Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 26
Found at i:2911438 original size:16 final size:16
Alignment explanation
Indices: 2911417--2911448 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2911407 AACAAATAAG
2911417 CGAACATAAACGAACA
1 CGAACATAAACGAACA
2911433 CGAACATAAACGAACA
1 CGAACATAAACGAACA
2911449 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:2911549 original size:16 final size:16
Alignment explanation
Indices: 2911524--2911577 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
2911514 TAAATAAACG
*
2911524 TAAACGAACACGAACA
1 TAAACAAACACGAACA
2911540 TAAACAAACACGAACA
1 TAAACAAACACGAACA
**
2911556 TAAATGAACACGAACA
1 TAAACAAACACGAACA
2911572 TAAACA
1 TAAACA
2911578 GACATAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.59, C:0.22, G:0.09, T:0.09
Consensus pattern (16 bp):
TAAACAAACACGAACA
Found at i:2914013 original size:41 final size:37
Alignment explanation
Indices: 2913963--2914055 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 37
2913953 TAAAAATGTT
*
2913963 AAAGAAAAATAAAATAA-ATGAAGAAAATATTAAATTTCAGA
1 AAAGAAAAATAAAA-AATAT-AA-AAAATATTAAA-AT-AGA
*
2914004 AAAGAAAAATAATAAAATATAAAAAATGTTAAAATAGA
1 AAAGAAAAATAA-AAAATATAAAAAATATTAAAATAGA
*
2914042 AAATAAAAATAAAA
1 AAAGAAAAATAAAA
2914056 CAAAACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.04
38 14 0.30
39 1 0.02
40 10 0.21
41 16 0.34
42 4 0.09
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (37 bp):
AAAGAAAAATAAAAAATATAAAAAATATTAAAATAGA
Found at i:2914030 original size:17 final size:17
Alignment explanation
Indices: 2914008--2914055 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2913998 TTCAGAAAAG
*
2914008 AAAAATAATAAAATATA
1 AAAAATAATAAAATAGA
**
2914025 AAAAATGTTAAAATAGA
1 AAAAATAATAAAATAGA
*
2914042 AAATAAAAATAAAA
1 AAA-AATAATAAAA
2914056 CAAAACAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAAATAGA
Found at i:2914086 original size:21 final size:21
Alignment explanation
Indices: 2914062--2914107 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2914052 AAAACAAAAC
2914062 AAAACAAAATAATAAT-AAATA
1 AAAACAAAAT-ATAATGAAATA
**
2914083 AAAAGGAAATATAATGAAATA
1 AAAACAAAATATAATGAAATA
2914104 AAAA
1 AAAA
2914108 ATAATAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAACAAAATATAATGAAATA
Found at i:2914176 original size:18 final size:18
Alignment explanation
Indices: 2914153--2914195 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2914143 GTTGTTTTTA
*
2914153 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
2914171 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
2914189 AAATAAA
1 AAATAAA
2914196 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:2916157 original size:86 final size:86
Alignment explanation
Indices: 2916042--2916365 Score: 504
Period size: 86 Copynumber: 3.8 Consensus size: 86
2916032 CAGTCATAAT
* * *
2916042 TCTTTAGATGAATCCCCTTCACGGGAAAGCCAAGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
*
2916107 GGTTTGAACCAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
* * * * *
2916128 TCTTTGGATGACTCCCCTTCACGGTAAAGCCATGTGGTAAATTCCTCATGTGGTTCCCCTTTGCG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
2916193 GGTCTGAACCAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
* * *
2916214 TCTTTGGATGACTTCCATTCACGGGAAAGCCATGTGGTATATTCCTCATGTGGTTCCCCTTCGTG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
*
2916279 GGTCTGAACCAAGTTAGATGA
66 GGTCTGAACCAAGTGAGATGA
* * *
2916300 TCTTTGCATGACTCCCCTTCATGGGAAAGCCATGTGATATATTCCTCAGGTGGTTCCCCTTCGTG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
2916365 G
66 G
2916366 ATGAAAATGG
Statistics
Matches: 216, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 216 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (86 bp):
TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
GGTCTGAACCAAGTGAGATGA
Found at i:2918859 original size:3 final size:3
Alignment explanation
Indices: 2918847--2918895 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
2918837 CATCTTTTAA
2918847 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
2918892 TAT T
1 TAT T
2918896 GTATTTTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2919523 original size:9 final size:10
Alignment explanation
Indices: 2919495--2919522 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2919485 GTTTTCTTTA
2919495 AAAAAAAAAG
1 AAAAAAAAAG
2919505 AAAAAAAAAG
1 AAAAAAAAAG
2919515 AAAAAAAA
1 AAAAAAAA
2919523 GGAGAGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2919621 original size:165 final size:165
Alignment explanation
Indices: 2919344--2919659 Score: 605
Period size: 165 Copynumber: 1.9 Consensus size: 165
2919334 CTCGTCCATG
* *
2919344 AAAAGGAAAAAAAAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACTGGGGGGGCTTC
1 AAAAAGAAAAAAAAGGAGAGATTGAGATTTTTTGAAAGAAACAAATGGTAAACTGGGGGGGCTTC
2919409 ACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAAGTA
66 ACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAAGTA
2919474 ATGCAAAAAGGGTTTTCTTTAAAAAAAAAAGAAAA
131 ATGCAAAAAGGGTTTTCTTTAAAAAAAAAAGAAAA
2919509 AAAAAGAAAAAAAAGGAGAGATTGAGATTTTTTGAAAGAAACAAATGGTAAACTGGGGGGGCTTC
1 AAAAAGAAAAAAAAGGAGAGATTGAGATTTTTTGAAAGAAACAAATGGTAAACTGGGGGGGCTTC
2919574 ACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAAGTA
66 ACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAAGTA
*
2919639 ATGCAAAAGGGGTTTTCTTTA
131 ATGCAAAAAGGGTTTTCTTTA
2919660 TTTCTTTCAA
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 148 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (165 bp):
AAAAAGAAAAAAAAGGAGAGATTGAGATTTTTTGAAAGAAACAAATGGTAAACTGGGGGGGCTTC
ACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAAGTA
ATGCAAAAAGGGTTTTCTTTAAAAAAAAAAGAAAA
Found at i:2924083 original size:21 final size:21
Alignment explanation
Indices: 2924059--2924104 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
2924049 AAATGATTGA
2924059 TGAAGCAAGGAAGTTCCAAGT
1 TGAAGCAAGGAAGTTCCAAGT
*
2924080 TGAAGCAATGAAGTTCCAAGT
1 TGAAGCAAGGAAGTTCCAAGT
2924101 TGAA
1 TGAA
2924105 TCTAGGGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (21 bp):
TGAAGCAAGGAAGTTCCAAGT
Found at i:2924303 original size:72 final size:72
Alignment explanation
Indices: 2924186--2924336 Score: 248
Period size: 72 Copynumber: 2.1 Consensus size: 72
2924176 CCCTATTACA
* * * *
2924186 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAATGGTGCAACCAATGTGATGATAGC
2924251 AAATGAT
66 AAATGAT
*
2924258 CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAATGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAATGGTGCAACCAATGTGATGATAGC
*
2924323 AACTGAT
66 AAATGAT
2924330 CAAGAAC
1 CAAGAAC
2924337 CTGTTAGGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTAAATGTTAATGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:2929144 original size:42 final size:42
Alignment explanation
Indices: 2929097--2929362 Score: 406
Period size: 42 Copynumber: 6.3 Consensus size: 42
2929087 CCGAAATTTA
* *
2929097 TAAATCCTTCGGTTCATCAGTAAGTCTTCCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
2929139 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
2929181 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
**
2929223 TAAATCCTTCGGGTCATTTGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* * *
2929265 TAAATCCTTTGGGTCATCCGTAATTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* * *
2929307 TAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCATGATGAT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* *
2929349 TAAGTCCTCCGGGT
1 TAAATCCTTCGGGT
2929363 AATCTAAAGC
Statistics
Matches: 207, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 207 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
Found at i:2929412 original size:37 final size:37
Alignment explanation
Indices: 2929369--2929625 Score: 194
Period size: 37 Copynumber: 6.8 Consensus size: 37
2929359 GGGTAATCTA
*
2929369 AAGCCTTCACCAAAGAGTGGTGAAGCAAATCCATCAT
1 AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAT
*** *
2929406 AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCAT
1 AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAT
* * *
2929443 AAGCCTTCACGAAAGAATAGTGAAGCAGATCCATCAGT
1 AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCA-T
* * * *** **** *
2929481 AAGCCTTCCGAGCATGACGATTAAGT-CCTCCGGGCAATC-T
1 AAGCCTT-C-ACCA--AAGAGT-AGTGAAGCAAATCCATCAT
* * **
2929521 AAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATTTT
1 -AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAT
* * *
2929559 AAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCTT
1 AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAT
*
2929596 AAGCCTTCACAAAAGAGTAGTGAAGCAAAT
1 AAGCCTTCACCAAAGAGTAGTGAAGCAAAT
2929626 TCAGATCTGA
Statistics
Matches: 175, Mismatches: 36, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
36 3 0.02
37 136 0.78
38 9 0.05
39 3 0.02
40 4 0.02
41 7 0.04
42 10 0.06
43 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (37 bp):
AAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAT
Found at i:2929604 original size:153 final size:153
Alignment explanation
Indices: 2929321--2929622 Score: 442
Period size: 153 Copynumber: 2.0 Consensus size: 153
2929311 TCCTTCGGGT
* * * *
2929321 CATCTGTAAGCCTTTCGAGCATGATGATTAAGTCCTCCGGGTAATCTAAAGCCTTCACCAAAGAG
1 CATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCAAAGAG
* * *** * * *
2929386 TGGTGAAGCAAATCCATCATAAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCATAAGCCTTC
66 TAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCTTC
*
2929451 ACGAAAGAATAGTGAAGCAGATC
131 ACAAAAGAATAGTGAAGCAGATC
*
2929474 CATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCGAAGAG
1 CATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCAAAGAG
** *
2929539 TAGTGAAGCAAATCAATTTTAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCTTAAGCCTTC
66 TAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCTTC
*
2929604 ACAAAAGAGTAGTGAAGCA
131 ACAAAAGAATAGTGAAGCA
2929623 AATTCAGATC
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 131 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (153 bp):
CATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCAAAGAG
TAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCTTC
ACAAAAGAATAGTGAAGCAGATC
Found at i:2929832 original size:111 final size:111
Alignment explanation
Indices: 2929627--2930210 Score: 840
Period size: 111 Copynumber: 5.3 Consensus size: 111
2929617 GAAGCAAATT
* *
2929627 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTTTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
* * *
2929692 AGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCC
66 AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
*
2929738 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCATGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
* * * *
2929803 AGTGACAGCGAAACAAGTCTACTCTGATTCATTGAATCAGCTTTCC
66 AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
* * ** * *
2929849 CAGATCTGATATTCCCTTAGAAGAAGATGAATAGA--TCTCTCTTTCAAGATTTAATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
*
2929912 AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
66 AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
* * *
2929958 CAGATCTAATATTCCCTCAGAGGAAGCAGAACAAATCT-T-TCTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
2930021 AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
66 AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
* * * *
2930067 CAGATCTGATATTTCCTCAGAAGAAGCGGAACAAATC-CTTCTTTTTCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTC-TCTCTTTCAAGATTTGATATTCCCT
* * *
2930131 GAGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCC
65 GAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
*
2930178 CAGATCAGATATTCCCT--GAGTGAGAGCGGAACA
1 CAGATCTGATATTCCCTCAGAG-GA-AGCGGAACA
2930211 AGTCTACTCT
Statistics
Matches: 426, Mismatches: 40, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
109 200 0.47
110 4 0.01
111 222 0.52
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (111 bp):
CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
AGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCC
Found at i:2930116 original size:220 final size:221
Alignment explanation
Indices: 2929627--2930194 Score: 892
Period size: 220 Copynumber: 2.6 Consensus size: 221
2929617 GAAGCAAATT
*
2929627 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTTTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAAGAAGCGGAACAGAT-CCTCTTTTTCAAGATTTGATATTCCCTG
*
2929692 AGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCA
65 AGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCA
* * *
2929757 GAGGAAGCGGAACAGATCTCTCTCTTTCATGATTTGATATTCCCTGAGTGACAGCGAAACAAGTC
130 GAGGAAGCAGAACAAATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTC
* * *
2929822 TACTCTGATTCATTGAATCAGCTTTCC
195 TACCCTGATTCAATGAATCAACTTTCC
* ** * * *
2929849 CAGATCTGATATTCCCTTAGAAGAAGATGAATAGAT-CTCTCTTTCAAGATTTAATATTCCCTGA
1 CAGATCTGATATTCCCTCAGAAGAAGCGGAACAGATCCTCTTTTTCAAGATTTGATATTCCCTGA
* * * *
2929913 GTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAG
66 GTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAG
*
2929978 AGGAAGCAGAACAAATCT-T-TCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
131 AGGAAGCAGAACAAATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCT
2930041 ACCCTGATTCAATGAATCAACTTTCC
196 ACCCTGATTCAATGAATCAACTTTCC
* *
2930067 CAGATCTGATATTTCCTCAGAAGAAGCGGAACAAATCCTTCTTTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAAGAAGCGGAACAGATCC-TCTTTTTCAAGATTTGATATTCCCTG
2930132 AGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATC-AGATATTCCCT
65 AGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCTA-ATATTCCCT
2930195 GAGTGAGAGC
Statistics
Matches: 312, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
218 95 0.30
219 3 0.01
220 183 0.59
