Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 38 of 133
Found at i:8437066 original size:21 final size:21
Alignment explanation
Indices: 8437050--8437095 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8437040 TCAAAAACCC
* *
8437050 AAACCAAAACCAAAAAAACAA
1 AAACAAAAAACAAAAAAACAA
*
8437071 AAACAAAAAACAAAAACAAAAA
1 AAACAAAAAACAAAAA-AACAA
8437093 AAA
1 AAA
8437096 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (21 bp):
AAACAAAAAACAAAAAAACAA
Found at i:8437071 original size:27 final size:27
Alignment explanation
Indices: 8437032--8437094 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
8437022 ATTTATCGGC
* ** *
8437032 CCAAAAAATCAAAAACCCAAACCAAAA
1 CCAAAAAAACAAAAACAAAAAACAAAA
8437059 CCAAAAAAACAAAAACAAAAAACAAAA
1 CCAAAAAAACAAAAACAAAAAACAAAA
*
8437086 ACAAAAAAA
1 CCAAAAAAA
8437095 AAGAAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.76, C:0.22, G:0.00, T:0.02
Consensus pattern (27 bp):
CCAAAAAAACAAAAACAAAAAACAAAA
Found at i:8437072 original size:6 final size:6
Alignment explanation
Indices: 8437063--8437096 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
8437053 CCAAAACCAA
8437063 AAAAAC AAAAAC AAAAAAC AAAAAC AAAAA- AAAA
1 AAAAAC AAAAAC -AAAAAC AAAAAC AAAAAC AAAA
8437097 GAAAAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:8437080 original size:13 final size:13
Alignment explanation
Indices: 8437033--8437093 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
8437023 TTTATCGGCC
8437033 CAAAAAATCAAAAA
1 CAAAAAA-CAAAAA
** * *
8437047 CCCAAACCAAAAC
1 CAAAAAACAAAAA
8437060 CAAAAAAACAAAAA
1 C-AAAAAACAAAAA
8437074 CAAAAAACAAAAA
1 CAAAAAACAAAAA
8437087 CAAAAAA
1 CAAAAAA
8437094 AAAGAAAAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
13 25 0.66
14 13 0.34
ACGTcount: A:0.77, C:0.21, G:0.00, T:0.02
Consensus pattern (13 bp):
CAAAAAACAAAAA
Found at i:8449249 original size:19 final size:19
Alignment explanation
Indices: 8449213--8449269 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
8449203 GTGACTTTTG
8449213 AAGATTCCTACAATTTTTTGGC
1 AAGATTCCT--AA-TTTTTGGC
* *
8449235 AAGATTCCTAGTTTTCGGC
1 AAGATTCCTAATTTTTGGC
*
8449254 AAGTTTCCTAATTTTT
1 AAGATTCCTAATTTTT
8449270 AGCGACAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 20 0.67
20 1 0.03
22 9 0.30
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (19 bp):
AAGATTCCTAATTTTTGGC
Found at i:8450198 original size:50 final size:49
Alignment explanation
Indices: 8450122--8450230 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 49
8450112 CCAAAGATAA
* * * * * *
8450122 AAAAACAAAAAAAAAGAATTTCTAAATAGGCCTAAATGGTGAAAATTTT
1 AAAAATAAAAAAAAAAAATTTCTAAATAGACCTAAATAGTAAAAAATTT
* *
8450171 AAAAATAAAAAAATAAAAATTTTTAAATTGACCTAAATAGTAAAAAATTT
1 AAAAATAAAAAAA-AAAAATTTCTAAATAGACCTAAATAGTAAAAAATTT
*
8450221 AGAAATAAAA
1 AAAAATAAAA
8450231 CTATTAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 12 0.24
50 38 0.76
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.26
Consensus pattern (49 bp):
AAAAATAAAAAAAAAAAATTTCTAAATAGACCTAAATAGTAAAAAATTT
Found at i:8453161 original size:1 final size:1
Alignment explanation
Indices: 8453155--8453231 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
8453145 ATAATGGATG
* * ** * * ** *
8453155 AAAAAAAATAAAAAAAATAAAAAACGAGAAAAAAAAATAAAAAAATGAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
8453220 AAGAGAAAAAAA
1 AAAAAAAAAAAA
8453232 TGAAAACATG
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.86, C:0.01, G:0.06, T:0.06
Consensus pattern (1 bp):
A
Found at i:8453169 original size:8 final size:8
Alignment explanation
Indices: 8453156--8453270 Score: 58
Period size: 8 Copynumber: 13.9 Consensus size: 8
8453146 TAATGGATGA
8453156 AAAAAAAT
1 AAAAAAAT
8453164 AAAAAAAAT
1 -AAAAAAAT
*
8453173 AAAAAACGAGAA
1 -AAAAA--A-AT
8453185 AAAAAAAT
1 AAAAAAAT
8453193 AAAAAAAT
1 AAAAAAAT
8453201 GAAAAAAA-
1 -AAAAAAAT
8453209 AATAAAAA-
1 AA-AAAAAT
* *
8453217 AAAAAGAG
1 AAAAAAAT
8453225 AAAAAAAT
1 AAAAAAAT
* *
8453233 GAAAACAT
1 AAAAAAAT
* *
8453241 GAGAAAAT
1 AAAAAAAT
*
8453249 --GAAAAT
1 AAAAAAAT
8453255 GAAAAAAAT
1 -AAAAAAAT
8453264 AAAAAAA
1 AAAAAAA
8453271 ATGTAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
6 6 0.07
7 6 0.07
8 41 0.47
9 27 0.31
11 6 0.07
12 1 0.01
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8453169 original size:9 final size:9
Alignment explanation
Indices: 8453155--8453219 Score: 71
Period size: 9 Copynumber: 6.9 Consensus size: 9
8453145 ATAATGGATG
8453155 AAAAAAAAT
1 AAAAAAAAT
8453164 AAAAAAAAT
1 AAAAAAAAT
8453173 AAAAAACGAGA-
1 AAAAAA--A-AT
8453184 AAAAAAAAT
1 AAAAAAAAT
8453193 -AAAAAAAT
1 AAAAAAAAT
8453201 GAAAAAAAAAT
1 --AAAAAAAAT
8453212 AAAAAAAA
1 AAAAAAAA
8453220 AAGAGAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
8 9 0.18
9 24 0.49
11 15 0.31
12 1 0.02
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:8453187 original size:20 final size:19
Alignment explanation
Indices: 8453156--8453271 Score: 96
Period size: 19 Copynumber: 5.9 Consensus size: 19
8453146 TAATGGATGA
8453156 AAAAAAAT--AAAAAAAAT
1 AAAAAAATGAAAAAAAAAT
8453173 AAAAAACGA-GAAAAAAAAAT
1 AAAAAA--ATGAAAAAAAAAT
8453193 AAAAAAATGAAAAAAAAAT
1 AAAAAAATGAAAAAAAAAT
* *
8453212 AAAAAAAAAAGAGAAAAAAAT
1 --AAAAAAATGAAAAAAAAAT
* *
8453233 GAAAACATGAGAAAATGAAAAT
1 AAAAAAATGA-AAAA--AAAAT
8453255 GAAAAAAAT-AAAAAAAA
1 -AAAAAAATGAAAAAAAA
8453272 TGTAAAAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.08
18 1 0.01
19 22 0.28
20 18 0.22
21 21 0.26
22 6 0.08
23 6 0.08
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAATGAAAAAAAAAT
Found at i:8453190 original size:21 final size:21
Alignment explanation
Indices: 8453164--8453231 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
8453154 GAAAAAAAAT
*
8453164 AAAAAAAATAAAAAACGAG-A
1 AAAAAAAATAAAAAAAGAGAA
8453184 AAAAAAAATAAAAAAATGA-AA
1 AAAAAAAATAAAAAAA-GAGAA
*
8453205 AAAAAATAAAAAAAAAAGAGAA
1 AAAAAA-AATAAAAAAAGAGAA
8453227 AAAAA
1 AAAAA
8453232 TGAAAACATG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 15 0.36
21 11 0.26
22 16 0.38
ACGTcount: A:0.85, C:0.01, G:0.07, T:0.06
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAGAGAA
Found at i:8453218 original size:40 final size:40
Alignment explanation
Indices: 8453156--8453271 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 40
8453146 TAATGGATGA
**
8453156 AAAAAAAT--AAAAAAAAT-AAAAAACGAGAAAAAAAAAT
1 AAAAAAATGAAAAAAAAATAAAAAAAAAAGAAAAAAAAAT
*
8453193 AAAAAAATGAAAAAAAAATAAAAAAAAAAGAGAAAAAAAT
1 AAAAAAATGAAAAAAAAATAAAAAAAAAAGAAAAAAAAAT
* * * *
8453233 GAAAACATGAGAAAATGAAAATGAAAAAAATA-AAAAAAA
1 AAAAAAATGA-AAAA--AAAATAAAAAAAAAAGAAAAAAA
8453272 TGTAAAAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
37 8 0.12
39 9 0.14
40 25 0.38
41 4 0.06
42 6 0.09
43 13 0.20
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (40 bp):
AAAAAAATGAAAAAAAAATAAAAAAAAAAGAAAAAAAAAT
Found at i:8453232 original size:21 final size:20
Alignment explanation
Indices: 8453164--8453231 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 20
8453154 GAAAAAAAAT
* *
8453164 AAAAAAAATAAAAAACGAGA
1 AAAAAAAAAAAAAAAAGAGA
* *
8453184 AAAAAAAATAAAAAAATGAAA
1 AAAAAAAA-AAAAAAAAGAGA
8453205 AAAAAATAAAAAAAAAAGAGA
1 AAAAAA-AAAAAAAAAAGAGA
8453226 AAAAAA
1 AAAAAA
8453232 TGAAAACATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.20
21 31 0.76
22 2 0.05
ACGTcount: A:0.85, C:0.01, G:0.07, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAGAGA
Found at i:8453779 original size:19 final size:19
Alignment explanation
Indices: 8453755--8453793 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8453745 GGATGATAGG
8453755 GGTAAAAAAATGAAAAGAT
1 GGTAAAAAAATGAAAAGAT
**
8453774 GGTAAAAACCTGAAAAGAT
1 GGTAAAAAAATGAAAAGAT
8453793 G
1 G
8453794 ATTTGGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (19 bp):
GGTAAAAAAATGAAAAGAT
Found at i:8454819 original size:87 final size:86
Alignment explanation
Indices: 8454716--8454909 Score: 273
Period size: 87 Copynumber: 2.2 Consensus size: 86
