAGTCC
1 AAAAACAGTCC
2351099 ATTCGTCGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (30 bp):
AAAAACAGTCCCTTCAGGTGACCATTTTGT
Found at i:2351817 original size:24 final size:24
Alignment explanation
Indices: 2351790--2351856 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
2351780 GCGATGGTAG
2351790 TTGATTTGGTGTTGGTGATGGCAA
1 TTGATTTGGTGTTGGTGATGGCAA
* *
2351814 TTGATTTGGTGTTGGTAATGGCAG
1 TTGATTTGGTGTTGGTGATGGCAA
* *
2351838 TTGATTTGGCGCTGGTGAT
1 TTGATTTGGTGTTGGTGAT
2351857 CACGTGAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.15, C:0.06, G:0.37, T:0.42
Consensus pattern (24 bp):
TTGATTTGGTGTTGGTGATGGCAA
Found at i:2352075 original size:3 final size:3
Alignment explanation
Indices: 2352067--2352116 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
2352057 AACAAAAATT
* *
2352067 ATA ATA ATA ATAA ATT ATAA ATA ATA ATG ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
2352113 ATA A
1 ATA A
2352117 AAACGGGTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2355313 original size:18 final size:19
Alignment explanation
Indices: 2355290--2355326 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2355280 TCAGTAATCC
2355290 TATTCT-CTGGTAATCTTT
1 TATTCTACTGGTAATCTTT
2355308 TATTCTCACTGGTAATCTT
1 TATTCT-ACTGGTAATCTT
2355327 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (19 bp):
TATTCTACTGGTAATCTTT
Found at i:2355707 original size:26 final size:26
Alignment explanation
Indices: 2355674--2355724 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2355664 TTTATAATTT
*
2355674 TTATTTTAAAAAGATT-AAATTTTTA
1 TTATTTTAAAAAAATTCAAATTTTTA
2355699 TTATGTTTAAAAAAATTCAAATTTTT
1 TTAT-TTTAAAAAAATTCAAATTTTT
2355725 TAAAATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 11 0.48
27 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTTTAAAAAAATTCAAATTTTTA
Found at i:2355887 original size:16 final size:16
Alignment explanation
Indices: 2355868--2355912 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
2355858 AATCCCTAAA
2355868 TGTTTAAATTTCTTAG
1 TGTTTAAATTTCTTAG
* *
2355884 TGTTTCAAAATCTCTTTG
1 TGTTT--AAATTTCTTAG
2355902 TGTTTAAATTT
1 TGTTTAAATTT
2355913 ATTCTGCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.56
Consensus pattern (16 bp):
TGTTTAAATTTCTTAG
Found at i:2370311 original size:22 final size:23
Alignment explanation
Indices: 2370283--2370350 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 23
2370273 ACCGGCGGCT
2370283 ACTATTCCGGA-CATCATCGGTC
1 ACTATTCCGGACCATCATCGGTC
* *
2370305 ACTATT-CTGACCATCGTCGGTC
1 ACTATTCCGGACCATCATCGGTC
*
2370327 ACTATT-C--ACCATCGTCGGTC
1 ACTATTCCGGACCATCATCGGTC
2370347 ACTA
1 ACTA
2370351 ATCACGGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.40
21 3 0.07
22 23 0.53
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.29
Consensus pattern (23 bp):
ACTATTCCGGACCATCATCGGTC
Found at i:2370339 original size:20 final size:20
Alignment explanation
Indices: 2370294--2370355 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
2370284 CTATTCCGGA
*
2370294 CATCATCGGTCACTATTCTGAC
1 CATCGTCGGTCACTATTC--AC
2370316 CATCGTCGGTCACTATTCAC
1 CATCGTCGGTCACTATTCAC
*
2370336 CATCGTCGGTCACTAATCAC
1 CATCGTCGGTCACTATTCAC
2370356 GGTGACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 21 0.55
22 17 0.45
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.29
Consensus pattern (20 bp):
CATCGTCGGTCACTATTCAC
Found at i:2371026 original size:3 final size:3
Alignment explanation
Indices: 2371020--2371055 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2371010 AATTATTATT
