Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 108 of 196
Found at i:32534233 original size:11 final size:10
Alignment explanation
Indices: 32534217--32534276 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
32534207 TTAAAAATAG
32534217 TTATAATTATT
1 TTATAATT-TT
32534228 TTATAA-TTT
1 TTATAATTTT
*
32534237 TTATAATGTT
1 TTATAATTTT
* *
32534247 ATGTAA-TTT
1 TTATAATTTT
*
32534256 TTAAAATTTT
1 TTATAATTTT
*
32534266 TTAAAATTTT
1 TTATAATTTT
32534276 T
1 T
32534277 AATATTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
9 13 0.32
10 21 0.52
11 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTATAATTTT
Found at i:32534240 original size:9 final size:9
Alignment explanation
Indices: 32534226--32534277 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
32534216 GTTATAATTA
32534226 TTTTATAAT
1 TTTTATAAT
32534235 TTTTATAAT
1 TTTTATAAT
* *
32534244 GTTATGTAAT
1 -TTTTATAAT
*
32534254 TTTTAAAATT
1 TTTTATAA-T
*
32534264 TTTTAAAAT
1 TTTTATAAT
32534273 TTTTA
1 TTTTA
32534278 ATATTTATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:32537472 original size:17 final size:17
Alignment explanation
Indices: 32537416--32537475 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
32537406 TTCCTCAAAT
* *
32537416 TTTAGTAAAATTAATAAA
1 TTTAATAAAATT-TTAAA
* *
32537434 TTTTAATTAAAATATT-AC
1 -TTTAA-TAAAATTTTAAA
32537452 TTTAATAAAATTTTAAA
1 TTTAATAAAATTTTAAA
32537469 TTTAATA
1 TTTAATA
32537476 TAAAAATACA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 13 0.39
18 1 0.03
19 5 0.15
20 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTAATAAAATTTTAAA
Found at i:32539996 original size:14 final size:14
Alignment explanation
Indices: 32539979--32540008 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32539969 AAAATATTTG
32539979 TATTATTTTAATAT
1 TATTATTTTAATAT
*
32539993 TATTTTTTTAATAT
1 TATTATTTTAATAT
32540007 TA
1 TA
32540009 AAAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTTTAATAT
Found at i:32542005 original size:34 final size:34
Alignment explanation
Indices: 32541967--32542080 Score: 131
Period size: 34 Copynumber: 3.4 Consensus size: 34
32541957 TTGATTTATG
*
32541967 ATAAGCATATTAATTGCAATTGTATTGACCTGTT
1 ATAAGCATATTAATTGCAACTGTATTGACCTGTT
* * * *
32542001 ATAAGCATATTAAATACTACTGTATTGATCTGTT
1 ATAAGCATATTAATTGCAACTGTATTGACCTGTT
* ** *
32542035 ATAAGCATATTAATTGCTAC-CAATTGATCTGTT
1 ATAAGCATATTAATTGCAACTGTATTGACCTGTT
*
32542068 ATAAGCACATTAA
1 ATAAGCATATTAA
32542081 ATGCTATCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
33 23 0.33
34 47 0.67
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (34 bp):
ATAAGCATATTAATTGCAACTGTATTGACCTGTT
Found at i:32542028 original size:68 final size:67
Alignment explanation
Indices: 32541949--32542099 Score: 178
Period size: 67 Copynumber: 2.2 Consensus size: 67
32541939 ATGTCTTTTG
* *** *
32541949 CTACTGTATTGATTTATGATAAGCATATTAATTGCAATTGTATTGACCTGTTATAAGCATATTAA
1 CTACTGTATTGATCTATGATAAGCATATTAATTGCAA-CCAATTGACCTGTTATAAGCACATTAA
32542014 ATA
65 ATA
* * * *
32542017 CTACTGTATTGATCTGTTATAAGCATATTAATTGCTACCAATTGATCTGTTATAAGCACATTAAA
1 CTACTGTATTGATCTATGATAAGCATATTAATTGCAACCAATTGACCTGTTATAAGCACATTAAA
*
32542082 TG
66 TA
*
32542084 CTA-TCATATTGATCTA
1 CTACT-GTATTGATCTA
32542100 AGCATGCCAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 1 0.01
67 36 0.51
68 33 0.47
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (67 bp):
CTACTGTATTGATCTATGATAAGCATATTAATTGCAACCAATTGACCTGTTATAAGCACATTAAA
TA
Found at i:32542066 original size:33 final size:33
Alignment explanation
Indices: 32541990--32542098 Score: 137
Period size: 34 Copynumber: 3.2 Consensus size: 33
32541980 TTGCAATTGT
* * **
32541990 ATTGACCTGTTATAAGCATATTAAATACTACTGT
1 ATTGATCTGTTATAAGCATATTAAATGCTAC-CA
*
32542024 ATTGATCTGTTATAAGCATATTAATTGCTACCA
1 ATTGATCTGTTATAAGCATATTAAATGCTACCA
* *
32542057 ATTGATCTGTTATAAGCACATTAAATGCTATCA
1 ATTGATCTGTTATAAGCATATTAAATGCTACCA
32542090 TATTGATCT
1 -ATTGATCT
32542099 AAGCATGCCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
33 30 0.45
34 36 0.55
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
ATTGATCTGTTATAAGCATATTAAATGCTACCA
Found at i:32542228 original size:45 final size:44
Alignment explanation
Indices: 32542176--32542352 Score: 158
Period size: 45 Copynumber: 3.9 Consensus size: 44
32542166 AAATTTGCTA
*
32542176 TGTATCCACAGCTAGAGGCAGATTCTATCTGTGAGATATTTGTTG
1 TGTATCCACAGCTAGAGGTAGATTCTATCTGTGAGAT-TTTGTTG
* * *
32542221 TGCATCCACAACTAGAGGTAGATTCTAACTGT-AGGATTTTGTTG
1 TGTATCCACAGCTAGAGGTAGATTCTATCTGTGA-GATTTTGTTG
* * * * * **
32542265 TGTTTTCACAGCTAAAAGCAGAAGATTGTATCTGCAAGATTTTTGTTG
1 TGTATCCACAGCT-AGAG--GTAGATTCTATCTGTGAGA-TTTTGTTG
* * * *
32542313 TGTATCCACAGCCAGAGGTAAATTCTATTTGTGGGATTTT
1 TGTATCCACAGCTAGAGGTAGATTCTATCTGTGAGATTTT
32542353 TCTATGTGTC
Statistics
Matches: 102, Mismatches: 24, Indels: 13
0.73 0.17 0.09
Matches are distributed among these distances:
44 21 0.21
45 46 0.45
47 16 0.16
48 19 0.19
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (44 bp):
TGTATCCACAGCTAGAGGTAGATTCTATCTGTGAGATTTTGTTG
Found at i:32543275 original size:17 final size:17
Alignment explanation
Indices: 32543253--32543286 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32543243 ACGATCATAG
32543253 TAATAACAA-AAGACTTC
1 TAATAA-AATAAGACTTC
32543270 TAATAAAATAAGACTTC
1 TAATAAAATAAGACTTC
32543287 GTTTGTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (17 bp):
TAATAAAATAAGACTTC
Found at i:32547032 original size:32 final size:32
Alignment explanation
Indices: 32546993--32547076 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
32546983 TATTGAATTT
*
32546993 AGTTTGTTGGATTTTGAAATTATTATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TTGA
* * *
32547026 A-TTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTGA
*
32547057 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
32547077 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.51
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTGA
Found at i:32548017 original size:25 final size:26
Alignment explanation
Indices: 32547966--32548018 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32547956 TAAAAGTAAG
32547966 AAGCATAGAAAAATTTGGCTTCAAAA
1 AAGCATAGAAAAATTTGGCTTCAAAA
32547992 AAGCATAGAAAAATTTGGCTTCAAAA
1 AAGCATAGAAAAATTTGGCTTCAAAA
32548018 A
1 A
32548019 TTTTCTCAAG
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:0.11, G:0.15, T:0.23
Consensus pattern (26 bp):
AAGCATAGAAAAATTTGGCTTCAAAA
Found at i:32548555 original size:18 final size:19
Alignment explanation
Indices: 32548510--32548547 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32548500 CATCCAAACA
*
32548510 CCAGAAAAATAAATCATTT
1 CCAGAAAAACAAATCATTT
32548529 CCAGAAAAACAAATCATTT
1 CCAGAAAAACAAATCATTT
32548548 TTAAAAAATT
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:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (19 bp):
CCAGAAAAACAAATCATTT
Found at i:32549069 original size:10 final size:10
Alignment explanation
Indices: 32549051--32549115 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
32549041 ATTTTTTAAA
*
32549051 TATATAAAAT
1 TATAAAAAAT
32549061 TATAAAAAAT
1 TATAAAAAAT
32549071 TA-AAAAAAT
1 TATAAAAAAT
32549080 TAT---AAAT
1 TATAAAAAAT
**
32549087 TATAAATTAT
1 TATAAAAAAT
*
32549097 AATAAAAATAT
1 TATAAAAA-AT
32549108 TATAAAAA
1 TATAAAAA
32549116 TTTTAGAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.16
9 9 0.21
10 18 0.42
11 9 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:32549103 original size:26 final size:28
Alignment explanation
Indices: 32549048--32549114 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
32549038 AAAATTTTTT
32549048 AAATATATAAAATTATAAAAAATTAAAA
1 AAATATATAAAATTATAAAAAATTAAAA
**
32549076 AAAT-TAT-AAATTATAAATTA-TAATAA
1 AAATATATAAAATTATAAAAAATTAA-AA
32549102 AAATATTATAAAA
1 AAATA-TATAAAA
32549115 ATTTTAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 3 0.09
26 17 0.52
27 3 0.09
28 7 0.21
29 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATATATAAAATTATAAAAAATTAAAA
Found at i:32549222 original size:9 final size:9
Alignment explanation
Indices: 32549191--32549252 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
32549181 ATTTTTTTAA
32549191 AAAAATTAT
1 AAAAATTAT
32549200 AAAAACATTA-
1 -AAAA-ATTAT
*
32549210 AAAAGTTAT
1 AAAAATTAT
32549219 AAAAATTAT
1 AAAAATTAT
**
32549228 AAAAACAAT
1 AAAAATTAT
32549237 AAAAAGTTAT
1 AAAAA-TTAT
32549247 AGAAAA
1 A-AAAA
32549253 ATTTTGTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 3 0.07
9 24 0.57
10 7 0.17
11 8 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (9 bp):
AAAAATTAT
Found at i:32549229 original size:28 final size:28
Alignment explanation
Indices: 32549191--32549252 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
32549181 ATTTTTTTAA
*
32549191 AAAAATTATAAAAACATTAAAAAGTTAT
1 AAAAATTATAAAAACAATAAAAAGTTAT
32549219 AAAAATTATAAAAACAATAAAAAGTTAT
1 AAAAATTATAAAAACAATAAAAAGTTAT
32549247 AGAAAA
1 A-AAAA
32549253 ATTTTGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (28 bp):
AAAAATTATAAAAACAATAAAAAGTTAT
Found at i:32549752 original size:17 final size:18
Alignment explanation
Indices: 32549721--32549756 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
32549711 ATTTTTATAA
32549721 AAAATATATAATTTTTTT
1 AAAATATATAATTTTTTT
32549739 AAAATATA-AATTTTTTT
1 AAAATATATAATTTTTTT
32549756 A
1 A
32549757 TTTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATATATAATTTTTTT
Found at i:32554050 original size:34 final size:34
Alignment explanation
Indices: 32554012--32554118 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
32554002 TTAATTCGTG
* * *
32554012 ATAAGCATATTAATTACTAACGTATTGATCGGTT
1 ATAAGCATATTAATTGCTAACATATTGATCTGTT
* * **
32554046 ATAAGCATATTATTTGTTATTATATTGATCTGTT
1 ATAAGCATATTAATTGCTAACATATTGATCTGTT
* *
32554080 ATAAGCATATTAATTGCTACCATATTGATCTTTT
1 ATAAGCATATTAATTGCTAACATATTGATCTGTT
32554114 ATAAG
1 ATAAG
32554119 TAAGCCATAT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (34 bp):
ATAAGCATATTAATTGCTAACATATTGATCTGTT
Found at i:32555582 original size:19 final size:20
Alignment explanation
Indices: 32555546--32555583 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32555536 GTAACTTTTA
* *
32555546 TTTTTTAAAATTTCTTTGAT
1 TTTTTTAAAATATATTTGAT
32555566 TTTTTTAAAA-ATATTTGA
1 TTTTTTAAAATATATTTGA
32555584 ATAGTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTTAAAATATATTTGAT
Found at i:32557631 original size:36 final size:36
Alignment explanation
Indices: 32557591--32557663 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
32557581 TGTGAAAGAG
* * *
32557591 AATATGTGGGTTTACTGTTCATGCCATGTGACAGTA
1 AATATGTGAGTATACTATTCATGCCATGTGACAGTA
**
32557627 AATATGTGAGTATGTTATTCATGCCATGTGACAGTA
1 AATATGTGAGTATACTATTCATGCCATGTGACAGTA
32557663 A
1 A
32557664 TTATAATGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (36 bp):
AATATGTGAGTATACTATTCATGCCATGTGACAGTA
Found at i:32563522 original size:35 final size:36
Alignment explanation
Indices: 32563460--32563531 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
32563450 TGTGAAAGAG
* *
