Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 349 of 410
Found at i:107670354 original size:26 final size:26
Alignment explanation
Indices: 107670276--107670408 Score: 195
Period size: 26 Copynumber: 5.2 Consensus size: 26
107670266 ATTATAATGT
107670276 TTATCATGGAACATTTACCTAA-CTCA
1 TTATCATGGAACATTTACCTAACCT-A
*
107670302 TTATCAT-GAATA-TTACCTAATCC-A
1 TTATCATGGAACATTTACCTAA-CCTA
107670326 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
107670352 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
107670377 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
107670403 TTATCA
1 TTATCA
107670409 ATTTGTATCA
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
24 16 0.16
25 34 0.35
26 47 0.48
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:107670355 original size:50 final size:51
Alignment explanation
Indices: 107670276--107670408 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 51
107670266 ATTATAATGT
* *
107670276 TTATCATGGAACATTTACCTAA-CTCATTATCATGAATA-TTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCT-ATTATCATGAACATTTACCTAACCCA
107670326 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
107670377 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
107670409 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
50 34 0.43
51 45 0.57
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
Found at i:107676088 original size:26 final size:26
Alignment explanation
Indices: 107676047--107676237 Score: 201
Period size: 26 Copynumber: 7.2 Consensus size: 26
107676037 CATGATATTC
*
107676047 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
107676073 TTATCATGGAATATTTACCTAATCCATTCATGA
1 TTATCATGGAACATTTACCTAA-CC---C---A
107676106 TTATCATGGAACATTTACCTAA--C-
1 TTATCATGGAACATTTACCTAACCCA
* * *
107676129 TTATCAT-TATCATATTTACCTAATCCA
1 TTATCATGGA--ACATTTACCTAACCCA
*
107676156 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
107676182 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
107676208 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
107676234 TTAT
1 TTAT
107676238 TAATTTGTAT
Statistics
Matches: 139, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.01
23 7 0.05
24 11 0.08
26 86 0.62
27 10 0.07
28 1 0.01
30 1 0.01
33 22 0.16
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:107676249 original size:109 final size:104
Alignment explanation
Indices: 107676047--107676239 Score: 257
Period size: 109 Copynumber: 1.8 Consensus size: 104
107676037 CATGATATTC
* *
107676047 TTATCATGAAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTCATGATTATCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATCC--TCA--ATTATCA
*
107676112 TGGAACATTTACCTAACTTATCATTATCATATTTACCTAATCCA
62 TGGAACATTTACCTAACTTATAATTATCA-ATTTACCTAATCCA
* *
107676156 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAA-CC-C-ATTATCATGGA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATCCTCAATTATCATGGA
* *
107676218 ACATTTACCTAACCTATTATTA
66 ACATTTACCTAACTTATAATTA
107676240 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
102 31 0.40
105 1 0.01
108 2 0.03
109 44 0.56
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (104 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAATCCTCAATTATCATGGA
ACATTTACCTAACTTATAATTATCAATTTACCTAATCCA
Found at i:107689499 original size:14 final size:13
Alignment explanation
Indices: 107689461--107689496 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
107689451 TATTTGTAGC
107689461 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
**
107689474 TTTTTAATTTCTT
1 TTTTTCTTTTCTT
107689487 TTTTTCTTTT
1 TTTTTCTTTT
107689497 TCTCACATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:107696107 original size:18 final size:19
Alignment explanation
Indices: 107696064--107696116 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
107696054 TTACATCTCA
*
107696064 AAAAAT-TATAAAAAATTT
1 AAAAATATATAAAAAACTT
107696082 AAAGAATATATAAAAAACTT
1 AAA-AATATATAAAAAACTT
107696102 -AAAATATATAAAAAA
1 AAAAATATATAAAAAA
107696117 AAACTCCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 16 0.50
19 5 0.16
20 11 0.34
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATATATAAAAAACTT
Found at i:107696117 original size:20 final size:20
Alignment explanation
Indices: 107696073--107696118 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
107696063 AAAAAATTAT
* *
107696073 AAAAAATTTAAAGAATATAT
1 AAAAAACTTAAAGAATATAA
107696093 AAAAAACTTAAA-ATATATAA
1 AAAAAACTTAAAGA-ATATAA
107696113 AAAAAA
1 AAAAAA
107696119 ACTCCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAACTTAAAGAATATAA
Found at i:107696902 original size:24 final size:24
Alignment explanation
Indices: 107696851--107696907 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
107696841 CGCCTTCAAA
*
107696851 ATCATCATCAAACTCATCATCGTC
1 ATCATCATCAAACTCATCATCATC
* *
107696875 ATCATCATCAAACTCGTTATCCAT-
1 ATCATCATCAAACTCATCAT-CATC
107696899 ATCATCATC
1 ATCATCATC
107696908 GTCCTGCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (24 bp):
ATCATCATCAAACTCATCATCATC
Found at i:107698368 original size:15 final size:15
Alignment explanation
Indices: 107698348--107698377 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107698338 TTTAATCCTT
*
107698348 TATAAATTATAAAAA
1 TATAAACTATAAAAA
107698363 TATAAACTATAAAAA
1 TATAAACTATAAAAA
107698378 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:107701532 original size:20 final size:20
Alignment explanation
Indices: 107701507--107701557 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
107701497 ATTAATCAAC
107701507 ATTTTACATTTTACCCTAAA
1 ATTTTACATTTTACCCTAAA
*
107701527 ATTTTACATTTTATCCTAAA
1 ATTTTACATTTTACCCTAAA
107701547 ATTTTACATTT
1 ATTTTACATTT
107701558 CATTCAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTACATTTTACCCTAAA
Found at i:107703887 original size:51 final size:51
Alignment explanation
Indices: 107703811--107703978 Score: 300
Period size: 51 Copynumber: 3.3 Consensus size: 51
107703801 ACTTCTGATC
*
107703811 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
107703862 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* * *
107703913 AGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
107703964 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
107703979 ATGTGATCCG
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 112 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:107703918 original size:7 final size:7
Alignment explanation
Indices: 107703906--107703930 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
107703896 TTATCTGATC
107703906 AGTGACA
1 AGTGACA
107703913 AGTGACA
1 AGTGACA
107703920 AGTGACA
1 AGTGACA
107703927 AGTG
1 AGTG
107703931 GTAGCTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (7 bp):
AGTGACA
Found at i:107706279 original size:46 final size:46
Alignment explanation
Indices: 107706229--107706404 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
107706219 TGGTTGAGCA
107706229 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107706275 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
107706320 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107706368 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
107706405 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:107706385 original size:93 final size:93
Alignment explanation
Indices: 107706226--107706397 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
107706216 GGATGGTTGA
* *
107706226 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107706291 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
107706319 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107706384 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
107706398 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:107713862 original size:46 final size:46
Alignment explanation
Indices: 107713812--107713987 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
107713802 TGGTTGAGCA
107713812 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107713858 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
107713903 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107713951 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
107713988 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:107713968 original size:93 final size:93
Alignment explanation
Indices: 107713809--107713980 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