* *
2371020 TAA TAA TAA TAA TAA TAA TAA AAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2371056 CATTAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:2373353 original size:16 final size:17
Alignment explanation
Indices: 2373317--2373355 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2373307 ATTGTTGGTG
2373317 ATAT-TTATTATTTTTA
1 ATATATTATTATTTTTA
*
2373333 TTATATTATTA-TTTTA
1 ATATATTATTATTTTTA
2373349 ATATATT
1 ATATATT
2373356 TGATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATATTATTATTTTTA
Found at i:2373381 original size:15 final size:14
Alignment explanation
Indices: 2373341--2373382 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
2373331 TATTATATTA
*
2373341 TTATTTTAATATAT
1 TTATTTTAATAAAT
2373355 TTGATTTT-ATAAAT
1 TT-ATTTTAATAAAT
2373369 TTATTTATAATAAA
1 TTATTT-TAATAAA
2373383 AGATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.17
14 10 0.42
15 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTTTAATAAAT
Found at i:2375322 original size:2 final size:2
Alignment explanation
Indices: 2375315--2375348 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2375305 TGGAATCTTA
**
2375315 AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2375349 TTCCTCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2386951 original size:18 final size:19
Alignment explanation
Indices: 2386911--2386963 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
2386901 AAATACTCAT
*
2386911 AATGCATCGAAGTGCTACAC
1 AATGCACCGAAGTG-TACAC
2386931 AATGCACCGAAGTGT-CAC
1 AATGCACCGAAGTGTACAC
* *
2386949 AATACACCTAAGTGT
1 AATGCACCGAAGTGT
2386964 TACTAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 16 0.53
19 1 0.03
20 13 0.43
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (19 bp):
AATGCACCGAAGTGTACAC
Found at i:2391152 original size:21 final size:19
Alignment explanation
Indices: 2391128--2391173 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
2391118 TTTTCTTAAA
*
2391128 AAAAAAGAGAGTTTCGAAAAG
1 AAAAAAGAGA--TTAGAAAAG
2391149 AAAAAAGAGATTAGAAAAG
1 AAAAAAGAGATTAGAAAAG
2391168 AAAAAA
1 AAAAAA
2391174 AATAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAAAAGAGATTAGAAAAG
Found at i:2392498 original size:20 final size:19
Alignment explanation
Indices: 2392412--2392500 Score: 71
Period size: 20 Copynumber: 4.8 Consensus size: 19
2392402 AGAGTGTCAA
* *
2392412 AGTGCATCCATGCACCCTGT
1 AGTGCATTCATGCA-CCTGC
*
2392432 ACTGCA-TCATGCACCTGC
1 AGTGCATTCATGCACCTGC
* *
2392450 AGTGTATCCATGCA-CT--
1 AGTGCATTCATGCACCTGC
2392466 AGTGCA-TCAATGCACCATGC
1 AGTGCATTC-ATGCACC-TGC
2392486 AGTGCATTCATGCAC
1 AGTGCATTCATGCAC
2392501 TCAAACACCG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
15 1 0.02
16 10 0.19
17 1 0.02
18 11 0.20
19 12 0.22
20 17 0.31
21 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (19 bp):
AGTGCATTCATGCACCTGC
Found at i:2392498 original size:36 final size:34
Alignment explanation
Indices: 2392434--2392501 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 34
2392424 CACCCTGTAC
*
2392434 TGCATCATGCACCTGCAGTGTATCCATGCACTAG
1 TGCATCATGCACCTGCAGTGCATCCATGCACTAG
*
2392468 TGCATCAATGCACCATGCAGTGCATTCATGCACT
1 TGCATC-ATGCACC-TGCAGTGCATCCATGCACT
2392502 CAAACACCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.20
35 7 0.23
36 17 0.57
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (34 bp):
TGCATCATGCACCTGCAGTGCATCCATGCACTAG
Found at i:2395872 original size:19 final size:19
Alignment explanation
