Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 109 of 145
Found at i:36624813 original size:41 final size:41
Alignment explanation
Indices: 36624751--36624891 Score: 210
Period size: 41 Copynumber: 3.4 Consensus size: 41
36624741 TTTTTTGCAA
* *
36624751 CGCTTTTCCAAAAACGACGCTAAAGCCCCGAGCATTAGTGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
* * *
36624792 CGCTTTTCCAAAAACGCCGCTAAATCCCCGAGCATTAACAG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
*
36624833 CGCTTTTCCAAAAATGCCGCTAAAGCCCCGAGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
*
36624874 CGCTTTCCCAATAAACGC
1 CGCTTTTCCAA-AAACGC
36624892 TCCTAATGCT
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 83 0.94
42 5 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (41 bp):
CGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
Found at i:36629489 original size:3 final size:3
Alignment explanation
Indices: 36629483--36629524 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
36629473 CTACAACAAC
36629483 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36629525 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:36630095 original size:147 final size:149
Alignment explanation
Indices: 36629861--36630280 Score: 602
Period size: 147 Copynumber: 2.8 Consensus size: 149
36629851 AAAGTTTTGA
*
36629861 TTTTTTGTACAAAAGAGAAAGTTTAGATTTT-AATAAATAAAAATTTGTATTTTTTAGTTATTTT
1 TTTTTT-TA-AAAAGAGAAAGTTTAGATTTTGAA-AAATAAAAATATGT-TTTTTTAGTTATTTT
* * *
36629925 AAAGGAAAGTTTAAATTTTTAAAACAAAATTTCGATTTTTTTTCAACTATTTCAAAGTAAAA-TC
62 AAAGGAAAGTTTAAATTTTTAAAATAAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAGT-
36629989 TTTAATCTTTAAG-AAAA-A-GTG
126 TTTAATCTTTAAGAAAAATATGTG
*
36630010 TTTTTTTAAAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAA
1 TTTTTTTAAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAA
* *
36630075 GGAAAGTTTAAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGTTTTA
65 GGAAAGTTTAAATTTTTAAAATAAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAGTTTTA
*
36630140 ATCTTTAAGAAAAATATTGTT
130 ATCTTTAAGAAAAATA-TGTG
* * *
36630161 TTTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAGA
1 TTTTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTT-AGTTATTTTAAA
* *
36630226 GGAAAGTTTAAATTTTTAAAATAAAGTTTTGA-TTTTTTT-AACTATTTCGAAATAA
65 GGAAAGTTTAAATTTTTAAAATAAAATTTTGATTTTTTTTCAACTATTTCAAAATAA
36630281 GGTTTTGATT
Statistics
Matches: 247, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
147 89 0.36
148 36 0.15
149 23 0.09
150 46 0.19
151 53 0.21
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (149 bp):
TTTTTTTAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAG
GAAAGTTTAAATTTTTAAAATAAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAGTTTTAA
TCTTTAAGAAAAATATGTG
Found at i:36630266 original size:30 final size:31
Alignment explanation
Indices: 36630232--36630294 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
36630222 TAGAGGAAAG
*
36630232 TTTAAAT-TTTTAAAATAAAGTTTTGATTTT
1 TTTAAATATTTCAAAATAAAGTTTTGATTTT
* * *
36630262 TTTAACTATTTCGAAATAAGGTTTTGATTTT
1 TTTAAATATTTCAAAATAAAGTTTTGATTTT
36630293 TT
1 TT
36630295 AGAAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (31 bp):
TTTAAATATTTCAAAATAAAGTTTTGATTTT
Found at i:36630353 original size:151 final size:150
Alignment explanation
Indices: 36629871--36630345 Score: 555
Period size: 147 Copynumber: 3.2 Consensus size: 150
36629861 TTTTTTGTAC
* * *
36629871 AAAAGAGAAAGTTTAGATTTT-AATAAATAAAAATTTGTATTTTTTAGTTATTTTAAAGGAAAGT
1 AAAAGAGAAACTTTAGATTTTGAA-AAATAAAAATATGT-TTTTTTAGTCATTTTAAAGGAAAGT
* * * * *
36629935 TTAAATTTTTAAAACAAAATTTCGATTTTTTTTCAACTATTTCAAAGTAAAA-TCTTTAATCTTT
64 TTAAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGT-TTTAATCTTT
* * *
36629999 AAGAAAAA-GT--GTTTTTTT-A
128 AAGAAAAATATAATTTTTTTTCT
* *
36630018 AAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAGGAAAGTT
1 AAAA-GAGAAACTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTT
36630083 TAAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGTTTTAATCTTTAA
65 TAAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGTTTTAATCTTTAA
** *
36630148 GAAAAATATTGTTTTTTTTTT
130 GAAAAATATAATTTTTTTTCT
* *
36630169 AAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAAGTCATTTTAGAGGAAAGTT
1 AAAAGAGAAACTTTAGATTTTGAAAAATAAAAATATGTTTTTTT-AGTCATTTTAAAGGAAAGTT
* * * * * * * *
36630234 TAAATTTTTAAAATAAAGTTTTGA-TTTTTTT-AACTATTTCGAAAT-AAGGTTTTGATTTTTTA
65 TAAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGTTTTAATCTTTAA
36630296 G-AAAAT-TAATTTTTTTTCT
130 GAAAAATATAATTTTTTTTCT
*
36630315 -AAATA-AAACTTT-GATTTTGCAAAAATAAAAA
1 AAAAGAGAAACTTTAGATTTTG-AAAAATAAAAA
36630346 ATAAAAATTC
Statistics
Matches: 293, Mismatches: 26, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
143 7 0.02
144 17 0.06
145 4 0.01
146 10 0.03
147 99 0.34
148 45 0.15
149 14 0.05
150 53 0.18
151 44 0.15
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (150 bp):
AAAAGAGAAACTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTT
AAAATTTTAAAATAAAATTTTGATTTTTTTTCAACTACTTCAAAATAAAAGTTTTAATCTTTAAG
AAAAATATAATTTTTTTTCT
Found at i:36630840 original size:25 final size:24
Alignment explanation
Indices: 36630812--36630858 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
36630802 TCACTTGCAT
36630812 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
36630837 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
36630859 TTCTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:36631425 original size:3 final size:3
Alignment explanation
Indices: 36631417--36631454 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
36631407 NNATCTTTTA
36631417 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36631455 AAGATCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36633670 original size:48 final size:48
Alignment explanation
Indices: 36633599--36633693 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
36633589 TTCTTTGCTC
* **
36633599 AAAAACGCCTAAGTCAGCCTAACT-TGCAGTAATAAAGGATTCAACAGT
1 AAAAAAGCCTAAGTCAGCCTAACTCT-CAACAATAAAGGATTCAACAGT
*
36633647 AAAAAAGCCTAAGTCAGCTTAACTCTCAACAATAAAGGATTCAACAG
1 AAAAAAGCCTAAGTCAGCCTAACTCTCAACAATAAAGGATTCAACAG
36633694 AATTCCCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (48 bp):
AAAAAAGCCTAAGTCAGCCTAACTCTCAACAATAAAGGATTCAACAGT
Found at i:36634666 original size:30 final size:29
Alignment explanation
Indices: 36634632--36634702 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 29
36634622 ACACTTTTTC
*
36634632 TTAATTTGGTACCTAAGTTTTGTTTTAGGT
1 TTAATTTGGTACCTAAGCTTT-TTTTAGGT
36634662 TTAATTTGGTACCTAAGCTTTTTTTAGGT
1 TTAATTTGGTACCTAAGCTTTTTTTAGGT
*
36634691 ATAATTTGGTAC
1 TTAATTTGGTAC
36634703 TTAAATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (29 bp):
TTAATTTGGTACCTAAGCTTTTTTTAGGT
Found at i:36634696 original size:29 final size:30
Alignment explanation
Indices: 36634633--36634702 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 30
36634623 CACTTTTTCT
* *
36634633 TAATTTGGTACCTAAGTTTTGTTTTAGGTT
1 TAATTTGGTACCTAAGCTTTGTTTTAGGTA
36634663 TAATTTGGTACCTAAGCTTT-TTTTAGGTA
1 TAATTTGGTACCTAAGCTTTGTTTTAGGTA
36634692 TAATTTGGTAC
1 TAATTTGGTAC
36634703 TTAAATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.50
Consensus pattern (30 bp):
TAATTTGGTACCTAAGCTTTGTTTTAGGTA
Found at i:36638189 original size:21 final size:21
Alignment explanation
Indices: 36638136--36638231 Score: 102
Period size: 21 Copynumber: 4.6 Consensus size: 21
36638126 AAAGCTCAAA
* * *
36638136 AGCTAAGCAGAAGCTCATAAA
1 AGCTAAACAGAAGCTCGTAAG
* * *
36638157 AGTTTAATAGAAGCTCGTAAG
1 AGCTAAACAGAAGCTCGTAAG
* *
36638178 AGCTGAACAGAAACTCGTAAG
1 AGCTAAACAGAAGCTCGTAAG
* *
36638199 AGTTAAACAAAAGCTCGTAAG
1 AGCTAAACAGAAGCTCGTAAG
36638220 AGCTAAACAGAA
1 AGCTAAACAGAA
36638232 AGTAAAACAT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCGTAAG
Found at i:36642941 original size:18 final size:18
Alignment explanation
Indices: 36642918--36642954 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36642908 ACGTATGTAG
36642918 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
36642936 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
36642954 A
1 A
36642955 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:36644577 original size:100 final size:99
Alignment explanation
Indices: 36644459--36645148 Score: 691
Period size: 100 Copynumber: 6.9 Consensus size: 99
36644449 CTTGACTGTG
* ** * * * * *
36644459 ATGTCGGGGAAGTGAGATTTACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTTGGGAAATAA
1 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGC-TGGGAAGTAA
*
36644524 GATTCG-TCGTTGT-GACTTTAATCCTTTTAACTGCA
65 GATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCA
*** *
36644559 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CACTGCATTACCGAGGAAGTA
1 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCCACTGCACCGCTG-GGAAGTA
* *
36644623 GGATTCG-TCGTTGT-GACTTTAATCTTTTTAGCTGCA
64 AGATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCA
* * * * * *
36644659 ATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTGGCTGCGAGAGTG
1 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAC-CGCTGGGA-AGTA
*
36644724 AGATTCG-TCGTTGT-GACTTTAATCTTTTTAGCTGCA
64 AGATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCA
* ** *
36644760 ATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CACTGCATTGCCGGGGAAGTA
1 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTCCACTGCACCG-CTGGGAAGTA
*
36644824 AGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCA
64 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* *
36644860 ATGTCAGGG-AGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCTACTGCACCGCCT-GGAAGGT
1 ATGTC-GGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG-CTGGGAA-GT
* * * *
36644923 AAGATTCGCTGCTGTAGCTTTAATATTTTAAATTGCA
63 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * *
36644960 ATGTCAGGGAGA-CAAGATTCACCGTTGTGGCTTTAATTTGTTCCACTGCACCGCTTGGAAGGTA
1 ATGTC-GGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCTGGGAA-GTA
*
36645024 AGATTCGCTGTTGTAGCTTTAATCTTTTAAACTGCA
64 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * * * * * *
36645060 ATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATTTGCTCTACTGCACCGCCAGGGAAGTAG
1 ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG-CTGGGAAGTAA
* * * *
36645125 GATTCACCGCTGTGGCTTTAATCT
65 GATTCGCTGTTGTAGCTTTAATCT
36645149 GCTTCCTTAC
Statistics
Matches: 511, Mismatches: 63, Indels: 32
0.84 0.10 0.05
Matches are distributed among these distances:
99 14 0.03
