Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 280 of 345
Found at i:95528826 original size:48 final size:48
Alignment explanation
Indices: 95528766--95528902 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 48
95528756 GTTACGAGAT
95528766 GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCAGCACGTATAGAG
1 GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCAGCACGTATAGAG
* **
95528814 GTGTTAGTGTAAGACCATGTCTGGGATATGGC-TTTGTCACGTATAGAG
1 GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCAG-CACGTATAGAG
* * * * *
95528862 GTGTCAGTGTAAGACCATATTTGGGACATGACATCGGCACG
1 GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCAGCACG
95528903 GATATGTGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.03
48 73 0.95
49 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCAGCACGTATAGAG
Found at i:95529045 original size:50 final size:49
Alignment explanation
Indices: 95528989--95529123 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 49
95528979 ATAGAGGTGT
* *
95528989 TAGTGTAAGCCCATGTCTGGGACATAGCATCGGCATGGATATGT-GAGAGC
1 TAGTGTAAGACCATGTCTGGGACATAGCATCGGCATCGAT-T-TCGAGAGC
* * * * *
95529039 TAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGATTTCGATAGC
1 TAGTGTAAGACCATGTCTGGGACATAGCATCGGCATCGATTTCGAGAGC
* * *
95529088 CAGTGTAAGACCTTGTCTGGGACATTGCATCGGCAT
1 TAGTGTAAGACCATGTCTGGGACATAGCATCGGCAT
95529124 TATACCCTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.01
49 36 0.51
50 34 0.48
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATAGCATCGGCATCGATTTCGAGAGC
Found at i:95529072 original size:123 final size:123
Alignment explanation
Indices: 95528851--95529091 Score: 385
Period size: 123 Copynumber: 2.0 Consensus size: 123
95528841 ATGGCTTTGT
*
95528851 CACGTATAGAGGTGTCAGTGTAAGACCATATTTGGGACATGACATCGGCACGGATATGTGAGAGC
1 CACGTATAGAGGTGTCAGTGTAAGACCATATCTGGGACATGACATCGGCACGGATATGTGAGAGC
* * *
95528916 TAGTGTAAGACCATGTTTAGGACATAGCGTCAGCCTCGATTTTGATAGCCAGTATCGG
66 TAGTGTAAGACCATGTCTAGGACATAGCATCAGCCTCGATTTCGATAGCCAGTATCGG
* * * *
95528974 CACGTATAGAGGTGTTAGTGTAAGCCCATGTCTGGGACAT-AGCATCGGCATGGATATGTGAGAG
1 CACGTATAGAGGTGTCAGTGTAAGACCATATCTGGGACATGA-CATCGGCACGGATATGTGAGAG
*
95529038 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGATTTCGATAGCCAGT
65 CTAGTGTAAGACCATGTCTAGGACATAGCATCAGCCTCGATTTCGATAGCCAGT
95529092 GTAAGACCTT
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
122 1 0.01
123 107 0.99
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (123 bp):
CACGTATAGAGGTGTCAGTGTAAGACCATATCTGGGACATGACATCGGCACGGATATGTGAGAGC
TAGTGTAAGACCATGTCTAGGACATAGCATCAGCCTCGATTTCGATAGCCAGTATCGG
Found at i:95530127 original size:168 final size:168
Alignment explanation
Indices: 95529849--95530209 Score: 494
Period size: 168 Copynumber: 2.1 Consensus size: 168
95529839 CGGATAGACA
* * * *
95529849 CACGGGCTTGTGTCTAGGTCGTGTGTAACACACGATCAGCCCCATAGGCGTATTGCTTGGTCGTG
1 CACGGGCGTGTGCCTAGGCCGTGTATAACACACGATCAGCCCCATAGGCGTATTGCTTGGTCGTG
*
95529914 TGTCCCCTACACATAAAACTTGCAGGTCAGTATGCATGGTAGTAAACACACGGGCAGAGACACGG
66 TGTCCCCTACACATAAAACTTGCAAGTCAGTATGCATGGTAGTAAACACACGGGCAGAGACACGG
* *
95529979 CCGTGTGTCTTAGCT-GTGTGGAGGACACAGCCTCTGGC
131 CCGTGTGTCTCAG-TAGTGTGGAGGACACAGCCTCTAGC
* * * * * *
95530017 CACGGGCGTGTGCCTAGGCCGTGTATGACACACGGTCAGCCCTATGGGTGTGTTGCTTGG-CTGT
1 CACGGGCGTGTGCCTAGGCCGTGTATAACACACGATCAGCCCCATAGGCGTATTGCTTGGTC-GT
* * * * * *
95530081 GTGTCCCCTGCACGTAAAATTTGCAAGTCAGTATGCGTGGTAGTAAACACATGGGCAGAGATACG
65 GTGTCCCCTACACATAAAACTTGCAAGTCAGTATGCATGGTAGTAAACACACGGGCAGAGACACG
*
95530146 GCCGTGTGTCTCAGTAGTGTGGAGGACACGGCCTCTAGC
130 GCCGTGTGTCTCAGTAGTGTGGAGGACACAGCCTCTAGC
95530185 CACGGGCGTGTGCCTTA-GCCGTGTA
1 CACGGGCGTGTGCC-TAGGCCGTGTA
95530210 CCCCTTATCT
Statistics
Matches: 170, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
167 2 0.01
168 166 0.98
169 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (168 bp):
CACGGGCGTGTGCCTAGGCCGTGTATAACACACGATCAGCCCCATAGGCGTATTGCTTGGTCGTG
TGTCCCCTACACATAAAACTTGCAAGTCAGTATGCATGGTAGTAAACACACGGGCAGAGACACGG
CCGTGTGTCTCAGTAGTGTGGAGGACACAGCCTCTAGC
Found at i:95534863 original size:24 final size:26
Alignment explanation
Indices: 95534836--95534893 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
95534826 TCATAACTTC
95534836 AATTAAATTATTATT-TTTATAATT-
1 AATTAAATTATTATTATTTATAATTG
* * *
95534860 AATTAGATTTTTATTATTTTTAATTG
1 AATTAAATTATTATTATTTATAATTG
95534886 AATATAAA
1 AAT-TAAA
95534894 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 13 0.48
25 8 0.30
26 3 0.11
27 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
AATTAAATTATTATTATTTATAATTG
Found at i:95540703 original size:15 final size:14
Alignment explanation
Indices: 95540664--95540705 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
95540654 GGTAAACTAT
95540664 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
95540678 AAATAAAAAAAGAAA
1 AAA-AAAAAAAGAAA
*
95540693 AGAAAAGAAAAGA
1 A-AAAAAAAAAGA
95540706 TTTCTCTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:95544343 original size:21 final size:21
Alignment explanation
Indices: 95544318--95544362 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
95544308 TGCTCACCTC
**
95544318 TGCCTCCCTCGCTGCTGCTGT
1 TGCCTCCCTAACTGCTGCTGT
*
95544339 TGCCTCCCTAACTGCTGCTTT
1 TGCCTCCCTAACTGCTGCTGT
95544360 TGC
1 TGC
95544363 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.40, G:0.20, T:0.36
Consensus pattern (21 bp):
TGCCTCCCTAACTGCTGCTGT
Found at i:95544795 original size:13 final size:14
Alignment explanation
Indices: 95544769--95544797 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
95544759 ACTAACGACG
95544769 AATTAAATCATTAT
1 AATTAAATCATTAT
95544783 AATTAAA-CATTAT
1 AATTAAATCATTAT
95544796 AA
1 AA
95544798 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAATCATTAT
Found at i:95549869 original size:9 final size:9
Alignment explanation
Indices: 95549855--95549965 Score: 52
Period size: 9 Copynumber: 12.3 Consensus size: 9
95549845 TAACTATAAT
95549855 TAAGTTATG
1 TAAGTTATG
95549864 TAAGTTATG
1 TAAGTTATG
* * *
95549873 ATATGATATA
1 -TAAGTTATG
*
95549883 T-ATTTATG
1 TAAGTTATG
95549891 T-A-TTATG
1 TAAGTTATG
95549898 TAAGTTATG
1 TAAGTTATG
* *
95549907 TAAATAATG
1 TAAGTTATG
*
95549916 TAAGATATGATA
1 TAAG-T-T-ATG
*
95549928 TATATTTATG
1 TA-AGTTATG
*
95549938 T-A-TAATG
1 TAAGTTATG
95549945 TAAGTTATG
1 TAAGTTATG
*
95549954 TAAATTATG
1 TAAGTTATG
95549963 TAA
1 TAA
95549966 AATATGATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 18
0.68 0.15 0.16
Matches are distributed among these distances:
7 11 0.14
8 8 0.11
9 40 0.53
10 10 0.13
11 1 0.01
12 5 0.07
13 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:95549904 original size:43 final size:43
Alignment explanation
Indices: 95549849--95549985 Score: 159
Period size: 47 Copynumber: 3.0 Consensus size: 43
95549839 TATTTATAAC
*
95549849 TATAAT-TAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATAATGTAAGTTATGTAAATTATGATATGATATATATTTATG
* *
95549891 TATTATGTAAGTTATGTAAATAATGTAAGATATGATATATATTTATG
1 TATAATGTAAGTTATGT--A-AAT-TATGATATGATATATATTTATG
*
95549938 TATAATGTAAGTTATGTAAATTATGTAAAATATGATATATATCTATG
1 TATAATGTAAGTTATGTAAATTATG----ATATGATATATATTTATG
95549985 T
1 T
95549986 TGATGGGATT
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
42 5 0.06
43 13 0.16
44 3 0.04
45 2 0.03
46 2 0.03
47 55 0.69
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (43 bp):
TATAATGTAAGTTATGTAAATTATGATATGATATATATTTATG
Found at i:95549930 original size:47 final size:47
Alignment explanation
Indices: 95549872--95549985 Score: 192
Period size: 47 Copynumber: 2.4 Consensus size: 47
95549862 TGTAAGTTAT
*
95549872 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATAATGTAA
1 GATATGATATATATTTATGTATAATGTAAGTTATGTAAATAATGTAA
*
95549919 GATATGATATATATTTATGTATAATGTAAGTTATGTAAATTATGTAA
1 GATATGATATATATTTATGTATAATGTAAGTTATGTAAATAATGTAA
* *
95549966 AATATGATATATATCTATGT
1 GATATGATATATATTTATGT
95549986 TGATGGGATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (47 bp):
GATATGATATATATTTATGTATAATGTAAGTTATGTAAATAATGTAA
Found at i:95550239 original size:28 final size:29
Alignment explanation
Indices: 95550181--95550246 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
95550171 TCTTGAGATT
*
95550181 ATGGAAAATCACATTGGAAAAAAAATTAC
1 ATGGAAAATCACATTGGAAAAAAAATCAC
95550210 ATGGAAAATCACA-TGGAAAAAAAATCAC
1 ATGGAAAATCACATTGGAAAAAAAATCAC
*
95550238 ATGAAAAAT
1 ATGGAAAAT
95550247 AATCTAAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.18
Consensus pattern (29 bp):
ATGGAAAATCACATTGGAAAAAAAATCAC
Found at i:95550250 original size:15 final size:16
Alignment explanation
Indices: 95550185--95550250 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
95550175 GAGATTATGG
95550185 AAAATCACATTGGAAAA
1 AAAATCACA-TGGAAAA
*
95550202 AAAATTACATGG----
1 AAAATCACATGGAAAA
95550214 AAAATCACATGGAAAA
1 AAAATCACATGGAAAA
95550230 AAAATCACAT-GAAAA
1 AAAATCACATGGAAAA
*
95550245 ATAATC
1 AAAATC
95550251 TAAGCATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 11 0.26
15 10 0.24
16 13 0.31
17 8 0.19
ACGTcount: A:0.59, C:0.12, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCACATGGAAAA
Found at i:95553172 original size:39 final size:40
Alignment explanation