222 31 0.10
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (221 bp):
CAGATCTGATATTCCCTCAGAAGAAGCGGAACAGATCCTCTTTTTCAAGATTTGATATTCCCTGA
GTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAG
AGGAAGCAGAACAAATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCT
ACCCTGATTCAATGAATCAACTTTCC
Found at i:2930225 original size:64 final size:64
Alignment explanation
Indices: 2930121--2930258 Score: 204
Period size: 64 Copynumber: 2.2 Consensus size: 64
2930111 TTCAAGATTT
*
2930121 GATATTCCCTGAGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCA
1 GATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATCA
* * * * * * *
2930185 GATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCT
1 GATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATCA
2930249 GATATTCCCT
1 GATATTCCCT
2930259 CAGAGGAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (64 bp):
GATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATCA
Found at i:2930256 original size:284 final size:282
Alignment explanation
Indices: 2929902--2930476 Score: 936
Period size: 284 Copynumber: 2.0 Consensus size: 282
2929892 TCAAGATTTA
2929902 ATATTCCCTGAGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAA
1 ATATTCCCTGAGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAA
* *
2929967 TATTCCCTCAGAGGAAGCA-GAACAAATCTTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCG
66 TATTCCCTCAGAGGAAG-AGGAACAAATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACG
* *
2930031 GAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTGATATTTCCTCAGAAGAAGCGG
130 GAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAAGAAGCGG
*
2930096 AACAAATCCTTCTTTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCTGCCCCGATT
195 AACAAATCCTTC--TTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATT
2930161 CAATGAATCAACTTTCCCAGATCAG
258 CAATGAATCAACTTTCCCAGATCAG
* * * *
2930186 ATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTGA
1 ATATTCCCTGAGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAA
* *
2930251 TATTCCCTCAGAGGAAGAGGAATAGATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACGG
66 TATTCCCTCAGAGGAAGAGGAACAAATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACGG
* *
2930316 AACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCGGA
131 AACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAAGAAGCGGA
* * * * *
2930381 ATAGATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTTTACCCTGATTCAA
196 ACAAATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAA
* *
2930446 TGAATCAACTTTCCCATATCTG
261 TGAATCAACTTTCCCAGATCAG
2930468 ATATTCCCT
1 ATATTCCCT
2930477 CAGAAGAAGC
Statistics
Matches: 270, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
282 79 0.29
283 1 0.00
284 190 0.70
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (282 bp):
ATATTCCCTGAGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAA
TATTCCCTCAGAGGAAGAGGAACAAATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACGG
AACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAAGAAGCGGA
ACAAATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAA
TGAATCAACTTTCCCAGATCAG
Found at i:2930367 original size:173 final size:175
Alignment explanation
Indices: 2930010--2930367 Score: 551
Period size: 175 Copynumber: 2.1 Consensus size: 175
2930000 TTCAAGATTT
2930010 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
* * * *
2930075 ATATTTCCTCAGAAGAAGCGGAACAAATCCTTCTTTTTCAAGATTTGATATTCCCTGAGTGACAG
66 ATATTCCCTCAGAAGAAGAGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTGACAA
*
2930140 CGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGATCA
131 CGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATCA
* * * *
2930185 GATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
* * *
2930250 ATATTCCCTCAGAGGAAGAGGAATAGAT-C-TCTCTTTCAAGATTTGATATTCCCTGAGTGACAA
66 ATATTCCCTCAGAAGAAGAGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTGACAA
* * *
2930313 CGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTA
131 CGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATC-A
2930359 -ATATTCCCT
1 GATATTCCCT
2930368 CAGAGGAAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
173 81 0.49
174 2 0.01
175 84 0.50
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (175 bp):
GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
ATATTCCCTCAGAAGAAGAGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTGACAA
CGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGATCA
Found at i:2930405 original size:393 final size:392
Alignment explanation
Indices: 2929792--2930604 Score: 1412
Period size: 393 Copynumber: 2.1 Consensus size: 392
2929782 TTCATGATTT
*
2929792 GATATTCCCTGAGTGACAGCGAAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
1 GATATTCCCTGAGTGA-AGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
* * *
2929857 ATATTCCCTTAGAAGAAGATGAATAGATCTCTCTTTCAAGATTTAATATTCCCTGAGTGACAGCG
65 ATATTCCCTCAGAAGAAGAGGAATAGATCTCTCTTTCAAGATTTAATATTCCCTGAGTGACAACG
2929922 GAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCAG
130 GAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCAG
*
2929987 AACAAATCTTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCA
195 AACAAATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCA
* *
2930052 ATGAATCAACTTTCCCAGATCTGATATTTCCTCAGAAGAAGCGGAACAAATCCTTCTTTTTCAAG
260 ATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGCGGAACAAATCCTTCTCTTTCAAG
*
2930117 ATTTGATATTCCCTGAGTGACAGCGGAACAAATCTGCCCCGATTCAATGAATCAACTTTCCCAGA
325 ATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGA
2930182 TCA
390 TCA
2930185 GATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
1 GATATTCCCTGAGTGA-AGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
* *
2930250 ATATTCCCTCAGAGGAAGAGGAATAGATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACG
65 ATATTCCCTCAGAAGAAGAGGAATAGATCTCTCTTTCAAGATTTAATATTCCCTGAGTGACAACG
*
2930315 GAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCGG
130 GAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCAG
* * *
2930380 AATAGATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTTTACCCTGATTCA
195 AACAAATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCA
* *
2930445 ATGAATCAACTTTCCCATATCTGATATTCCCTCAGAAGAAGCGGAACAGATCCTTCTCTTTCAAG
260 ATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGCGGAACAAATCCTTCTCTTTCAAG
* *
2930510 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGA
325 ATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGA
*
2930575 TCT
390 TCA
2930578 GATATTCCCTCAGAG-GAAGCGGAACAA
1 GATATTCCCT--GAGTGAAGCGGAACAA
2930605 ATCCATCTCT
Statistics
Matches: 398, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
393 393 0.99
394 2 0.01
395 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (392 bp):
GATATTCCCTGAGTGAAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTGA
TATTCCCTCAGAAGAAGAGGAATAGATCTCTCTTTCAAGATTTAATATTCCCTGAGTGACAACGG
AACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCAGA
ACAAATCCTTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAA
TGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGCGGAACAAATCCTTCTCTTTCAAGA
TTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGAATCAACTTTCCCAGAT
CA
Found at i:2930558 original size:111 final size:110
Alignment explanation
Indices: 2930185--2930664 Score: 793
Period size: 109 Copynumber: 4.4 Consensus size: 110
2930175 TCCCAGATCA
* * * *
2930185 GATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
* *
2930250 ATATTCCCTCAGAGGAAGAGGAATAGAT-CTCTCTTTCAAGATTT
66 ATATTCCCTCAGAGGAAGCGGAACAGATCCTCTCTTTCAAGATTT
* * *
2930294 GATATTCCCTGAGTGACAACGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTA
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
*
2930359 ATATTCCCTCAGAGGAAGCGGAATAGATCCT-TCTTTCAAGATTT
66 ATATTCCCTCAGAGGAAGCGGAACAGATCCTCTCTTTCAAGATTT
* *
2930403 GATATTCCCTGAGTGACAGCGGAACAAGTTTACCCTGATTCAATGAATCAACTTTCCCATATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
*
2930468 ATATTCCCTCAGAAGAAGCGGAACAGATCCTTCTCTTTCAAGATTT
66 ATATTCCCTCAGAGGAAGCGGAACAGATCC-TCTCTTTCAAGATTT
2930514 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
*
2930579 ATATTCCCTCAGAGGAAGCGGAACAAATCCATCTCTTTCAAGATTT
66 ATATTCCCTCAGAGGAAGCGGAACAGATCC-TCTCTTTCAAGATTT
*
2930625 GATATTCCTTGAGTGACAGCGGAACAAGTCTACCCTGATT
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATT
2930665 TAATCTTCCC
Statistics
Matches: 349, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
109 188 0.54
110 3 0.01
111 158 0.45
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (110 bp):
GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
ATATTCCCTCAGAGGAAGCGGAACAGATCCTCTCTTTCAAGATTT
Found at i:2930569 original size:220 final size:220
Alignment explanation
Indices: 2930185--2930664 Score: 793
Period size: 220 Copynumber: 2.2 Consensus size: 220
2930175 TCCCAGATCA
* * * *
2930185 GATATTCCCTGAGTGAGAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCCCAGATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
* *
2930250 ATATTCCCTCAGAGGAAGAGGAATAGATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACG
66 ATATTCCCTCAGAAGAAGAGGAACAGATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACG
*
2930315 GAACAAGTCTACTCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCGG
131 GAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCGG
* *
2930380 AATAGATCC-T-TCTTTCAAGATTT
196 AACAAATCCATCTCTTTCAAGATTT
* *
2930403 GATATTCCCTGAGTGACAGCGGAACAAGTTTACCCTGATTCAATGAATCAACTTTCCCATATCTG
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
* *
2930468 ATATTCCCTCAGAAGAAGCGGAACAGATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTGACAG
66 ATATTCCCTCAGAAGAAGAGGAACAGAT-C-TCTCTTTCAAGATTTGATATTCCCTGAGTGACAA
*
2930533 CGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGC
129 CGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGC
2930598 GGAACAAATCCATCTCTTTCAAGATTT
194 GGAACAAATCCATCTCTTTCAAGATTT
*
2930625 GATATTCCTTGAGTGACAGCGGAACAAGTCTACCCTGATT
1 GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATT
2930665 TAATCTTCCC
Statistics
Matches: 242, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
218 84 0.35
219 1 0.00
220 105 0.43
221 1 0.00
222 51 0.21
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (220 bp):
GATATTCCCTGAGTGACAGCGGAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTG
ATATTCCCTCAGAAGAAGAGGAACAGATCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAACG
GAACAAGTCTACCCTGATTCAATGAATCAACTTTCCCAGATCTAATATTCCCTCAGAGGAAGCGG
AACAAATCCATCTCTTTCAAGATTT
Found at i:2930890 original size:3 final size:3
Alignment explanation
Indices: 2930878--2930926 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
2930868 CGTCTTTTAA
2930878 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
2930923 TAT T
1 TAT T
2930927 GTATTTTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2931325 original size:26 final size:26
Alignment explanation
Indices: 2931296--2931348 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2931286 ACCTATTCTC
2931296 ACCTAAAGCTATCAACATGCAACAAA
1 ACCTAAAGCTATCAACATGCAACAAA
2931322 ACCTAAAGCTATCAACATGCAACAAA
1 ACCTAAAGCTATCAACATGCAACAAA
2931348 A
1 A
2931349 GGACAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.26, G:0.08, T:0.15
Consensus pattern (26 bp):
ACCTAAAGCTATCAACATGCAACAAA
Found at i:2931568 original size:9 final size:9
Alignment explanation
Indices: 2931554--2931579 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2931544 GTTTTCTTTA
2931554 AAAAAAAAG
1 AAAAAAAAG
2931563 AAAAAAAAG
1 AAAAAAAAG
2931572 AAAAAAAA
1 AAAAAAAA
2931580 AAGGAGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2931602 original size:164 final size:166
Alignment explanation
Indices: 2931401--2931718 Score: 586
Period size: 165 Copynumber: 1.9 Consensus size: 166
2931391 CTCGTCCATG
* *
2931401 AAAAGGAAAAAAAGAGAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACT-GGGGGGC
1 AAAAAGAAAAAAAGAAAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACTGGGGGGGC
* *
2931465 TTCACCTTCGAAACCTAAAAAATGTAAGCAGATGAGTTTCCTCTGATTCTTGTCGATAAGAACAA
66 TTCACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAA
2931530 GTAATGCAAAAGGGGTTTTCTTTAAAAAAAAAGAAA
131 GTAATGCAAAAGGGGTTTTCTTTAAAAAAAAAGAAA
2931566 AAAAAGAAAAAAA-AAAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACTGGGGGGGC
1 AAAAAGAAAAAAAGAAAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACTGGGGGGGC
2931630 TTCACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAA
66 TTCACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAA
2931695 GTAATGCAAAAGGGGTTTTCTTTA
131 GTAATGCAAAAGGGGTTTTCTTTA
2931719 TTTCTTTCAA
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
164 42 0.28
165 106 0.72
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (166 bp):
AAAAAGAAAAAAAGAAAGGAGAGATTGAGATTTTTTGAGAGAAACAAATGGTAAACTGGGGGGGC
TTCACCTTCGAAACATAAAAAATGTAAGCAGAGGAGTTTCCTCTGATTCTTGTCGATAAGAACAA
GTAATGCAAAAGGGGTTTTCTTTAAAAAAAAAGAAA
Found at i:2937328 original size:15 final size:17
Alignment explanation
Indices: 2937310--2937343 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2937300 AAAATTATAA
2937310 ATTTATC-AATT-TTTT
1 ATTTATCAAATTATTTT
2937325 ATTTATCAAATTATTTT
1 ATTTATCAAATTATTTT
2937342 AT
1 AT
2937344 ACATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTATCAAATTATTTT
Found at i:2942471 original size:16 final size:17
Alignment explanation
Indices: 2942445--2942476 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2942435 AATTTAGAAC
2942445 AAAATTAAAAATTATTT
1 AAAATTAAAAATTATTT
2942462 AAAA-TAAAAATTATT
1 AAAATTAAAAATTATT
2942477 GTACTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTAAAAATTATTT
Found at i:2953393 original size:17 final size:17
Alignment explanation
Indices: 2953360--2953480 Score: 125
Period size: 17 Copynumber: 7.1 Consensus size: 17
2953350 TGCATAAGGT