8454706 ATAGTTAAAG
* *
8454716 AGCTTTATTTACTTTTTCAAAGTCGTTAAGCCTCTGATTTGA-AGAGCCTTATTTATTTTTAAAA
1 AGCTTTATTTA-TTTTTCAAAGTCGTTAAGCCTCTGATTAGAGA-AGCCTTATTTATTTTCAAAA
*
8454780 GTCATTGAGCCTCTGCTAAGATA
64 GTCATTGAGCCTCTGATAAGATA
*
8454803 AGCTTTATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGAAGCCTTATTTATTTTCCAAAG
1 AGCTTTATTTA-TTTTTCAAAGTCGTTAAGCCTCTGATTAGAGAAGCCTTATTTATTTTCAAAAG
* * * *
8454868 TTATTGAGCCTTTGATTAGATG
65 TCATTGAGCCTCTGATAAGATA
*
8454890 AGCCTTATTTATTTTTCAAA
1 AGCTTTATTTATTTTTCAAA
8454910 AATCATTGAT
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 9 0.09
87 86 0.90
88 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (86 bp):
AGCTTTATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGAGAAGCCTTATTTATTTTCAAAAGT
CATTGAGCCTCTGATAAGATA
Found at i:8454835 original size:44 final size:43
Alignment explanation
Indices: 8454720--8454909 Score: 220
Period size: 43 Copynumber: 4.4 Consensus size: 43
8454710 TTAAAGAGCT
* *
8454720 TTATTTACTTTTTCAAAGTCGTTAAGCCTCTGATTTGA-AGAGCC
1 TTATTTA-TTTTTCAAAGTCATTAAGCCTCTGATTAGATA-AGCC
* * * * *
8454764 TTATTTATTTTTAAAAGTCATTGAGCCTCTGCTAAGATAAGCT
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTGATTAGATAAGCC
* *
8454807 TTATTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAGAAGCC
1 TTATTTA-TTTTTCAAAGTCATTAAGCCTCTGATTAGATAAGCC
* * * * *
8454851 TTATTTATTTTCCAAAGTTATTGAGCCTTTGATTAGATGAGCC
1 TTATTTATTTTTCAAAGTCATTAAGCCTCTGATTAGATAAGCC
8454894 TTATTTATTTTTCAAA
1 TTATTTATTTTTCAAA
8454910 AATCATTGAT
Statistics
Matches: 122, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
43 78 0.64
44 44 0.36
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (43 bp):
TTATTTATTTTTCAAAGTCATTAAGCCTCTGATTAGATAAGCC
Found at i:8455212 original size:12 final size:12
Alignment explanation
Indices: 8455195--8455222 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8455185 TAAGCTTTTA
8455195 TTTTATTTTATT
1 TTTTATTTTATT
8455207 TTTTATTTTATT
1 TTTTATTTTATT
8455219 TTTT
1 TTTT
8455223 GGTTTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:8455228 original size:13 final size:13
Alignment explanation
Indices: 8455195--8455236 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
8455185 TAAGCTTTTA
8455195 TTTT-ATTTTATT
1 TTTTGATTTTATT
8455207 TTTT-ATTTTATT
1 TTTTGATTTTATT
* *
8455219 TTTTGGTTTTATC
1 TTTTGATTTTATT
8455232 TTTTG
1 TTTTG
8455237 TTAATTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTGATTTTATT
Found at i:8455357 original size:17 final size:15
Alignment explanation
Indices: 8455335--8455377 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8455325 TGTTAGGATA
8455335 ATAATAAGAAAATAATG
1 ATAATAA-AAAA-AATG
8455352 ATAATAAAAAAAATG
1 ATAATAAAAAAAATG
*
8455367 AAAAATAAAAA
1 -ATAATAAAAA
8455378 TAATAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 13 0.54
17 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (15 bp):
ATAATAAAAAAAATG
Found at i:8456661 original size:50 final size:51
Alignment explanation
Indices: 8456607--8456708 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 51
8456597 AAAATAGACT
*
8456607 TTTTAAATAGACCAAAATGGT-GAAAAATTTAGAAATAAAAA-AATAAAAAA
1 TTTTAAATAGACCAAAATGATAG-AAAATTTAGAAATAAAAAGAATAAAAAA
* * * *
8456657 TTTTAAATTGGCCCAAATGATAGAAAATTTAGAAATAAAAAGATTAAAAAA
1 TTTTAAATAGACCAAAATGATAGAAAATTTAGAAATAAAAAGAATAAAAAA
8456708 T
1 T
8456709 AAAAATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 35 0.78
51 10 0.22
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (51 bp):
TTTTAAATAGACCAAAATGATAGAAAATTTAGAAATAAAAAGAATAAAAAA
Found at i:8459365 original size:16 final size:17
Alignment explanation
Indices: 8459344--8459375 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8459334 AGTGATGATA
8459344 AAAATATCAT-ATATAC
1 AAAATATCATAATATAC
8459360 AAAATATCATAATATA
1 AAAATATCATAATATA
8459376 AGCATATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATCATAATATAC
Found at i:8459955 original size:361 final size:359
Alignment explanation
Indices: 8458949--8460019 Score: 1592
Period size: 362 Copynumber: 3.0 Consensus size: 359
8458939 TACTGAACTG
* * * *
8458949 GATTCAACACTGGCACTTTGATTAAGTGATGATAGAAATGCCATATATACAAAATATTATAATAT
1 GATTCAGCACTGACACTTTGCTTAAGTGATGATAGAAATGCCATATATACAAAATATCATAATAT
8459014 AAGCATATTAGAAACAGGGGAATTATGAGCAAAAACATTTAAAATTTTTCATAGTTTTTGTATGA
66 AAGCATATTAGAAACA-GGGAATTATGAGCAAAAACATTTAAAATTTTTCATAGTTTTTGTATGA
*
8459079 ATTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCCATCCCAATTA
130 ATTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCTATCCCAATTA
*
8459144 TTAAGGAAAGTTCTCATGAATTCATCTATTTTTGGCAAAAGTTG-TATTTTGATCATGACGTGGC
195 TTAAGGAAAGTT-TCATGAATTCATCTATTTTTGGCAAAAGTTGCT-TTTTGATCATGGCGTGGC
* * * *
8459208 TAATGAGGGCAAACAAAGCTCCTTTCATTTGCTTATGAATGTAGCCATGGACTGCTGCAATGTTG
258 TAATGAGGGCAAATAGAGCTCCTTTCATTTGCTTATGAATGGAGCCATGGACTGCTACAATGTTG
* * *
8459273 CATTTTTTTAAGATATCTAACTTATGGCAGATCCAGA
323 CATTTTCTCAAGATATCTAACTTATGGCAGATCAAGA
* **
8459310 GATTCAGCACT-AGCACTTTGCTTAAGTGATGATAAAAATATCATATATACAAAATATCATAATA
1 GATTCAGCACTGA-CACTTTGCTTAAGTGATGATAGAAATGCCATATATACAAAATATCATAATA
* * *
8459374 TAAGCATATTAGAAATAGGGAAATTATGAGCAAAAACATTTAAAAATTTTTCATAATTTTTCTAT
65 TAAGCATATTAGAAACAGGG-AATTATGAGCAAAAACATTT-AAAATTTTTCATAGTTTTTGTAT
* ** * *
8459439 GAATTTTAATTTCGTACAAATTTTTTTGGTCTTTTCTTGTATGTTAATGACTTTGTTATCCCAAT
128 GAATTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCTATCCCAAT
* * *
8459504 TATTAAGGAAAGTACTCGTGAATGT-ATCTATTTTTGGCAAAAGTTGCTTTTTGATCATGGCATG
193 TATTAAGGAAAGT-TTCATGAAT-TCATCTATTTTTGGCAAAAGTTGCTTTTTGATCATGGCGTG
* * * *
8459568 GCTAATAAGGGCAAATAGATCTCCTTTCATTTGCTTATGAATGGGGCCATGGACTG-TCACAATA
256 GCTAATGAGGGCAAATAGAGCTCCTTTCATTTGCTTATGAATGGAGCCATGGACTGCT-ACAATG
** * * ** *
8459632 TTTTATTTTCCCAAGATATCTAGCTTATGGTGGATTAAGA
320 TTGCATTTTCTCAAGATATCTAACTTATGGCAGATCAAGA
* *
8459672 GATTCAGCACTGACACTTTGCTTAAGTGATGATAGAAATGCCATATATACAAAATATCATTATAG
1 GATTCAGCACTGACACTTTGCTTAAGTGATGATAGAAATGCCATATATACAAAATATCATAATAT
* *
8459737 AAGCATATTAGAAACATGGGAATTATAAGCAAAATCATTTAAAATTTTTCATAGTTTTTGTATGA
66 AAGCATATTAGAAACA-GGGAATTATGAGCAAAAACATTTAAAATTTTTCATAGTTTTTGTATGA
8459802 ATTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCTATCCCAATTA
130 ATTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCTATCCCAATTA
* *
8459867 TTAAGGAAAGCTTTCATGAATTCATCTATTTTTGGCAAAAGTTGCTCTTTGATCATGGTGTGGCT
195 TTAAGGAAAG-TTTCATGAATTCATCTATTTTTGGCAAAAGTTGCTTTTTGATCATGGCGTGGCT
* *
8459932 AATGTGGGCAAATAGAGCTCCTTTCATTTGCTTATGAATAGAGCCATGGACTGCTACAATGTTGC
259 AATGAGGGCAAATAGAGCTCCTTTCATTTGCTTATGAATGGAGCCATGGACTGCTACAATGTTGC
*
8459997 ATTTTCTCAAGATATCTATCTTA
324 ATTTTCTCAAGATATCTAACTTA
8460020 CAGTGGATCC
Statistics
Matches: 630, Mismatches: 68, Indels: 24
0.87 0.09 0.03
Matches are distributed among these distances:
360 4 0.01
361 308 0.49
362 312 0.50
363 6 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (359 bp):
GATTCAGCACTGACACTTTGCTTAAGTGATGATAGAAATGCCATATATACAAAATATCATAATAT
AAGCATATTAGAAACAGGGAATTATGAGCAAAAACATTTAAAATTTTTCATAGTTTTTGTATGAA
TTTTAATTTCATACAAACCTCTTTGGTCTTTTCTTGTATGTTAATGACTTTGCTATCCCAATTAT
TAAGGAAAGTTTCATGAATTCATCTATTTTTGGCAAAAGTTGCTTTTTGATCATGGCGTGGCTAA
TGAGGGCAAATAGAGCTCCTTTCATTTGCTTATGAATGGAGCCATGGACTGCTACAATGTTGCAT
TTTCTCAAGATATCTAACTTATGGCAGATCAAGA
Found at i:8463122 original size:18 final size:18
Alignment explanation
Indices: 8463086--8463140 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
8463076 ATGTTGATGA
**
8463086 TGAGGGTAATACTGGTGG
1 TGAGGGTAATACTAATGG
*
8463104 TGAGGGTAATGCTAATGG
1 TGAGGGTAATACTAATGG
* * *
8463122 TGAAGGTAACACTAGTGG
1 TGAGGGTAATACTAATGG
8463140 T
1 T
8463141 AAGAGTAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.38, T:0.27
Consensus pattern (18 bp):
TGAGGGTAATACTAATGG
Found at i:8463167 original size:18 final size:18
Alignment explanation
Indices: 8463141--8463189 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
8463131 CACTAGTGGT
8463141 AAGAGTAATGTTGGTGCTA
1 AAGA-TAATGTTGGTGCTA
** * *
8463160 AAGATAATGAAGGTGTTG