100 395 0.77
101 101 0.20
102 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (99 bp):
ATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCTGGGAAGTAAG
ATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
Found at i:36644785 original size:201 final size:199
Alignment explanation
Indices: 36644459--36645114 Score: 776
Period size: 200 Copynumber: 3.3 Consensus size: 199
36644449 CTTGACTGTG
** * * * * * * * *
36644459 ATGTCGGGGAAGTGAGATTTACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTTGGGAA-ATA
1 ATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACCGCCT-GGAAGGTA
*
36644523 AGATTCGTCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTG
64 AGATTCGTCGTTGTGACTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTG
*
36644588 GCTTTAATCTGCTTCACTGCATTACCGAGGAAGTAGGATTCG-TCGTTGT-GACTTTAATCTTTT
129 GCTTTAATCTGCTTCACTGCATTACCGAGGAAGTAAGATTCGCT-GTTGTAG-CTTTAATCTTTT
*
36644651 TAGCTGCA
192 TAACTGCA
* * *
36644659 ATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTGGCTGCG-AGAGT
1 ATGTCGG-GAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACCGCCTG-GAAG-GT
* * *
36644723 GAGATTCGTCGTTGTGACTTTAATCTTTTTAGCTGCAATGTCGGAAAAGCAAGATTCACCGTTGT
63 AAGATTCGTCGTTGTGACTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGT
* * *
36644788 GGCTTTAATCTGCTTCACTGCATTGCCGGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTT
128 GGCTTTAATCTGCTTCACTGCATTACCGAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
36644853 AACTGCA
193 AACTGCA
* *
36644860 ATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCTACTGCACCGCCTGGAAGGTAA
1 ATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACCGCCTGGAAGGTAA
* * * * *
36644925 GATTCG-CTGCTGT-AGCTTTAATATTTTAAATTGCAATGTCAGGGAGA-CAAGATTCACCGTTG
65 GATTCGTC-GTTGTGA-CTTTAATCTTTTTAACTGCAATGTC-GGGAAAGCAAGATTCACCGTTG
* *
36644987 TGGCTTTAATTTG-TTCCACTGC---ACCGCTTGGAAGGTAAGATTCGCTGTTGTAGCTTTAATC
127 TGGCTTTAATCTGCTT-CACTGCATTACCG--AGGAA-GTAAGATTCGCTGTTGTAGCTTTAATC
*
36645048 TTTTAAACTGCA
188 TTTTTAACTGCA
* * *
36645060 ATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATTTGCTCTACTGCACCGCC
1 ATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACCGCC
36645115 AGGGAAGTAG
Statistics
Matches: 395, Mismatches: 46, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
197 3 0.01
199 12 0.03
200 196 0.50
201 180 0.46
202 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (199 bp):
ATGTCGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACCGCCTGGAAGGTAAG
ATTCGTCGTTGTGACTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGC
TTTAATCTGCTTCACTGCATTACCGAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAAC
TGCA
Found at i:36645108 original size:50 final size:50
Alignment explanation
Indices: 36644553--36645151 Score: 288
Period size: 50 Copynumber: 12.0 Consensus size: 50
36644543 AATCCTTTTA
* *
36644553 ACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCT-T
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
* ** * * * ** * *
36644602 CACTGCATTACCGAGGAAGTAGGATTCGTCGTTGTGACTTTAATCTT--TTT
1 -ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAAT-TTGCTCT
** *
36644652 AGCTGCAATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCT
1 A-CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
* * * * ** ** * *
36644703 ACTGCACTGGCTGCGAGAGTGAGATTCGTCGTTGTGACTTTAATCTT--TTT
1 ACTGCAATGTCGGGGA-AGCAAGATTCACCGTTGTGGCTTTAAT-TTGCTCT
** *
36644753 AGCTGCAATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCT-T
1 A-CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
* * * * * * * *
36644803 CACTGCATTGCCGGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTT--TTT
1 -ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAAT-TTGCTCT
* * * *
36644853 AACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCT
1 -ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
** ** * * * * * * **
36644904 ACTGCACCG-CCTGGAAGGTAAGATTCGCTGCTGTAGCTTTAATATT-TTAA
1 ACTGCAATGTCGGGGAA-GCAAGATTCACCGTTGTGGCTTTAAT-TTGCTCT
* * * *
36644954 ATTGCAATGTCAGGG-AGACAAGATTCACCGTTGTGGCTTTAATTTGTTCC
1 ACTGCAATGTCGGGGAAG-CAAGATTCACCGTTGTGGCTTTAATTTGCTCT
** ** * * * * * **
36645004 ACTGCACCG-CTTGGAAGGTAAGATTCGCTGTTGTAGCTTTAATCTT-TTAA
1 ACTGCAATGTCGGGGAA-GCAAGATTCACCGTTGTGGCTTTAAT-TTGCTCT
* *
36645054 ACTGCAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATTTGCTCT
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
** * * * * * *
36645104 ACTGCACCGCCAGGGAAGTAGGATTCACCGCTGTGGCTTTAATCTGCT
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCT
36645152 TCCTTACACT
Statistics
Matches: 397, Mismatches: 127, Indels: 50
0.69 0.22 0.09
Matches are distributed among these distances:
49 18 0.05
50 325 0.82
51 53 0.13
52 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCT
Found at i:36646489 original size:8 final size:7
Alignment explanation
Indices: 36646450--36646501 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
36646440 AGCCTCTCCA
*
36646450 TTTCCTT
1 TTTCATT
36646457 TTTCATT
1 TTTCATT
*
36646464 TTTGATT
1 TTTCATT
*
36646471 TTCCA-T
1 TTTCATT
36646477 TTTCATGT
1 TTTCAT-T
36646485 TTTCATT
1 TTTCATT
36646492 TTTCATT
1 TTTCATT
36646499 TTT
1 TTT
36646502 TTTGACTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
6 5 0.13
7 26 0.68
8 7 0.18
ACGTcount: A:0.12, C:0.15, G:0.04, T:0.69
Consensus pattern (7 bp):
TTTCATT
Found at i:36652001 original size:15 final size:14
Alignment explanation
Indices: 36651977--36652007 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
36651967 TGCTGATATC
36651977 ATAAACTAATAATA
1 ATAAACTAATAATA
36651991 ATAATACTAATAATA
1 ATAA-ACTAATAATA
36652006 AT
1 AT
36652008 GATGATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAACTAATAATA
Found at i:36653219 original size:21 final size:21
Alignment explanation
Indices: 36653190--36653248 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
36653180 GGACATTTAA
* *
36653190 TTATTTTTTGGTTTTCA-TTTT
1 TTATATTTTGATTTT-ATTTTT
*
36653211 TTATATTTTTATTTTATTTTT
1 TTATATTTTGATTTTATTTTT
36653232 TTATATTTTG--TTTATTT
1 TTATATTTTGATTTTATTT
36653249 ATTTGATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.21
20 1 0.03
21 25 0.76
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (21 bp):
TTATATTTTGATTTTATTTTT
Found at i:36654081 original size:40 final size:40
Alignment explanation
Indices: 36654026--36654144 Score: 238
Period size: 40 Copynumber: 3.0 Consensus size: 40
36654016 AGTCAGTTAC
36654026 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATTT
1 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATTT
36654066 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATTT
1 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATTT
36654106 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATT
1 ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATT
36654145 GGTACTTAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
ATGCGAGGAAGGATTAGCACCCTCGTCATGCCCAAAATTT
Found at i:36654688 original size:21 final size:17
Alignment explanation
Indices: 36654639--36654684 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
36654629 GATAATGTAC
36654639 AAAAAAT-GTATAAATA
1 AAAAAATAGTATAAATA
36654655 AAAAAATAGTATAAATTA
1 AAAAAATAGTATAAA-TA
36654673 AAAAAATAGTAT
1 AAAAAATAGTAT
36654685 TATATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AAAAAATAGTATAAATA
Found at i:36654842 original size:22 final size:23
Alignment explanation
Indices: 36654814--36655005 Score: 90
Period size: 23 Copynumber: 8.2 Consensus size: 23
36654804 AACTATATAA
36654814 AATAATAGATG-GAAATTAAAAT
1 AATAATAGATGAGAAATTAAAAT
* *
36654836 AATAATATATGATAAATTAAAA-
1 AATAATAGATGAGAAATTAAAAT
* *
36654858 AAGTAATTACACATGA-AAACTTAGAAT
1 AA-TAA-T--AGATGAGAAA-TTAAAAT
* *
36654885 AATAATACAT-ATAAAATTTAAAAT
1 AATAATAGATGA-GAAA-TTAAAAT
* *
36654909 AATAATACATGATG-AATTTAAAT
1 AATAATAGATGA-GAAATTAAAAT
* * * *
36654932 AACAAATACATGATAAATTTAAAT
1 AA-TAATAGATGAGAAATTAAAAT
** *
36654956 AATGTTA-ATGATAAATTTAAAAT
1 AATAATAGATGAGAAA-TTAAAAT
* * *
36654979 AATAATATATTACAAATTAAAAT
1 AATAATAGATGAGAAATTAAAAT
36655002 AATA
1 AATA
36655006 TTGATAATAA
Statistics
Matches: 138, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
22 21 0.15
23 48 0.35
24 48 0.35
25 6 0.04
26 13 0.09
27 2 0.01
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
AATAATAGATGAGAAATTAAAAT
Found at i:36654858 original size:24 final size:23
Alignment explanation
Indices: 36654826--36655005 Score: 152
Period size: 24 Copynumber: 7.6 Consensus size: 23
36654816 TAATAGATGG
*
36654826 AAATTAAAATAATAATATATGAT
1 AAATTAAAATAATAATACATGAT
36654849 AAATTAAAA-AAGTAATTACACATGA-
1 AAATTAAAATAA-TAA-T--ACATGAT
*
36654874 AAACTTAGAATAATAATACAT-AT
1 AAA-TTAAAATAATAATACATGAT
36654897 AAAATTTAAAATAATAATACATGAT
1 -AAA-TTAAAATAATAATACATGAT
* * *
36654922 GAATTTAAATAACAAATACATGAT
1 AAATTAAAATAA-TAATACATGAT
* **
36654946 AAATTTAAATAATGTTA-ATGAT
1 AAATTAAAATAATAATACATGAT
* * *
36654968 AAATTTAAAATAATAATATATTAC
1 AAA-TTAAAATAATAATACATGAT
36654992 AAATTAAAATAATA
1 AAATTAAAATAATA
36655006 TTGATAATAA
Statistics
Matches: 129, Mismatches: 16, Indels: 24
0.76 0.09 0.14
Matches are distributed among these distances:
22 11 0.09
23 48 0.37
24 49 0.38
25 6 0.05
26 13 0.10
27 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATTAAAATAATAATACATGAT
Found at i:36654996 original size:46 final size:45
Alignment explanation
Indices: 36654882--36655029 Score: 145
Period size: 46 Copynumber: 3.2 Consensus size: 45
36654872 GAAAACTTAG
* *
36654882 AATAATAATACATATAAAATTTAAAATAATAATACATGATGAATTT-A
1 AATAATAATACAT-TAAAATTT-AAATAATATTA-ATGATAAATTTAA
* * *
36654929 AATAACAAATACATGATAAATTTAAATAATGTTAATGATAAATTTAA
1 AATAA-TAATACATTA-AAATTTAAATAATATTAATGATAAATTTAA
* * * *
36654976 AATAATAATATATTACAAATTAAAATAATATTGATAATAAATTTAAA
1 AATAATAATACATTA-AAATTTAAATAATATTAATGATAAATTT-AA
36655023 AATAATA
1 AATAATA
36655030 TTAAGCTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
46 41 0.49
47 30 0.36
48 13 0.15
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (45 bp):
AATAATAATACATTAAAATTTAAATAATATTAATGATAAATTTAA
Found at i:36655002 original size:70 final size:73
Alignment explanation
Indices: 36654829--36655003 Score: 191
Period size: 70 Copynumber: 2.4 Consensus size: 73
36654819 TAGATGGAAA
*
36654829 TTAAAATAATAATATATGATAAATTAAAA-AAGTAATTACACATGAAAACTTAGAATAATAATAC
1 TTAAAATAATAATATATGATAAATTAAAATAAGCAA-TACACATGAAAACTTAGAATAATAATAC
36654893 ATATAAAAT
65 ATATAAAAT
* * * * * **
36654902 TTAAAATAATAATACATGATGAATTTAAATAA-CAA-ATACATGATAAATTTA-AATAATGTTA-
1 TTAAAATAATAATATATGATAAATTAAAATAAGCAATACACATGA-AAACTTAGAATAATAATAC