Indices: 2395830--2395899 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
2395820 AGAGTGTCAA
*
2395830 AGTGCATCCATGCACCCTGC
1 AGTGCATCCATGCA-CCTGT
*
2395850 AGTGCATCAATGCACCTGT
1 AGTGCATCCATGCACCTGT
*
2395869 AGTGTATCCATGCA-C--T
1 AGTGCATCCATGCACCTGT
*
2395885 AGTGCATCGATGCAC
1 AGTGCATCCATGCAC
2395900 TGTGCATTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 13 0.30
18 1 0.02
19 16 0.37
20 13 0.30
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (19 bp):
AGTGCATCCATGCACCTGT
Found at i:2395910 original size:23 final size:23
Alignment explanation
Indices: 2395879--2396020 Score: 230
Period size: 23 Copynumber: 6.2 Consensus size: 23
2395869 AGTGTATCCA
*
2395879 TGCACTAGTGCATCGATGCACTG
1 TGCACTAGTGCATCGATGCACCG
*
2395902 TGCATTAGTGCATCGATGCACCG
1 TGCACTAGTGCATCGATGCACCG
*
2395925 TGCATTAGTGCATCGATGCACCG
1 TGCACTAGTGCATCGATGCACCG
2395948 TGCACTAGTGCATCGATGCACCG
1 TGCACTAGTGCATCGATGCACCG
*
2395971 TGCACTAGTGCATCGATGCACCA
1 TGCACTAGTGCATCGATGCACCG
* *
2395994 TGCACTAGTGCATTGATGCACCA
1 TGCACTAGTGCATCGATGCACCG
2396017 TGCA
1 TGCA
2396021 GTGAATCCAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 114 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
TGCACTAGTGCATCGATGCACCG
Found at i:2396057 original size:54 final size:54
Alignment explanation
Indices: 2395999--2396142 Score: 252
Period size: 54 Copynumber: 2.7 Consensus size: 54
2395989 CACCATGCAC
* *
2395999 TAGTGCATTGATGCACCATGCAGTGAATCCATGCACTCAAACACCGAATTCAAT
1 TAGTGCATCGATGCACCATGCAGTGAATCCATGCACTCAAACACCGAATGCAAT
2396053 TAGTGCATCGATGCACCATGCAGTGAATCCATGCACTCAAACACCGAATGCAAT
1 TAGTGCATCGATGCACCATGCAGTGAATCCATGCACTCAAACACCGAATGCAAT
* *
2396107 TAGTGCATCGATGCACCCTGCAGTGCATCCATGCAC
1 TAGTGCATCGATGCACCATGCAGTGAATCCATGCAC
2396143 CCTGGCTGCA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (54 bp):
TAGTGCATCGATGCACCATGCAGTGAATCCATGCACTCAAACACCGAATGCAAT
Found at i:2396133 original size:20 final size:20
Alignment explanation
Indices: 2396108--2396146 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2396098 GAATGCAATT
*
2396108 AGTGCATCGATGCACCCTGC
1 AGTGCATCCATGCACCCTGC
2396128 AGTGCATCCATGCACCCTG
1 AGTGCATCCATGCACCCTG
2396147 GCTGCAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.21
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:2397643 original size:36 final size:35
Alignment explanation
Indices: 2397596--2397667 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 35
2397586 AGGGAATTCA
2397596 AGGGGTACCGATACCTTGAA-GAATAGTATCGATACC
1 AGGGGTACCGATACCTT-AAGGAATA-TATCGATACC
2397632 AGGGGTACCGATACCTTAAGGAATATATCGATACC
1 AGGGGTACCGATACCTTAAGGAATATATCGATACC
2397667 A
1 A
2397668 TCTTGAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (35 bp):
AGGGGTACCGATACCTTAAGGAATATATCGATACC
Found at i:2398286 original size:19 final size:19
Alignment explanation
Indices: 2398250--2398287 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2398240 AGGTAATACT
*
2398250 AAACTATGAAATTGTATGA
1 AAACTATGAAATTATATGA
2398269 AAACATATGAAA-TATATGA
1 AAAC-TATGAAATTATATGA
2398288 TATGCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (19 bp):
AAACTATGAAATTATATGA
Found at i:2398586 original size:20 final size:20
Alignment explanation
Indices: 2398561--2398598 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2398551 GTCGAGGGTT
2398561 CATAGGTCATTCGGGACATA
1 CATAGGTCATTCGGGACATA
2398581 CATAGGTCATTCGGGACA
1 CATAGGTCATTCGGGACA
2398599 AATTTCACAT
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:0.21, G:0.26, T:0.24