107713799 GGATGGTTGA
* *
107713809 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107713874 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
107713902 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107713967 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
107713981 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:107731293 original size:20 final size:20
Alignment explanation
Indices: 107731264--107731311 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
107731254 GTAGGAAACT
*
107731264 GCCTTGAATGTCGTGACATA
1 GCCTTGAATGTCGCGACATA
*
107731284 GCCTTTAATGTCGCGACATA
1 GCCTTGAATGTCGCGACATA
*
107731304 ACCTTGAA
1 GCCTTGAA
107731312 GACGGTTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (20 bp):
GCCTTGAATGTCGCGACATA
Found at i:107733283 original size:95 final size:95
Alignment explanation
Indices: 107733103--107733398 Score: 299
Period size: 95 Copynumber: 3.1 Consensus size: 95
107733093 CTCGAGCATT
* * **
107733103 TAAGGTATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTGACAGGAGCTGTGAAGAAT
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTGAAGAAT
** * * * *
107733168 ATGCAACACAAGCAGAATCTTATCCATCGG
66 CCGCAATATATGCAGGATCTTATCCATCGG
* * * * * *
107733198 CAAGATATCCAATAAATCGATACATTAACCGTTATC-CGATGCTGCTCACACTAGTTATGAAGAA
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTA-CACGATGCTACTCACACTAGCTGTGAAGAA
* * * *
107733262 TCCACAATATATGCAGGATCTTAGCCATTGA
65 TCCGCAATATATGCAGGATCTTATCCATCGG
* * * * * **
107733293 TAAGGTATCTAGTAAATCGGGACATTAACCGGTACATGATATTACTCACACTAGCTGTGCAA-AA
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTG-AAGAA
* *
107733357 TCCGCAATATATGCAAGATCTTATCCATCAG
65 TCCGCAATATATGCAGGATCTTATCCATCGG
107733388 TAAGATATCCA
1 TAAGATATCCA
107733399 CCACTGGTAC
Statistics
Matches: 157, Mismatches: 41, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
94 1 0.01
95 153 0.97
96 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (95 bp):
TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTGAAGAAT
CCGCAATATATGCAGGATCTTATCCATCGG
Found at i:107735457 original size:36 final size:36
Alignment explanation
Indices: 107735417--107735529 Score: 109
Period size: 36 Copynumber: 3.0 Consensus size: 36
107735407 ATAAACCAAA
*
107735417 AATGTTTTGTGCCCAACGCTAGTCGGATAAACTGAC
1 AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
* * *
107735453 AATGTCAAATGTGTGCCCAGCACTAGTCGAATAAACTGAC
1 AATGT----TTTGTGCCCAGCGCTAGTCGGATAAACTGAC
* * * * *
107735493 AAAGATTTATGCCCAGTGCTAGTCGGATAAACCGAC
1 AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
107735529 A
1 A
107735530 GTAGATGTGC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
36 31 0.51
40 30 0.49
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (36 bp):
AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
Found at i:107735567 original size:71 final size:70
Alignment explanation
Indices: 107735360--107735578 Score: 174
Period size: 71 Copynumber: 3.0 Consensus size: 70
107735350 TTTTTCACCT
* * * * *
107735360 AGTGCTAGTTGGATAAACCGAC-GATAGGTGTGCCTTGCACT-AGCTGGATAAACCAA-AAATGT
1 AGTGCTAGTCGGATAAACCGACAG-TAGATGTGCCTTGCACTAATC-GAATAAA-CAACAAA-GA
*
107735422 TTTGTGCCC
62 TTTATGCCC
** * * ** * *
107735431 AACGCTAGTCGGATAAACTGACAATGTCAAATGTGTGCCCAGCACTAGTCGAATAAACTGACAAA
1 AGTGCTAGTCGGATAAACCGAC-A-GT-AGA--TGTGCCTTGCACTAATCGAATAAAC-AACAAA
107735496 GATTTATGCCC
60 GATTTATGCCC
*
107735507 AGTGCTAGTCGGATAAACCGACAGTAGATGTGCCTTGTACTAATCGAATAAATCAACAAAGATTT
1 AGTGCTAGTCGGATAAACCGACAGTAGATGTGCCTTGCACTAATCGAATAAA-CAACAAAGATTT
*
107735572 AAGCCC
65 ATGCCC
107735578 A
1 A
107735579 TCGTTAATCG
Statistics
Matches: 114, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
71 54 0.47
72 1 0.01
73 3 0.03
74 4 0.04
75 2 0.02
76 46 0.40
77 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (70 bp):
AGTGCTAGTCGGATAAACCGACAGTAGATGTGCCTTGCACTAATCGAATAAACAACAAAGATTTA
TGCCC
Found at i:107741267 original size:2 final size:2
Alignment explanation
Indices: 107741262--107741295 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
107741252 CCCAGATTTG
107741262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107741296 CCTTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107745917 original size:21 final size:22
Alignment explanation
Indices: 107745889--107745952 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
107745879 CCTGATCAAT
107745889 ATACGACACATAAAGTGCCT-AA
1 ATACGACACA-AAAGTGCCTGAA
* *
107745911 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACA-AAAGTGCCTGAA
107745933 ATACGACAC-AAAGTGCCTGA
1 ATACGACACAAAAGTGCCTGA
107745953 TCAGTAAAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 24 0.69
22 4 0.11
23 7 0.20
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (22 bp):
ATACGACACAAAAGTGCCTGAA
Found at i:107754629 original size:21 final size:20
Alignment explanation
Indices: 107754591--107754629 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
107754581 TTTTATTTGT
* *
107754591 TTTGGCTTTTGTTGTTTTCA
1 TTTGGCTTTCGTTATTTTCA
107754611 TTTGGACTTTCGTTATTTT
1 TTTGG-CTTTCGTTATTTT
107754630 GGTTTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.08, C:0.10, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTGGCTTTCGTTATTTTCA
Found at i:107754702 original size:24 final size:24
Alignment explanation
Indices: 107754656--107754701 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
107754646 TTTTTTCGGG
*
107754656 TTTGTTTCTTTGAGTTTTGTTTTA
1 TTTGTTTCTTTGAGCTTTGTTTTA
*
107754680 TTTGTTTTTTTG-GCTTTGTTTT
1 TTTGTTTCTTTGAGCTTTGTTTT
107754702 TGGCTCTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.04, C:0.04, G:0.17, T:0.74
Consensus pattern (24 bp):
TTTGTTTCTTTGAGCTTTGTTTTA
Found at i:107755544 original size:13 final size:13
Alignment explanation
Indices: 107755528--107755577 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
107755518 ATAATATTTT
107755528 TTATATTTAATTA
1 TTATATTTAATTA
*
107755541 TTATATTTAATTT
1 TTATATTTAATTA
*
107755554 TTAAAATTATAATTTA
1 TT-ATATT-TAA-TTA
107755570 TTATATTT
1 TTATATTT
107755578 TTCATGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 14 0.47
14 5 0.17
15 7 0.23
16 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATATTTAATTA
Found at i:107756645 original size:13 final size:13
Alignment explanation
Indices: 107756627--107756653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
107756617 TAATCTTAAT
107756627 AGATTTTTCAATA
1 AGATTTTTCAATA
107756640 AGATTTTTCAATA
1 AGATTTTTCAATA
107756653 A
1 A
107756654 ATTGTTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AGATTTTTCAATA
Found at i:107757557 original size:19 final size:19
Alignment explanation
Indices: 107757533--107757571 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
107757523 TTAACAATAT
107757533 TCAACAG-CTAAACAGCTAA
1 TCAACAGACT-AACAGCTAA
107757552 TCAACAGACTAACAGCTAA
1 TCAACAGACTAACAGCTAA
107757571 T
1 T
107757572 AATCTAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (19 bp):
TCAACAGACTAACAGCTAA
Found at i:107762448 original size:14 final size:14
Alignment explanation
Indices: 107762410--107762439 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
107762400 AATAATTTTC
107762410 TTTTAAAATTTAAT
1 TTTTAAAATTTAAT
107762424 TTTTAAAATTTAAT
1 TTTTAAAATTTAAT
107762438 TT
1 TT
107762440 ATTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAAATTTAAT
Found at i:107762645 original size:27 final size:27
Alignment explanation
Indices: 107762615--107762671 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
107762605 TAAAGTGTAG
107762615 GAATGTGGATTCCGATAATGGATATAC
1 GAATGTGGATTCCGATAATGGATATAC
*
107762642 GAATGTGGATTCTGATAATGGATATAC
1 GAATGTGGATTCCGATAATGGATATAC
107762669 GAA
1 GAA
107762672 AGAGTCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (27 bp):
GAATGTGGATTCCGATAATGGATATAC
Found at i:107772392 original size:15 final size:15
Alignment explanation
Indices: 107772372--107772423 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
107772362 ACTACAAAAC
107772372 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
107772387 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
107772406 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
107772421 ATT
1 ATT
107772424 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:107772522 original size:16 final size:16
Alignment explanation
