Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold286
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: 1428881
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 9
Found at i:113733 original size:128 final size:126
Alignment explanation
Indices: 113469--113825 Score: 397
Period size: 128 Copynumber: 2.8 Consensus size: 126
113459 TCAAAAAGTG
*** **
113469 TCATTTCGTACCTTAATGGA-AGCCCGCCAAGATACGAAAAA--TTTGAAATCTTTTAATACCTA
1 TCATTTCGTACCTTAATGGATA-CCCAAAAAGATAC-AAAAATTTTTGAAATCTTTT-ATACCCC
* * * *
113531 TACGGATATCCATAGGAATATAAAAGGTTAAAAATGATTAATATTTATTTATTTTTGAAAAAAAA
63 TACGGATACCCATAAGAATATAAAAGCTTAAAAATAATTAATATTTATTTATTTTTG--AAAAAA
113596 A
126 A
* *
113597 TCAATTCGTACCTTAATGGATTCCCAAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTA
1 TCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAA-TTTTTGAAATCTTTTATACCCCTA
* * * *
113662 TGGATACCCATAAGAATATAAAAGACTTGAAAATAATTGATATTTATTTGTGTTTTG-AAAAAA
65 CGGATACCCATAAGAATATAAAAG-CTTAAAAATAATTAATATTTATTTAT-TTTTGAAAAAAA
113725 TCATTTCGTACCTTAATGGATACCCAAAAAGATAC----ATTTTTGAAATCTTTTATACCCCTAC
1 TCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAATTTTTGAAATCTTTTATACCCCTAC
* * * * *
113786 GAATACCCGTAAGAATATAAATGATTAAAAAATGATTAAT
66 GGATACCCATAAGAATATAAAAGCTT-AAAAATAATTAAT
113826 GTTTCTTTTA
Statistics
Matches: 197, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
122 2 0.01
123 54 0.27
124 1 0.01
127 5 0.03
128 68 0.35
129 28 0.14
130 34 0.17
131 5 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (126 bp):
TCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAATTTTTGAAATCTTTTATACCCCTAC
GGATACCCATAAGAATATAAAAGCTTAAAAATAATTAATATTTATTTATTTTTGAAAAAAA
Found at i:114809 original size:11 final size:11
Alignment explanation
Indices: 114795--114832 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
114785 TTTCCCTATT
114795 TTTTCTTTCTC
1 TTTTCTTTCTC
114806 TTTTCTTTC-C
1 TTTTCTTTCTC
*
114816 TTTTTTTCTCTC
1 TTTTCTT-TCTC
114828 TTTTC
1 TTTTC
114833 AGCTGGAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 7 0.30
11 11 0.48
12 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:115668 original size:166 final size:163
Alignment explanation
Indices: 115248--115780 Score: 606
Period size: 165 Copynumber: 3.2 Consensus size: 163
115238 TTTTAGATCG
* * * * *
115248 AGAAAAATCCCTCCGAAAAAATTTACGAAGTAGAAAACACCATATTTCTAAAAAAGAAAAATTCA
1 AGAAAAATCCC-CTGAAAAAATTTACGGAGTAGAAAACACCATATTTCGAAAAAAGAGAATTTCA
*
115313 AGG-AAAAATCCAAAACTCATGAAAATTATTTTATTTTTTAAAACTGAATTCATATGAAATAAAT
65 AGGAAAAAATCCAAAACTCATGAAAATGATTTT-TTTTTTAAAACTGAATTCATATGAAATAAAT
* *
115377 AATGATGTTTCATGAATTTTAAAAATTAAAAACTA
129 AATGATATTTGATGAATTTTAAAAATTAAAAACTA
* ** * * **
115412 CGAAAAATCCCCTTGAAAAAATTTATAGAGTA-AAAATTACCATATTTTGGAAAAACCAGAATTT
1 AGAAAAATCCCC-TGAAAAAATTTACGGAGTAGAAAA-CACCATA-TTTCGAAAAAAGAGAATTT
* *
115476 CAAAGAAAAAATCCAAAACTCATGAAAATGATTTTTTTTTTTAAACTGAATTCATATGAAATAAA
63 CAAGGAAAAAATCCAAAACTCATGAAAATGATTTTTTTTTTAAAACTGAATTCATATGAAATAAA
* *
115541 TAATGATTTTTGATGAATTTTAAAAATTAAAAACCA
128 TAATGATATTTGATGAATTTTAAAAATTAAAAACTA
* * *
115577 AGAAAAATCCCCGTGAAAAAATTTACGGAGTAGAAAACACCGTATATCGAAAAAATGAGAATTTT
1 AGAAAAATCCCC-TGAAAAAATTTACGGAGTAGAAAACACCATATTTCGAAAAAA-GAGAATTTC
* *** * * * *
115642 AAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATAAAATAA
64 AAGGAAAAAA-TCCAAAACTCATGAAAATG-ATTTTTTTTTTAAAACTGAATTCATATGAAATAA
* ** *
115707 ATGACAATATTTGATAAATTTTAAAAATTAAAAACTA
127 ATAATGATATTTGATGAATTTTAAAAATTAAAAACTA
** *
115744 AGAAAAA-CCCTCCAAAAAAATTTATGGA-TAAGAAAAC
1 AGAAAAATCCC-CTGAAAAAATTTACGGAGT-AGAAAAC
115781 CTCGTAATTT
Statistics
Matches: 311, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
163 5 0.02
164 39 0.13
165 129 0.41
166 73 0.23
167 65 0.21
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (163 bp):
AGAAAAATCCCCTGAAAAAATTTACGGAGTAGAAAACACCATATTTCGAAAAAAGAGAATTTCAA
GGAAAAAATCCAAAACTCATGAAAATGATTTTTTTTTTAAAACTGAATTCATATGAAATAAATAA
TGATATTTGATGAATTTTAAAAATTAAAAACTA
Found at i:122786 original size:5 final size:5
Alignment explanation
Indices: 122776--122801 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
122766 TAACCAAAGT
122776 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
122802 TTTCTTATTT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:122851 original size:25 final size:22
Alignment explanation
Indices: 122808--122853 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
122798 AAATTTTCTT
*
122808 ATTTATTTAAAATATTATTTAC
1 ATTTATTTAAAATAATATTTAC
122830 ATTTAATTTATAAATAAATATTTA
1 ATTT-ATTTA-AAAT-AATATTTA
122854 AACAAGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 4 0.20
25 7 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTTAAAATAATATTTAC
Found at i:124518 original size:58 final size:57
Alignment explanation
Indices: 124420--124567 Score: 163
Period size: 58 Copynumber: 2.6 Consensus size: 57
124410 ACTTTCACCT
** * *
124420 AAATGACCCTAAAATACATAAAAAAGCATAAATGGTCCTAAATCACAGAAAATTACTA
1 AAATGACCCTAAAATACATAAAATTGCAT-AATGGTCCTAAATAACAGAAAATGACTA
* * * *
124478 AAATGACCCTAAAATACATAAATTTGCATAATGGTCCCTAACTAATAGAAAATGATTA
1 AAATGACCCTAAAATACATAAAATTGCATAATGGT-CCTAAATAACAGAAAATGACTA
* * *
124536 AAAT-AGTCCTAAAATGCATAAAATTACATAAT
1 AAATGA-CCCTAAAATACATAAAATTGCATAAT
124568 AGTCTTCAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
57 7 0.09
58 69 0.91
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.25
Consensus pattern (57 bp):
AAATGACCCTAAAATACATAAAATTGCATAATGGTCCTAAATAACAGAAAATGACTA
Found at i:124606 original size:59 final size:59
Alignment explanation
Indices: 124526--124746 Score: 164
Period size: 58 Copynumber: 3.8 Consensus size: 59
124516 TAACTAATAG
* *
124526 AAAATGATTAAAATAGTCCTAAAATGCATAAAATTACATAATAGTCTTCAATTATAAAA
1 AAAATGACTAAAATGGTCCTAAAATGCATAAAATTACATAATAGTCTTCAATTATAAAA
* * * * * * * *
124585 AAAATGACTAACATGGTCCT-AAAGGCATAAGATTACATACTAATCCTTAAATCAT--GA
1 AAAATGACTAAAATGGTCCTAAAATGCATAAAATTACATAATAGT-CTTCAATTATAAAA
* * * * * * ** *
124642 AAAATGACTAATATGATCTTAAAATGGATGAATTTACATAATAG-CCCCTAAATA-AAAA
1 AAAATGACTAAAATGGTCCTAAAATGCATAAAATTACATAATAGTCTTC-AATTATAAAA
* * * * *
124700 AAAAAGACTAAAAAGGTCCTAAAATACATGAAAATTATATGATAGTC
1 AAAATGACTAAAATGGTCCTAAAATGCAT-AAAATTACATAATAGTC
124747 CCTAAAACAT
Statistics
Matches: 118, Mismatches: 37, Indels: 13
0.70 0.22 0.08
Matches are distributed among these distances:
56 1 0.01
57 21 0.18
58 59 0.50
59 36 0.31
60 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (59 bp):
AAAATGACTAAAATGGTCCTAAAATGCATAAAATTACATAATAGTCTTCAATTATAAAA
Found at i:126881 original size:165 final size:166
Alignment explanation
Indices: 126703--127180 Score: 631
Period size: 165 Copynumber: 2.9 Consensus size: 166
126693 ATCACCATTT
* *
126703 AATCAATTTTGAAAAATTCATTTATTATAATGAGTTTTTCATTTTTTCCTTGAAAATCCCCTACT
1 AATCAATTTTGAAAAATTCATTTATTTTAATGAGTTTTTCATTTTTTCCTTGAAAATCCCCTATT
* * *
126768 TTCGAGAAACCGAGTTTTCTATTCCATAAATGTTTTT-GGGAGGTTTTTCTTAGTTCAAATTTTT
66 TTTGAAAAACCGAGTTTTCTATTCCATAAATGTTTTTAGGGAGGTTTTTCTTAGTTCAAAATTTT
126832 TAATATTCATCAAATATCATCATTTAAATAATAGTA
131 TAATATTCATCAAATATCATCATTTAAATAATAGTA
* * * * * *
126868 AATCATTTTTGAAAAATCCAATTATTTTTAATGAGTTTTTTATTTTTT-CTTGGAAATCCCTTAT
1 AATCAATTTTGAAAAATTCATTTA-TTTTAATGAGTTTTTCATTTTTTCCTTGAAAATCCCCTAT
** *
126932 TTTTGAAAAACTAATTTTTCTATTCCATAAATGTTTTTAGGGA-GTTTTTCTTAGTTCAAAATTT
65 TTTTGAAAAACCGAGTTTTCTATTCCATAAATGTTTTTAGGGAGGTTTTTCTTAGTTCAAAATTT
* * *
126996 TTAATATTCATCAAATATCATTATTTAAATCATGGTA
130 TTAATATTCATCAAATATCATCATTTAAATAATAGTA
* * * * * ***
127033 AATCAGTTTTGAAAATTTCATTTATTTTCATAAGTTTTTCATTTTTTTCCTTGAAATTTTTCTAT
1 AATCAATTTTGAAAAATTCATTTATTTTAATGAGTTTTTCA-TTTTTTCCTTGAAAATCCCCTAT
* * *
127098 TTTTGAAAAACCGAGTTTTCTATTCCATAAATGTTTTTAGAGG-GATTTTTCTTAGTTTAAAATA
65 TTTTGAAAAACCGAGTTTTCTATTCCATAAATGTTTTTAG-GGAGGTTTTTCTTAGTTCAAAATT
* *
127162 TTTAAAATTCATCTAATAT
129 TTTAATATTCATCAAATAT
127181 TGTCATTGAA
Statistics
Matches: 269, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
164 14 0.05
165 147 0.55
166 72 0.27
167 36 0.13
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (166 bp):
AATCAATTTTGAAAAATTCATTTATTTTAATGAGTTTTTCATTTTTTCCTTGAAAATCCCCTATT
TTTGAAAAACCGAGTTTTCTATTCCATAAATGTTTTTAGGGAGGTTTTTCTTAGTTCAAAATTTT
TAATATTCATCAAATATCATCATTTAAATAATAGTA
Found at i:127770 original size:20 final size:20
Alignment explanation
Indices: 127747--127794 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
127737 AAAAAAAGAG
127747 AGAAAAAAGAAAGAAAATAA
1 AGAAAAAAGAAAGAAAATAA
* *
127767 AGAAAAGAGAGAGAAAATAA
1 AGAAAAAAGAAAGAAAATAA
*
127787 ATAAAAAA
1 AGAAAAAA
127795 AGCTAAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (20 bp):
AGAAAAAAGAAAGAAAATAA
Found at i:127774 original size:29 final size:28
Alignment explanation
Indices: 127740--127796 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
127730 AGTGGAGAAA
127740 AAAAGAGAGAAAAAAGAAAGAAAATAAAG
1 AAAAGAGAGAAAAAAGAAAGAAAA-AAAG
* * *
127769 AAAAGAGAGAGAAAATAAATAAAAAAAG
1 AAAAGAGAGAAAAAAGAAAGAAAAAAAG
127797 CTAAACCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.05
Consensus pattern (28 bp):
AAAAGAGAGAAAAAAGAAAGAAAAAAAG
Found at i:130723 original size:21 final size:19
Alignment explanation
Indices: 130673--130723 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
130663 GAAGGGTACA
130673 TTGTATTGATACAATAGGC
1 TTGTATTGATACAATAGGC
* *
130692 ATGTATCGATACAATATGGCC
1 TTGTATTGATACAATA-GG-C