1 AAGATAATGTTGGTGCTA
8463178 AAGATAATGTTG
1 AAGATAATGTTG
8463190 TAAGTGAAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.31, T:0.31
Consensus pattern (18 bp):
AAGATAATGTTGGTGCTA
Found at i:8466101 original size:24 final size:24
Alignment explanation
Indices: 8466056--8466107 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8466046 ATTATACTTC
* * *
8466056 ATTTAGGTTCAACTAGATTGAAGTT
1 ATTTAGGTTAAACCAGAATGAA-TT
8466081 ATTT-GGTTAAACCAGAATGAATT
1 ATTTAGGTTAAACCAGAATGAATT
8466104 ATTT
1 ATTT
8466108 TTTGGCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (24 bp):
ATTTAGGTTAAACCAGAATGAATT
Found at i:8467472 original size:68 final size:68
Alignment explanation
Indices: 8467394--8467535 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 68
8467384 ATATTAAGTT
* * *
8467394 AAATATATTATTAAATTCCTTCAATCAAACCTATTAACAACTGATATATTCTATTTTGATAAGCA
1 AAATAAATTATTAAATTCCTTCAATCAAACCAATTAACAACTGATATATTCTACTTTGATAAGCA
8467459 CAA
66 CAA
*
8467462 AAATAAATTATTAAATTCCTTCAATCAAACCAATTAACAACTGATATATTCTCCTTTGATAAGCA
1 AAATAAATTATTAAATTCCTTCAATCAAACCAATTAACAACTGATATATTCTACTTTGATAAGCA
8467527 CAA
66 CAA
8467530 AAATAA
1 AAATAA
8467536 CAAAAGTAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (68 bp):
AAATAAATTATTAAATTCCTTCAATCAAACCAATTAACAACTGATATATTCTACTTTGATAAGCA
CAA
Found at i:8473569 original size:17 final size:18
Alignment explanation
Indices: 8473544--8473577 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8473534 TTTAATTAGA
8473544 TTTAATTTAA-TTGATTT
1 TTTAATTTAATTTGATTT
*
8473561 TTTATTTTAATTTGATT
1 TTTAATTTAATTTGATT
8473578 AGTACACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAATTTAATTTGATTT
Found at i:8473599 original size:14 final size:14
Alignment explanation
Indices: 8473580--8473609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8473570 ATTTGATTAG
*
8473580 TACACATGGACATA
1 TACACATGAACATA
8473594 TACACATGAACATA
1 TACACATGAACATA
8473608 TA
1 TA
8473610 AAATTCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (14 bp):
TACACATGAACATA
Found at i:8482224 original size:16 final size:17
Alignment explanation
Indices: 8482193--8482225 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8482183 AAATAATTTA
*
8482193 AAATTTTTATTATATAT
1 AAATTTTAATTATATAT
8482210 AAATTTTAATT-TATAT
1 AAATTTTAATTATATAT
8482226 TCTTAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATTTTAATTATATAT
Found at i:8482340 original size:21 final size:21
Alignment explanation
Indices: 8482312--8482367 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
8482302 ACTGTCGATT
8482312 TTAATTTTATTATTATAAT-A
1 TTAATTTTATTATTATAATAA
**
8482332 TTCAATTTTATCGTTATAATAA
1 TT-AATTTTATTATTATAATAA
8482354 TTAATTTTATTATT
1 TTAATTTTATTATT
8482368 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TTAATTTTATTATTATAATAA
Found at i:8482804 original size:2 final size:2
Alignment explanation
Indices: 8482797--8482833 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8482787 CAATATTGCT
*
8482797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8482834 CAATTACATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8485335 original size:29 final size:28
Alignment explanation
Indices: 8485291--8485349 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
8485281 AAATTAAATA
** *
8485291 TTATATTTTGATTTTGTTATTTACTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
8485319 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
8485348 TT
1 TT
8485350 TGCTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:8485445 original size:27 final size:28
Alignment explanation
Indices: 8485417--8485468 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
8485407 ATTAATTTAT
* *
8485417 TTTTATTT-TTGTGTAAT-TATTGAATA
1 TTTTATTTATTATATAATATATTGAATA
8485443 TTTTATTTATTATATAATATATTGAA
1 TTTTATTTATTATATAATATATTGAA
8485469 AGTAATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 7 0.32
28 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (28 bp):
TTTTATTTATTATATAATATATTGAATA
Found at i:8486029 original size:20 final size:20
Alignment explanation
Indices: 8485991--8486029 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8485981 TATATTATTG
*
8485991 TTAATTCTTTTACTATTATA
1 TTAATTCTTTTAATATTATA
8486011 TTAATTCTTATTAAT-TTAT
1 TTAATTCTT-TTAATATTAT
8486030 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAATTCTTTTAATATTATA
Found at i:8489572 original size:36 final size:36
Alignment explanation
Indices: 8489532--8489601 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
8489522 GTTATTATCC
* * * *
8489532 ACCACAAATGTATCCTCCATCTCAAATGTATCATTT
1 ACCACAAATATATCCCCCACCACAAATGTATCATTT
8489568 ACCACAAATATATCCCCCACCACAAATGTATCAT
1 ACCACAAATATATCCCCCACCACAAATGTATCAT
8489602 CCTCAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (36 bp):
ACCACAAATATATCCCCCACCACAAATGTATCATTT
Found at i:8489575 original size:18 final size:18
Alignment explanation
Indices: 8489528--8489603 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 18
8489518 TATGGTTATT
8489528 ATCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
* * *
8489546 CTCCATCTCAAATGTATC
1 ATCCACCACAAATGTATC
** *
8489564 ATTTACCACAAATATATC
1 ATCCACCACAAATGTATC
**
8489582 CCCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
8489600 ATCC
1 ATCC
8489604 TCAAATATAT
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.36, C:0.34, G:0.04, T:0.26
Consensus pattern (18 bp):
ATCCACCACAAATGTATC
Found at i:8489614 original size:33 final size:35
Alignment explanation
Indices: 8489532--8489614 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 35
8489522 GTTATTATCC
* * * *
8489532 ACCACAAATGTATCCTCCATCTCAAATGTATCATTT
1 ACCACAAATATATCCCCCACCACAAATGTATCA-TT
8489568 ACCACAAATATATCCCCCACCACAAATGTATCA-T
1 ACCACAAATATATCCCCCACCACAAATGTATCATT
*
8489602 -CCTCAAATATATC
1 ACCACAAATATATC
8489615 ATCTACCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 12 0.29
34 1 0.02
36 29 0.69
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (35 bp):
ACCACAAATATATCCCCCACCACAAATGTATCATT
Found at i:8491402 original size:10 final size:10
Alignment explanation
Indices: 8491387--8491419 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8491377 TCTTGATCTG
8491387 AAAAAAAAA-
1 AAAAAAAAAC
8491396 AAAAAAAAAC
1 AAAAAAAAAC
*
8491406 AAAACAAAAC
1 AAAAAAAAAC
8491416 AAAA
1 AAAA
8491420 TCAAGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:8492424 original size:29 final size:29
Alignment explanation
Indices: 8492369--8492424 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
8492359 AAAGTGTATG
* * *
8492369 AAAGCAAATTATTATAAATACTTCAACTT
1 AAAGCAAATTATCAAAAATAATTCAACTT
8492398 AAAGCAAATT-TCAAAAATAATTACAAC
1 AAAGCAAATTATCAAAAATAATT-CAAC
8492425 ATTTCTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAGCAAATTATCAAAAATAATTCAACTT
Found at i:8492782 original size:25 final size:25
Alignment explanation
Indices: 8492748--8492802 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
8492738 TACTTTACGA
* *
8492748 CATCTCACTACTCTTGGTGTGTTTT
1 CATCCCACTACTCTTGGTGTATTTT
8492773 CATCCCACTACTCTTGGTGTATTTT
1 CATCCCACTACTCTTGGTGTATTTT
8492798 CATCC
1 CATCC
8492803 AAATACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.13, T:0.44
Consensus pattern (25 bp):
CATCCCACTACTCTTGGTGTATTTT
Found at i:8494317 original size:9 final size:9
Alignment explanation
Indices: 8494291--8494367 Score: 61
Period size: 9 Copynumber: 8.3 Consensus size: 9
8494281 ATTATCTCTG
8494291 TCTTTCTTC
1 TCTTTCTTC
8494300 TCCCGTTTCTTC
1 T--C-TTTCTTC
8494312 TCTTTCTTC
1 TCTTTCTTC
* *
8494321 TCTCTCTTT
1 TCTTTCTTC
8494330 TCTTTCTTC
1 TCTTTCTTC
8494339 -CTTTCTT-
1 TCTTTCTTC
*
8494346 TCTTGGCCTTC
1 TCTT--TCTTC
8494357 T-TTTCTTC
1 TCTTTCTTC
8494365 TCT
1 TCT
8494368 CTGAATCTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
8 15 0.28
9 23 0.43
10 6 0.11
11 2 0.04
12 8 0.15
ACGTcount: A:0.00, C:0.34, G:0.04, T:0.62
Consensus pattern (9 bp):
TCTTTCTTC
Found at i:8495140 original size:2 final size:2
Alignment explanation