Indices: 95553129--95553204 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
95553119 AACATTTAGT
* *
95553129 GGCG-TTTTACAAAAGCGTCGCTAAATCTCAATTTTTTGC
1 GGCGTTTTTACAAAAGCGCCACTAAATCTCAATTTTTTGC
* *
95553168 GGCGTTTTTACAAAAGCGCCACTAATTCTCTATTTTT
1 GGCGTTTTTACAAAAGCGCCACTAAATCTCAATTTTT
95553205 AGCTAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (40 bp):
GGCGTTTTTACAAAAGCGCCACTAAATCTCAATTTTTTGC
Found at i:95554547 original size:7 final size:7
Alignment explanation
Indices: 95554535--95554612 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
95554525 TTTTTTGGGG
95554535 GGGTTTA
1 GGGTTTA
95554542 GGGTTTTA
1 GGG-TTTA
*
95554550 GAGTTTA
1 GGGTTTA
* *
95554557 TGGATTA
1 GGGTTTA
*
95554564 GTGTTTA
1 GGGTTTA
*
95554571 TGGTTTA
1 GGGTTTA
* *
95554578 TGTTTTA
1 GGGTTTA
***
95554585 AAATTTA
1 GGGTTTA
95554592 GGGTTTA
1 GGGTTTA
95554599 GGGTTTA
1 GGGTTTA
95554606 GGGTTTA
1 GGGTTTA
95554613 ATGTTAAGAT
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
7 48 0.89
8 6 0.11
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
GGGTTTA
Found at i:95554966 original size:40 final size:41
Alignment explanation
Indices: 95554921--95555663 Score: 819
Period size: 41 Copynumber: 18.2 Consensus size: 41
95554911 AACTTTTTGC
*
95554921 GGCGTTTGGACCAAAAACGCCGCTATTGATGAG-TTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
95554961 GGCGTTTGGACCAAAAACGCCGCTATTGATCATTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
95555002 GGCGTTTGAGA-TAAAAATGCTGCTATTGATCAGTTTTTAGT
1 GGCGTTTG-GACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** *
95555043 GGCGTTTGGGATAAAAAAACGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTT-GGA-CCAAAAACGCCGCTATTGATCAGTTTTTAGT
* **
95555086 GGTGTTT-GACCAAAAACGCCGCTATACA-CAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATC-AGTTTTTAGT
* ** * *
95555126 GGCATTTGGAAGAAAAATGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
95555167 GGCGCTTGGGCAAAAAACGCCGCTATTGATCATTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
95555208 GGCGTTTGAGA-TAAAAATGCTGCTATTGATCAGTTTTTAGT
1 GGCGTTTG-GACCAAAAACGCCGCTATTGATCAGTTTTTAGT
** *
95555249 GGCGTTTGGGATAAAAAAAACGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTT-GG--ACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* **
95555293 GGTGTTT-GACCAAAAACGCCGCTATACA-CAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATC-AGTTTTTAGT
* ** * *
95555333 GGCATTTGGAAGAAAAATGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
95555374 GGCGCTTGGGCAAAAAACGCCGCTGTTGATCAGTTTTTCGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
95555415 GGCGTTTGG-CCAAAAACACCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
95555455 GGCGTTTGG-CCAAAAACGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
95555495 GGCGTTTGGGA-TAAAAACGCTGCTATTGATCAGTTTTTAGG
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
95555536 GGCGCTTGG-CCAAAAACACCGCTATTGTTCAGTTCTTAAT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
*
95555576 GGCGTTTGGGA-TAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTT-GGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
95555617 GGCGTTTGG-CCAAAAACGCCGCTACTGTTCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
95555657 GGCGTTT
1 GGCGTTT
95555664 TTGCTAAAAA
Statistics
Matches: 588, Mismatches: 93, Indels: 44
0.81 0.13 0.06
Matches are distributed among these distances:
40 229 0.39
41 286 0.49
42 8 0.01
43 33 0.06
44 32 0.05
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:95555027 original size:81 final size:82
Alignment explanation
Indices: 95554933--95555663 Score: 838
Period size: 81 Copynumber: 8.9 Consensus size: 82
95554923 CGTTTGGACC
* *
95554933 AAAAACGCCGCTATTGATGAG-TTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCATTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
*
95554997 TTAGTGGCGTTTGAGAT
66 TTAGTGGCGTTTGGGAT
* * ** *
95555014 AAAAATGCTGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAAAACGCCGCTATTGATAAGT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT-GGA-CCAAAAACGCCGCTATTGATCAGT
* *
95555079 TTTTAGTGGTGTTT--GACC
64 TTTTAGTGGCGTTTGGGA-T
** * ** * *
95555097 AAAAACGCCGCTATACA-CAAGTTTTTAGTGGCATTTGGAAGAAAAATGCCGCTATTAATCAGTT
1 AAAAACGCCGCTATTGATC-AGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTT
*
95555161 TTTAGTGGCGCTTGGGCA-
65 TTTAGTGGCGTTTGGG-AT
* * * *
95555179 AAAAACGCCGCTATTGATCATTTTTTAGTGGCGTTTGAGA-TAAAAATGCTGCTATTGATCAGTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTG-GACCAAAAACGCCGCTATTGATCAGTT
95555243 TTTAGTGGCGTTTGGGAT
65 TTTAGTGGCGTTTGGGAT
* * **
95555261 AAAAAAAACGCCGCTATTGATAAGTTTTTAGTGGTGTTT-GACCAAAAACGCCGCTATACA-CAA
1 ---AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATC-A
* * *
95555324 GTTTTTAGTGGCATTTGGAAG
62 GTTTTTAGTGGCGTTTGGGAT
* * * * * *
95555345 AAAAATGCCGCTATTAATCAGTTTTTAGTGGCGCTTGGGCAAAAAACGCCGCTGTTGATCAGTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
* **
95555410 TTCGTGGCGTTT-GGCC
66 TTAGTGGCGTTTGGGAT
* * *
95555426 AAAAACACCGCTATTAATCAGTTTTTAGTGGCGTTTGG-CCAAAAACGCCGCTATTGATAAGTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
95555490 TTAGTGGCGTTTGGGAT
66 TTAGTGGCGTTTGGGAT
* * * * * *
95555507 AAAAACGCTGCTATTGATCAGTTTTTAGGGGCGCTTGG-CCAAAAACACCGCTATTGTTCAGTTC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
*
95555571 TTAATGGCGTTTGGGAT
66 TTAGTGGCGTTTGGGAT
* *
95555588 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGG-CCAAAAACGCCGCTACTGTTCAGTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
95555652 TTAGTGGCGTTT
66 TTAGTGGCGTTT
95555664 TTGCTAAAAA
Statistics
Matches: 551, Mismatches: 80, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
80 34 0.06
81 260 0.47
82 118 0.21
83 40 0.07
84 66 0.12
85 33 0.06
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (82 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTATTGATCAGTTT
TTAGTGGCGTTTGGGAT
Found at i:95561063 original size:59 final size:54
Alignment explanation
Indices: 95560990--95561124 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
95560980 TAGGGTCTGA
* *
95560990 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCT-CATTA-GAGTAATTATCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAA--TACATTATGAGT--TTAT-ATTGCAGGGG
* *
95561049 ATTTAGCCTGGACTGGTAATCCCGACAATACTTTATGAGTTTATATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACATTATGAGTTTATATTGCAGGGG
95561103 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
95561125 CGCTGCAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 31 0.44
55 5 0.07
56 4 0.06
57 7 0.10
59 23 0.33
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACATTATGAGTTTATATTGCAGGGG
Found at i:95570130 original size:19 final size:19
Alignment explanation
Indices: 95570106--95570143 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
95570096 GTTTTCCGGA
95570106 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
95570125 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
95570144 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:95576632 original size:37 final size:36
Alignment explanation
Indices: 95576579--95576686 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
95576569 TATTCCAAAA
*
95576579 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATT
*
95576615 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTTAAT-T
*
95576652 TAAAGTTATTATCTTAATA--TTAA-ATTTAATTTAAT
1 T-AA--TATTATCTTAATAGTTTAATATTAAATTTAAT
95576687 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 18 0.30
37 26 0.43
38 4 0.07
39 11 0.18
40 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATT
Found at i:95576662 original size:20 final size:19
Alignment explanation
Indices: 95576637--95576686 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
95576627 TAATAGTATT
95576637 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
95576656 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
95576676 -T-TTAATTTAAT
1 TTATTAATTTAAT
95576687 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:95583806 original size:27 final size:28
Alignment explanation
Indices: 95583703--95583815 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
95583693 CTATTCAGAA
* *
95583703 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
95583730 ATCAGTATTAATCTGGGCCATAACCCCT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
**
95583758 -TACAGTAACAGAGTATACTGGGCC-TAGCCCAT
1 AT-CAGT-A-TTA--AT-CTGGGCCATAGCCCAT
*
95583790 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
95583816 TATTACAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
27 18 0.27
28 25 0.37
29 1 0.01
30 2 0.03
31 1 0.01
32 12 0.18
33 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:95583840 original size:60 final size:59
Alignment explanation
Indices: 95583713--95583853 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 59
95583703 ATCAGTGTTA
*
95583713 ACTGGGCCTTAGCCCATATCAGTATTAATCTGGGCCATAACCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAGTATTAATCTGGGCCATAACCCATTACAGT-ACAGAGTAT
* *
95583774 ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCATAACCC-ATTAC-AGTACAGAG-TAT
* *
95583834 ATTGGGCCTTGCCCATATCA
1 ACTGGGCCTAGCCCATATCA
95583854 ACACAGTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 3 0.04