130713 TTGTATTGATA
1 TTGTATTGATA
130724 AAAAAGAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 14 0.54
20 2 0.08
21 10 0.38
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGTATTGATACAATAGGC
Found at i:131622 original size:21 final size:21
Alignment explanation
Indices: 131596--131649 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
131586 TACAGTGCAC
*
131596 TATGTATCGATACAATTCA-AG
1 TATGTATCGATAC-ATACATAG
131617 TATGTATCGATACATACATAG
1 TATGTATCGATACATACATAG
131638 TAATGTATCGAT
1 T-ATGTATCGAT
131650 CCAGTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 10 0.33
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
TATGTATCGATACATACATAG
Found at i:138244 original size:80 final size:79
Alignment explanation
Indices: 138071--138488 Score: 308
Period size: 80 Copynumber: 5.2 Consensus size: 79
138061 GGAAGTGAAA
* * * * ** *
138071 AAGGTTGTAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAA--TCGATA
1 AAGGTTGGAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCC-CGATGGTGA-AAATTTCGATC
* *
138134 TTTTGAAACTAAAAAT
64 TTTTGAAAGTAAAAAC
* * * * *
138150 GAGGTTGGAGTATCCCTTCGAAAATGATACGATTGGAGTGTCCCGATGGTGAAAACTTCGATGCT
1 AAGGTTGGAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCCCGATGGTGAAAATTTCGAT-CT
*
138215 TTTGGAAGTAAAAAC
65 TTTGAAAGTAAAAAC
* * * *
138230 AAGGTTGGAGTATCCCTTC-AGAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATTCAATA
1 AAGGTTGGAGTATCCCTTCGA-AAATGATAGGGTTGGAGTATCCC-GATGGTGAAAATTTCGATC
* * *
138294 TTTTTAAAGTAATAAT
64 TTTTGAAAGTAAAAAC
** * * * *
138310 GGGGTTGGAGTATCCCCTT-GAAGATGATGGGGTTGGAGTATCTTCGATGGTGAAAATTTTGATA
1 AAGGTTGGAGTAT-CCCTTCGAAAATGATAGGGTTGGAGTATC-CCGATGGTGAAAATTTCGAT-
*
138374 CTTTTGCAAGTAAAAA-
63 CTTTTGAAAGTAAAAAC
** * * * * * ** * *
138390 TGGTGTTAGAGTATCCCCTAG-TAATGATGGGGTTATAGTATCCTCGACGGTGAAAATTTTGATA
1 AAG-GTTGGAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCC-CGATGGTGAAAATTTCGAT-
*
138454 CTTTTGGAAGTAAAAAC
63 CTTTTGAAAGTAAAAAC
* *
138471 AGGGTTGAAGTATCCCTT
1 AAGGTTGGAGTATCCCTT
138489 TAGTAATTAT
Statistics
Matches: 274, Mismatches: 52, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
77 3 0.01
78 7 0.03
79 42 0.15
80 176 0.64
81 46 0.17
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (79 bp):
AAGGTTGGAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCCCGATGGTGAAAATTTCGATCTT
TTGAAAGTAAAAAC
Found at i:138271 original size:159 final size:161
Alignment explanation
Indices: 138071--138389 Score: 419
Period size: 159 Copynumber: 2.0 Consensus size: 161
138061 GGAAGTGAAA
* * * *
138071 AAGGTTGTAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAA-TCGATAT
1 AAGGTTGGAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCCTAATGGTGAAAAATTCAATAT
*
138135 TTTGAAACTAAAAATGAGGTTGGAGTAT-CCCTTCGAAAATGATACGATTGGAGTGTC-CCGATG
66 TTTGAAACTAAAAATGAGGTTGGAGTATCCCCTT-GAAAATGATACGATTGGAGTATCTCCGATG
* *
138198 GTGAAAACTTCGATGCTTTTGGAAGTAAAAAC
130 GTGAAAACTTCGATACTTTTGCAAGTAAAAAC
* * *
138230 AAGGTTGGAGTATCCCTTCAGAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATTCAATAT
1 AAGGTTGGAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCCTAATGGTGAAAAATTCAATAT
* * * * * ** * *
138295 TTTTAAAGTAATAATGGGGTTGGAGTATCCCCTTGAAGATGATGGGGTTGGAGTATCTTCGATGG
66 TTTGAAACTAAAAATGAGGTTGGAGTATCCCCTTGAAAATGATACGATTGGAGTATCTCCGATGG
* *
138360 TGAAAATTTTGATACTTTTGCAAGTAAAAA
131 TGAAAACTTCGATACTTTTGCAAGTAAAAA
138390 TGGTGTTAGA
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
159 51 0.38
160 48 0.35
161 37 0.27
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (161 bp):
AAGGTTGGAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCCTAATGGTGAAAAATTCAATAT
TTTGAAACTAAAAATGAGGTTGGAGTATCCCCTTGAAAATGATACGATTGGAGTATCTCCGATGG
TGAAAACTTCGATACTTTTGCAAGTAAAAAC
Found at i:138432 original size:160 final size:159
Alignment explanation
Indices: 138071--138432 Score: 399
Period size: 160 Copynumber: 2.3 Consensus size: 159
138061 GGAAGTGAAA
* * * * * *
138071 AAGGTT-GTAGTATCCCCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAATCGATAT
1 AAGGTTAG-AGTATCCCCTCAGAAATGATAGGGTTAGAGTATCCCTAATGGTGAAAAATCAATAT
*
138135 TTTGAAACTAAAAATGAGGTTGGAGTATCCCTTCGAAAATGATACGATTGGAGTGTCCCGATGGT
65 TTTGAAACTAAAAATGAGGTTGGAGTATCCCTTCGAAAATGATACGATTGGAGTATCCCGATGGT
* *
138200 GAAAACTTCGATGCTTTTGGAAGTAAAAAC
130 GAAAACTTCGATACTTTTGCAAGTAAAAAC
* * *
138230 AAGGTTGGAGTATCCCTTCAGAAATGATAGGGTTGGAGTATCCCTAATGGTGAAAAATTCAATAT
1 AAGGTTAGAGTATCCCCTCAGAAATGATAGGGTTAGAGTATCCCTAATGGTGAAAAA-TCAATAT
* * * * * ** * *
138295 TTTTAAAGTAATAATGGGGTTGGAGTATCCCCTT-GAAGATGATGGGGTTGGAGTATCTTCGATG
65 TTTGAAACTAAAAATGAGGTTGGAGTAT-CCCTTCGAAAATGATACGATTGGAGTATC-CCGATG
* *
138359 GTGAAAATTTTGATACTTTTGCAAGTAAAAA-
128 GTGAAAACTTCGATACTTTTGCAAGTAAAAAC
** * * *
138390 TGGTGTTAGAGTATCCCCT-AGTAATGATGGGGTTATAGTATCC
1 AAG-GTTAGAGTATCCCCTCAGAAATGATAGGGTTAGAGTATCC
138433 TCGACGGTGA
Statistics
Matches: 170, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
159 50 0.29
160 70 0.41
161 50 0.29
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (159 bp):
AAGGTTAGAGTATCCCCTCAGAAATGATAGGGTTAGAGTATCCCTAATGGTGAAAAATCAATATT
TTGAAACTAAAAATGAGGTTGGAGTATCCCTTCGAAAATGATACGATTGGAGTATCCCGATGGTG
AAAACTTCGATACTTTTGCAAGTAAAAAC
Found at i:138558 original size:241 final size:237
Alignment explanation
Indices: 138022--138558 Score: 530
Period size: 241 Copynumber: 2.2 Consensus size: 237
138012 GTGAAAATTC
* * * * *
138022 GGGGTTAGAGTATCCCTGAAATGAAAATTTTAATGTTTAGGAAGTGAAAA-A-GGTTGTAGTATC
1 GGGGTTAGAGTATCCCTGAGAGGAAAA-TTTAATATTTAGGAAGTAAAAATAGGGTTGGAGTATC
138085 CCCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAATCGATATTTTGAAACTAAAAAT
65 CCCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAATCGATATTTTGAAACTAAAAAT
* * * * * * *
138150 GAGGTTGGAGTATCCCTTCGAAAATGATACGATTGGAGTGTCCCGATGGTGAAAACTTCGATGCT
130 GAGGTTAGAGTATCCCCTAGAAAATGATACGATTAGAGTATCCCGACGGTGAAAACTTCGATACT
*
138215 TTTGGAAGTAAAAACAAGGTTGGAGTATCCCTTCAGAAATGAT
195 TTTGGAAGTAAAAACAAGGTTGAAGTATCCCTTCAGAAATGAT
* * * * *** * *
138258 AGGGTTGGAGTATCCCTAATG-GTGAAAAATTCAATATTTTTAAAGTAATAATGGGGTTGGAGTA
1 GGGGTTAGAGTATCCCTGA-GAG-G-AAAATTTAATATTTAGGAAGTAAAAATAGGGTTGGAGTA
** * ** * * * *
138322 TCCCCTTGAAGATGATGGGGTTGGAGTAT-CTTCGATGGTGA-AAATTTTGATACTTTTGCAAGT
63 TCCCCTCAAAAATGATAAGGTTGGAGTATCCTT-AATGGTGAGAAA--TCGATA-TTTTGAAACT
* ** * * *
138385 AAAAATG-GTGTTAGAGTATCCCCTAG-TAATGATGGGGTTATAGTATCCTCGACGGTGAAAATT
124 AAAAATGAG-GTTAGAGTATCCCCTAGAAAATGATACGATTAGAGTATCC-CGACGGTGAAAACT
* * * * *
138448 TTGATACTTTTGGAAGTAAAAACAGGGTTGAAGTATCCCTTTAGTAATTAT
187 TCGATACTTTTGGAAGTAAAAACAAGGTTGAAGTATCCCTTCAGAAATGAT
*
138499 GGGGTTAGAGTATCCCTGACGAGGAAATATTTGATATTTAGGAAGTAAAAATAGGGTTGG
1 GGGGTTAGAGTATCCCTGA-GAGGAAA-ATTTAATATTTAGGAAGTAAAAATAGGGTTGG
138559 TGTACCCTTT
Statistics
Matches: 235, Mismatches: 53, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
236 16 0.07
237 16 0.07
238 10 0.04
239 40 0.17
240 24 0.10
241 128 0.54
242 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (237 bp):
GGGGTTAGAGTATCCCTGAGAGGAAAATTTAATATTTAGGAAGTAAAAATAGGGTTGGAGTATCC
CCTCAAAAATGATAAGGTTGGAGTATCCTTAATGGTGAGAAATCGATATTTTGAAACTAAAAATG
AGGTTAGAGTATCCCCTAGAAAATGATACGATTAGAGTATCCCGACGGTGAAAACTTCGATACTT
TTGGAAGTAAAAACAAGGTTGAAGTATCCCTTCAGAAATGAT
Found at i:140904 original size:51 final size:51
Alignment explanation
Indices: 140818--140935 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
140808 TATGGTCTAC
* * * *
140818 ATGTATCGATACATTGAAGAATGTATCGATGCATTTGGGT-TAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTATCAATGCATTTGGGTCAAAAACCCA-A
* * *
140869 ATGTATCGATACAATGAATAATTTATCAATTCATTTGGGTCAAAAACCCAA
1 ATGTATCGATACAATGAAGAATGTATCAATGCATTTGGGTCAAAAACCCAA
*
140920 AGTATATCGATACAAT
1 A-TGTATCGATACAAT
140936 TGAAATGTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.65
52 20 0.35
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCAATGCATTTGGGTCAAAAACCCAA
Found at i:141036 original size:20 final size:20
Alignment explanation
Indices: 141011--141070 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
141001 ACATTTTAGA
141011 CATGTATCATTACATTCACT
1 CATGTATCATTACATTCACT
141031 CATGTATCATTACATTCACT
1 CATGTATCATTACATTCACT
141051 CATGTATCGA-TACATTCACT
1 CATGTATC-ATTACATTCACT
141071 TATTGTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 38 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (20 bp):
CATGTATCATTACATTCACT
Found at i:142571 original size:21 final size:20
Alignment explanation
Indices: 142528--142571 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
142518 AAAACTTGGG
*
142528 ATTGCAATTGTATGAATAGA
1 ATTGCAATTGTATGAATACA
142548 ATTGCATATTGTATCG-ATACA
1 ATTGCA-ATTGTAT-GAATACA
142569 ATT
1 ATT
142572 TAAAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 14 0.67
22 1 0.05
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTGCAATTGTATGAATACA
Found at i:144169 original size:60 final size:58
Alignment explanation
Indices: 144092--144252 Score: 164
Period size: 60 Copynumber: 2.7 Consensus size: 58
144082 TCTTATGATG
*
144092 TTAGTCA-CTTTCCATGACTTAAGGATTTTTATGAGATTTCATGCATTTTTTATGTCTTT
1 TTAGTCATC-TTCCATGACTTAAGGATTTTTATGAGATTTCATGCATTTTTT-TGTCATT
* ** * * *
144151 CTTAGTCATTTTTTATGACTT-GGAGATTTTTATGACATTTCATGTATTTTTTTGTCATT
1 -TTAGTCATCTTCCATGACTTAAG-GATTTTTATGAGATTTCATGCATTTTTTTGTCATT
* * * **
144210 TTAGTTATCTTCCATTACTTAAGGACTTTTATTTGATTTCATG
1 TTAGTCATCTTCCATGACTTAAGGATTTTTATGAGATTTCATG
144253 AGTTTTGATA