32563460 AATATGTGGGTATGTTATTCGTTCCATG-GACAGTA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGTA
*
32563495 AATATGTGGGTATGTTATTCATGCCATGTGATAGTA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAGTA
32563531 A
1 A
32563532 TTGTAATGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (36 bp):
AATATGTGGGTATGTTATTCATGCCATGTGACAGTA
Found at i:32564043 original size:40 final size:41
Alignment explanation
Indices: 32563947--32564043 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
32563937 CGTTTGGACA
*
32563947 AAAAACGTCGCTAAAAATCGAGCATTAGCGGCGCTTTTATG
1 AAAAACGTCGCTAAAAATCGAGCATTAGCAGCGCTTTTATG
* *
32563988 -AAAGCGCCGCTAAAAAT-GAGCATTAGCAGCAG-TTTT-TGG
1 AAAAACGTCGCTAAAAATCGAGCATTAGCAGC-GCTTTTAT-G
*
32564027 AAAAACGTCGCAAAAAA
1 AAAAACGTCGCTAAAAA
32564044 CCTAAGCCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 1 0.02
39 17 0.36
40 29 0.62
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAACGTCGCTAAAAATCGAGCATTAGCAGCGCTTTTATG
Found at i:32564139 original size:41 final size:41
Alignment explanation
Indices: 32564060--32564253 Score: 217
Period size: 41 Copynumber: 4.7 Consensus size: 41
32564050 CCTTTCGGGA
* **
32564060 CTTTAGCGACGTTTTTAAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAATGCTCAGAT
* ** * * *
32564102 CTTTAACAACGTTTTTGGAAAGGCACCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAT
* * *
32564143 CTTTAGCGGTGTTTTTGGAAAAGTGTCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAT
* **
32564184 CTTTAGCGGCGTTTTTGGAAAACCGCCGCTAATGCTCAGGG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAT
* * *
32564225 CTTTAGTGGCGTTTTTGAAAAAGCACCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
32564254 AAAAACATTT
Statistics
Matches: 126, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
41 112 0.89
42 14 0.11
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAT
Found at i:32564724 original size:21 final size:21
Alignment explanation
Indices: 32564700--32564767 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
32564690 GGGATTCTGA
32564700 TTTAAGGGTT-GTGATTTAAGG
1 TTTAAGGGTTAG-GATTTAAGG
* **
32564721 TTTATGGGTTAGGGGTTAGAGG
1 TTTAAGGGTTAGGATTTA-AGG
32564743 -TTAAGGGTTAGAGATTTAAGG
1 TTTAAGGGTTAG-GATTTAAGG
32564764 TTTA
1 TTTA
32564768 TGCATTTAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 26 0.70
22 11 0.30
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (21 bp):
TTTAAGGGTTAGGATTTAAGG
Found at i:32564861 original size:70 final size:71
Alignment explanation
Indices: 32564782--32564921 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
32564772 TTTAGTGTCA
* *
32564782 GGTTAGGGTTTAAGATTTAGATTAATTAGTG-TGTTTTAATTTATATATTAAATAATGTTTAGGG
1 GGTTAGGGTTTAAGATTTAGATTAATTAGTGTTGTTTTAATTTATATATTAAATAAGGTTTAAGG
32564846 GTTAGG
66 GTTAGG
* *
32564852 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTTAATTTATATATTAAATAAGGTTTAAGG
1 GGTTAGGGTTTAAGATTTAGATTAATTAGTGTTGTTTTAATTTATATATTAAATAAGGTTTAAGG
32564917 GTTAG
66 GTTAG
32564922 TTGTTAAGGG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 30 0.46
71 35 0.54
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (71 bp):
GGTTAGGGTTTAAGATTTAGATTAATTAGTGTTGTTTTAATTTATATATTAAATAAGGTTTAAGG
GTTAGG
Found at i:32565248 original size:9 final size:9
Alignment explanation
Indices: 32565234--32565264 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32565224 GTTAAACGAA
32565234 TCGAGTTAT
1 TCGAGTTAT
*
32565243 TCGAGTTAA
1 TCGAGTTAT
32565252 TCGAGTTAT
1 TCGAGTTAT
32565261 TCGA
1 TCGA
32565265 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32565340 original size:18 final size:18
Alignment explanation
Indices: 32565317--32565352 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32565307 TTGAGTTTTT
*
32565317 GAATTCGGATAACTCGAA
1 GAATTCGAATAACTCGAA
*
32565335 GAATTCGAATAATTCGAA
1 GAATTCGAATAACTCGAA
32565353 TATCAAACTA
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:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (18 bp):
GAATTCGAATAACTCGAA
Found at i:32565784 original size:20 final size:18
Alignment explanation
Indices: 32565724--32565784 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
32565714 TATTTACTTT
32565724 CCCTCAAACTTTTATTC-C
1 CCCT-AAACTTTTATTCTC
* * *
32565742 CCCAAAATTTTTATTTTCC
1 CCCTAAACTTTTATTCT-C
32565761 CCCTAAACTTTTACTTCTC
1 CCCTAAACTTTTA-TTCTC
32565780 ACCCT
1 -CCCT
32565785 TTACTCTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 10 0.30
18 3 0.09
19 13 0.39
20 7 0.21
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (18 bp):
CCCTAAACTTTTATTCTC
Found at i:32566635 original size:17 final size:16
Alignment explanation
Indices: 32566602--32566635 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32566592 ATATTGGATT
*
32566602 TAAAAAAATTAATAAA
1 TAAAAAAATTAAAAAA
32566618 TAAAAAAATGTAAAAAA
1 TAAAAAAAT-TAAAAAA
32566635 T
1 T
32566636 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAAAAAA
Found at i:32567227 original size:148 final size:142
Alignment explanation
Indices: 32567065--32567350 Score: 387
Period size: 147 Copynumber: 2.0 Consensus size: 142
32567055 TTTAGTATAA
* * * * *
32567065 CAAAACAGTGTCGTTTTATTCGAAATGAAATAAGTTTT-TG-CAGTGTTTTTGATAAAGACTCCG
1 CAAAACAGTGTCGTTTTATTCAAAATGAAATAAGTTTTATGACA---TTTCTCATAAAAACGCCG
* *
32567128 CAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAAAATAATTTTACTTTTAAAA
63 CAAAAGATAAGCAATAGCGGCGTTTTTAT-AAAAAACGCCAC--AAAA-AA-TTTACTTTAAAAA
32567193 AATAGCGCCATTTTATTTAG
123 AATAGCGCCATTTTATTTAG
*
32567213 CAAAACAGTGTCGTTTTATTCAAAATGAAATAATTTTTATGACATTTCTCATAAAAACGCCGCAA
1 CAAAACAGTGTCGTTTTATTCAAAATGAAATAAGTTTTATGACATTTCTCATAAAAACGCCGCAA
* **
32567278 AAGATAAGCAATAGCGGCGTTTTTATTAAAAACTTCACAAAAAATTTACTTTAAAAAAATAGCGC
66 AAGATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATTTACTTTAAAAAAATAGCGC
32567343 CATTTTAT
131 CATTTTAT
32567351 AAAATCCCCT
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
142 28 0.22
143 2 0.02
144 4 0.03
146 9 0.07
147 42 0.34
148 36 0.29
149 2 0.02
150 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (142 bp):
CAAAACAGTGTCGTTTTATTCAAAATGAAATAAGTTTTATGACATTTCTCATAAAAACGCCGCAA
AAGATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATTTACTTTAAAAAAATAGCGC
CATTTTATTTAG
Found at i:32571682 original size:43 final size:43
Alignment explanation
Indices: 32571596--32571798 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 43
32571586 TTTTTGCTAG
* * *
32571596 AAGCGCCGCTAAAGGT-TTGTTCTTTAGTGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
* * *
32571638 AAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
* * * * *
32571681 AAGCGTCACTAAAGGTCTTGGTCTTTAGCGGCATTTTTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
* * * * *
32571724 AAGTGCCGCTTAAGGTCGTGGTCTTTAGCAGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
32571767 CAA-CGCCGCTAAAGGTCTTGGTCTTTAGCGGC
1 -AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGC
32571799 ATTTTTTCCA
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 16 0.12
43 117 0.87
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
Found at i:32574867 original size:68 final size:68
Alignment explanation
Indices: 32574758--32575029 Score: 330
Period size: 68 Copynumber: 4.0 Consensus size: 68
32574748 ATTAGAAATC
* ** * *
32574758 CACCAGGACAATAAACATCGGATCATATTGTGTAAGACCATAGTTGGGTTATGGCAACATATGGA
1 CACCAGGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGCAACATATGGA
32574823 GTT
66 GTT
* * * * * *
32574826 CACCAGGACAGTAACCATTGGATCATATCATGTAAGACCATAGTTGGGTTATGACAACATATGGA
1 CACCAGGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGCAACATATGGA
*
32574891 GTC
66 GTT
* * *
32574894 CGCCAAGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGAAACATATGGA
1 CACCAGGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGCAACATATGGA
32574959 G-T
66 GTT
* * * * * * *
32574961 CTTCCAGGACAATAAATATGGGATCATATAATGTAAGACCATAACTGGGCTATGGCAACAAATGA
1 C-ACCAGGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGCAACATATGG
32575026 AGTT
65 AGTT
32575030 TGCTAGAATG
Statistics
Matches: 176, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
67 1 0.01
68 174 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (68 bp):
CACCAGGACAATAAACATAGGATCATATCATGTAAGACCATAGCTGGGCTATGGCAACATATGGA
GTT
Found at i:32591673 original size:25 final size:25
Alignment explanation
Indices: 32591645--32591761 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
32591635 TCTTGTACAT
32591645 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTATGAATCG
* *
32591670 GTATGCTCTCACAAGCTATGAATCA
1 GTATGCTCTCACGAGCTATGAATCG
* ** * *
32591695 ATATAATCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTATGAATCG
* *
32591720 GTAAGCTCAT-ACGAG-T-TGAAATTG
1 GTATGCTC-TCACGAGCTATG-AATCG
*
32591744 GTAAGCTCTCACGAGCTA
1 GTATGCTCTCACGAGCTA
32591762 AAAATTGGTA
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
23 2 0.03
24 19 0.27
25 49 0.69
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATGAATCG
Found at i:32591746 original size:24 final size:24
Alignment explanation
Indices: 32591705--32591786 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
32591695 ATATAATCTC
* *
32591705 ACGAGCTGTAAATCGGTAAGCTCAT
1 ACGAGTTG-AAATTGGTAAGCTCAT
32591730 ACGAGTTGAAATTGGTAAGCTC-T
1 ACGAGTTGAAATTGGTAAGCTCAT
**
32591753 CACGAGCTAAAAATTGGTAAGCTCAT
1 -ACGAG-TTGAAATTGGTAAGCTCAT
*
32591779 ACAAGTTG
1 ACGAGTTG
32591787 TGGTGCGTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 19 0.40
25 26 0.55
26 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (24 bp):
ACGAGTTGAAATTGGTAAGCTCAT
Found at i:32594150 original size:32 final size:32
Alignment explanation
Indices: 32594083--32594151 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
32594073 TCAACATTTA
*
32594083 TTATTTTTCAGACTTTGAGCAAGCTTTGCTAT
1 TTATTTTTCAGACTTTGAGCAAGATTTGCTAT
* * * *
32594115 TTATTTTTGAGATTTTTGAGCAATATTTTCT-T
1 TTATTTTTCAGA-CTTTGAGCAAGATTTGCTAT
32594147 TTATT
1 TTATT
32594152 CTTTTGAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.55
Consensus pattern (32 bp):
TTATTTTTCAGACTTTGAGCAAGATTTGCTAT
Found at i:32597905 original size:369 final size:369
Alignment explanation
Indices: 32597226--32597966 Score: 1383
Period size: 369 Copynumber: 2.0 Consensus size: 369
32597216 GAAAGAAGAA
32597226 GTAATGTTGACCAACAATTATATTCAATATTTGCTCAAAAAATAGCAACAGAAAGTGGTCTTTCT
1 GTAATGTTGACCAACAATTATATTCAATATTTGCTCAAAAAATAGCAACAGAAAGTGGTCTTTCT
*
32597291 ATTTTTCTTTGCTCGACTTTCTATCATTTGTACAAATCTACCTACCCATGATAATATTTAACGAA
66 ATTTTTCTTTGCTCGACTTTCTATCATTTGTACAAATCTACCTACCCACGATAATATTTAACGAA
*
32597356 ATCAGCTCATTTTTTGTTATATCTTCTTTCTTTGGTACAAGTCCCACCCACTGAATGTCATAGAT
131 ATCAGCTCATTTTTTGTTATACCTTCTTTCTTTGGTACAAGTCCCACCCACTGAATGTCATAGAT
32597421 GGGATCTATGATCCTTACTTTTAACCATTGAGACTCGAGTTTCCCAGGATCAAATACTCAAGATT
196 GGGATCTATGATCCTTACTTTTAACCATTGAGACTCGAGTTTCCCAGGATCAAATACTCAAGATT
32597486 GGATGAATCTCTTTTGTCCCTCGATAGAACTCTTTTCAGTATCTAATGATCTTTTCAAAATCATT
261 GGATGAATCTCTTTTGTCCCTCGATAGAACTCTTTTCAGTATCTAATGATCTTTTCAAAATCATT
*
32597551 AAGTCTAACTCGAGTGACTCTTCTCTTGATGGGTTGGGTTGCTT
326 AAGTCTAACTCGAGTGACTCTTATCTTGATGGGTTGGGTTGCTT
* * *
32597595 GTAATGTTGACCAACAATTATATTCAATATTTGCTTAATAAATAGCAACAGGAAGTGGTCTTTCT