Consensus pattern (20 bp):
CATAGGTCATTCGGGACATA
Found at i:2398858 original size:16 final size:16
Alignment explanation
Indices: 2398837--2398892 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
2398827 GTATATTTGG
2398837 TATGATAAAAGGGTAA
1 TATGATAAAAGGGTAA
2398853 TATGATAAAAAGGGATTAA
1 TATGAT-AAAAGGG--TAA
*
2398872 TGATGATAATAAGAGTAA
1 T-ATGATAA-AAGGGTAA
2398890 TAT
1 TAT
2398893 TAAGGATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 6 0.18
17 9 0.26
18 4 0.12
19 6 0.18
20 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (16 bp):
TATGATAAAAGGGTAA
Found at i:2398865 original size:17 final size:17
Alignment explanation
Indices: 2398837--2398892 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 17
2398827 GTATATTTGG
2398837 TATGAT-AAAAGGGTAA
1 TATGATAAAAAGGGTAA
2398853 TATGATAAAAAGGGATTAA
1 TATGATAAAAAGGG--TAA
* *
2398872 TGATGATAATAAGAGTAA
1 T-ATGATAAAAAGGGTAA
2398890 TAT
1 TAT
2398893 TAAGGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 6 0.18
17 9 0.26
18 4 0.12
19 4 0.12
20 11 0.32
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
TATGATAAAAAGGGTAA
Found at i:2403078 original size:20 final size:20
Alignment explanation
Indices: 2403053--2403107 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2403043 GAGGGTTCAT
*
2403053 AGGTCCTTCGAGATATACAG
1 AGGTCCTTCGAGACATACAG
* *
2403073 AGGTCCTTCGGGACATACAT
1 AGGTCCTTCGAGACATACAG
*
2403093 AGGTCCTTCGGGACA
1 AGGTCCTTCGAGACA
2403108 AATTTCACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (20 bp):
AGGTCCTTCGAGACATACAG
Found at i:2403387 original size:19 final size:16
Alignment explanation
Indices: 2403349--2403399 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 16
2403339 AATATGGTAA
2403349 GATAAAAGGGTAATAT
1 GATAAAAGGGTAATAT
2403365 GATAAAAGGGATTAATGAT
1 GATAAAAGGG--TAAT-AT
*
2403384 GATAATAAGAGTAATA
1 GATAA-AAGGGTAATA
2403400 ATAAGGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.33
17 1 0.03
18 8 0.27
19 7 0.23
20 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (16 bp):
GATAAAAGGGTAATAT
Found at i:2404703 original size:132 final size:132
Alignment explanation
Indices: 2404459--2404704 Score: 293
Period size: 132 Copynumber: 1.9 Consensus size: 132
2404449 TACTCAGATT
* * *
2404459 AATATTGAATTTTAGGATGAAATATCAATATCTTTTCATTTCAATTAGAGTAATAAAGAAATGTT
1 AATATTGAATTTTAGGACGAAATATCAATATCTCTTCAGTTCAATTAGAGTAATAAAGAAATGTT
* * *** * **
2404524 TTAAAGTACGAGAGGTCATTTATTCTTGTTTGGAAATAATTCGATATTACCATTTTTCTCTCTAA
66 TTAAAGTACGAAAAGTCATTTATTCTCAATTGAAAATAATAAGATATTACCATTTTTCTCTCTAA
2404589 TC
131 TC
* * *
2404591 AATATTGAATTTTCA-GACGAAATATTATTATCTCTTCAGTTCAATTAGAGTAATAAATG-ATTG
1 AATATTGAATTTT-AGGACGAAATATCAATATCTCTTCAGTTCAATTAGAGTAATAAA-GAAATG
*
2404654 TTTT-AAG-ACATGAAAAGTCATTTATTCTCAATTGAAAATAATAATATATTA
64 TTTTAAAGTAC--GAAAAGTCATTTATTCTCAATTGAAAATAATAAGATATTA
2404705 TATATTATCA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
130 2 0.02
131 3 0.03
132 88 0.93
133 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.41
Consensus pattern (132 bp):
AATATTGAATTTTAGGACGAAATATCAATATCTCTTCAGTTCAATTAGAGTAATAAAGAAATGTT
TTAAAGTACGAAAAGTCATTTATTCTCAATTGAAAATAATAAGATATTACCATTTTTCTCTCTAA
TC
Found at i:2408457 original size:11 final size:11
Alignment explanation
Indices: 2408441--2408474 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
2408431 CAACACCTTG
2408441 CATTGCATTTA
1 CATTGCATTTA
2408452 CATTGCATTTA
1 CATTGCATTTA
2408463 CATTGCATTTA
1 CATTGCATTTA
2408474 C
1 C