Indices: 8495133--8495163 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8495123 GGATACAAAA
*
8495133 TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8495164 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:8495652 original size:2 final size:2
Alignment explanation
Indices: 8495645--8495690 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8495635 AGATCCAGAA
8495645 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8495687 AG AG
1 AG AG
8495691 GCCTTGGATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8496122 original size:2 final size:2
Alignment explanation
Indices: 8496115--8496142 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8496105 GTTATTCTCA
8496115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8496143 CCTAATTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8499658 original size:129 final size:129
Alignment explanation
Indices: 8499524--8499801 Score: 294
Period size: 129 Copynumber: 2.1 Consensus size: 129
8499514 AGTTGTTGCA
* * * *
8499524 AAAACTTATTTTATTTGTAATGATTGTTTAATA-TCGTTGTTTAAATTATTTTATAATATTTTAT
1 AAAACTT-TTTTATTTGCAATAATTGTTTAA-AGCCGTTGCTTAAATTATTTTATAATATTTTAT
* ** * *
8499588 GCAATAACAAA-AAA-TTATTATGAAAAATTTTATCACATTTGTAATGACAATAAAAAGTTATTG
64 ACAATAACAAATAAAGTTATTACAAAAAATTTTATAACATTTGCAA-GACAATAAAAAGTTATTG
8499651 TGT
128 T-T
* * * *
8499654 -AAACTTTTATTATTTGCAATAATTTTTTAAAGCCGTTGCTTAATTTATTTTTTACTATTTTATA
1 AAAACTTTT-TTATTTGCAATAATTGTTTAAAGCCGTTGCTTAAATTATTTTATAATATTTTATA
* * ** ** *
8499718 CAATGACAAATAAAGTTGTTACAAAAAATTTTATAATTTTTGCAAGACAATATCAAGTTGTTGTT
65 CAATAACAAATAAAGTTATTACAAAAAATTTTATAACATTTGCAAGACAATAAAAAGTTATTGTT
8499783 AAAACTTGTTTTATTTGCA
1 AAAACTT-TTTTATTTGCA
8499802 TCTATTTTTC
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
128 3 0.02
129 60 0.49
130 34 0.28
131 25 0.20
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (129 bp):
AAAACTTTTTTATTTGCAATAATTGTTTAAAGCCGTTGCTTAAATTATTTTATAATATTTTATAC
AATAACAAATAAAGTTATTACAAAAAATTTTATAACATTTGCAAGACAATAAAAAGTTATTGTT
Found at i:8499919 original size:132 final size:129
Alignment explanation
Indices: 8499693--8499983 Score: 314
Period size: 132 Copynumber: 2.2 Consensus size: 129
8499683 AAGCCGTTGC
* * * * *
8499693 TTAATTTATTTTTTACTATTTTATACAATGACAAATAAAGTTGTTACAAAAAATTTTATAATTTT
1 TTAAATTATTTTTTAATATTTTATACAACGACAAAAAAAGTTGTTA-AAAAAATTTTATAATATT
* * * ** * * *
8499758 TGCAAGACAATATCAAGTTGTTGTTAAAACTTGTTTTATTTGCATCTATTTTTCAATGTCATTAA
65 TGCAAAACAACATCAAGATGTTGCAAAAACTTGTTTTATTTGCAACAATTTGTCAATGTCATTAA
* * *
8499823 TTAAATTATTTTCTTAATATTTTATATAACGACAACAAAAAGTTGTT-AAAGAATTCTTATACTA
1 TTAAATTATTTT-TTAATATTTTATACAACGACAA-AAAAAGTTGTTAAAAAAATT-TTATAATA
* **
8499887 TTTGTAACAACAACATCAAGATGTTGCAAAAACTTGTTTTATTTGCAACAATTTGTCAATGTTGT
63 TTTGCAA-AACAACATCAAGATGTTGCAAAAACTTGTTTTATTTGCAACAATTTGTCAATGTCAT
*
8499952 TAC
127 TAA
* * *
8499955 TTAATTTAATTTTTCAATATCTTATACAA
1 TTAAATT-ATTTTTTAATATTTTATACAA
8499984 TGACTTAAAA
Statistics
Matches: 132, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
130 18 0.14
131 31 0.23
132 78 0.59
133 5 0.04
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (129 bp):
TTAAATTATTTTTTAATATTTTATACAACGACAAAAAAAGTTGTTAAAAAAATTTTATAATATTT
GCAAAACAACATCAAGATGTTGCAAAAACTTGTTTTATTTGCAACAATTTGTCAATGTCATTAA
Found at i:8511370 original size:9 final size:10
Alignment explanation
Indices: 8511346--8511370 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8511336 GTAGTTGCTT
8511346 CTTTTTTATC
1 CTTTTTTATC
8511356 CTTTTTTATC
1 CTTTTTTATC
8511366 CTTTT
1 CTTTT
8511371 GTGGCTGTGG
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:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTTTTTATC
Found at i:8514682 original size:13 final size:13
Alignment explanation
Indices: 8514658--8514694 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
8514648 TAATATAAAA
8514658 TAAATT-AAAATT
1 TAAATTAAAAATT
8514670 TAAATTAAAAATT
1 TAAATTAAAAATT
8514683 TAAATTAAAAAT
1 TAAATTAAAAAT
8514695 ATATATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.25
13 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTAAAAATT
Found at i:8515738 original size:11 final size:12
Alignment explanation
Indices: 8515716--8515744 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8515706 ATATAAATAA
8515716 ATAAATAGAATT
1 ATAAATAGAATT
8515728 ATAAA-AGAATT
1 ATAAATAGAATT
8515739 ATAAAT
1 ATAAAT
8515745 TTGTTTGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
ATAAATAGAATT
Found at i:8515913 original size:18 final size:18
Alignment explanation
Indices: 8515866--8515911 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
8515856 ATAAGCAAAT
8515866 TAATAAAAAAAATAAACA
1 TAATAAAAAAAATAAACA
*
8515884 -AACAAAAAAAATAAA-A
1 TAATAAAAAAAATAAACA
8515900 TAATAAAAAAAA
1 TAATAAAAAAAA
8515912 ATTGATCGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (18 bp):
TAATAAAAAAAATAAACA
Found at i:8516560 original size:23 final size:27
Alignment explanation
Indices: 8516527--8516584 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 27
8516517 TTTTCTAGCC
8516527 AAAAATGTCTTA-AA-TAATCCC-AAA
1 AAAAATGTCTTATAAGTAATCCCTAAA
8516551 AAAAAT-TCTTATAAGTAATCCCTAAA
1 AAAAATGTCTTATAAGTAATCCCTAAA
8516577 AACAAATG
1 AA-AAATG
8516585 CTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.17
24 8 0.28
25 7 0.24
26 5 0.17
27 4 0.14
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAAATGTCTTATAAGTAATCCCTAAA
Found at i:8517927 original size:28 final size:29
Alignment explanation
Indices: 8517896--8517950 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
8517886 TTTAAGTCAT
*
8517896 ATTTAACTATTATTTTA-TAATTTTTATA
1 ATTTAACTATAATTTTATTAATTTTTATA
* * *
8517924 ATTTTATTATAATTTTATTTATTTTTA
1 ATTTAACTATAATTTTATTAATTTTTA
8517951 AAATAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTTAACTATAATTTTATTAATTTTTATA
Found at i:8517935 original size:11 final size:11
Alignment explanation
Indices: 8517910--8517942 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
8517900 AACTATTATT
8517910 TTATAA-TTT-
1 TTATAATTTTA
8517919 TTATAATTTTA
1 TTATAATTTTA
8517930 TTATAATTTTA
1 TTATAATTTTA
8517941 TT
1 TT
8517943 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 3 0.14
11 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATAATTTTA
Found at i:8533334 original size:2 final size:2
Alignment explanation
Indices: 8533327--8533392 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
8533317 CTTCATCAAT
8533327 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8533369 TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC
8533393 CTTTTAGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8534757 original size:13 final size:12
Alignment explanation
Indices: 8534727--8534757 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
8534717 TAAATTAACA
8534727 TAAATTTTTTAT
1 TAAATTTTTTAT
8534739 TAAATTTTTTAT
1 TAAATTTTTTAT
8534751 TATAATT
1 TA-AATT
8534758 ATAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAAATTTTTTAT
Found at i:8534790 original size:6 final size:6
Alignment explanation
Indices: 8534749--8534774 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8534739 TAAATTTTTT
8534749 ATTATA ATTATA ATTATA ATTATA AT
1 ATTATA ATTATA ATTATA ATTATA AT
8534775 AAATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:8538625 original size:16 final size:16
Alignment explanation
Indices: 8538604--8538634 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8538594 CTTAAAATTG
8538604 TAATTATTTTATATTA
1 TAATTATTTTATATTA
8538620 TAATTATTTTATATT
1 TAATTATTTTATATT
8538635 TTTAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTATTTTATATTA
Found at i:8550874 original size:31 final size:31
Alignment explanation
Indices: 8550836--8550896 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
8550826 ATTATCATAT
8550836 AATTTATAAATTTATACATTCATTTCAACAA
1 AATTTATAAATTTATACATTCATTTCAACAA
8550867 AATTTATAAATTTATACATTCATTTCAACA
1 AATTTATAAATTTATACATTCATTTCAACA
8550897 GTTTACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (31 bp):