1 GTAATGTTGACCAACAATTATATTCAATATTTGCTCAAAAAATAGCAACAGAAAGTGGTCTTTCT
* *
32597660 GTTTTTCTTTGCTCGACTTTCTGTCATTTGTACAAATCTACCTACCCACGATAATATTTAACGAA
66 ATTTTTCTTTGCTCGACTTTCTATCATTTGTACAAATCTACCTACCCACGATAATATTTAACGAA
32597725 ATCAGCTCATTTTTTGTTATACCTTCTTTCTTTGGTACAAGTCCCACCCACTGAATGTCATAGAT
131 ATCAGCTCATTTTTTGTTATACCTTCTTTCTTTGGTACAAGTCCCACCCACTGAATGTCATAGAT
* *
32597790 GGGATCTATGATCCTTGCTTTTAACCATTGAGACTCGAGTTTCCCAGGATCAAATACTTAAGATT
196 GGGATCTATGATCCTTACTTTTAACCATTGAGACTCGAGTTTCCCAGGATCAAATACTCAAGATT
*
32597855 GGATGAATCTCTTTTGTCCCTCGATAGAACTCTTTTCAGTATCTAATGATCTTTTCAAAATCGTT
261 GGATGAATCTCTTTTGTCCCTCGATAGAACTCTTTTCAGTATCTAATGATCTTTTCAAAATCATT
32597920 AAGTCTAACTCGAGTGACTCTTATCTTGATGGGTTGGGTTGCTT
326 AAGTCTAACTCGAGTGACTCTTATCTTGATGGGTTGGGTTGCTT
32597964 GTA
1 GTA
32597967 CTCATGTGAT
Statistics
Matches: 361, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
369 361 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (369 bp):
GTAATGTTGACCAACAATTATATTCAATATTTGCTCAAAAAATAGCAACAGAAAGTGGTCTTTCT
ATTTTTCTTTGCTCGACTTTCTATCATTTGTACAAATCTACCTACCCACGATAATATTTAACGAA
ATCAGCTCATTTTTTGTTATACCTTCTTTCTTTGGTACAAGTCCCACCCACTGAATGTCATAGAT
GGGATCTATGATCCTTACTTTTAACCATTGAGACTCGAGTTTCCCAGGATCAAATACTCAAGATT
GGATGAATCTCTTTTGTCCCTCGATAGAACTCTTTTCAGTATCTAATGATCTTTTCAAAATCATT
AAGTCTAACTCGAGTGACTCTTATCTTGATGGGTTGGGTTGCTT
Found at i:32600509 original size:24 final size:25
Alignment explanation
Indices: 32600482--32600528 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
32600472 AAACACTAAA
32600482 TAATAAA-GAATAAAAT-AAGAATAC
1 TAATAAAGGAA-AAAATAAAGAATAC
32600506 TAATAAAGGAAAAAATAAAGAAT
1 TAATAAAGGAAAAAATAAAGAAT
32600529 TAATTAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (25 bp):
TAATAAAGGAAAAAATAAAGAATAC
Found at i:32613175 original size:28 final size:28
Alignment explanation
Indices: 32613143--32613197 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
32613133 CATGTATATG
*
32613143 TTAACCCAAAGAAAATTGAATAATACTA
1 TTAACCCAAAGAAAATCGAATAATACTA
32613171 TTAACCCAAAGAAAATCGAATAATACT
1 TTAACCCAAAGAAAATCGAATAATACT
32613198 TTTGAAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (28 bp):
TTAACCCAAAGAAAATCGAATAATACTA
Found at i:32616069 original size:56 final size:56
Alignment explanation
Indices: 32616003--32616116 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
32615993 TCTCATGGTC
32616003 CTGCATTTCACAACAGGACAATTGTTTCAAGTTCCACTTCAATTGTCAATTAGTGT
1 CTGCATTTCACAACAGGACAATTGTTTCAAGTTCCACTTCAATTGTCAATTAGTGT
* * * *
32616059 CTGCATTTCACAACATGACAATTGTTTCATGTTCCAGTTCAATTGTCAGTTAGTGT
1 CTGCATTTCACAACAGGACAATTGTTTCAAGTTCCACTTCAATTGTCAATTAGTGT
32616115 CT
1 CT
32616117 ACAATGTTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (56 bp):
CTGCATTTCACAACAGGACAATTGTTTCAAGTTCCACTTCAATTGTCAATTAGTGT
Found at i:32618145 original size:18 final size:18
Alignment explanation
Indices: 32618111--32618144 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32618101 ATCAATATCG
*
32618111 ATTTAACATGATTAAAAT
1 ATTTAACATGATAAAAAT
32618129 ATTTAACA-GATAAAAA
1 ATTTAACATGATAAAAA
32618145 AAACTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
ATTTAACATGATAAAAAT
Found at i:32635288 original size:8 final size:8
Alignment explanation
Indices: 32635264--32635297 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
32635254 TTTTTTTGTG
32635264 AAATTTTA
1 AAATTTTA
32635272 TAAATTTTTA
1 -AAA-TTTTA
32635282 AAATTTTA
1 AAATTTTA
32635290 AAATTTTA
1 AAATTTTA
32635298 GATGTTGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.54
9 6 0.25
10 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AAATTTTA
Found at i:32636171 original size:14 final size:14
Alignment explanation
Indices: 32636152--32636204 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
32636142 TTTAAATATA
32636152 AAAAATAAAAATTT
1 AAAAATAAAAATTT
* **
32636166 AAAAATATATTTTT
1 AAAAATAAAAATTT
32636180 AAAAAATAAAAATTAT
1 -AAAAATAAAAATT-T
*
32636196 GAAAATAAA
1 AAAAATAAA
32636205 TAAAAACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 11 0.37
15 18 0.60
16 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:32636223 original size:19 final size:18
Alignment explanation
Indices: 32636183--32636252 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 18
32636173 TATTTTTAAA
32636183 AAATAAAAATTATGAAAA-T
1 AAATAAAAATT-T-AAAATT
32636202 AAATAAAAACTTTAAAATT
1 AAATAAAAA-TTTAAAATT
32636221 AAA-AAAATATTTTTAAAATAT
1 AAATAAAA-A--TTTAAAAT-T
32636242 AAATAAAAATT
1 AAATAAAAATT
32636253 CCAAAATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
18 8 0.18
19 17 0.39
20 10 0.23
21 5 0.11
22 4 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
AAATAAAAATTTAAAATT
Found at i:32636237 original size:20 final size:19
Alignment explanation
Indices: 32636159--32636252 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 19
32636149 ATAAAAAATA
*
32636159 AAAATTTAAAAATATATTTTT
1 AAAA-TTAAAAA-AAATTTTT
* * *
32636180 AAAA--AATAAAAATTATG
1 AAAATTAAAAAAAATTTTT
*
32636197 AAAA-TAAATAAAAA-CTTT
1 AAAATTAAA-AAAAATTTTT
32636215 AAAATTAAAAAAATATTTTT
1 AAAATTAAAAAAA-ATTTTT
32636235 AAAATATAAATAAAAATT
1 AAAAT-TAAA-AAAAATT
32636253 CCAAAATTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
17 9 0.16
18 15 0.26
19 10 0.18
20 8 0.14
21 11 0.19
22 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAATTAAAAAAAATTTTT
Found at i:32637810 original size:7 final size:7
Alignment explanation
Indices: 32637798--32637831 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
32637788 TGCCACATTA
32637798 TAAAAAT
1 TAAAAAT
32637805 TAAAAAT
1 TAAAAAT
32637812 TAAAAAT
1 TAAAAAT
32637819 TAAAAAT
1 TAAAAAT
32637826 TAAAAA
1 TAAAAA
32637832 AAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:32638856 original size:11 final size:11
Alignment explanation
Indices: 32638842--32638894 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
32638832 AAATAATGAT
*
32638842 AAAACAATAGG
1 AAAACAATAGC
* *
32638853 AAAACAACAAC
1 AAAACAATAGC
*
32638864 AAAACAAT-GA
1 AAAACAATAGC
32638874 AAAACAATAGC
1 AAAACAATAGC
32638885 AAAACAATAG
1 AAAACAATAG
32638895 TTTTTTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.24
11 26 0.76
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.08
Consensus pattern (11 bp):
AAAACAATAGC
Found at i:32638879 original size:21 final size:22
Alignment explanation
Indices: 32638842--32638894 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
32638832 AAATAATGAT
*
32638842 AAAACAATAGGAAAACAACAAC
1 AAAACAATAGAAAAACAACAAC
* *
32638864 AAAACAAT-GAAAAACAATAGC
1 AAAACAATAGAAAAACAACAAC
32638885 AAAACAATAG
1 AAAACAATAG
32638895 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.08
Consensus pattern (22 bp):
AAAACAATAGAAAAACAACAAC
Found at i:32638883 original size:32 final size:33
Alignment explanation
Indices: 32638825--32638891 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
32638815 ATAGTGAAAT
* *
32638825 AACAACAAAATAATGATAAAACAATAGGAAAAC
1 AACAACAAAACAATGATAAAACAATAGCAAAAC
32638858 AACAACAAAACAATGA-AAAACAATAGCAAAAC
1 AACAACAAAACAATGATAAAACAATAGCAAAAC
32638890 AA
1 AA
32638892 TAGTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.69, C:0.15, G:0.07, T:0.09
Consensus pattern (33 bp):
AACAACAAAACAATGATAAAACAATAGCAAAAC
Found at i:32639563 original size:18 final size:17
Alignment explanation
Indices: 32639536--32639590 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
32639526 TTTGAATTTT
*
32639536 ATTTAATATTTTTATAAA
1 ATTTATTATTTTT-TAAA
32639554 ATTTATTATTTATTTACAA
1 ATTTATTATTT-TTTA-AA
*
32639573 ATTTATAATTTTTTAAA
1 ATTTATTATTTTTTAAA
32639590 A
1 A
32639591 ATATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.09
18 16 0.48
19 14 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTTTTTAAA
Found at i:32639584 original size:49 final size:48
Alignment explanation
Indices: 32639505--32639605 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 48
32639495 AATGGTTTTT
** * * *
32639505 ATTTATTTTTATTTTTAAATTTTTGAATTTTATTTAATAT-TTTTATAAA
1 ATTTATTTTTATTTACAAATTTATGAATTTT-TTAAAAATATTTT-TAAA
32639554 ATTTATTATTTATTTACAAATTTAT-AATTTTTTAAAAATATTTTTAAA
1 ATTTATT-TTTATTTACAAATTTATGAATTTTTTAAAAATATTTTTAAA
32639602 ATTT
1 ATTT
32639606 TAAAAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
48 14 0.31
49 17 0.38
50 14 0.31
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (48 bp):
ATTTATTTTTATTTACAAATTTATGAATTTTTTAAAAATATTTTTAAA
Found at i:32639592 original size:18 final size:18
Alignment explanation
Indices: 32639539--32639592 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
32639529 GAATTTTATT
32639539 TAATATTTTTATAAAATTTA
1 TAAT-TTTTTA-AAAATTTA
* *
32639559 TTATTTATTTACAAATTTA
1 TAATTT-TTTAAAAATTTA
32639578 TAATTTTTTAAAAAT
1 TAATTTTTTAAAAAT
32639593 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.28
19 14 0.48
20 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTTTTTAAAAATTTA
Found at i:32639620 original size:22 final size:21
Alignment explanation
Indices: 32639582--32639625 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
32639572 AATTTATAAT
* *
32639582 TTTTTAAAAATATTTTTAAAA
1 TTTTAAAAAATAGTTTTAAAA
*
32639603 TTTTAAAAAATAAGTTTTGAAA
1 TTTTAAAAAAT-AGTTTTAAAA
32639625 T
1 T
32639626 AAATGAACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTTAAAAAATAGTTTTAAAA
Found at i:32643336 original size:58 final size:58
Alignment explanation
Indices: 32643267--32643388 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
32643257 ATAAAGAAAT
* **
32643267 AATCATACCAATGTTGATTGAAACACAGAGTAGTCAATCTCTCTATTGGGATAACGAG
1 AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTAGATTGGGATAACGAG
* *
32643325 AATCATACCAATGTTGATTGAAACAGAGAGTAGTAAATCTCTAGATTTGGATAACGAG
1 AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTAGATTGGGATAACGAG
32643383 AATCAT
1 AATCAT
32643389 TGCTTGTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (58 bp):
AATCATACCAATGTTGATTGAAACACAGAGTAGTAAATCTCTAGATTGGGATAACGAG
Found at i:32646933 original size:12 final size:12
Alignment explanation
Indices: 32646891--32646938 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 12
32646881 AGAGCTCGAA
32646891 AAAACATAGCTTAT
1 AAAACATA-CTT-T
*
32646905 AAAACTGTACTTTT
1 AAAAC-ATAC-TTT
32646919 AAAACATACTTT
1 AAAACATACTTT
32646931 AAAACATA
1 AAAACATA
32646939 AGCTTGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 11 0.37
13 3 0.10
14 12 0.40
15 4 0.13
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (12 bp):
AAAACATACTTT
Found at i:32647091 original size:16 final size:16
Alignment explanation
Indices: 32647072--32647106 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
32647062 TTCTTGGAAA
32647072 ACATAACAGTTTGCAC
1 ACATAACAGTTTGCAC
32647088 ACATAACAGTTTGCAC
1 ACATAACAGTTTGCAC
32647104 ACA
1 ACA
32647107 AGTTATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (16 bp):
ACATAACAGTTTGCAC
Found at i:32652426 original size:22 final size:22
Alignment explanation
Indices: 32652381--32652485 Score: 149
Period size: 22 Copynumber: 4.7 Consensus size: 22
32652371 TTATCACCCA
*
32652381 CCAAACACAACCAATCATAGCCT
1 CCAAACACAACCAAT-TTAGCCT
*
32652404 CCAACCACAACCAATTTAGCCT
1 CCAAACACAACCAATTTAGCCT