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
58 31 0.38
59 8 0.10
60 42 0.52
ACGTcount: A:0.22, C:0.12, G:0.13, T:0.53
Consensus pattern (58 bp):
TTAGTCATCTTCCATGACTTAAGGATTTTTATGAGATTTCATGCATTTTTTTGTCATT
Found at i:144334 original size:58 final size:58
Alignment explanation
Indices: 144271--144411 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 58
144261 TATCATCTAT
* * * ** *
144271 GTCATTCTCCATGATCTTGGGACTTTAATGTAATTTTATGAATATTATTGTCAATTAG
1 GTCATTTTCCATGATCTTGGGACTTTAATGCAATTTTATGAATACTAGGGTCAATTAA
* * * * *
144329 GTCATTTTCCATGAT-TTAGAGATTTTTATGCAATTTTGTGAATACTAGGGTCATTTAA
1 GTCATTTTCCATGATCTT-GGGACTTTAATGCAATTTTATGAATACTAGGGTCAATTAA
* *
144387 GTCATTTTCTATGATCTAGGGACTT
1 GTCATTTTCCATGATCTTGGGACTT
144412 CCATACAATT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
57 2 0.03
58 63 0.95
59 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (58 bp):
GTCATTTTCCATGATCTTGGGACTTTAATGCAATTTTATGAATACTAGGGTCAATTAA
Found at i:154382 original size:19 final size:19
Alignment explanation
Indices: 154352--154411 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
154342 AAGAACATAG
154352 GAACTAGGCAAAGATTAATA
1 GAACT-GGCAAAGATTAATA
* *
154372 GAACTGGCAAAAACTAATA
1 GAACTGGCAAAGATTAATA
*
154391 AAACTGGCAAAG-TCTAATA
1 GAACTGGCAAAGAT-TAATA
154410 GA
1 GA
154412 CACAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (19 bp):
GAACTGGCAAAGATTAATA
Found at i:155150 original size:135 final size:132
Alignment explanation
Indices: 154857--155178 Score: 311
Period size: 135 Copynumber: 2.4 Consensus size: 132
154847 AATAAAGGAC
* * ** * ** *
154857 TAACTTCACTAGTTTTCTACTTGACTAGACAAAGTTGACCAAAAAAAACTTCACCCTTTTTTTTC
1 TAACTTCACTAGTTTCCTAC-TAACTAGATGAAGTTGACAAAAAAAAACTTCACAATTTTTTTGC
* * *
154922 CTAATCAAATGAAGTTAACTCAAAACAGACTCCACCGATTTCTTGCCTAATTGAATAGAACAGAA
65 CTAATCAAATGAAATTAACTCAAAACAGACTCCACCAATTTCTTGCCTAATCGAATAGAACAGAA
154987 GAT
130 GAT
* ** *
154990 TGACTTCACTAGTTTCCTGTTTAACTAGATGAAGTTGATAAAAGAAAAACTTCACAATTTTTTTG
1 TAACTTCACTAGTTTCCT-ACTAACTAGATGAAGTTGACAAAA-AAAAACTTCACAATTTTTTTG
* * ** ** * * * **
155055 CCTAATCAAATGAAATTGACTTAAAATTGACTCCATTAATTTTTTTTCCTGATCGAATAGAATGG
64 CCTAATCAAATGAAATTAACTCAAAACAGACTCCACCAA-TTTCTTGCCTAATCGAATAGAACAG
*
155120 CAGAT
128 AAGAT
* * * *
155125 TAATTTCACTAGTTTCCTAACTAACTACATGAAGCTAACAAAAAAAAAACTTCA
1 TAACTTCACTAGTTTCCT-ACTAACTAGATGAAGTTGAC-AAAAAAAAACTTCA
155179 TCGATTTCCT
Statistics
Matches: 149, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
133 33 0.22
134 49 0.33
135 63 0.42
136 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (132 bp):
TAACTTCACTAGTTTCCTACTAACTAGATGAAGTTGACAAAAAAAAACTTCACAATTTTTTTGCC
TAATCAAATGAAATTAACTCAAAACAGACTCCACCAATTTCTTGCCTAATCGAATAGAACAGAAG
AT
Found at i:155872 original size:56 final size:59
Alignment explanation
Indices: 155769--155882 Score: 137
Period size: 56 Copynumber: 2.0 Consensus size: 59
155759 ATCCTCAATT
* * *
155769 GAGGCTTGTAAAACCTTTTTAAAACATTTTCAAGAAAGGGTGTTGAAAT-TCCTAAAAA
1 GAGGCTTGTAAAACCTTCTTAAAACATTCTCAAGAAAGAGTGTTGAAATCTCCTAAAAA
* * *
155827 GAGG-TTGTAAAATC-TCTTAAAACATTCTCAAGTAAAGATTG-TGAAATCTCTTAAAA
1 GAGGCTTGTAAAACCTTCTTAAAACATTCTCAAG-AAAGAGTGTTGAAATCTCCTAAAA
155883 TATCTTCAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
56 22 0.46
57 22 0.46
58 4 0.08
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (59 bp):
GAGGCTTGTAAAACCTTCTTAAAACATTCTCAAGAAAGAGTGTTGAAATCTCCTAAAAA
Found at i:155874 original size:34 final size:33
Alignment explanation
Indices: 155836--156157 Score: 258
Period size: 34 Copynumber: 9.5 Consensus size: 33
155826 AGAGGTTGTA
* *
155836 AAATCTCTTAAAACAT-TCTCAAGTAAAGATTGTG
1 AAATCTCTTAAAACATCT-TCAAG-AAAGCTTATG
* * *
155870 AAATCTCTTAAAATATCTTCAAGAGAGACTTGTG
1 AAATCTCTTAAAACATCTTCAAGAAAG-CTTATG
* * *
155904 AAATCTTTTAAAATATCTTCAGGAAAGGCTTATG
1 AAATCTCTTAAAACATCTTCAAGAAA-GCTTATG
* * *
155938 AAATTTCTAAAAACAT-TATCAAGAGAGGCTTATG
1 AAATCTCTTAAAACATCT-TCAAGA-AAGCTTATG
* * *
155972 AAATCTCTTAAAATATCTTTAAGATAAGCTTACG
1 AAATCTCTTAAAACATCTTCAAGA-AAGCTTATG
* *
156006 AAATCTCTTAGAACATCTTTAAGAGAAGCTTATG
1 AAATCTCTTAAAACATCTTCAAGA-AAGCTTATG
* *
156040 AAATCTCTCAAAACAACCTT-AAGAAAAGCTTATG
1 AAATCTCTTAAAAC-ATCTTCAAG-AAAGCTTATG
* * **
156074 AAATCTCTTAAAACATTCTT-AACAGAGGCTTAAA
1 AAATCTCTTAAAACA-TCTTCAAGA-AAGCTTATG
* * **
156108 AAATCTGTTAAAACA-CCTCAAGAAAGGCTTACA
1 AAATCTCTTAAAACATCTTCAAGAAA-GCTTATG
156141 AAATCTCTTAAAACATC
1 AAATCTCTTAAAACATC
156158 CTTAAGAGAT
Statistics
Matches: 236, Mismatches: 39, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
32 3 0.01
33 29 0.12
34 195 0.83
35 9 0.04
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (33 bp):
AAATCTCTTAAAACATCTTCAAGAAAGCTTATG
Found at i:157494 original size:21 final size:20
Alignment explanation
Indices: 157468--157518 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
157458 TTATACAATT
157468 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* * *
157489 TGTATCAATACATAAGTGAA
1 TGTATCGATACAAAAGTAAA
157509 TGTATCGATA
1 TGTATCGATA
157519 TATGCCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:157512 original size:20 final size:21
Alignment explanation
Indices: 157468--157514 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
157458 TTATACAATT
*
157468 TGTATCGATACAAATAGTAAA
1 TGTATCAATACAAATAGTAAA
* *
157489 TGTATCAATACATA-AGTGAA
1 TGTATCAATACAAATAGTAAA
157509 TGTATC
1 TGTATC
157515 GATATATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (21 bp):
TGTATCAATACAAATAGTAAA
Found at i:157706 original size:16 final size:16
Alignment explanation
Indices: 157685--157715 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
157675 TACATTTTTT
157685 AATGTATCGATACACA
1 AATGTATCGATACACA
157701 AATGTATCGATACAC
1 AATGTATCGATACAC
157716 GCAAGTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (16 bp):
AATGTATCGATACACA
Found at i:158993 original size:22 final size:24
Alignment explanation
Indices: 158948--158997 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
158938 CCATCATCCT
**
158948 TTTTATGTATTTTTGTGTTCGTTA
1 TTTTATGTAAATTTGTGTTCGTTA
158972 TTTTATGTAAATTTGT-TT-GTTA
1 TTTTATGTAAATTTGTGTTCGTTA
158994 TTTT
1 TTTT
158998 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 2 0.08
24 14 0.58
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (24 bp):
TTTTATGTAAATTTGTGTTCGTTA
Found at i:159969 original size:20 final size:20
Alignment explanation
Indices: 159944--159997 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
159934 GTTAGAAGCA
159944 ATGTATCGATACAA--TTCATC
1 ATGTATCGATACAATGTTC--C
*
159964 ATGTATCGATATAATGTTCC
1 ATGTATCGATACAATGTTCC
159984 ATGTATCGATACAA
1 ATGTATCGATACAA
159998 ACTGTGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 27 0.90
22 3 0.10
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTTCC
Found at i:168607 original size:33 final size:33
Alignment explanation
Indices: 168561--168628 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
168551 CGTTAGAAGT
* *
168561 AATGTATCGATACAAT-TCATCATGTATCGATAC
1 AATGTATCAATACAATAT-ACCATGTATCGATAC
168594 AATGTATCAATACAATATACCATGTATCGATAC
1 AATGTATCAATACAATATACCATGTATCGATAC
168627 AA
1 AA
168629 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (33 bp):
AATGTATCAATACAATATACCATGTATCGATAC
Found at i:168613 original size:20 final size:20
Alignment explanation
Indices: 168590--168628 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
168580 TCATGTATCG
168590 ATACAATGTATCAATACAAT
1 ATACAATGTATCAATACAAT
* *
168610 ATACCATGTATCGATACAA
1 ATACAATGTATCAATACAA
168629 ACAGTGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (20 bp):
ATACAATGTATCAATACAAT
Found at i:174884 original size:22 final size:24
Alignment explanation
Indices: 174854--174897 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
174844 CCTCTCAATC
174854 TCTTCAAGA-ATTATAACCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
*
174877 TCTT-AAGAGATTGTAACCCAA
1 TCTTCAAGAGATTATAACCCAA
174898 GGTTGAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:176305 original size:40 final size:40
Alignment explanation
Indices: 176216--176306 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
176206 AAAGGAAATG
* *
176216 TATTGCATTCAATGACATGATTTTATTAATCAACAAGATA
1 TATTGCATTTAATGACATGATTTTATCAATCAACAAGATA
* * *
176256 TATTGCATTTAATGACATGCTTTTATCAATTAATAAGATA
1 TATTGCATTTAATGACATGATTTTATCAATCAACAAGATA
*
176296 TATTACATTTA
1 TATTGCATTTA
176307 CGTAGACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (40 bp):
TATTGCATTTAATGACATGATTTTATCAATCAACAAGATA
Found at i:181661 original size:33 final size:32
Alignment explanation
Indices: 181619--181686 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
181609 CGTTACAAGC
181619 CAATGTATCGATACAT-TTGGTCATATATCGATA
1 CAATGTATCGATACATCTT-GT-ATATATCGATA
*
181652 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATATATCGATA
181684 CAA
1 CAA
181687 GCAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATATATCGATA
Found at i:181755 original size:13 final size:13
Alignment explanation
Indices: 181737--181761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
181727 TACAGTGGTC
181737 ATGTATCGATACA
1 ATGTATCGATACA
181750 ATGTATCGATAC
1 ATGTATCGATAC
181762 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:181779 original size:33 final size:32
Alignment explanation
Indices: 181720--181782 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
181710 ATCTTTGCAA
*