Indices: 107772495--107772537 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
107772485 TATTATTAAA
107772495 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
107772512 ATATTAATAATTTATT
1 ATATTAATAATTTATT
*
107772528 ATATGAATAA
1 ATATTAATAA
107772538 ATATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:107779281 original size:11 final size:11
Alignment explanation
Indices: 107779265--107779297 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
107779255 TAAAGTCCAG
107779265 GATATTTAAGA
1 GATATTTAAGA
107779276 GATATTTAAGA
1 GATATTTAAGA
*
107779287 GATATTCAAGA
1 GATATTTAAGA
107779298 TAAGTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (11 bp):
GATATTTAAGA
Found at i:107782402 original size:22 final size:22
Alignment explanation
Indices: 107782350--107782392 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
107782340 AATAAAAGAA
107782350 AAACAATTTAAAGCTTATATTT
1 AAACAATTTAAAGCTTATATTT
107782372 AAACAATTTAAAGCTTATATT
1 AAACAATTTAAAGCTTATATT
107782393 CTCATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
AAACAATTTAAAGCTTATATTT
Found at i:107783328 original size:43 final size:43
Alignment explanation
Indices: 107783231--107783352 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 43
107783221 ATCGAGATGT
* * * *
107783231 GATTACATGTAAGACCATGTATGGGACATTGGCATTGTATTGA
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* *
107783274 GATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATT-TCATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* *
107783317 GATTTCATGTAAGACTC-TGTCCGGGACAGTGGCATC
1 GATTTCATGTAAGAC-CATGTCTGGGACATTGGCATC
107783353 AATATATAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 1 0.02
43 61 0.92
44 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:107793129 original size:13 final size:13
Alignment explanation
Indices: 107793111--107793143 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
107793101 ATTTTTCAAG
107793111 TCATTTT-CATTTT
1 TCATTTTCCA-TTT
107793124 TCATTTTCCATTT
1 TCATTTTCCATTT
107793137 TCATTTT
1 TCATTTT
107793144 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (13 bp):
TCATTTTCCATTT
Found at i:107793219 original size:57 final size:56
Alignment explanation
Indices: 107793115--107793231 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 56
107793105 TTCAAGTCAT
* *
107793115 TTTCATTTTTCATTTTCCATTTTCATTTTGGAGAAAACCACAGTCATTTCCAAATGA
1 TTTCATTTTCCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAAT-A
* * ** *
107793172 TTTCATTTCTCCATTTT-CATTTTCATTTTGTAGAAAATCTTAATCATTTTCAAATA
1 TTTCATTT-TCCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATA
107793228 TTTC
1 TTTC
107793232 TTATTTATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 5 0.10
57 40 0.77
58 7 0.13
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (56 bp):
TTTCATTTTCCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATA
Found at i:107793247 original size:57 final size:57
Alignment explanation
Indices: 107793115--107793245 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
107793105 TTCAAGTCAT
* *
107793115 TTTCATTT-TTCATTTTCCATTTTCATTTTGGAGAAAACCACAGTCATTTCCAAATGA
1 TTTCATTTATCCATTTT-CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
* * * ** *
107793172 TTTCATTTCTCCATTTTCATTTTCATTTTGTAGAAAATCTTAATCATTTTCAAAT-A
1 TTTCATTTATCCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
*
107793228 TTTCTTATTTATCTATTT
1 TTTC--ATTTATCCATTT
107793246 CACCATTTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
56 5 0.08
57 40 0.65
58 17 0.27
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (57 bp):
TTTCATTTATCCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGA
Found at i:107794789 original size:28 final size:28
Alignment explanation
Indices: 107794754--107794809 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
107794744 ATTAGATTTA
107794754 TTTTCTTTTCTATT-TTCATTCCATTTCT
1 TTTTCTTTTCT-TTCTTCATTCCATTTCT
* *
107794782 TTTTCTTTTCTTTCTTCTTTTCATTTCT
1 TTTTCTTTTCTTTCTTCATTCCATTTCT
107794810 AATATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTCTTTTCTTTCTTCATTCCATTTCT
Found at i:107794801 original size:12 final size:12
Alignment explanation
Indices: 107794777--107794809 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107794767 TTTCATTCCA
107794777 TTTCTTT-TTCT
1 TTTCTTTCTTCT
107794788 TTTCTTTCTTCT
1 TTTCTTTCTTCT
107794800 TTTCATTTCT
1 TTTC-TTTCT
107794810 AATATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 8 0.40
13 5 0.25
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTCTTCT
Found at i:107800042 original size:43 final size:42
Alignment explanation
Indices: 107799972--107800063 Score: 121
Period size: 43 Copynumber: 2.2 Consensus size: 42
107799962 GTTTGGGTCG
* *
107799972 TTGGCATCATATTTAATTTCCTATAAGACCATATCTGAGACA
1 TTGGCATCATATTTAATTACATATAAGACCATATCTGAGACA
* * *
107800014 TTGGCATCGATATTTGATTACATGTAAGACCATATCTGGGACA
1 TTGGCATC-ATATTTAATTACATATAAGACCATATCTGAGACA
*
107800057 TCGGCAT
1 TTGGCAT
107800064 TGTACGAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 8 0.19
43 35 0.81
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (42 bp):
TTGGCATCATATTTAATTACATATAAGACCATATCTGAGACA
Found at i:107806982 original size:43 final size:43
Alignment explanation
Indices: 107806835--107807122 Score: 254
Period size: 43 Copynumber: 6.9 Consensus size: 43
107806825 TTTTATCAAA
* * *
107806835 TCACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGA-AT--TC
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
* * * ***
107806874 ATCACCGGCATGA-AGCCTGCTAGACTTTAAGTTTGA-ACTCAT-
1 -TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATA-TCATC
* * * *
107806916 TCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
** * *
107806958 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
* *
107807001 TCACCGGCATTATAGCCTGCTAGGC--CAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
** * *
107807042 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
* **
107807085 TCACCGGCATTATAGCCTTCTAGGCCCGAAGCCCGATA
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATA
107807123 ATATTATTCA
Statistics
Matches: 210, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
40 28 0.13
41 71 0.34
42 11 0.05
43 100 0.48
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCATC
Found at i:107807031 original size:84 final size:84
Alignment explanation
Indices: 107806916--107807122 Score: 290
Period size: 84 Copynumber: 2.4 Consensus size: 84
107806906 TTGAACTCAT
* * * * *
107806916 TCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCATTTCACCGGCATTATAGCCTGCTA
1 TCACCGGCATTATAGCCTGCTAGGC--CAAGCCCGATATCATCTCACCGGCATTATAGCCTGCTA
107806980 GGCCCGAAGCCCAATATTATC
64 GGCCCGAAGCCCAATATTATC
*
107807001 TCACCGGCATTATAGCCTGCTAGGCCAAGCCCGATATTATCTCACCGGCATTATAGCCTGCTAGG
1 TCACCGGCATTATAGCCTGCTAGGCCAAGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGG
**
107807066 CCCGAAGCCTGATATTATC
66 CCCGAAGCCCAATATTATC
*
107807085 TCACCGGCATTATAGCCTTCTAGGCCCGAAGCCCGATA
1 TCACCGGCATTATAGCCTGCTAGG-CC-AAGCCCGATA
107807123 ATATTATTCA
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
84 76 0.69
85 12 0.11
86 22 0.20
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (84 bp):
TCACCGGCATTATAGCCTGCTAGGCCAAGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGG
CCCGAAGCCCAATATTATC
Found at i:107807061 original size:127 final size:126
Alignment explanation
Indices: 107806916--107807163 Score: 338
Period size: 127 Copynumber: 1.9 Consensus size: 126
107806906 TTGAACTCAT
* * ** *
107806916 TCACTGGCATTTCGCCTGCTAGGCTTGAAGCCTGATATCATTTCACCGGCATTATAGCCTGCTAG
1 TCACCGGCATTTAGCCTGCTAGGCCCGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCTAG
* *
107806981 GCCCGAAGCCC-AATATTATCTCACCGGCATTATAGCCTGCTAGGCC-AAGCCCGATATTATC
66 GCCCGAAGCCCAAATATTAT-TCACCAGC-TTAAAGCCTGCTAGGCCGAAGCCCGATATTATC
* *
107807042 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATCTCACCGGCATTATAGCCTTCTA
1 TCACCGGCATT-TAGCCTGCTAGGCCCGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCTA
* *
107807107 GGCCCGAAGCCCGATAATATTATTCACCAGCTTAAAGCTTGCTAGGCCGAGGCCCGA
65 GGCCCGAAGCCC-A-AATATTATTCACCAGCTTAAAGCCTGCTAGGCCGAAGCCCGA
107807164 ATATCACATT
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
126 10 0.09
127 59 0.56
128 15 0.14
129 14 0.13
130 8 0.08
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (126 bp):
TCACCGGCATTTAGCCTGCTAGGCCCGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCTAG
GCCCGAAGCCCAAATATTATTCACCAGCTTAAAGCCTGCTAGGCCGAAGCCCGATATTATC
Found at i:107808682 original size:12 final size:12
Alignment explanation
Indices: 107808667--107808693 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
107808657 ATTAAAACAC
107808667 TTATTAGCTATT
1 TTATTAGCTATT
107808679 TTATTAGCTATT
1 TTATTAGCTATT
107808691 TTA
1 TTA
107808694 CAATATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TTATTAGCTATT
Found at i:107821259 original size:43 final size:41
Alignment explanation
Indices: 107821103--107821259 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 41
107821093 TGTGATGTCG
* * * **
107821103 TGTAAGACCACGTCTGGGAAGTTGGCATC-AATTTGGTATGTATG
1 TGTAAGACCACGTCTAGGACG-TGGCATCGTATTT-G-AT-TACA
* * *
107821147 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTAGGACG-TGGCATCGTATTTGATTACA
** *
107821189 TGTAAGACCTTGTCTAGAACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTAGGAC-GTGGCATCG-TATTTGATTACA
* *
107821232 TGTAAGGCCACGTTTAGGACGTCGGCAT
1 TGTAAGACCACGTCTAGGACGT-GGCAT
107821260 TGTACAAGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
42 26 0.28
43 34 0.37
44 29 0.31
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
TGTAAGACCACGTCTAGGACGTGGCATCGTATTTGATTACA
Found at i:107824827 original size:33 final size:34
Alignment explanation
Indices: 107824763--107824827 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
107824753 AATATCAGTT
*
107824763 TGGGCCTCAGCCCATTACGGCAACAGTATCAATG
1 TGGGCCTCAGCCCATTACAGCAACAGTATCAATG
*
107824797 TGGGCCTCAGCCCAATT-CAG-TACAGTATCAA
1 TGGGCCTCAGCCC-ATTACAGCAACAGTATCAA
107824828 AGACGCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.36
34 15 0.54
35 3 0.11
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (34 bp):
TGGGCCTCAGCCCATTACAGCAACAGTATCAATG
Found at i:107826140 original size:27 final size:27
Alignment explanation
Indices: 107826080--107826134 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
107826070 GCCGAGGGTG
107826080 AAGAAACATAATAGAAACTTACCAGCT
1 AAGAAACATAATAGAAACTTACCAGCT
107826107 AAGAAACATAATAGAAACTTACCAGCT
1 AAGAAACATAATAGAAACTTACCAGCT
107826134 A
1 A
107826135 CTAAACGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (27 bp):
AAGAAACATAATAGAAACTTACCAGCT
Found at i:107836172 original size:21 final size:21
Alignment explanation
Indices: 107836140--107836180 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
107836130 ATATATATTT
107836140 ATCCATGACAT-AGATAGATTC
1 ATCCATGACATAAG-TAGATTC
107836161 ATCCAT-AGCATAAGTAGATT
1 ATCCATGA-CATAAGTAGATT
107836181 TCTCACACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.06
21 15 0.83
22 2 0.11
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (21 bp):
ATCCATGACATAAGTAGATTC
Found at i:107838419 original size:23 final size:22
Alignment explanation
Indices: 107838393--107838442 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
107838383 CAGATTTTAT
107838393 TTATTTTA-TTATTTTATTTCTCG
1 TTATTTTATTTA-TTTATTT-TCG
*
107838416 TTA-TTTATTTATTTATTTTCT
1 TTATTTTATTTATTTATTTTCG
107838437 TTATTT
1 TTATTT
107838443 CATCATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATTTTATTTATTTATTTTCG
Found at i:107845784 original size:10 final size:10
Alignment explanation
Indices: 107845769--107845793 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
107845759 TCATAATTTA
107845769 TGATACAAAT
1 TGATACAAAT
107845779 TGATACAAAT
1 TGATACAAAT
107845789 TGATA
1 TGATA
107845794 ATGGTTAGGT
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:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:107845830 original size:26 final size:25
Alignment explanation
Indices: 107845789--107845843 Score: 101
Period size: 26 Copynumber: 2.2 Consensus size: 25
107845779 TGATACAAAT
107845789 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
107845814 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
107845840 TGAT
1 TGAT
107845844 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:107851935 original size:26 final size:26
Alignment explanation
Indices: 107851906--107852012 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
107851896 TGATACAAAT
107851906 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
107851932 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107851958 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107851984 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
107852009 TGAT
1 TGAT
107852013 GGAATTTCAT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.08
26 73 0.92
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107856318 original size:93 final size:93
Alignment explanation
Indices: 107856210--107856380 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
107856200 GCCCCTAAGT
* * *
107856210 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
107856275 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
107856303 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
107856368 CGAGTTCGGATGC
66 CGAGTTCGGATGC
107856381 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:107856377 original size:46 final size:46
Alignment explanation
Indices: 107856205--107856377 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
107856195 AACCCGCCCC
* * *
107856205 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
107856251 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
107856299 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
107856344 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
107856378 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:107860611 original size:55 final size:55
Alignment explanation
Indices: 107860550--107860659 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
107860540 GCATTGTTTG
107860550 GTATAAACCTAGAGCTAGAAAACTACCCTTTATTTATCTATCTTTAGTACCTATT
1 GTATAAACCTAGAGCTAGAAAACTACCCTTTATTTATCTATCTTTAGTACCTATT
107860605 GTATAAACCTAGAGCTAGAAAACTACCCTTTATTTATCTATCTTTAGTACCTATT
1 GTATAAACCTAGAGCTAGAAAACTACCCTTTATTTATCTATCTTTAGTACCTATT
107860660 TTGAGCTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (55 bp):
GTATAAACCTAGAGCTAGAAAACTACCCTTTATTTATCTATCTTTAGTACCTATT
Found at i:107866178 original size:7 final size:7
Alignment explanation
Indices: 107866162--107866193 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
107866152 CTAAAGCTAC
*
107866162 CACTTAT
1 CACTTGT
107866169 CACTTGT
1 CACTTGT
107866176 CACTTGT
1 CACTTGT
107866183 CACTTGT
1 CACTTGT
107866190 CACT
1 CACT
107866194 AATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:107866185 original size:14 final size:14
Alignment explanation
Indices: 107866162--107866198 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
107866152 CTAAAGCTAC
107866162 CACTTATCACTTGT
1 CACTTATCACTTGT
*
107866176 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
107866190 CACTAATCA
1 CACTTATCA
107866199 GATAAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:107866207 original size:58 final size:58
Alignment explanation
Indices: 107866117--107866244 Score: 229
Period size: 58 Copynumber: 2.2 Consensus size: 58
107866107 ATCACATATA
* * *
107866117 TCACTTATCAATTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
107866175 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
107866233 TCACTTGTCACT
1 TCACTTGTCACT
107866245 GATCAGAAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (58 bp):
TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:107866224 original size:51 final size:51
Alignment explanation
Indices: 107866169--107866288 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
107866159 TACCACTTAT
* * *
107866169 CACTTGTCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAA-AGCTAC
1 CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAGCTAAGA-CTAC
* *
107866220 CACTTATCACTTGTCACTTGTCACTGATCAGAAAAGTATAGCTGAGACTAC
1 CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAGCTAAGACTAC
107866271 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
107866289 AATCAGAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 62 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAGCTAAGACTAC
Found at i:107873620 original size:22 final size:22
Alignment explanation
Indices: 107873592--107873634 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
107873582 AAGGAAAAAG
*
107873592 AACCATCAACTTAATTGGCTCA
1 AACCATCAACTCAATTGGCTCA
*
107873614 AACCATCAGCTCAATTGGCTC
1 AACCATCAACTCAATTGGCTC