60 54 0.75
61 12 0.17
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCATAACCCATTACAGTACAGAGTAT
Found at i:95588746 original size:5 final size:5
Alignment explanation
Indices: 95588732--95588798 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
95588722 AAATAGAAAG
* *
95588732 ATTTT ATTTT GTTTT ATTTTT ATTTT ATTATT -TATT A-TTT ATTATT
1 ATTTT ATTTT ATTTT A-TTTT ATTTT ATT-TT ATTTT ATTTT ATT-TT
*
95588778 -TATT A-TTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATT
95588799 AATTTAGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 10 0.20
5 30 0.61
6 9 0.18
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:95588758 original size:21 final size:20
Alignment explanation
Indices: 95588732--95588795 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
95588722 AAATAGAAAG
95588732 ATTTTATTTTGTTTTATTTTT
1 ATTTTATTTT-TTTTATTTTT
*
95588753 ATTTTATTATTTATTATTTATT
1 ATTTTATT-TTTTTTATTT-TT
*
95588775 ATTTATTATTTATTTTATTTT
1 A-TT-TTATTTTTTTTATTTT
95588796 ATTAATTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 10 0.28
24 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTATTTTTTTTATTTTT
Found at i:95588764 original size:14 final size:15
Alignment explanation
Indices: 95588745--95588804 Score: 70
Period size: 14 Copynumber: 4.0 Consensus size: 15
95588735 TTATTTTGTT
95588745 TTATTT-TTATTTTA
1 TTATTTATTATTTTA
95588759 TTATTTATTA-TTTA
1 TTATTTATTATTTTA
*
95588773 TTATTTATTATTTATT
1 TTATTTATTATTT-TA
*
95588789 TTATTTTATTAATTTA
1 TTA-TTTATTATTTTA
95588805 GGTTAGGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
14 20 0.51
15 5 0.13
16 5 0.13
17 9 0.23
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTATTTTA
Found at i:95588767 original size:7 final size:7
Alignment explanation
Indices: 95588745--95588788 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
95588735 TTATTTTGTT
95588745 TTATTT-
1 TTATTTA
95588751 TTATTTTA
1 TTA-TTTA
95588759 TTATTTA
1 TTATTTA
95588766 TTATTTA
1 TTATTTA
95588773 TTATTTA
1 TTATTTA
95588780 TTATTTA
1 TTATTTA
95588787 TT
1 TT
95588789 TTATTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 3 0.08
7 30 0.83
8 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTATTTA
Found at i:95588797 original size:21 final size:21
Alignment explanation
Indices: 95588743--95588798 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
95588733 TTTTATTTTG
95588743 TTTTATTTTTATTTTATTATTTA
1 TTTTA-TTTTA-TTTATTATTTA
*
95588766 TTATT-TATTATTTATTATTTA
1 TT-TTATTTTATTTATTATTTA
95588787 TTTTATTTTATT
1 TTTTATTTTATT
95588799 AATTTAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 19 0.66
22 4 0.14
23 2 0.07
24 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTTTATTTATTATTTA
Found at i:95593145 original size:27 final size:27
Alignment explanation
Indices: 95593104--95593157 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
95593094 TCCATTTACA
*
95593104 ACTCAACCCTAACTATTAAAACCAAACC
1 ACTCAACCCTAACTACTAAAA-CAAACC
*
95593132 ACTCAGCCC-AACTACTAAAACAAACC
1 ACTCAACCCTAACTACTAAAACAAACC
95593158 TAATTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
28 8 0.33
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (27 bp):
ACTCAACCCTAACTACTAAAACAAACC
Found at i:95623382 original size:20 final size:21
Alignment explanation
Indices: 95623357--95623397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
95623347 TTTTTTTTTT
*
95623357 AATTTTTCT-ATAGTTTCTAA
1 AATTTTTATAATAGTTTCTAA
*
95623377 AATTTTTATAATATTTTCTAA
1 AATTTTTATAATAGTTTCTAA
95623398 TTCTTCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTTATAATAGTTTCTAA
Found at i:95628244 original size:16 final size:17
Alignment explanation
Indices: 95628220--95628262 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
95628210 CCCAAATTTA
95628220 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
95628236 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
95628252 TTCAATAAAAT
1 TTAAATAAAAT
95628263 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:95628437 original size:32 final size:33
Alignment explanation
Indices: 95628401--95628462 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
95628391 TCATAAACTT
* *
95628401 ATAAATTGATTACTTGAA-TTTAATAACTCGTG
1 ATAAATTAATTAATTGAATTTTAATAACTCGTG
* *
95628433 ATAAATTAATTAATTTAATTTTGATAACTC
1 ATAAATTAATTAATTGAATTTTAATAACTC
95628463 ATTGGTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 15 0.60
33 10 0.40
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (33 bp):
ATAAATTAATTAATTGAATTTTAATAACTCGTG
Found at i:95632398 original size:23 final size:23
Alignment explanation
Indices: 95632372--95632462 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
95632362 TACAAAACTT
*
95632372 ACCACACAGACATTGCAGAATAC
1 ACCACAAAGACATTGCAGAATAC
* * * *
95632395 ACCACAAAGGCATTGTAAAATAT
1 ACCACAAAGACATTGCAGAATAC
* *
95632418 GCCACAAAGACATTGAAGAATAC
1 ACCACAAAGACATTGCAGAATAC
* *
95632441 ACCACAAATACATTACAGAATA
1 ACCACAAAGACATTGCAGAATA
95632463 TGTCACAAAG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.16
Consensus pattern (23 bp):
ACCACAAAGACATTGCAGAATAC
Found at i:95632429 original size:46 final size:46
Alignment explanation
Indices: 95632373--95632545 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 46
95632363 ACAAAACTTA
* * * * *
95632373 CCACACAGACATTGCAGAATACACCACAAAGGCATTGTAAAATATG
1 CCACAAAGACATTACAAAATACACCACAAAGGCATTATAGAATATG
* ** *
95632419 CCACAAAGACATTGA-AGAATACACCACAAATACATTACAGAATATG
1 CCACAAAGACATT-ACAAAATACACCACAAAGGCATTATAGAATATG
* * ** *
95632465 TCACAAAGGCATTACAAAATATGCCACAAAGGCATTATAGAATACG
1 CCACAAAGACATTACAAAATACACCACAAAGGCATTATAGAATATG
* * **
95632511 TCACAAAGGCATTACAAAATATGCCACAAAGGCAT
1 CCACAAAGACATTACAAAATACACCACAAAGGCAT
95632546 CGCAAGTAAC
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (46 bp):
CCACAAAGACATTACAAAATACACCACAAAGGCATTATAGAATATG
Found at i:95632461 original size:69 final size:69
Alignment explanation
Indices: 95632372--95632545 Score: 215
Period size: 69 Copynumber: 2.5 Consensus size: 69
95632362 TACAAAACTT
* * ** **
95632372 ACCACACAGACATTGCAGAATACACCACAAAGGCATTGTAAAATATGCCACAAAGACATTGA-AG
1 ACCACAAAGACATTACAGAATATGCCACAAAGGCATTACAAAATATGCCACAAAGACATT-ATAG
95632436 AATAC
65 AATAC
* * *
95632441 ACCACAAATACATTACAGAATATGTCACAAAGGCATTACAAAATATGCCACAAAGGCATTATAGA
1 ACCACAAAGACATTACAGAATATGCCACAAAGGCATTACAAAATATGCCACAAAGACATTATAGA
95632506 ATAC
66 ATAC
** * *
95632510 GTCACAAAGGCATTACAAAATATGCCACAAAGGCAT
1 ACCACAAAGACATTACAGAATATGCCACAAAGGCAT
95632546 CGCAAGTAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 1 0.01
69 88 0.99
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.18
Consensus pattern (69 bp):
ACCACAAAGACATTACAGAATATGCCACAAAGGCATTACAAAATATGCCACAAAGACATTATAGA
ATAC
Found at i:95632469 original size:23 final size:23
Alignment explanation
Indices: 95632442--95632545 Score: 136
Period size: 23 Copynumber: 4.5 Consensus size: 23
95632432 GAAGAATACA
** *
95632442 CCACAAATACATTACAGAATATG
1 CCACAAAGGCATTACAAAATATG
*
95632465 TCACAAAGGCATTACAAAATATG
1 CCACAAAGGCATTACAAAATATG
* * *
95632488 CCACAAAGGCATTATAGAATACG
1 CCACAAAGGCATTACAAAATATG
*
95632511 TCACAAAGGCATTACAAAATATG
1 CCACAAAGGCATTACAAAATATG
95632534 CCACAAAGGCAT
1 CCACAAAGGCAT
95632546 CGCAAGTAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.19
Consensus pattern (23 bp):
CCACAAAGGCATTACAAAATATG
Found at i:95634210 original size:28 final size:28
Alignment explanation
Indices: 95634166--95634220 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
95634156 AAAGGGAAGG
*
95634166 AAAAAGGAATGGAAAAA-AAGAAGAAAAA
1 AAAAAGGAATAGAAAAAGAA-AAGAAAAA
95634194 AAAAAGGAA-AGATAAAAGAAAAGAAAA
1 AAAAAGGAATAGA-AAAAGAAAAGAAAA
95634221 GGAAGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 20 0.83
29 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (28 bp):
AAAAAGGAATAGAAAAAGAAAAGAAAAA
Found at i:95639957 original size:17 final size:17
Alignment explanation
Indices: 95639935--95639967 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95639925 AATTACGAGC
*
95639935 AGAATTTCTGAACGGGT
1 AGAATTTCTAAACGGGT
95639952 AGAATTTCTAAACGGG
1 AGAATTTCTAAACGGG
95639968 ATTATGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AGAATTTCTAAACGGGT
Found at i:95643823 original size:7 final size:7
Alignment explanation
Indices: 95643807--95643835 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
95643797 GAATCGAAAC
95643807 AAAA-AA
1 AAAACAA
95643813 AAAACAA
1 AAAACAA
95643820 AAAACAA
1 AAAACAA
95643827 AAAACAA
1 AAAACAA
95643834 AA
1 AA
95643836 TCAATTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:95648371 original size:20 final size:20
Alignment explanation
Indices: 95648346--95648385 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95648336 AATATTTTCC
*
95648346 AGTAAATTATTTTACAGAAA
1 AGTAAAATATTTTACAGAAA
*
95648366 AGTAAAATATTTTCCAGAAA
1 AGTAAAATATTTTACAGAAA
95648386 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAATATTTTACAGAAA
Found at i:95648400 original size:34 final size:35
Alignment explanation
Indices: 95648334--95648400 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
95648324 CAAACACCAG
*
95648334 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
95648369 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