36654963 ATGAT-AAAT
65 AT-ATAAAAT
* *
36654972 TTAAAATAATAATATATTACAAATTAAAATAA
1 TTAAAATAATAATATATGATAAATTAAAATAA
36655004 TATTGATAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
70 33 0.38
71 17 0.20
72 6 0.07
73 28 0.33
74 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (73 bp):
TTAAAATAATAATATATGATAAATTAAAATAAGCAATACACATGAAAACTTAGAATAATAATACA
TATAAAAT
Found at i:36655021 original size:23 final size:22
Alignment explanation
Indices: 36654944--36655032 Score: 90
Period size: 23 Copynumber: 3.9 Consensus size: 22
36654934 CAAATACATG
* *
36654944 ATAAATTT-AAATAATGTTAATG
1 ATAAATTTAAAATAATATT-ATA
*
36654966 ATAAATTTAAAATAATAATATA
1 ATAAATTTAAAATAATATTATA
* *
36654988 TTACAAATTAAAATAATATTGATA
1 ATA-AATTTAAAATAATATT-ATA
36655012 ATAAATTTAAAAATAATATTA
1 ATAAATTT-AAAATAATATTA
36655033 AGCTTAAACA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
22 12 0.22
23 27 0.49
24 16 0.29
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (22 bp):
ATAAATTTAAAATAATATTATA
Found at i:36655070 original size:24 final size:24
Alignment explanation
Indices: 36654968--36655070 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 24
36654958 TGTTAATGAT
* * *
36654968 AAATTTAAAATAATAATATA-TTA
1 AAATTAAAAATAATATTAGATTTA
*
36654991 CAAATT-AAAATAATATT-GATAATA
1 -AAATTAAAAATAATATTAGAT-TTA
* *
36655015 AATTTAAAAATAATATTA-AGCTTA
1 AAATTAAAAATAATATTAGA-TTTA
*
36655039 AACA-TAAAAATAATGTTAGATTTA
1 AA-ATTAAAAATAATATTAGATTTA
36655063 AAATTAAA
1 AAATTAAA
36655071 TACATTTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
22 1 0.02
23 15 0.24
24 45 0.73
25 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATTAAAAATAATATTAGATTTA
Found at i:36658839 original size:142 final size:142
Alignment explanation
Indices: 36658587--36658871 Score: 500
Period size: 142 Copynumber: 2.0 Consensus size: 142
36658577 TCAATCTGAT
36658587 TCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACTTT
1 TCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACTTT
36658652 CCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAGTATGTAAAATTTTATTTACTTTCC
66 CCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAGTATGTAAAATTTTATTTACTTTCC
*
36658717 TTAGAATCTAAC
131 TTAGAATCAAAC
*
36658729 TCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCGTTTGGTATGATGGAAAGTAATCACTTT
1 TCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACTTT
* *
36658794 CCTAGAAATTTAATCAATTGGAAAGTGATTCTAACGTTT-GATATGTCAAATTTTATTTACTTTC
66 CCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAG-TATGTAAAATTTTATTTACTTTC
* *
36658858 TTTGGAATCAAAC
130 CTTAGAATCAAAC
36658871 T
1 T
36658872 TTTCATTGAT
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
141 1 0.01
142 135 0.99
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (142 bp):
TCTTAGTATAAAGGCCTCCATGATATTTTTGGGTAGCATTTGGTATGATGGAAAGTAATCACTTT
CCTAGAAATTTAATCAATTGGAAAATGATTCTAACGTTTAGTATGTAAAATTTTATTTACTTTCC
TTAGAATCAAAC
Found at i:36663980 original size:21 final size:21
Alignment explanation
Indices: 36663954--36664008 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
36663944 AACAGCGGTG
*
36663954 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
36663975 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
36663996 GCGGTGAGATTAG
1 GCGGTGAGATTAG
36664009 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:36667265 original size:94 final size:92
Alignment explanation
Indices: 36667107--36667295 Score: 225
Period size: 94 Copynumber: 2.0 Consensus size: 92
36667097 TAAAGAAGGA
* * * * * **
36667107 AAACAATTGATATTGGAATATTGGACGGGTGTTATGTAAAATGTAGGGGGATTAGGACTAATATT
1 AAACAATTAACATTGGAATATTGGACAGGTGTTATGTAAAACGTAGAGGGATTAAAACTAATATT
* *
36667172 TGGCCATTAGTTTCTCATGTCAAAAAG
66 TGACCATTAATTTCTCATGTCAAAAAG
* * * *
36667199 AAACAATTAACATTGGAGTATTGGATAGGTGTCATATGTAAAACGTAGAGGGATTAAAATTGATA
1 AAACAATTAACATTGGAATATTGGACAGGTGT--TATGTAAAACGTAGAGGGATTAAAACTAATA
* *
36667264 TTTGACCATTAATTTCTCATGTCCAAAGG
64 TTTGACCATTAATTTCTCATGTCAAAAAG
36667293 AAA
1 AAA
36667296 AGAAAAAAGG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
92 27 0.34
94 53 0.66
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (92 bp):
AAACAATTAACATTGGAATATTGGACAGGTGTTATGTAAAACGTAGAGGGATTAAAACTAATATT
TGACCATTAATTTCTCATGTCAAAAAG
Found at i:36668625 original size:21 final size:21
Alignment explanation
Indices: 36668599--36668642 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36668589 AAATAGAGCT
36668599 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
*
36668620 TCTTTGAGTCTGTTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
36668641 TC
1 TC
36668643 AATTGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.32, T:0.45
Consensus pattern (21 bp):
TCTTTGAGTCTGCTGTGAGTG
Found at i:36670953 original size:18 final size:18
Alignment explanation
Indices: 36670932--36671050 Score: 67
Period size: 18 Copynumber: 6.5 Consensus size: 18
36670922 ACGGGTTCGC
* *
36670932 ATACACATAAGGGTCCGT
1 ATACATATAAGGGTCCAT
*
36670950 ATACATATATAAGGGTTCAT
1 ATAC--ATATAAGGGTCCAT
* *
36670970 ATACATATAAGGGTTCAC
1 ATACATATAAGGGTCCAT
* * ****
36670988 ATGCATATGAGGGTTTGC
1 ATACATATAAGGGTCCAT
* * * *
36671006 ATGCATATAATGGTTCAC
1 ATACATATAAGGGTCCAT
* *
36671024 ATACATATAAGGGTTCAC
1 ATACATATAAGGGTCCAT
36671042 ATACATATA
1 ATACATATA
36671051 TACAATTTGT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
18 70 0.82
20 15 0.18
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (18 bp):
ATACATATAAGGGTCCAT
Found at i:36670963 original size:20 final size:20
Alignment explanation
Indices: 36670938--36670978 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36670928 TCGCATACAC
*
36670938 ATAAGGGTCCGTATACATAT
1 ATAAGGGTCCATATACATAT
*
36670958 ATAAGGGTTCATATACATAT
1 ATAAGGGTCCATATACATAT
36670978 A
1 A
36670979 AGGGTTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
ATAAGGGTCCATATACATAT
Found at i:36671001 original size:36 final size:36
Alignment explanation
Indices: 36670924--36671050 Score: 128
Period size: 36 Copynumber: 3.5 Consensus size: 36
36670914 ACTTCAAAAC
* * * **
36670924 GGGTTCGCATACACATAAGGGTCCGTATACATATATAA
1 GGGTTCACATACATATAAGGGTTCACATAC--ATATAA
* * *
36670962 GGGTTCATATACATATAAGGGTTCACATGCATATGA
1 GGGTTCACATACATATAAGGGTTCACATACATATAA
** * *
36670998 GGGTTTGCATGCATATAATGGTTCACATACATATAA
1 GGGTTCACATACATATAAGGGTTCACATACATATAA
36671034 GGGTTCACATACATATA
1 GGGTTCACATACATATA
36671051 TACAATTTGT
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
36 48 0.68
38 23 0.32
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (36 bp):
GGGTTCACATACATATAAGGGTTCACATACATATAA
Found at i:36671236 original size:50 final size:49
Alignment explanation
Indices: 36671175--36671272 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 49
36671165 TCCCATAAGA
**
36671175 GTAGCACAAAGCTAATTACTCTCCAAACACACCCCACATATTCCCCAAGT
1 GTAGCACAAAGCTAAACACTCTCCAAACACACCCCACATA-TCCCCAAGT
* *
36671225 GTAGCATAAAGCTAAACACTCTCCAAACACACCTCACATATCCCCAAG
1 GTAGCACAAAGCTAAACACTCTCCAAACACACCCCACATATCCCCAAG
36671273 GCCTCTCACC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 8 0.18
50 36 0.82
ACGTcount: A:0.38, C:0.36, G:0.08, T:0.18
Consensus pattern (49 bp):
GTAGCACAAAGCTAAACACTCTCCAAACACACCCCACATATCCCCAAGT
Found at i:36673104 original size:29 final size:28
Alignment explanation
Indices: 36673071--36673152 Score: 71
Period size: 30 Copynumber: 3.0 Consensus size: 28
36673061 TGGTTCAATA
*
36673071 TATAAAATTTATTAAAAAAAATTAAAATG
1 TATAAAATTAATTAAAAAAAATTAAAA-G
* * **
36673100 TATAAAGAATAATTAATAAATCTTAAAAG
1 TATAAA-ATTAATTAAAAAAAATTAAAAG
*
36673129 TATAAAA-TAA-T-AAAATAATTAAAA
1 TATAAAATTAATTAAAAAAAATTAAAA
36673153 TTTTATCTAG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
25 9 0.21
26 1 0.02
27 3 0.07
28 1 0.02
29 13 0.30
30 16 0.37
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
TATAAAATTAATTAAAAAAAATTAAAAG
Found at i:36673827 original size:20 final size:21
Alignment explanation
Indices: 36673789--36673830 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36673779 ATACATGAAA
*
36673789 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
36673810 TTAAAGAAAATAA-ACTTAAT
1 TTAAAAAAAATAACACTTAAT
36673830 T
1 T
36673831 ATCTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:36674629 original size:17 final size:18
Alignment explanation
Indices: 36674607--36674640 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36674597 ACCAATAATT
36674607 TATTTTAA-TTTATTATA
1 TATTTTAATTTTATTATA
36674624 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
36674641 GCACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:36675118 original size:25 final size:25
Alignment explanation
Indices: 36675089--36675139 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36675079 TTTAATCTGA
*
36675089 TATATTTATATGCTTAAGTTTTGTT
1 TATATTTATATGCTTAAATTTTGTT
36675114 TATATTTATATGCTTAAATTTTGTT
1 TATATTTATATGCTTAAATTTTGTT
36675139 T
1 T
36675140 TACTCACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (25 bp):
TATATTTATATGCTTAAATTTTGTT
Found at i:36677933 original size:18 final size:17
Alignment explanation
Indices: 36677898--36677940 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
36677888 AAATATAATT
*
36677898 AAAT-TCAAAAAATTTA
1 AAATATCAAAAAATATA
36677914 AAATATCAAATAAATATA
1 AAATATCAAA-AAATATA
*
36677932 AATTATCAA
1 AAATATCAA
36677941 GTTTAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATCAAAAAATATA
Found at i:36680671 original size:99 final size:98
Alignment explanation
Indices: 36680495--36680980 Score: 433
Period size: 99 Copynumber: 4.9 Consensus size: 98
36680485 AAAAAATTTG
* * *
36680495 GATATTTGATTCTGACACG--AATTTTTTTTTAAATTGTACTGGGTGCCGGTCATTAACAGGCCA
1 GATATCTGATTCTGACACGAAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
36680558 GCACCCCAAATTTTTTTTATTTTTTTCGTATACT
66 GCA-CCCAAATTTTTTTTATTTTTTTCGTATACT
* * * * * *
36680592 GATATCTAATTTTGACACGAAATTTTTTTTTTAAATTGTACTAGGTGCCGACCATTCACAGGCCA
1 GATATCTGATTCTGACACGAAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
** *
36680657 GCACTGAAA-----TTT-TTTTTTTCGTATATT
66 GCACCCAAATTTTTTTTATTTTTTTCGTATACT
* * *
36680684 GATATCTGATTCTGACACAAAAAAAAAGAATTTTTTTTAAATTGTACTGGGTGCCAGCCATTGAC
1 GATATCTGATTCTGACAC-----GAAA-ATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGAC
** *****
36680749 ---CCAAAATTTTTA-TTTTTTTATTTTTTTCGTATACT
60 AGGCCAGCACCCAAATTTTTTTTATTTTTTTCGTATACT
* *
36680784 GATATCTGATTCTGACATGAAAAAAAAAAGATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTG
1 GATATCTGATTCTGACACG-------AAA-ATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTG
* *
36680849 ACAGGCCAACACCCAAATTTTTTTTA-TTTTTTCGTATATT
58 ACAGGCCAGCACCCAAATTTTTTTTATTTTTTTCGTATACT
* * * *
36680889 GATATCTGACTCTGACACAAAAAATTTTTTTTTTAAATTGTACTGGGTGCTGGCCATTGACAAGC
1 GATATCTGATTCTGACAC-GAAAA-TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
* *
36680954 AAGCACCCAAATTTTTTTT-TGTTTTTC
64 CAGCACCCAAATTTTTTTTATTTTTTTC
36680981 TTTTTTTCCC
Statistics
Matches: 314, Mismatches: 48, Indels: 52
0.76 0.12 0.13
Matches are distributed among these distances:
92 30 0.10
93 3 0.01
95 6 0.02
97 19 0.06
98 36 0.11
99 108 0.34
100 31 0.10
102 38 0.12
105 35 0.11
106 8 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (98 bp):
GATATCTGATTCTGACACGAAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
GCACCCAAATTTTTTTTATTTTTTTCGTATACT
Found at i:36688064 original size:3 final size:3
Alignment explanation
Indices: 36688056--36688100 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
36688046 TGCTGGGTTG
36688056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36688101 ACTCATAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36689034 original size:1 final size:1
Alignment explanation
Indices: 36689028--36689058 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
36689018 GGCCATCTTT
36689028 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
36689059 GGGCCTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:36689270 original size:4 final size:4
Alignment explanation
Indices: 36689261--36689289 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36689251 TTTACATAAA
36689261 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
36689290 CAGAGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:36695538 original size:9 final size:9
Alignment explanation
Indices: 36695521--36695557 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36695511 TGAGTTTTCG
36695521 AATTCGAAT
1 AATTCGAAT
*
36695530 AACTCGAAT
1 AATTCGAAT
36695539 AATTCGAAT
1 AATTCGAAT
36695548 AATTCGAAT
1 AATTCGAAT
36695557 A
1 A
36695558 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36696204 original size:5 final size:5
Alignment explanation
Indices: 36696194--36696219 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36696184 GAACAAATAT
36696194 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
36696220 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:36697029 original size:95 final size:96
Alignment explanation
Indices: 36696909--36697099 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 96
36696899 AAACAAATTA
36696909 AACATAATAATTTCACAACAACTTAAATATACCTACCAACTTTCTAAACAAATTAAAAGTCTCAA
1 AACATAATAATTTCACAACAACTTAAATATACCTACCAACTTTCTAAACAAATTAAAAGTCTCAA
36696974 AGAACTTAGTTTCACATTTAGAGTTTAAAGT
66 AGAACTTAGTTTCACATTTAGAGTTTAAAGT
36697005 AACATAATAA-TTCACAACAACTTAAATATACCTACCAACTTTCTAAACAAATTAAAAGTCTCAA
1 AACATAATAATTTCACAACAACTTAAATATACCTACCAACTTTCTAAACAAATTAAAAGTCTCAA
36697069 AGAACTTAGTTTCACATTTAGAGTTTAAAGT
66 AGAACTTAGTTTCACATTTAGAGTTTAAAGT
36697100 TATATATTAT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 85 0.89
96 10 0.11
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (96 bp):
AACATAATAATTTCACAACAACTTAAATATACCTACCAACTTTCTAAACAAATTAAAAGTCTCAA
AGAACTTAGTTTCACATTTAGAGTTTAAAGT
Found at i:36701247 original size:7 final size:7
Alignment explanation
Indices: 36701235--36701261 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36701225 ATTTTTTTTA
36701235 CAATATT
1 CAATATT
36701242 CAATATT
1 CAATATT
36701249 CAATATT
1 CAATATT
36701256 CAATAT
1 CAATAT
36701262 AGTTCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
CAATATT
Found at i:36714157 original size:30 final size:30
Alignment explanation
Indices: 36714114--36714614 Score: 633
Period size: 30 Copynumber: 16.6 Consensus size: 30
36714104 ACGTTTTATG
*
36714114 CATTGCCAAATTGATTTGTATATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * *
36714144 CAATGCTGAATTGATTTGTATATAGCTATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714174 TATTGCCGAATTGATTTGTATATAGCTATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * *
36714204 CATTGCCGAATTGATTCGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
*
36714234 CATTGCCGAATTGATTGGTATATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * *
36714264 CATTGCCGAATTCATTTGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * *
36714294 CATTGCCGAATTGATTCGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714324 CATTGTCGAATTGATTGGTATATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * ** * *
36714354 CATTACCAAATTGATCCGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* * * *
36714384 CATTGTCGAATTGATTCGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714414 CATTCCCGAATTGATTTGTACATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714444 CATTGCCGAATTGATTTGTATTTGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
36714474 CATTGCCGAATTGATTTGTATATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714504 CATTGCCTAATTGATTTGTATATGGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
36714534 CATTGCCGAATTGATTTGTATATAGATATA
1 CATTGCCGAATTGATTTGTATATAGATATA
* *
36714564 CATTGTCGAATTGATTTGTATATGTACACATATA
1 CATTGCCGAATTGATTTGTATA--T--AGATATA
*
36714598 TATTGCCGAATTGATTT
1 CATTGCCGAATTGATTT
36714615 AAGCATTGGA
Statistics
Matches: 411, Mismatches: 56, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
30 389 0.95
32 1 0.00
34 21 0.05
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (30 bp):
CATTGCCGAATTGATTTGTATATAGATATA
Found at i:36721186 original size:228 final size:227
Alignment explanation
Indices: 36720508--36721190 Score: 731
Period size: 228 Copynumber: 3.0 Consensus size: 227
36720498 TCCAATTAAG
* * * * ** *
36720508 ATGCAGATCTTCGTTAAGACCCTGACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * *
36720573 GATCGACAACGTTAAGGCGAAAATCCAAGACAAGGAAGGGATCCCACCAGACCAAC-AACGTCTC
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGT-TC
* * *
36720637 ATCTTCGCCGGAAAACAGCTCGAAGATGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
130 ATTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * *
36720702 CACCCTCCATCTCGTCCTCCGTCTACGTGGTGGC
195 CACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGGC
* * * *
36720736 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * *
36720801 CATTGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTCA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
* * * * *
36720866 TCTTT-GCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGATTACAACATCCAGAAGGAGTC
131 T-TTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * * * *
36720930 GACCCTCCATTTGGTATTGAGGCTTCGTGGTGGG
195 CACCCTCCACTT-GTCTTGCGTCTTCGTGGTGGC
* * ** * * * * *
36720964 ATGCAGATTTTCGTCAAGACGTTGACTGGGAAAACCATAACTTTGGAGGTGGAGAGTTCCGATAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * * *
36721029 GATCGACAATGTTAAGGCGAAGATTCAGGACAAAGAAGGGATTCCACCAGATCAGCAAAGGTTGA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
* * * * * * * * *
36721094 TTTTCGCTGGGAAACAGTTGGAAGATGGAAGGACTTTGGCTGATTACAATATTCAGAAGGAATCC
131 TTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
*
36721159 ACTCTCCACCTTGTCTTGCGTCTTCGTGGTGG
196 ACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGG
36721191 TTTCTAAGCT
Statistics
Matches: 369, Mismatches: 81, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
227 4 0.01
228 358 0.97
229 7 0.02
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (227 bp):
ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGTTCA
TTTTCGCCGGGAAACAGCTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
ACCCTCCACTTGTCTTGCGTCTTCGTGGTGGC
Found at i:36724309 original size:51 final size:50
Alignment explanation
Indices: 36724227--36724366 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
36724217 TGATAATAAC
* * * *
36724227 ATGCCAAAGCCATGTCCCAGACATGGCCTTACATGGGATGTACTCATGTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGT-CTCATCTCG
* * * * **
36724278 GTGCCCATGCCATGTCCCAAATATGGTCTTACGGGGGACGTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTCTCATCTCG
36724328 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
36724367 CTCTTTACCC
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 41 0.56
51 32 0.44
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTCTCATCTCG
Found at i:36728511 original size:48 final size:48
Alignment explanation
Indices: 36728443--36728538 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
36728433 ATCTTTAGAA
*
36728443 CACCAACTGACAGTCGGATATCATCATTGAGCCCATCCTCAAATCTTT
1 CACCAACTGACAGTCAGATATCATCATTGAGCCCATCCTCAAATCTTT
*
36728491 CACCAAGTGACAGTCAGATATCATCATTGAGCCCATCCTCAAATCTTT
1 CACCAACTGACAGTCAGATATCATCATTGAGCCCATCCTCAAATCTTT
36728539 TACACATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (48 bp):
CACCAACTGACAGTCAGATATCATCATTGAGCCCATCCTCAAATCTTT
Found at i:36730736 original size:51 final size:50
Alignment explanation
Indices: 36730655--36730793 Score: 179
Period size: 50 Copynumber: 2.8 Consensus size: 50
36730645 GATAATAACA
* * * * *
36730655 TGCCAAAGCCATGTCCCAGACATGGCCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACGT-CTCATCTCGG
* * * **
36730706 TGCCCATGCCATGTCCTAGATATAGTCTTACGGGGGACGTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACGTCTCATCTCGG
36730756 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAC
36730794 CTCTTTACCC
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 42 0.58
51 31 0.42
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACGTCTCATCTCGG
Found at i:36730913 original size:13 final size:13
Alignment explanation
Indices: 36730892--36730921 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36730882 GCTTGGATAA
36730892 TCATCAAATAAAT
1 TCATCAAATAAAT
*
36730905 TCATGAAATAAAT
1 TCATCAAATAAAT
36730918 TCAT
1 TCAT
36730922 AGTTACTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:36750990 original size:10 final size:10
Alignment explanation
Indices: 36750975--36751003 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36750965 GAAATGTTTG
36750975 ATGATATAAT
1 ATGATATAAT
36750985 ATGATATAAT
1 ATGATATAAT
36750995 A-GATATAAT
1 ATGATATAAT
36751004 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:36752193 original size:30 final size:30
Alignment explanation
Indices: 36752159--36752221 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
36752149 CGATTTGAGG
* **
36752159 CACAACCGTATGTTATAACTCAGTGTGTTA
1 CACAACCGTATGTCATAACTCAGTAAGTTA
* * *
36752189 CACAATCGTGTGTCATAAGTCAGTAAGTTA
1 CACAACCGTATGTCATAACTCAGTAAGTTA
36752219 CAC
1 CAC
36752222 GGGCTGAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (30 bp):