AATTTATAAATTTATACATTCATTTCAACAA
Found at i:8559360 original size:26 final size:26
Alignment explanation
Indices: 8559331--8559380 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
8559321 TATGAACGTA
8559331 AAAATAAAA-TGATAGTATAATAAATT
1 AAAATAAAACTGATA-TATAATAAATT
*
8559357 AAAATAAAACTTATATATAATAAA
1 AAAATAAAACTGATATATAATAAA
8559381 AATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAATAAAACTGATATATAATAAATT
Found at i:8574121 original size:10 final size:9
Alignment explanation
Indices: 8574108--8574142 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
8574098 TTAAAATATG
8574108 AAAAAAATA
1 AAAAAAATA
8574117 AAAAAAATA
1 AAAAAAATA
8574126 AAAAAAATGA
1 AAAAAAAT-A
8574136 AAAAAAA
1 AAAAAAA
8574143 AACTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:8574977 original size:3 final size:3
Alignment explanation
Indices: 8574922--8574961 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8574912 CATAAACGTA
8574922 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8574962 TACTATAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8575007 original size:15 final size:14
Alignment explanation
Indices: 8574925--8575008 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
8574915 AAACGTAAAT
*
8574925 AATAATAATAATAAT
1 AATAAT-ATAATAAC
*
8574940 AATAATAATAATAAT
1 AATAAT-ATAATAAC
* *
8574955 AATAATATACTATAG
1 AATAATATAATA-AC
* *
8574970 TATAATA-AATACAA
1 AATAATATAATA-AC
*
8574984 AATACTATAATAAC
1 AATAATATAATAAC
8574998 ATATAATATAA
1 A-ATAATATAA
8575009 GGTATTATAC
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
14 16 0.29
15 40 0.71
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (14 bp):
AATAATATAATAAC
Found at i:8585812 original size:29 final size:30
Alignment explanation
Indices: 8585739--8585850 Score: 94
Period size: 28 Copynumber: 3.9 Consensus size: 30
8585729 CTTCTTCGAA
* *
8585739 ATATATAAAAAAAATATAT-TTTAT-TATTT
1 ATAT-TAATAAAAATATATATTTATATACTT
* * * *
8585768 ATATTTATATATATATATGTTTATATA-TT
1 ATATTAATAAAAATATATATTTATATACTT
*
8585797 ATATTAATAAAAATAT-TATTTA-ATACTC
1 ATATTAATAAAAATATATATTTATATACTT
8585825 A-ATTTAATAAAAAT-TATATTTATATA
1 ATA-TTAATAAAAATATATATTTATATA
8585851 TAATTAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
27 5 0.07
28 34 0.50
29 27 0.40
30 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTAATAAAAATATATATTTATATACTT
Found at i:8585854 original size:22 final size:22
Alignment explanation
Indices: 8585828--8585878 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
8585818 AATACTCAAT
8585828 TTAATAAAAATTAT-ATTTATA
1 TTAATAAAAATTATAATTTATA
*
8585849 TATAAT-TAAATTATAATTTATA
1 T-TAATAAAAATTATAATTTATA
8585871 TTAA-AAAA
1 TTAATAAAA
8585879 TAAATCATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATAAAAATTATAATTTATA
Found at i:8587068 original size:32 final size:29
Alignment explanation
Indices: 8586994--8587071 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
8586984 AATAAAATAT
**
8586994 TTAATATAATATTTAAATTTAAAATTTTT
1 TTAATATAATATTTAAATTTAAAATTTAA
*
8587023 TTAATATAATATTTAAATTATGAATATTTAAA
1 TTAATATAATATTTAAATT-T-AAAATTT-AA
*
8587055 TTAATATATTATTTAAA
1 TTAATATAATATTTAAA
8587072 AAATTATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.45
30 1 0.02
31 6 0.14
32 16 0.38
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TTAATATAATATTTAAATTTAAAATTTAA
Found at i:8587201 original size:12 final size:12
Alignment explanation
Indices: 8587184--8587208 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8587174 TTAAAAATTA
8587184 AAATATTATATT
1 AAATATTATATT
8587196 AAATATTATATT
1 AAATATTATATT
8587208 A
1 A
8587209 TAATTTAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATATTATATT
Found at i:8587917 original size:19 final size:19
Alignment explanation
Indices: 8587893--8587930 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8587883 CGGACTTTTG
8587893 GAAAAAAAAAAAAAAAAGA
1 GAAAAAAAAAAAAAAAAGA
*
8587912 GAAAAAAAGAAAAAAAAGA
1 GAAAAAAAAAAAAAAAAGA
8587931 AACCAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAAAAAAAGA
Found at i:8587929 original size:9 final size:9
Alignment explanation
Indices: 8587893--8587932 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
8587883 CGGACTTTTG
8587893 GAAAAAAAA
1 GAAAAAAAA
8587902 -AAAAAAAA
1 GAAAAAAAA
8587910 GAGAAAAAAA
1 GA-AAAAAAA
8587920 GAAAAAAAA
1 GAAAAAAAA
8587929 GAAA
1 GAAA
8587933 CCAATGACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
10 9 0.31
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:8589114 original size:27 final size:26
Alignment explanation
Indices: 8589071--8589131 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
8589061 AATTTTTTAT
*
8589071 TAAATTATTTTTAATCGTAGA-TACAG
1 TAAATTTTTTTTAATCGTA-ATTACAG
*
8589097 TAATTTTTTTTTCAATCGTAATTACAG
1 TAAATTTTTTTT-AATCGTAATTACAG
8589124 TAAATTTT
1 TAAATTTT
8589132 ATTATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (26 bp):
TAAATTTTTTTTAATCGTAATTACAG
Found at i:8590788 original size:30 final size:30
Alignment explanation
Indices: 8590753--8590813 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
8590743 GAAAATTTGA
* *
8590753 AAAATTTTTTTGGATATT-TTTAAATTTTTT
1 AAAATTGTTTTGGAT-TTATTAAAATTTTTT
8590783 AAAATTGTTTTGGATTTATTAAAATTTTTT
1 AAAATTGTTTTGGATTTATTAAAATTTTTT
8590813 A
1 A
8590814 TTTTTCGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (30 bp):
AAAATTGTTTTGGATTTATTAAAATTTTTT
Found at i:8590793 original size:20 final size:19
Alignment explanation
Indices: 8590769--8590813 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8590759 TTTTTGGATA
*
8590769 TTTTTAAATTTTTTAAAAT
1 TTTTTAAATTTATTAAAAT
**
8590788 TGTTTTGGATTTATTAAAAT
1 T-TTTTAAATTTATTAAAAT
8590808 TTTTTA
1 TTTTTA
8590814 TTTTTCGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTATTAAAAT
Found at i:8591771 original size:23 final size:23
Alignment explanation
Indices: 8591745--8591824 Score: 106
Period size: 23 Copynumber: 3.4 Consensus size: 23
8591735 ATTTGATTAA
* * *
8591745 ATTAAATAAATTTATTTACGAAT
1 ATTAAATAAATATATTCATGAAT
*
8591768 ATTAAATAAATATATTCATAAAT
1 ATTAAATAAATATATTCATGAAT
8591791 ATATAAATAAATATATTCATGAAT
1 AT-TAAATAAATATATTCATGAAT
*
8591815 AATAAATAAA
1 ATTAAATAAA
8591825 CTATTATCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 29 0.58
24 21 0.42
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTAAATAAATATATTCATGAAT
Found at i:8591790 original size:12 final size:12
Alignment explanation
Indices: 8591773--8591815 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
8591763 CGAATATTAA
8591773 ATAAATATATTC
1 ATAAATATATTC
**
8591785 ATAAATATATAA
1 ATAAATATATTC
8591797 ATAAATATATTC
1 ATAAATATATTC
*
8591809 ATGAATA
1 ATAAATA
8591816 ATAAATAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAAATATATTC
Found at i:8592531 original size:26 final size:26
Alignment explanation
Indices: 8592482--8592530 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8592472 CAAAAAAAAA
8592482 TTAAAAAAAAATCTTTATCATTTTAC
1 TTAAAAAAAAATCTTTATCATTTTAC
* *
8592508 TTAAAAATAAATTTTTAT-ATTTT
1 TTAAAAAAAAATCTTTATCATTTT
8592531 TTATTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAAAAAAAATCTTTATCATTTTAC
Found at i:8592604 original size:30 final size:30
Alignment explanation
Indices: 8592568--8592662 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
8592558 TTTCATTTAT
8592568 ATTAAGAGATTATTGAAGTATAAATTAAAA
1 ATTAAGAGATTATTGAAGTATAAATTAAAA
*
8592598 ATTAAGAGTTTATTTGAA-TATAAATTAAAA
1 ATTAAGAGATTA-TTGAAGTATAAATTAAAA
* * * *
8592628 TTTAA-AAATTTATT-TAGATATAAAGTAAAA
1 ATTAAGAGA-TTATTGAAG-TATAAATTAAAA
8592658 ATTAA
1 ATTAA
8592663 AAATTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 3 0.06
30 45 0.83
31 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (30 bp):
ATTAAGAGATTATTGAAGTATAAATTAAAA
Found at i:8592663 original size:30 final size:30
Alignment explanation
Indices: 8592586--8592725 Score: 139
Period size: 30 Copynumber: 4.8 Consensus size: 30
8592576 ATTATTGAAG
* *