181720 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
181752 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
181783 TCTGCAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:190458 original size:13 final size:13
Alignment explanation
Indices: 190440--190464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190430 TACTATGGTC
190440 ATGTATCGATACA
1 ATGTATCGATACA
190453 ATGTATCGATAC
1 ATGTATCGATAC
190465 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:190482 original size:33 final size:32
Alignment explanation
Indices: 190423--190485 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
190413 ATCTTTGCAA
*
190423 GTATCGATACTATGGTCATGTATCGATACAAT
1 GTATCGATACTATGATCATGTATCGATACAAT
* *
190455 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACTATG-ATCATGTATCGATACA
190486 GCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (32 bp):
GTATCGATACTATGATCATGTATCGATACAAT
Found at i:192725 original size:13 final size:13
Alignment explanation
Indices: 192707--192732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192697 CAATTTTTTG
192707 TGTATCGATACAT
1 TGTATCGATACAT
192720 TGTATCGATACAT
1 TGTATCGATACAT
192733 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:195297 original size:13 final size:13
Alignment explanation
Indices: 195279--195304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
195269 ATAATCACCC
195279 TGTATCGATACAA
1 TGTATCGATACAA
195292 TGTATCGATACAA
1 TGTATCGATACAA
195305 AGAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:197403 original size:15 final size:15
Alignment explanation
Indices: 197383--197413 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
197373 ATTTCGTTTG
*
197383 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
197398 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
197413 G
1 G
197414 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:199247 original size:21 final size:21
Alignment explanation
Indices: 199218--199262 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
199208 AAGTTTTCAT
*
199218 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
199238 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
199260 TTT
1 TTT
199263 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:201501 original size:13 final size:13
Alignment explanation
Indices: 201483--201508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
201473 CAATTTTTTG
201483 TGTATCGATACAT
1 TGTATCGATACAT
201496 TGTATCGATACAT
1 TGTATCGATACAT
201509 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:204047 original size:20 final size:20
Alignment explanation
Indices: 204022--204059 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
204012 TACTGCTAGT
204022 TTCATGTATCGATATAATTC
1 TTCATGTATCGATATAATTC
204042 TTCATGTATCGATATAAT
1 TTCATGTATCGATATAAT
204060 GAGCATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
TTCATGTATCGATATAATTC
Found at i:204068 original size:19 final size:20
Alignment explanation
Indices: 204024--204070 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
204014 CTGCTAGTTT
**
204024 CATGTATCGATATAATTCTT
1 CATGTATCGATATAATTCAG
*
204044 CATGTATCGATATAA-TGAG
1 CATGTATCGATATAATTCAG
204063 CATGTATC
1 CATGTATC
204071 AATACAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
CATGTATCGATATAATTCAG
Found at i:204554 original size:42 final size:39
Alignment explanation
Indices: 204494--204683 Score: 114
Period size: 43 Copynumber: 4.6 Consensus size: 39
204484 ACTTTTTTTT
* *
204494 CTTTTTTCCTTTGCCCTTAAGGAGCAAGGC-CCATTTCATTCTC
1 CTTTTTT-CTTTGTCCTTAAGGAGCAAGACACC-TTT-A-TC-C
* * *
204537 CTTTTTTCTTTATCCTTAAAGAGCATGACACCTTTATCC
1 CTTTTTTCTTTGTCCTTAAGGAGCAAGACACCTTTATCC
* * *
204576 CTTTTTCTCTTTGTCCTTAAGGAGCATGATGCATTCTTTTTTTCC
1 CTTTTT-TCTTTGTCCTTAAGGAGCAAGA--CA--C-CTTTATCC
* * * *
204621 C-TTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCC
1 CTTTTTTCTTTGTCCTTAAGGAGCAAGACAC-CTTTAT-CC
** *
204661 CTTTTCCCTTTGTCCTCAAGGAG
1 CTTTTTTCTTTGTCCTTAAGGAG
204684 TATGATGCAT
Statistics
Matches: 118, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
39 11 0.09
40 25 0.21
41 20 0.17
42 22 0.19
43 28 0.24
44 5 0.04
45 7 0.06
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (39 bp):
CTTTTTTCTTTGTCCTTAAGGAGCAAGACACCTTTATCC
Found at i:204594 original size:40 final size:40
Alignment explanation
Indices: 204536--204676 Score: 115
Period size: 40 Copynumber: 3.4 Consensus size: 40
204526 ATTTCATTCT
*
204536 CCTTTTTTCTTTATCCTTAAAGAGCATGACAC-CTTTATC
1 CCTTTTTTCTTTGTCCTTAAAGAGCATGACACACTTTATC
* ** *
204575 CCTTTTTCTCTTTGTCCTTAAGGAGCATGATGCATTCTTTTTTTC
1 CCTTTTT-TCTTTGTCCTTAAAGAGCATGA--CA--CACTTTATC
* * * *
204620 CC-TTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCC
1 CCTTTTTTCTTTGTCCTTAAAGAGCATGACACACTTTAT-C
**
204660 CCTTTTCCCTTTGTCCT
1 CCTTTTTTCTTTGTCCT
204677 CAAGGAGTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
39 11 0.14
40 23 0.29
41 13 0.16
42 2 0.03
43 19 0.24
44 5 0.06
45 7 0.09
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.44
Consensus pattern (40 bp):
CCTTTTTTCTTTGTCCTTAAAGAGCATGACACACTTTATC
Found at i:204644 original size:43 final size:42
Alignment explanation
Indices: 204578--204905 Score: 211
Period size: 43 Copynumber: 7.8 Consensus size: 42
204568 CTTTATCCCT
* * *
204578 TTTTCTCTTTGTCCTTAAGGAGCATGATGCATTCTTTTTTTCCC
1 TTTT-TCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTT-CC
* * ** **
204622 TTTTTCTTTGTCCTCAAAGAGCAAGACGCA--CTTAATCCCC
1 TTTTTCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
* * * * *
204662 TTTTCCCTTTGTCCTCAAGGAGTATGATGCATTCCTTTTTTCC
1 TTTT-TCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
* * * * *
204705 TTCTTCCTTTATCCTTAAGGAGCAGGACACACTTAC-TCTTTT--
1 TT-TTTCTTTGTCCTCAAGGAGCAGGACGCA-TT-CTTTTTTTCC
** * * * *
204747 TTTCCCTTTGTCCTCATGAAGCAGGACGTATTCCTTTTTTCC
1 TTTTTCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
* * *
204789 TTTTTCCTTTGTCCTGAAGGAGCAGGATGCA--CTTTATTTCC
1 TTTTT-CTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
* * * *
204830 TTTTCTCTTTGTCCTTAAAGAGTAGGACGCATTCATTTTTTCC
1 TTTT-TCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
* * *
204873 TTTCTCCTTTGTCCTCAAGAAGCAGGACCCATT
1 TTT-TTCTTTGTCCTCAAGGAGCAGGACGCATT
204906 TCATTCTTCT
Statistics
Matches: 216, Mismatches: 54, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
39 1 0.00
40 13 0.06
41 79 0.37
42 6 0.03
43 102 0.47
44 14 0.06
45 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (42 bp):
TTTTTCTTTGTCCTCAAGGAGCAGGACGCATTCTTTTTTTCC
Found at i:204666 original size:84 final size:83
Alignment explanation
Indices: 204539--204900 Score: 314
Period size: 84 Copynumber: 4.3 Consensus size: 83
204529 TCATTCTCCT
* * * * * * * *
204539 TTTTTCTTTATCCTTAAAGAGCATGACAC-CTTTATCCCTTTTTCTCTTTGTCCTTAAGGAGCAT
1 TTTTTCTTTGTCCTCAAAGAGCAGGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCAG
* *
204603 GATGCATTCTTTTTTTCCC
66 GACGCATTCCTTTTTT-CC
* * * *
204622 TTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGTAT
1 TTTTTCTTTGTCCTCAAAGAGCAGGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCAG
*
204687 GATGCATTCCTTTTTTCC
66 GACGCATTCCTTTTTTCC
* * * * * *** * *
204705 TTCTTCCTTTATCCTTAAGGAGCAGGACACACTTACTCTTTTTTTCCCTTTGTCCTCATGAAGCA
1 TT-TTTCTTTGTCCTCAAAGAGCAGGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCA
*
204770 GGACGTATTCCTTTTTTCC
65 GGACGCATTCCTTTTTTCC
* * ** * ** * * * *
204789 TTTTTCCTTTGTCCTGAAGGAGCAGGATGCACTTTATTTCCTTTTCTCTTTGTCCTTAAAGAGTA
1 TTTTT-CTTTGTCCTCAAAGAGCAGGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCA
*
204854 GGACGCATTCATTTTTTCC
65 GGACGCATTCCTTTTTTCC
*
204873 TTTCTCCTTTGTCCTC-AAGAAGCAGGAC
1 TTT-TTCTTTGTCCTCAAAG-AGCAGGAC
204901 CCATTTCATT
Statistics
Matches: 226, Mismatches: 48, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
83 33 0.15
84 192 0.85
85 1 0.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (83 bp):
TTTTTCTTTGTCCTCAAAGAGCAGGACACACTTAATCCCCTTTTCCCTTTGTCCTCAAGGAGCAG
GACGCATTCCTTTTTTCC
Found at i:204834 original size:168 final size:166
Alignment explanation
Indices: 204539--204900 Score: 404
Period size: 168 Copynumber: 2.2 Consensus size: 166
204529 TCATTCTCCT
* * * * * * *
204539 TTTTTCTTTATCCTTAAAGAGCATGACACCTTTATCCCTTTTTCTCTTTGTCCTTAAGGAGCATG
1 TTTTCCTTTATCCTTAAGGAGCAGGACACCTTTATCCCTTTTTCCCTTTGTCCTCAAGAAGCAGG
* *
204604 ATGCATTCTTTTTTTCCCTTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTTTCCC
66 ACGCATTCCTTTTTTCCCTTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTTTCCC
* * * *
204669 TTTGTCCTCAAGGAGTATGATGCATTCCTTTTTTCC
131 TTTGTCCTCAAAGAGTAGGACGCATTCATTTTTTCC
** *
204705 TTCTTCCTTTATCCTTAAGGAGCAGGACACAC-TTACTCTTTTTTTCCCTTTGTCCTCATGAAGC
1 TT-TTCCTTTATCCTTAAGGAGCAGGACAC-CTTTA-TCCCTTTTTCCCTTTGTCCTCAAGAAGC
* * * * * * **
204769 AGGACGTATTCCTTTTTT-CCTTTTTCCTTTGTCCTGAAGGAGCAGGATGCACTTTATTTCCTTT
63 AGGACGCATTCCTTTTTTCCCTTTTT-CTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTT
* *
204833 TCTCTTTGTCCTTAAAGAGTAGGACGCATTCATTTTTTCC
127 TCCCTTTGTCCTCAAAGAGTAGGACGCATTCATTTTTTCC
* * *
204873 TTTCTCCTTTGTCCTCAAGAAGCAGGAC
1 TTT-TCCTTTATCCTTAAGGAGCAGGAC
204901 CCATTTCATT
Statistics
Matches: 162, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
166 2 0.01
167 35 0.22
168 125 0.77
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (166 bp):
TTTTCCTTTATCCTTAAGGAGCAGGACACCTTTATCCCTTTTTCCCTTTGTCCTCAAGAAGCAGG
ACGCATTCCTTTTTTCCCTTTTTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTTTCCC
TTTGTCCTCAAAGAGTAGGACGCATTCATTTTTTCC
Found at i:204953 original size:84 final size:83
Alignment explanation
Indices: 204608--204964 Score: 267
Period size: 84 Copynumber: 4.3 Consensus size: 83
204598 AGCATGATGC
* * * * * * **
204608 ATTCTTTTTTTCCCTTT-TTCTTTGTCCTCAAAGAGCAAGACGCACTTAATCCCCTTTTCCCTTT
1 ATTC-TTTTTT-CCTTTCTCCTTTGTCCTCAAGGAGCAGGACACATTTATTCTTCTTTTCCCTTT
* ** * * *
204672 GTCCTCAAGGAGTATGATGC
64 GTCCTCAAAGAACAGGACGT
* * * * *
204692 ATTCCTTTTTTCC-TTCTTCCTTTATCCTTAAGGAGCAGGACACACTTACTCTTTTTTTCCCTTT
1 ATT-CTTTTTTCCTTTC-TCCTTTGTCCTCAAGGAGCAGGACACATTTATTCTTCTTTTCCCTTT
*
204756 GTCCTC-ATGAAGCAGGACGT
64 GTCCTCAAAGAA-CAGGACGT
* * * *
204776 ATTCCTTTTTTCCTTTTTCCTTTGTCCTGAAGGAGCAGGATGCAC-TTTATT-TCCTTTTCTCTT
1 ATT-CTTTTTTCCTTTCTCCTTTGTCCTCAAGGAGCAGGA--CACATTTATTCTTCTTTTCCCTT
* ** *
204839 TGTCCTTAAAGAGTAGGACGC
63 TGTCCTCAAAGAACAGGACGT
* * *
204860 ATTCATTTTTTCCTTTCTCCTTTGTCCTCAAGAAGCAGGACCCATTTCATTCTTCTTTTCCCCTT
1 ATTC-TTTTTTCCTTTCTCCTTTGTCCTCAAGGAGCAGGACACATTT-ATTCTTCTTTTCCCTTT
* *
204925 GCCCTCAAAGAACAGGACAT
64 GTCCTCAAAGAACAGGACGT
* *
204945 ACTC-TTTTTCCTTTGTCCTT
1 ATTCTTTTTTCCTTTCTCCTT
204965 AAAGAGCAGG
Statistics
Matches: 217, Mismatches: 44, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
82 4 0.02
83 24 0.11
84 149 0.69
85 37 0.17
86 3 0.01
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (83 bp):
ATTCTTTTTTCCTTTCTCCTTTGTCCTCAAGGAGCAGGACACATTTATTCTTCTTTTCCCTTTGT
CCTCAAAGAACAGGACGT
Found at i:205126 original size:31 final size:31
Alignment explanation
Indices: 205088--205732 Score: 415
Period size: 31 Copynumber: 20.9 Consensus size: 31
205078 CCTTAAAATA
*
205088 TCAAAGCCCATACGAGTTGGTGGCACCCTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* * ** * *
205119 TCAAAGCCCACACAAATTGGTGATACTCGAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* * *
205150 TCTAAGCCCACATGAGTTGGTAGCACCCTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* ** *** *
205181 TCAAAG-CCAGCACAAGTTGGCAGCACTGGAA
1 TCAAAGCCCA-CACGAGTTGGTGGCACCCTAG
205212 TCTAAA-CCCACACGAGTTGGTGGCACCCTAG
1 TC-AAAGCCCACACGAGTTGGTGGCACCCTAG
* * * *
205243 TTAAAGCCCATACGAGTTAGTGGCA-CCTTG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* ** ** *
205273 TCAAAACCTGCATAAGTTGGTGGCACCCGAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* ** *
205304 TCTAAGCTTACACGAGTTGGTGGCACCGTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* *
205335 -CTAAAGCCCACACGAGTTGGCGGCACCGTAG
1 TC-AAAGCCCACACGAGTTGGTGGCACCCTAG
* * * * *
205366 TCAAGGCCCGCA-TAGGTTGGTGGCACTCGAG
1 TCAAAGCCCACACGA-GTTGGTGGCACCCTAG
* * * *
205397 TCTAAGCCCACACGAGTTGGTAGTACCCTAT
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* *** * ***
205428 TCAAAGCCCGCAC-AGGTTACCGACACTAGAG
1 TCAAAGCCCACACGA-GTTGGTGGCACCCTAG
205459 T-AGAAGCCCACACGAGTTGGTGGCACCCTAG
1 TCA-AAGCCCACACGAGTTGGTGGCACCCTAG
* ** * * *
205490 TCAAAGGCTGCACAAGTTGGCGGCACCCGA-
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* ** *
205520 TCTAAGCCTGCACGAGTTGGTGGCACCTTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
** * * *
205551 TCAAAGCCTGCATGAGTTGGTGGCACCTTAA
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
** * *
205582 TCAAAGCCCGTACAAGTTGGCGGCACCCTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* * *
205613 TCAAAGCCTACACGAGTTGGTGGAACCTTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* * * *
205644 TCAAAGCTCATATGAGTAGGTGGCACCCTAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
** ** ** *
205675 TCAAAGCCTGCATAAGTTGGCAGCACCCGAG
1 TCAAAGCCCACACGAGTTGGTGGCACCCTAG
* *
205706 TCAAAGCCCACACAAATTGGTGGCACC
1 TCAAAGCCCACACGAGTTGGTGGCACC
205733 TAAGTCCGAG
Statistics
Matches: 456, Mismatches: 144, Indels: 28
0.73 0.23 0.04
Matches are distributed among these distances:
30 55 0.12
31 391 0.86
32 10 0.02
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.20
Consensus pattern (31 bp):
TCAAAGCCCACACGAGTTGGTGGCACCCTAG
Found at i:205715 original size:247 final size:246
Alignment explanation
Indices: 205086--205732 Score: 685
Period size: 247 Copynumber: 2.6 Consensus size: 246
205076 AACCTTAAAA
* *
205086 TATCAAAGCCCATACGAGTTGGTGGCACCCTAGTCAAAGCCCACACAAATTGGT-GATACTCGAG
1 TATCAAAGCCCATACGAGTTGGCGGCACCCTAGTCAAAGCCCACACAAGTTGGTGGA-ACTCGAG
* *
205150 TCTAAGCCCACATGAGTTGGTAGCACCCTAGTCAAAGCCAGCACAAGTTGGCAGCACTGGAATCT
65 TCTAAGCCCACATGAGTTGGTAGCACCCTAGTCAAAGCCAGCACAAGTTGGCAGCACTAGAGTC-
* * * * *
205215 AAA-CCCACACGAGTTGGTGGCACCCTAGTTAAAGCCCATACGAGTTAGTGGCACCTTGTCAAAA
129 AAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACAAGTTAGCGGCACCTCGTCAAAA
* * *
205279 CCTGCATAAGTTGGTGGCACCCGAGTCTAAGCTTACACGAGTTGGTGGCACCG
194 CCTGCACAAGTTGGTGGCACCCGAGTCAAAGCCTACACGAGTTGGTGGCACCG
* * * * * * * *
205332 TAGCTAAAGCCCACACGAGTTGGCGGCACCGTAGTCAAGGCCCGCATAGGTTGGTGGCACTCGAG
1 TATC-AAAGCCCATACGAGTTGGCGGCACCCTAGTCAAAGCCCACACAAGTTGGTGGAACTCGAG
* * * * * * *
205397 TCTAAGCCCACACGAGTTGGTAGTACCCTATTCAAAGCCCGCACAGGTT-ACCGACACTAGAGT-
65 TCTAAGCCCACATGAGTTGGTAGCACCCTAGTCAAAGCCAGCACAAGTTGGCAG-CACTAGAGTC
* ** * *
205460 AGAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGGCTGCACAAGTTGGCGGCACC-CGATCTA
129 A-AAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACAAGTTAGCGGCACCTCG-TCAA
* * ** * * *
205524 AGCCTGCACGAGTTGGTGGCACCTTAGTCAAAGCCTGCATGAGTTGGTGGCACCT
192 AACCTGCACAAGTTGGTGGCACCCGAGTCAAAGCCTACACGAGTTGGTGGCACCG
* * * * *
205579 TAATCAAAGCCCGTACAAGTTGGCGGCACCCTAGTCAAAGCCTACACGAGTTGGTGGAAC-CTTA
1 T-ATCAAAGCCCATACGAGTTGGCGGCACCCTAGTCAAAGCCCACACAAGTTGGTGGAACTC-GA
* * * * * * * **
205643 GTCAAAGCTCATATGAGTAGGTGGCACCCTAGTCAAAGCCTGCATAAGTTGGCAGCACCCGAGTC
64 GTCTAAGCCCACATGAGTTGGTAGCACCCTAGTCAAAGCCAGCACAAGTTGGCAGCACTAGAGTC
* *
205708 AAAGCCCACACAAATTGGTGGCACC
129 AAAGCCCACACGAGTTGGTGGCACC
205733 TAAGTCCGAG
Statistics
Matches: 322, Mismatches: 69, Indels: 19
0.79 0.17 0.05
Matches are distributed among these distances:
245 1 0.00
246 9 0.03
247 306 0.95
248 6 0.02
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.20
Consensus pattern (246 bp):
TATCAAAGCCCATACGAGTTGGCGGCACCCTAGTCAAAGCCCACACAAGTTGGTGGAACTCGAGT
CTAAGCCCACATGAGTTGGTAGCACCCTAGTCAAAGCCAGCACAAGTTGGCAGCACTAGAGTCAA
AGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACAAGTTAGCGGCACCTCGTCAAAACC
TGCACAAGTTGGTGGCACCCGAGTCAAAGCCTACACGAGTTGGTGGCACCG
Found at i:209073 original size:13 final size:13
Alignment explanation
Indices: 209055--209080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
209045 CATTTTTTGG
209055 TGTATCGATACAT
1 TGTATCGATACAT
209068 TGTATCGATACAT
1 TGTATCGATACAT
209081 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:209095 original size:32 final size:33
Alignment explanation
Indices: 209035--209098 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
209025 TACAAGCTAA
**
209035 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
209068 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
209099 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:211549 original size:13 final size:13
Alignment explanation
Indices: 211531--211569 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
211521 ATAAACCCCC
*
211531 TGTATCGATACAG
1 TGTATCGATACAA
211544 TGTATCGATACAA
1 TGTATCGATACAA
211557 TGTATCGATACAA
1 TGTATCGATACAA
211570 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:211581 original size:20 final size:20
Alignment explanation
Indices: 211556--211635 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 20
211546 TATCGATACA
*
211556 ATGTATCGATACAAAGAAAG
1 ATGTATCGATACATAGAAAG
*
211576 ATGTATCGATACATTGAATTTTCCAG
1 ATGTATCGATACATAGAA------AG
*
211602 ATGTATCGATACATAGAAAC
1 ATGTATCGATACATAGAAAG
211622 ATGTATCGATACAT
1 ATGTATCGATACAT
211636 TTTGGAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 31 0.62
26 19 0.38
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATAGAAAG
Found at i:218738 original size:15 final size:15
Alignment explanation
Indices: 218718--218748 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
218708 TAAAAATGTC
*
218718 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
218733 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
218748 C
1 C
218749 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:220787 original size:20 final size:20
Alignment explanation
Indices: 220762--220841 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
220752 AATGTCCAAA
220762 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
220782 ATGTATCGATACATACTGGAAATTCA
1 ATGTATCGATAC--A-T-G--TTTCT
*
220808 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
220828 TTGTATCGATACAT
1 ATGTATCGATACAT
220842 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 28 0.58
22 1 0.02
23 2 0.04
24 2 0.04
26 15 0.31
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:220846 original size:13 final size:13
Alignment explanation
Indices: 220828--220866 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
220818 ACATTTTTCT
220828 TTGTATCGATACA
1 TTGTATCGATACA
220841 TTGTATCGATACA
1 TTGTATCGATACA
* *
220854 CTGTATCAATACA
1 TTGTATCGATACA
220867 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:221007 original size:20 final size:19
Alignment explanation
Indices: 220966--221008 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
220956 ATCTTTTACA
220966 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
220986 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
221006 AAA
1 AAA