2408475 TTTTCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:2414897 original size:134 final size:134
Alignment explanation
Indices: 2414647--2415240 Score: 699
Period size: 134 Copynumber: 4.4 Consensus size: 134
2414637 CCCTCTCTTT
* * * * * *
2414647 TGAGTAACACTGGAATAAGTCTACCTCGATTCAATCTTCCTTGAGTAATAGTTGAATGAATCAAC
1 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAGTAACAGTGGAATGAATCAAC
* * * * *
2414712 GTCCCTAAATCTAATTTTCCCTCAAGAAGAAGCGGAACAAATCCTTATCTTTCAAGATTTGATAT
66 GTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATAT
*
2414777 TCCC
131 TCCA
* * * * *
2414781 TGAGTAACAGTGGAACAAGTTTGCCTCGATTCAATCTTCTCTTAGTAACAGTGGAATGAATCAAT
1 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAGTAACAGTGGAATGAATCAAC
* * *
2414846 GTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCAAAACATATCTCTCTCTTTCAAGATTTGATAT
66 GTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATAT
2414911 TCCA
131 TCCA
* * * * * * * * *
2414915 TGAGTAAGAATGGAACAAGTTTACCTCGATGCAATATTCCCCTAAAG-AATAATAGAATTAATCA
1 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTT-CCCT-AAGTAACAGTGGAATGAATCA
* **
2414979 ACGTCCCCAGATCTAATTTTCCCTCAAGAATAAATGAAACAAATCCCTCTCTTTCAAGATTTGAT
64 ACGTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGAT
*
2415044 CTTTCC-
129 -ATTCCA
* *
2415050 TGATTAACAGTGGAACGAGTCTACCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAA
1 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCT-AAGTAACAGTGGAATGAATCAA
* ** * * ** *
2415114 TGTCCTTATATCTAATTTTCCCTCAAGATGAAGCGAAACTTATCCCTCTTTTTTCAAGATTTGAT
65 CGTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCGAAACAAATCCCTC-TCTTTCAAGATTTGAT
2415179 ATTCCA
129 ATTCCA
* * **
2415185 TGAGTAACAGTGGAAGAAGTCTGCCTCGATTCAATCTTCCCCGAGTAACAGTGGAA
1 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAGTAACAGTGGAA
2415241 CAAGTTTGCC
Statistics
Matches: 386, Mismatches: 68, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
134 213 0.55
135 167 0.43
136 6 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (134 bp):
TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAGTAACAGTGGAATGAATCAAC
GTCCCCAGATCTAATTTTCCCTCAAGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATAT
TCCA
Found at i:2415281 original size:41 final size:41
Alignment explanation
Indices: 2415186--2415265 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
2415176 GATATTCCAT
*
2415186 GAGTAACAGTGGAAGAAGTCTGCCTCGATTCAATCTTCCCC
1 GAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCC
* *
2415227 GAGTAACAGTGGAACAAGTTTGCCTTGATTCAATCTTCC
1 GAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCC
2415266 TTGAAGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
GAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCC
Found at i:2415415 original size:134 final size:133
Alignment explanation
Indices: 2415221--2415694 Score: 562
Period size: 134 Copynumber: 3.5 Consensus size: 133
2415211 CGATTCAATC
* * * *
2415221 TTCCCCGAGTAACAGTGGAACAAGTTTGCCTTGATTCAATCTTCCTTGAAGAACAATGGAATGAA
1 TTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAA
* * * *
2415286 TCAATATCCTTAGATTTGATTTTCCCTCAAGAAGAAGCAAAATAGATCCATCTCTTTCAAGATTT
66 TCAACATCCTCAGATTTGATTTTCCCTCAAGAAGAAGCAAAATAGATCCCTCTCTTT-AATATTT
2415351 GATA
130 GATA
* * * * * *
2415355 TT-CCTTATGTAACAGTAGATCAAGTCTACCTCGATTCAATCTTCCCTGAAGAATAGTGGAATGA
1 TTCCCTGA-GTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGA
* **
2415419 ATCAACGTCCTCAG-TTCTGATTTTCCCTCAAGAAGAAGCGGAAT-GAATCCCTCTCTTTTAATA
65 ATCAACATCCTCAGATT-TGATTTTCCCTCAAGAAGAAGCAAAATAG-ATCCCTCTC-TTTAATA