* *
2953360 TAGTTCATTGATTAAAC
1 TAGTTCATTCATCAAAC
*
2953377 TAGTTAATTCATCAAAC
1 TAGTTCATTCATCAAAC
* * *
2953394 TAGTTCATTGATAAAAT
1 TAGTTCATTCATCAAAC
2953411 TAGTTCATTCATCAAAC
1 TAGTTCATTCATCAAAC
* *
2953428 TAGTTTATTAATCAAAC
1 TAGTTCATTCATCAAAC
* * *
2953445 TAGTGCATTAATTAAAC
1 TAGTTCATTCATCAAAC
* *
2953462 TAGTTAATTCATTAAAC
1 TAGTTCATTCATCAAAC
2953479 TA
1 TA
2953481 ATAAAACTAG
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 86 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (17 bp):
TAGTTCATTCATCAAAC
Found at i:2953399 original size:34 final size:34
Alignment explanation
Indices: 2953360--2953480 Score: 143
Period size: 34 Copynumber: 3.6 Consensus size: 34
2953350 TGCATAAGGT
*
2953360 TAGTTCATTGATTAAACTAGTTAATTCATCAAAC
1 TAGTTCATTGATTAAACTAGTTCATTCATCAAAC
* *
2953394 TAGTTCATTGATAAAATTAGTTCATTCATCAAAC
1 TAGTTCATTGATTAAACTAGTTCATTCATCAAAC
* * * * * *
2953428 TAGTTTATTAATCAAACTAGTGCATTAATTAAAC
1 TAGTTCATTGATTAAACTAGTTCATTCATCAAAC
* *
2953462 TAGTTAATTCATTAAACTA
1 TAGTTCATTGATTAAACTA
2953481 ATAAAACTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 74 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (34 bp):
TAGTTCATTGATTAAACTAGTTCATTCATCAAAC
Found at i:2953418 original size:51 final size:51
Alignment explanation
Indices: 2953343--2953480 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 51
2953333 TAAGTCAGCA
** * *
2953343 AGTTCATTGCATAAGGTTAGTTCATTGATTAAACTAGTTAATTCATCAAACT
1 AGTTCATTG-ATAAAATTAGTTCATTCATTAAACTAGTTAATTAATCAAACT
* *
2953395 AGTTCATTGATAAAATTAGTTCATTCATCAAACTAGTTTATTAATCAAACT
1 AGTTCATTGATAAAATTAGTTCATTCATTAAACTAGTTAATTAATCAAACT
* * * * *
2953446 AGTGCATTAATTAAACTAGTTAATTCATTAAACTA
1 AGTTCATTGATAAAATTAGTTCATTCATTAAACTA
2953481 ATAAAACTAG
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 65 0.88
52 9 0.12
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (51 bp):
AGTTCATTGATAAAATTAGTTCATTCATTAAACTAGTTAATTAATCAAACT
Found at i:2959835 original size:2 final size:2
Alignment explanation
Indices: 2959828--2959853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2959818 ATTCTTCAAT
2959828 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2959854 AACACGTCTA
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):
TA
Found at i:2960524 original size:54 final size:53
Alignment explanation
Indices: 2960481--2961068 Score: 752
Period size: 54 Copynumber: 11.0 Consensus size: 53
2960471 ACGTAATGCA
* * *
2960481 GATATGGTCATTCATAAGCTTATTATGAATATCGTGGGTTGCACACTTAGTGTC
1 GATACGGTCGTTCATAAACTTATTATGAAT-TCGTGGGTTGCACACTTAGTGTC
* *
2960535 GATACAGTCATTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
1 GATACGGTCGTTCATAAACTTATTATGAA-TTCGTGGGTTGCACACTTAGTGTC
* * *
2960589 GATACGGTCATTCATAAACTTATTATGAATTATGTGGGTTGCACACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATT-CGTGGGTTGCACACTTAGTGTC
* * * * * *
2960643 AATACGGTCGTTCATAACCATATTATGGATTCTGTGAGTTGCACACCTAGTGTC
1 GATACGGTCGTTCATAAACTTATTATGAATTC-GTGGGTTGCACACTTAGTGTC
* **
2960697 GATATGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTACC
1 GATACGGTCGTTCATAAACTTATTATGAATT-CGTGGGTTGCACACTTAGTGTC
* *
2960751 GATACGGTTGTTCATAAACTTATTATGAATTTCGTGGGTTGCACAC----TGCC
1 GATACGGTCGTTCATAAACTTATTATGAA-TTCGTGGGTTGCACACTTAGTGTC
* * *
2960801 GATACGGTCATTCATAAACTTATTATGAATTCCGTGGGTTGCACACATAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATT-CGTGGGTTGCACACTTAGTGTC
* *
2960855 GATAAGGTCGTTCATAAACTTATTACGAATTCTGTGGGTTGCACACTTAGTGTC
1 GATACGGTCGTTCATAAACTTATTATGAATTC-GTGGGTTGCACACTTAGTGTC
2960909 GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC
1 GATACGGTCGTTCATAAACTTATTATGAA-TTCGTGGGTTGCACACTTAGTGTC
* ** * * **
2960963 GATACGGTCGTTCATAAACTTATTATTAATTATATGGGTTCCACACTTAATACC
1 GATACGGTCGTTCATAAACTTATTATGAATT-CGTGGGTTGCACACTTAGTGTC
* *
2961017 GATACGTTCGTTCATAAACTTATTATGAATTACGTGGGTTTCACACTTAGTG
1 GATACGGTCGTTCATAAACTTATTATGAATT-CGTGGGTTGCACACTTAGTG
2961069 CCAATAGTAA
Statistics
Matches: 471, Mismatches: 50, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.00
50 44 0.09
53 5 0.01
54 413 0.88
55 7 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (53 bp):
GATACGGTCGTTCATAAACTTATTATGAATTCGTGGGTTGCACACTTAGTGTC
Found at i:2960952 original size:266 final size:266
Alignment explanation
Indices: 2960491--2961063 Score: 835
Period size: 266 Copynumber: 2.1 Consensus size: 266
2960481 GATATGGTCA
* * *
2960491 TTCATAAGCTTATTATGAATATCGTGGGTTGCACACTTAGTGTCGATACAGTCATTCATAAACTT
1 TTCATAAACTTATTATGAATTTCGTGGGTTGCACAC----TGCCGATACAGTCATTCATAAACTT
* * * * *
2960556 ATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTA
62 ATTATGAATTCCGTGGGTTGCACACATAGTGCCGATAAGGTCATTCATAAACTTATTACGAATTA
* *
2960621 TGTGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAACCATATTATGGATTCTGTGAGTTGCA
127 TGTGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCTGTGAGTTGCA
* * * * *
2960686 CACCTAGTGTCGATATGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTACC
192 CACCTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTACATGGGTTCCACACTTAATACC
2960751 GATACGGTT-G
257 GATAC-GTTCG
*
2960761 TTCATAAACTTATTATGAATTTCGTGGGTTGCACACTGCCGATACGGTCATTCATAAACTTATTA
1 TTCATAAACTTATTATGAATTTCGTGGGTTGCACACTGCCGATACAGTCATTCATAAACTTATTA
* *
2960826 TGAATTCCGTGGGTTGCACACATAGTGCCGATAAGGTCGTTCATAAACTTATTACGAATTCTGTG
66 TGAATTCCGTGGGTTGCACACATAGTGCCGATAAGGTCATTCATAAACTTATTACGAATTATGTG
* * * *
2960891 GGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATT-TCGTGGGTTGCACAC
131 GGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCT-GTGAGTTGCACAC
* * *
2960955 TTAGTGTCGATACGGTCGTTCATAAACTTATTATTAATTATATGGGTTCCACACTTAATACCGAT
195 CTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTACATGGGTTCCACACTTAATACCGAT
2961020 ACGTTCG
260 ACGTTCG
* *
2961027 TTCATAAACTTATTATGAATTACGTGGGTTTCACACT
1 TTCATAAACTTATTATGAATTTCGTGGGTTGCACACT
2961064 TAGTGCCAAT
Statistics
Matches: 274, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
265 4 0.01
266 236 0.86
270 34 0.12
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (266 bp):
TTCATAAACTTATTATGAATTTCGTGGGTTGCACACTGCCGATACAGTCATTCATAAACTTATTA
TGAATTCCGTGGGTTGCACACATAGTGCCGATAAGGTCATTCATAAACTTATTACGAATTATGTG
GGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCTGTGAGTTGCACACC
TAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTACATGGGTTCCACACTTAATACCGATA
CGTTCG
Found at i:2961197 original size:84 final size:84
Alignment explanation
Indices: 2961099--2961266 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
2961089 GATATAAAAA
2961099 TGCAACATATGCATTTTACAACATGAACCTATAACTCTTAATGTACATAATAAATGCACTCACCT
1 TGCAACATATGCATTTTACAACATGAACCTATAACTCTTAATGTACATAATAAATGCACTCACCT
2961164 GGTTTGCCTTACTAAAATG
66 GGTTTGCCTTACTAAAATG
*
2961183 TGCAACATATGCATTTTACAACATGCACCTATAACTCTTAATGTACATAATAAATGCACTCACCT
1 TGCAACATATGCATTTTACAACATGAACCTATAACTCTTAATGTACATAATAAATGCACTCACCT
2961248 GGTTTGCCTTACTAAAATG
66 GGTTTGCCTTACTAAAATG
2961267 CTCAAATGTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (84 bp):
TGCAACATATGCATTTTACAACATGAACCTATAACTCTTAATGTACATAATAAATGCACTCACCT
GGTTTGCCTTACTAAAATG
Found at i:2966619 original size:54 final size:54
Alignment explanation
Indices: 2966543--2967168 Score: 790
Period size: 54 Copynumber: 11.6 Consensus size: 54
2966533 TTTTCATAAC
* * * * * * * *
2966543 ATTAT-AATTTCTTTGGGGTGCACACGTAGTGCCAATACAGTCATTCATAAGCTC
1 ATTATGAA-TTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
** * *
2966597 ATTATGAATTCTGTGGGTTGCACACTTAGCACCGATATGGTCATTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* *
2966651 ATTATGAATT-TCGTGGGTTGCACATTTAGTGCCTATACGGTCGTTCATAAACTT
1 ATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * *
2966705 ATTATGAATTCCGTGGGTTTCACACTTAGTGCCGATACGGTCATTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * *
2966759 ATTATGAATTCCGTGGGGTGCACACTTAGTGCTGATATGGTCGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * * *
2966813 ATTATGAATTATGTGGGTTGTACACTTAGTACTGTTACGGTCGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
** * *
2966867 ATTATGAATTCCATGGGTTACACACTTAGTGCCGATACGGTCGTTTATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * *
2966921 ATTATGAATTATGTGGGTTGCACACCTAGTGCCGATACGGTTGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * **
2966975 ATTATGAATTCTGTGGGTTGCACACTAAATGTTGATACGGTCGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * *
2967029 ATTATGAATTCTATGGGTTACACACTTAGTACCGATACGGTCGTTCACAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * *
2967083 ATTATGAATTTTATGGGTTGCACACCTAGTGCCGATACGGTCGTCCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
*
2967137 ATTTTGAATT-TCGTGGGTTGCACACTTAGTGC
1 ATTATGAATTCT-GTGGGTTGCACACTTAGTGC
2967169 GTATAGTACA
Statistics
Matches: 495, Mismatches: 73, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
53 2 0.00
54 491 0.99
55 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
Found at i:2973606 original size:38 final size:38
Alignment explanation
Indices: 2973552--2974216 Score: 387
Period size: 38 Copynumber: 18.1 Consensus size: 38
2973542 TTTTCTTAAA
* * * *
2973552 AAAATATTCATCTCGCTTGAGATAGTTTCACTCGAAGC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* *
2973590 AAAAAATTTATCTCGCTTGAGATAGTTTCACTCGAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * *
2973628 ATAAGATTTATCTCACCTGAGATTG-TT-A----AAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* *
2973660 --AAGATTCATCTCACTTGAGATAGTTTCAC-CTGAAGC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTC-GAAAC
** * *
2973696 AAAATTTTTATCTCGCTTAAGATAGTTTCACTCGAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * ** *
2973734 AGAAGATTTATCTCACTTGAGATTGTTTTTCT-TAAA-
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * * * * *
2973770 ACAAGA-TCATCTCGCTTGAGATTGTTTCACTTGAAGC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * * *
2973807 AAAAAATTTATCTCGCTTGTGATAGTTTCACTTGAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * ** **
2973845 AGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
** * * *
2973883 -AAA-ATTTATCTTGCTTCAAATAGTTTCACTTGAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * * * ** *
2973919 AGAAGATTCATCTCATTTGAGATTGTTTTTCT-TAAA-
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * *** *
2973955 ATAAGATTCATCTTGTTTGAGATAGTTTCACTCGAAAT
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* ** *
2973993 AAAA-ATTTTATCTCACTTGAGATTGTTT-TTTCTTAAA-
1 AAAAGA-TTTATCTCACTTGAGATAGTTTCACTC-GAAAC
* * * * *
2974030 ATAATATTCATCTCCCTTGAGATAGTTTCACTCCAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* *
2974068 AAAA-ATTTTATCTCACTTGAGATTA-TTT-TCT-TAAA-
1 AAAAGA-TTTATCTCACTTGAGA-TAGTTTCACTCGAAAC
* *
2974103 ACAAGATTCATCTCACTTGAGATAG-TTCACTCGAAAC
1 AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
* ** **
2974140 AAAA-ATTTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAAGA-TTTATCTCACTTGAGATAGTTTCACTCGAAAC
* * * *
2974178 -AAA-CTTTGTCTCACTTGAGACAGTTTTTACTCGAAAC
1 AAAAGATTTATCTCACTTGAGATAG-TTTCACTCGAAAC
2974215 AA
1 AA
2974217 GAAATTTCAT
Statistics
Matches: 481, Mismatches: 114, Indels: 64
0.73 0.17 0.10
Matches are distributed among these distances:
30 20 0.04
31 2 0.00
32 5 0.01
34 4 0.01
35 41 0.09
36 86 0.18
37 83 0.17
38 237 0.49
39 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (38 bp):
AAAAGATTTATCTCACTTGAGATAGTTTCACTCGAAAC
Found at i:2973607 original size:111 final size:112
Alignment explanation
Indices: 2973523--2974167 Score: 552
Period size: 111 Copynumber: 5.8 Consensus size: 112
2973513 ATACAAAAAA
* *
2973523 TTATCTAACTTGAGATTGTTTTTCTTAAAAAAATATTCATCTCGCTTGAGATAGTTTCACTCGAA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAA
* *
2973588 GCAAAAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGAT
66 GCAAAAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
* * *
2973635 TTATCTCACCTGAGATTG------TTAAAACAAGATTCATCTCACTTGAGATAGTTTCAC-CTGA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTCATCTCGCTTGAGATAGTTTCACTC-GA
**
2973693 AGCAAAATTTTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
65 AGCAAAAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
* * *
2973741 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAGA-TCATCTCGCTTGAGATTGTTTCACTTGAA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAA
** *
2973805 GCAAAAAATTTATCTCGCTTGTGATAGTTTCACTTGAAACAGAAGAT
66 GCAAAAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
* * * * *
2973852 TTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTATCTTGCTTCAAATAGTTTCACTTGA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAA-AAAGATTCATCTCGCTTGAGATAGTTTCACTCGA
* * * * ** * * ** * *
2973916 AACAGAAGATTCATCTCATTTGAGATTGTTTTTCT-TAAA-ATAAGAT
65 AGCAAAAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
* *** * ** * * * * **
2973962 TCATCTTGTTTGAGATAGTTTCACTCGAAATAAAA-ATTTTATCTCACTTGAGATTGTTT-TTTC
1 TTATCTCACTTGAGATTGTTTTTCT-TAAA-AAAAGA-TTCATCTCGCTTGAGATAGTTTCACTC
* * * * * * *
2974025 TTAA--AATAATATTCATCTCCCTTGAGATAGTTTCACTCCAAACA-AAAATT
63 -GAAGCAA-AAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGA-T
* * *
2974075 TTATCTCACTTGAGATT-ATTTTCTTAAAACAAGATTCATCTCACTTGAGATAG-TTCACTCGAA
1 TTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAA
* * * * *
2974138 ACAAAAATTTTATCTCACTTGAGATTGTTT
66 GCAAAAAATTTATCTCGCTTAAGATAGTTT
2974168 TTCTTAAAAC
Statistics
Matches: 429, Mismatches: 82, Indels: 46
0.77 0.15 0.08
Matches are distributed among these distances:
105 1 0.00
106 96 0.22
109 4 0.01
110 68 0.16
111 139 0.32
112 107 0.25
113 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (112 bp):
TTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTCATCTCGCTTGAGATAGTTTCACTCGAA
GCAAAAAATTTATCTCGCTTAAGATAGTTTCACTCGAAACAGAAGAT
Found at i:2973667 original size:106 final size:106
Alignment explanation
Indices: 2973547--2973871 Score: 465
Period size: 106 Copynumber: 3.0 Consensus size: 106
2973537 ATTGTTTTTC
* *
2973547 TTAAAAAAATATTCATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTATCTCGCTTGAGA
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTATCTCGCTTGAGA
* *
2973612 TAGTTTCACTCGAAACATAAGATTTATCTCACCTGAGATTG
66 TAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTG
* ** *
2973653 TTAAAACAAGATTCATCTCACTTGAGATAGTTTCAC-CTGAAGCAAAATTTTTATCTCGCTTAAG
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTC-GAAGCAAAAAATTTATCTCGCTTGAG
2973717 ATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTG
65 ATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTG
* *
2973759 TTTTTCTTAAAACAAGA-TCATCTCGCTTGAGATTGTTTCACTTGAAGCAAAAAATTTATCTCGC
1 ------TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTATCTCGC
* *
2973823 TTGTGATAGTTTCACTTGAAACAGAAGATTTATCTCACTTGAGATTG
60 TTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTG
2973870 TT
1 TT
2973872 TTTCTTAAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
105 3 0.02
106 96 0.49
111 85 0.44
112 11 0.06
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (106 bp):
TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAGCAAAAAATTTATCTCGCTTGAGA
TAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTG
Found at i:2973913 original size:74 final size:74
Alignment explanation
Indices: 2973592--2974298 Score: 593
Period size: 74 Copynumber: 9.6 Consensus size: 74
2973582 CTCGAAGCAA
* *
2973592 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGA-TTTATCTCACCTGAGATTG---
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTT
2973653 ---TTAAAAC
65 TTCTTAAAAC
* * * * * * * *
2973660 AAGATTCATCTCACTTGAGATAGTTTCAC-CTGAAGCAAAATTTTTATCTCGCTTAAGATAGTTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTC-GAAACAAAAATTTTATCTCACTTGAGATTGTTT
** **
2973724 CACTCGAAAC
65 TTCTTAAAAC
* * ** ** * * *
2973734 AGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAGA--TCATCTCGCTTGAGATTGTT
1 A-AA-ATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTT
**
2973796 TCACTTGAAGCAA-
64 TTTCTT-AA--AAC
* * *
2973809 AAAATTTATCTCGCTTGTGATAGTTTCACTTGAAACAGAAGA-TTTATCTCACTTGAGATTGTTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTT
2973873 TTCTTAAAAC
65 TTCTTAAAAC
* * * * * * *
2973883 AAAATTTATCTTGCTTCAAATAGTTTCACTTGAAACAGAAGA-TTCATCTCATTTGAGATTGTTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTT
*
2973947 TTCTTAAAAT
65 TTCTTAAAAC
* * * * *
2973957 AAGATTCATCTTGTTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTTGAGATTGTTTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTG-TTT
*
2974022 TTCTTAAAAT
65 TTCTTAAAAC
* * * * *
2974032 AATATTCATCTCCCTTGAGATAGTTTCACTCCAAACAAAAATTTTATCTCACTTGAGATT-ATTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
2974096 TCTTAAAAC
66 TCTTAAAAC
* * *
2974105 AAGATTCATCTCACTTGAGATAG-TTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
1 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
2974169 TCTTAAAAC
66 TCTTAAAAC
* * * * * * * ** *
2974178 AAACTTTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTCTT
1 AAAATTTATCTCGCTTGAGATAG-TTTCACTCGAAACAA-AAATTTTATCTCACTTGAGATTGTT
2974243 TTTCTTAAAAC
64 TTTCTTAAAAC
* * * *
2974254 -AAATTTCATCTCGCTTGAGAAAGTTTCCCTTGAAATATAAAATTT
1 AAAATTT-ATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTT
2974299 GAAATTGTTT
Statistics
Matches: 528, Mismatches: 85, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
67 3 0.01
68 46 0.09
72 35 0.07
73 116 0.22
74 123 0.23
75 111 0.21
76 94 0.18
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (74 bp):
AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
TCTTAAAAC
Found at i:2974005 original size:148 final size:147
Alignment explanation
Indices: 2973653--2974298 Score: 509
Period size: 149 Copynumber: 4.3 Consensus size: 147
2973643 CCTGAGATTG
* * * *
2973653 TTAAAACAAGATTCATCTCACTTGAGATAGTTTCAC-CTGAAGCAAAATTTTTATCTCGCTTAAG
1 TTAAAACAAGATTCATCTCACTTGAGATAGTTTCACTC-GAAACAAAAATTTTATCTCACTTGAG
* ** ** * * * * * ** ** *
2973717 ATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAGA--TCA
65 ATTGTTTTTCTTAAAACA-AA-ATTCATCTCCCTTCAAATAGTTTCACTCCAAACAAAAATTTCA
* * *
2973779 TCTCGCTTGAGATTGTTTCAC
128 TCTCACTTGAGATTATTT-TC
* * * * * *
2973800 TTGAAGCAA-AAAATTTATCTCGCTTGTGATAGTTTCACTTGAAACAGAAGA-TTTATCTCACTT
1 TT-AA--AACAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTT
* ** ** *
2973863 GAGATTGTTTTTCTTAAAACAAAATTTATCTTGCTTCAAATAGTTTCACTTGAAACAGAAGA-TT
62 GAGATTGTTTTTCTTAAAACAAAATTCATCTCCCTTCAAATAGTTTCACTCCAAACA-AAAATTT
* *
2973927 CATCTCATTTGAGATTGTTTTTC
126 CATCTCACTTGAGATT-ATTTTC
* *** *
2973950 TTAAAATAAGATTCATCTTGTTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTTGAGA
1 TTAAAACAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGA
* * * * *
2974015 TTGTTTTTTCTTAAAATAATATTCATCTCCCTTGAGATAGTTTCACTCCAAACAAAAATTTTATC
66 TTG-TTTTTCTTAAAACAAAATTCATCTCCCTTCAAATAGTTTCACTCCAAACAAAAATTTCATC
2974080 TCACTTGAGATTATTTTC
130 TCACTTGAGATTATTTTC
2974098 TTAAAACAAGATTCATCTCACTTGAGATAG-TTCACTCGAAACAAAAATTTTATCTCACTTGAGA
1 TTAAAACAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGA
* ** * * * * * *
2974162 TTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGAAATTTCAT
66 TTGTTTTTCTTAAAACAAAATTCATCTCCCTTCAAATAG-TTTCACTCCAAACAA-AAATTTCAT
* ** *
2974227 TTCACTCAAGATTCTTTTTC
129 CTCACTTGAGATT-ATTTTC
* * * * *
2974247 TTAAAACAA-ATTTCATCTCGCTTGAGAAAGTTTCCCTTGAAATATAAAATTT
1 TTAAAACAAGA-TTCATCTCACTTGAGATAGTTTCACTCGAAACA-AAAATTT
2974299 GAAATTGTTT
Statistics
Matches: 408, Mismatches: 72, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
146 29 0.07
147 81 0.20
148 106 0.26
149 150 0.37
150 32 0.08
151 10 0.02
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (147 bp):
TTAAAACAAGATTCATCTCACTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGA
TTGTTTTTCTTAAAACAAAATTCATCTCCCTTCAAATAGTTTCACTCCAAACAAAAATTTCATCT
CACTTGAGATTATTTTC
Found at i:2974049 original size:37 final size:36
Alignment explanation
Indices: 2973519--2974297 Score: 233
Period size: 38 Copynumber: 21.2 Consensus size: 36
2973509 TTTAATACAA
* *
2973519 AAAATT-ATCTAACTTGAGATTGTTTTTCTTAAAA-
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* ** *
2973553 AAATATTCATCTCGCTTGAGATAGTTTCACTCGAAGCAA-
1 AAA-ATTCATCTCACTTGAGATAGTTTTTCT-TAA--AAT
* * ** *
2973592 AAAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
1 AAAATTCATCTCACTTGAGATAGTTTTTCT-TAAA-AT
* * * * *
2973630 AAGATTTATCTCACCTGAG--A----TTGTTAAAAC
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* ** * * **
2973660 AAGATTCATCTCACTTGAGATAGTTTCACCTGAAGC
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* * * ** * *
2973696 AAAATTTTTATCTCGCTTAAGATAGTTTCACTCGAAACAG
1 AAAA--TTCATCTCACTTGAGATAGTTTTTCT-TAAA-AT
* * * *
2973736 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* * * **
2973772 AAGA-TCATCTCGCTTGAGATTGTTTCACTTGAAGCAA-
1 AAAATTCATCTCACTTGAGATAGTTTTTCTT-AA--AAT
* * * ** *
2973809 AAAATTTATCTCGCTTGTGATAGTTTCACTTGAAACAG
1 AAAATTCATCTCACTTGAGATAGTTTTTCTT-AAA-AT
* * * *
2973847 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* ** * * ** *
2973883 AAAATTTATCTTGCTTCAAATAGTTTCACTTGAAACAG
1 AAAATTCATCTCACTTGAGATAGTTTTTCTT-AAA-AT
* * *
2973921 AAGATTCATCTCATTTGAGATTGTTTTTCTTAAAAT
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* *** ** **
2973957 AAGATTCATCTTGTTTGAGATAGTTTCACTCGAAAT
1 AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* *
2973993 AAAAATTTTATCTCACTTGAGATTGTTTTTTCTTAAAAT
1 -AAAA-TTCATCTCACTTGAGATAG-TTTTTCTTAAAAT
* * ** *
2974032 AATATTCATCTCCCTTGAGATAGTTTCACTCCAAACA-
1 AAAATTCATCTCACTTGAGATAGTTTTTCT-TAAA-AT
* *
2974069 AAAATTTTATCTCACTTGAGAT--TATTTTCTTAAAAC
1 AAAA-TTCATCTCACTTGAGATAGT-TTTTCTTAAAAT
* ** *
2974105 AAGATTCATCTCACTTGAGATAG-TTCACTCGAAACA-
1 AAAATTCATCTCACTTGAGATAGTTTTTCT-TAAA-AT
* * *
2974141 AAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAA-TTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* ** * *
2974178 AAACTTTGTCTCACTTGAGACAGTTTTTACTCGAAACA-
1 AAAATTCATCTCACTTGAGATAGTTTTT-CT-TAAA-AT
* ** ** *
2974216 AGAAATTTCATTTCACTCAAGATTCTTTTTCTTAAAAC
1 A-AAA-TTCATCTCACTTGAGATAGTTTTTCTTAAAAT
* * * **
2974254 AAATTTCATCTCGCTTGAGAAAGTTTCCCTTGAAATAT
1 AAAATTCATCTCACTTGAGATAGTTTTTCTT-AAA-AT
2974292 AAAATT
1 AAAATT
2974298 TGAAATTGTT
Statistics
Matches: 554, Mismatches: 143, Indels: 92
0.70 0.18 0.12
Matches are distributed among these distances:
30 18 0.03
31 3 0.01
32 2 0.00
34 3 0.01
35 46 0.08
36 147 0.27
37 80 0.14
38 215 0.39
39 21 0.04
40 19 0.03
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (36 bp):
AAAATTCATCTCACTTGAGATAGTTTTTCTTAAAAT
Found at i:2974053 original size:75 final size:73
Alignment explanation
Indices: 2973593--2974298 Score: 569
Period size: 73 Copynumber: 9.6 Consensus size: 73
2973583 TCGAAGCAAA
* * *
2973593 AAATTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGA-TTTATCTCACCTGAGATTG----
1 AAATTCATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTTT
2973653 --TTAAAAC
65 TCTTAAAAC
* * * * * *
2973660 AAGATTCATCTCACTTGAGATAGTTTCAC-CTGAAGCAAAATTTTTATCTCGCTTAAGATAGTTT
1 AA-ATTCATCTCGCTTGAGATAGTTTCACTC-GAAACAAAAATTTTATCTCACTTGAGATTGTTT
** * *
2973724 CACTCGAAACAG
64 TTCT-TAAA-AC
* * * ** ** * * * *
2973736 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAGA--TCATCTCGCTTGAGATTGTTTC
1 AA-ATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
* *
2973798 ACTTGAAGCAAA
65 TCTT-AA--AAC
* * * *
2973810 AAATTTATCTCGCTTGTGATAGTTTCACTTGAAACAGAAGA-TTTATCTCACTTGAGATTGTTTT
1 AAATTCATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTTT
2973874 TCTTAAAAC
65 TCTTAAAAC
* * * * * * * *
2973883 AAAATTTATCTTGCTTCAAATAGTTTCACTTGAAACAGAAGA-TTCATCTCATTTGAGATTGTTT
1 -AAATTCATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACTTGAGATTGTTT
*
2973947 TTCTTAAAAT
64 TTCTTAAAAC
* * *
2973957 AAGATTCATCTTGTTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTTGAGATTGTTTT
1 AA-ATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTG-TTT
*
2974022 TTCTTAAAAT
64 TTCTTAAAAC
* * *
2974032 AATATTCATCTCCCTTGAGATAGTTTCACTCCAAACAAAAATTTTATCTCACTTGAGATT-ATTT
1 AA-ATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
2974096 TCTTAAAAC
65 TCTTAAAAC
*
2974105 AAGATTCATCTCACTTGAGATAG-TTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
1 AA-ATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTT
2974169 TCTTAAAAC
65 TCTTAAAAC
** * * * * * ** *
2974178 AAACTTTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGAAATTTCATTTCACTCAAGATTCTT
1 AAA-TTCATCTCGCTTGAGATAG-TTTCACTCGAAACAA-AAATTTTATCTCACTTGAGATTGTT
2974243 TTTCTTAAAAC
63 TTTCTTAAAAC
* * * *
2974254 AAATTTCATCTCGCTTGAGAAAGTTTCCCTTGAAATATAAAATTT
1 AAA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTT
2974299 GAAATTGTTT
Statistics
Matches: 529, Mismatches: 82, Indels: 48
0.80 0.12 0.07
Matches are distributed among these distances:
67 5 0.01
68 44 0.08
72 36 0.07
73 120 0.23
74 115 0.22
75 108 0.20
76 101 0.19
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (73 bp):
AAATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACTTGAGATTGTTTTT
CTTAAAAC
Found at i:2974547 original size:42 final size:41
Alignment explanation
Indices: 2974488--2974581 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
2974478 ACAAAAGTCT
* *
2974488 TTCGGGACATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGACATCAGTAAGTCTTTCGAGCAAGATG-ATAAATCC
* *
2974530 TTCGGGTCATCTA-TAAGTCTTTCGAGCAAGATGATAAGTCC
1 TTCGGGACATC-AGTAAGTCTTTCGAGCAAGATGATAAATCC
*
2974571 TTCGGGCCATC
1 TTCGGGACATC
2974582 CATGAGACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 16 0.35
42 29 0.63
43 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
TTCGGGACATCAGTAAGTCTTTCGAGCAAGATGATAAATCC
Found at i:2977360 original size:20 final size:22
Alignment explanation
Indices: 2977335--2977374 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2977325 AGTCGTATAT
2977335 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2977355 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2977375 TCTACAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2977531 original size:34 final size:34
Alignment explanation
Indices: 2977487--2977586 Score: 164
Period size: 34 Copynumber: 2.9 Consensus size: 34
2977477 TATAGCCAGG
*
2977487 GGGTATGGATACCCCTGGGGGGTATCGGTACCCA
1 GGGTGTGGATACCCCTGGGGGGTATCGGTACCCA
2977521 GGGTGTGGATACCCCTGGGGGGTATCGGTACCCA
1 GGGTGTGGATACCCCTGGGGGGTATCGGTACCCA
* * *
2977555 AGGTGTGGATATCCCTAGGGGGTATCGGTACC
1 GGGTGTGGATACCCCTGGGGGGTATCGGTACC
2977587 TCTTTGCATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.17, C:0.22, G:0.39, T:0.22
Consensus pattern (34 bp):
GGGTGTGGATACCCCTGGGGGGTATCGGTACCCA
Found at i:2977553 original size:19 final size:19
Alignment explanation
Indices: 2977485--2977545 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2977475 GTTATAGCCA
2977485 GGGGGTATGGATACCCCTG
1 GGGGGTATGGATACCCCTG
2977504 GGGGGTATCGG-TA-CCC--
1 GGGGGTAT-GGATACCCCTG
* *
2977520 -AGGGTGTGGATACCCCTG
1 GGGGGTATGGATACCCCTG
2977538 GGGGGTAT
1 GGGGGTAT
2977546 CGGTACCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
14 2 0.06
15 7 0.22
16 3 0.09
18 3 0.09
19 15 0.47
20 2 0.06
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.21
Consensus pattern (19 bp):
GGGGGTATGGATACCCCTG
Found at i:2977832 original size:21 final size:19
Alignment explanation
Indices: 2977801--2977868 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
2977791 ATGTTTAATG
*
2977801 AAAAAGGTATCAATTGTTT
1 AAAAAGATATCAATTGTTT
2977820 ACAAAATGATATCAATTG-TT
1 A-AAAA-GATATCAATTGTTT
* *
2977840 AAAAAGATACCAATTGTTG
1 AAAAAGATATCAATTGTTT
*
2977859 AAAAATATAT
1 AAAAAGATAT
2977869 GAAAATGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 10 0.24
19 14 0.34
20 7 0.17
21 10 0.24
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTT
Found at i:2983074 original size:18 final size:19
Alignment explanation
Indices: 2983046--2983082 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2983036 AATTTAATTC