*
32652426 CCAAACACAATCAATTATAGCCT
1 CCAAACACAACCAATT-TAGCCT
32652449 CCAAACACAACCAATTTA-CCTT
1 CCAAACACAACCAATTTAGCC-T
32652471 CCAAACACAACCAAT
1 CCAAACACAACCAAT
32652486 CATAGCTGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.03
22 38 0.51
23 35 0.47
ACGTcount: A:0.43, C:0.37, G:0.03, T:0.17
Consensus pattern (22 bp):
CCAAACACAACCAATTTAGCCT
Found at i:32652431 original size:45 final size:45
Alignment explanation
Indices: 32652381--32652491 Score: 179
Period size: 45 Copynumber: 2.5 Consensus size: 45
32652371 TTATCACCCA
*
32652381 CCAAACACAACCAATCATAGCCTCCAACCACAACCAATTTAGCC-T
1 CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTA-CCTT
* *
32652426 CCAAACACAATCAATTATAGCCTCCAAACACAACCAATTTACCTT
1 CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTACCTT
32652471 CCAAACACAACCAATCATAGC
1 CCAAACACAACCAATCATAGC
32652492 TGTAACACCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 2 0.03
45 58 0.97
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.17
Consensus pattern (45 bp):
CCAAACACAACCAATCATAGCCTCCAAACACAACCAATTTACCTT
Found at i:32653908 original size:39 final size:39
Alignment explanation
Indices: 32653865--32654083 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
32653855 TACTCGTTCA
*
32653865 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
32653904 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCAC
*
32653943 AAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCG-AC
1 -AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCAC
* *
32653982 AATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
* * * * *
32654020 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCAC
*
32654061 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
32654084 ACATCATTCA
Statistics
Matches: 156, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
37 18 0.12
38 16 0.10
39 45 0.29
40 68 0.44
41 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:32654044 original size:117 final size:117
Alignment explanation
Indices: 32653865--32654084 Score: 286
Period size: 117 Copynumber: 1.9 Consensus size: 117
32653855 TACTCGTTCA
* *
32653865 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATA
*
32653930 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGAC
66 TAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGAC
* * **
32653982 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGG
* * *
32654044 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
32654085 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
115 1 0.01
116 24 0.27
117 56 0.63
118 8 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (117 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGAC
Found at i:32661858 original size:40 final size:40
Alignment explanation
Indices: 32661821--32662042 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
32661811 GCTACTCGTT
* *
32661821 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* * * * *
32661861 CAACTACCTTTGAGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32661901 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
32661941 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTC-CA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
32661979 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
32662020 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
32662043 ACATCATTCA
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
37 2 0.01
38 13 0.08
39 33 0.22
40 94 0.61
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32667413 original size:23 final size:23
Alignment explanation
Indices: 32667385--32667554 Score: 149
Period size: 23 Copynumber: 7.6 Consensus size: 23
32667375 AGTTACTTGT
*
32667385 AATGCCTTTGTGGCGTATCCTGA
1 AATGCCTTTGTGGCGTATTCTGA
* *
32667408 AATGCCTTTGTGGCGAATTCTGT
1 AATGCCTTTGTGGCGTATTCTGA
32667431 AATGCCTTTGTGGCGTATTC-GA
1 AATGCCTTTGTGGCGTATTCTGA
* * *
32667453 TAATGCCTTTGTGACATATTCTGT
1 -AATGCCTTTGTGGCGTATTCTGA
* *
32667477 AATGACTTTTGTGGCATATTCTG-
1 AATG-CCTTTGTGGCGTATTCTGA
*
32667500 AA----TTTGTGGCATATTCT-A
1 AATGCCTTTGTGGCGTATTCTGA
* *
32667518 TAATGCCTTTGCGGTGTATTCT-A
1 -AATGCCTTTGTGGCGTATTCTGA
32667541 CAATGCCTTTGTGG
1 -AATGCCTTTGTGG
32667555 TAAGTTCTAT
Statistics
Matches: 123, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
18 15 0.12
19 2 0.02
22 1 0.01
23 88 0.72
24 17 0.14
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (23 bp):
AATGCCTTTGTGGCGTATTCTGA
Found at i:32667438 original size:46 final size:47
Alignment explanation
Indices: 32667382--32667554 Score: 186
Period size: 46 Copynumber: 3.9 Consensus size: 47
32667372 GCAAGTTACT
*
32667382 TGTAATGCCTTTGTGGCGTATCCTGA-AATGCCTTTGTGGCGA-ATTC
1 TGTAATGCCTTTGTGGCGTATTCTGACAATGCCTTTGTGGC-ATATTC
* *
32667428 TGTAATGCCTTTGTGGCGTATTC-GATAATGCCTTTGTGACATATTC
1 TGTAATGCCTTTGTGGCGTATTCTGACAATGCCTTTGTGGCATATTC
* *
32667474 TGTAATGACTTTTGTGGCATATTCTG--AA----TTTGTGGCATATTC
1 TGTAATG-CCTTTGTGGCGTATTCTGACAATGCCTTTGTGGCATATTC
* * *
32667516 TATAATGCCTTTGCGGTGTATTCT-ACAATGCCTTTGTGG
1 TGTAATGCCTTTGTGGCGTATTCTGACAATGCCTTTGTGG
32667555 TAAGTTCTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
41 13 0.12
42 21 0.20
45 3 0.03
46 55 0.51
47 14 0.13
48 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (47 bp):
TGTAATGCCTTTGTGGCGTATTCTGACAATGCCTTTGTGGCATATTC
Found at i:32668681 original size:41 final size:41
Alignment explanation
Indices: 32668624--32668705 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
32668614 TATCTTTTGT
32668624 TTCAAGAACAATAAATAAAGAAATAAGAACTTTGTGTTAGA
1 TTCAAGAACAATAAATAAAGAAATAAGAACTTTGTGTTAGA
32668665 TTCAAGAACAATAAATAAAGAAATAAGAACTTTGTGTTAGA
1 TTCAAGAACAATAAATAAAGAAATAAGAACTTTGTGTTAGA
32668706 ATGGTTTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (41 bp):
TTCAAGAACAATAAATAAAGAAATAAGAACTTTGTGTTAGA
Found at i:32672139 original size:91 final size:91
Alignment explanation
Indices: 32671977--32672165 Score: 247
Period size: 91 Copynumber: 2.1 Consensus size: 91
32671967 GTAACCATTT
* *
32671977 GATAACACACCAGATGCACATAGTGTAAAGCCCATAGGCTAAGTATTCTCCCCCAGTAACACAAC
1 GATAACACACCAGATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCAGTAACACAAC
*
32672042 AATTTTCTCATAAGAGCTTTCCAA-C
66 AATTTTCTCATAAGAACTTTCCAATC
* * **
32672067 AGATAACACACCATATGCACATAGTGCAAAGCCCATAGGCTAAATATTCT-CCCCTGATAACATG
1 -GATAACACACCAGATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCAG-TAACACA
* * * *
32672131 CCAGTTTTCTCGTAAGAATTTTCCAATC
64 ACAATTTTCTCATAAGAACTTTCCAATC
32672159 GATAACA
1 GATAACA
32672166 TGCTAGAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 5 0.06
91 79 0.93
92 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (91 bp):
GATAACACACCAGATGCACATAGTGCAAAGCCCATAGGCTAAATATTCTCCCCCAGTAACACAAC
AATTTTCTCATAAGAACTTTCCAATC
Found at i:32675461 original size:21 final size:21
Alignment explanation
Indices: 32675435--32675487 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
32675425 TTTAAAACCC
32675435 AATGAGTATCGATACTTTTTA
1 AATGAGTATCGATACTTTTTA
*
32675456 AATGAGTATCGATATTTTTTA
1 AATGAGTATCGATACTTTTTA
*
32675477 AA-AAGTATCGA
1 AATGAGTATCGA
32675488 AAAAACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
AATGAGTATCGATACTTTTTA
Found at i:32678921 original size:20 final size:21
Alignment explanation
Indices: 32678876--32678927 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
32678866 TACACCACAT
*
32678876 CAGAGGCATCAAAAATGCATAA
1 CAGAGGCA-CCAAAATGCATAA
*
32678898 CAGAGGCACCAAAGTGCA-AA
1 CAGAGGCACCAAAATGCATAA
32678918 CAGAGGCACC
1 CAGAGGCACC
32678928 GAATTACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 8 0.29
22 8 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (21 bp):
CAGAGGCACCAAAATGCATAA
Found at i:32685710 original size:28 final size:28
Alignment explanation
Indices: 32685667--32685748 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
32685657 GTGACACTTA
32685667 CTTGAAAGATAGTCCATGCAGACTCTTG
1 CTTGAAAGATAGTCCATGCAGACTCTTG
**
32685695 -TTGGAAAGATAGTCCATGTGGACTCTTG
1 CTT-GAAAGATAGTCCATGCAGACTCTTG
* *
32685723 CTTGAAAGAGAGTCCATGCAAACTCT
1 CTTGAAAGATAGTCCATGCAGACTCT
32685749 CATATGGTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.04
28 42 0.91
29 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (28 bp):
CTTGAAAGATAGTCCATGCAGACTCTTG
Found at i:32687819 original size:27 final size:27
Alignment explanation
Indices: 32687789--32688034 Score: 144
Period size: 27 Copynumber: 9.1 Consensus size: 27
32687779 AAACCAACAG
* *
32687789 AGTCTACTAGGACAGTAAACACAGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * *
32687816 AGTCCATTGGGATAGTAAACACGGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * * * **
32687843 AATCC-GTCAGGACAATAAACATGGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
* * * * * *
32687870 AGTCTACCGAGATAATAAACACGGGGT
1 AGTCCACTGGGACAGTAAACACAGGGT
* * * * *
32687897 AATCCACCGAGACATTAAAGAC-GAGGT
1 AGTCCACTGGGACAGTAAACACAG-GGT
**
32687924 AGT-CTGTCGGGACAGTAAACACAGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
*
32687951 AGTCCACTAGGACA-TGAAACACAGGGT
1 AGTCCACTGGGACAGT-AAACACAGGGT
*
32687978 AGTCCA-TCGGGACATTAAACACAGGGT
1 AGTCCACT-GGGACAGTAAACACAGGGT
**
32688005 AGTCCACTGGGAC-GTTAAACATGGGGT
1 AGTCCACTGGGACAG-TAAACACAGGGT
32688032 AGT
1 AGT
32688035 TTGCTGGGAC
Statistics
Matches: 170, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
26 5 0.03
27 160 0.94
28 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (27 bp):
AGTCCACTGGGACAGTAAACACAGGGT
Found at i:32688017 original size:81 final size:80
Alignment explanation
Indices: 32687789--32688034 Score: 223
Period size: 81 Copynumber: 3.0 Consensus size: 80
32687779 AAACCAACAG
* * * * *
32687789 AGTCTACTAGGACA-GTAAACACAGGGTAGTCCATTGGGATAGTAAACACGGGGTAATCCGTCAG
1 AGTCTACTAGGACATG-AAACACAGGGTAGTCCATCGGGACATTAAACAC-GGGTAGTCCGTCGG
*
32687853 GACAATAAACATGGGGT
64 GACAGTAAACATGGGGT
* * * * * * * *
32687870 AGTCTAC-CGAGATAAT-AAACACGGGGTAATCCACCGAGACATTAAAGACGAGGTAGTCTGTCG
1 AGTCTACTAG-GA-CATGAAACACAGGGTAGTCCATCGGGACATTAAACACG-GGTAGTCCGTCG
**
32687933 GGACAGTAAACACAGGGT
63 GGACAGTAAACATGGGGT
* *
32687951 AGTCCACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACAGGGTAGTCC-ACTGG
1 AGTCTACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACAC-GGGTAGTCCGTC-GG
32688015 GAC-GTTAAACATGGGGT
64 GACAG-TAAACATGGGGT
32688032 AGT
1 AGT
32688035 TTGCTGGGAC
Statistics
Matches: 128, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
80 6 0.05
81 119 0.93
82 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (80 bp):
AGTCTACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACGGGTAGTCCGTCGGGA
CAGTAAACATGGGGT
Found at i:32688025 original size:54 final size:54
Alignment explanation
Indices: 32687794--32688034 Score: 200
Period size: 54 Copynumber: 4.5 Consensus size: 54
32687784 AACAGAGTCT
* * * *
32687794 ACTAGGACAGTAAACACAGGGTAGTCCATTGGGATAGTAAACACGGGGTAATCC
1 ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * ** * * * * * *
32687848 -GTCAGGACAATAAACATGGGGTAGTCTACCGAGATAATAAACACGGGGTAATCC
1 ACT-AGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * ** *
32687902 AC-CGAGACATTAAAGAC-GAGGTAGTCTGTCGGGACAGTAAACACAGGGTAGTCC