95648401 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:95658647 original size:18 final size:18
Alignment explanation
Indices: 95658624--95658660 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
95658614 CTAGAGAGTT
95658624 AAACTATGATCAAACTTA
1 AAACTATGATCAAACTTA
95658642 AAACTATGATCAAACTTA
1 AAACTATGATCAAACTTA
95658660 A
1 A
95658661 TCTATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (18 bp):
AAACTATGATCAAACTTA
Found at i:95658778 original size:29 final size:32
Alignment explanation
Indices: 95658745--95658812 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 32
95658735 TTAATAAAAT
*
95658745 ATTTATCTA-TAAGATAA-ACATTAA-ATTAA
1 ATTTATATAGTAAGATAACACATTAATATTAA
*
95658774 ATTTA-ATAGTAAGATAATCACTTTAATATTAA
1 ATTTATATAGTAAGATAA-CACATTAATATTAA
95658806 ATTTATA
1 ATTTATA
95658813 AAATACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.06
29 13 0.41
31 6 0.19
32 10 0.31
33 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (32 bp):
ATTTATATAGTAAGATAACACATTAATATTAA
Found at i:95658780 original size:61 final size:65
Alignment explanation
Indices: 95658694--95658870 Score: 170
Period size: 68 Copynumber: 2.7 Consensus size: 65
95658684 AGTGCTTATC
* *
95658694 AAGATAAATATTAGATTAAAGTTAATATTAAATCTATTAAATTAATA-AAATATT-T-AT-CTA-
1 AAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATATAAAT-TTATAATACTAT
95658754 T
65 T
* * * * **
95658755 AAGATAAACATTAAATTAAATTTAATAGTAAGAT-AATCACTTTAATATTAAATTTATAAAATAC
1 AAGATAAATATTAAATTAAATTTAATATTAA-ATCTATTAAATTAATA-TAAATTTAT--AATAC
95658819 TATT
62 TATT
*
95658823 AAGATAAGTATTAAATTAAATTTAATATTAAATCTATTAGAA-TAATAT
1 AAGATAAATATTAAATTAAATTTAATATTAAATCTATTA-AATTAATAT
95658871 TATTTTTGGA
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
61 36 0.40
62 4 0.04
63 5 0.06
66 2 0.02
67 6 0.07
68 37 0.41
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (65 bp):
AAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATATAAATTTATAATACTATT
Found at i:95659650 original size:26 final size:26
Alignment explanation
Indices: 95659614--95659666 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95659604 CAAGAAGTAC
95659614 CATGATTGAAAACTCCTTATTGTATA
1 CATGATTGAAAACTCCTTATTGTATA
95659640 CATGATTGAAAACTCCTTATTGTATA
1 CATGATTGAAAACTCCTTATTGTATA
95659666 C
1 C
95659667 TCTTTACGAA
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:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (26 bp):
CATGATTGAAAACTCCTTATTGTATA
Found at i:95662668 original size:32 final size:32
Alignment explanation
Indices: 95662627--95662690 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
95662617 TAGAAGTGAG
*
95662627 TAGAAGTTCATCGTCGCTGTAGTCTTCTACAA
1 TAGAAGTTCACCGTCGCTGTAGTCTTCTACAA
95662659 TAGAAGTTCACCGTCGCTGTAGTCTTCTACAA
1 TAGAAGTTCACCGTCGCTGTAGTCTTCTACAA
95662691 CAGCAGCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (32 bp):
TAGAAGTTCACCGTCGCTGTAGTCTTCTACAA
Found at i:95665621 original size:52 final size:54
Alignment explanation
Indices: 95665565--95665684 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 54
95665555 GTGATATATG
* *
95665565 TTCCCATATAAGACCATAGCTAGGCTATGGCATCAGAGCAATGTGAT-ACGT-A
1 TTCCCGTATAAGACCATAGCTAGGCAATGGCATCAGAGCAATGTGATAACGTGA
* * * **
95665617 TTCCCGTATAAGACCATAGTTGGGCAATGGCATCAGTGTGATGTGATAACGTGA
1 TTCCCGTATAAGACCATAGCTAGGCAATGGCATCAGAGCAATGTGATAACGTGA
95665671 TT-CCGTATAAGACC
1 TTCCCGTATAAGACC
95665685 GTATCTGGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 40 0.68
53 16 0.27
54 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (54 bp):
TTCCCGTATAAGACCATAGCTAGGCAATGGCATCAGAGCAATGTGATAACGTGA
Found at i:95669970 original size:52 final size:52
Alignment explanation
Indices: 95669912--95670015 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
95669902 TTAACATTCA
95669912 TCATCGAATAACATTAATATATTCGAGCACAAAGCCAATAAAACCAATCTAT
1 TCATCGAATAACATTAATATATTCGAGCACAAAGCCAATAAAACCAATCTAT
*
95669964 TCATCGAATAACATTAATATATTCGAGCACAAAGCCATTAAAACCAATCTAT
1 TCATCGAATAACATTAATATATTCGAGCACAAAGCCAATAAAACCAATCTAT
95670016 CTTTATACAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (52 bp):
TCATCGAATAACATTAATATATTCGAGCACAAAGCCAATAAAACCAATCTAT
Found at i:95676164 original size:24 final size:24
Alignment explanation
Indices: 95676132--95676180 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
95676122 ATGAAGTAAC
95676132 ATTATAACAAGACCAAATGTGCAT
1 ATTATAACAAGACCAAATGTGCAT
95676156 ATTATAACAAGACCAAATGTGCAT
1 ATTATAACAAGACCAAATGTGCAT
95676180 A
1 A
95676181 ATTTGTCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
ATTATAACAAGACCAAATGTGCAT
Found at i:95682420 original size:18 final size:18
Alignment explanation
Indices: 95682397--95682432 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95682387 ACCATGCAAG
*
95682397 CTCTTCAACCTTCTTCTT
1 CTCTTCAACCTTCCTCTT
*
95682415 CTCTTCGACCTTCCTCTT
1 CTCTTCAACCTTCCTCTT
95682433 TAAAACCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CTCTTCAACCTTCCTCTT
Found at i:95686564 original size:22 final size:23
Alignment explanation
Indices: 95686539--95686583 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
95686529 TTTTTAAGGC
*
95686539 AAAATGTCATAT-TATTTAAAAA
1 AAAATGTAATATGTATTTAAAAA
*
95686561 AAAATTTAATATGGTATTTAAAA
1 AAAATGTAATAT-GTATTTAAAA
95686584 TGTCAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
AAAATGTAATATGTATTTAAAAA
Found at i:95695808 original size:140 final size:140
Alignment explanation
Indices: 95695556--95695838 Score: 566
Period size: 140 Copynumber: 2.0 Consensus size: 140
95695546 TGGTTAGTAG
95695556 CCTTAAAACATAAATTAAGAATAATGGGAGTGGCTTAGTTGGCATTTTCTTTGTAATTTTCTTGC
1 CCTTAAAACATAAATTAAGAATAATGGGAGTGGCTTAGTTGGCATTTTCTTTGTAATTTTCTTGC
95695621 TTTCAGGAGCAGAAAACACTTTAGCTGTTAGCAGCAACAGCTGGATCAGTTCTTGCTTATAATTT
66 TTTCAGGAGCAGAAAACACTTTAGCTGTTAGCAGCAACAGCTGGATCAGTTCTTGCTTATAATTT
95695686 GATTTCTTAA
131 GATTTCTTAA
95695696 CCTTAAAACATAAATTAAGAATAATGGGAGTGGCTTAGTTGGCATTTTCTTTGTAATTTTCTTGC
1 CCTTAAAACATAAATTAAGAATAATGGGAGTGGCTTAGTTGGCATTTTCTTTGTAATTTTCTTGC
95695761 TTTCAGGAGCAGAAAACACTTTAGCTGTTAGCAGCAACAGCTGGATCAGTTCTTGCTTATAATTT
66 TTTCAGGAGCAGAAAACACTTTAGCTGTTAGCAGCAACAGCTGGATCAGTTCTTGCTTATAATTT
95695826 GATTTCTTAA
131 GATTTCTTAA
95695836 CCT
1 CCT
95695839 ACCAATAGCA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 143 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (140 bp):
CCTTAAAACATAAATTAAGAATAATGGGAGTGGCTTAGTTGGCATTTTCTTTGTAATTTTCTTGC
TTTCAGGAGCAGAAAACACTTTAGCTGTTAGCAGCAACAGCTGGATCAGTTCTTGCTTATAATTT
GATTTCTTAA
Found at i:95703099 original size:87 final size:86
Alignment explanation
Indices: 95702981--95703171 Score: 247
Period size: 86 Copynumber: 2.2 Consensus size: 86
95702971 CTACTGCTTC
* * * * * *
95702981 GGGAGGTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTTTACCT
1 GGGAGATAAGATCTGT-AATTCAGCCTGTTACCCTAATGCTTAGGGGTTTAAGAC-CTATTACAT
*
95703046 TCGATCTGTTTCCCTGCTACTGA
64 TCGATCTGTTTCCCTACTACTGA
* * *
95703069 GGGAGATAAGATCTGTAATTCGGTCTGTTACCCTAATGCTTAGGGGTTTAAGACCTATTGCATTC
1 GGGAGATAAGATCTGTAATTCAGCCTGTTACCCTAATGCTTAGGGGTTTAAGACCTATTACATTC
* *
95703134 GATCTGTTTCCCTACTGCTTA
66 GATCTGTTTCCCTACTACTGA
*
95703155 GGGTGATAAGATCTGTA
1 GGGAGATAAGATCTGTA
95703172 GATATTCAGT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 42 0.47
87 34 0.38
88 14 0.16
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (86 bp):
GGGAGATAAGATCTGTAATTCAGCCTGTTACCCTAATGCTTAGGGGTTTAAGACCTATTACATTC
GATCTGTTTCCCTACTACTGA
Found at i:95703165 original size:44 final size:41
Alignment explanation
Indices: 95703045--95703171 Score: 110
Period size: 44 Copynumber: 3.0 Consensus size: 41
95703035 CTCTTTTACC
* * * *
95703045 TTCGATCTGTTTCCCTGCTACTGAGGGAGATAAGATCTGTAA
1 TTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGACCTGTAA
* * * * * *
95703087 TTCGGTCTGTTACCCTAATGCTTAGGGGTTTAAGACCTATTGCA
1 TTCGATCTGTTTCCCTACTGCTTAGGGG-ATAAGACCT-GT-AA
*
95703131 TTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTA
1 TTCGATCTGTTTCCCTACTGCTTAGGG-GATAAGACCTGTA
95703172 GATATTCAGT
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 2 0.03
44 32 0.50
45 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCGATCTGTTTCCCTACTGCTTAGGGGATAAGACCTGTAA
Found at i:95703444 original size:43 final size:42
Alignment explanation
Indices: 95703356--95703456 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 42
95703346 CGACCTATTT
*
95703356 CCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAACCTGTTA
1 CCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAACCTGTTA
* * *** *
95703398 CCCTACTGCTTAGGGGTTTGAGGTTTGAAAATTTGGCTTGTTA
1 CCCTACTGCTTAGGGGTTT-AGATCTGAAAATTCAACCTGTTA
*
95703441 CCCTATTGCTTAGGGG
1 CCCTACTGCTTAGGGG
95703457 GGTTGAAGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 19 0.38
43 31 0.62
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTTAGATCTGAAAATTCAACCTGTTA
Found at i:95711740 original size:9 final size:9
Alignment explanation
Indices: 95711722--95711751 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
95711712 TGCAATGCTG
95711722 ATGC-ATGA
1 ATGCGATGA
95711730 ATGCGATGA
1 ATGCGATGA
95711739 ATGCGATGA
1 ATGCGATGA
95711748 ATGC
1 ATGC
95711752 AAAAAAGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (9 bp):