*
2983046 AATTAAAAATATCTTATTT
1 AATTAAAAATATATTATTT
2983065 AATT-AAAATATATTATTT
1 AATTAAAAATATATTATTT
2983083 TCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAAAATATATTATTT
Found at i:2983190 original size:27 final size:26
Alignment explanation
Indices: 2983125--2983190 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
2983115 TAGGTATGAA
*
2983125 TTTACGTGCTATTAAATATGATTTTT
1 TTTACATGCTATTAAATATGATTTTT
2983151 TTTACATGCTATTAAATATGATTTTT
1 TTTACATGCTATTAAATATGATTTTT
2983177 TTTACATGCATATT
1 TTTACATGC-TATT
2983191 TTTTATCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (26 bp):
TTTACATGCTATTAAATATGATTTTT
Found at i:2992493 original size:121 final size:122
Alignment explanation
Indices: 2992279--2992521 Score: 479
Period size: 121 Copynumber: 2.0 Consensus size: 122
2992269 AAATTTGGAT
2992279 CGTACAAGTGGCTATGATGCCATTGTTGGTACAGTTAGCTCACCCTATGGCGCAGCGAAAACAAA
1 CGTACAAGTGGCTATGATGCCATTGTTGGTACAGTTAGCTCACCCTATGGCGCAGCGAAAACAAA
2992344 AATTTGACGGTCTCACTAGCGATCCAAGTACGATAATCT-AAATCTGGAGGAAATGA
66 AATTTGACGGTCTCACTAGCGATCCAAGTACGATAATCTAAAATCTGGAGGAAATGA
2992400 CGTACAAGTGGCTATGATGCCATTGTTGGTACAGTTAGCTCACCCTATGGCGCAGCGAAAACAAA
1 CGTACAAGTGGCTATGATGCCATTGTTGGTACAGTTAGCTCACCCTATGGCGCAGCGAAAACAAA
2992465 AATTTGACGGTCTCACTAGCGATCCAAGTACGATAATCTAAAATCTGGAGGAAATGA
66 AATTTGACGGTCTCACTAGCGATCCAAGTACGATAATCTAAAATCTGGAGGAAATGA
2992522 TATTATTAAA
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 104 0.86
122 17 0.14
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (122 bp):
CGTACAAGTGGCTATGATGCCATTGTTGGTACAGTTAGCTCACCCTATGGCGCAGCGAAAACAAA
AATTTGACGGTCTCACTAGCGATCCAAGTACGATAATCTAAAATCTGGAGGAAATGA
Found at i:2993329 original size:99 final size:100
Alignment explanation
Indices: 2993210--2993410 Score: 379
Period size: 99 Copynumber: 2.0 Consensus size: 100
2993200 ATGGTGGGTA
2993210 AATCCAATACATTGTTTTCGAACAATATAGTCATGTATCAATTCTGACATCTCTATGTCAATGAA
1 AATCCAATACATTGTTTTCGAACAATATAGTCATGTATCAATTCTGACATCTCTATGTCAATGAA
2993275 AACTCATTGTCGTCAATC-A-AACATGTTTAGTCTT
66 AACTCATTGTCGTCAATCAATAACATG-TTAGTCTT
2993309 AATCCAATACATTGTTTTCGAACAATATAGTCATGTATCAATTCTGACATCTCTATGTCAATGAA
1 AATCCAATACATTGTTTTCGAACAATATAGTCATGTATCAATTCTGACATCTCTATGTCAATGAA
2993374 AACTCATTGTCGTCAATCAATAACATGTTAGTCTT
66 AACTCATTGTCGTCAATCAATAACATGTTAGTCTT
2993409 AA
1 AA
2993411 GCTTATTATT
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
99 83 0.83
100 11 0.11
101 6 0.06
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (100 bp):
AATCCAATACATTGTTTTCGAACAATATAGTCATGTATCAATTCTGACATCTCTATGTCAATGAA
AACTCATTGTCGTCAATCAATAACATGTTAGTCTT
Found at i:2996121 original size:11 final size:11
Alignment explanation
Indices: 2996094--2996190 Score: 97
Period size: 11 Copynumber: 8.7 Consensus size: 11
2996084 TAAACTAAGG
2996094 ACCCAACCAAA
1 ACCCAACCAAA
*
2996105 ACCCCAACCTAA
1 A-CCCAACCAAA
**
2996117 ACCCAAAAAAA
1 ACCCAACCAAA
2996128 ACCCAACCAAA
1 ACCCAACCAAA
*
2996139 ACCTAACCAAA
1 ACCCAACCAAA
2996150 ACCCAA-CAAGA
1 ACCCAACCAA-A
* **
2996161 ACCCAAACATG
1 ACCCAACCAAA
*
2996172 CCCCAACCAAA
1 ACCCAACCAAA
2996183 ACCCAACC
1 ACCCAACC
2996191 TAAATATCCA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
10 3 0.04
11 53 0.78
12 12 0.18
ACGTcount: A:0.52, C:0.43, G:0.02, T:0.03
Consensus pattern (11 bp):
ACCCAACCAAA
Found at i:2996164 original size:33 final size:33
Alignment explanation
Indices: 2996094--2996189 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
2996084 TAAACTAAGG
* *
2996094 ACCCAACCAAAACCCCAACCTAAACCCAAAAAAA
1 ACCCAACCAAAA-CCCAACCAAAACCCAACAAAA
* *
2996128 ACCCAACCAAAACCTAACCAAAACCCAACAAGA
1 ACCCAACCAAAACCCAACCAAAACCCAACAAAA
* ***
2996161 ACCCAAACATGCCCCAACCAAAACCCAAC
1 ACCCAACCAAAACCCAACCAAAACCCAAC
2996190 CTAAATATCC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 41 0.77
34 12 0.23
ACGTcount: A:0.52, C:0.43, G:0.02, T:0.03
Consensus pattern (33 bp):
ACCCAACCAAAACCCAACCAAAACCCAACAAAA
Found at i:2997385 original size:12 final size:12
Alignment explanation
Indices: 2997370--2997457 Score: 128
Period size: 12 Copynumber: 7.4 Consensus size: 12
2997360 AAACCAATAC
2997370 CCCAACCTAAAA
1 CCCAACCTAAAA
2997382 CCCAACC-AAAA
1 CCCAACCTAAAA
2997393 CCCCAACCTAAAA
1 -CCCAACCTAAAA
*
2997406 GCCAA-CTAAAA
1 CCCAACCTAAAA
2997417 CCCAACCTAAAA
1 CCCAACCTAAAA
2997429 CCCAACC-AAAA
1 CCCAACCTAAAA
2997440 CCCAACCTAAATA
1 CCCAACCTAAA-A
2997453 CCCAA
1 CCCAA
2997458 ACCAGGACCC
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
11 25 0.36
12 34 0.49
13 10 0.14
ACGTcount: A:0.50, C:0.42, G:0.01, T:0.07
Consensus pattern (12 bp):
CCCAACCTAAAA
Found at i:2997424 original size:23 final size:23
Alignment explanation
Indices: 2997361--2997457 Score: 140
Period size: 23 Copynumber: 4.1 Consensus size: 23
2997351 ATTATTATTA
*
2997361 AACCAATACCCCAACCTAAAACCC
1 AACCAA-AACCCAACCTAAAACCC
*
2997385 AACCAAAACCCCAACCTAAAAGCC
1 AACCAAAA-CCCAACCTAAAACCC
*
2997409 AACTAAAACCCAACCTAAAACCC
1 AACCAAAACCCAACCTAAAACCC
2997432 AACCAAAACCCAACCTAAATACCC
1 AACCAAAACCCAACCTAAA-ACCC
2997456 AA
1 AA
2997458 ACCAGGACCC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 33 0.50
24 33 0.50
ACGTcount: A:0.51, C:0.41, G:0.01, T:0.07
Consensus pattern (23 bp):
AACCAAAACCCAACCTAAAACCC
Found at i:2997503 original size:24 final size:24
Alignment explanation
Indices: 2997453--2997507 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
2997443 AACCTAAATA
***
2997453 CCCAAACCAGGACCCGAATTGGAG
1 CCCAAACCAGGACCCGAACCAGAG
* *
2997477 CCCAAACCAGGACCCGACCCAGTG
1 CCCAAACCAGGACCCGAACCAGAG
2997501 CCCAAAC
1 CCCAAAC
2997508 TAAATCTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.42, G:0.20, T:0.05
Consensus pattern (24 bp):
CCCAAACCAGGACCCGAACCAGAG
Found at i:2998235 original size:109 final size:108
Alignment explanation
Indices: 2998025--2998343 Score: 396
Period size: 109 Copynumber: 2.9 Consensus size: 108
2998015 TTTTACAAAA
* **
2998025 TAGTCATATGTAGGTTTAAAACTATTATTTTCCCTTTTCTTTGTGTGCTTTATAA-TTTTGAGTT
1 TAGTCACATGTAGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTTGAGTT
*
2998089 ATTCACTGTATAGTCCCTCTAACTTTAGCGTGCTTTTTGCGTTC
66 ATTCACTGTATAGTCCCTCTAACTTTAGCGTG-TTTTTGCATTC
*
2998133 TAGTCACATGTATGG-TTAGAAACTATTATTTTCCTTTTTCTTTGCATGCTTTATAATTTTTGAG
1 TAGTCACATGTA-GGTTTA-AAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTTGAG
* *
2998197 TTATTCACTGTGTAGTCCCTTTAACTTTAGCGTGTTTTTGCATTC
64 TTATTCACTGTATAGTCCCTCTAACTTTAGCGTGTTTTTGCATTC
* * * * *
2998242 TGGTCACATGTACGGTTTAAAAATGTTATTTTCCCTTTTCCTTACATG--TTATATATTTTTG-G
1 TAGTCACATGTA-GGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATA-ATTTTTGAG
** * * *
2998304 CAATTCACTATTTAGTCCCTCTAAGTTTAGCGTTGTTTTT
64 TTATTCACTGTATAGTCCCTCTAACTTTAGCG-TGTTTTT
2998344 ACACTTTGGT
Statistics
Matches: 185, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
107 32 0.17
108 28 0.15
109 83 0.45
110 42 0.23
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (108 bp):
TAGTCACATGTAGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTTGAGTT
ATTCACTGTATAGTCCCTCTAACTTTAGCGTGTTTTTGCATTC
Found at i:2999873 original size:23 final size:22
Alignment explanation
Indices: 2999847--2999889 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
2999837 ATTTTGCTGA
2999847 AAAT-AAAAAATTGAAAGAAAAAT
1 AAATGAAAAAA-TG-AAGAAAAAT
*
2999870 AAATGAACAAATGAAGAAAA
1 AAATGAAAAAATGAAGAAAA
2999890 TCCCCAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 6 0.33
24 5 0.28
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
AAATGAAAAAATGAAGAAAAAT
Found at i:3001002 original size:18 final size:19
Alignment explanation
Indices: 3000974--3001010 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3000964 CATTTAATTC
*
3000974 AATTAAAAATATCTTATTT
1 AATTAAAAATATATTATTT
3000993 AATT-AAAATATATTATTT
1 AATTAAAAATATATTATTT
3001011 TCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAAAATATATTATTT
Found at i:3007664 original size:20 final size:20
Alignment explanation
Indices: 3007635--3007672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3007625 CCCCTTCAAA
*
3007635 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
3007655 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
3007673 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:3011512 original size:22 final size:21
Alignment explanation
Indices: 3011470--3011509 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3011460 GAGTTTATTT
*
3011470 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3011491 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3011510 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3024269 original size:19 final size:19
Alignment explanation
Indices: 3024245--3024281 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3024235 GGTTGGAAAC
*
3024245 CGGCAAAACCGGTGTGAAT
1 CGGCAAAACCAGTGTGAAT
*
3024264 CGGCAAAATCAGTGTGAA
1 CGGCAAAACCAGTGTGAA
3024282 CCGGTCGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (19 bp):
CGGCAAAACCAGTGTGAAT
Found at i:3028063 original size:12 final size:12
Alignment explanation
Indices: 3028046--3028166 Score: 119
Period size: 11 Copynumber: 10.4 Consensus size: 12
3028036 AAACTAAGGC
3028046 CCCAACCTAAAA
1 CCCAACCTAAAA
* *
3028058 CCCAACCGAAAC
1 CCCAACCTAAAA
*
3028070 CCCAACATAAAA
1 CCCAACCTAAAA
3028082 CCCAACCTAAAA
1 CCCAACCTAAAA
3028094 CCCAA-CTAAAA
1 CCCAACCTAAAA
3028105 CCCAACC-AAAA
1 CCCAACCTAAAA
*
3028116 CCCAA--TACGAA
1 CCCAACCTA-AAA
* **
3028127 CCCAAAC-AAGC
1 CCCAACCTAAAA
3028138 CCCAACC-AAAA
1 CCCAACCTAAAA
3028149 CCCAACCTAAATA
1 CCCAACCTAAA-A
3028162 CCCAA
1 CCCAA
3028167 ATCAGAACTC
Statistics
Matches: 89, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
10 1 0.01
11 42 0.47
12 40 0.45
13 6 0.07
ACGTcount: A:0.50, C:0.42, G:0.02, T:0.06
Consensus pattern (12 bp):
CCCAACCTAAAA
Found at i:3028839 original size:108 final size:108
Alignment explanation
Indices: 3028738--3029058 Score: 391
Period size: 108 Copynumber: 3.0 Consensus size: 108
3028728 TTTTACAAAA
3028738 TAGTCATATGTA-GGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTGAGTT
1 TAGTCATATGTACGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTGAGTT
*
3028802 ATTCACTGTATAGTCCCTCTAACTTTAGCATT-TTTTTTCATTC
66 ATTCACTGTATAGTCCCTCTAACTTTAGC-TTATTTTTACATTC
* * *
3028845 TAGTCACATGTACGGTTAAAAACTATTATTTTCCCTTTTCTTTGCATCCTTTATAATTTTTGAGT
1 TAGTCATATGTACGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAA-TTTTGAGT
* ** **
3028910 TATTCACTGTATAGTCCCTTTAACTTTAG-TGGTTTTTGTATTC
65 TATTCACTGTATAGTCCCTCTAACTTTAGCTTATTTTTACATTC
* * * * * *
3028953 TGGCCATATGCATGGTTTAAAACTGTTATTTTCCCTTTTCTTTGCATG-TTATATATTTTTG-GT
1 TAGTCATATGTACGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTT-TATAATTTTGAGT
* * * *
3029016 AAATTCACTATTTAGTCCCTCTAAGTTTAGCGTTATTTTTACA
65 -TATTCACTGTATAGTCCCTCTAACTTTAGC-TTATTTTTACA
3029059 CTTTGGTAAT
Statistics
Matches: 182, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
106 2 0.01
107 43 0.24
108 94 0.52
109 43 0.24
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (108 bp):
TAGTCATATGTACGGTTTAAAACTATTATTTTCCCTTTTCTTTGCATGCTTTATAATTTTGAGTT
ATTCACTGTATAGTCCCTCTAACTTTAGCTTATTTTTACATTC
Found at i:3037465 original size:14 final size:14
Alignment explanation
Indices: 3037431--3037468 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3037421 CTTTCATTCT
3037431 TCATATT-TTTGCA
1 TCATATTCTTTGCA
**
3037444 TCGCATTCTTTGCA
1 TCATATTCTTTGCA
3037458 TCATATTCTTT
1 TCATATTCTTT
3037469 ATTATTTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.53
Consensus pattern (14 bp):
TCATATTCTTTGCA
Found at i:3040954 original size:12 final size:11
Alignment explanation
Indices: 3040937--3041015 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 11
3040927 TATTATGCCT
3040937 AAGAAAGAAAAA
1 AAGAAA-AAAAA
3040949 AAGAAAAAAAA
1 AAGAAAAAAAA
3040960 TAA-AAACTAATAAA
1 -AAGAAA--AA-AAA
3040974 AAGAAGAAGAAAA
1 AAGAA-AA-AAAA
*
3040987 AAG-AAAAATA
1 AAGAAAAAAAA
* *
3040997 AAGGAAAAGAA
1 AAGAAAAAAAA
3041008 AAGAAAAA
1 AAGAAAAA
3041016 TGAGGGTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
10 6 0.11
11 22 0.40
12 9 0.16
13 11 0.20
14 6 0.11
15 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:3042383 original size:131 final size:132
Alignment explanation
Indices: 3042062--3042385 Score: 334
Period size: 135 Copynumber: 2.4 Consensus size: 132
3042052 TCACGTCATC
*
3042062 TCAAATCAGCGACGCCTCACTTGAGGGATTAACACTTTCAATAGAGAGTTCATAATGAAAAAGAA
1 TCAAATCAGCAACGCCTCACTTGAGGGATTAACA-TTTCAATAGAGAGTTCATAATGAAAAAGAA
* * **
3042127 CTCATCTTATAGAGGGAGAAAAAATTTGTAATAAAAAGAACTTGTTCAAGCTTTGCTCGATCATG
65 CTCATCTCATAGAGGGAGAAAAAA--TGTAATAAAAAGAACTTATTCAAGAGTTGCTCGATCATG
*
3042192 GCATT
128 GAATT
** * * * * *
3042197 TCAAATCAGTGACACCTCACTTGAGGGATTAACACTTAT-ATTGGAAATTTCATAATGAAAAAGA
1 TCAAATCAGCAACGCCTCACTTGAGGGATTAACA-TT-TCAATAGAGAGTTCATAATGAAAAAGA
* * * * * *
3042261 ACTCGTC-CATAGAGGGAG-AATAA-GTAATGAGAAGAACTTATTCAATAGTTGCTGGATTCATG
64 ACTCATCTCATAGAGGGAGAAAAAATGTAATAAAAAGAACTTATTCAAGAGTTGCTCGA-TCATG
3042323 GAATT
128 GAATT
* * * *
3042328 TCGAATCGGCAATGCCTCACTTGAGGGATTAACATTTCCAGTAGAGAGTAT-ATAATGA
1 TCAAATCAGCAACGCCTCACTTGAGGGATTAACATTT-CAATAGAGAGT-TCATAATGA
3042386 GAAGAACCCG
Statistics
Matches: 157, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
129 1 0.01
130 28 0.18
131 50 0.32
132 1 0.01
133 4 0.03
134 10 0.06
135 62 0.39
136 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (132 bp):
TCAAATCAGCAACGCCTCACTTGAGGGATTAACATTTCAATAGAGAGTTCATAATGAAAAAGAAC
TCATCTCATAGAGGGAGAAAAAATGTAATAAAAAGAACTTATTCAAGAGTTGCTCGATCATGGAA
TT
Found at i:3042557 original size:11 final size:11
Alignment explanation
Indices: 3042535--3042631 Score: 97
Period size: 11 Copynumber: 8.3 Consensus size: 11
3042525 ACCAAGTCCT
3042535 CAACCTAAAACC
1 CAACC-AAAACC
3042547 CAACCAAAACCC
1 CAACCAAAA-CC
3042559 CAACCCAAAACC
1 CAA-CCAAAACC
*
3042571 CAACTAAAACC
1 CAACCAAAACC