CACAACCGTATGTCATAACTCAGTAAGTTA
Found at i:36755837 original size:41 final size:42
Alignment explanation
Indices: 36755767--36755862 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 42
36755757 GTGTTTCGAG
* * * *
36755767 TCAGTGAGTTACACGGCCTGACACGCGGGCGTGTGTGGCAA-
1 TCAGAGAGTTACACAGCCTGACACACGGGCGTGTGAGGCAAC
*
36755808 TCAGAGAGTTACACAGCCTGGCACACGGGCGTGTGAGGCAAC
1 TCAGAGAGTTACACAGCCTGACACACGGGCGTGTGAGGCAAC
36755850 TCA-ATGAGTTACA
1 TCAGA-GAGTTACA
36755863 TGGGTGAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 37 0.77
42 11 0.23
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (42 bp):
TCAGAGAGTTACACAGCCTGACACACGGGCGTGTGAGGCAAC
Found at i:36760287 original size:129 final size:129
Alignment explanation
Indices: 36760099--36760347 Score: 347
Period size: 129 Copynumber: 1.9 Consensus size: 129
36760089 ACACTGCTAT
* ** * * * * *
36760099 AGAACAATACCTTTAGCGGTGCTTTTCACATAAACGTCGTTATAGAACAAGACCTTTAGCGGCGC
1 AGAACAAAACCTTTAGCGACGCTTTTCACACAAACGCCGCTAAAGAACAAGACCTTTAGCGACGC
* * *
36760164 -TTTTCCTACAAACGCCGCTAAAGATGATAACCTTTAGCGGCGCTTTTCCCACAAATGCTGCCAA
66 TTTTTCC-ACAAACACAGCTAAAGATCATAACCTTTAGCGGCGCTTTTCCCACAAATGCTGCCAA
* *
36760228 AGAACAAAACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAATAAGACCTTTAGCGACGC
1 AGAACAAAACCTTTAGCGACGCTTTTCACACAAACGCCGCTAAAGAACAAGACCTTTAGCGACGC
* *
36760293 TTTTTCCACAAACACAGTTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAA
66 TTTTTCCACAAACACAGCTAAAGATCATAACCTTTAGCGGCGCTTTTCCCACAAA
36760348 CGCCACTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 98 0.94
130 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (129 bp):
AGAACAAAACCTTTAGCGACGCTTTTCACACAAACGCCGCTAAAGAACAAGACCTTTAGCGACGC
TTTTTCCACAAACACAGCTAAAGATCATAACCTTTAGCGGCGCTTTTCCCACAAATGCTGCCAA
Found at i:36760360 original size:43 final size:43
Alignment explanation
Indices: 36760107--36760371 Score: 291
Period size: 43 Copynumber: 6.2 Consensus size: 43
36760097 ATAGAACAAT
* * * * * * *
36760107 ACCTTTAGCGGTGCTTTTCACATAAACGTCGTTATAGAACAAG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAAG
* *
36760150 ACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGATGATA-
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCA-AG
* * * * *
36760193 ACCTTTAGCGGCGCTTTTCCCACAAATGCTGCCAAAGAACAAA
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAAG
*
36760236 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAAT-AAG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-ATCAAG
* * * * * *
36760279 ACCTTTAGCGACGCTTTTTCCACAAACACAGTTAAAGATCATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAAG
* *
36760322 ACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATG
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAAG
36760365 ACCTTTA
1 ACCTTTA
36760372 AAAAATATTT
Statistics
Matches: 186, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.02
43 181 0.97
44 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAAG
Found at i:36764129 original size:26 final size:27
Alignment explanation
Indices: 36764087--36764141 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
36764077 TTCTATATAT
36764087 ATATGTACTCCTATATTTCAGTTTCAA
1 ATATGTACTCCTATATTTCAGTTTCAA
36764114 ATATGTACTCCT-TATTTCAGTTTCAA
1 ATATGTACTCCTATATTTCAGTTTCAA
36764140 AT
1 AT
36764142 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.45
Consensus pattern (27 bp):
ATATGTACTCCTATATTTCAGTTTCAA
Found at i:36775823 original size:44 final size:44
Alignment explanation
Indices: 36775775--36775913 Score: 152
Period size: 44 Copynumber: 3.1 Consensus size: 44
36775765 TGTCTTCATG
* *
36775775 TACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCCCA
1 TACTGGCGTGAAGTAGATAAAAGATACCAGATCTTGCCTTCCCA
* * * * * * * ***
36775819 TACTGGTGGCGAAGCAGATTAAAGAAAGCAGATCTTGTCTTCATG
1 TACTGG-CGTGAAGTAGATAAAAGATACCAGATCTTGCCTTCCCA
*
36775864 TACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCTTCCCA
1 TACTGGCGTGAAGTAGATAAAAGATACCAGATCTTGCCTTCCCA
36775908 TACTGG
1 TACTGG
36775914 TGGCGAAGCA
Statistics
Matches: 72, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
44 39 0.54
45 33 0.46
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TACTGGCGTGAAGTAGATAAAAGATACCAGATCTTGCCTTCCCA
Found at i:36775852 original size:45 final size:46
Alignment explanation
Indices: 36775798--36775926 Score: 156
Period size: 44 Copynumber: 2.9 Consensus size: 46
36775788 TAGATCAGAG
*
36775798 ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAGA
1 ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAAA
* * *** * * *
36775844 A-AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGA-TAAAAA
1 ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAAA
36775887 ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT
1 ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT
36775927 CNNNNNNNNN
Statistics
Matches: 63, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
43 6 0.10
44 28 0.44
45 28 0.44
46 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
ATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAAA
Found at i:36775859 original size:89 final size:89
Alignment explanation
Indices: 36775750--36775926 Score: 302
Period size: 89 Copynumber: 2.0 Consensus size: 89
36775740 GAACAGGTTG
* * * *
36775750 AAAGATAACAGATTTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCTT
36775815 CCCATACTGGTGGCGAAGCAGATT
66 CCCATACTGGTGGCGAAGCAGATT
36775839 AAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCT
1 AAAGATAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCT
36775903 TCCCATACTGGTGGCGAAGCAGAT
65 TCCCATACTGGTGGCGAAGCAGAT
36775927 CNNNNNNNNN
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
88 2 0.02
89 81 0.98
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (89 bp):
AAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCTT
CCCATACTGGTGGCGAAGCAGATT
Found at i:36776145 original size:44 final size:44
Alignment explanation
Indices: 36776082--36776369 Score: 274
Period size: 44 Copynumber: 6.5 Consensus size: 44
36776072 NNNNNNNNNN
* * *
36776082 GATCAGAGATACCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
1 GATCAAAGATAACAGATCTTGTCTTCACGTACTGGCGTGAAGTA
* * * * * * * *
36776126 GATCAAAGATAATAGATCTTGCCTTCCCATACTGGTGGCGACGCA
1 GATCAAAGATAACAGATCTTGTCTTCACGTACTGG-CGTGAAGTA
* * *
36776171 GATCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
1 GATC-AAAG-ATAA-CAGATCTTGTCTTCACGTACTGGCGTGAAGTA
* * *
36776218 GATCAGAGATACCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
1 GATCAAAGATAACAGATCTTGTCTTCACGTACTGGCGTGAAGTA
* * * * * * *
36776262 GATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGACGCA
1 GATCAAAGATAACAGATCTTGTCTTCACGTACTGG-CGTGAAGTA
* *
36776307 GATCGAAGA-AAGCAGATCTTGTCGTCACGTACTGGCGTGAAGTA
1 GATCAAAGATAA-CAGATCTTGTCTTCACGTACTGGCGTGAAGTA
36776351 GATCAAAGAT-ACAGATCTT
1 GATCAAAGATAACAGATCTT
36776370 ATCTCCCTAA
Statistics
Matches: 191, Mismatches: 46, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
43 8 0.04
44 105 0.55
45 43 0.23
46 5 0.03
47 12 0.06
48 18 0.09
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
GATCAAAGATAACAGATCTTGTCTTCACGTACTGGCGTGAAGTA
Found at i:36776505 original size:44 final size:44
Alignment explanation
Indices: 36776457--36776647 Score: 140
Period size: 44 Copynumber: 4.3 Consensus size: 44
36776447 CCAGTAATTC
36776457 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
** * ** * * * *
36776501 TATCTCCCTAAGCAGTAGTGGAGCAGA-TCAAGGATGACGGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAA-GATTACAGATCT
* * * * * *
36776545 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAG---CCAGTAACT
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTGAAGATTACAG-ATCT
* *
36776588 CTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
*
36776633 TATCTCCCTAGGCAG
1 TATCTCCCTGGGCAG
36776648 TGAAGTAGAT
Statistics
Matches: 107, Mismatches: 30, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
42 3 0.03
43 23 0.21
44 61 0.57
45 13 0.12
46 7 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
Found at i:36776526 original size:132 final size:132
Alignment explanation
Indices: 36776356--36776648 Score: 518
Period size: 132 Copynumber: 2.2 Consensus size: 132
36776346 AAGTAGATCA
*
36776356 AAGA-TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATTTTACCTC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGACGGATTTTACCTC
* *
36776419 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
65 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAACAGTGGAATAGA
36776484 TTG
130 TTG
36776487 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGACGGATTTTACCTCC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGACGGATTTTACCTCC
36776552 CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAACAGTGGAATAGAT
66 CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAACAGTGGAATAGAT
36776617 TG
131 TG
* *
36776619 AAGATTACAGGTCTTATCTCCCTAGGCAGT
1 AAGATTACAGATCTTATCTCCCTAAGCAGT
36776649 GAAGTAGATC
Statistics
Matches: 155, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
131 6 0.04
132 149 0.96
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGACGGATTTTACCTCC
CTGAGGTTACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAACAGTGGAATAGAT
TG
Found at i:36776755 original size:45 final size:44
Alignment explanation
Indices: 36776660--36776765 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 44
36776650 AAGTAGATCA
* * *
36776660 AAGTTGCAATGGGGCAGACTAAGGAAGCAAGTTTTATCCTCTTG
1 AAGTTGCAGTGGGGCAGACTAAGGAAGCAAGTCTTATCCTCCTG
**
36776704 AAGTTGCAGTGGGGCAGACTGAAGGTGGCCAA-TCTTAT-CTCCCTG
1 AAGTTGCAGTGGGGCAGACT-AAGGAAG-CAAGTCTTATCCT-CCTG
*
36776749 AAGTTGCAGTGGAGCAG
1 AAGTTGCAGTGGGGCAG
36776766 GTTAAAGCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 21 0.40
45 29 0.55
46 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
AAGTTGCAGTGGGGCAGACTAAGGAAGCAAGTCTTATCCTCCTG
Found at i:36776838 original size:44 final size:43
Alignment explanation
Indices: 36776735--36776969 Score: 156
Period size: 44 Copynumber: 5.7 Consensus size: 43
36776725 AAGGTGGCCA
*
36776735 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTA-AAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC-GGATTAGAA-CCAA-G
* * *
36776779 ATCCTATTTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCA-AG
* * * * * *
36776823 ATCTTATCTCTCTGAAGTTGCAG-AGAGCGGA-TCGCATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCAAG
*
36776864 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAA-C-A-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCAAG
* ** *
36776902 A----A-CTCCTTGAAGTTGCAACGGAGTGGATTAGAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCA-AG
* ** *
36776941 ATCTCATCTTTCTGAAGTTGCAGTAGAGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGC
36776970 AGATCGCATT
Statistics
Matches: 147, Mismatches: 29, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
34 20 0.14
35 6 0.04
36 1 0.01
38 1 0.01
39 2 0.01
40 22 0.15
41 11 0.07
42 3 0.02
43 10 0.07
44 68 0.46
45 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCAAG
Found at i:36781840 original size:14 final size:14
Alignment explanation
Indices: 36781821--36782018 Score: 55
Period size: 14 Copynumber: 13.9 Consensus size: 14
36781811 CTAGTTAATC
36781821 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
36781835 TAAA-CCTGAACCC
1 TAAACCCTAAACCA
*
36781848 TAAAACCTTAAAACCA
1 T-AAACCCT-AAACCA
* * *
36781864 TAAATCTTTAACACA
1 TAAACCCTAAAC-CA
*
36781879 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
36781893 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
**
36781907 TAAACCAAAAACCA
1 TAAACCCTAAACCA
* * * *
36781921 TAAATCATAACCCC
1 TAAACCCTAAACCA
*
36781935 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
36781950 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* * *
36781962 TGGTAACACCTAAATCT
1 T--AAAC-CCTAAACCA
* *
36781979 TAAACTCAAAACCA
1 TAAACCCTAAACCA
*
36781993 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
36782007 AAAACCCTAAAC
1 TAAACCCTAAAC
36782019 TATAGTGATA
Statistics
Matches: 130, Mismatches: 40, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
12 2 0.02
13 11 0.08
14 70 0.54
15 41 0.32
16 5 0.04
17 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:36781960 original size:22 final size:22
Alignment explanation
Indices: 36781918--36781960 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36781908 AAACCAAAAA
*
36781918 CCATAAATCATAACCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
*
36781940 CCAT-AATCCATAAACCTTAAA
1 CCATAAAT-CATAAACCCTAAA
36781961 ATGGTAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:36782302 original size:41 final size:41
Alignment explanation
Indices: 36782215--36782363 Score: 178
Period size: 41 Copynumber: 3.7 Consensus size: 41
36782205 CATTAGCGGT
** * *
36782215 GCTTTCT-AGAAAACGCCGCTAAA-AATAGAGCATTCACAGC
1 GCTTTCTCA-AAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
* *
36782255 GTTTTCTCAAAAACGTCGCTAAAGCCTTGAGCATTCGCAGC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
* *
36782296 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC-GAC
1 GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAG-C
*
36782337 GCTTTCTTAAAAACGCCGCTAAAGCCT
1 GCTTTCTCAAAAACGCCGCTAAAGCCT
36782364 CGAAAGCTCA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
40 20 0.21
41 74 0.79
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTCGCAGC
Found at i:36782447 original size:39 final size:39
Alignment explanation
Indices: 36782398--36782493 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 39
36782388 TGGGCTTACG
* *
36782398 TTTTTTGCGGCGCTTT-ATGGAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGCTTTCAT--AAAACACCGCTAATGCTTGA
* *
36782437 TTTTTAGCGGCGTTTTCCATAAAGCACCGCTAATGCTTGA
1 TTTTTAGCGGCGCTTT-CATAAAACACCGCTAATGCTTGA
* *
36782477 TCTTTAGCGGCGTTTTC
1 TTTTTAGCGGCGCTTTC
36782494 CAAAAAGCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 31 0.63
40 16 0.33
41 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTCATAAAACACCGCTAATGCTTGA
Found at i:36782490 original size:40 final size:39
Alignment explanation
Indices: 36782424--36782509 Score: 136
Period size: 40 Copynumber: 2.2 Consensus size: 39
36782414 ATGGAAAACG
* *
36782424 CCGCTAATGCTTATTTTTAGCGGCGTTTTCCATAAAGCA
1 CCGCTAATGCTTATCTTTAGCGGCGTTTTCCAAAAAGCA
*
36782463 CCGCTAATGCTTGATCTTTAGCGGCGTTTTCCAAAAAGCG
1 CCGCTAATGCTT-ATCTTTAGCGGCGTTTTCCAAAAAGCA
36782503 CCGCTAA
1 CCGCTAA
36782510 AACGCCGCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
39 12 0.28
40 31 0.72
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGCTAATGCTTATCTTTAGCGGCGTTTTCCAAAAAGCA
Found at i:36783590 original size:84 final size:84
Alignment explanation
Indices: 36783409--36783664 Score: 238
Period size: 84 Copynumber: 3.1 Consensus size: 84
36783399 TAATATAATT
* * * * *
36783409 AAATCAAAATAAAAT-TTGTTAAACGACA-TGAATAAATCTCAAAATAGA-ATTATTTGA-TT-A
1 AAATC-AAATAAAATATTGTTAAACGA-AGAGAATAAATCTCGAAACAGATTTTATTTAATTTAA
** *
36783469 CGTCTTTATTTGGAAACAAAACA
64 C-TC-CAATTTGGAAACAAAATA
* * **
36783492 ATATCGAATAAAATATTGTTAAACGGCTG-GAATAAAT-TCCGAAACAGATTTTATTTAATTTAA
1 AAATCAAATAAAATATTGTTAAAC-GAAGAGAATAAATCT-CGAAACAGATTTTATTTAATTTAA
* * *
36783555 TTCTAATTTAGAAACAAAATA
64 CTCCAATTTGGAAACAAAATA
* * *
36783576 AAATCAAATCAAATATTGTTAAACGAAGAGAATAAATCTTGAAATAGATTTTATTTAATTTAACT
1 AAATCAAATAAAATATTGTTAAACGAAGAGAATAAATCTCGAAACAGATTTTATTTAATTTAACT
*
36783641 CCAATTTGGAAATAAAATA
66 CCAATTTGGAAACAAAATA
36783660 AAATC
1 AAATC
36783665 TTGTTAAACA
Statistics
Matches: 141, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
82 9 0.06
83 30 0.21
84 96 0.68
85 5 0.04
86 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (84 bp):
AAATCAAATAAAATATTGTTAAACGAAGAGAATAAATCTCGAAACAGATTTTATTTAATTTAACT
CCAATTTGGAAACAAAATA
Found at i:36783949 original size:87 final size:87
Alignment explanation
Indices: 36783810--36783979 Score: 207
Period size: 87 Copynumber: 2.0 Consensus size: 87
36783800 ATACTCGTTC
* * * * * *
36783810 TTTGGAAATAAAATCAAAATTAGAATAAAATTCATTGAACGGCAGGAGTAAATCCCAAAATAGAT
1 TTTGGAAATAAAATAAAAAATAGAATAAAATCCATTAAACAGCAGGAATAAATCCCAAAATAGAT
36783875 TTTAGTTAAATTTAATTTCCCG
66 TTTAGTTAAATTTAATTTCCCG
* ** *
36783897 TTTGGAAATAAAATAAAAAATGGAATAAAATCCATTAAACAGC-GAGAATAAATCCTGAAATGGA
1 TTTGGAAATAAAATAAAAAATAGAATAAAATCCATTAAACAGCAG-GAATAAATCCCAAAATAGA
* **
36783961 TTTTATTTACTTTTAATTT
65 TTTTAGTTAAATTTAATTT
36783980 GAAAACAAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
86 1 0.01
87 68 0.99
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (87 bp):
TTTGGAAATAAAATAAAAAATAGAATAAAATCCATTAAACAGCAGGAATAAATCCCAAAATAGAT
TTTAGTTAAATTTAATTTCCCG
Found at i:36784037 original size:73 final size:73
Alignment explanation
Indices: 36783913--36784050 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 73
36783903 AATAAAATAA
* * ***
36783913 AAAATGGAATAAAATCCATTAAACAGCGAGAATAAATCCTGAAATGGATTTTATTTACTTTTAAT
1 AAAATCGAATAAAATCCATTAAACAGCGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAAT
36783978 TTGAAAAC
66 TTGAAAAC
* * *
36783986 AAAATCGAATAAAATCTATTAAAC-GACGGGAATAAATCCCGAAACAAATTTTATTTAGTTTTAA
1 AAAATCGAATAAAATCCATTAAACAG-CGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAA
36784050 T
65 T
36784051 ATTCTTTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 1 0.02
73 55 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (73 bp):
AAAATCGAATAAAATCCATTAAACAGCGAGAATAAATCCCGAAACAAATTTTATTTACTTTTAAT
TTGAAAAC
Found at i:36787326 original size:21 final size:21
Alignment explanation
Indices: 36787264--36787328 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
36787254 CAGCGGTGGC
* * *
36787264 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTGGATACTGTAGT
*
36787285 AGTGAGATTGGATACTGTAGT
1 GGTGAGATTGGATACTGTAGT
36787306 GGTGAGATTGGATACTGTAGT
1 GGTGAGATTGGATACTGTAGT
36787327 GG
1 GG
36787329 AGTGTGTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.25, C:0.06, G:0.37, T:0.32
Consensus pattern (21 bp):
GGTGAGATTGGATACTGTAGT
Found at i:36794806 original size:20 final size:22
Alignment explanation
Indices: 36794781--36794826 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
36794771 GGCGAGACAT
36794781 TTGAGTA-AAGAAACAAG-CGG
1 TTGAGTACAAGAAACAAGTCGG
**
36794801 TTGAGTACGGGAAACAAGTCGG
1 TTGAGTACAAGAAACAAGTCGG
36794823 TTGA
1 TTGA
36794827 TTTCAACTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.20
Consensus pattern (22 bp):
TTGAGTACAAGAAACAAGTCGG
Found at i:36797020 original size:55 final size:55
Alignment explanation
Indices: 36796945--36797118 Score: 165
Period size: 55 Copynumber: 3.4 Consensus size: 55
36796935 CAAAAATATA
* *
36796945 TTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTTGTTTTTGGGAATTTTT
1 TTATGATTTTTTAATATTTATAATTTTCTAAGTTTTCTTGTTTTTGGGAATTTTT
* ** * * *
36797000 TTATGATTTTTTAATATTTAT--TTTTTTATA-TTTTC---------AAAAATATA
1 TTATGATTTTTTAATATTTATAATTTTCTA-AGTTTTCTTGTTTTTGGGAATTTTT
* *
36797044 TTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTTGTTTTTGGGAATTTTT
1 TTATGATTTTTTAATATTTATAATTTTCTAAGTTTTCTTGTTTTTGGGAATTTTT
36797099 TTATGATTTTTTAATATTTA
1 TTATGATTTTTTAATATTTA
36797119 AGTAGATTTT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
44 23 0.26
45 1 0.01
46 11 0.12
53 11 0.12
54 1 0.01
55 41 0.47
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (55 bp):
TTATGATTTTTTAATATTTATAATTTTCTAAGTTTTCTTGTTTTTGGGAATTTTT
Found at i:36797034 original size:99 final size:100
Alignment explanation
Indices: 36796919--36797118 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
36796909 ATTAAAAAAC
36796919 ATTTTTTTATAATTTTCAAAAATATATTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTT
1 ATTTTTTTATAATTTTCAAAAATATATTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTT
36796984 GTTTTTGGGAATTTTTTTATGATTTTTTAATATTT
66 GTTTTTGGGAATTTTTTTATGATTTTTTAATATTT
36797019 ATTTTTTTAT-ATTTTCAAAAATATATTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTT
1 ATTTTTTTATAATTTTCAAAAATATATTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTT
36797083 GTTTTTGGGAATTTTTTTATGATTTTTTAATATTT
66 GTTTTTGGGAATTTTTTTATGATTTTTTAATATTT
36797118 A
1 A
36797119 AGTAGATTTT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 90 0.90
100 10 0.10
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (100 bp):
ATTTTTTTATAATTTTCAAAAATATATTATGATTTTTTAGTTTTTATAATTTTCTAAGTTTTCTT
GTTTTTGGGAATTTTTTTATGATTTTTTAATATTT
Found at i:36797045 original size:24 final size:25
Alignment explanation
Indices: 36796994--36797045 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
36796984 GTTTTTGGGA
** * *
36796994 ATTTTTTTATGATTTTTTAATATTT
1 ATTTTTTTATGATTTTCAAAAATAT
36797019 ATTTTTTTAT-ATTTTCAAAAATAT
1 ATTTTTTTATGATTTTCAAAAATAT
36797043 ATT
1 ATT
36797046 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTTTTATGATTTTCAAAAATAT
Found at i:36805231 original size:12 final size:11
Alignment explanation
Indices: 36805214--36805247 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
36805204 CAATAGTAAC
36805214 ACAACAGAAGAA
1 ACAACAGAA-AA
36805226 ACAACAGATAAA
1 ACAACAGA-AAA
36805238 ACAACAGAAA
1 ACAACAGAAA