107873635 CTAACCAGAT
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:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (22 bp):
AACCATCAACTCAATTGGCTCA
Found at i:107886994 original size:12 final size:12
Alignment explanation
Indices: 107886974--107887003 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
107886964 TATGAATGAG
*
107886974 ATATATATATAT
1 ATATTTATATAT
107886986 ATATTTATATAT
1 ATATTTATATAT
107886998 ATATTT
1 ATATTT
107887004 CTCTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:107892257 original size:25 final size:25
Alignment explanation
Indices: 107892229--107892408 Score: 98
Period size: 25 Copynumber: 7.2 Consensus size: 25
107892219 TGTACAGTAT
*
107892229 GCTCATATGAGC-ATGTAAACAGGAA
1 GCTCATATGAGCTATAT-AACAGGAA
* * *
107892254 GCTCTTTTGAGCTATATAACGGGAA
1 GCTCATATGAGCTATATAACAGGAA
* * *
107892279 GCTCATGTGAGCTAAATAACGGGAA
1 GCTCATATGAGCTATATAACAGGAA
* ** * * * *
107892304 GCTTATGCGAGTTGTTTATCAGGAA
1 GCTCATATGAGCTATATAACAGGAA
** *
107892329 GCTCATAAAAGCTGA-A-ATCAGGAA
1 GCTCATATGAGCT-ATATAACAGGAA
* * *
107892353 GCTCATAAGAGCTAGATATCAGGAA
1 GCTCATATGAGCTATATAACAGGAA
* * *
107892378 GCTCATAAT-AGCTAGATATCAAGAA
1 GCTCAT-ATGAGCTATATAACAGGAA
107892403 GCTCAT
1 GCTCAT
107892409 GAGAGCTGTG
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
23 1 0.01
24 21 0.17
25 99 0.79
26 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (25 bp):
GCTCATATGAGCTATATAACAGGAA
Found at i:107892373 original size:49 final size:50
Alignment explanation
Indices: 107892320--107892415 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
107892310 GCGAGTTGTT
*
107892320 TATCAGGAAGCTCATAAAAGCT-GAAATCAGGAAGCTCATAAGAGCTAGA
1 TATCAGGAAGCTCATAAAAGCTAGAAATCAAGAAGCTCATAAGAGCTAGA
* * *
107892369 TATCAGGAAGCTCATAATAGCTAGATATCAAGAAGCTCATGAGAGCT
1 TATCAGGAAGCTCATAAAAGCTAGAAATCAAGAAGCTCATAAGAGCT
107892416 GTGGTGTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 21 0.50
50 21 0.50
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (50 bp):
TATCAGGAAGCTCATAAAAGCTAGAAATCAAGAAGCTCATAAGAGCTAGA
Found at i:107892415 original size:25 final size:25
Alignment explanation
Indices: 107892320--107892415 Score: 140
Period size: 25 Copynumber: 3.9 Consensus size: 25
107892310 GCGAGTTGTT
*
107892320 TATCAGGAAGCTCATAAAAGCT-GA
1 TATCAGGAAGCTCATAAGAGCTAGA
*
107892344 AATCAGGAAGCTCATAAGAGCTAGA
1 TATCAGGAAGCTCATAAGAGCTAGA
*
107892369 TATCAGGAAGCTCATAATAGCTAGA
1 TATCAGGAAGCTCATAAGAGCTAGA
* *
107892394 TATCAAGAAGCTCATGAGAGCT
1 TATCAGGAAGCTCATAAGAGCT
107892416 GTGGTGTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 20 0.31
25 44 0.69
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (25 bp):
TATCAGGAAGCTCATAAGAGCTAGA
Found at i:107897885 original size:20 final size:20
Alignment explanation
Indices: 107897847--107897884 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
107897837 AATTTTTTAA
*
107897847 AATTTTAAAATTCTAAAAAC
1 AATTATAAAATTCTAAAAAC
107897867 AATTATAAAATT-TAAAAA
1 AATTATAAAATTCTAAAAA
107897885 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTATAAAATTCTAAAAAC
Found at i:107897913 original size:30 final size:30
Alignment explanation
Indices: 107897877--107897933 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
107897867 AATTATAAAA
107897877 TTTAAAAAA-AATAAAAATCAGTAAAATTAT
1 TTTAAAAAAGAATAAAAATCA-TAAAATTAT
* *
107897907 TTTAAAAAAGTATAAAAATTATAAAAT
1 TTTAAAAAAGAATAAAAATCATAAAAT
107897934 ATATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (30 bp):
TTTAAAAAAGAATAAAAATCATAAAATTAT
Found at i:107907796 original size:7 final size:6
Alignment explanation
Indices: 107907764--107907812 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
107907754 TATTAGTTTA
* * *
107907764 TTATTA TTATTA TTATTAT TTATTT TTACTT TTATTTT TTATTT TTATT
1 TTATTT TTATTT TTATT-T TTATTT TTATTT TTA-TTT TTATTT TTATT
107907813 CTTCTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 28 0.74
7 10 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:107914756 original size:52 final size:52
Alignment explanation
Indices: 107914678--107914783 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
107914668 CAAGTCAAAT
* *
107914678 ATCAAGTTTTAAACCTCTTGTGTCATCATATTATACATTTGCATAAACTAAC
1 ATCAAGTTTTAAACCTATTGTGTCATCATATTAGACATTTGCATAAACTAAC
107914730 ATCAAGTTTTAAACCTATTGTGTCATCATATTAGACATTTGCATAAACTAAC
1 ATCAAGTTTTAAACCTATTGTGTCATCATATTAGACATTTGCATAAACTAAC
107914782 AT
1 AT
107914784 ATATGTATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (52 bp):
ATCAAGTTTTAAACCTATTGTGTCATCATATTAGACATTTGCATAAACTAAC
Found at i:107920611 original size:28 final size:26
Alignment explanation
Indices: 107920576--107920638 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
107920566 CCATGTGGTA
* *
107920576 GGTCGTGTGCTACACAGGGCCGTGTGTG
1 GGTCGTGTGCGACACACGG--GTGTGTG
* *
107920604 GGTCGTGTGGGCCACACGGGTGTGTG
1 GGTCGTGTGCGACACACGGGTGTGTG
107920630 GGTCGTGTG
1 GGTCGTGTG
107920639 GCCCACACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.52
28 15 0.48
ACGTcount: A:0.08, C:0.19, G:0.48, T:0.25
Consensus pattern (26 bp):
GGTCGTGTGCGACACACGGGTGTGTG
Found at i:107920633 original size:26 final size:26
Alignment explanation
Indices: 107920597--107920646 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
107920587 ACACAGGGCC
*
107920597 GTGTGTGGGTCGTGTGGGCCACACGG
1 GTGTGTGGGTCGTGTGGCCCACACGG
107920623 GTGTGTGGGTCGTGTGGCCCACAC
1 GTGTGTGGGTCGTGTGGCCCACAC
107920647 CTAAAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.08, C:0.22, G:0.46, T:0.24
Consensus pattern (26 bp):
GTGTGTGGGTCGTGTGGCCCACACGG
Found at i:107923634 original size:42 final size:42
Alignment explanation
Indices: 107923571--107923685 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
107923561 CTTCGTTTTC
** * *
107923571 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACGTA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCA--TATA
*
107923614 T-GATGCCATAGCCCAGCTATGGTCTTACATATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
*
107923655 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
107923686 GAATCACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.03
41 2 0.03
42 58 0.92
43 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:107923757 original size:47 final size:46
Alignment explanation
Indices: 107923656--107923779 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
107923646 ATTCATATAT
* * * * * *
107923656 CGATGCCATAGCCTAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
107923702 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
107923749 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
107923780 GAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:107923839 original size:31 final size:31
Alignment explanation
Indices: 107923804--107923952 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
107923794 CTTGTCACTT
*
107923804 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
107923835 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
107923866 GTAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
107923897 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
107923928 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
107923953 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 3 0.03
31 103 0.95
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:107925439 original size:11 final size:10
Alignment explanation
Indices: 107925423--107925562 Score: 100
Period size: 11 Copynumber: 12.9 Consensus size: 10
107925413 CCTAAGTATA
107925423 AAAACAGCAGC
1 AAAACAGCA-C
107925434 AAAACAGCAAC
1 AAAACAGC-AC
*
107925445 AAAACAACACC
1 AAAACAGCA-C
107925456 AAAACAGCAC
1 AAAACAGCAC
* *
107925466 CAAACAGCATA
1 AAAACAGCA-C
*
107925477 AAAATAGCAC
1 AAAACAGCAC
107925487 AAACAACAGCACC
1 -AA-AACAGCA-C
*
107925500 AATACAGCAAC
1 AAAACAGC-AC
107925511 AAAACAGCAC
1 AAAACAGCAC
* *
107925521 CAAACAGCATT
1 AAAACAGCA-C
*
107925532 AAAATAGCAC
1 AAAACAGCAC
107925542 AAAAAACAGCAC
1 --AAAACAGCAC
*
107925554 CAAACAGCA
1 AAAACAGCA
107925563 TCACTAGTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
10 28 0.27
11 54 0.53
12 19 0.19
13 1 0.01
ACGTcount: A:0.58, C:0.29, G:0.09, T:0.04
Consensus pattern (10 bp):
AAAACAGCAC
Found at i:107925460 original size:33 final size:33
Alignment explanation
Indices: 107925423--107925562 Score: 128
Period size: 33 Copynumber: 4.3 Consensus size: 33
107925413 CCTAAGTATA