2415482 TTTGATA
127 TTTGATA
* * *
2415489 TTCCCTGAGTAATAGTGGAACAAGTATGCCTCGATTCAATCTTTCCTG-AGTAACAATGGAATGA
1 TTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAG-AACAATGGAATGA
* * * *
2415553 ATCAGCATCC-CATATCTGATTTTTCGCTCAAGAAGAAGCAAAATAGATCCCTCTCTTTATATAT
65 ATCAACATCCTCAGATTTGA-TTTTCCCTCAAGAAGAAGCAAAATAGATCCCTCTCTTTA-ATAT
2415617 TTGATA
128 TTGATA
* * * * * * *
2415623 TTCCCTGAGTAACAGTGTAACAAGTCTGCCTCAATTGAATATTCCCTAAAGTACAATGAAATGAA
1 TTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAA
2415688 TCAACAT
66 TCAACAT
2415695 TTTCAAATCT
Statistics
Matches: 285, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
133 17 0.06
134 258 0.91
135 10 0.04
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (133 bp):
TTCCCTGAGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAA
TCAACATCCTCAGATTTGATTTTCCCTCAAGAAGAAGCAAAATAGATCCCTCTCTTTAATATTTG
ATA
Found at i:2415930 original size:12 final size:11
Alignment explanation
Indices: 2415922--2415988 Score: 73
Period size: 11 Copynumber: 5.8 Consensus size: 11
2415912 CTATATTATC
2415922 TATTTTATTTA
1 TATTTTATTTA
2415933 TATTTATATTTA
1 TATTT-TATTTA
2415945 TATTTTATTTTA
1 TATTTTA-TTTA
*
2415957 GTTTTTTATCTT-
1 -TATTTTAT-TTA
*
2415969 TATTTCATTTA
1 TATTTTATTTA
2415980 TATTTTATT
1 TATTTTATT
2415989 GTAGGCCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
10 2 0.04
11 21 0.45
12 16 0.34
13 8 0.17
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:2415934 original size:18 final size:18
Alignment explanation
Indices: 2415898--2415954 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
2415888 GTCCGGTTCT
* *
2415898 TTTATTTTTATTTTCTATA
1 TTTATATTTATATT-TATA
*
2415917 TTATCTATTT-TATTTATA
1 TT-TATATTTATATTTATA
2415935 TTTATATTTATATTT-TA
1 TTTATATTTATATTTATA
2415952 TTT
1 TTT
2415955 TAGTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 11 0.34
18 11 0.34
19 5 0.16
20 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATATTTATATTTATA
Found at i:2424094 original size:21 final size:21
Alignment explanation
Indices: 2424045--2424107 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
2424035 GCATATGAAA
* * *
2424045 TTGTACCGAATGACCTGTGAG
1 TTGTCCCGAAGGACCTATGAG
2424066 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAG
2424088 TTGTCCCGAAGGACCTATGA
1 TTGTCCCGAAGGACCTATGA
2424108 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:2426169 original size:129 final size:129
Alignment explanation
Indices: 2425916--2426171 Score: 334
Period size: 129 Copynumber: 2.0 Consensus size: 129
2425906 TACTCATATT
* ** * * **
2425916 AATATTGAATTTTAGGATGAAATAGTAATATCTTTTCATTTCGGTTAGAGTAATAAAGACTATTT
1 AATATTGAATTTTAAGACAAAAAAGTAATATCTCTTCATTTCAATTAGAGTAATAAAGACTATTT
* *
2425981 TAAAGCACGAGAGATCATTTATTCTCGATTAGAAATAATTCGATTTACCATTTTCTCTCTAATC
66 TAAAGCACGAAAGATCATTTATTCTCGATTAGAAATAATTAGATTTACCATTTTCTCTCTAATC
* *
2426045 AATATTGAATTTTAAGACAAAAAAGTAATATCTCTTCATTTCAATTAGAGTAATAAATGATTGTT
1 AATATTGAATTTTAAGACAAAAAAGTAATATCTCTTCATTTCAATTAGAGTAATAAA-GACTATT
* * * * *
2426110 TTAAGGCATGAAA-AGTCATTTATTCTGGATTGGAAATAATTAGATATTATCATTTTCTCTCT
65 TTAAAGCACGAAAGA-TCATTTATTCTCGATTAGAAATAATTAGAT-TTACCATTTTCTCTCT
2426172 TAAAATTATT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
129 51 0.47
130 42 0.39
131 15 0.14
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (129 bp):
AATATTGAATTTTAAGACAAAAAAGTAATATCTCTTCATTTCAATTAGAGTAATAAAGACTATTT
TAAAGCACGAAAGATCATTTATTCTCGATTAGAAATAATTAGATTTACCATTTTCTCTCTAATC