1 ACTAG-GACATTAAACACAG-GGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * *
32687956 ACTAGGACATGAAACACAGGGTAGTCCATCGGGACATTAAACACAGGGTAGTCC
1 ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
* * **
32688010 ACTGGGACGTTAAACATGGGGTAGT
1 ACTAGGACATTAAACACAGGGTAGT
32688035 TTGCTGGGAC
Statistics
Matches: 149, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
53 3 0.02
54 144 0.97
55 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (54 bp):
ACTAGGACATTAAACACAGGGTAGTCCATCGGGACAGTAAACACAGGGTAATCC
Found at i:32694166 original size:46 final size:46
Alignment explanation
Indices: 32694116--32694211 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
32694106 AAGGACCTTA
32694116 AAATGTTCTAAAAATGTATGTATGAATCATATTGCACGAAACGGGT
1 AAATGTTCTAAAAATGTATGTATGAATCATATTGCACGAAACGGGT
*
32694162 AAATGTTCTAAAATTGTATGTATGAATCATATTGCACGAAACGGGT
1 AAATGTTCTAAAAATGTATGTATGAATCATATTGCACGAAACGGGT
32694208 AAAT
1 AAAT
32694212 TTAAACCTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (46 bp):
AAATGTTCTAAAAATGTATGTATGAATCATATTGCACGAAACGGGT
Found at i:32697551 original size:2 final size:2
Alignment explanation
Indices: 32697544--32697590 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
32697534 ATAGAAGCTA
32697544 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32697586 AG AG A
1 AG AG A
32697591 TTACCTATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32699854 original size:24 final size:24
Alignment explanation
Indices: 32699827--32699878 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32699817 TTAGTAAGTC
*
32699827 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
32699851 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
32699875 AAAT
1 AAAT
32699879 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:32701824 original size:24 final size:24
Alignment explanation
Indices: 32701797--32701848 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32701787 TTAGTAAGTC
*
32701797 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
32701821 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
32701845 AAAT
1 AAAT
32701849 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:32724447 original size:42 final size:42
Alignment explanation
Indices: 32724400--32724496 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
32724390 AGGTCGTGTG
32724400 GCCAGGCTGTGTAAC-ATTTGAACAAGCCACACACGGCCGTAT
1 GCCAGGCTGTGTAACTATTTG-ACAAGCCACACACGGCCGTAT
* *** * *
32724442 GCCAGGCTGTGTAACTCTTTGAGTTGCCACACACGGTCGTGT
1 GCCAGGCTGTGTAACTATTTGACAAGCCACACACGGCCGTAT
*
32724484 GCCAGGCCGTGTA
1 GCCAGGCTGTGTA
32724497 CTAAGTCGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.23
Consensus pattern (42 bp):
GCCAGGCTGTGTAACTATTTGACAAGCCACACACGGCCGTAT
Found at i:32724632 original size:116 final size:116
Alignment explanation
Indices: 32724428--32724685 Score: 372
Period size: 116 Copynumber: 2.2 Consensus size: 116
32724418 TGAACAAGCC
* * * * * * **
32724428 ACACACGGCCGTATGCCAGGCTGTGTAACTCTTTGAGTTGCCACACACGGTCGTGTGCCAGGCCG
1 ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCAA
* *
32724493 TGTACTAAGTCGTGAAACACACTGGCTTGAAATATCAAAATTTTGCAAATG
66 TGTACTAAGCCGTGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
*
32724544 ACACATGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCAA
1 ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCAA
* *
32724609 TGTACTAAGCCGTGAAACACACTGACTTGAAATATTAAAATTTTTCAAATG
66 TGTACTAAGCCGTGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
* * *
32724660 ACACACGACCGTGTGACAGCCTGTGT
1 ACACACGGCCGTGTGCCAGGCTGTGT
32724686 CCCAGGCCAT
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 125 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (116 bp):
ACACACGGCCGTGTGCCAGGCTGTGTAACTCTCTAAGTTGCCACAAACGGTCATGAGCCAGGCAA
TGTACTAAGCCGTGAAACACACTGACTTGAAATATCAAAATTTTGCAAATG
Found at i:32726648 original size:20 final size:20
Alignment explanation
Indices: 32726611--32726649 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32726601 TCATCTTTTC
*
32726611 TTACTTAATTTTCTTTTTAG
1 TTACTTAATTTTCATTTTAG
32726631 TTAC-TAATTTATCATTTTA
1 TTACTTAATTT-TCATTTTA
32726650 CCCTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
TTACTTAATTTTCATTTTAG
Found at i:32742207 original size:10 final size:10
Alignment explanation
Indices: 32742192--32742223 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
32742182 AGTGAAAAAG
32742192 AAAAGTGAGA
1 AAAAGTGAGA
32742202 AAAAGTGAGA
1 AAAAGTGAGA
32742212 AAAAGTGAGA
1 AAAAGTGAGA
32742222 AA
1 AA
32742224 TTCCAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09
Consensus pattern (10 bp):
AAAAGTGAGA
Found at i:32742376 original size:51 final size:51
Alignment explanation
Indices: 32742321--32742512 Score: 192
Period size: 51 Copynumber: 3.8 Consensus size: 51
32742311 ATGTGAAAGT
* * *
32742321 GAAAGTGATGGTCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * **
32742372 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCATACCG
1 GAAAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * * *
32742422 GATAGCT-TTGATCACGTGTGTAGTGCTATGTGCAGGCTACTACGTGTATCG
1 GAAAG-TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * *
32742473 GATAGTGATGGTCACATGTGTAGTAATATGTGTAGGCTAC
1 GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTAC
32742513 GATGAGAACC
Statistics
Matches: 111, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 3 0.03
50 38 0.34
51 69 0.62
52 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (51 bp):
GAAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:32742592 original size:46 final size:44
Alignment explanation
Indices: 32742520--32742618 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 44
32742510 TACGATGAGA
*
32742520 ACCGG-TATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
32742563 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCGGATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
*
32742609 ACCGTATATC
1 ACCGGATATC
32742619 TGTTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 27 0.57
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
ACCGGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:32746194 original size:32 final size:32
Alignment explanation
Indices: 32746153--32746219 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
32746143 TCCCATTCAA
* * *
32746153 TGAAACTAGAAGGGACAACAATATAGGGGGTT
1 TGAAACTAGAAAGGACAAAAATATAGAGGGTT
32746185 TGAAACTAGAAAGGACAAAAATATAGAGGGTT
1 TGAAACTAGAAAGGACAAAAATATAGAGGGTT
32746217 TGA
1 TGA
32746220 CCAAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.19
Consensus pattern (32 bp):
TGAAACTAGAAAGGACAAAAATATAGAGGGTT
Found at i:32751037 original size:26 final size:26
Alignment explanation
Indices: 32750994--32751069 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
32750984 TCTCATTCCT
* * *
32750994 ATTTTACCTCTAGAAAAATTTTGACA
1 ATTTTACCCCTGGTAAAATTTTGACA
* * *
32751020 ATTTTACCCCTGTTAAAATTTTGGCG
1 ATTTTACCCCTGGTAAAATTTTGACA
* *
32751046 ATTTTGCCCTTGGTAAAATTTTGA
1 ATTTTACCCCTGGTAAAATTTTGA
32751070 GAAAATACAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGACA
Found at i:32754953 original size:25 final size:25
Alignment explanation
Indices: 32754912--32754969 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
32754902 TAGGCCCATT
*
32754912 TCACAGCTCATGTGAGCATTTACAG
1 TCACAGCTCATGAGAGCATTTACAG
* *
32754937 TCACAGCTCGTGAGAGCATTTACTG
1 TCACAGCTCATGAGAGCATTTACAG
*
32754962 TCATAGCT
1 TCACAGCT
32754970 TGTGTGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
TCACAGCTCATGAGAGCATTTACAG
Found at i:32755056 original size:27 final size:27
Alignment explanation
Indices: 32755026--32755083 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
32755016 CATCGGGTGA
32755026 GAAATGAGTAAATGGAAAT-GGATATAT
1 GAAATGAGTAAATGGAAATAGG-TATAT
** *
32755053 GAAATGTTTATATGGAAATAGGTATAT
1 GAAATGAGTAAATGGAAATAGGTATAT
32755080 GAAA
1 GAAA
32755084 AGGTTAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (27 bp):
GAAATGAGTAAATGGAAATAGGTATAT
Found at i:32771080 original size:21 final size:20
Alignment explanation
Indices: 32771040--32771104 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
32771030 CAATTCAATT
32771040 TTTCAATCC-AAT-ATA-CA
1 TTTCAATCCAAATAATATCA
32771057 TTTCAATACCACAATAAT-TCA
1 TTTCAAT-CCA-AATAATATCA
*
32771078 TTT-AATTCAAATAATATCA
1 TTTCAATCCAAATAATATCA
32771097 TTTGCAAT
1 TTT-CAAT
32771105 TTCCGTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 7 0.18
18 8 0.21
19 8 0.21
20 6 0.15
21 10 0.26
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTCAATCCAAATAATATCA
Found at i:32772497 original size:45 final size:45
Alignment explanation
Indices: 32772442--32772533 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
32772432 CAGATACTCA
* * *
32772442 GTGGATTCAGCACATAGCAAATACCTTATTAATCAATGATGTCCG
1 GTGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGTCCG
* *
32772487 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCG
1 GTGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGTCCG
32772532 GT
1 GT
32772534 TCACATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGTCCG
Found at i:32772597 original size:51 final size:50
Alignment explanation
Indices: 32772539--32772725 Score: 173
Period size: 51 Copynumber: 3.7 Consensus size: 50
32772529 TCGGTTCACA
*
32772539 TAGTAGCCTACACATAGTACTACACATGTGACCATTACGATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATTAC-ATCCGATACACG
* * * * * *
32772590 TAGTAGCCTACACATAGTACTACATACGTGATCGA-AACTATGC-AGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATTAC-ATCCGA-TACACG
* * * * * * *
32772641 TACTAGCCTGCACATAGTACTACACATGCGACCTATTA-TTTCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACC-ATTACATCCGATACACG
*
32772691 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
32772726 CACTTTCACT
Statistics
Matches: 108, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 65 0.60
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATTACATCCGATACACG
Found at i:32772720 original size:101 final size:101
Alignment explanation
Indices: 32772537--32772721 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
32772527 GTTCGGTTCA
* *
32772537 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACGATCCGATACACGTAGTAGCCTACA
1 CATACTAGCCTACACATAGTACTACACATGCGACCATTAC-ATCCGATACACGTAGTAGCCTACA
*
32772602 CATAGTACTACATACGTGATCGAAACTATGCAGTACG
65 CATAGTACTACACACGTGATCGAAACTATGCAGTACG
* * * * *
32772639 CATACTAGCCTGCACATAGTACTACACATGCGACCTATTA-TTTCGGTACACGTAGTAGCCTGCA
1 CATACTAGCCTACACATAGTACTACACATGCGACC-ATTACATCCGATACACGTAGTAGCCTACA
32772703 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
32772722 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 38 0.51
102 32 0.43
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (101 bp):
CATACTAGCCTACACATAGTACTACACATGCGACCATTACATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATGCAGTACG
Found at i:32777842 original size:54 final size:54
Alignment explanation
Indices: 32777760--32777868 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
32777750 TCATGCAATT
*
32777760 TCTTCACGTAGTATCTTAATTCGTAGAAATCCCTAAATTATGCTAATATCTCTC