221009 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:227669 original size:13 final size:13
Alignment explanation
Indices: 227651--227676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
227641 CATTTTTTGG
227651 TGTATCGATACAT
1 TGTATCGATACAT
227664 TGTATCGATACAT
1 TGTATCGATACAT
227677 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:227691 original size:32 final size:33
Alignment explanation
Indices: 227631--227694 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
227621 TACAAGCTAA
**
227631 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
227664 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
227695 AGTTTCGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:227799 original size:20 final size:20
Alignment explanation
Indices: 227747--227801 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
227737 CATCTTTTTC
* *
227747 ATGTATCGATACATTGCACT
1 ATGTATCGATACTTTGAACT
*
227767 ATGTATCGATACTTTGAATT
1 ATGTATCGATACTTTGAACT
227787 ATGTATCGATACTTT
1 ATGTATCGATACTTT
227802 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACTTTGAACT
Found at i:229517 original size:52 final size:53
Alignment explanation
Indices: 229444--229684 Score: 150
Period size: 52 Copynumber: 4.5 Consensus size: 53
229434 AGGGTGCTGT
* *
229444 TATACTGATTCACA-ACTAGCGATATTAAACTTAAAGATGA-AAAGAATGCCAA
1 TATACTGATTCA-AGGCCAGCGATATTAAACTTAAAGATGACAAAGAATGCCAA
* * * * * * * * *
229496 TATGCTGATTCAAGGCCAGCGACATCAAACTTAAAAATTA-GAAGAATACTAG
1 TATACTGATTCAAGGCCAGCGATATTAAACTTAAAGATGACAAAGAATGCCAA
* * * * * * *
229548 TGTGCTGATTCAAGGCCAGCGACATTGAGCTT-AAGAATGATAAAGACTGCCAA
1 TATACTGATTCAAGGCCAGCGATATTAAACTTAAAG-ATGACAAAGAATGCCAA
* * * * *
229601 TACACTAATTCAAGGCCAATGCCAATGATATTAGACTTAAAGATGACAAAG-GTGCTAA
1 TATACTGATTCAAGGCC-A-G-C---GATATTAAACTTAAAGATGACAAAGAATGCCAA
* *
229659 TATACTGATTTAAGGCCAACGATATT
1 TATACTGATTCAAGGCCAGCGATATT
229685 GGACTTAAGA
Statistics
Matches: 142, Mismatches: 37, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
51 3 0.02
52 76 0.54
53 20 0.14
54 1 0.01
55 2 0.01
56 1 0.01
57 1 0.01
58 19 0.13
59 16 0.11
60 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (53 bp):
TATACTGATTCAAGGCCAGCGATATTAAACTTAAAGATGACAAAGAATGCCAA
Found at i:229690 original size:52 final size:52
Alignment explanation
Indices: 229621--229728 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
229611 CAAGGCCAAT
* * * * * *
229621 GCCAATGATATTAGACTTAA-AGATGACAAAGGTGCTAATATACTGATTTAAG
1 GCCAACGATATTAGACTTAAGA-AAGAAAAAGGTGCCAATATACTAATTAAAG
* *
229673 GCCAACGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTACTAATTAAAG
1 GCCAACGATATTAGACTTAAGAAAGAAAAAGGTGCCAATATACTAATTAAAG
229725 GCCA
1 GCCA
229729 GGGACATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (52 bp):
GCCAACGATATTAGACTTAAGAAAGAAAAAGGTGCCAATATACTAATTAAAG
Found at i:229913 original size:65 final size:66
Alignment explanation
Indices: 229813--229979 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 66
229803 GAAGGAGATG
* *
229813 CCATCGAC-T-TGTATGAGCTTTTGAAGAGGGTTGCCACCGAATTGTGTGGGCTTTAAAAG-GGG
1 CCATCGACTTATGTA-G-GCTTTTGAAGAGGGTTGCCACCGAATTGTGTAGGCTTT-AAAGCAGG
229875 GTTC
63 GTTC
* * * *
229879 CCATCGATTTTTGTAGGCTTTT-AAGAGGGTTGCCACCGACTTGTGTAGGCTTTAGAGCAGGGTT
1 CCATCGACTTATGTAGGCTTTTGAAGAGGGTTGCCACCGAATTGTGTAGGCTTTAAAGCAGGGTT
*
229943 G
66 C
* * *
229944 CCATCGACTTATGTAGGCTTTAGAAAAAGGTTGCCA
1 CCATCGACTTATGTAGGCTTTTGAAGAGGGTTGCCA
229980 TTGACTTGTG
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 3 0.03
65 53 0.62
66 24 0.28
67 2 0.02
68 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (66 bp):
CCATCGACTTATGTAGGCTTTTGAAGAGGGTTGCCACCGAATTGTGTAGGCTTTAAAGCAGGGTT
C
Found at i:230010 original size:31 final size:31
Alignment explanation
Indices: 229795--230450 Score: 424
Period size: 33 Copynumber: 20.5 Consensus size: 31
229785 CCAACAACAT
* * *
229795 TGGGC-TTAGAAGGAGATGCCATCGACTTGTA
1 TGGGCTTTAGAAGG-GTTGCCACCGACTTGTG
* * *
229826 TGAGCTTTTGAAGAGGGTTGCCACCGAATTGTG
1 TGGGCTTTAG-A-AGGGTTGCCACCGACTTGTG
* * * * *
229859 TGGGCTTTAAAAGGGGGTTCCCATCGATTTTTG
1 TGGGCTTTAGAA--GGGTTGCCACCGACTTGTG
*
229892 TAGGCTTTTA-AGAGGGTTGCCACCGACTTGTG
1 TGGGC-TTTAGA-AGGGTTGCCACCGACTTGTG
* * *
229924 TAGGCTTTAGAGCAGGGTTGCCATCGACTTATG
1 TGGGCTTTAGA--AGGGTTGCCACCGACTTGTG
* * **
229957 TAGGCTTTAGAAAAAGGTTGCCATTGACTTGTG
1 TGGGCTTTAG--AAGGGTTGCCACCGACTTGTG
* *
229990 TGGACTTTAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
* * * * * * *
230021 TAGACTTTAAAAGGG-TGTCACTGACTTTTA
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
* * * * *
230051 TGGACTTGT-GAAAGATCGCCACCAACTTGTG
1 TGGGCTT-TAGAAGGGTTGCCACCGACTTGTG
* * **
230082 TGGACTTAAGAAGAGGTTGCCATTGACTTGTG
1 TGGGCTTTAGAAG-GGTTGCCACCGACTTGTG
* * * * *
230114 TGGGCTTTAGTAGAAGGTTTCCACTGACTTATA
1 TGGGCTTTAG-A-AGGGTTGCCACCGACTTGTG
* *
230147 TGGGCTTTAGTAAGGGTTGCCACCAACTTGTA
1 TGGGCTTTAG-AAGGGTTGCCACCGACTTGTG
* * *
230179 TGGGCTTTCGAAGCGTTGCCATCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
*
230210 TGGGCTTTAGAAGGTAGTTGCCACC-AGCTTGTA
1 TGGGCTTTAGAAGG--GTTGCCACCGA-CTTGTG
* *
230243 CGGGCTTTAGAGAAGGGTTGCAACCGACTTGTG
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTG
* ** * *
230276 TGGGCTTAAGAGAAAAGCTACCACCGACTTGTG
1 TGGGCTT--TAGAAGGGTTGCCACCGACTTGTG
* * * * *
230309 TGAGCTTTAGAGAAGGATTGCCTCTGACTTGTA
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTG
* *
230342 TGGGCTTTAGAAGGGTTGCCACCAACTTATG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
*
230373 TGGGCTTTAGAAGAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAAG-GGTTGCCACCGACTTGTG
* * * *
230405 TGGGCTTTTG-AGCAGTTGCCATCGACTTATG
1 TGGGCTTTAGAAG-GGTTGCCACCGACTTGTG
230436 TGGGCTTTAGAAGGG
1 TGGGCTTTAGAAGGG
230451 AAATGTGCCA
Statistics
Matches: 483, Mismatches: 113, Indels: 58
0.74 0.17 0.09
Matches are distributed among these distances:
30 19 0.04
31 144 0.30
32 97 0.20
33 206 0.43
34 10 0.02
35 7 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
Found at i:230023 original size:97 final size:94
Alignment explanation
Indices: 229795--230450 Score: 406
Period size: 97 Copynumber: 6.8 Consensus size: 94
229785 CCAACAACAT
* * * * * * * *
229795 TGGGC-TTAGAAGGAGATGCCATCGACTTGTATGAGCTTTTGAAGAGGGTTGCCACCGAATTGTG
1 TGGGCTTTAGAAGG-GTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACTGACTTATG
* * * * * * *
229859 TGGGCTTTAAAAGGGGGTTCCCATCGATTTTTG
64 TAGGCTTTAGAA--GGGTTGCCACCAACTTGTG
* *
229892 TAGGCTTTTA-AGAGGGTTGCCACCGACTTGTGTAGGCTTTAGAGCAGGGTTGCCA-TCGACTTA
1 TGGGC-TTTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACT-GACTTA
* ***
229955 TGTAGGCTTTAGAAAAAGGTTGCCATTGACTTGTG
62 TGTAGGCTTTAG--AAGGGTTGCCACCAACTTGTG
* * * * * *
229990 TGGACTTTAGAAGGGTTGCCACCAACTTGTGTAGACTTTA-AAAGGG-TGTCACTGACTT-T-TA
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTATGTA
* * *
230051 TGGACTTGT-GAAAGATCGCCACCAACTTGTG
66 -GG-CTT-TAGAAGGGTTGCCACCAACTTGTG
* * ** * * *
230082 TGGACTTAAGAAGAGGTTGCCATTGACTTGTGTGGGCTTTAGTAGAAGGTTTCCACTGACTTATA
1 TGGGCTTTAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAG-AGAGGGTTGCCACTGACTTATG
* *
230147 TGGGCTTTAGTAAGGGTTGCCACCAACTTGTA
64 TAGGCTTTAG-AAGGGTTGCCACCAACTTGTG
* * * *
230179 TGGGCTTTCGAAGCGTTGCCATCGACTTGTGTGGGCTTTAGA-AGGTAGTTGCCAC-CAGC-T-T
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGG--GTTGCCACTGA-CTTAT
* *
230240 GTACGGGCTTTAGAGAAGGGTTGCAACCGACTTGTG
63 GTA--GGCTTT--AGAAGGGTTGCCACCAACTTGTG
* ** * * * * * *
230276 TGGGCTTAAGAGAAAAGCTACCACCGACTTGTGTGAGCTTTAGAGAAGGATTGCCTCTGACTTGT
1 TGGGCTT--TAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACTGACTTAT
* * *
230341 ATGGGCTTTAGAAGGGTTGCCACCAACTTATG
63 GTAGGCTTTAGAAGGGTTGCCACCAACTTGTG
* *
230373 TGGGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTTGAGCA--GTTGCCA-TCGACTTAT
1 TGGGCTTTAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACT-GACTTAT
*
230435 GTGGGCTTTAGAAGGG
63 GTAGGCTTTAGAAGGG
230451 AAATGTGCCA
Statistics
Matches: 438, Mismatches: 85, Indels: 75
0.73 0.14 0.13
Matches are distributed among these distances:
92 30 0.07
93 26 0.06
94 43 0.10
95 18 0.04
96 80 0.18
97 119 0.27
98 67 0.15
99 46 0.11
100 4 0.01
101 5 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (94 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACTGACTTATGTA
GGCTTTAGAAGGGTTGCCACCAACTTGTG
Found at i:230493 original size:33 final size:32
Alignment explanation
Indices: 230455--230864 Score: 214
Period size: 33 Copynumber: 13.1 Consensus size: 32
230445 GAAGGGAAAT
*
230455 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA-GAAAAAG
* * *
230488 ATGCCACAGAGTTGTGGGCTTAAAAG-----G
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
*
230515 GTGCCACAGAGTTGTGGACTT-----AAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
* * * **
230542 GTGCCATGAAGTTAT-GACTTTAAAAGGGAAAG
1 GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAG
* *
230574 GTGCCACGGGGTTGTGGACTTAAAAAGAAAAAT
1 GTGCCACGGAGTTGTGGACTT-AAAAGAAAAAG
* ** * **
230607 GTACCACTAAGCTGTGGACTTTAAAAGGGAAAG
1 GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAG
* **
230640 ATGCCACAAAGTTGT-GACTTAAAAAGAAAAAGG
1 GTGCCACGGAGTTGTGGACTT-AAAAGAAAAA-G
* * *
230673 GTGCCACAGAGTTATGGACTTTAAAA-AAGAA-
1 GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAG
* * *
230704 -TGCAACGAAGTTGCAGG-CTTTAAAAGAAAAAG
1 GTGCCACGGAGTTG-TGGAC-TTAAAAGAAAAAG
* *
230736 GTGCCACTGAGTTGTGGACTTTAAAGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
* * **
230768 GTGCCATGGAGTTGTGGGCTTTGAAGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