ATGCGATGA
Found at i:95721508 original size:41 final size:41
Alignment explanation
Indices: 95721451--95721533 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
95721441 ACACTCTCCA
*
95721451 AACACACTACGCTATATACGGTGAATAGAGATATGCTTAAC
1 AACACACTACGCTATATACGGTGAATAGAGATATGCTCAAC
95721492 AACACACTACGCTATATACGGTGAATAGAGATATGCTCAAC
1 AACACACTACGCTATATACGGTGAATAGAGATATGCTCAAC
95721533 A
1 A
95721534 TTCCCTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (41 bp):
AACACACTACGCTATATACGGTGAATAGAGATATGCTCAAC
Found at i:95722052 original size:22 final size:23
Alignment explanation
Indices: 95722024--95722078 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
95722014 ATATAATATA
95722024 ATATATATATAACAA-CCCA-TAC
1 ATATATATATAACAACCCCACT-C
* *
95722046 ATATATATTTATCAACCCCACTC
1 ATATATATATAACAACCCCACTC
95722069 ATATATATAT
1 ATATATATAT
95722079 TATATAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.46
23 14 0.50
24 1 0.04
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATATATATAACAACCCCACTC
Found at i:95722174 original size:11 final size:11
Alignment explanation
Indices: 95722158--95722183 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95722148 CCTACATTAA
95722158 ATATTATATAT
1 ATATTATATAT
95722169 ATATTATATAT
1 ATATTATATAT
95722180 ATAT
1 ATAT
95722184 GTGTAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTATATAT
Found at i:95722224 original size:62 final size:62
Alignment explanation
Indices: 95722089--95722209 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
95722079 TATATAAACA
95722089 ACATTAAATATTATATATATTATATATATATATGTGTAACCTACCTTTTAGCACTTCAGCCT
1 ACATTAAATATTATATATATTATATATATATATGTGTAACCTACCTTTTAGCACTTCAGCCT
95722151 ACATTAAATATTATATATA-TATTATATATATATGTGTAACCTACCTTTTAGCACTTCAG
1 ACATTAAATATTATATATATTA-TATATATATATGTGTAACCTACCTTTTAGCACTTCAG
95722210 TCTATCTTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 2 0.03
62 56 0.97
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (62 bp):
ACATTAAATATTATATATATTATATATATATATGTGTAACCTACCTTTTAGCACTTCAGCCT
Found at i:95730434 original size:17 final size:17
Alignment explanation
Indices: 95730412--95730457 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
95730402 CATTAACTCT
95730412 TAAAAAATAAGATTCCC
1 TAAAAAATAAGATTCCC
95730429 TAAAAAATAAGATTCCC
1 TAAAAAATAAGATTCCC
95730446 TAAAAAATAAGA
1 TAAAAAATAAGA
95730458 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.59, C:0.13, G:0.07, T:0.22
Consensus pattern (17 bp):
TAAAAAATAAGATTCCC
Found at i:95732952 original size:61 final size:59
Alignment explanation
Indices: 95732851--95732981 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 59
95732841 TAAAATATAT
* * ** * * * **
95732851 ATTTTTTAATTTTTAGAGTTAGGACTAAGTTGATAGATTTTTTAAATGTTGAGGGCCAA
1 ATTTTTTAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAAAATTGAGGGCCAA
*
95732910 ATTTATTTAATTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAAAATTGAGGGCTAA
1 ATTT-TTTAA-TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAAAATTGAGGGCCAA
*
95732971 ATTTGTTAATT
1 ATTTTTTAATT
95732982 AGGATCAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 6 0.10
60 9 0.15
61 44 0.75
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.44
Consensus pattern (59 bp):
ATTTTTTAATTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAAAATTGAGGGCCAA
Found at i:95738008 original size:8 final size:8
Alignment explanation
Indices: 95737995--95738044 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
95737985 CAAGGTTAGG
95737995 AAAAAGAA
1 AAAAAGAA
95738003 AAAAAGAA
1 AAAAAGAA
* **
95738011 AAAACGGG
1 AAAAAGAA
*
95738019 AAAATG--
1 AAAAAGAA
95738025 AAAAAGAA
1 AAAAAGAA
95738033 AAAAAGAA
1 AAAAAGAA
95738041 AAAA
1 AAAA
95738045 GCTGCAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 5 0.14
8 30 0.86
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:95738044 original size:22 final size:22
Alignment explanation
Indices: 95738003--95738044 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95737993 GGAAAAAGAA
* **
95738003 AAAAAGAAAAAACGGGAAAATG
1 AAAAAGAAAAAAAGAAAAAATG
95738025 AAAAAGAAAAAAAGAAAAAA
1 AAAAAGAAAAAAAGAAAAAA
95738045 GCTGCAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAGAAAAAATG
Found at i:95742948 original size:24 final size:24
Alignment explanation
Indices: 95742904--95742951 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95742894 TGTAATATGT
*
95742904 TTTTGGGTTGTTTTTTGGTTTTTG
1 TTTTGGGTTGTTGTTTGGTTTTTG
*
95742928 TTTTGGTTTGTTGGTTT-GTTTTTG
1 TTTTGGGTTGTT-GTTTGGTTTTTG
95742952 ATATTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (24 bp):
TTTTGGGTTGTTGTTTGGTTTTTG
Found at i:95743914 original size:29 final size:28
Alignment explanation
Indices: 95743882--95743949 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
95743872 AAAATCACGC
95743882 ATATAATATTTAT-ACAACAAC-CCACACAA
1 ATAT-ATATTTATAAC-ACAACACC-CACAA
*
95743911 ATATATATTATATAACACAACACCCACTA
1 ATATATATT-TATAACACAACACCCACAA
95743940 ATATATATTT
1 ATATATATTT
95743950 TGTATATAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 6 0.17
29 25 0.71
30 4 0.11
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATATATTTATAACACAACACCCACAA
Found at i:95748210 original size:49 final size:49
Alignment explanation
Indices: 95748143--95748382 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 49
95748133 GTAGACAAGG
* * * *
95748143 TTATCTAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* **
95748192 TTATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACATGACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * * *
95748242 CCATCTGATACACGTAATAGCTTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * *
95748292 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
*
95748342 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
95748383 ATGACCTCAC
Statistics
Matches: 160, Mismatches: 28, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 77 0.48
50 47 0.29
51 36 0.22
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:95749985 original size:18 final size:19
Alignment explanation
Indices: 95749964--95749999 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
95749954 TCATTCTAGT
95749964 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
95749982 TTATTTTTATTTAATTAA
1 TTATTTTTATTTAATTAA
95750000 CTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:95750027 original size:15 final size:16
Alignment explanation
Indices: 95749967--95750024 Score: 66
Period size: 15 Copynumber: 3.6 Consensus size: 16
95749957 TTCTAGTTTA
95749967 TTTTTATTTATTAAATT
1 TTTTTATTTATTAAA-T
*
95749984 ATTTTTATTTAATT-AAC
1 -TTTTTATTT-ATTAAAT
95750001 TTTTTATTT-TTAAAT
1 TTTTTATTTATTAAAT
95750016 TTTTTATTT
1 TTTTTATTT
95750025 TTATTATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 9 0.25
18 11 0.31
19 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTATTAAAT
Found at i:95756815 original size:19 final size:19
Alignment explanation
Indices: 95756791--95756827 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
95756781 GATAAATCAT
95756791 CACTTTTAATTTGAATAAG
1 CACTTTTAATTTGAATAAG
95756810 CACTTTTAATTTGAATAA
1 CACTTTTAATTTGAATAA
95756828 TGCTTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
CACTTTTAATTTGAATAAG
Found at i:95782102 original size:15 final size:16
Alignment explanation
Indices: 95782082--95782111 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95782072 CTGTAAAGAT
95782082 TATACATTC-CATATA
1 TATACATTCTCATATA
95782097 TATACATTCTCATAT
1 TATACATTCTCATAT
95782112 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:95782276 original size:42 final size:42
Alignment explanation
Indices: 95782176--95782288 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
95782166 CAATACCGAC
* ** * **
95782176 GTCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACA-CAAAATCAGTATCGATGCCAAT
* *
95782219 GTCCCTGACAGGGTCTTACACAAAATCAG-ATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACAAAATCAGTAT-CGATGCCAAT
95782261 GTCCCAGACATGGTCTTACACATAAATC
1 GTCCCAGACATGGTCTTACACA-AAATC
95782289 TCAAATCGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 34 0.59
43 22 0.38
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAAATCAGTATCGATGCCAAT
Found at i:95784806 original size:42 final size:43
Alignment explanation
Indices: 95784692--95784841 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 43
95784682 CAGAGATATC
* * * *
95784692 GTGTAAGACCGTGTCTGGGACACAAGCCTCGATTTGATATTTA
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATATTTA
95784735 CGTGTAAGACCATGTCTGGGACATC-GGCATCGTATCTGAT-TTT-
1 -GTGTAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGATATTTA
* * * **
95784778 GTGTAAGACCCTGTCAGGGACAGAGGCATATATACTGA-A-TTA
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT-CTGATATTTA
* *
95784820 CATGTAAGACCACGTCTGGGAC
1 -GTGTAAGACCATGTCTGGGAC
95784842 GTCGGCATTG
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
41 4 0.05
42 29 0.34
43 17 0.20
44 29 0.34
45 7 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATATTTA
Found at i:95784933 original size:15 final size:16
Alignment explanation
Indices: 95784907--95784936 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95784897 AGAGTACAAG