3042582 CAACCAAAACC
1 CAACCAAAACC
* *
3042593 CAAAC-AAGCGC
1 CAACCAAAAC-C
3042604 TCAACCAAAACC
1 -CAACCAAAACC
3042616 CAACCTAAATACC
1 CAACC-AAA-ACC
3042629 CAA
1 CAA
3042632 AATAGGACCC
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.04
11 31 0.43
12 23 0.32
13 15 0.21
ACGTcount: A:0.51, C:0.42, G:0.02, T:0.05
Consensus pattern (11 bp):
CAACCAAAACC
Found at i:3043862 original size:109 final size:109
Alignment explanation
Indices: 3043634--3043862 Score: 264
Period size: 109 Copynumber: 2.1 Consensus size: 109
3043624 TTACAAAATA
* * * *
3043634 GTCATGTGTATGGTTTAAAATTATTATTTTCCTTTTTATTTACATGCTTTATAATTTTTGGGTTA
1 GTCATGTGTAGGGTTTAAAACTATTATTTTCCCTTTTATTTACATGCTTTATAATTTTTGGGTAA
* * * ** *
3043699 TTCATTGTTTAGTCCCTCTAACTTTAGCGTGTTTTTGTATTTTG
66 TTCACTATTTAGTCCCTCTAACTTTAGCGTGATTTTACACTTTG
** * * * *
3043743 GTCACCTGTAGGGTTTAAAACTGTTATTTTCCCTTTTCTTTGCATG--TTATATATTTTTTGGTA
1 GTCATGTGTAGGGTTTAAAACTATTATTTTCCCTTTTATTTACATGCTTTATA-ATTTTTGGGT-
* *
3043806 AATTCACTATTTAGTTCCTCTAAGTTTAGCGTGATTTTACACTTTG
64 AATTCACTATTTAGTCCCTCTAACTTTAGCGTGATTTTACACTTTG
3043852 GTCATGTGTAG
1 GTCATGTGTAG
3043863 TAACTTTGTA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
107 5 0.05
108 9 0.09
109 84 0.86
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (109 bp):
GTCATGTGTAGGGTTTAAAACTATTATTTTCCCTTTTATTTACATGCTTTATAATTTTTGGGTAA
TTCACTATTTAGTCCCTCTAACTTTAGCGTGATTTTACACTTTG
Found at i:3046448 original size:182 final size:182
Alignment explanation
Indices: 3046075--3046818 Score: 1023
Period size: 182 Copynumber: 4.1 Consensus size: 182
3046065 GTCGATACAA
* * * * **
3046075 ATAAAAACTATATCGATCCATAGCAATATAACAGGTTAAAATATGACAAAACCGGTTTCATTATG
1 ATAAAAA-TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATG
* * * * * *
3046140 ACAAAATCGGTAAAGCGGTACCGGATATGTTGAAAGTATCGATTAGATTGAA-ATAAGTATCGAC
65 AAAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGA-TA-CTTTAATATAAGTATCGAC
*
3046204 ACTTTTGGAATTTAAAAGAGAATCAGTAATAACGCCTATAAAGTGTCGATACTTT
128 ACTTTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
* * *
3046259 A-AAAAATGTATCGATCCATAACAATATAACATGCAAAAATATGACAAAACCGGTATCAAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* * * *
3046323 AAAAACCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCAACACG
66 AAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* * *
3046388 TTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTT
131 TTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
* *
3046440 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* * * * *
3046505 AAAAACTGGTTAAGAGCTACCGGATATGTTGAAAATGTTGATACTTTAATATAAGTATCGACACT
66 AAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
3046570 TTTGGAATTTAAAATAGAAGCAGTTATAACGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
* * *
3046622 ATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
* * * *
3046687 CAAAACGGGTAAAACGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
66 AAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
3046752 TTTGGAATTAAAAAG-GAAGCAGTAATACCGCC--TAAAGTGTCGATACATTT
131 TTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATAC-TTT
* *
3046802 ATTACAA-GTATCGATCC
1 ATAAAAATGTATCGATCC
3046819 CAAAAACATC
Statistics
Matches: 501, Mismatches: 56, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
179 23 0.05
180 12 0.02
181 79 0.16
182 381 0.76
183 5 0.01
184 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
AAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
TTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
Found at i:3047281 original size:197 final size:198
Alignment explanation
Indices: 3046784--3047282 Score: 677
Period size: 200 Copynumber: 2.5 Consensus size: 198
3046774 TAATACCGCC
**
3046784 TAAAGTGTCGATACATTTATTACAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGT
1 TAAAGTGTCGATACATTTA-TACAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
* * *
3046849 AATAGGTAAATTTGCAATGTAACTGGTATAAATATAACGATTTTATGAGAGAATAGGTCAACATA
65 AATAGGTAAATTTGCAATGTTACTGGTATAAATAT-ACGAGTTTATGAGAAAATAGGTCAACATA
* *
3046914 ATGTATCGACACTTTTTAAATTTGTGTTGAAACATTTTGTCCAGAATGAATGCCAAACGAGGTGC
129 ATGTATAGACACTTTTTAAATTTGTGTCGAAACATTTTGTCCAGAATGAATGCCAAACGAGGTGC
3046979 ACGCA
194 ACGCA
* * *
3046984 TAAAGTATCGACACATTTATTACAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGT
1 TAAAGTGTCGATACATTTA-TACAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
** * * * *
3047049 AATAGGTAAATTTATAATG-TACCCGATAGAAATATACTG-GTTTATGAGAAAATAGGTCTACAT
65 AATAGGTAAATTTGCAATGTTA-CTGGTATAAATATAC-GAGTTTATGAGAAAATAGGTCAACAT
* * * * *
3047112 AATGTATAGACACTTTTTAAGTTTGTGTCGATA-ATTTTTTCCAGAATGGATGTCC-AACTAGGT
128 AATGTATAGACACTTTTTAAATTTGTGTCGAAACATTTTGTCCAGAATGAATG-CCAAACGAGGT
3047175 GCACGCA
192 GCACGCA
* *
3047182 TAAAGTGTCGATATATTTA-A-AATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATG
1 TAAAGTGTCGATACATTTATACAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
3047245 TAATAGGTAAATTTGCAATGTTACTGGTATAAATATAC
64 TAATAGGTAAATTTGCAATGTTACTGGTATAAATATAC
3047283 CGTTTTCGTT
Statistics
Matches: 262, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
195 2 0.01
196 1 0.00
197 67 0.26
198 49 0.19
199 55 0.21
200 88 0.34
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (198 bp):
TAAAGTGTCGATACATTTATACAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
ATAGGTAAATTTGCAATGTTACTGGTATAAATATACGAGTTTATGAGAAAATAGGTCAACATAAT
GTATAGACACTTTTTAAATTTGTGTCGAAACATTTTGTCCAGAATGAATGCCAAACGAGGTGCAC
GCA
Found at i:3048452 original size:18 final size:19
Alignment explanation
Indices: 3048424--3048460 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3048414 AATTTAATTC
*
3048424 AATTAAAAATATCTTATTT
1 AATTAAAAATATATTATTT
3048443 AATT-AAAATATATTATTT
1 AATTAAAAATATATTATTT
3048461 TCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAAAATATATTATTT
Found at i:3050421 original size:20 final size:21
Alignment explanation
Indices: 3050393--3050440 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3050383 GAAAAAATAC
3050393 GAAATAAATAAATAAAA-AAAA
1 GAAA-AAATAAATAAAATAAAA
3050414 GAAAAAATAAATAAAATAAAA
1 GAAAAAATAAATAAAATAAAA
*
3050435 TAAAAA
1 GAAAAA
3050441 TGGAGGGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (21 bp):
GAAAAAATAAATAAAATAAAA
Found at i:3053668 original size:712 final size:712
Alignment explanation
Indices: 3052348--3053691 Score: 2035
Period size: 712 Copynumber: 1.9 Consensus size: 712
3052338 AAAGTTAAAA
* *
3052348 TTTTTAAATTTCGATCGTGATTATTTTAAATATTTTAAATAATTAAATTTTATAAAATATATATT
1 TTTTTAAATTTCGATCCTGATTATTTTAAATATTTTAAACAATTAAATTTTATAAAATATATATT
* * *
3052413 AAAAACTACTTGATTGAAAGTTTTTAAATATACCTTTTTATCAATGATATTTTAAATAATAATAA
66 AAAAACTACTTGATGGAAAGTTTTTAAATATACATTTTTATCAATAATATTTTAAATAATAATAA
3052478 GTCAAAATTGATGAAAAATTGATAAAAAAGTCAATAAAGAACAAATTTAATAGGACATAGGGAAT
131 GTCAAAATTGATGAAAAATTGATAAAAAAGTCAATAAAGAACAAATTTAATAGGACATAGGGAAT
*
3052543 ACATATTATCGTATTTCATGTTCTAAAAAAAGAGTAAAAAAATTAAATAACAACTCTAAATTGGC
196 ACATATTATCGTATTTCATGTTCTAAAAAAAGAGTAAAAAAATTAAATAACAACTCTAAATTGCC
* * *
3052608 ACAATCGAAATAAACATTTAGTATAGGGATGATAATGGGTAGGGTTGGGTCAGGCATTTGTCTGC
261 ACAATCGAAATAAACATTTAGTATAGGGATGACAATGGGTAGGGTCGGGTCAGGCATTTGTCTAC
* * *
3052673 TCCGACTTTGACCCGACTCAATTAAACTATAACCTGATTCTAACACGACCCCGATTTTTATATTA
326 TCCGACTTTGACCCGACACAATTAAACTATAACCCGA-TC--ACACAACCCCGATTTTTATATTA
* ** *
3052738 TTTCACTCGACCGGACTCCAGCTCCAAAATTAATATAAAAATTTGACTATGATTTGATCCAACCC
388 TTTCACCCGACCCAACTCCAGCTCCAAAATTAATATAAAAATTTGACTACGATTTGATCCAACCC
* *
3052803 AAAATATATTGCTGAAAATAAAAAAATGGAAGAAAAATACATTTAACAAAAGAAGAAAATCCCCA
453 AAAATATATTACTGAAAATAAAAAAATGGAAGAAAAATACATTGAACAAAAGAAGAAAATCCCCA
* * *
3052868 AAGATAAACATAAGAGTCTCACTTTCGCTTATAGATTATACCATCTTTTTCTTTGACTACAAACT
518 AAGATAAACATAAGAGTCCCACTTTCGCTTACAGATTATACCATCCTTTTCTTTGACTACAAACT
*
3052933 CATCAACAAACTACTTGTCTCACAATCCTAGAAAAACATAAATGGTTACATATAAGGGAAAAAAA
583 CATCAACAAACTACTTATCTCACAATCCTAGAAAAACATAAATGGTTACATATAAGGGAAAAAAA
3052998 ACCTTTTTTAAACGACATCATTGCTTATATTATCTCCGTCCCACTAAATATATCTCTTATAAACT
648 ACCTTTTTTAAACGACATCATTGCTTATATTATCTCCGTCCCACTAAATATATCTCTTATAAACT
*
3053063 TTTTTAAATTTTGATCACT-ATTATTTTAAATATTTTAAACAATTAAATTTTAT-AAATATATAT
1 TTTTTAAATTTCGATC-CTGATTATTTTAAATATTTTAAACAATTAAATTTTATAAAATATATAT
* * *
3053126 TAAAAACTACTTGATGGAAGGTTTTTAAATATATATATTTTATTTTTATCAATAATTTTTTAAAA
65 TAAAAACTACTTGATGGAAAGTTTTT--A-A-ATATA---CATTTTTATCAATAATATTTT-AAA
* * *
3053191 TAATAATGAGTCAAAATTGATGAAAAATTGAT-AAAAA-TCAATAAAGAAGATATTTAATAGGAC
122 TAATAATAAGTCAAAATTGATGAAAAATTGATAAAAAAGTCAATAAAGAACAAATTTAATAGGAC
3053254 ATA-GGAATACATATTATCGTATTTCATGTTCT-AAAAAAGAGTAAAAAAATTAAATAACAACTC
187 ATAGGGAATACATATTATCGTATTTCATGTTCTAAAAAAAGAGTAAAAAAATTAAATAACAACTC
* * * * * ** *
3053317 TGAGTTGCCACAATCGAAATCAACATTTGGTATAGGGATGACAATGGGTCGGGTCGGGTTGGGTA
252 TAAATTGCCACAATCGAAATAAACATTTAGTATAGGGATGACAATGGGTAGGGTCGGGTCAGGCA
* *
3053382 TTT-TCCTACTCCGACTTTGACCCGACACAATTAAACTATAACCCGA-C-C-CAACTCTGA-TTT
317 TTTGT-CTACTCCGACTTTGACCCGACACAATTAAACTATAACCCGATCACACAACCCCGATTTT
* * *
3053442 TATATTATTTCACCCTACCCAACTCCAGCTCCAAAATTAATATAAAAATTTGACTCCGATTTGTT
381 TATATTATTTCACCCGACCCAACTCCAGCTCCAAAATTAATATAAAAATTTGACTACGATTTGAT
* * * * *
3053507 CCGACCCGAAATATTTTACTGAAAATAAAGAAATTGGAAGAAAAATACATTGAACAAATGAAGAA
446 CCAACCCAAAATATATTACTGAAAATAAA-AAAATGGAAGAAAAATACATTGAACAAAAGAAGAA
* * *
3053572 AATCCTCAAAGATAAACCTAAGAGTCCCACTTTCGTTTACAGATTATACCATCCTTTTCTTTGAC
510 AATCCCCAAAGATAAACATAAGAGTCCCACTTTCGCTTACAGATTATACCATCCTTTTCTTTGAC
3053637 TACAAACTCATCAACAAACTACTTATCTCACAATCCTAGAAAAACATAAATGGTT
575 TACAAACTCATCAACAAACTACTTATCTCACAATCCTAGAAAAACATAAATGGTT
3053692 TTATATGAGG
Statistics
Matches: 568, Mismatches: 50, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
711 86 0.15
712 151 0.27
713 1 0.00
714 34 0.06
715 48 0.08
716 3 0.01
717 2 0.00
718 131 0.23
719 29 0.05
720 27 0.05
721 22 0.04
722 34 0.06
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (712 bp):
TTTTTAAATTTCGATCCTGATTATTTTAAATATTTTAAACAATTAAATTTTATAAAATATATATT
AAAAACTACTTGATGGAAAGTTTTTAAATATACATTTTTATCAATAATATTTTAAATAATAATAA
GTCAAAATTGATGAAAAATTGATAAAAAAGTCAATAAAGAACAAATTTAATAGGACATAGGGAAT
ACATATTATCGTATTTCATGTTCTAAAAAAAGAGTAAAAAAATTAAATAACAACTCTAAATTGCC
ACAATCGAAATAAACATTTAGTATAGGGATGACAATGGGTAGGGTCGGGTCAGGCATTTGTCTAC
TCCGACTTTGACCCGACACAATTAAACTATAACCCGATCACACAACCCCGATTTTTATATTATTT
CACCCGACCCAACTCCAGCTCCAAAATTAATATAAAAATTTGACTACGATTTGATCCAACCCAAA
ATATATTACTGAAAATAAAAAAATGGAAGAAAAATACATTGAACAAAAGAAGAAAATCCCCAAAG
ATAAACATAAGAGTCCCACTTTCGCTTACAGATTATACCATCCTTTTCTTTGACTACAAACTCAT
CAACAAACTACTTATCTCACAATCCTAGAAAAACATAAATGGTTACATATAAGGGAAAAAAAACC
TTTTTTAAACGACATCATTGCTTATATTATCTCCGTCCCACTAAATATATCTCTTATAAACT
Found at i:3054547 original size:18 final size:19
Alignment explanation
Indices: 3054519--3054555 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3054509 CATTTAATTC
*
3054519 AATTAAAAATATCTTATTT
1 AATTAAAAATATATTATTT
3054538 AATT-AAAATATATTATTT
1 AATTAAAAATATATTATTT
3054556 TCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTAAAAATATATTATTT
Found at i:3056587 original size:21 final size:21
Alignment explanation
Indices: 3056558--3056599 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3056548 CTAATTATCA
*
3056558 TATATTTATA-TTATAATTAAT
1 TATAATTATAGTT-TAATTAAT
3056579 TATAATTATAGTTTAATTAAT
1 TATAATTATAGTTTAATTAAT
3056600 ATGAGTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATAATTATAGTTTAATTAAT
Found at i:3057887 original size:45 final size:44
Alignment explanation
Indices: 3057837--3057980 Score: 139
Period size: 45 Copynumber: 3.5 Consensus size: 44
3057827 TTTTATGTTG
*
3057837 ATAATGCACCCTTATGCATTTCAACTTTGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTTTGGCAT-CTTTCATGCCA
* * *
3057882 ATAATGCATCCATATGCA-TT--A--TT--C-T-TTT-ATGTCG
1 ATAATGCACCCATATGCATTTCAACTTTGGCATCTTTCATGCCA
*
3057916 ATAATGCACCCATATGCATTTCAGCTTTGGCA-CATTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTTTGGCATC--TTTCATGCCA
3057961 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
3057981 ATTCTTGTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
34 21 0.27
35 5 0.06
37 1 0.01
38 1 0.01
39 2 0.03
40 2 0.03
41 1 0.01
42 1 0.01
44 5 0.06
45 40 0.51
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAACTTTGGCATCTTTCATGCCA
Found at i:3057921 original size:34 final size:34
Alignment explanation
Indices: 3057871--3058052 Score: 169
Period size: 34 Copynumber: 5.2 Consensus size: 34
3057861 CTTTGGCATC
* *
3057871 CTTTCATGCCAATAATGCATCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
3057905 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTTT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A---TT
3057944 GGCACATTTTCATGCCAATAATGCACCCATATGCATTATT
1 ----C-TTTT-ATGCCAATAATGCACCCATATGCATTATT
* *
3057984 CTTGTATGCCGATAATGCACCCATATGCA-T-TT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
3058016 C----ATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
3058046 CTTTTAT
1 CTTTTAT
3058053 TTATTCGTTC
Statistics
Matches: 122, Mismatches: 9, Indels: 34
0.74 0.05 0.21
Matches are distributed among these distances:
28 23 0.19
29 1 0.01
30 3 0.02
32 3 0.02
33 1 0.01
34 50 0.41
35 5 0.04
36 2 0.02
39 2 0.02
40 2 0.02
43 2 0.02
44 6 0.05
45 22 0.18
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:3057957 original size:79 final size:79
Alignment explanation
Indices: 3057826--3058017 Score: 305
Period size: 79 Copynumber: 2.4 Consensus size: 79
3057816 TTATAACATA
* * *
3057826 CTTTTATGTTGATAATGCACCCTTATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCAT
1 CTTTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCAC
3057891 CCATATGCATTATT
66 CCATATGCATTATT
* *
3057905 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTTTGGCA-CATTTTCATGCCAATAATGCA
1 CTTTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATC-CTTTCATGCCAATAATGCA