36805248 TAATGAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 18 0.86
13 1 0.05
ACGTcount: A:0.68, C:0.18, G:0.12, T:0.03
Consensus pattern (11 bp):
ACAACAGAAAA
Found at i:36805475 original size:41 final size:35
Alignment explanation
Indices: 36805430--36805513 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 35
36805420 AAGAAGAGAG
36805430 ATAAAATTTATTAACATGCAAGAAAATAAAGAAAATAAAA
1 ATAAAATTTA-TAACA-G-AAGAAAA-AAA-AAAATAAAA
* * *
36805470 TATAAAATATATAACAGAATAAAAATAAAAATAAAA
1 -ATAAAATTTATAACAGAAGAAAAAAAAAAATAAAA
36805506 ATAAAATT
1 ATAAAATT
36805514 AGTTTGCCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 7 0.18
36 9 0.23
37 2 0.05
38 6 0.15
39 1 0.03
40 5 0.13
41 9 0.23
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.24
Consensus pattern (35 bp):
ATAAAATTTATAACAGAAGAAAAAAAAAAATAAAA
Found at i:36805478 original size:12 final size:11
Alignment explanation
Indices: 36805461--36805512 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
36805451 GAAAATAAAG
36805461 AAAATAAAATAT
1 AAAATAAAA-AT
* *
36805473 AAAATATATAAC
1 AAAATA-AAAAT
*
36805485 AGAATAAAAAT
1 AAAATAAAAAT
36805496 AAAAATAAAAAT
1 -AAAATAAAAAT
36805508 AAAAT
1 AAAAT
36805513 TAGTTTGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 8 0.25
12 22 0.69
13 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:36805483 original size:25 final size:24
Alignment explanation
Indices: 36805455--36805502 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
36805445 ATGCAAGAAA
36805455 ATAA-AGAAAATAAAATATAAAATAT
1 ATAACAGAAAA-AAAATA-AAAATAT
*
36805480 ATAACAGAATAAAAATAAAAATA
1 ATAACAGAAAAAAAATAAAAATA
36805503 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (24 bp):
ATAACAGAAAAAAAATAAAAATAT
Found at i:36805498 original size:6 final size:6
Alignment explanation
Indices: 36805487--36805511 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36805477 TATATAACAG
36805487 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
36805512 TTAGTTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:36807116 original size:24 final size:24
Alignment explanation
Indices: 36807084--36807131 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36807074 AACAATCGAA
36807084 AACATCATCCAAATTTCGTACTAT
1 AACATCATCCAAATTTCGTACTAT
36807108 AACATCATCCAAATTTCGTACTAT
1 AACATCATCCAAATTTCGTACTAT
36807132 GAGATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (24 bp):
AACATCATCCAAATTTCGTACTAT
Found at i:36812405 original size:12 final size:13
Alignment explanation
Indices: 36812379--36812444 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
36812369 CTAGTTTAGC
36812379 AATGCTTTTAAAA
1 AATGCTTTTAAAA
*
36812392 AATGCTTTTGAAA
1 AATGCTTTTAAAA
* * *
36812405 ACTGCTGTGAAAA
1 AATGCTTTTAAAA
* *
36812418 AATGATTTTAAGA
1 AATGCTTTTAAAA
*
36812431 AGTGCTTTTGAAAA
1 AATGCTTTT-AAAA
36812445 GTTTGGTTTA
Statistics
Matches: 39, Mismatches: 13, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (13 bp):
AATGCTTTTAAAA
Found at i:36820416 original size:6 final size:6
Alignment explanation
Indices: 36820405--36820436 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
36820395 TAATAATTAC
36820405 ATATTT ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT ATATTT AT
36820437 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:36820764 original size:39 final size:39
Alignment explanation
Indices: 36820679--36820766 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
36820669 AAAATTTATA
* * *
36820679 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGTGTTT
*
36820718 TTTAATATAATGAAACATTTATTATATTTA-TGGTAGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGGT-GTTT
36820757 TTTAATATAA
1 TTTAATATAA
36820767 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.07
39 41 0.93
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTGGTGTTT
Found at i:36823854 original size:19 final size:21
Alignment explanation
Indices: 36823827--36823875 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
36823817 GCGTTTAGCT
*
36823827 TATT-TTTTATCTCA-CGCTA
1 TATTATTTAATCTCATCGCTA
36823846 TATTATTTAATCTCATCGCTA
1 TATTATTTAATCTCATCGCTA
*
36823867 CCATTATTT
1 -TATTATTT
36823876 TTACACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 9 0.36
21 5 0.20
22 7 0.28
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTATTTAATCTCATCGCTA
Found at i:36823872 original size:22 final size:20
Alignment explanation
Indices: 36823835--36823875 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
36823825 CTTATTTTTT
*
36823835 ATCTCACGCTATATTATTTA
1 ATCTCACGCTACATTATTTA
36823855 ATCTCATCGCTACCATTATTT
1 ATCTCA-CGCTA-CATTATTT
36823876 TTACACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCTCACGCTACATTATTTA
Found at i:36830219 original size:38 final size:40
Alignment explanation
Indices: 36830177--36830256 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
36830167 CAATTTGATT
36830177 CTAATATCTAATCAGG-TT-TACACAATTCAAAATCCATC
1 CTAATATCTAATCAGGTTTCTACACAATTCAAAATCCATC
* *
36830215 CTAATATCTTATCAGGTTTCCTACACAATTCGAAATCCATC
1 CTAATATCTAATCAGGTTT-CTACACAATTCAAAATCCATC
36830256 C
1 C
36830257 AAACTCTACC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 15 0.41
39 2 0.05
41 20 0.54
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (40 bp):
CTAATATCTAATCAGGTTTCTACACAATTCAAAATCCATC
Found at i:36845388 original size:31 final size:31
Alignment explanation
Indices: 36845350--36845414 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
36845340 GCTTGTGGCC
36845350 ATGGCAGCTTGAGCCTCCTTTGGGTGAGCCA
1 ATGGCAGCTTGAGCCTCCTTTGGGTGAGCCA
36845381 ATGGCAGCTTGAGCCTCCTTTGGGTGAGCCA
1 ATGGCAGCTTGAGCCTCCTTTGGGTGAGCCA
36845412 ATG
1 ATG
36845415 TGAAGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (31 bp):
ATGGCAGCTTGAGCCTCCTTTGGGTGAGCCA
Found at i:36852608 original size:142 final size:142
Alignment explanation
Indices: 36852352--36852730 Score: 695
Period size: 142 Copynumber: 2.7 Consensus size: 142
36852342 GAACCAACAA
* *
36852352 GACAAAGAAGGGCAAAGCCAAAGCCGGCAGTAAAGGAACAACCCTGCATACAGAGACATACTTAT
1 GACAAAGAAGGGCAAAGCCAAAGCCGACAGTAAAGGAACAACCCTGCATACAGAGACATCCTTAT
36852417 GGCGTAAGATGAAAGATGTTGAGAAAATGGTTACTTCCATCAACAATAGGCAAATCAAACTTGTC
66 GGCGTAAGATGAAAGATGTTGAGAAAATGGTTACTTCCATCAACAATAGGCAAATCAAACTTGTC
36852482 GCTACTATTGAG
131 GCTACTATTGAG
36852494 GACAAAGAAGGGCAAAGCCAAAGCCGACAGTAAAGGAACAACCCTGCATACAGAGACATCCTTAT
1 GACAAAGAAGGGCAAAGCCAAAGCCGACAGTAAAGGAACAACCCTGCATACAGAGACATCCTTAT
* *
36852559 GGCGTAAGATGAAAGATGTTGGGAAAATGGTTACTTCTATCAACAATAGGCAAATCAAACTTGTC
66 GGCGTAAGATGAAAGATGTTGAGAAAATGGTTACTTCCATCAACAATAGGCAAATCAAACTTGTC
36852624 GCTACTATTGAG
131 GCTACTATTGAG
* *
36852636 GACAAAGAAGGGCGAAGCCAAAGCCGACAGTAAAGGAACAACCCTGGATACAGAGACATCCTTAT
1 GACAAAGAAGGGCAAAGCCAAAGCCGACAGTAAAGGAACAACCCTGCATACAGAGACATCCTTAT
*
36852701 GGCGTAAGATGAAAGATGTTGATAAAATGG
66 GGCGTAAGATGAAAGATGTTGAGAAAATGG
36852731 CAAATCAAAC
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 229 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (142 bp):
GACAAAGAAGGGCAAAGCCAAAGCCGACAGTAAAGGAACAACCCTGCATACAGAGACATCCTTAT
GGCGTAAGATGAAAGATGTTGAGAAAATGGTTACTTCCATCAACAATAGGCAAATCAAACTTGTC
GCTACTATTGAG
Found at i:36853617 original size:17 final size:17
Alignment explanation
Indices: 36853595--36853631 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36853585 CATAGGTATA
* *
36853595 CATTGTCATTGCATTTT
1 CATTGTCATTACATATT
36853612 CATTGTCATTACATATT
1 CATTGTCATTACATATT
36853629 CAT
1 CAT
36853632 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (17 bp):
CATTGTCATTACATATT
Found at i:36854712 original size:66 final size:66
Alignment explanation
Indices: 36854588--36854717 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
36854578 CTTATTGCAT
* *** * *
36854588 TAATGTCACTGCATGAGTTAATTCCAAATTGCGTCCAGAATTGTTGTCGCAGTTGACAGATGTCC
1 TAATGTCACTGCATGAGTTAATTCCAAATTGCGTCCAGAATTATCACCACAGTAGACAGATGTCC
36854653 G
66 G
* * * *
36854654 TAATGTCATTGCATGAGTTAATTCCAGATTGCGTCCAGAATTATCACCATAGTAGACAGCTGTC
1 TAATGTCACTGCATGAGTTAATTCCAAATTGCGTCCAGAATTATCACCACAGTAGACAGATGTC
36854718 TAATAAAAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (66 bp):
TAATGTCACTGCATGAGTTAATTCCAAATTGCGTCCAGAATTATCACCACAGTAGACAGATGTCC
G
Found at i:36876598 original size:25 final size:24
Alignment explanation
Indices: 36876553--36876599 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
36876543 TTATGAATTA
*
36876553 GAAAAATATCTTTAGAAATTTTCT
1 GAAAAATATCTTCAGAAATTTTCT
* *
36876577 GAAATAATCTCTTCAGAGATTTT
1 GAAA-AATATCTTCAGAAATTTT
36876600 TCCCCCTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (24 bp):
GAAAAATATCTTCAGAAATTTTCT
Found at i:36876854 original size:20 final size:19
Alignment explanation
Indices: 36876804--36876856 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
36876794 CTACAAGATA
36876804 AATATTAAATT--TAATTT
1 AATATTAAATTAATAATTT
36876821 AATATTAAGA-TAATAACTTT
1 AATATTAA-ATTAATAA-TTT
36876841 AATATTAAATTAATAA
1 AATATTAAATTAATAA
36876857 AATATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 1 0.03
19 4 0.13
20 17 0.55
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:36876860 original size:25 final size:25
Alignment explanation
Indices: 36876813--36876860 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36876803 AAATATTAAA
*
36876813 TTTAATTTAATATTAAGATAATAAC
1 TTTAATTTAATATTAAGAAAATAAC
*
36876838 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
36876861 TTATTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAC
Found at i:36876913 original size:68 final size:71
Alignment explanation
Indices: 36876771--36876915 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 71
36876761 TATTAAATCT
*
36876771 TATTAAAATAATAAAATGTTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAGATAATA
1 TATTAAAATAATAAAATGATTATCTA-AAGATAAATATTAAATTTAATTTAATATTAAGATAATA
****
36876836 ACTTTAA
65 AAAACAA
* * *
36876843 TATTAAATTAATAAAAT-ATTAT-T-AAGATAAGTATTAAATTTAATTTAATATTTAA-ATATTA
1 TATTAAAATAATAAAATGATTATCTAAAGATAAATATTAAATTTAATTTAATA-TTAAGATAATA
36876904 AAAACAA
65 AAAACAA
36876911 TATTA
1 TATTA
36876916 TTTTTGGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
68 39 0.61
69 4 0.06
70 1 0.02
71 4 0.06
72 16 0.25
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (71 bp):
TATTAAAATAATAAAATGATTATCTAAAGATAAATATTAAATTTAATTTAATATTAAGATAATAA
AAACAA
Found at i:36887228 original size:7 final size:7
Alignment explanation
Indices: 36887208--36887253 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
36887198 CCAGAATCTC
36887208 GAACCTT
1 GAACCTT
36887215 GAA-CTT
1 GAACCTT
36887221 GAACCTT
1 GAACCTT