95784907 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
95784923 ATATG-GAATGTATA
1 ATATGAGAATGTATA
95784937 ATCTTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:95786005 original size:16 final size:16
Alignment explanation
Indices: 95785984--95786014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95785974 ATAAATTTGA
95785984 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
95786000 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
95786015 AGTGTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:95793354 original size:55 final size:54
Alignment explanation
Indices: 95793267--95793427 Score: 218
Period size: 53 Copynumber: 3.0 Consensus size: 54
95793257 ATTAGGGTTT
*
95793267 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
95793322 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * *
95793375 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGG
95793428 ATACCACGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.04
53 39 0.43
54 11 0.12
55 33 0.36
56 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:95793456 original size:49 final size:48
Alignment explanation
Indices: 95793403--95793519 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 48
95793393 CATGTCGAGA
* * *
95793403 CATGGCAATGGTAAGTTTCAAAAGGATACC-ACGTAAGAGCATGAAAATT
1 CATGGAAATGGTAAGGTACAAAAGGAT-CCTA-GTAAGAGCATGAAAATT
** * *
95793452 CATGGAAATGGTAAGGTACCCATGTATCCTTAGTAAGAGCATGAAAATT
1 CATGGAAATGGTAAGGTACAAAAGGATCC-TAGTAAGAGCATGAAAATT
95793501 CATGGAAATGGTAAGGTAC
1 CATGGAAATGGTAAGGTAC
95793520 CCATGTATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.03
49 56 0.95
50 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (48 bp):
CATGGAAATGGTAAGGTACAAAAGGATCCTAGTAAGAGCATGAAAATT
Found at i:95793520 original size:49 final size:49
Alignment explanation
Indices: 95793435--95793535 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
95793425 AGGATACCAC
95793435 GTAAGAGCATGAAAATTCATGGAAATGGTAAGGTACCCATGTATCCTTA
1 GTAAGAGCATGAAAATTCATGGAAATGGTAAGGTACCCATGTATCCTTA
95793484 GTAAGAGCATGAAAATTCATGGAAATGGTAAGGTACCCATGTATCCTTA
1 GTAAGAGCATGAAAATTCATGGAAATGGTAAGGTACCCATGTATCCTTA
95793533 GTA
1 GTA
95793536 TTCCAAGTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (49 bp):
GTAAGAGCATGAAAATTCATGGAAATGGTAAGGTACCCATGTATCCTTA
Found at i:95795150 original size:43 final size:43
Alignment explanation
Indices: 95795087--95795527 Score: 468
Period size: 43 Copynumber: 10.3 Consensus size: 43
95795077 CATAGGATTT
* *
95795087 TCGATATGTG-TTCTCGTGTAAGACCACGTTTAGGACGTTGGCA
1 TCGATATGTGATT-ACGTGTAAGACCACGTCTAGGACGTTGGCA
* * * *
95795130 TCGATATGTGCTTACATGTAAGATCACGTCTTGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * *
95795173 TCAATAT-TAGATTACATGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGT-GATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * * * *
95795216 GT-AATATGTGATTACGTGTAAGACCATGTCTAGGACATCGGTA
1 -TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* *
95795259 TCG-TATTTGATT-TGTGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCA
* *
95795300 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGTA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * *
95795343 TCGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
*
95795386 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * * **
95795429 TCAATATGTGATTACGTCTAAGACCACATCTAGGACGTTTACA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * **
95795472 TCGATATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
*
95795515 TCGATCTGTGATT
1 TCGATATGTGATT
95795528 CCGATATGTG
Statistics
Matches: 336, Mismatches: 47, Indels: 30
0.81 0.11 0.07
Matches are distributed among these distances:
41 25 0.07
42 20 0.06
43 285 0.85
44 6 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:95795559 original size:56 final size:56
Alignment explanation
Indices: 95795473--95795661 Score: 272
Period size: 56 Copynumber: 3.4 Consensus size: 56
95795463 ACGTTTACAT
*
95795473 CGATATGTGAT-TACGAGTAAGACCACGTTTAATACGTTGGCATCGATCTGTGATTC
1 CGATATGTG-TGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * *
95795529 CGATATGTGTGTGCGAGTAAGACCGCGTTTAATATGTTGGCATCGATATGTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* ** * *
95795585 CAATATGTGTGTGTGAGTAAGACCATGTTTAATACGTTGGCATCGATAGGTGATTC
1 CGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
*
95795641 CGATATGTGTTTACGAGTAAG
1 CGATATGTGTGTACGAGTAAG
95795662 TCCCTATCTG
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
55 1 0.01
56 117 0.99
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (56 bp):
CGATATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:95809647 original size:40 final size:40
Alignment explanation
Indices: 95809592--95809732 Score: 255
Period size: 40 Copynumber: 3.5 Consensus size: 40
95809582 TATGTGCATA
*
95809592 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCTGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
95809632 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
95809672 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
95809712 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
95809733 TCCGAGCCAA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:95812405 original size:43 final size:41
Alignment explanation
Indices: 95812330--95812489 Score: 239
Period size: 41 Copynumber: 3.9 Consensus size: 41
95812320 TAAAGCTTAG
*
95812330 TATAATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
*
95812371 TATAATACACCGGCATATAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGC--ACAAAGCCTGCTAGGCAATAAGCCTGA
* *
95812414 TTTCATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
* * *
95812455 TTTAATACACTGACACAAAGCCTGCTAGGCAATAA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAA
95812490 AGCCCGAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 72 0.66
43 37 0.34
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (41 bp):
TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGA
Found at i:95812444 original size:84 final size:82
Alignment explanation
Indices: 95812334--95812489 Score: 249
Period size: 84 Copynumber: 1.9 Consensus size: 82
95812324 GCTTAGTATA
* * *
95812334 ATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCCTGCT
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACA-CGG-ACACAAAGCCTGCT
95812399 AGGCAATAAGCCTGATTTC
64 AGGCAATAAGCCTGATTTC
* *
95812418 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGACACAAAGCCTGCTAG
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACGGACACAAAGCCTGCTAG
95812483 GCAATAA
66 GCAATAA
95812490 AGCCCGAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
82 21 0.31
83 2 0.03
84 44 0.66
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (82 bp):
ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACGGACACAAAGCCTGCTAG
GCAATAAGCCTGATTTC
Found at i:95822126 original size:21 final size:21
Alignment explanation
Indices: 95822102--95822147 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
95822092 AAATTCTTTC
95822102 AGCTCAAGTATCCCGACTAAT
1 AGCTCAAGTATCCCGACTAAT
**
95822123 AGCTTTAGTATCCCGACTAAT
1 AGCTCAAGTATCCCGACTAAT
95822144 AGCT
1 AGCT
95822148 TTATATCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
AGCTCAAGTATCCCGACTAAT
Found at i:95822148 original size:21 final size:21
Alignment explanation
Indices: 95822108--95822154 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
95822098 TTTCAGCTCA
95822108 AGTATCCCGACTAATAGCTTT
1 AGTATCCCGACTAATAGCTTT
95822129 AGTATCCCGACTAATAGCTTT
1 AGTATCCCGACTAATAGCTTT
95822150 A-TATC
1 AGTATC
95822155 TTCATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (21 bp):
AGTATCCCGACTAATAGCTTT
Found at i:95827602 original size:12 final size:12
Alignment explanation
Indices: 95827585--95827609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95827575 AAACAATATC
95827585 ATAATAATCCTA
1 ATAATAATCCTA
95827597 ATAATAATCCTA
1 ATAATAATCCTA
95827609 A
1 A
95827610 AACTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:95832181 original size:37 final size:37
Alignment explanation
Indices: 95832122--95832226 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
95832112 AGCTCAGACG
* * *
95832122 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
95832159 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
95832196 TAATCTCCGCACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
95832227 TGGAATATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:95832444 original size:47 final size:47
Alignment explanation
Indices: 95832392--95832577 Score: 309
Period size: 47 Copynumber: 4.0 Consensus size: 47
95832382 TTTCACACTA
* * * *
95832392 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
95832439 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
95832486 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
95832533 GCCATTCGACCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
95832578 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:95832552 original size:22 final size:22
Alignment explanation
Indices: 95832477--95832552 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
95832467 GCTCACATTC
*
95832477 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGACCTT
* *
95832499 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
95832523 CATCACATTGGCCATTCGACCTT
1 -ATCACATTGGCCATTCGACCTT
95832546 ATCACAT
1 ATCACAT
95832553 ATATGCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:95837092 original size:26 final size:27
Alignment explanation
Indices: 95837026--95837094 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
95837016 AGCGAGCATT
*
95837026 ATCGGGAAGCTCATAAAGAGCCAATTTA
1 ATCGGGAAGCTCATAAAGAACC-ATTTA
*
95837054 AT-GGGAAGTTCATAAAGAACC-TTTA
1 ATCGGGAAGCTCATAAAGAACCATTTA
*
95837079 ATCGGGATGCTCATAA
1 ATCGGGAAGCTCATAA
95837095 GAGCTAAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.17
26 11 0.31
27 17 0.47
28 2 0.06
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (27 bp):
ATCGGGAAGCTCATAAAGAACCATTTA
Found at i:95840010 original size:12 final size:12
Alignment explanation
Indices: 95839993--95840017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95839983 AAACAATATC
95839993 ATAATAATCCTA
1 ATAATAATCCTA
95840005 ATAATAATCCTA
1 ATAATAATCCTA
95840017 A
1 A
95840018 AACTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:95850825 original size:20 final size:20
Alignment explanation
Indices: 95850802--95850846 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
95850792 TTCCAGATCA
*
95850802 ATTTAATATTAAAGAATAAT
1 ATTTAATATCAAAGAATAAT
** *
95850822 ATTTTCTATCAAGGAATAAT
1 ATTTAATATCAAAGAATAAT
95850842 ATTTA
1 ATTTA
95850847 CGTATATATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTAATATCAAAGAATAAT
Found at i:95851659 original size:35 final size:35
Alignment explanation
Indices: 95851549--95851659 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
95851539 CAGAGTCAAT
*
95851549 CAGATACCA-ATTCCGGCCTAAGCCCATCAT-AGATA
1 CAGATA-CATATTCGGGCCTAAGCCCATC-TCAGATA
* *
95851584 CAGATGCATATTCGAGCCTAAGCCCAT-TCCAGATA
1 CAGATACATATTCGGGCCTAAGCCCATCT-CAGATA
* * * *
95851619 TAGATACATATTTGGGCCTAAGCCCATCTCAAATG
1 CAGATACATATTCGGGCCTAAGCCCATCTCAGATA
95851654 CAGATA
1 CAGATA
95851660 TAGATATACA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
33 1 0.02
34 2 0.03
35 58 0.94
36 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (35 bp):
CAGATACATATTCGGGCCTAAGCCCATCTCAGATA
Found at i:95858745 original size:35 final size:35
Alignment explanation
Indices: 95858665--95858775 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
95858655 CAGAGTCAAT
* * * *
95858665 CAGATACCA-ATTCGGGCCTGAGCCCATCACAGAGA
1 CAGATA-CATATTCGGGCCTAAGCCCATCTCAAATA
*
95858700 CAGATGCATATTCGGGCCTAAGCCCAT-TCTAAATA
1 CAGATACATATTCGGGCCTAAGCCCATCTC-AAATA
* *
95858735 TAGATACATATTTGGGCCTAAGCCCATCTCAAATA
1 CAGATACATATTCGGGCCTAAGCCCATCTCAAATA
95858770 CAGATA
1 CAGATA
95858776 TAGATATACA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 3 0.05
35 59 0.92
36 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (35 bp):
CAGATACATATTCGGGCCTAAGCCCATCTCAAATA
Found at i:95867495 original size:40 final size:40
Alignment explanation
Indices: 95867411--95867594 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
95867401 TTGAATGCTG
* * * *
95867411 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
95867450 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
95867491 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
95867531 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
95867571 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
95867595 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:95867548 original size:80 final size:81
Alignment explanation
Indices: 95867411--95867591 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
95867401 TTGAATGCTG
* * *
95867411 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
95867475 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
95867491 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
95867552 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
95867571 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
95867592 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:95867615 original size:39 final size:39
Alignment explanation
Indices: 95867479--95867641 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
95867469 GGTATTTGTG
* * * **
95867479 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
95867519 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
95867559 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
95867598 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
95867638 CGAG
1 CGAG
95867642 GAGCTAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:95869317 original size:8 final size:8
Alignment explanation
Indices: 95869306--95869331 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
95869296 CTTTATCCCT
95869306 TTCTTTTA
1 TTCTTTTA
95869314 TTCTTTTA
1 TTCTTTTA
95869322 TTCTTTTA
1 TTCTTTTA
95869330 TT
1 TT
95869332 TATATTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCTTTTA
Found at i:95872169 original size:13 final size:13
Alignment explanation
Indices: 95872148--95872182 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
95872138 TTACGAAGGG
*
95872148 CACATGAGCTAGT
1 CACACGAGCTAGT
95872161 CACACGAGCTAGT
1 CACACGAGCTAGT
*
95872174 CACAGGAGC
1 CACACGAGC
95872183 GTGTGTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.26, T:0.14
Consensus pattern (13 bp):
CACACGAGCTAGT
Found at i:95883287 original size:47 final size:47
Alignment explanation
Indices: 95883172--95883293 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
95883162 GCCCATAAAT
* * *
95883172 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCGTAAGC
*
95883218 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA-GCCT--TTACATCCGTAAGC
*
95883265 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
95883294 ACTCAACCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 26 0.39
47 30 0.45
48 5 0.07
49 1 0.01
50 5 0.07
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAGCCTTTACATCCGTAAGC
Found at i:95885469 original size:22 final size:22
Alignment explanation
Indices: 95885444--95885489 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
95885434 TCACAACAAC
* *
95885444 ATGGTGAGCGTTTCATTTGCCA
1 ATGGTGAACATTTCATTTGCCA
*
95885466 ATGGTGAACATTTCATTTGTCA
1 ATGGTGAACATTTCATTTGCCA
95885488 AT
1 AT
95885490 TCTATAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (22 bp):
ATGGTGAACATTTCATTTGCCA
Found at i:95887783 original size:39 final size:40
Alignment explanation
Indices: 95887709--95887932 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
95887699 GCTCCTCGTT
*
95887709 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
95887749 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
95887788 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
95887828 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
95887867 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
95887908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95887933 CATCATTCAA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 66 0.40
40 84 0.52
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:95887812 original size:79 final size:79
Alignment explanation
Indices: 95887709--95887932 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
95887699 GCTCCTCGTT
* *
95887709 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
*
95887774 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
* * *
95887788 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGG
*
95887852 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
95887867 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGCCC
95887930 GGA
63 GGA
95887933 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 4 0.03
79 99 0.79
80 22 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:95895887 original size:39 final size:40
Alignment explanation
Indices: 95895730--95895954 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
95895720 GCTCCTCGTT
* **
95895730 CAAATGCCTTCGGGACATAGGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
95895770 CAAATGCCTTCTGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95895810 CAAATGACTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
95895850 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
95895889 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
95895930 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
95895955 CATCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 111 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:95895938 original size:79 final size:78
Alignment explanation
Indices: 95895756--95895954 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 78
95895746 ATAGGCCGGT
* * * *
95895756 TATAGTAACTCGCACAAATGCCTTCTGGACTTAACCCGGATTTAGTAACTCGCACAAATGACTTC
1 TATAGTAACTAGCACAAA-GCCTTC-GGGCTTAGCCCGGAATTAGTAACTCGCACAAATGACTTC
*
95895821 GGGACTTAACCCGGA
64 GGGACTTAACCCGAA
* * * * *
95895836 TTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-
1 TATAGTAACTAGCA-CAAAGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGACTTCG
**
95895900 GGATCTTAGTCCGAA
65 GGA-CTTAACCCGAA
* *
95895915 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TATAGTAAC-TAGCACAAAGCCTTCGGG-CTTAGCCCGGA
95895955 CATCATTCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.60