3057969 CCCATATGCATTATT
65 CCCATATGCATTATT
* *
3057984 CTTGTATGCCGATAATGCACCCATATGCATTTCA
1 CTTTTATGTCGATAATGCACCCATATGCATTTCA
3058018 TGCCAATAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 1 0.01
79 104 0.99
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (79 bp):
CTTTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:3058029 original size:28 final size:28
Alignment explanation
Indices: 3057951--3058042 Score: 121
Period size: 28 Copynumber: 3.1 Consensus size: 28
3057941 TTTGGCACAT
3057951 TTTCATGCCAATAATGCACCCATATGCA
1 TTTCATGCCAATAATGCACCCATATGCA
*
3057979 TTATTCTTGTATGCCGATAATGCACCCATATGCA
1 -T-TTC----ATGCCAATAATGCACCCATATGCA
3058013 TTTCATGCCAATAATGCACCCATATGCA
1 TTTCATGCCAATAATGCACCCATATGCA
3058041 TT
1 TT
3058043 ATTCTTTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
28 25 0.45
29 1 0.02
30 3 0.05
32 3 0.05
33 1 0.02
34 23 0.41
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (28 bp):
TTTCATGCCAATAATGCACCCATATGCA
Found at i:3058482 original size:20 final size:20
Alignment explanation
Indices: 3058457--3058495 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3058447 CAGTATGCTC
3058457 GGAGGGAACCGATTCCCCCT
1 GGAGGGAACCGATTCCCCCT
3058477 GGAGGGAACCGATTCCCCC
1 GGAGGGAACCGATTCCCCC
3058496 CCCAGGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (20 bp):
GGAGGGAACCGATTCCCCCT
Found at i:3058502 original size:20 final size:20
Alignment explanation
Indices: 3058459--3058517 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3058449 GTATGCTCGG
***
3058459 AGGGAACCGATTCCCCCTGG
1 AGGGAACCGATTCCCCCCCC
3058479 AGGGAACCGATTCCCCCCCC
1 AGGGAACCGATTCCCCCCCC
*
3058499 AGGGGGTACCGATTCCCCC
1 A--GGGAACCGATTCCCCC
3058518 TGTTTAACGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.55
22 15 0.45
ACGTcount: A:0.19, C:0.41, G:0.27, T:0.14
Consensus pattern (20 bp):
AGGGAACCGATTCCCCCCCC
Found at i:3063916 original size:20 final size:21
Alignment explanation
Indices: 3063879--3063936 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
3063869 TTTTGGTGTA
*
3063879 GAGGGAATCGATAT-CCCC-AT
1 GAGGGAACCGAT-TCCCCCTAT
*
3063899 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCTAT
3063920 GAATGGGAACCGATTCC
1 G-A-GGGAACCGATTCC
3063937 TTCTATAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 15 0.47
21 2 0.06
22 1 0.03
23 13 0.41
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTAT
Found at i:3065715 original size:16 final size:17
Alignment explanation
Indices: 3065681--3065715 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
3065671 TAAGAAAAAG
3065681 GGGGAGAAGTGTTTTAAA
1 GGGGAGAAGTG-TTTAAA
3065699 GGGGAGAAGTG-TTAAA
1 GGGGAGAAGTGTTTAAA
3065715 G
1 G
3065716 TAAGGGGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (17 bp):
GGGGAGAAGTGTTTAAA
Found at i:3065929 original size:19 final size:19
Alignment explanation
Indices: 3065907--3065944 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3065897 TTATTCGAAT
*
3065907 ATCAAAATATTACTCCAAA
1 ATCAAAATATTACACCAAA
3065926 ATCAAAATATTACACCAAA
1 ATCAAAATATTACACCAAA
3065945 TCTTATGAAA
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:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
ATCAAAATATTACACCAAA
Found at i:3067276 original size:19 final size:22
Alignment explanation
Indices: 3067222--3067278 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
3067212 ATATACCCCT
3067222 TCTATGGTATCGATA-CTATCA
1 TCTATGGTATCGATACCTATCA
* *
3067243 TCTAAGGTATTGATACCT-TCA
1 TCTATGGTATCGATACCTATCA
3067264 -C-ATGGTATCGATACC
1 TCTATGGTATCGATACC
3067279 GTTTTTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.39
20 1 0.03
21 16 0.52
22 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (22 bp):
TCTATGGTATCGATACCTATCA
Found at i:3067353 original size:20 final size:21
Alignment explanation
Indices: 3067303--3067353 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
3067293 TTTCAAAATG
* *
3067303 GTATCGATAC-CTTCCCTTCG
1 GTATCGATACTCTCCCCTTCA
3067323 GTATCGATACTC-CCCCTTCA
1 GTATCGATACTCTCCCCTTCA
3067343 GTATCGATACT
1 GTATCGATACT
3067354 TATTGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCTCCCCTTCA
Found at i:3073539 original size:45 final size:44
Alignment explanation
Indices: 3073484--3073706 Score: 175
Period size: 45 Copynumber: 5.5 Consensus size: 44
3073474 GTTTATGTTG
*
3073484 ATAACGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCTA
1 ATAATGCACCCATATGCATTTCAACTTTGGCAT-CTTTCATGCTA
*
3073529 ATAATGCACCCATATGCA-TT-AA---T--C-T-TTT-ATG-TCG
1 ATAATGCACCCATATGCATTTCAACTTTGGCATCTTTCATGCT-A
* * *
3073563 ATAATACACCCATATGCATTTCATCTTTGGCATCATTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTTTGGCATC-TTTCATGCTA
*
3073608 ATAATGCACCCATATGCA-TT--A--TT--C-T-TTT-ATG-TCG
1 ATAATGCACCCATATGCATTTCAACTTTGGCATCTTTCATGCT-A
* *
3073642 ATAATGCACCCATATGCATTTCAGCTTTGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTTTGGCAT-CTTTCATGCTA
3073687 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
3073707 ATTCTTTTAT
Statistics
Matches: 139, Mismatches: 13, Indels: 52
0.68 0.06 0.25
Matches are distributed among these distances:
33 1 0.01
34 41 0.29
35 10 0.07
36 1 0.01
37 2 0.01
38 2 0.01
39 3 0.02
40 3 0.02
41 2 0.01
42 2 0.01
43 2 0.01
44 10 0.07
45 60 0.43
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAACTTTGGCATCTTTCATGCTA
Found at i:3073567 original size:34 final size:34
Alignment explanation
Indices: 3073529--3073661 Score: 131
Period size: 34 Copynumber: 3.6 Consensus size: 34
3073519 TTTCATGCTA
3073529 ATAATGCACCCATATGCATTAATCTTTTATGTCG
1 ATAATGCACCCATATGCATTAATCTTTTATGTCG
* * *
3073563 ATAATACACCCATATGCATTTCATCTTTGGCATCATTTCATG
1 ATAATGCACCCATATGCA-TTAATCTTT----T-ATGTC--G
*
3073605 CCAATAATGCACCCATATGCATTATTCTTTTATGTCG
1 ---ATAATGCACCCATATGCATTAATCTTTTATGTCG
3073642 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
3073662 TCAGCTTTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
34 37 0.46
35 8 0.10
37 1 0.01
39 5 0.06
40 5 0.06
42 1 0.01
44 7 0.09
45 17 0.21
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTAATCTTTTATGTCG
Found at i:3073573 original size:79 final size:79
Alignment explanation
Indices: 3073475--3073716 Score: 412
Period size: 79 Copynumber: 3.1 Consensus size: 79
3073465 ATAGGATACG
* * *
3073475 TTTATGTTGATAACGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCTAATAATGCACCC
1 TTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCACCC
*
3073540 ATATGCATTAATCT
66 ATATGCATTATTCT
* * *
3073554 TTTATGTCGATAATACACCCATATGCATTTCATCTTTGGCATCATTTCATGCCAATAATGCACCC
1 TTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCACCC
3073619 ATATGCATTATTCT
66 ATATGCATTATTCT
*
3073633 TTTATGTCGATAATGCACCCATATGCATTTCAGCTTTGGCATCCTTTCATGCCAATAATGCACCC
1 TTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCACCC
3073698 ATATGCATTATTCT
66 ATATGCATTATTCT
3073712 TTTAT
1 TTTAT
3073717 TTATTCGTTC
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 153 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (79 bp):
TTTATGTCGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATGCACCC
ATATGCATTATTCT
Found at i:3077595 original size:54 final size:53
Alignment explanation
Indices: 3077537--3077649 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
3077527 TCATAAAAAT
* * * ***
3077537 ATATAATAATCGGGTGTCCGTATTATTTTCTCAATTGTCACTAAGGCCGCATAA
1 ATATAATAATCGGGTGTCCATATT-GTTTCCCAACCATCACTAAGGCCGCATAA
* * *
3077591 ATATAATAATCGGGTTTCCATATTGTTTCCCAGCCATCACTAAGGCCGTATAA
1 ATATAATAATCGGGTGTCCATATTGTTTCCCAACCATCACTAAGGCCGCATAA
3077644 ATATAA
1 ATATAA
3077650 CAGTGCGCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 28 0.56
54 22 0.44
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (53 bp):
ATATAATAATCGGGTGTCCATATTGTTTCCCAACCATCACTAAGGCCGCATAA
Found at i:3081828 original size:23 final size:23
Alignment explanation
Indices: 3081782--3081828 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3081772 ATTAAATTCG
*
3081782 AAATAAAAATAAAATATATGATT
1 AAATAAAAATAAAATAAATGATT
* *
3081805 AAATAAAAATAATATAAATTATT
1 AAATAAAAATAAAATAAATGATT
3081828 A
1 A
3081829 GTCAATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATAAAAATAAAATAAATGATT
Found at i:3082263 original size:19 final size:22
Alignment explanation
Indices: 3082211--3082271 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 22
3082201 AAACTCTGTT
3082211 CACCGGCCGGTCACTATTTCGAC
1 CACCGGCCGGTCACTA-TTCGAC
*
3082234 CACCGGCCGGTCATTATTC-A-
1 CACCGGCCGGTCACTATTCGAC
3082254 CACC-GCCGGTCACTATTC
1 CACCGGCCGGTCACTATTC
3082272 TGGTTACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.36
20 4 0.11
21 1 0.03
22 3 0.08
23 15 0.42
ACGTcount: A:0.18, C:0.39, G:0.20, T:0.23
Consensus pattern (22 bp):
CACCGGCCGGTCACTATTCGAC
Found at i:3082981 original size:3 final size:3
Alignment explanation
Indices: 3082973--3083013 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
3082963 ATATTTGTTA
*
3082973 AAT AAT AAT AAT AAT -AT ATAT AAT ATT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
3083014 AATGAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:3083220 original size:45 final size:45
Alignment explanation
Indices: 3083171--3083466 Score: 520
Period size: 45 Copynumber: 6.6 Consensus size: 45
3083161 AGTCTTATAA
* *
3083171 ATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* *
3083216 ATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAT
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
3083261 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
3083306 ATGACCCGAAGGTTTTGAAAACAGCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
3083351 ATGACCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
3083396 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* *
3083441 ATGACCCGAAGGCTTTGAAAATATCA
1 ATGACCCGAAGGTTTTGAAAACATCA
3083467 AAAAGCTCCC
Statistics
Matches: 239, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 239 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
Found at i:3083361 original size:20 final size:20
Alignment explanation
Indices: 3083291--3083362 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
3083281 ACATCATGCA
3083291 CTGAAGGGCTTACAGATGAC
1 CTGAAGGGCTTACAGATGAC
* **
3083311 CCGAAGGTTTTGAAAACAGCATG-C
1 CTGAAGGGCTT----ACAG-ATGAC
3083335 ACTGAAGGGCTTACAGATGAC
1 -CTGAAGGGCTTACAGATGAC
3083356 CTGAAGG
1 CTGAAGG
3083363 TTTTGAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 18 0.46
21 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (20 bp):
CTGAAGGGCTTACAGATGAC
Found at i:3083413 original size:135 final size:134
Alignment explanation
Indices: 3083171--3083582 Score: 535
Period size: 135 Copynumber: 3.2 Consensus size: 134
3083161 AGTCTTATAA
* * * * *
3083171 ATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGCTTTGAAA
1 ATGACCCGAAGGCTTTGAAAACA-CATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAA
*
3083236 ACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCT
65 ACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCT
3083301 TACAG
130 TACAG
*
3083306 ATGACCCGAAGGTTTTGAAAACAGCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAA
1 ATGACCCGAAGGCTTTGAAAACA-CATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAA
3083371 ACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCT
65 ACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCT
3083436 TACAG
130 TACAG
* ** ** * *
3083441 ATGACCCGAAGGCTTTG-AAA-ATAT-CA---AAAAGCTCCCA-AAG-GCT-----TTTTGAAAA
1 ATGACCCGAAGGCTTTGAAAACACATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAA
* * * * *
3083493 CATCCTGCACTGTAGGACTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTT
66 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
3083558 ACAG
131 ACAG
*
3083562 ATGACCCGAAGGCTTTAAAAA
1 ATGACCCGAAGGCTTTGAAAA
3083583 TATCAAAAAG
Statistics
Matches: 256, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
121 89 0.35
122 3 0.01
126 2 0.01
127 2 0.01
128 7 0.03
131 2 0.01
132 2 0.01
133 1 0.00
134 3 0.01
135 145 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (134 bp):
ATGACCCGAAGGCTTTGAAAACACATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAA
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
ACAG
Found at i:3083548 original size:45 final size:45
Alignment explanation
Indices: 3083484--3083587 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
3083474 CCCAAAGGCT
* * *
3083484 TTTTGAAAACATCCTGCACTGTAGGACTTACGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
* *
3083529 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
* * *
3083574 CTTTAAAAATATCA
1 TTTTGAAAACATCA
3083588 AAAAGCTCCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
Found at i:3083577 original size:121 final size:121
Alignment explanation
Indices: 3083363--3083640 Score: 493
Period size: 121 Copynumber: 2.3 Consensus size: 121
3083353 GACCTGAAGG
* *
3083363 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCCTGCACTGAAGGGCTTACGGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
3083428 GAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGGCT
66 GAAGGGCTTACAGATGACCCGAAGGCTTTAAAAATATCAAAAAGCTCCCAAAGGCT
* * *
3083484 TTTTGAAAACATCCTGCACTGTAGGACTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
1 TTTTGAAAACATCCTGCACTGAAGGGCTTACGGATGACCCGAAGGTTTTGAAAACATCATGCACT
3083549 GAAGGGCTTACAGATGACCCGAAGGCTTTAAAAATATCAAAAAGCTCCCAAAGGCT
66 GAAGGGCTTACAGATGACCCGAAGGCTTTAAAAATATCAAAAAGCTCCCAAAGGCT
*
3083605 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
1 TTTTGAAAACATCCTGCACTGAAGGGCTTACGGATG
3083641 TGGGAAATAG
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 149 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (121 bp):
TTTTGAAAACATCCTGCACTGAAGGGCTTACGGATGACCCGAAGGTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGCTTTAAAAATATCAAAAAGCTCCCAAAGGCT
Found at i:3084320 original size:22 final size:22
Alignment explanation