* * * *
230800 GTGCCACAGAATTGTAGG-CTT----TAAAATG
1 GTGCCACGGAGTTGT-GGACTTAAAAGAAAAAG
* *
230828 GTGCTAGGGAGTTGTGGACTTTAAAAGAAAAATG
1 GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAA-G
230862 GTG
1 GTG
230865 GACTTAAAAA
Statistics
Matches: 283, Mismatches: 63, Indels: 61
0.70 0.15 0.15
Matches are distributed among these distances:
26 3 0.01
27 36 0.13
28 17 0.06
29 2 0.01
30 17 0.06
31 8 0.03
32 86 0.30
33 99 0.35
34 13 0.05
35 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (32 bp):
GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
Found at i:230554 original size:27 final size:27
Alignment explanation
Indices: 230482--230547 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
230472 ACTTAAAAGG
* *
230482 AAAAAGATGCCACAGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTGTGGACTT
*
230509 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTGTGGACTT
230536 AAAAAGGTGCCA
1 AAAAAGGTGCCA
230548 TGAAGTTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:230691 original size:66 final size:65
Alignment explanation
Indices: 230536--230809 Score: 215
Period size: 65 Copynumber: 4.2 Consensus size: 65
230526 TTGTGGACTT
* * **
230536 AAAAAGGTGCCA-TGAAGTTAT-GACTTTAAAAGGGAAAGGTGCCACGGGGTTGTGGACTTAAAA
1 AAAAAGGTGCCACAG-AGTTATGGACTTTAAAAGGGAAAGATGCCACGAAGTTGT-GACTTAAAA
230599 AG
64 AG
* * * * *
230601 AAAAATGTACCACTA-AGCTGTGGACTTTAAAAGGGAAAGATGCCACAAAGTTGTGACTTAAAAA
1 AAAAAGGTGCCAC-AGAGTTATGGACTTTAAAAGGGAAAGATGCCACGAAGTTGTGACTTAAAAA
230665 G
65 G
* * * *
230666 AAAAAGGGTGCCACAGAGTTATGGACTTT-AAA---AAAGAATGCAACGAAGTTGCAGGCTTTAA
1 AAAAA-GGTGCCACAGAGTTATGGACTTTAAAAGGGAAAG-ATGCCACGAAGTTG-TGACTTAAA
230727 AAG
63 AAG
* * ** * * * * **
230730 AAAAAGGTGCCACTGAGTTGTGGACTTT-AAAGAAAAAGGTGCCATGGAGTTGTGGGCTT-TGAA
1 AAAAAGGTGCCACAGAGTTATGGACTTTAAAAGGGAAAGATGCCACGAAGTTGT-GACTTAAAAA
230793 G
65 G
230794 AAAAAGGTGCCACAGA
1 AAAAAGGTGCCACAGA
230810 ATTGTAGGCT
Statistics
Matches: 170, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
62 4 0.02
63 36 0.21
64 32 0.19
65 49 0.29
66 49 0.29
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.21
Consensus pattern (65 bp):
AAAAAGGTGCCACAGAGTTATGGACTTTAAAAGGGAAAGATGCCACGAAGTTGTGACTTAAAAAG
Found at i:230763 original size:32 final size:32
Alignment explanation
Indices: 230463--230824 Score: 215
Period size: 32 Copynumber: 11.5 Consensus size: 32
230453 ATGTGCCATG
* *
230463 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
1 GAGTTGTGGACTTTAAA-GAAAAAGGTGCCACA
* *
230496 GAGTTGTGGGC-TT----AAAAGGGTGCCACA
1 GAGTTGTGGACTTTAAAGAAAAAGGTGCCACA
*
230523 GAGTTGTGGAC-TT----AAAAAGGTGCCA-T
1 GAGTTGTGGACTTTAAAGAAAAAGGTGCCACA
* ** *
230549 GAAGTTAT-GACTTTAAAAGGGAAAGGTGCCACG
1 G-AGTTGTGGACTTT-AAAGAAAAAGGTGCCACA
* * * *
230582 GGGTTGTGGACTTAAAAAGAAAAATGTACCACTA
1 GAGTTGTGGACTT-TAAAGAAAAAGGTGCCAC-A
* ** *
230616 -AGCTGTGGACTTTAAAAGGGAAAGATGCCACA
1 GAGTTGTGGACTTT-AAAGAAAAAGGTGCCACA
* *
230648 AAGTTGT-GACTTAAAAAGAAAAAGGGTGCCACA
1 GAGTTGTGGACTT-TAAAGAAAAA-GGTGCCACA
* *
230681 GAGTTATGGACTTTAAA-AAAGAA--TGCAAC-
1 GAGTTGTGGACTTTAAAGAAA-AAGGTGCCACA
* *
230710 GAAGTTGCAGG-CTTTAAAAGAAAAAGGTGCCACT
1 G-AGTTG-TGGACTTT-AAAGAAAAAGGTGCCACA
**
230744 GAGTTGTGGACTTTAAAGAAAAAGGTGCCATG
1 GAGTTGTGGACTTTAAAGAAAAAGGTGCCACA
* *
230776 GAGTTGTGGGCTTTGAAGAAAAAGGTGCCACA
1 GAGTTGTGGACTTTAAAGAAAAAGGTGCCACA
*
230808 GAATTGTAGG-CTTTAAA
1 GAGTTGT-GGACTTTAAA
230825 ATGGTGCTAG
Statistics
Matches: 255, Mismatches: 48, Indels: 53
0.72 0.13 0.15
Matches are distributed among these distances:
26 4 0.02
27 42 0.16
29 1 0.00
30 13 0.05
31 7 0.03
32 92 0.36
33 90 0.35
34 6 0.02
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.22
Consensus pattern (32 bp):
GAGTTGTGGACTTTAAAGAAAAAGGTGCCACA
Found at i:230867 original size:21 final size:21
Alignment explanation
Indices: 230841--230885 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
230831 CTAGGGAGTT
* *
230841 GTGGACTTTAAAAGAAAAATG
1 GTGGACTTAAAAAGAAAAAGG
*
230862 GTGGACTTAAAAAGTAAAAGG
1 GTGGACTTAAAAAGAAAAAGG
230883 GTG
1 GTG
230886 CCACGGAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.22
Consensus pattern (21 bp):
GTGGACTTAAAAAGAAAAAGG
Found at i:230886 original size:55 final size:55
Alignment explanation
Indices: 230821--230974 Score: 209
Period size: 55 Copynumber: 2.8 Consensus size: 55
230811 TTGTAGGCTT
* * * *
230821 TAAAATGGTGCTAGGGAGTTGTGGACTTTAAAAGAAAAATGGTGGACTTAAAAAG
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAATGGTGGACTTAAAAAG
** * *
230876 TAAAAGGGTGCCACGGAGTCATGGAATTAAAAAGGAAAATGGTGGACTTAAAAAG
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAATGGTGGACTTAAAAAG
* * *
230931 TGAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTG
1 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAATGGTG
230975 CCACGGAGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 84 1.00
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (55 bp):
TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAATGGTGGACTTAAAAAG
Found at i:230940 original size:21 final size:21
Alignment explanation
Indices: 230897--230940 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
230887 CACGGAGTCA
*
230897 TGGAATTAAAAAGGAAAATGG
1 TGGAATTAAAAAGGAAAAGGG
*
230918 TGGACTTAAAAAGTG-AAAGGG
1 TGGAATTAAAAAG-GAAAAGGG
230939 TG
1 TG
230941 CCATGGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.20
Consensus pattern (21 bp):
TGGAATTAAAAAGGAAAAGGG
Found at i:231231 original size:125 final size:127
Alignment explanation
Indices: 230918--231253 Score: 342
Period size: 125 Copynumber: 2.6 Consensus size: 127
230908 AGGAAAATGG
* ** *
230918 TGGACTTAAAAAGTGAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCACGGAG
1 TGGACTTTAAAAGAAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCATGGAG
* * * *
230983 TTG-GCGACTTAAAAAGAAAAAAGAAGTCGCGAAGTTGTGGACTTTAAAAAGGAATACCATGAAT
66 TTGTG-GACTTAAAAAG----AAGAAGCCACGAAGTTATGGACTTTAAAAAGG-ATACCATGAAG
*
231047 TTG
125 TTA
* * * * *
231050 TGGACTTTAAAAGAAAAA-GATGCTACGAAGTTGTGGACTTAAAAAGAAAAAGGGTGCCATGGAG
1 TGGACTTTAAAAGAAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCATGGAG
* * * * * * *
231114 TTGTGGACTTAAAAAG-GGATGCCATGTAGTTATGGGC-TTAAAAAGTG-TGCCATGGAGTTA
66 TTGTGGACTTAAAAAGAAGAAGCCACGAAGTTATGGACTTTAAAAAG-GATACCATGAAGTTA
* *
231174 TGGAC-TTAAAAGAAAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAGAAACGGTGCCATGGA
1 TGGACTTTAAAAG-AAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCATGGA
*
231238 GTTGTGGGCTTAAAAA
65 GTTGTGGACTTAAAAA
231254 AGAAAAATAT
Statistics
Matches: 172, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
123 7 0.04
124 19 0.11
125 62 0.36
126 14 0.08
131 54 0.31
132 16 0.09
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (127 bp):
TGGACTTTAAAAGAAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCATGGAG
TTGTGGACTTAAAAAGAAGAAGCCACGAAGTTATGGACTTTAAAAAGGATACCATGAAGTTA
Found at i:231323 original size:33 final size:33
Alignment explanation
Indices: 230917--231315 Score: 313
Period size: 34 Copynumber: 12.2 Consensus size: 33
230907 AAGGAAAATG
*
230917 GTGGACTTAAAAAGTGAAAGGGTGCCATGGAGTT
1 GTGGACTTAAAAAG-AAAAGGGTGCCATGGAGTT
* *
230951 GTGGACTTAAAAAGAAAAAAGGTGCCACGGAGTT
1 GTGGACTTAAAAAG-AAAAGGGTGCCATGGAGTT
* ** * ** *
230985 G-GCGACTTAAAAAGAAAAAAGAAGTCGCGAAGTT
1 GTG-GACTTAAAAAG-AAAAGGGTGCCATGGAGTT
* * * *
231019 GTGGACTTTAAAAAG-GAA---TACCATGAATTT
1 GTGGAC-TTAAAAAGAAAAGGGTGCCATGGAGTT
* * * * * *
231049 GTGGACTTTAAAAGAAAAAGATGCTACGAAGTT
1 GTGGACTTAAAAAGAAAAGGGTGCCATGGAGTT
231082 GTGGACTTAAAAAGAAAAAGGGTGCCATGGAGTT
1 GTGGACTTAAAAAG-AAAAGGGTGCCATGGAGTT
* *
231116 GTGGACTTAAAAAG----GGATGCCATGTAGTT
1 GTGGACTTAAAAAGAAAAGGGTGCCATGGAGTT
* * *
231145 ATGGGCTT----A-AAAAGTGTGCCATGGAGTT
1 GTGGACTTAAAAAGAAAAGGGTGCCATGGAGTT
* *
231173 ATGGACTTAAAAGAAAAAAGGGTGCCATGGAGTT
1 GTGGACTTAAAA-AGAAAAGGGTGCCATGGAGTT
*
231207 GTGGACTTAAAAAGAGAAACGGTGCCATGGAGTT
1 GTGGACTTAAAAAGA-AAAGGGTGCCATGGAGTT
* ***
231241 GTGGGCTTAAAAAAGAAAAATATGCCATGGAGTT
1 GTGGACTT-AAAAAGAAAAGGGTGCCATGGAGTT
*
231275 GTGGACTTAAAAAGAAAAGGGTGCCACGGAGTT
1 GTGGACTTAAAAAGAAAAGGGTGCCATGGAGTT
*
231308 GTGAACTT
1 GTGGACTT
231316 TAGAAGAAGG
Statistics
Matches: 295, Mismatches: 50, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.00
28 19 0.06
29 26 0.09
30 14 0.05
33 55 0.19
34 164 0.56
35 16 0.05
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (33 bp):
GTGGACTTAAAAAGAAAAGGGTGCCATGGAGTT
Found at i:231363 original size:30 final size:29
Alignment explanation
Indices: 231327--231484 Score: 167
Period size: 30 Copynumber: 5.3 Consensus size: 29
231317 AGAAGAAGGA
231327 ATGCCACTGAGTCGTGGACTTTGAGTAGAG
1 ATGCCACTGAGTCGTGGACTTTGAG-AGAG
* *
231357 ATGCCACTTAGT-GTGGACTTTGAGAAAG
1 ATGCCACTGAGTCGTGGACTTTGAGAGAG
* * *
231385 AATGCCACTGAGTCATGGACATTGAGAAGGG
1 -ATGCCACTGAGTCGTGGACTTTGAG-AGAG
* *
231416 ATGCCACTGAGTCGTGGACTATGAGAAAG
1 ATGCCACTGAGTCGTGGACTTTGAGAGAG
*
231445 AATGCC-CTGGAGTTGTGGACTTTGAAGAAGAG
1 -ATGCCACT-GAGTCGTGGACTTTG-AG-AGAG
231477 ATGCCACT
1 ATGCCACT
231485 AAACTGTAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
28 3 0.03
29 27 0.26
30 61 0.58
31 9 0.09
32 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
ATGCCACTGAGTCGTGGACTTTGAGAGAG
Found at i:231391 original size:59 final size:60
Alignment explanation
Indices: 231320--231484 Score: 226
Period size: 59 Copynumber: 2.8 Consensus size: 60
231310 GAACTTTAGA
* * * *