80 34 0.34
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
TATAGTAACTAGCACAAAGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGACTTCGG
GACTTAACCCGAA
Found at i:95895940 original size:119 final size:120
Alignment explanation
Indices: 95895732--95895954 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
95895722 TCCTCGTTCA
* * *
95895732 AATGCCTTCGGGACATAGGCCGGTTATAGTAACTCGCACAAATGCCTTCTGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCTGGACTTAACCCGAAT
* *
95895797 TTAGTAACTCGCACAAATGACTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGACTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
95895852 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGA
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCTGGA-CTTAACCCGA
* * * *
95895914 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGACTTCGGGACTTAACCCGGA
95895955 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCTGGACTTAACCCGAAT
ATAGTAACTAGCACAAATGACTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:95899088 original size:47 final size:47
Alignment explanation
Indices: 95899034--95899166 Score: 230
Period size: 47 Copynumber: 2.8 Consensus size: 47
95899024 AATCGATAAA
* *
95899034 TACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATCCTGGAG
1 TACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGGAG
*
95899081 TACCTATACAATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGGAG
1 TACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGGAG
*
95899128 TACCTATACCATGGCCCTTAGCCAAATCAAGGTAACTTA
1 TACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTA
95899167 CCTCGGTTGT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (47 bp):
TACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGGAG
Found at i:95907768 original size:13 final size:13
Alignment explanation
Indices: 95907746--95907778 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95907736 AAGGATTTGT
95907746 TTAT-TAAACTAA
1 TTATCTAAACTAA
95907758 TTATCTAAACTAA
1 TTATCTAAACTAA
*
95907771 TTAACTAA
1 TTATCTAA
95907779 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:95912076 original size:30 final size:31
Alignment explanation
Indices: 95912041--95912120 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
95912031 CAAGGAAACC
*
95912041 GAATAAAGAAATCCAAGATAGAGAAACCCA-
1 GAATAAAGAAATCCAAGATAAAGAAACCCAT
* *
95912071 GAATAAAGAAATCC-AGAATAAAGAGATCCAT
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCAT
*
95912102 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
95912121 TGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 38 0.88
31 3 0.07
ACGTcount: A:0.56, C:0.15, G:0.16, T:0.12
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCAT
Found at i:95912080 original size:15 final size:15
Alignment explanation
Indices: 95912041--95912111 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
95912031 CAAGGAAACC
95912041 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
95912056 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
95912071 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
95912086 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
95912101 TG-ATAAAGAAA
1 -GAATAAAGAAA
95912112 CCCAAGATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.02
15 44 0.94
16 2 0.04
ACGTcount: A:0.58, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:95912120 original size:15 final size:15
Alignment explanation
Indices: 95912043--95912120 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
95912033 AGGAAACCGA
95912043 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
95912058 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
95912072 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
95912087 AATAAAGAGATCCATG
1 -ATAAAGAAATCCAAG
*
95912103 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
95912118 ATA
1 ATA
95912121 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:95915131 original size:46 final size:45
Alignment explanation
Indices: 95915064--95915233 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 45
95915054 TGTAACCCGC
* *
95915064 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * *
95915110 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * *
95915156 ACATCTCTCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
95915203 CCATAAGTGAACTCGAACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
95915234 TTTGGATGCC
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 63 0.63
47 34 0.34
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:95915231 original size:93 final size:93
Alignment explanation
Indices: 95915072--95915243 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
95915062 GCCCATAAGT
* * *
95915072 GAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
95915137 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
95915165 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTC-GAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAG-ACTCAACTCA
* *
95915229 ACGAGTTTGGATGCC
65 ACGAGCTCGGATGCC
95915244 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:95918026 original size:6 final size:6
Alignment explanation
Indices: 95918000--95918077 Score: 86
Period size: 6 Copynumber: 12.5 Consensus size: 6
95917990 AATAAAATTG
* * *
95918000 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAAA AAATAAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAAT-AA AAATAA
95918050 AAATAA AAAT-A AAATAA GGAAATAA AAA
1 AAATAA AAATAA AAATAA --AAATAA AAA
95918078 ATAGGAGGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
5 5 0.08
6 39 0.62
7 13 0.21
8 6 0.10
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:95918058 original size:32 final size:32
Alignment explanation
Indices: 95918004--95918080 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
95917994 AAATTGAAAT
*
95918004 GAAAAT-AAAAATCAAAAGAAAAATAAAAATAA
1 GAAAATAAAAAATAAAAAGAAAAAT-AAAATAA
*
95918036 -AAAATAAAAAATAAAAATAAAAATAAAATAA
1 GAAAATAAAAAATAAAAAGAAAAATAAAATAA
*
95918067 GGAAATAAAAAATA
1 GAAAATAAAAAATA
95918081 GGAGGATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.30
32 28 0.70
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (32 bp):
GAAAATAAAAAATAAAAAGAAAAATAAAATAA
Found at i:95918079 original size:26 final size:25
Alignment explanation
Indices: 95918000--95918080 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
95917990 AATAAAATTG
* * *
95918000 AAATGAAAATAAAAATCAAAA-GAA
1 AAATAAAAATAAAAATAAAAATAAA
95918024 AAATAAAAATAAAAAATAAAAA-ATAA
1 AAATAAAAAT-AAAAATAAAAATA-AA
95918050 AAATAAAAAT-AAAATAAGGAAATAAA
1 AAATAAAAATAAAAATAA--AAATAAA
95918076 AAATA
1 AAATA
95918081 GGAGGATTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 16 0.33
25 10 0.20
26 22 0.45
27 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (25 bp):
AAATAAAAATAAAAATAAAAATAAA
Found at i:95923175 original size:5 final size:5
Alignment explanation
Indices: 95923165--95923192 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
95923155 ATTAATAAAT
95923165 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
95923193 TGCAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:95923495 original size:13 final size:13
Alignment explanation
Indices: 95923473--95923505 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
95923463 AAGGACTTGT
95923473 TTAT-TAAACTAA
1 TTATCTAAACTAA
95923485 TTATCTAAACTAA
1 TTATCTAAACTAA
*
95923498 TTAACTAA
1 TTATCTAA
95923506 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:95927072 original size:49 final size:47
Alignment explanation
Indices: 95927000--95927220 Score: 209
Period size: 49 Copynumber: 4.6 Consensus size: 47
95926990 TATAATGCTG
*
95927000 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTATC-AAATCG-TGCCA
* * *
95927049 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-A-ATC-GTGCCA
* * * * * *
95927099 ATGCCATGTCCCAAACATGGTCTTACACTGACACTTTTATA-CGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-A-ACTATCAAATCGTGCCA
* **
95927147 ATGCCATGTCCCAAACATGGTCTTACACTAAC-A-CATCTCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAATCGT-GCCA
*
95927193 ACG-CATGTCCCAGACAT-GTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
95927221 GCTTACATGT
Statistics
Matches: 148, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 6 0.04
47 1 0.01
48 35 0.24
49 36 0.24
50 35 0.24
51 2 0.01
52 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAATCGTGCCA
Found at i:95927124 original size:50 final size:48
Alignment explanation
Indices: 95926999--95927176 Score: 191
Period size: 48 Copynumber: 3.6 Consensus size: 48
95926989 GTATAATGCT
* * * *
95926999 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAA-ATCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-AATATCG-TGCC
* *
95927048 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-ATATC-GTGCC
* ** *
95927098 GATGCCATGTCCCAAACATGGTCTTACACT-GACACT-TTTATACGTGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCAATAT-CGTGCC
95927146 GATGCCATGTCCCAAACATGGTCTTACACTA
1 GATGCCATGTCCCAAACATGGTCTTACACTA
95927177 ACACATCTCG
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
48 38 0.34
49 37 0.33
50 37 0.33
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAATATCGTGCC
Done.