Indices: 3084286--3084349 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
3084276 AAATTCAATA
* *
3084286 AATCTTTCTTCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
3084308 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
*
3084330 AATCTGTCATCTTTGAAGAG
1 AATCTATCATCTTTGAAGAG
3084350 TGTAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:3089353 original size:7 final size:7
Alignment explanation
Indices: 3089275--3089369 Score: 63
Period size: 7 Copynumber: 13.4 Consensus size: 7
3089265 AATGTAATGT
3089275 AAATGCGA
1 AAATGC-A
3089283 AAATGCAA
1 AAATGC-A
3089291 AAAT--A
1 AAATGCA
3089296 ATAATGCA
1 A-AATGCA
* *
3089304 AACTGTA
1 AAATGCA
*
3089311 CAATGCA
1 AAATGCA
*
3089318 AAA-GTAA
1 AAATG-CA
*
3089325 AAATAC-
1 AAATGCA
3089331 AAATGCA
1 AAATGCA
3089338 AAGATGCA
1 AA-ATGCA
3089346 AAATGCA
1 AAATGCA
3089353 AAATGCA
1 AAATGCA
*
3089360 AAATGTA
1 AAATGCA
3089367 AAA
1 AAA
3089370 AATGTAAATG
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
5 2 0.03
6 9 0.13
7 37 0.54
8 20 0.29
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.17
Consensus pattern (7 bp):
AAATGCA
Found at i:3089378 original size:22 final size:21
Alignment explanation
Indices: 3089307--3089379 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
3089297 TAATGCAAAC
3089307 TGTACAATGCAAAA-GTAAAAA
1 TGTA-AATGCAAAATGTAAAAA
** *
3089328 TACAAATGCAAAGATG-CAAAA
1 TGTAAATGCAAA-ATGTAAAAA
*
3089349 TGCAAAATGCAAAATGTAAAAAA
1 TG-TAAATGCAAAATGT-AAAAA
3089372 TGTAAATG
1 TGTAAATG
3089380 TAAATTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
20 8 0.20
21 11 0.28
22 15 0.38
23 6 0.15
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (21 bp):
TGTAAATGCAAAATGTAAAAA
Found at i:3091668 original size:20 final size:20
Alignment explanation
Indices: 3091645--3091703 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
3091635 AAAATAAAAT
3091645 AAGAAATAAAAATGAATTGA
1 AAGAAATAAAAATGAATTGA
* *
3091665 AAGAAATCAAAA-GAATCTTA
1 AAGAAATAAAAATGAAT-TGA
* *
3091685 AATTAAATAAATATGAATT
1 AA-GAAATAAAAATGAATT
3091704 CTCAATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.13
20 15 0.48
21 8 0.26
22 4 0.13
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.25
Consensus pattern (20 bp):
AAGAAATAAAAATGAATTGA
Found at i:3093395 original size:23 final size:23
Alignment explanation
Indices: 3093369--3093413 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3093359 TTCACCGGCC
3093369 GACCACCGACCGGTCACTATTCT
1 GACCACCGACCGGTCACTATTCT
** *
3093392 GACCATTGGCCGGTCACTATTC
1 GACCACCGACCGGTCACTATTC
3093414 ACGTCGTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (23 bp):
GACCACCGACCGGTCACTATTCT
Found at i:3094158 original size:3 final size:3
Alignment explanation
Indices: 3094150--3094205 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
3094140 ATATTTGTTA
* **
3094150 AAT AAT AAT AAT AAT -AT ATAT AAT ATT AAT AAT AAT AAT TTT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
3094195 AAT AAT AAT AA
1 AAT AAT AAT AA
3094206 AATGAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:3094499 original size:12 final size:11
Alignment explanation
Indices: 3094452--3094515 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
3094442 AAACCAAGGC
3094452 CCCAACCTAAAA
1 CCCAACC-AAAA
*
3094464 CCCCAACGAAAA
1 -CCCAACCAAAA
*
3094476 TCCAACCCAAAA
1 CCCAA-CCAAAA
*
3094488 CCCAATCTAAAA
1 CCCAA-CCAAAA
*
3094500 CTCAACCAAAA
1 CCCAACCAAAA
3094511 CCCAA
1 CCCAA
3094516 ACAAGCCCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
11 13 0.32
12 22 0.54
13 6 0.15
ACGTcount: A:0.50, C:0.41, G:0.02, T:0.08
Consensus pattern (11 bp):
CCCAACCAAAA
Found at i:3094499 original size:24 final size:22
Alignment explanation
Indices: 3094453--3094515 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
3094443 AACCAAGGCC
*
3094453 CCAACCTAAAACCCCAACGAAAA
1 CCAACCCAAAA-CCCAACGAAAA
*
3094476 TCCAACCCAAAACCCAATCTAAAA
1 -CCAACCCAAAACCCAA-CGAAAA
3094500 CTCAA-CCAAAACCCAA
1 C-CAACCCAAAACCCAA
3094516 ACAAGCCCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.51, C:0.40, G:0.02, T:0.08
Consensus pattern (22 bp):
CCAACCCAAAACCCAACGAAAA
Found at i:3104013 original size:14 final size:14
Alignment explanation
Indices: 3103975--3104016 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
3103965 AAATAGCAAC
*
3103975 CACATTCTTT-CTT
1 CACATTCTTTGCAT
3103988 CACATT-TTTGCAT
1 CACATTCTTTGCAT
*
3104001 CGCATTCTTTGCAT
1 CACATTCTTTGCAT
3104015 CA
1 CA
3104017 TATTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 3 0.12
13 13 0.54
14 8 0.33
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (14 bp):
CACATTCTTTGCAT
Found at i:3108651 original size:137 final size:136
Alignment explanation
Indices: 3108396--3108825 Score: 533
Period size: 137 Copynumber: 3.2 Consensus size: 136
3108386 AAAGAGAAGA
* * *
3108396 TCCAATGGATAGTTCATAATGAAAAATAACTCATCCGATAGAGGGAGAAGAAGTTCGTAATGAGA
1 TCCAATGGAGAGTTCATAATGAAAAAAAACTCATCCGATAGAGGGAGAAGAAGTTTGTAATGAGA
* *
3108461 AGAACTTGTTTAACATTTGCTCGATTCACGACATTTTGAATCAGTGACACCTCACTTGAGGGATT
66 AGAACTTGTTCAACATTTGCTCGATTCACGACATTTCGAATCAGTGACACCTCACTTGAGGGATT
3108526 AACACT
131 AACACT
**
3108532 TCCAATGGAGAGTTCATAATGAAAAAAAAACTCATATGATAGAGGGAGAAGAAGTTTGTAATGAG
1 TCCAATGGAGAGTTCATAATG-AAAAAAAACTCATCCGATAGAGGGAGAAGAAGTTTGTAATGAG
* ** * *** * *
3108597 AAGAACTTGTTCAACATTTACTCGATTCACGGTATTTCAAATCAACAACGCCTCAATTGAGGGAT
65 AAGAACTTGTTCAACATTTGCTCGATTCACGACATTTCGAATCAGTGACACCTCACTTGAGGGAT
3108662 TAA-ACT
130 TAACACT
* * ** * *
3108668 TCTAATTGAGAGTTCATAATGAAAAAGGACTCATCCGATAGAGGGGGAAAAAGTTCT-TAAT-AG
1 TCCAATGGAGAGTTCATAATGAAAAAAAACTCATCCGATAGAGGGAGAAGAAGTT-TGTAATGAG
** * * *
3108731 AAAGAACTTGTTCAACCCTTGCTCGATTCACGCCATTTCGAATCGGTGACACCTCACTCGAGGGA
65 -AAGAACTTGTTCAACATTTGCTCGATTCACGACATTTCGAATCAGTGACACCTCACTTGAGGGA
*
3108796 TTAACATT
129 TTAACACT
* * *
3108804 TCCAGTAGAGAGCTCATAATGA
1 TCCAATGGAGAGTTCATAATGA
3108826 GAAGAACCCA
Statistics
Matches: 248, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
134 2 0.01
135 87 0.35
136 63 0.25
137 96 0.39
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (136 bp):
TCCAATGGAGAGTTCATAATGAAAAAAAACTCATCCGATAGAGGGAGAAGAAGTTTGTAATGAGA
AGAACTTGTTCAACATTTGCTCGATTCACGACATTTCGAATCAGTGACACCTCACTTGAGGGATT
AACACT
Found at i:3109059 original size:13 final size:11
Alignment explanation
Indices: 3108974--3109059 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
3108964 AAACCAAGGC
3108974 CCCAACCTAAAA
1 CCCAA-CTAAAA
*
3108986 CACAACTAAAA
1 CCCAACTAAAA
*
3108997 TCCAACCTAAAA
1 CCCAA-CTAAAA
* *
3109009 CCCAACCAGAA
1 CCCAACTAAAA
* **
3109020 CCTAAAC-AAGC
1 CC-CAACTAAAA
3109031 CCCAACTAAAA
1 CCCAACTAAAA
3109042 CCCAACCTAAATA
1 CCCAA-CTAAA-A
3109055 CCCAA
1 CCCAA
3109060 AATAGGACCC
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
10 3 0.05
11 25 0.45
12 22 0.39
13 6 0.11
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.09
Consensus pattern (11 bp):
CCCAACTAAAA
Found at i:3110540 original size:20 final size:20
Alignment explanation
Indices: 3110502--3110550 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3110492 GATCCAGATA
* *
3110502 TTTATGTTTATTTTTTATTTT
1 TTTATG-TTATGTTATATTTT
3110523 TTTATGTTATGTTATATTTT
1 TTTATGTTATGTTATATTTT
3110543 TTTA-GTTA
1 TTTATGTTA
3110551 GGTTTATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTATGTTATGTTATATTTT
Found at i:3110557 original size:20 final size:20
Alignment explanation
Indices: 3110517--3110558 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3110507 GTTTATTTTT
*
3110517 TATTTTTTTATGTTATGTTA
1 TATTTTTTTATGTTAGGTTA
3110537 TATTTTTTTA-GTTAGGTT-
1 TATTTTTTTATGTTAGGTTA
3110555 TATT
1 TATT
3110559 AGTTGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (20 bp):
TATTTTTTTATGTTAGGTTA
Found at i:3112735 original size:19 final size:18
Alignment explanation
Indices: 3112690--3112724 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3112680 AAATGGTCTT
*
3112690 GAAAGTTTCGAAACTTTA
1 GAAAGTTTCGAAACTTCA
3112708 GAAAGTTTCGAAACTTC
1 GAAAGTTTCGAAACTTC
3112725 CCTAAAGTTT
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:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
GAAAGTTTCGAAACTTCA
Found at i:3116251 original size:5 final size:5
Alignment explanation
Indices: 3116243--3116272 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
3116233 GGGTTGGATT
*
3116243 GGGTC GGGTC GGGTC GGGTC GGATC GGGTC
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC
3116273 AGATCAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.03, C:0.20, G:0.57, T:0.20
Consensus pattern (5 bp):
GGGTC
Found at i:3117837 original size:14 final size:14
Alignment explanation
Indices: 3117818--3117844 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3117808 AATATTTTTT
3117818 AAAATAATTTTAAG
1 AAAATAATTTTAAG
3117832 AAAATAATTTTAA
1 AAAATAATTTTAA
3117845 ATGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTAAG
Found at i:3120040 original size:26 final size:26
Alignment explanation
Indices: 3120010--3120061 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3120000 GGTTTTGTTG
*
3120010 TTGGGCCCGATTTGGCTAT-TTGTAAT
1 TTGGGCCCGATTGGGCT-TGTTGTAAT
3120036 TTGGGCCCGATTGGGCTTGTTGTAAT
1 TTGGGCCCGATTGGGCTTGTTGTAAT
3120062 GGTATGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.13, C:0.15, G:0.31, T:0.40
Consensus pattern (26 bp):
TTGGGCCCGATTGGGCTTGTTGTAAT
Found at i:3120540 original size:134 final size:135
Alignment explanation
Indices: 3120306--3121509 Score: 1437
Period size: 134 Copynumber: 8.9 Consensus size: 135
3120296 CAAATGAATC
* * * * *
3120306 GATTTTCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAAGAAGAACCTACTCGACT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCT----G--AAAGAAGAAGAATCTGCTCCACT
* * *
3120371 ACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATGCACTTCACTGCTCTTTAGGGAAGATTG
60 ACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTG
3120436 AATCAGAA-TT
125 AATCAGAACTT
*
3120446 GATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCT-CATCCACTACTCT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGC-TCCACTACTCT
* * * * *
3120510 TTAAGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGTAGATTGAATCA
65 TTAGGGGAGATCAGACTCGAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
*
3120575 -AAATT
130 GAACTT
* * * * ** * *
3120580 GATTTGCTTCACTACTATTCAGGAAGACCAAAACTGAAAGAATAAGTGTATGCTTCACTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* *
3120645 TAAGGGAGATCAGACTCGAG-ACACTTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATC-
66 TAGGGGAGATCAGACTCGAGAAAAC-TTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
3120708 GAACTT
130 GAACTT
* **
3120714 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAGAGAAGAAGTGTCTGCTCCACTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* * * *
3120779 TAGGGGAGATCAGACTGGAG-ACACTTTTGATTCACTTCGTTGCTCTTTAGGGAAGATTGAATC-
66 TAGGGGAGATCAGACTCGAGAAAAC-TTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
3120842 GAACTT
130 GAACTT
* * * * * * *
3120848 GATTTGCTTCACTACTATTTAGGAAGACCAAATATGAAAGAATAAGAATTTGCTCCATTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
** * * * * *
3120913 TAGTAGATATCAAACTCGAGAAAATTTTGATTCACTTTGCTGCTCTTCAGGGAAGATTGAAT-TG
66 TAGGGGAGATCAGACTCGAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCAG
3120977 AACTT
131 AACTT
* * * * *
3120982 GATTTGCTTCACTGCTCTTCAGGAAAACCAAATTTGAAAGACGAAGAATCTGTTCCACTACTTTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* * *
3121047 TAGGGGAGATCAGAC-CAGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCA
66 TAGGGGAGATCAGACTC-GAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
* *
3121111 -AAATA
130 GAACTT
* * * * * * * ** * *
3121116 GATTTTCTTTACTACTCTTCATGAAGACTAAATATGAAAGAATAAGTGTTTGCTCAACTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* * *
3121181 TAGGGGAGATCAAACTCGA-TACACTTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATC-
66 TAGGGGAGATCAGACTCGAGAAAAC-TTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
3121244 GAACTT
130 GAACTT
* * ** *
3121250 GATTTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAAAAGAAGTGTATGCTCCACTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
*
3121315 TAGGGGAGATCAGACTCGAG-ACACTTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
66 TAGGGGAGATCAGACTCGAGAAAAC-TTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCA
3121379 -AACTT
130 GAACTT
* * * *
3121384 GATTTGCTTTATTGCTCTTCAAGAAAACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* * * * *
3121449 TAAGGGAGATCAGACTCGAGAAAACTTTGATCCACATCACTGCTCTTCAGGAAAGATTGAA
66 TAGGGGAGATCAGACTCGAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAA
3121510 CCTGAAAGAT
Statistics
Matches: 922, Mismatches: 127, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
133 9 0.01
134 873 0.95
135 7 0.01
136 1 0.00
140 32 0.03
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (135 bp):
GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
TAGGGGAGATCAGACTCGAGAAAACTTTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCAG
AACTT
Found at i:3122296 original size:42 final size:38
Alignment explanation
Indices: 3122232--3122423 Score: 168
Period size: 38 Copynumber: 4.8 Consensus size: 38
3122222 GACAACACTA
* *
3122232 AAAGTTTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC
* * *
3122270 ATTGAAAGATTGATTTCTCTTTACGAGGGAGTCAGGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC
* * * * *
3122312 AATGATTCACTTCTCTTCACGAGGAAGTTAGGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC
* * * * *
3122350 AAATATCGACTTATCTTCACGAGGAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC
*
3122388 ATTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAG
1 ----AAAGATTGACTTCTCTTCACGAGGGAGTCAAG
3122424 TTGAAGCTTC
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
38 62 0.51
42 59 0.49
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGGAGTCAAGAATAAC
Done.