*
107925423 AAAACAGCAGCAAAACAGCA-ACAAAACAACACC
1 AAAACAGCA-CAAAACAGCACACAAAACAGCACC
* * * *
107925456 AAAACAGCACCAAACAGCATA-AAAATAGCACA
1 AAAACAGCACAAAACAGCACACAAAACAGCACC
*
107925488 AACAACAGCACCAATACAGCA-ACAAAACAGCACC
1 AA-AACAGCA-CAAAACAGCACACAAAACAGCACC
* * *
107925522 -AAACAGCATTAAAATAGCACAAAAAACAGCACC
1 AAAACAGCA-CAAAACAGCACACAAAACAGCACC
107925555 -AAACAGCA
1 AAAACAGCA
107925563 TCACTAGTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
32 33 0.37
33 39 0.44
34 17 0.19
ACGTcount: A:0.58, C:0.29, G:0.09, T:0.04
Consensus pattern (33 bp):
AAAACAGCACAAAACAGCACACAAAACAGCACC
Found at i:107925497 original size:55 final size:54
Alignment explanation
Indices: 107925420--107925557 Score: 188
Period size: 55 Copynumber: 2.5 Consensus size: 54
107925410 ATACCTAAGT
* * *
107925420 ATAAAAACAGCAGC-AAAACAGCAACAAAACAACACCAAAACAGCACCAAACAGC
1 ATAAAAATAGCA-CAAAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGC
* *
107925474 ATAAAAATAGCACAAACAACAGCACCAATACAGCAACAAAACAGCACCAAACAGC
1 ATAAAAATAGCACAAA-AACAGCACCAAAACAACAACAAAACAGCACCAAACAGC
*
107925529 ATTAAAATAGCACAAAAAACAGCACCAAA
1 ATAAAAATAGCAC-AAAAACAGCACCAAA
107925558 CAGCATCACT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.01
54 13 0.18
55 57 0.77
56 3 0.04
ACGTcount: A:0.59, C:0.28, G:0.09, T:0.05
Consensus pattern (54 bp):
ATAAAAATAGCACAAAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGC
Found at i:107925634 original size:56 final size:55
Alignment explanation
Indices: 107925545--107925649 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 55
107925535 ATAGCACAAA
* * **
107925545 AAACAGCACCAAACAGCATCACTAGTAACACCAAAATAGAACAAAAAACAGCACC
1 AAACAGCACAAAACAGCATCACAAAAAACACCAAAATAGAACAAAAAACAGCACC
* *
107925600 AAACAGCACAAAAAGAGCATCACAAAAAACACCAAAATAGCACAAAAAAC
1 AAACAGCAC-AAAACAGCATCACAAAAAACACCAAAATAGAACAAAAAAC
107925650 CTGCAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 9 0.21
56 34 0.79
ACGTcount: A:0.59, C:0.27, G:0.09, T:0.06
Consensus pattern (55 bp):
AAACAGCACAAAACAGCATCACAAAAAACACCAAAATAGAACAAAAAACAGCACC
Found at i:107936248 original size:46 final size:44
Alignment explanation
Indices: 107936189--107936303 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
107936179 ACAGGACAGA
* *
107936189 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATAGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATAGCATTGGAG
* * *
107936235 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATAGCATTGGAG
* **
107936279 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
107936304 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATAGCATTGGAG
Found at i:107936295 original size:44 final size:45
Alignment explanation
Indices: 107936189--107936322 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
107936179 ACAGGACAGA
* * *
107936189 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATAGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATAGCATTGGAG
* * * *
107936235 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATAGCATTGGAG
** * * *
107936279 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATAGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATAGCATTGG
107936323 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATAGCATTGGAG
Found at i:107942597 original size:30 final size:30
Alignment explanation
Indices: 107942563--107942625 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
107942553 ACTTATTTTA
*
107942563 TTGTTAATCTTGTTATTATTTTAAAGATAT
1 TTGTTAATCTTGTTATTATTTTAAAGACAT
* *
107942593 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATCTTGTTATTATTTTAAAGACAT
107942623 TTG
1 TTG
107942626 CTGTATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATCTTGTTATTATTTTAAAGACAT
Found at i:107944301 original size:14 final size:15
Alignment explanation
Indices: 107944284--107944312 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107944274 GAGTATGATA
107944284 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
107944298 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
107944313 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:107945406 original size:41 final size:41
Alignment explanation
Indices: 107945361--107945443 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 41
107945351 ATCCGAGAAC
* * *
107945361 GGGTAAAAGTGCATCCACGTAAGTGTGTTTT-TGCTGACATG
1 GGGT-AAAGCGCATCCACGTAAGCGCGTTTTGTGCTGACATG
* * *
107945402 GGGTAAAGCGTATCCATGTCAGCGCGTTTTGTGCTGACATG
1 GGGTAAAGCGCATCCACGTAAGCGCGTTTTGTGCTGACATG
107945443 G
1 G
107945444 TAAAATCACT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 20 0.57
41 15 0.43
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGTAAAGCGCATCCACGTAAGCGCGTTTTGTGCTGACATG
Found at i:107948015 original size:2 final size:2
Alignment explanation
Indices: 107948008--107948055 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
107947998 CATTCTCATG
107948008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107948050 AT AT AT
1 AT AT AT
107948056 TAGATTTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107951337 original size:27 final size:28
Alignment explanation
Indices: 107951307--107951363 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 28
107951297 TTTCCGCTGC
107951307 AGTCAAGTCTTTG-CTCTTTTTGTCACT
1 AGTCAAGTCTTTGTCTCTTTTTGTCACT
107951334 AGTCAAGTCTTTGCTTCTCTTTTTGTCACT
1 AGTCAAGTCTTTG--TCTCTTTTTGTCACT
107951364 CGCCGGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 13 0.48
30 14 0.52
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (28 bp):
AGTCAAGTCTTTGTCTCTTTTTGTCACT
Found at i:107952950 original size:11 final size:11
Alignment explanation
Indices: 107952910--107952950 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
107952900 AAAAGCAGCC
*
107952910 AAAGCAGCT-A
1 AAAGAAGCTGA
107952920 AAAG-AGCTGA
1 AAAGAAGCTGA
107952930 AAAGGAAGCTGA
1 AAA-GAAGCTGA
107952942 AAAGAAGCT
1 AAAGAAGCT
107952951 CAAGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 7 0.25
12 9 0.32
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (11 bp):
AAAGAAGCTGA
Found at i:107960531 original size:90 final size:90
Alignment explanation
Indices: 107960345--107960623 Score: 373
Period size: 90 Copynumber: 3.1 Consensus size: 90
107960335 CAATAGTGAG
* * * *
107960345 TTATATAAATATACAATTTGCATAAT-TCACTCAATCATATGAATTCAATCAATATCAAGTTACG
1 TTATACAAATATACAAGTTGCATAATCTCA-TCAATCAAATGAATTCAATCAGTAT-AAGTTACG
107960409 ATATACTATCGGAAATCAAGAAAATAT
64 ATATACTATCGGAAATCAAGAAAATAT
* * * * *
107960436 TTATACAAATATACAAGTTGAATAATCTGAACAATCAAATGAATTTAATCAGTATAAGTTACTAT
1 TTATACAAATATACAAGTTGCATAATCTCATCAATCAAATGAATTCAATCAGTATAAGTTACGAT
* *
107960501 ATACTATCGAAAATCAAGCAAATAT
66 ATACTATCGGAAATCAAGAAAATAT
* ** *
107960526 TTATACAAATATACAAGTTGCATAATCTTC-TCAACCAAACAAATTCAATTAGTATAAGTTACGA
1 TTATACAAATATACAAGTTGCATAATC-TCATCAATCAAATGAATTCAATCAGTATAAGTTACGA
*
107960590 TACACTATCGGAAATCAAGAAAATAT
65 TATACTATCGGAAATCAAGAAAATAT
107960616 TTATACAA
1 TTATACAA
107960624 TTCAATATGC
Statistics
Matches: 163, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
90 116 0.71
91 45 0.28
92 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.31
Consensus pattern (90 bp):
TTATACAAATATACAAGTTGCATAATCTCATCAATCAAATGAATTCAATCAGTATAAGTTACGAT
ATACTATCGGAAATCAAGAAAATAT
Found at i:107961771 original size:5 final size:6
Alignment explanation
Indices: 107961752--107961782 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
107961742 AAGTGGTTTC
107961752 TTTATT TTTATT TTTATT TTTATGT TTTATT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT
107961783 ACTTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:107962533 original size:109 final size:109
Alignment explanation
Indices: 107962342--107962560 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
107962332 CATAAAAAGA
107962342 TTAACTATACTCTATATGAATTGTGGAAAGGTTATACCCCTAATTTGCAATACTTGAAAGTGTGA
1 TTAACTATACTCTATATGAATTGTGGAAAGGTTATACCCCTAATTTGCAATACTTGAAAGTGTGA
107962407 GGGTGCTTAGCAAAAGTAGACTTGTCTACTTTTAAAAAGAGCAC
66 GGGTGCTTAGCAAAAGTAGACTTGTCTACTTTTAAAAAGAGCAC
107962451 TTAACTATACTCTATATGAATTGTGGAAAGGTTATACCCCTAATTTGCAATACTTGAAAGTGTGA
1 TTAACTATACTCTATATGAATTGTGGAAAGGTTATACCCCTAATTTGCAATACTTGAAAGTGTGA
107962516 GGGTGCTTAGCAAAAGTAGACTTGTCTACTTTTAAAAAGAGCAC
66 GGGTGCTTAGCAAAAGTAGACTTGTCTACTTTTAAAAAGAGCAC
107962560 T
1 T
107962561 ATCTGATCTA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (109 bp):