1 TCTTCACGTAGTACCTTAATTCGTAGAAATCCCTAAATTATGCTAATATCTCTC
32777814 TCTTCACGTAGTACCTTAATTCGTAGAAATCCCTAAATTATGCTAATATCTCTC
1 TCTTCACGTAGTACCTTAATTCGTAGAAATCCCTAAATTATGCTAATATCTCTC
32777868 T
1 T
32777869 TCAAGAATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (54 bp):
TCTTCACGTAGTACCTTAATTCGTAGAAATCCCTAAATTATGCTAATATCTCTC
Found at i:32780621 original size:10 final size:9
Alignment explanation
Indices: 32780559--32780599 Score: 57
Period size: 10 Copynumber: 4.4 Consensus size: 9
32780549 CCCTTTTATA
32780559 TTTTTTAAT
1 TTTTTTAAT
32780568 TTTTTTGAAT
1 TTTTTT-AAT
32780578 TTTTTTAAAT
1 TTTTTT-AAT
32780588 TTTTTT-AT
1 TTTTTTAAT
32780596 TTTT
1 TTTT
32780600 CCTTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 6 0.20
9 6 0.20
10 18 0.60
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:32784160 original size:45 final size:45
Alignment explanation
Indices: 32784111--32784277 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 45
32784101 TACCATAAAC
* * * *
32784111 GAGTAATACCATAGTTGAAAGACGTTATGGCATCACAATTTTATT
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTTATA
* * *
32784156 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTTATA
* * *
32784201 GAGTAAGACCATAGCTAAAAGATGATATGGCATCACGAA--TTAAA
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCAC-AATTTTATA
* * **
32784245 GAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 G-AGTAAGACCATAGCTAAAAGACGTTATGGCA
32784278 ACACGATGGA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.03
45 99 0.96
46 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
GAGTAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTTATA
Found at i:32784222 original size:90 final size:90
Alignment explanation
Indices: 32784110--32784284 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
32784100 ATACCATAAA
* * * * **
32784110 CGAGTAATACCATAGTTGAAAGACGTTATGGCATCAC-AATTTTATTG-AGTAAGACCATAGCTA
1 CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGAA--TTAAAGAAGTAAGACCATAGCTA
** *
32784173 AAAGACGTTATGGCATCACGATTCTAT
64 AAAGACACTATGGCAACACGATTCTAT
* * *
32784200 CGAGTAAGACCATAGCTAAAAGATGATATGGCATCACGAATTAAAGAAGTAAGACCATAGTTGAA
1 CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGAATTAAAGAAGTAAGACCATAGCTAAA
32784265 AGACACTATGGCAACACGAT
66 AGACACTATGGCAACACGAT
32784285 GGAAAATGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
89 4 0.06
90 65 0.92
91 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (90 bp):
CGAGTAAGACCATAGCTAAAAGACGATATGGCATCACGAATTAAAGAAGTAAGACCATAGCTAAA
AGACACTATGGCAACACGATTCTAT
Found at i:32784283 original size:45 final size:44
Alignment explanation
Indices: 32784069--32784283 Score: 168
Period size: 45 Copynumber: 4.8 Consensus size: 44
32784059 AGGAAACGAT
* *
32784069 TAAGACCATAGTTGAAAGACACTATGGCACCATAC-CA-TAAACGAG
1 TAAGACCATAGTTGAAAGACACTATGGCATC--ACGAATTAAA-GAG
* ** **
32784114 TAATACCATAGTTGAAAGACGTTATGGCATCAC-AATTTTATTGAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGAA--TTAAAGAG
* * ** * **
32784159 TAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTATCGAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGAAT-TAAAGAG
* * *
32784204 TAAGACCATAGCTAAAAGATGA-TATGGCATCACGAATTAAAGAAG
1 TAAGACCATAGTTGAAAGA-CACTATGGCATCACGAATTAAAG-AG
*
32784249 TAAGACCATAGTTGAAAGACACTATGGCAACACGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGA
32784284 TGGAAAATGA
Statistics
Matches: 141, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.02
44 5 0.04
45 130 0.92
46 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCACGAATTAAAGAG
Found at i:32788001 original size:23 final size:22
Alignment explanation
Indices: 32787953--32788001 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
32787943 GGTTGTTGCT
* * * *
32787953 TTTTTTTTTCTTTTTTTTCGTC
1 TTTTATTTTATTTTTTTTCCTA
32787975 TTTTATTTTATTTTCTTTTCCTA
1 TTTTATTTTATTTT-TTTTCCTA
32787998 TTTT
1 TTTT
32788002 CAAAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTATTTTATTTTTTTTCCTA
Found at i:32788689 original size:12 final size:12
Alignment explanation
Indices: 32788674--32788703 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32788664 TTAATAAATC
32788674 TATTATGATTAT
1 TATTATGATTAT
32788686 TATTATGATTAT
1 TATTATGATTAT
*
32788698 TTTTAT
1 TATTAT
32788704 TTATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TATTATGATTAT
Found at i:32789190 original size:4 final size:4
Alignment explanation
Indices: 32789181--32789213 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
32789171 TATTTTAGTG
32789181 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
32789214 GTTATGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:32789274 original size:15 final size:15
Alignment explanation
Indices: 32789256--32789286 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32789246 TTATTATTCT
*
32789256 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
32789271 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
32789286 T
1 T
32789287 CGTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:32789537 original size:109 final size:108
Alignment explanation
Indices: 32789341--32789662 Score: 432
Period size: 109 Copynumber: 3.0 Consensus size: 108
32789331 AACGAAAATT
* * * * *
32789341 TTTCAAAGTAAGGCAATATTTTGTGTTTGGAAATTCAAGAAAACGTTCCCTAATTTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
**
32789406 CGATTTTTCTCGTTCAACCAAATAGGTAAATATCCTTTTGAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTT-AAAA
* * *
32789450 TTTCAAAATAAGGCAATGTTTTGCGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGTTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
32789515 CGATTTTTCTCGTTCGATCAAATAGCAAAATATCCTTTTAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTTAAAA
** * * * *
32789558 TTTTGAAATAAGACAATATTTTGCATTTGGAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
32789623 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTTAAA
32789663 TTTTAATCCA
Statistics
Matches: 187, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
106 32 0.17
108 63 0.34
109 92 0.49
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (108 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCAAAATATCCTTTTAAAA
Found at i:32792887 original size:10 final size:9
Alignment explanation
Indices: 32792877--32792927 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
32792867 AAAAAATAAC
32792877 AAAACAAAA
1 AAAACAAAA
32792886 CAAAACAAAA
1 -AAAACAAAA
32792896 AACAA-AAAA
1 AA-AACAAAA
32792905 TAAAA-ATAAA
1 -AAAACA-AAA
32792915 AAAACAAAA
1 AAAACAAAA
32792924 AAAA
1 AAAA
32792928 TCTCTGCCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 20 0.54
10 17 0.46
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAACAAAA
Found at i:32792899 original size:7 final size:7
Alignment explanation
Indices: 32792869--32792925 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
32792859 GGGATGCAAA
32792869 AAAATAAC
1 AAAA-AAC
32792877 AAAACAA-
1 AAAA-AAC
32792884 AACAAAAC
1 AA-AAAAC
32792892 AAAAAAC
1 AAAAAAC
*
32792899 AAAAAAT
1 AAAAAAC
32792906 AAAAATA-
1 AAAAA-AC
32792913 AAAAAAC
1 AAAAAAC
32792920 AAAAAA
1 AAAAAA
32792926 AATCTCTGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
6 1 0.02
7 31 0.72
8 11 0.26
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (7 bp):
AAAAAAC
Found at i:32794613 original size:46 final size:46
Alignment explanation
Indices: 32794546--32794872 Score: 476
Period size: 46 Copynumber: 7.1 Consensus size: 46
32794536 CCCAGAGAAC
* *
32794546 AGATCAAAGATAGCAGATCTTGTTTTCCTATATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
32794592 AGATCGAAGATAGCAGATCTTGTCTTCC-AGTATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTA-TATTTGGCAGCGGAGT
* * * *
32794638 AGATCAAAGATAGCAGATCTTTTCTTCCTGTATTTGGCAGCAGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
* * *
32794684 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGA
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
* * * * *
32794730 AGATCGAAGATAGCAGATCTTATCTTCCTCTTTTTCGCAACGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
32794776 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
** * *
32794822 AGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGTCAGCGGAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
32794868 AGATC
1 AGATC
32794873 TGTATTTGGC
Statistics
Matches: 253, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 252 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (46 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGT
Found at i:32794794 original size:138 final size:138
Alignment explanation
Indices: 32794546--32796178 Score: 703
Period size: 138 Copynumber: 11.8 Consensus size: 138
32794536 CCCAGAGAAC
* *
32794546 AGATCAAAGATAGCAGATCTTGTTTTCCTATATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * * * * *
32794611 TTGTCTTCCAGTATTTGGCAGCGGAGTAGATCAAAGATAGCAGATCTTTTCTTCCTGTATTTGGC
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
32794676 AGCAGAGT
131 AGCAGAGT
* * *
32794684 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGAAGATCGAAGATAGCAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * *
32794749 TTATCTTCCTCTTTTTCGCAACGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGC
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
*
32794814 AGCGGAGT
131 AGCAGAGT
* *
32794822 AGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGTCAGCGGAGTAGATCTGTATTTGGCAGCA
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATC-G-A------AG-A
* * ** ** ** * ** * * * * * * *
32794887 GAGTAGATCGAAGATAACA-GATCTT-GTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAG
57 TAGCAGATCTTATCTTCCACTAT-TTCG-C-AAC-GGA-GTAG-ATC--A-AAGATAGCAGA---
* ** * *
32794950 AAGATCTTGTTTTCCGGTATTTGGCAACGGAGT
110 ----TCTTGTCTTCCTATATTTGGCAGCAGAGT
* ** ** *
32794983 AGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTCACAGTAGAGTAGATCGAAGATAACAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * ** * * * * * *
32795048 TTGTCTTTCTGTATTTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTCGT
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
*
32795113 AGCGGAGT
131 AGCAGAGT
* * **** * * * *
32795121 AGATCGAAGATAGCAGAT-TCTGTC-TCC-CTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAA
1 AGATCAAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG-A
** * * * ** ** ** * * * *
32795182 TCTTATCTTCCTAAGATAAT-G-GA-GAAGTAGATTTAAGCCATTAG-TCCTATCTCCCTA-A-G
64 TCTTATCTTCC-ACTAT-TTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATT
** * *
32795241 CAGTAGTAGAGT
127 TGGCAGCAGAGT
* ** * ** **** * * * * *
32795253 AGGTTGAAGATGGCAGAT-TCTGTC--CCCCTAAGAAGTAGTGGAGAAGATCGAACATGGC-GAA
1 AGATCAAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG-A
** * * ** ** ** * *
32795314 TCTTATCTTCCCAAGATAGT-GGATA---AGTAGATTTAAGCCATTAG-TCTTATCTCCCTA-A-
64 TCTTATCTT-CCACTAT-TTCGCA-ACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATAT
* * * **
32795372 GTAGTAGTGGAGT
126 TTGGCAGCAGAGT
* ** * * ** * * * * *
32795385 AGGTTGAAGATTGCAGAT-TCTGTC-CCCT-TAAGTAGTAGTGGAGCAGATCGAAGATGGC-GAA
1 AGATCAAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG-A
** * * * * ** ** * *
32795446 TCTTATCTTCCCAAGATAGT-G-GA-GAAGCAGATTTAAGCA-ATTAG-TCTTATCTCCCTA-A-