36887228 GAACCTT
1 GAACCTT
36887235 GAACCTT
1 GAACCTT
* *
36887242 AAACTTT
1 GAACCTT
36887249 GAACC
1 GAACC
36887254 CCAAATCCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (7 bp):
GAACCTT
Found at i:36887685 original size:23 final size:23
Alignment explanation
Indices: 36887658--36887703 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36887648 TTGTTTTTAA
36887658 ATTTTGATGATGTGGTAAAATTT
1 ATTTTGATGATGTGGTAAAATTT
36887681 ATTTTGATGATGTGGTAAAATTT
1 ATTTTGATGATGTGGTAAAATTT
36887704 TATTGGTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (23 bp):
ATTTTGATGATGTGGTAAAATTT
Found at i:36891131 original size:29 final size:30
Alignment explanation
Indices: 36891045--36891155 Score: 82
Period size: 31 Copynumber: 3.7 Consensus size: 30
36891035 AATTAAATCA
* * * *
36891045 AAATTAAAGTTTCAAGTATGCATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGCACC
* * * * *
36891075 ACAATTAGACTTTCATGTGTATAGTTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGCACC
*
36891106 AAATTAAAGTTT-ATGTATACAATTGCACATT
1 AAATTAAAGTTTCATGTATACAATTGCAC--C
*
36891137 AAATCAAAG-TTCATGTATA
1 AAATTAAAGTTTCATGTATA
36891156 ATTTTGAGAT
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
29 13 0.21
30 12 0.19
31 37 0.60
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGCACC
Found at i:36892941 original size:31 final size:31
Alignment explanation
Indices: 36892890--36892964 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
36892880 ATAAAGCAAG
* * * * *
36892890 AATTTTAA-TTTAATTGAATTGTATTTATGA
1 AATTTTAATTTTAACTCAATTGAATATATAA
36892920 AATTTTAATTTTAACTCAATTGAATATATAA
1 AATTTTAATTTTAACTCAATTGAATATATAA
*
36892951 AAATTTATATTTTA
1 AATTTTA-ATTTTA
36892965 TTAAATAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 8 0.22
31 23 0.62
32 6 0.16
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (31 bp):
AATTTTAATTTTAACTCAATTGAATATATAA
Found at i:36905722 original size:16 final size:16
Alignment explanation
Indices: 36905690--36905736 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
36905680 GTTATGTATG
*
36905690 AATTTTAA-TAATTTA
1 AATTTTAATTAATATA
36905705 AATTTTAATTAATATA
1 AATTTTAATTAATATA
* *
36905721 AAATGTAATTCAATAT
1 AATTTTAATT-AATAT
36905737 TTCTCAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 8 0.30
16 14 0.52
17 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTTAATTAATATA
Found at i:36909696 original size:18 final size:18
Alignment explanation
Indices: 36909661--36909698 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
36909651 TAAATGATGA
36909661 ATTTTAAGTATTAGTTGTT
1 ATTTTAAGTATTA-TTGTT
36909680 ATTTATAAGTATT-TTGTT
1 ATTT-TAAGTATTATTGTT
36909698 A
1 A
36909699 AGTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
ATTTTAAGTATTATTGTT
Found at i:36910495 original size:20 final size:19
Alignment explanation
Indices: 36910419--36910495 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 19
36910409 TGTACGAGAT
36910419 TTGCACTTCGGTG-CCTCTG
1 TTGCACTTCGGTGCCCT-TG
* *
36910438 TATACACTTCTGTGTCCC-TG
1 T-TGCACTTCGGTG-CCCTTG
*
36910458 TTCGCACTACGGTGGCCCTTG
1 TT-GCACTTCGGT-GCCCTTG
36910479 TCTGCACTTCGGTGCCC
1 T-TGCACTTCGGTGCCC
36910496 CTATTATGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
19 2 0.04
20 27 0.60
21 13 0.29
22 3 0.07
ACGTcount: A:0.09, C:0.34, G:0.23, T:0.34
Consensus pattern (19 bp):
TTGCACTTCGGTGCCCTTG
Found at i:36910505 original size:21 final size:20
Alignment explanation
Indices: 36910420--36910505 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
36910410 GTACGAGATT
* *
36910420 TGCACTTCGGTGCCTCTGTA
1 TGCACTTCGGTGCCCCTTTA
* * *
36910440 TACACTTCTGTGTCCCTGTT-
1 TGCACTTCGGTGCCCCT-TTA
* * * *
36910460 CGCACTACGGTGGCCCTTGTC
1 TGCACTTCGGTGCCCCTT-TA
36910481 TGCACTTCGGTGCCCCTATTA
1 TGCACTTCGGTGCCCCT-TTA
36910502 TGCA
1 TGCA
36910506 TCTATGATGC
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
19 1 0.02
20 26 0.54
21 20 0.42
22 1 0.02
ACGTcount: A:0.12, C:0.33, G:0.22, T:0.34
Consensus pattern (20 bp):
TGCACTTCGGTGCCCCTTTA
Found at i:36913210 original size:28 final size:28
Alignment explanation
Indices: 36913121--36913285 Score: 156
Period size: 29 Copynumber: 5.8 Consensus size: 28
36913111 CACTTAACTA
* * *
36913121 AGATAGCCACAAATGCATCTTTTTAATAG
1 AGATAGCCACAAAGGC-TCCTTTTAACAG
* *
36913150 AGATAGCCATAAAGGTTTCCTTTTAAC-G
1 AGATAGCCACAAAGG-CTCCTTTTAACAG
36913178 AAGATAGCCACAAAGGCTCCTTTTAACAG
1 -AGATAGCCACAAAGGCTCCTTTTAACAG
* *
36913207 AGATATCCACAAAGGCTCC-TTTAACAT
1 AGATAGCCACAAAGGCTCCTTTTAACAG
* *
36913234 AGATTAGCCACAAAGGATTTCTTTTAACAG
1 AGA-TAGCCACAAAGG-CTCCTTTTAACAG
* *
36913264 AGATCA-CCATAAAGGCTTCTTT
1 AGAT-AGCCACAAAGGCTCCTTT
36913286 ATAATAGATA
Statistics
Matches: 114, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
27 10 0.09
28 46 0.40
29 47 0.41
30 11 0.10
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (28 bp):
AGATAGCCACAAAGGCTCCTTTTAACAG
Found at i:36913258 original size:57 final size:56
Alignment explanation
Indices: 36913124--36913321 Score: 165
Period size: 57 Copynumber: 3.4 Consensus size: 56
36913114 TTAACTAAGA
* * * *
36913124 TAGCCACAAATGCATCT-TTTTAATAGAGATAGCCATAAAGGTTTCCTTTTAACGA-AGA-
1 TAGCCACAAA-GGATTTCTTTTAACAGAGATA-CCATAAAGG-CTCC-TTTAAC-ATAGAT
* * *
36913182 TAGCCACAAAGG-CTCCTTTTAACAGAGATATCCACAAAGGCTCCTTTAACATAGAT
1 TAGCCACAAAGGATTTCTTTTAACAGAGATA-CCATAAAGGCTCCTTTAACATAGAT
*
36913238 TAGCCACAAAGGATTTCTTTTAACAGAGATCACCATAAAGGCTTCTTTATA-ATAGAT
1 TAGCCACAAAGGATTTCTTTTAACAGAGAT-ACCATAAAGGCTCCTTTA-ACATAGAT
* *
36913295 ATCA-CTACAAAGGCTTTCATTTTAACA
1 -T-AGCCACAAAGGATTTC-TTTTAACA
36913322 TATTTTTCTA
Statistics
Matches: 117, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
54 1 0.01
55 9 0.08
56 15 0.13
57 58 0.50
58 25 0.21
59 9 0.08
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (56 bp):
TAGCCACAAAGGATTTCTTTTAACAGAGATACCATAAAGGCTCCTTTAACATAGAT
Found at i:36913298 original size:29 final size:28
Alignment explanation
Indices: 36913127--36913321 Score: 130
Period size: 29 Copynumber: 6.8 Consensus size: 28
36913117 ACTAAGATAG
* * *
36913127 CCACAAATGCATCTTTTTAATAGAGAT-A
1 CCACAAAGGCTTC-TTTTAACAGAGATCA
* *
36913155 GCCATAAAGGTTTCCTTTTAAC-GAAGAT-A
1 -CCACAAAGGCTT-CTTTTAACAG-AGATCA
*
36913184 GCCACAAAGGCTCCTTTTAACAGAGAT-A
1 -CCACAAAGGCTTCTTTTAACAGAGATCA
* * *
36913212 TCCACAAAGGC-TCCTTTAACATAGATTA
1 -CCACAAAGGCTTCTTTTAACAGAGATCA
*
36913240 GCCACAAAGGATTTCTTTTAACAGAGATCA
1 -CCACAAAGG-CTTCTTTTAACAGAGATCA
* * *
36913270 CCATAAAGGCTTCTTTATAATAGATATCA
1 CCACAAAGGCTTCTTT-TAACAGAGATCA
*
36913299 CTACAAAGGCTTTCATTTTAACA
1 CCACAAAGGC-TTC-TTTTAACA
36913322 TATTTTTCTA
Statistics
Matches: 133, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
27 12 0.09
28 40 0.30
29 56 0.42
30 22 0.17
31 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (28 bp):
CCACAAAGGCTTCTTTTAACAGAGATCA
Found at i:36916827 original size:2 final size:2
Alignment explanation
Indices: 36916820--36916857 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36916810 TTATAGGGAG
36916820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36916858 GTGTGTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36927325 original size:26 final size:26
Alignment explanation
Indices: 36927296--36927357 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
36927286 TACCTACAAT
36927296 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* * *
36927322 AGTTTCAGAATATTATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
36927348 AGTTTCAGAA
1 AGTTTCAGAA
36927358 CACTAACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:36927800 original size:4 final size:4
Alignment explanation
Indices: 36927791--36927821 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
36927781 CCATAAAGTA
*
36927791 AAAT AAAT AAAT AAAT AAAT AAAT AACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
36927822 ATTTAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:36934180 original size:21 final size:22
Alignment explanation
Indices: 36934156--36934198 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
36934146 AATAGGTATG
36934156 ATTTTATTTA-AATTTTTGTAA
1 ATTTTATTTAGAATTTTTGTAA
36934177 ATTTTATTTATGAATTTTTGTA
1 ATTTTATTTA-GAATTTTTGTA
36934199 TGTTTAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTTTATTTAGAATTTTTGTAA
Found at i:36940816 original size:19 final size:19
Alignment explanation
Indices: 36940792--36940828 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36940782 TAGGATGCAC
*
36940792 ATATAATTGGAGCCAATAT
1 ATATAATTGAAGCCAATAT
36940811 ATATAATTGAAGCCAATA
1 ATATAATTGAAGCCAATA
36940829 CAAGAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (19 bp):
ATATAATTGAAGCCAATAT
Found at i:36942934 original size:9 final size:9
Alignment explanation
Indices: 36942920--36942948 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
36942910 GTTGAGAAAA
36942920 TAATTTAAT
1 TAATTTAAT
36942929 TAATTTAAT
1 TAATTTAAT
36942938 TAA-TTAAT
1 TAATTTAAT
36942946 TAA
1 TAA
36942949 GTAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTTAAT
Found at i:36951624 original size:35 final size:35
Alignment explanation
Indices: 36951578--36951648 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
36951568 TGTTATATGC
36951578 AATTTTGAAAAAGAAAGTCCATTAATGTTGGGAAA
1 AATTTTGAAAAAGAAAGTCCATTAATGTTGGGAAA
36951613 AATTTTGAAAAAGAAAGTCCATTAATGTTGGGAAA
1 AATTTTGAAAAAGAAAGTCCATTAATGTTGGGAAA
36951648 A
1 A
36951649 GTATCCTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (35 bp):
AATTTTGAAAAAGAAAGTCCATTAATGTTGGGAAA
Found at i:36960572 original size:24 final size:24
Alignment explanation
Indices: 36960524--36960570 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36960514 ATTGGTCACA
*
36960524 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
*
36960548 GAGATATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
36960571 GGGGATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:36960781 original size:55 final size:55
Alignment explanation
Indices: 36960697--36960813 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 55
36960687 CACATTGCCT
*
36960697 GGGAATCAAGGGTGCGATGATCATCGATTTG-TGGCATAAGAGTGTTCGGATCGAA
1 GGGAATCAAGGGTGCGATGATCATCGATTTGCT-GAATAAGAGTGTTCGGATCGAA
* *
36960752 GGGAATCAAGGGTGCGATGATCATTGATTTGCTGAATAAGAGTGTTTGGATCGAA
1 GGGAATCAAGGGTGCGATGATCATCGATTTGCTGAATAAGAGTGTTCGGATCGAA
36960807 GGGAATC
1 GGGAATC
36960814 TGCAAATCGC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 57 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.34, T:0.26
Consensus pattern (55 bp):
GGGAATCAAGGGTGCGATGATCATCGATTTGCTGAATAAGAGTGTTCGGATCGAA
Done.