TTAACTATACTCTATATGAATTGTGGAAAGGTTATACCCCTAATTTGCAATACTTGAAAGTGTGA
GGGTGCTTAGCAAAAGTAGACTTGTCTACTTTTAAAAAGAGCAC
Found at i:107964674 original size:87 final size:86
Alignment explanation
Indices: 107964520--107964683 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 86
107964510 TACATGCATA
* *
107964520 AGGTTGATTTCTTACTCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGATGAACT
1 AGGTTGATTTCTTAATCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGACGAACT
107964585 TGATGAATTCACCGACATGTG
66 TGATGAATTCACCGACATGTG
* * * * * **
107964606 AGGTTGAGTTTCTTAATCTTAATGAGTTCATATCTC-AGAGTTTGGGTGGTCCTATTGAGACGGG
1 AGGTTGA-TTTCTTAATCTTAATGAATTCATATCCCAAG-GTTTGGATAGTCCTACTGAGACGAA
107964670 CTTGATGAATTCAC
64 CTTGATGAATTCAC
107964684 TGAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 9 0.13
87 58 0.87
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (86 bp):
AGGTTGATTTCTTAATCTTAATGAATTCATATCCCAAGGTTTGGATAGTCCTACTGAGACGAACT
TGATGAATTCACCGACATGTG
Found at i:107966581 original size:27 final size:27
Alignment explanation
Indices: 107966551--107966609 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
107966541 CTACCCAGTG
**
107966551 TTTAATGTCCCGTTGGGTTATCCTGTA
1 TTTAATGTCCCGTTGGACTATCCTGTA
* *
107966578 TTTAATGTCCTGTTGGACTGTCCTGTA
1 TTTAATGTCCCGTTGGACTATCCTGTA
107966605 TTTAA
1 TTTAA
107966610 CATCCTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTAATGTCCCGTTGGACTATCCTGTA
Found at i:107967955 original size:18 final size:18
Alignment explanation
Indices: 107967918--107967955 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
107967908 AAAAAATCAC
*
107967918 ATTTTTTATATTTAACAT
1 ATTTTTTATATTTAAAAT
107967936 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
107967954 AT
1 AT
107967956 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:107974627 original size:56 final size:55
Alignment explanation
Indices: 107974541--107974648 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
107974531 GTATCTATTG
* *
107974541 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATTAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
107974597 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
107974649 CAATCTATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 6 0.12
56 44 0.88
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:107990710 original size:2 final size:2
Alignment explanation
Indices: 107990703--107990728 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107990693 CGAAATCATG
107990703 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
107990729 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107992296 original size:18 final size:18
Alignment explanation
Indices: 107992275--107992310 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
107992265 GAACTTTACG
107992275 TATTCTCTTAACTAAGAA
1 TATTCTCTTAACTAAGAA
107992293 TATTCTCTTAACTAAGAA
1 TATTCTCTTAACTAAGAA
107992311 CTGCATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TATTCTCTTAACTAAGAA
Found at i:107997637 original size:10 final size:10
Alignment explanation
Indices: 107997620--107997662 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
107997610 TTTTATTAAC
107997620 TTTT-TATAT
1 TTTTATATAT
107997629 TTTTATATAT
1 TTTTATATAT
* *
107997639 ATTTAAATAT
1 TTTTATATAT
107997649 TTTTATA-AT
1 TTTTATATAT
107997658 TTTTA
1 TTTTA
107997663 AATTACTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 11 0.38
10 18 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTATATAT
Found at i:107997651 original size:19 final size:19
Alignment explanation
Indices: 107997625--107997665 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
107997615 TTAACTTTTT
107997625 ATATTTTTATATATATTTAA
1 ATATTTTTATA-ATATTTAA
*
107997645 ATATTTTTATAATTTTTAA
1 ATATTTTTATAATATTTAA
107997664 AT
1 AT
107997666 TACTTGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTTATAATATTTAA
Found at i:108000821 original size:46 final size:46
Alignment explanation
Indices: 108000769--108000950 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
108000759 AGTGTGCTCT
108000769 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
108000815 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
108000861 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
108000907 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
108000951 TCATGTCAAA
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 127 0.99
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:108003622 original size:28 final size:28
Alignment explanation
Indices: 108003592--108003646 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
108003582 GTGTTTTACA
*
108003592 AAAAT-AACCTATTTACATAATTTTTCT
1 AAAATCAACCTATTCACATAATTTTTCT
108003619 AAAATCAACCTATTCACATAATTTTTCT
1 AAAATCAACCTATTCACATAATTTTTCT
108003647 CTTGGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATCAACCTATTCACATAATTTTTCT
Found at i:108004930 original size:2 final size:2
Alignment explanation
Indices: 108004923--108004959 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
108004913 ATTTAACTTT
108004923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108004960 GAGTAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108006120 original size:54 final size:54
Alignment explanation
Indices: 108006056--108006181 Score: 236
Period size: 54 Copynumber: 2.3 Consensus size: 54
108006046 TGCTGTAGGA
108006056 GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
1 GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
108006110 GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
1 GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
108006164 GGCTTTGCAACT-GGACCA
1 GGCTTTGCAA-TAGGACCA
108006182 TGGTGATAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 70 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.36, T:0.17
Consensus pattern (54 bp):
GGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATCCTGTGGGT
Found at i:108010697 original size:17 final size:16
Alignment explanation
Indices: 108010675--108010721 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
108010665 TAAATTCAAT
108010675 TTAAATATTAAAAAAA
1 TTAAATATTAAAAAAA
108010691 TTAAA-ATTAAATTAAAA
1 TTAAATATTAAA--AAAA
*
108010708 TTAAATTTTAAAAA
1 TTAAATATTAAAAA
108010722 TATATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 9 0.33
18 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATATTAAAAAAA
Found at i:108010702 original size:11 final size:11
Alignment explanation
Indices: 108010688--108010714 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
108010678 AATATTAAAA
108010688 AAATTAAAATT
1 AAATTAAAATT
108010699 AAATTAAAATT
1 AAATTAAAATT
108010710 AAATT
1 AAATT
108010715 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:108010712 original size:33 final size:34
Alignment explanation
Indices: 108010664--108010731 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
108010654 TCGACTTTGT
* *
108010664 TTAAATTCAATTTAAATATTAAAAAAAT-TAAAA
1 TTAAATTAAAATTAAATATTAAAAAAATATAAAA
* *
108010697 TTAAATTAAAATTAAATTTTAAAAATATATAAAA
1 TTAAATTAAAATTAAATATTAAAAAAATATAAAA
108010731 T
1 T
108010732 ATCAATAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
TTAAATTAAAATTAAATATTAAAAAAATATAAAA
Found at i:108025046 original size:17 final size:17
Alignment explanation
Indices: 108025014--108025047 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
108025004 TAGTAAAATA
*
108025014 TTAAAAAAATAAATATC
1 TTAAAAAAAGAAATATC
*
108025031 TTAAAAAAAGAGATATC
1 TTAAAAAAAGAAATATC
108025048 AGTTTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAAAAAAAGAAATATC
Found at i:108029029 original size:30 final size:30
Alignment explanation
Indices: 108028995--108029053 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
108028985 CGATTTTTGA
* *
108028995 GCCTAGGGGTAAAATGGTCATTTTGCCAAG
1 GCCTAGGGGCAAAATGGTCATTTTACCAAG
108029025 GCCTAGGGGCAAAATGGTCATTTTACCAA
1 GCCTAGGGGCAAAATGGTCATTTTACCAA
108029054 AGTTGTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (30 bp):
GCCTAGGGGCAAAATGGTCATTTTACCAAG
Found at i:108029545 original size:47 final size:45
Alignment explanation
Indices: 108029494--108029654 Score: 155
Period size: 44 Copynumber: 3.5 Consensus size: 45
108029484 GAGTGCCAAA
108029494 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGG-CTCGA-AAAGATAGCTAGT
* * ** * *
108029541 GTAAGACGTGTCTGGGACACGCATCGGCT--AGGAGTTATGCTAAT