8592586 TATAAATTAAAAATTAAGAGTTTATTT-GAA
1 TATAAATTAAAAATTAAAAATTTATTTAG-A
*
8592616 TATAAATTAAAATTTAAAAATTTATTTAGA
1 TATAAATTAAAAATTAAAAATTTATTTAGA
*
8592646 TATAAAGTAAAAATTAAAAATTTATTTAGA
1 TATAAATTAAAAATTAAAAATTTATTTAGA
* *
8592676 TAT-AA-T-AAAA-TATAAAATTTATCTAAA
1 TATAAATTAAAAATTA-AAAATTTATTTAGA
* *
8592703 TA-AAATAATAAAATTCAAAATTT
1 TATAAATTA-AAAATTAAAAATTT
8592726 TTTTTTTTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.02
27 20 0.21
28 1 0.01
29 2 0.02
30 67 0.71
31 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (30 bp):
TATAAATTAAAAATTAAAAATTTATTTAGA
Found at i:8592696 original size:23 final size:23
Alignment explanation
Indices: 8592669--8592717 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8592659 TTAAAAATTT
8592669 ATTTAGATATAATAAAAT-ATAAA
1 ATTTAGATA-AATAAAATAATAAA
**
8592692 ATTTATCTAAATAAAATAATAAA
1 ATTTAGATAAATAAAATAATAAA
8592715 ATT
1 ATT
8592718 CAAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
ATTTAGATAAATAAAATAATAAA
Found at i:8606889 original size:14 final size:14
Alignment explanation
Indices: 8606867--8606896 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8606857 GTTAAGGGCT
*
8606867 AATATTCATTAATC
1 AATAGTCATTAATC
8606881 AATAGTCATTAATC
1 AATAGTCATTAATC
8606895 AA
1 AA
8606897 GTAAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (14 bp):
AATAGTCATTAATC
Found at i:8608575 original size:33 final size:34
Alignment explanation
Indices: 8608512--8608576 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
8608502 TTTTTTTCAA
**
8608512 AAAATATATAATTTAAATTATTGATATAATTTTT
1 AAAATATATAATTTAAATTATAAATATAATTTTT
*
8608546 AAAA-ATATAA-TTAAATATATAAATTTAATTT
1 AAAATATATAATTTAAAT-TATAAATATAATTT
8608577 ATGAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.22
33 17 0.63
34 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (34 bp):
AAAATATATAATTTAAATTATAAATATAATTTTT
Found at i:8616072 original size:26 final size:26
Alignment explanation
Indices: 8616036--8616089 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8616026 ATCCTTCCTT
8616036 ATTGTAACTAAGATCCCAGGTTCAAA
1 ATTGTAACTAAGATCCCAGGTTCAAA
8616062 ATTGTAACTAAGATCCCAGGTTCAAA
1 ATTGTAACTAAGATCCCAGGTTCAAA
8616088 AT
1 AT
8616090 ACAGTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
ATTGTAACTAAGATCCCAGGTTCAAA
Found at i:8619190 original size:2 final size:2
Alignment explanation
Indices: 8619183--8619237 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
8619173 TTAATCATTC
** *
8619183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GC AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8619225 CT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT
8619238 CACAACATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8619220 original size:24 final size:24
Alignment explanation
Indices: 8619191--8619241 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
8619181 TCATATATAT
8619191 ATATATATATATATATATATATGCAC
1 ATATATATATATATAT-TATAT-CAC
*
8619217 ATATATATCTATATATTATATCAC
1 ATATATATATATATATTATATCAC
8619241 A
1 A
8619242 ACATACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
25 5 0.21
26 15 0.62
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATATATATATATATTATATCAC
Found at i:8619603 original size:16 final size:16
Alignment explanation
Indices: 8619582--8619622 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
8619572 TGCTTGATAA
8619582 ATATATATATA-TT-T
1 ATATATATATATTTGT
8619596 ATATATATATGATTTGT
1 ATATATATAT-ATTTGT
8619613 ATA-ATATATA
1 ATATATATATA
8619623 GCTGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.42
15 2 0.08
16 8 0.33
17 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATATATATATATTTGT
Found at i:8619970 original size:13 final size:13
Alignment explanation
Indices: 8619916--8619972 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
8619906 TAATTAATCT
8619916 AATATCAGATAAA
1 AATATCAGATAAA
**
8619929 GGTATCAAGATATAA
1 AATATC-AGATA-AA
8619944 AATATCA-A-AAA
1 AATATCAGATAAA
8619955 AATATCAGATAAA
1 AATATCAGATAAA
8619968 AATAT
1 AATAT
8619973 AAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 9 0.25
12 2 0.06
13 13 0.36
14 6 0.17
15 6 0.17
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.25
Consensus pattern (13 bp):
AATATCAGATAAA
Found at i:8621278 original size:17 final size:17
Alignment explanation
Indices: 8621246--8621280 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8621236 ACAACCATGA
**
8621246 AGTATAGATTTTTTTTG
1 AGTATAGATTCATTTTG
8621263 AGTATAGATTCATTTTG
1 AGTATAGATTCATTTTG
8621280 A
1 A
8621281 CGAGTAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (17 bp):
AGTATAGATTCATTTTG
Found at i:8621445 original size:34 final size:34
Alignment explanation
Indices: 8621400--8621494 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 34
8621390 TTTTCTAATA
*
8621400 ATATTAATAATATTATTAAAATATTAAAATTTATT
1 ATATTATTAATATTA-TAAAATATTAAAATTTATT
* *
8621435 -TATTATTAATATT-TAAAAATAATTATATTTTATT
1 ATATTATTAATATTAT-AAAAT-ATTAAAATTTATT
*
8621469 AATAATATTTAATATTA-AAAATATTA
1 -ATATTA-TTAATATTATAAAATATTA
8621495 TGTTAATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
32 1 0.02
33 5 0.10
34 23 0.46
35 4 0.08
36 9 0.18
37 8 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
ATATTATTAATATTATAAAATATTAAAATTTATT
Found at i:8621453 original size:25 final size:27
Alignment explanation
Indices: 8621399--8621485 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
8621389 TTTTTCTAAT
* *
8621399 AATATTAATAATATTATTAAAATATTAA
1 AATATT-ATATTATTATTAATATATTAA
8621427 AAT-TTAT-TTATTATTAATAT-TTAAA
1 AATATTATATTATTATTAATATATT-AA
*
8621452 AATAATTATATT-TTATTAATAATATT-T
1 AAT-ATTATATTATTATTAAT-ATATTAA
8621479 AATATTA
1 AATATTA
8621486 AAAATATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
24 2 0.04
25 16 0.32
26 6 0.12
27 17 0.34
28 7 0.14
29 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATATTATATTATTATTAATATATTAA
Found at i:8621476 original size:14 final size:15
Alignment explanation
Indices: 8621435--8621502 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
8621425 AAAATTTATT
*
8621435 TATTATTAATATTTAA
1 TATTAATAATATTT-A
* * *
8621451 AAATAATTATATTT-
1 TATTAATAATATTTA
8621465 TATTAATAATATTTAA
1 TATTAATAATATTT-A
*
8621481 TATTAAAAATA-TTA
1 TATTAATAATATTTA
*
8621495 TGTTAATA
1 TATTAATA
8621503 TATAAATTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 18 0.45
15 2 0.05
16 20 0.50
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
TATTAATAATATTTA
Found at i:8621493 original size:30 final size:30
Alignment explanation
Indices: 8621401--8621502 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 30
8621391 TTTCTAATAA
*
8621401 TATTAATAATATTATTAAAATATT-AAAATTTATT
1 TATTAATAATA-T-TT--AATATTAAAAATAT-TT
* * * **
8621435 TATTATTAATATTTAAAAATAATTATATTT
1 TATTAATAATATTTAATATTAAAAATATTT
*
8621465 TATTAATAATATTTAATATTAAAAATATTA
1 TATTAATAATATTTAATATTAAAAATATTT
*
8621495 TGTTAATA
1 TATTAATA
8621503 TATAAATTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 37 0.69
31 4 0.07
32 2 0.04
33 1 0.02
34 10 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTAATAATATTTAATATTAAAAATATTT
Found at i:8621776 original size:13 final size:13
Alignment explanation
Indices: 8621758--8621783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8621748 TAAAAATACA
8621758 AAAATTATTTTTT
1 AAAATTATTTTTT
8621771 AAAATTATTTTTT
1 AAAATTATTTTTT
8621784 CCGAAACGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAAATTATTTTTT
Found at i:8632951 original size:20 final size:20
Alignment explanation
Indices: 8632913--8632951 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8632903 TAAATAATTG
* *
8632913 TTTATAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
*
8632933 TTTAAAATTTAAAATTATT
1 TTTAAAATTTAAAACTATT
8632952 TCATTTCAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:8633407 original size:19 final size:20
Alignment explanation
Indices: 8633383--8633428 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
8633373 TTAAAATTTT
* *