64 TCTTATCTT-CCACTAT-TTCGCAACGGAGTAGATCAAAG-ATAGCAGATCTTGTCTTCCTATAT
*** * *
32795504 GCAGTAGTAGAGT
126 TTGGCAGCAGAGT
* ** *
32795517 AGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* ** * * * * * * *
32795582 TTGTCTTCCTGTATTTCGTAGCGGAGTAGATCGACGATAGCGGAACTTGTCTTCCTATATTTTGC
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
*
32795647 AGCGGAGT
131 AGCAGAGT
* *
32795655 AGATCGAAGATAGCAAATCTCT-TCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGAT
1 AGATCAAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGAT
* ** * * *
32795719 CTTGTCTTCCTGTA-TTCGGCAGCGGAGTAGATCGAAGATA-CTAGATCTTGTCTTCCTGTATTT
65 CTTATCTTCCACTATTTC-GCAACGGAGTAGATCAAAGATAGC-AGATCTTGTCTTCCTATATTT
* *
32795782 GACAACAGAGT
128 GGCAGCAGAGT
* * * * * *
32795793 AGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTTGGTAGCGGAGTAGATCGAAGATGGCAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* ** * * * * * *
32795858 TTGTCTTCCTGTATTTGGCAGCGGAATAGATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGC
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
32795923 AGCAGAGT
131 AGCAGAGT
* * * * *
32795931 AGATCGAAGAAAGAAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* * ** * * * * *
32795996 TTGTCTTTCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGT
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
**
32796061 AGTGGAGT
131 AGCAGAGT
* * * *
32796069 AGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGTAGCGGAGTAGATCGAAGATAGGAGATC
1 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
* ** * * * *
32796134 TTGTCTTCCTGTATTTCGCAGCAGAGTAGATCGAAGCTAGCAGAT
66 TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGAT
32796179 TCTGTCTCCC
Statistics
Matches: 1230, Mismatches: 209, Indels: 112
0.79 0.13 0.07
Matches are distributed among these distances:
130 1 0.00
131 2 0.00
132 257 0.21
133 14 0.01
134 42 0.03
135 28 0.02
136 40 0.03
137 13 0.01
138 689 0.56
139 5 0.00
140 1 0.00
145 8 0.01
146 5 0.00
147 14 0.01
148 3 0.00
149 4 0.00
150 4 0.00
151 3 0.00
152 12 0.01
153 5 0.00
154 8 0.01
159 1 0.00
160 1 0.00
161 70 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (138 bp):
AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATC
TTATCTTCCACTATTTCGCAACGGAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTTGGC
AGCAGAGT
Found at i:32794879 original size:23 final size:23
Alignment explanation
Indices: 32794849--32794895 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
32794839 TCTTGTCTTC
* *
32794849 CTGTATTTGTCAGCGGAGTAGAT
1 CTGTATTTGGCAGCAGAGTAGAT
32794872 CTGTATTTGGCAGCAGAGTAGAT
1 CTGTATTTGGCAGCAGAGTAGAT
32794895 C
1 C
32794896 GAAGATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (23 bp):
CTGTATTTGGCAGCAGAGTAGAT
Found at i:32794898 original size:161 final size:161
Alignment explanation
Indices: 32794711--32795017 Score: 470
Period size: 161 Copynumber: 1.9 Consensus size: 161
32794701 TCTTGTCTTC
* * *
32794711 CTGTATTTGGCAACGGAGAAGATCGAAGATAGCAGATCTTATCTTCCTCTTTTTCGCAACGGAGT
1 CTGTATTTGGCAACAGAGAAGATCGAAGATAACAGATCTTATCTTCCTCTATTTCGCAACGGAGT
* * *
32794776 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATC
66 AGATCGAAGATAGAAGATCTTGTCTTCCGATATTTGGCAACGGAGTAGATAAAAGATAGCAGATC
32794841 TTGTCTTCCTGTATTTGTCAGCGGAGTAGAT
131 TTGTCTTCCTGTATTTGTCAGCGGAGTAGAT
* * * * * *
32794872 CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 CTGTATTTGGCAACAGAGAAGATCGAAGATAACAGATCTTATCTTCCTCTATTTCGCAACGGAGT
* * **
32794937 AGATCGAAGATAGAAGATCTTGTTTTCCGGTATTTGGCAACGGAGTAGATCGAAGATAGCAGATC
66 AGATCGAAGATAGAAGATCTTGTCTTCCGATATTTGGCAACGGAGTAGATAAAAGATAGCAGATC
32795002 TTGTCTTCCTGTATTT
131 TTGTCTTCCTGTATTT
32795018 CACAGTAGAG
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
161 130 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (161 bp):
CTGTATTTGGCAACAGAGAAGATCGAAGATAACAGATCTTATCTTCCTCTATTTCGCAACGGAGT
AGATCGAAGATAGAAGATCTTGTCTTCCGATATTTGGCAACGGAGTAGATAAAAGATAGCAGATC
TTGTCTTCCTGTATTTGTCAGCGGAGTAGAT
Found at i:32794917 original size:69 final size:69
Alignment explanation
Indices: 32794806--32794941 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
32794796 TGTCTTCCTA
* * *
32794806 TATTTGGCAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGTCAGCGGAGTAGA
1 TATTTGGCAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
32794871 TCTG
66 TCTG
**
32794875 TATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
1 TATTTGGCAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
32794940 TC
66 TC
32794942 GAAGATAGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (69 bp):
TATTTGGCAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
TCTG
Found at i:32794981 original size:115 final size:115
Alignment explanation
Indices: 32794772--32794987 Score: 351
Period size: 115 Copynumber: 1.9 Consensus size: 115
32794762 TTTCGCAACG
* *
32794772 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCA
1 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
* * *
32794837 GATCTTGTCTTCCTGTATTTGTCAGCGGAGTAGATCTGTATTTGGCAGCA
66 GATCTTGTCTTCCGGTATTTGGCAACGGAGTAGATCTGTATTTGGCAGCA
* **
32794887 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGAA
1 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
*
32794952 GATCTTGTTTTCCGGTATTTGGCAACGGAGTAGATC
66 GATCTTGTCTTCCGGTATTTGGCAACGGAGTAGATC
32794988 GAAGATAGCA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (115 bp):
GAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGAA
GATCTTGTCTTCCGGTATTTGGCAACGGAGTAGATCTGTATTTGGCAGCA
Found at i:32795031 original size:207 final size:207
Alignment explanation
Indices: 32794665--32795079 Score: 641
Period size: 207 Copynumber: 2.0 Consensus size: 207
32794655 TCTTTTCTTC
*
32794665 CTGTATTTGGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGA
1 CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAACGGAGA
* * *
32794730 AGATCGAAGATAGCAGATCTTATCTTCCTCTTTTTCGCAACGGAGTAGATCGAAGATAGCAGATC
66 AGATCGAAGATAGAAGATCTTATCTTCCGCTATTTCGCAACGGAGTAGATCGAAGATAGCAGATC
** * * *
32794795 TTGTCTTCCTATATTTGGCAGCGGAGTAGATAAAAGATAGCAGATCTTGTCTTCCTGTATTTGTC
131 TTGTCTTCCTATATTTCACAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGC
*
32794860 AGCGGAGTAGAT
196 AGCGAAGTAGAT
* *
32794872 CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGT
1 CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAACGGAGA
* * * *
32794937 AGATCGAAGATAGAAGATCTTGTTTTCCGGTATTTGGCAACGGAGTAGATCGAAGATAGCAGATC
66 AGATCGAAGATAGAAGATCTTATCTTCCGCTATTTCGCAACGGAGTAGATCGAAGATAGCAGATC
* * ** *
32795002 TTGTCTTCCTGTATTTCACAGTAGAGTAGATCGAAGATAACAGATCTTGTCTTTCTGTATTTGGC
131 TTGTCTTCCTATATTTCACAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGC
32795067 AGCGAAGTAGAT
196 AGCGAAGTAGAT
32795079 C
1 C
32795080 AAAGATAGCA
Statistics
Matches: 187, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
207 187 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (207 bp):
CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAACGGAGA
AGATCGAAGATAGAAGATCTTATCTTCCGCTATTTCGCAACGGAGTAGATCGAAGATAGCAGATC
TTGTCTTCCTATATTTCACAGCAGAGTAGATAAAAGATAACAGATCTTGTCTTCCTGTATTTGGC
AGCGAAGTAGAT
Found at i:32795145 original size:46 final size:46
Alignment explanation
Indices: 32794872--32795138 Score: 390
Period size: 46 Copynumber: 5.8 Consensus size: 46
32794862 CGGAGTAGAT
* *
32794872 CTGTATTTGGCAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
* *
32794918 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGAAGATCTTGTTTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
* *
32794964 CGGTATTTGGCAACGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
** ** * *
32795010 CTGTATTTCACAGTAGAGTAGATCGAAGATAACAGATCTTGTCTTT
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
* *
32795056 CTGTATTTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
* *
32795102 CTGTATTTCGTAGCGGAGTAGATCGAAGATAGCAGAT
1 CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGAT
32795139 TCTGTCTCCC
Statistics
Matches: 193, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 193 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (46 bp):
CTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTC
Found at i:32795195 original size:44 final size:43
Alignment explanation
Indices: 32795111--32795469 Score: 154
Period size: 44 Copynumber: 8.2 Consensus size: 43
32795101 CCTGTATTTC
* * * *
32795111 GTAGCGGAGTAGATCGAAGATAGCAGATTC-TGTCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAGATGGC-GAATCTTATCTCCCTAAG-A
* *
32795155 GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTAAGA
1 GTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTCCCTAAGA
* ** * * *
32795198 -TAATGGAGAAGTAGATTTAAGCCAT---TAGTCCTATCTCCCTAAGCA
1 GTAGT-G-G-AGTAGATCGAAG--ATGGCGAATCTTATCTCCCTAAG-A
* * * * * *
32795243 GTAGTAGAGTAGGTTGAAGATGGCAGATTC-TGTCCCCCTAAGAA
1 GTAGTGGAGTAGATCGAAGATGGC-GAATCTTATCTCCCTAAG-A
* *
32795287 GTAGTGGAGAAGATCGAACATGGCGAATCTTATCTTCCC-AAGA
1 GTAGTGGAGTAGATCGAAGATGGCGAATCTTATC-TCCCTAAGA
** * *
32795330 -TAGTGGATAAGTAGATTTAAGCCAT---TAGTCTTATCTCCCTAAGTA
1 GTAGTGG---AGTAGATCGAAG--ATGGCGAATCTTATCTCCCTAAG-A
* * * * *
32795375 GTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTC-CCCTTAAGTA
1 GTAGTGGAGTAGATCGAAGATGGC-GAATCTTATCTCCC-TAAG-A
*
32795419 GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCC-AAGA
1 GTAGTGGAGTAGATCGAAGATGGCGAATCTTATC-TCCCTAAGA
32795462 -TAGTGGAG
1 GTAGTGGAG
32795470 AAGCAGATTT
Statistics
Matches: 237, Mismatches: 48, Indels: 62
0.68 0.14 0.18
Matches are distributed among these distances:
41 4 0.02
42 17 0.07
43 43 0.18
44 129 0.54
45 28 0.12
46 12 0.05
47 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
GTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTCCCTAAGA
Found at i:32795276 original size:132 final size:131
Alignment explanation
Indices: 32795117--32795534 Score: 665
Period size: 132 Copynumber: 3.2 Consensus size: 131
32795107 TTTCGTAGCG
* * *
32795117 GAGTAGATCGAAGATAGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAA
1 GAGTAGGTTGAAGATAGCAGATTCTGTC-CCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAA
* * *
32795182 TCTTATCTTCCTAAGATAATGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAG
65 TCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAG
32795247 TA
130 TA
* * *
32795249 GAGTAGGTTGAAGATGGCAGATTCTGTCCCCCTAAGAAGTAGTGGAGAAGATCGAACATGGCGAA
1 GAGTAGGTTGAAGATAGCAGATTCTGT-CCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAA
* *
32795314 TCTTATCTTCCCAAGATAGTGGATAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGTAGTAG
65 TCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAG
*
32795379 TG
130 TA
* *
32795381 GAGTAGGTTGAAGATTGCAGATTCTGTCCCCTTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAA
1 GAGTAGGTTGAAGATAGCAGATTCTGTCCCC-TAAGAAGTAGTGGAGCAGATCGAAGATGGCGAA
* *
32795446 TCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCAATTAGTCTTATCTCCCTAAGCAGTAG
65 TCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAG
32795511 TA
130 TA
32795513 GAGTAGGTTGAAGATAGCAGAT
1 GAGTAGGTTGAAGATAGCAGAT
32795535 CTTGTCTTCC
Statistics
Matches: 262, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 4 0.02