1 GTAAGACATGTCTGGGACATGCATCGGCTCGAAAAGATA-GCTAGT
* * * *
108029585 GTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCTCG-A-AAA-GATAGCTAGT
108029633 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
108029655 ACATTGGCAA
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 31 0.34
46 2 0.02
47 26 0.29
48 11 0.12
49 17 0.19
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCTCGAAAAGATAGCTAGT
Found at i:108030289 original size:12 final size:12
Alignment explanation
Indices: 108030272--108030303 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
108030262 GTAGGTTGCG
108030272 CAAAATGGGTGA
1 CAAAATGGGTGA
108030284 CAAAATGGGTGA
1 CAAAATGGGTGA
108030296 CAAAATGG
1 CAAAATGG
108030304 CTTGGGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.31, T:0.16
Consensus pattern (12 bp):
CAAAATGGGTGA
Found at i:108038053 original size:40 final size:40
Alignment explanation
Indices: 108037819--108038046 Score: 259
Period size: 39 Copynumber: 5.7 Consensus size: 40
108037809 TGTTCGGATG
* *
108037819 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
108037859 A-AATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
108037897 GATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * ** *
108037936 GATATCCGGGTTAAGTCCCGAAGGCATTCATGTGAGTTACT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
108037977 ATAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
108038018 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
108038047 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 70 0.42
40 56 0.34
41 38 0.23
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:108038060 original size:81 final size:78
Alignment explanation
Indices: 108037823--108038065 Score: 255
Period size: 81 Copynumber: 3.1 Consensus size: 78
108037813 CGGATGATAA
* *
108037823 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AATCCGGGCTAAG-CCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGC-ATT
*
108037886 GTGCGAGTTG-TGATAT
64 -TGCGAGTAGCT-ATAT
* * * *
108037902 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GTGATATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATT-
*
108037965 ATGTGAGTTA-CTATAAT
64 -TGCGAG-TAGCTAT-AT
* *
108037982 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
108038047 AACGAGTAGCTATAT
66 --CGAGTAGCTATAT
108038062 CCGG
1 CCGG
108038066 TTAAACTCCG
Statistics
Matches: 136, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
77 1 0.01
78 32 0.24
79 29 0.21
80 21 0.15
81 52 0.38
82 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
CGAGTAGCTATAT
Found at i:108043753 original size:22 final size:22
Alignment explanation
Indices: 108043713--108043754 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
108043703 TATTACTATT
*
108043713 ATTAGTCTTAGTATCTATTTTA
1 ATTAGTCTTAGTATATATTTTA
108043735 ATTAGTACTTA-TATATATTT
1 ATTAGT-CTTAGTATATATTT
108043755 GTACGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTAGTCTTAGTATATATTTTA
Found at i:108043922 original size:17 final size:16
Alignment explanation
Indices: 108043899--108043942 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
108043889 TCTTACTATT
108043899 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
108043916 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
108043931 GTATGTATATAT
1 GTATGTATATAT
108043943 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:108044065 original size:23 final size:22
Alignment explanation
Indices: 108044030--108044084 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
108044020 ATTTTAATAC
* *
108044030 TATATTATATATATATACATTTT
1 TATACTATATATACATAC-TTTT
*
108044053 TATACTATGTATACATACTTTT
1 TATACTATATATACATACTTTT
* *
108044075 AATATTATAT
1 TATACTATAT
108044085 TTTATATGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TATACTATATATACATACTTTT
Found at i:108044097 original size:27 final size:28
Alignment explanation
Indices: 108044067--108044119 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
108044057 CTATGTATAC
* * *
108044067 ATACTTTTAATATTATA-TTTTATATGT
1 ATACTCTTAACATCATATTTTTATATGT
108044094 ATACTCTTAACATCATATTTTTATAT
1 ATACTCTTAACATCATATTTTTATAT
108044120 ATATTATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (28 bp):
ATACTCTTAACATCATATTTTTATATGT
Found at i:108045225 original size:28 final size:28
Alignment explanation
Indices: 108045185--108045241 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
108045175 GGACCGACTG
108045185 AAAGCAGCATCAGACAGACAGAAGTCCT
1 AAAGCAGCATCAGACAGACAGAAGTCCT
108045213 AAAGCAGCATCAGACAGACAGAAGTCCT
1 AAAGCAGCATCAGACAGACAGAAGTCCT
108045241 A
1 A
108045242 GGCGTATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.11
Consensus pattern (28 bp):
AAAGCAGCATCAGACAGACAGAAGTCCT
Found at i:108047328 original size:34 final size:35
Alignment explanation
Indices: 108047281--108047347 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
108047271 GATTTTTGTG
*
108047281 ACTGCATATCTGTTACTAAGATGGGCTAAGGCCCC
1 ACTGCATATCTGTTACTAAGATGAGCTAAGGCCCC
* *
108047316 ACTGCTTA-CTGTTACTGAGATGAGCTAAGGCC
1 ACTGCATATCTGTTACTAAGATGAGCTAAGGCC
108047348 AAATTGATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (35 bp):
ACTGCATATCTGTTACTAAGATGAGCTAAGGCCCC
Found at i:108048271 original size:21 final size:21
Alignment explanation
Indices: 108048245--108048286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108048235 TTTTCCTAAC
*
108048245 ATGTGAAATGGATTGAATTGA
1 ATGTGAAATGGATTAAATTGA
* *
108048266 ATGTGAATTGTATTAAATTGA
1 ATGTGAAATGGATTAAATTGA
108048287 TATTAACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTGAAATGGATTAAATTGA
Found at i:108049330 original size:40 final size:40
Alignment explanation
Indices: 108049286--108049413 Score: 177
Period size: 40 Copynumber: 3.1 Consensus size: 40
108049276 TTAAGTCCGG
* * *
108049286 ATATAGTACCAGCACTAAGCCTGCGGAATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGG--AT
108049328 ATATATTACCAGCACGAAGCCTGCGGGATTTAA-CTAGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCT-GGAT
* *
108049368 ATATATTACCAGAACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGAT
108049408 ATATAT
1 ATATAT
108049414 ATTATATCGA
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
40 44 0.56
41 3 0.04
42 32 0.41
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGAT
Found at i:108049340 original size:42 final size:42
Alignment explanation
Indices: 108049286--108049417 Score: 189
Period size: 42 Copynumber: 3.2 Consensus size: 42
108049276 TTAAGTCCGG
* * *
108049286 ATATAGTACCAGCACTAAGCCTGCGGAATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
108049328 ATATATTACCAGCACGAAGCCTGCGGGATTTAA-CTAGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCT-GGATAT
* *
108049368 ATATATTACCAGAACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
108049410 ATATATTA
1 ATATATTA
108049418 TATCGAGAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
40 36 0.44
41 3 0.04
42 42 0.52
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
Found at i:108056918 original size:40 final size:39
Alignment explanation
Indices: 108056871--108057022 Score: 198
Period size: 40 Copynumber: 3.7 Consensus size: 39
108056861 TACTAGCTCA
* * * *
108056871 AAGCCTGCGGAACTTTAAGTCCGG-ATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGAATATATTACCAGCACG
108056911 AAGCCTGCGGGATTTAACCCGGATATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGG--A-ATATATTACCAGCACG
108056953 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGA-ATATATTACCAGCACG
108056993 AAGCCTGCGGGATTTAACCCGGATATATAT
1 AAGCCTGCGGGATTTAACCCGGA-ATATAT
108057023 ATTATATCGA
Statistics
Matches: 104, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
38 4 0.04
39 5 0.05
40 59 0.57
42 36 0.35
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (39 bp):
AAGCCTGCGGGATTTAACCCGGAATATATTACCAGCACG
Found at i:108056957 original size:42 final size:42
Alignment explanation
Indices: 108056895--108057026 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
108056885 TTAAGTCCGG
* *
108056895 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
108056937 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
108056977 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
108057019 ATATATTA
1 ATATATTA
108057027 TATCGAGAGC
Statistics
Matches: 86, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
40 40 0.47
42 46 0.53
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Done.