8633383 TATTTTTATTATGAT-TTGA
1 TATTTTAATTATAATATTGA
*
8633402 TATTTTAATTATAATATTTA
1 TATTTTAATTATAATATTGA
8633422 TATTTTA
1 TATTTTA
8633429 CATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTAATTATAATATTGA
Found at i:8633601 original size:13 final size:14
Alignment explanation
Indices: 8633583--8633616 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
8633573 ACTTTAAAAT
8633583 TTTTTAATTTA-TA
1 TTTTTAATTTATTA
8633596 TTTTTAA-TTATTA
1 TTTTTAATTTATTA
8633609 TTTTTAAT
1 TTTTTAAT
8633617 AAATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTAATTTATTA
Found at i:8634573 original size:18 final size:18
Alignment explanation
Indices: 8634552--8634586 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8634542 TAATATTTAT
8634552 AAAATTAATAAATTATTA
1 AAAATTAATAAATTATTA
*
8634570 AAAATTATTAAATTATT
1 AAAATTAATAAATTATT
8634587 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTAATAAATTATTA
Found at i:8645383 original size:11 final size:11
Alignment explanation
Indices: 8645357--8645393 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
8645347 AAATCAAATC
*
8645357 AAATAAATAAAT
1 AAATAAA-ATAT
8645369 AAATAAAATAT
1 AAATAAAATAT
8645380 AAATAAAATAT
1 AAATAAAATAT
8645391 AAA
1 AAA
8645394 GAAGATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:8646125 original size:23 final size:23
Alignment explanation
Indices: 8646048--8646125 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
8646038 AAGATACATG
*
8646048 GAGATTTTAAAAAGATCATACC-A
1 GAGATCTT-AAAAGATCATACCTA
* * *
8646071 GGAGAT-TTTATAGATCATACTTA
1 -GAGATCTTAAAAGATCATACCTA
*
8646094 GAGAACTTAAAAGATCATACCTA
1 GAGATCTTAAAAGATCATACCTA
*
8646117 GAGGTCTTA
1 GAGATCTTA
8646126 TAGATTATTC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
22 14 0.33
23 24 0.56
24 5 0.12
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (23 bp):
GAGATCTTAAAAGATCATACCTA
Found at i:8646147 original size:45 final size:45
Alignment explanation
Indices: 8646057--8646147 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
8646047 GGAGATTTTA
* *
8646057 AAAAGATCATACCAGGAGATTTTATAGATCATACTTAGAGAACTT
1 AAAAGATCATACCAGGAGATCTTATAGATCATACTCAGAGAACTT
* * * *
8646102 AAAAGATCATACCTA-GAGGTCTTATAGATTATTCTCAGAGGACTT
1 AAAAGATCATACC-AGGAGATCTTATAGATCATACTCAGAGAACTT
8646147 A
1 A
8646148 GTGATTATGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (45 bp):
AAAAGATCATACCAGGAGATCTTATAGATCATACTCAGAGAACTT
Found at i:8646272 original size:24 final size:24
Alignment explanation
Indices: 8646243--8646298 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
8646233 TACTTGGAGA
8646243 TTTTAAAAAGATCATGCTTA-AAGG
1 TTTTAAAAAGATCATGCTTAGAA-G
*
8646267 TTTT--AAACATCATGCTTAGAAG
1 TTTTAAAAAGATCATGCTTAGAAG
*
8646289 ATTTAAAAAG
1 TTTTAAAAAG
8646299 GTATTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 17 0.65
23 2 0.08
24 7 0.27
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (24 bp):
TTTTAAAAAGATCATGCTTAGAAG
Found at i:8648002 original size:16 final size:16
Alignment explanation
Indices: 8647981--8648023 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
8647971 GAGGTCATCA
8647981 TCTTTTTTTTTTGTTT
1 TCTTTTTTTTTTGTTT
*
8647997 TCTTTTGTTTTTGTTT
1 TCTTTTTTTTTTGTTT
8648013 T-TTTTTTTTTT
1 TCTTTTTTTTTT
8648024 TACAACCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (16 bp):
TCTTTTTTTTTTGTTT
Found at i:8652667 original size:55 final size:52
Alignment explanation
Indices: 8652526--8652720 Score: 171
Period size: 56 Copynumber: 3.6 Consensus size: 52
8652516 TTAATCACGT
* * * *
8652526 TTTTAAAATTATTTTTTGTTTAAGGAAAAATTAATAATTTAACTTTTTCCTCAAA
1 TTTTGAAATTATTTTTTATTTAAGGAAAAATT-CT-ATTTAATTTTTTCCTC-AA
** * *
8652581 TTTTTGAAAAAATTTTTTATTTTAGAAAAAATTCGTATTTCAATTTTTTCCTCAA
1 -TTTTGAAATTATTTTTTATTTAAGGAAAAATTC-TATTT-AATTTTTTCCTCAA
*
8652636 TTTTGAAATTATTGTTTTATTTAAGGGAAAATTAC-ACTTTAACTTTTTT-CTCAA
1 TTTTGAAATTATT-TTTTATTTAAGGAAAAATT-CTA-TTTAA-TTTTTTCCTCAA
* * *
8652690 ATTTGAAATTATTTTCT-TTTAAGGGAAAATT
1 TTTTGAAATTATTTTTTATTTAAGGAAAAATT
8652721 GATAATTTAA
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
52 14 0.12
53 3 0.03
54 31 0.26
55 31 0.26
56 39 0.33
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (52 bp):
TTTTGAAATTATTTTTTATTTAAGGAAAAATTCTATTTAATTTTTTCCTCAA
Found at i:8655181 original size:22 final size:22
Alignment explanation
Indices: 8655141--8655183 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8655131 CACAAAGCAT
*
8655141 AGAACCACAAAACCGCACACAC
1 AGAACCACAAAACCACACACAC
*
8655163 AGAACCACAAAACTACACACA
1 AGAACCACAAAACCACACACA
8655184 TATAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.37, G:0.07, T:0.02
Consensus pattern (22 bp):
AGAACCACAAAACCACACACAC
Found at i:8657909 original size:32 final size:32
Alignment explanation
Indices: 8657855--8657915 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
8657845 ACGTTTTCAA
*
8657855 AAAAATTACAAAAAAAACTA-TTTTAAAATAT
1 AAAAATTAAAAAAAAAACTATTTTTAAAATAT
8657886 AAAAA-TAAAAAATAAAACATATTTTTAAAA
1 AAAAATTAAAAAA-AAAAC-TATTTTTAAAA
8657916 ACCAAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 10 0.38
32 2 0.08
33 8 0.31
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAATTAAAAAAAAAACTATTTTTAAAATAT
Found at i:8664846 original size:12 final size:13
Alignment explanation
Indices: 8664813--8664846 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
8664803 TATTAATTTT
8664813 AAATTATTTATAA
1 AAATTATTTATAA
8664826 AAATATATTT-TAA
1 AAAT-TATTTATAA
8664839 AAATTATT
1 AAATTATT
8664847 AAATTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:8695095 original size:17 final size:18
Alignment explanation
Indices: 8695067--8695101 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8695057 AATTATTTAT
8695067 TATTTATTAATTTATATA
1 TATTTATTAATTTATATA
*
8695085 TATTT-TTAATTTTTATA
1 TATTTATTAATTTATATA
8695102 AAATAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATTAATTTATATA
Found at i:8698518 original size:29 final size:29
Alignment explanation
Indices: 8698463--8698518 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
8698453 ATAAAAATAT
*
8698463 TTATTTAAATTTTAATGACTAAATTAAAA
1 TTATTTAAATTTTAATGAATAAATTAAAA
* *
8698492 TTATTTAATTATTTAAT-AATAATTTAA
1 TTATTTAAAT-TTTAATGAATAAATTAA
8698519 TATGATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TTATTTAAATTTTAATGAATAAATTAAAA
Found at i:8698621 original size:2 final size:2
Alignment explanation
Indices: 8698616--8698655 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8698606 AAAAAGACAC
8698616 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8698656 AGGGAAGCTT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8701145 original size:22 final size:22
Alignment explanation
Indices: 8701120--8701191 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
8701110 TTAACTTTAA
8701120 AAATATTAATAGTGATCGATCT
1 AAATATTAATAGTGATCGATCT
* * ** *
8701142 AAATATTTATAAAT-AT-TTTAT
1 AAATATTAAT-AGTGATCGATCT
8701163 AAATATTAATAGTGATCGATCT
1 AAATATTAATAGTGATCGATCT
8701185 AAATATT
1 AAATATT
8701192 TTTATATGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 20 0.54
23 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (22 bp):
AAATATTAATAGTGATCGATCT
Found at i:8701163 original size:11 final size:11
Alignment explanation
Indices: 8701141--8701169 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8701131 GTGATCGATC
8701141 TAAATA-TTTA
1 TAAATATTTTA
8701151 TAAATATTTTA
1 TAAATATTTTA
8701162 TAAATATT
1 TAAATATT
8701170 AATAGTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAATATTTTA
Found at i:8704544 original size:6 final size:6
Alignment explanation
Indices: 8704533--8704615 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
8704523 TAAATGAGAT
* * *
8704533 AAAATA AAAATA AAGATA AAAGT- AAAATA AGAAAT- -GAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA
* *
8704579 AAGAATA AAGAT- AAAAT- AAAATA AAAATA AAGATA AA
1 AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
8704616 TACAAGGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