132 257 0.98
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (131 bp):
GAGTAGGTTGAAGATAGCAGATTCTGTCCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAAT
CTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGTCTTATCTCCCTAAGCAGTAGT
A
Found at i:32796185 original size:46 final size:46
Alignment explanation
Indices: 32795513--32796178 Score: 976
Period size: 46 Copynumber: 14.5 Consensus size: 46
32795503 AGCAGTAGTA
* *
32795513 GAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
32795559 GAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTCGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * * * *
32795605 GAGTAGATCGACGATAGCGGAACTTGTCTTCCTATATTTTGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
32795651 GAGTAGATCGAAGATAGCAAATCTCT-TCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCT-TGTCTTCCTGTATTTGGCAGCG
*
32795697 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTCGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
32795743 GAGTAGATCGAAGATA-CTAGATCTTGTCTTCCTGTATTTGACAACA
1 GAGTAGATCGAAGATAGC-AGATCTTGTCTTCCTGTATTTGGCAGCG
* * * *
32795789 GAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTTGGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
32795835 GAGTAGATCGAAGATGGCAGATCTTGTCTTCCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
32795881 GAATAGATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGCA
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
32795927 GAGTAGATCGAAGAAAGAAGATCTTGTCTTCTTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* *
32795973 GAGTAGATCGAAGATAGTAGATCTTGTCTTTCTGTATTTGGCAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* *
32796019 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGTG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* *
32796065 GAGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGTAGCG
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
* * *
32796111 GAGTAGATCGAAGATAGGAGATCTTGTCTTCCTGTATTTCGCAGCA
1 GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
*
32796157 GAGTAGATCGAAGCTAGCAGAT
1 GAGTAGATCGAAGATAGCAGAT
32796179 TCTGTCTCCC
Statistics
Matches: 554, Mismatches: 62, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
45 2 0.00
46 551 0.99
47 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (46 bp):
GAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
Found at i:32796834 original size:132 final size:132
Alignment explanation
Indices: 32796173--32796872 Score: 920
Period size: 132 Copynumber: 5.3 Consensus size: 132
32796163 ATCGAAGCTA
* * * **
32796173 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGGAGATCGAAGATGGAAAATCTTATCTTCCCAAGA
1 GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
* * * * *
32796238 TAATGGAGAAGAAGATTTAAGCCATTAGTCCTATCTCCCTAAGAAGTAGTGGAGTAGGTTGATGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
*
32796303 TG
131 TT
* * * *
32796305 GCAGATTCTGCACCCCTAAGCAGTAGTGGAGAAGATCAAAGATGGCGAATCTTATCTTCCCAAGA
1 GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
* * * * *
32796370 TAATGGAGAAGCAGATTTAAGCCATCAGTCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAA-
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAAG
32796434 ATT
130 ATT
* * ** * *
32796437 ACAGATTCTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAAA
1 GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
* * *
32796502 TAGTGGAGAAGCAGATTTAAGTCATTAGTCCGATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
32796567 TT
131 TT
* * * * *
32796569 GCAGATTCTGTCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATTGTGAATCTTATCTTCCGAGGA
1 GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
* * * *
32796634 TAGTGAAGAAGAAGATTTAATCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
32796699 TT
131 TT
* * * *
32796701 GTAGATTCTGTATCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCTCAAGA
1 GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
*
32796766 TAGTGGAGAAGCTGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
32796831 TT
131 TT
* * * * *
32796833 G-TGAATC-CTATCTCTCTAAGAAGTAGTAGAGCAGATCAAA
1 GCAGATTCTGTATC-C-CTAAGCAGTAGTGGAGCAGATCAAA
32796873 AACAACGAAT
Statistics
Matches: 497, Mismatches: 67, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
130 4 0.01
131 7 0.01
132 485 0.98
133 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
GCAGATTCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGA
TAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA
TT
Found at i:32796842 original size:44 final size:43
Alignment explanation
Indices: 32796534--32796859 Score: 139
Period size: 44 Copynumber: 7.4 Consensus size: 43
32796524 CATTAGTCCG
* * *
32796534 ATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
1 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTA-ATCCT
* * * * * *
32796578 GTCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATTGTGAATCTT
1 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT-AATCCT
* * * * * ** *
32796622 ATCTTCC-GAGGA-TAGTGAAGAAGAAGATTTAATCCA-T-TAGTCCT
1 ATCTCCCTAAGCAGTAGTG--G-AGTAG-GTTAA-AGATTGTAATCCT
* *
32796666 ATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGTAGATTCT
1 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTA-ATCCT
* * * * * * ** *
32796710 GTATCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAATCTT
1 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT-AATCCT
* * * *
32796754 ATCT-TCTCAAG-A-TAGTGGAGAAGCTGATTTAAGCCA-T-TAGTCCT
1 ATCTCCCT-AAGCAGTAGTGGAGTAG--G-TTAAAG--ATTGTAATCCT
32796798 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTGAATCCT
1 ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGT-AATCCT
* *
32796842 ATCTCTCTAAGAAGTAGT
1 ATCTCCCTAAGCAGTAGT
32796860 AGAGCAGATC
Statistics
Matches: 202, Mismatches: 56, Indels: 48
0.66 0.18 0.16
Matches are distributed among these distances:
41 2 0.01
42 20 0.10
43 18 0.09
44 123 0.61
45 18 0.09
46 19 0.09
47 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
ATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTAATCCT
Found at i:32799119 original size:109 final size:108
Alignment explanation
Indices: 32798923--32799244 Score: 461
Period size: 109 Copynumber: 3.0 Consensus size: 108
32798913 AAGGAAAATT
* *
32798923 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAA-GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
32798988 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
65 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* *
32799032 TTTCAAAATAATGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAA-GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
32799097 CGATTTTTCTCGTTCGATCAAATAGCCAAATATCCTTTT-AAAA
65 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
* * * * *
32799140 TTTCGAAATAAGACAATATTTTACGTTTAGAAATTCGAGGAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAG-CAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
32799205 CGA--TTTCTTGTTTAACCAAATAGCCAAATATCCTCTTAAA
65 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAA
32799245 TTTTAATCCA
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
106 29 0.15
107 3 0.02
108 63 0.33
109 96 0.50
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (108 bp):
TTTCAAAATAAGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:32800927 original size:20 final size:20
Alignment explanation
Indices: 32800902--32800952 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
32800892 TTATGCTAAG
32800902 TAAATGGAATGAAAAGTAAA
1 TAAATGGAATGAAAAGTAAA
* *
32800922 TAAAT-GAAGTGGAAAGTAAG
1 TAAATGGAA-TGAAAAGTAAA
32800942 TAAATGGAATG
1 TAAATGGAATG
32800953 GTTCATCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (20 bp):
TAAATGGAATGAAAAGTAAA
Found at i:32804957 original size:6 final size:6
Alignment explanation
Indices: 32804946--32804982 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
32804936 GTGAAATTTA
32804946 TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT T
1 TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT TTCTAT T
32804983 AAGAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTAT
Found at i:32805239 original size:58 final size:58
Alignment explanation
Indices: 32805176--32805293 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
32805166 AAATATCATC
32805176 ATCATAGTCAATATCCAATTGTATTTTTTAATCAAAATAAGAATTGATTTCATTGCAG
1 ATCATAGTCAATATCCAATTGTATTTTTTAATCAAAATAAGAATTGATTTCATTGCAG
32805234 ATCATAGTCAATATCCAATTGTATTTTTTAATCAAAATAAGAATTGATTTCATTGCAG
1 ATCATAGTCAATATCCAATTGTATTTTTTAATCAAAATAAGAATTGATTTCATTGCAG
32805292 AT
1 AT
32805294 AACAGGCAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (58 bp):
ATCATAGTCAATATCCAATTGTATTTTTTAATCAAAATAAGAATTGATTTCATTGCAG
Found at i:32806233 original size:21 final size:20
Alignment explanation
Indices: 32806202--32806250 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
32806192 TAAATTTTGT
*
32806202 TTAAAAATATATAAAAAT-A
1 TTAAAAATATAAAAAAATCA
*
32806221 TTAAAAAGTTATAAAAAAATCT
1 TTAAAAA--TATAAAAAAATCA
32806243 TTAAAAAT
1 TTAAAAAT
32806251 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 7 0.28
20 1 0.04
21 10 0.40
22 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TTAAAAATATAAAAAAATCA
Found at i:32806924 original size:175 final size:175
Alignment explanation
Indices: 32806694--32807041 Score: 660
Period size: 175 Copynumber: 2.0 Consensus size: 175
32806684 TATGGGGACC
* *
32806694 AATTGTGTAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGTATACC
1 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
*
32806759 GTTATACCGTTAATGACAATTAATAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
66 GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
32806824 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTAA
131 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTAA
32806869 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
1 AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
*
32806934 GTTATACCGTTAATGATAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
66 GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
32806999 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCT
131 CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCT
32807042 GAAACAAACA
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 169 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.32
Consensus pattern (175 bp):
AATTGTATAATTGAACCTAAAATTCTTATTTGAAATGATGATTTAACATGCCACGTCAGCATACC
GTTATACCGTTAATGACAATTAACAGCTCAGTGATTAAAATGTTACAACAAGTTAACATAAGTGT
CTAAAACGTAACATTTCAAACATAAGTGATTAAAATGTAACCTAA
Found at i:32807138 original size:32 final size:34
Alignment explanation
Indices: 32807102--32807178 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
32807092 TATAATTTAG
*
32807102 TAAAAATTATTTAGAAAATT-TTAATA-TTTA-TT
1 TAAAAATTATTTA-AAAATTGTTAAAATTTTATTT
32807134 TAAAAA-TATATTAAAAATTGTTAAAATTTTATTT
1 TAAAAATTAT-TTAAAAATTGTTAAAATTTTATTT
*
32807168 TTAAAATTATT
1 TAAAAATTATT
32807179 ATAATTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 9 0.24
32 14 0.37
33 4 0.11
34 8 0.21
35 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TAAAAATTATTTAAAAATTGTTAAAATTTTATTT
Done.