Found at i:2430938 original size:4 final size:4
Alignment explanation
Indices: 2430903--2430950 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
2430893 CCCTCTCTAC
* * * * *
2430903 ATAT ACAT ATAT ACAT ACAT ACAT ATAG ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
2430951 CACTATTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:2430948 original size:6 final size:6
Alignment explanation
Indices: 2430903--2430950 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
2430893 CCCTCTCTAC
* * * * *
2430903 ATATAC ATATAT ACATAC ATACAT ATAGAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
2430951 CACTATTTCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (6 bp):
ATATAT
Found at i:2434612 original size:22 final size:23
Alignment explanation
Indices: 2434582--2434653 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
2434572 AAATGACCGA
*
2434582 AAAAAGTACCA-AAAGGCAGAAG
1 AAAATGTACCATAAAGGCAGAAG
* **
2434604 AAAATGTACCATGAAGGTTGAAG
1 AAAATGTACCATAAAGGCAGAAG
* * * *
2434627 AAAATGTTCCATGAAGGTAGAGG
1 AAAATGTACCATAAAGGCAGAAG
2434650 AAAA
1 AAAA
2434654 CGTGCGATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 10 0.24
23 32 0.76
ACGTcount: A:0.50, C:0.10, G:0.25, T:0.15
Consensus pattern (23 bp):
AAAATGTACCATAAAGGCAGAAG
Found at i:2434620 original size:23 final size:23
Alignment explanation
Indices: 2434594--2434653 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
2434584 AAAGTACCAA
*
2434594 AAGGCAGAAGAAAATGTACCATG
1 AAGGTAGAAGAAAATGTACCATG
* *
2434617 AAGGTTGAAGAAAATGTTCCATG
1 AAGGTAGAAGAAAATGTACCATG
*
2434640 AAGGTAGAGGAAAA
1 AAGGTAGAAGAAAA
2434654 CGTGCGATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.28, T:0.17
Consensus pattern (23 bp):
AAGGTAGAAGAAAATGTACCATG
Found at i:2441354 original size:258 final size:253
Alignment explanation
Indices: 2440865--2441476 Score: 868
Period size: 258 Copynumber: 2.4 Consensus size: 253
2440855 CTTATTCATA
2440865 TATTGAATAAAAAT-A-TTTTTTATTA-TT---TTGGGTCAGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATAATTTTTTTATTATTTCGGTTGGGTC-GGTTTCTAATTCATATATTCGGGT
2440924 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCG
65 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCG
*
2440989 GGTCGAGTTCGGGTAGAGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATT
130 GGTCGAGTTCGGGTAGAGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATT
*
2441054 TAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTTTCAATTAAGTCATTATTTC
195 TAGGAATAATTACAATAATACCCCTC---ATATAATTTTTTTTCCAATTAAGTCATTATTTC
2441116 TATTGAATAAAAATAATTTTTTTATTATTTCGGATTGGGTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGG-TTGGGTCGG-TTTCTAATTCATATATTCGGG
* * * *
2441181 TCTGGTCGGGTGAAATTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTTGGGT
64 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC-GATTTTTTTAAGTGTGATATTCGGGT
* * * *
2441246 C-GGTCGGGTTCTGGTTTAGGGTGAAAAATACTCGACCCGACCTAAAAAATATATAATTTTACCT
128 CGGGTCGAGTTC-GG-GTAGAGTGAAAAATACCCGACCCG----AAAAAATATATAATTTTACCT
*
2441310 TATATATTTAGGAATAATT-CAAATAATACCCCTC-TAT-A-TTTTTTTCCAATTAAGTCATTGT
187 TATATATTTAGGAATAATTAC-AATAATACCCCTCATATAATTTTTTTTCCAATTAAGTCATTAT
*
2441371 TTT
251 TTC
* *
2441374 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTAGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTC-GGTTGGGTC-GGTTTCTAATTCATATATTCGGG
*
2441439 TCGGGTCGGGTGAAACTTTATTTTGGTTGGGTCGGGTC
64 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
2441477 TCAGATGGAG
Statistics