4 3 0.05
5 13 0.21
6 36 0.58
7 10 0.16
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:8704608 original size:35 final size:34
Alignment explanation
Indices: 8704533--8704615 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
8704523 TAAATGAGAT
8704533 AAAATAAAAATAAAGATAAAAGTAAAATAAGAAA
1 AAAATAAAAATAAAGATAAAAGTAAAATAAGAAA
**
8704567 TGAATAAAAATAAAGA-ATAAAGATAAAATAA-AATA
1 AAAATAAAAATAAAGATA-AAAG-TAAAATAAGAA-A
*
8704602 AAAATAAAGATAAA
1 AAAATAAAAATAAA
8704616 TACAAGGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 1 0.02
34 20 0.49
35 20 0.49
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (34 bp):
AAAATAAAAATAAAGATAAAAGTAAAATAAGAAA
Found at i:8704967 original size:33 final size:33
Alignment explanation
Indices: 8704930--8705012 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
8704920 AAAAATAATT
*
8704930 ACTTGGATTTAGCCTAAGTTAG-AAAATAAAATG
1 ACTTGGATTTAGCCAAAG-TAGAAAAATAAAATG
* **
8704963 ACTTGGTTTTAATCAAAGTAGAAAAATAAAATG
1 ACTTGGATTTAGCCAAAGTAGAAAAATAAAATG
*
8704996 ACTTGGACTTAGCCAAA
1 ACTTGGATTTAGCCAAA
8705013 AATGATTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (33 bp):
ACTTGGATTTAGCCAAAGTAGAAAAATAAAATG
Found at i:8705014 original size:26 final size:26
Alignment explanation
Indices: 8704984--8705037 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
8704974 ATCAAAGTAG
*
8704984 AAAAATAAAATGACTTGGACTTAGCC
1 AAAAATAAAATGACTTGGACTAAGCC
* **
8705010 AAAAATGATTTGACTTGGACTAAGCC
1 AAAAATAAAATGACTTGGACTAAGCC
8705036 AA
1 AA
8705038 GTCAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (26 bp):
AAAAATAAAATGACTTGGACTAAGCC
Found at i:8705098 original size:33 final size:32
Alignment explanation
Indices: 8705042--8705163 Score: 93
Period size: 33 Copynumber: 3.7 Consensus size: 32
8705032 AGCCAAGTCA
* * * *
8705042 AAAAATGATATGACTTGGTCTTAGTCGAAGTT
1 AAAAATGACATAACTTAGACTTAGTCGAAGTT
* *
8705074 AGAAAATGACATAATTTAGACTTAG-CTAGAGTT
1 A-AAAATGACATAACTTAGACTTAGTCGA-AGTT
* * **
8705107 AAGAAACGAGATGGCTTAGACTTAGTCGAAGTTT
1 AA-AAATGACATAACTTAGACTTAGTCGAAG-TT
* *
8705141 AAAAATGATATAACTTGGACTTA
1 AAAAATGACATAACTTAGACTTA
8705164 ACCAAGGTCG
Statistics
Matches: 68, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
32 4 0.06
33 58 0.85
34 6 0.09
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (32 bp):
AAAAATGACATAACTTAGACTTAGTCGAAGTT
Found at i:8705283 original size:33 final size:33
Alignment explanation
Indices: 8705232--8705332 Score: 109
Period size: 33 Copynumber: 3.1 Consensus size: 33
8705222 GACAGAGTCA
8705232 AAAGTTCAAAAAAT--AATGACTTGGATTTAGCC
1 AAAG-TCAAAAAATAAAATGACTTGGATTTAGCC
* * **
8705264 TAGGTCAAAAAATAAAATGACTTGG-TCTTAATC
1 AAAGTCAAAAAATAAAATGACTTGGAT-TTAGCC
* *
8705297 AAAGTAAAAAAATAAAATGACTTGGACTTAGCC
1 AAAGTCAAAAAATAAAATGACTTGGATTTAGCC
8705330 AAA
1 AAA
8705333 AATGATTTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
31 9 0.16
32 3 0.05
33 43 0.78
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.26
Consensus pattern (33 bp):
AAAGTCAAAAAATAAAATGACTTGGATTTAGCC
Found at i:8705418 original size:33 final size:33
Alignment explanation
Indices: 8705381--8705474 Score: 77
Period size: 33 Copynumber: 2.8 Consensus size: 33
8705371 ATGACTTGGT
*
8705381 CTTAGTCGAAGTTAGAAAATGACATAATTTAGA
1 CTTAGTCAAAGTTAGAAAATGACATAATTTAGA
* * * * *
8705414 CTTAG-CTAGAGTTA-AGAAACGAGATGATTTGGA
1 CTTAGTC-AAAGTTAGA-AAATGACATAATTTAGA
*
8705447 CTTAGTCAAAGTT-GAAAAATGATATAAT
1 CTTAGTCAAAGTTAG-AAAATGACATAAT
8705475 ATGAAAATGA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
32 2 0.04
33 42 0.91
34 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (33 bp):
CTTAGTCAAAGTTAGAAAATGACATAATTTAGA
Found at i:8705435 original size:320 final size:320
Alignment explanation
Indices: 8704873--8705473 Score: 1076
Period size: 320 Copynumber: 1.9 Consensus size: 320
8704863 TTACTTGGAG
* *
8704873 TGAGTTAAAGTTCAAAATGAAATGATTTGGACAGAGTCAAAAGTTTAAAAAATAATTACTTGGAT
1 TGAGTTAAAGTTCAAAATGAAATGATTTGGACAGAGTCAAAAGTTCAAAAAATAATGACTTGGAT
* * * *
8704938 TTAGCCTAAGTTAGAAAATAAAATGACTTGGTTTTAATCAAAGTAGAAAAATAAAATGACTTGGA
66 TTAGCCTAAGTCAAAAAATAAAATGACTTGGTCTTAATCAAAGTAAAAAAATAAAATGACTTGGA
**
8705003 CTTAGCCAAAAATGATTTGACTTGGACTAAGCCAAGTCAAAAAATGATATGACTTGGTCTTAGTC
131 CTTAGCCAAAAATGATTTGACTTAAACTAAGCCAAGTCAAAAAATGATATGACTTGGTCTTAGTC
*
8705068 GAAGTTAGAAAATGACATAATTTAGACTTAGCTAGAGTTAAGAAACGAGATGGCTTAGACTTAGT
196 GAAGTTAGAAAATGACATAATTTAGACTTAGCTAGAGTTAAGAAACGAGATGACTTAGACTTAGT
* *
8705133 CGAAGTTTAAAAATGATATAACTTGGACTTAACCAAGGTCGAAAATGAAAATGACCAACC
261 CAAAGTTGAAAAATGATATAACTTGGACTTAACCAAGGTCGAAAATGAAAATGACCAACC
8705193 TGAGTTAAAGTTCAAAATGAAATGATTTGGACAGAGTCAAAAGTTCAAAAAATAATGACTTGGAT
1 TGAGTTAAAGTTCAAAATGAAATGATTTGGACAGAGTCAAAAGTTCAAAAAATAATGACTTGGAT
*
8705258 TTAGCCTAGGTCAAAAAATAAAATGACTTGGTCTTAATCAAAGTAAAAAAATAAAATGACTTGGA
66 TTAGCCTAAGTCAAAAAATAAAATGACTTGGTCTTAATCAAAGTAAAAAAATAAAATGACTTGGA
8705323 CTTAGCCAAAAATGATTTGACTTAAACTAAGCCAAGTCAAAAAATGATATGACTTGGTCTTAGTC
131 CTTAGCCAAAAATGATTTGACTTAAACTAAGCCAAGTCAAAAAATGATATGACTTGGTCTTAGTC
* *
8705388 GAAGTTAGAAAATGACATAATTTAGACTTAGCTAGAGTTAAGAAACGAGATGATTTGGACTTAGT
196 GAAGTTAGAAAATGACATAATTTAGACTTAGCTAGAGTTAAGAAACGAGATGACTTAGACTTAGT
8705453 CAAAGTTGAAAAATGATATAA
261 CAAAGTTGAAAAATGATATAA
8705474 TATGAAAATG
Statistics
Matches: 267, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
320 267 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (320 bp):
TGAGTTAAAGTTCAAAATGAAATGATTTGGACAGAGTCAAAAGTTCAAAAAATAATGACTTGGAT
TTAGCCTAAGTCAAAAAATAAAATGACTTGGTCTTAATCAAAGTAAAAAAATAAAATGACTTGGA
CTTAGCCAAAAATGATTTGACTTAAACTAAGCCAAGTCAAAAAATGATATGACTTGGTCTTAGTC
GAAGTTAGAAAATGACATAATTTAGACTTAGCTAGAGTTAAGAAACGAGATGACTTAGACTTAGT
CAAAGTTGAAAAATGATATAACTTGGACTTAACCAAGGTCGAAAATGAAAATGACCAACC
Found at i:8705546 original size:32 final size:32
Alignment explanation
Indices: 8705486--8705546 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
8705476 TGAAAATGAT
*
8705486 CAAATTAAGCCAAGGTCGAAAGTAAAGGTAAG
1 CAAATTAAGCCAAGGTCGAAAATAAAGGTAAG
* *
8705518 CAAATTGAA-CCAAGGTTGAAAATGAAGGT
1 CAAATT-AAGCCAAGGTCGAAAATAAAGGT
8705547 GACTAGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (32 bp):
CAAATTAAGCCAAGGTCGAAAATAAAGGTAAG
Found at i:8705572 original size:32 final size:31
Alignment explanation
Indices: 8705519--8705614 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 31
8705509 AAAGGTAAGC
* **
8705519 AAATTGAACCAAGGTTGAAAATGAAGGTGACT
1 AAATTGAGCCAAGGTAAAAAAT-AAGGTGACT
* * * *
8705551 AGATTGAGCCAA-GTAAAAAAATAAGCTAACC
1 AAATTGAGCCAAGGT-AAAAAATAAGGTGACT
*
8705582 AAATTGAGCTAAGGTAAAAAATAACGGTGACT
1 AAATTGAGCCAAGGTAAAAAATAA-GGTGACT
8705614 A
1 A
8705615 TACCGAGTCA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
31 27 0.55
32 22 0.45
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (31 bp):
AAATTGAGCCAAGGTAAAAAATAAGGTGACT
Found at i:8705693 original size:58 final size:58
Alignment explanation
Indices: 8705631--8705777 Score: 190
Period size: 58 Copynumber: 2.5 Consensus size: 58
8705621 GTCAAGGTTG
* * *
8705631 AAAATGACTTGGTTTAAGCCTAAGTCAAAATGAAGATGAC-CGTACTAAGCTAAAG-TAA
1 AAAATGACTTGGTTTAAGCTTAAGTCAAAATGAAAATGACAAG-ACTAAGC-AAAGATAA
* * ** *
8705689 AAAATGACTTAGTTTGAGCTTAAGTTTAAATGAAAATGACAAGACTAAGCCAAGATAA
1 AAAATGACTTGGTTTAAGCTTAAGTCAAAATGAAAATGACAAGACTAAGCAAAGATAA
8705747 AAAATGACTTGGTTTAAGCTTAAGTCAAAAT
1 AAAATGACTTGGTTTAAGCTTAAGTCAAAAT
8705778 ATAAAATCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
57 3 0.04
58 71 0.95
59 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.27
Consensus pattern (58 bp):
AAAATGACTTGGTTTAAGCTTAAGTCAAAATGAAAATGACAAGACTAAGCAAAGATAA
Found at i:8706194 original size:14 final size:15
Alignment explanation
Indices: 8706161--8706196 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8706151 TACTGTATAC
8706161 AATG-AATGTCATGA
1 AATGTAATGTCATGA
8706175 AA-GTAATG-CATGA
1 AATGTAATGTCATGA
8706188 AATGTAATG
1 AATGTAATG
8706197 AATGCATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (15 bp):
AATGTAATGTCATGA
Done.