Matches: 326, Mismatches: 17, Indels: 29
0.88 0.05 0.08
Matches are distributed among these distances:
251 14 0.04
252 1 0.00
253 10 0.03
254 2 0.01
257 2 0.01
258 188 0.58
259 32 0.10
260 24 0.07
263 1 0.00
264 52 0.16
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (253 bp):
TATTGAATAAAAATAATTTTTTTATTATTTCGGTTGGGTCGGTTTCTAATTCATATATTCGGGTC
GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCGG
GTCGAGTTCGGGTAGAGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTT
AGGAATAATTACAATAATACCCCTCATATAATTTTTTTTCCAATTAAGTCATTATTTC
Found at i:2441889 original size:18 final size:17
Alignment explanation
Indices: 2441844--2441890 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
2441834 TATGGAATTG
*
2441844 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
* *
2441861 TATTTCAATTCCTTCACA
1 GATTCCAATTCC-TCACA
2441879 GATTCCAATTCC
1 GATTCCAATTCC
2441891 CTCAGAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:2446908 original size:44 final size:44
Alignment explanation
Indices: 2446836--2446942 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
2446826 TATAAAATTT
*
2446836 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCATTTAT-CCATAAGCTCATAAGCTTATTTTACCAATACA
*
2446881 CTTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATCCATAAGCTCATAAGCTTATTTTACCAATACA
*
2446925 CTTGCCA-TTATTCCATAA
1 CTTACCATTTA-TCCATAA
2446943 CCATATACAA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 3 0.05
44 43 0.74
45 12 0.21
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (44 bp):
CTTACCATTTATCCATAAGCTCATAAGCTTATTTTACCAATACA
Found at i:2447147 original size:59 final size:59
Alignment explanation
Indices: 2447025--2447151 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 59
2447015 TAGTGCTATC
* * * ** *
2447025 CCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTC
1 CCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTA
* * ** *
2447084 CCGAATATGACACATAAGGTCGTGCCCACCATATACATTAGGTATCCTTTAGTGTATTA
1 CCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTA
2447143 CCGAATATG
1 CCGAATATG
2447152 CAACCTGGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (59 bp):
CCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTA
Found at i:2449220 original size:12 final size:12
Alignment explanation
Indices: 2449203--2449234 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2449193 TGTTCAGTAG
2449203 CGGCGTTTTTAC
1 CGGCGTTTTTAC
*
2449215 CGGCGTTTTTAG
1 CGGCGTTTTTAC
2449227 CGGCGTTT
1 CGGCGTTT
2449235 GGAGAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.31, T:0.41
Consensus pattern (12 bp):
CGGCGTTTTTAC
Found at i:2450136 original size:23 final size:21
Alignment explanation
Indices: 2450100--2450152 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
2450090 AGTGTTTTCT
*
2450100 GCTTTCGAATGGAAAAATAATA
1 GCTTTTGAATGG-AAAATAATA
*
2450122 GTTTTTGAATAGGAAAATAATA
1 GCTTTTGAAT-GGAAAATAATA
2450144 GCTTTTGAA
1 GCTTTTGAA
2450153 AACATGAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (21 bp):
GCTTTTGAATGGAAAATAATA
Found at i:2451531 original size:23 final size:23
Alignment explanation
Indices: 2451504--2451560 Score: 107
Period size: 22 Copynumber: 2.5 Consensus size: 23
2451494 CTCGGAGGTA
2451504 ACCGATTCCCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCCAAGGGGGT
2451527 ACCGATT-CCCCCCCAAGGGGGT
1 ACCGATTCCCCCCCCAAGGGGGT
2451549 ACCGATTCCCCC
1 ACCGATTCCCCC
2451561 TGTTTAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.14
Consensus pattern (23 bp):
ACCGATTCCCCCCCCAAGGGGGT
Done.