231320 AGAAGGAATGCCACTGAGTCGTGGACTTTGAGTAGAGATGCCACTTAGT-GTGGACTTTG
1 AGAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTATG
* * *
231379 AGAAAGAATGCCACTGAGTCATGGACATTGAGAAGGGATGCCACTGAGTCGTGGACTATG
1 AGAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTATG
*
231439 AGAAAGAATGCC-CTGGAGTTGTGGACTTTGAAGAAGAGATGCCACT
1 AGAAAGAATGCCACT-GAGTCGTGGACTTTG-AGAAGAGATGCCACT
231485 AAACTGTAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
59 45 0.49
60 33 0.36
61 14 0.15
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.23
Consensus pattern (60 bp):
AGAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTATG
Found at i:231420 original size:89 final size:91
Alignment explanation
Indices: 231320--231484 Score: 232
Period size: 89 Copynumber: 1.8 Consensus size: 91
231310 GAACTTTAGA
* * *
231320 AGAAGGAATGCCACTGAGTCGTGGACTTTGAG-TAGAGATGCCACT-TAG-TGTGGACTTTG-AG
1 AGAAGGAATGCCACTGAGTCGTGGACTATGAGAAAGA-ATGCC-CTGGAGTTGTGGACTTTGAAG
231381 AA-AGAATGCCACTGAGTCATGGACATTG
64 AAGAG-ATGCCACTGAGTCATGGACATTG
*
231409 AGAAGGGATGCCACTGAGTCGTGGACTATGAGAAAGAATGCCCTGGAGTTGTGGACTTTGAAGAA
1 AGAAGGAATGCCACTGAGTCGTGGACTATGAGAAAGAATGCCCTGGAGTTGTGGACTTTGAAGAA
231474 GAGATGCCACT
66 GAGATGCCACT
231485 AAACTGTAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
88 2 0.03
89 37 0.55
90 14 0.21
91 12 0.18
92 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.23
Consensus pattern (91 bp):
AGAAGGAATGCCACTGAGTCGTGGACTATGAGAAAGAATGCCCTGGAGTTGTGGACTTTGAAGAA
GAGATGCCACTGAGTCATGGACATTG
Found at i:234895 original size:20 final size:20
Alignment explanation
Indices: 234867--234920 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
234857 TTACTACTGT
* *
234867 TTGTTTCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
234887 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
234907 TTGTATCGATACAT
1 TTGTATCGATACAT
234921 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:238974 original size:13 final size:13
Alignment explanation
Indices: 238956--239007 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
238946 GATATATGGC
238956 ACATTGTATCGAT
1 ACATTGTATCGAT
238969 ACATTGTATCGAT
1 ACATTGTATCGAT
238982 ACA-TG-AT-G--
1 ACATTGTATCGAT
238990 A-ATTGTATCGAT
1 ACATTGTATCGAT
239002 ACATTG
1 ACATTG
239008 CCCGTAACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:238976 original size:33 final size:32
Alignment explanation
Indices: 238939--239007 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
238929 CTACCACTGT
*
238939 TTGTATCGATATATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
238972 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
239005 TTG
1 TTG
239008 CCCGTAACGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:248300 original size:20 final size:20
Alignment explanation
Indices: 248275--248331 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
248265 TGCCAGTTTA
*
248275 ATGTATCGATACAATTGTGC
1 ATGTATCGATACAATTGTAC
*
248295 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGTAC
*
248314 ATGTATCAATAC-ATTGTA
1 ATGTATCGATACAATTGTA
248332 TGGATACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTGTAC
Found at i:255278 original size:13 final size:13
Alignment explanation
Indices: 255260--255285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
255250 CATTTTTTGG
255260 TGTATCGATACAT
1 TGTATCGATACAT
255273 TGTATCGATACAT
1 TGTATCGATACAT
255286 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:255300 original size:32 final size:33
Alignment explanation
Indices: 255240--255303 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
255230 TACAAGCTAA
**
255240 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
255273 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
255304 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:255931 original size:20 final size:22
Alignment explanation
Indices: 255906--255946 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
255896 TTCTTTTCTT
255906 TCCCCCTTAA-AA-ATAATTTC
1 TCCCCCTTAATAAGATAATTTC
255926 TCCCCCTTAATAAGATAATTT
1 TCCCCCTTAATAAGATAATTT
255947 TAACAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (22 bp):
TCCCCCTTAATAAGATAATTTC
Found at i:257688 original size:21 final size:20
Alignment explanation
Indices: 257642--257688 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
257632 TTTGAAACTG
*
257642 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
257662 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
257683 ATTTTG
1 ATTTTG
257689 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:257839 original size:13 final size:13
Alignment explanation
Indices: 257821--257857 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
257811 TAATCCCCTC
*
257821 TATCGATACAGTG
1 TATCGATACAATG
257834 TATCGATACAATG
1 TATCGATACAATG
257847 TATCGATACAA
1 TATCGATACAA
257858 AGAAAGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:264065 original size:19 final size:20
Alignment explanation
Indices: 264022--264072 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
264012 TACAAGCCAA
**
264022 TGTATCGATACATTTTTTGG
1 TGTATCGATACATACTTTGG
264042 TGTATCGATACATACTTT-G
1 TGTATCGATACATACTTTGG
264061 TGTATCGATACA
1 TGTATCGATACA
264073 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATACTTTGG
Found at i:265747 original size:20 final size:20
Alignment explanation
Indices: 265722--265797 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
265712 CTTGAAGGAA
*
265722 ATTGTATCGATACATTTTTC
1 ATTGTATCGATACATTTCTC
* *****
265742 ATTGTATTGATACATAAGAA
1 ATTGTATCGATACATTTCTC
*
265762 ATCGTATCGATACATTTCTC
1 ATTGTATCGATACATTTCTC
*
265782 ATTATATCGATACATT
1 ATTGTATCGATACATT
265798 ATGGGTTTTC
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTGTATCGATACATTTCTC
Found at i:265771 original size:40 final size:40
Alignment explanation
Indices: 265719--265796 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
265709 ATTCTTGAAG
* * * *
265719 GAAATTGTATCGATACATTTTTCATTGTATTGATACATAA
1 GAAATCGTATCGATACATTTCTCATTATATCGATACATAA
265759 GAAATCGTATCGATACATTTCTCATTATATCGATACAT
1 GAAATCGTATCGATACATTTCTCATTATATCGATACAT
265797 TATGGGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (40 bp):
GAAATCGTATCGATACATTTCTCATTATATCGATACATAA
Found at i:267248 original size:13 final size:13
Alignment explanation
Indices: 267230--267256 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
267220 CATTGTTCAC
267230 TGTATCGATACAT
1 TGTATCGATACAT
267243 TGTATCGATACAT
1 TGTATCGATACAT
267256 T
1 T
267257 CTGGGTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:267336 original size:33 final size:33
Alignment explanation
Indices: 267289--267358 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
267279 ATACATTTTG
*
267289 CATTGGATCAATACATTGCTTATTGTATCGACA
1 CATTGGATCAATACATTGCTCATTGTATCGACA
* * *
267322 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGGATCAATACATTGCTCATTGTATCGACA
267355 CATT
1 CATT
267359 TTACAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (33 bp):
CATTGGATCAATACATTGCTCATTGTATCGACA
Found at i:267358 original size:13 final size:13
Alignment explanation
Indices: 267310--267339 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
267300 TACATTGCTT
267310 ATTGTATCGACAC
1 ATTGTATCGACAC
*
267323 ATTGTATCGATAC
1 ATTGTATCGACAC
267336 ATTG
1 ATTG
267340 CTCATTGTAT
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:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
ATTGTATCGACAC
Found at i:269635 original size:51 final size:51
Alignment explanation
Indices: 269570--269738 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
269560 ATTTTTCTTC
* * * *
269570 TCGGGGATGCTCCAA-TCCCGGTTTCACTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTACTTCCAAAACATCAATTTTTCATAA
* * * * * *
269621 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTGTCCATAA
1 TCGGGGATACTCCAACTCCGATTTTACTTCCAAAACATCAATTTTTCATAA
* * *
269672 TCGGGGATACTCCAACTCCGATTTTAGTTCCAAAACATCAACTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTACTTCCAAAACATCAATTTTTCATAA
269723 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
269739 CCCGTTATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 98 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTACTTCCAAAACATCAATTTTTCATAA
Found at i:269760 original size:102 final size:102
Alignment explanation
Indices: 269570--269752 Score: 246
Period size: 102 Copynumber: 1.8 Consensus size: 102
269560 ATTTTTCTTC
* * * **
269570 TCGGGGATGCTCCAATCCCGGTTTCACTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCA
1 TCGGGGATACTCCAATCCCGATTTCACTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCA
* * *
269635 ACTCCGATTTTATTTCTAAAACACCCATTGTCCATAA
66 ACCCCGATTATATTTCGAAAACACCCATTGTCCATAA
* *
269672 TCGGGGATACTCCAA-CTCCGATTTTAGTTCCAAAACATCAACTTTTCACAATCGGGGATACTCC
1 TCGGGGATACTCCAATC-CCGATTTCACTTCCAAAACATCAACTTTTCACAATCGGGGATACTCC
269736 AACCCCG-TTAT-TTTCGA
65 AACCCCGATTATATTTCGA
269753 GGGAACACTC
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
100 5 0.07
101 4 0.06
102 61 0.87
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (102 bp):
TCGGGGATACTCCAATCCCGATTTCACTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCA
ACCCCGATTATATTTCGAAAACACCCATTGTCCATAA
Found at i:269836 original size:127 final size:130
Alignment explanation
Indices: 269629--269945 Score: 385
Period size: 127 Copynumber: 2.5 Consensus size: 130
269619 AATCGGGGAT
* ** ** * *
269629 ACTCCAACTCCGATTTTATTTCTAAAACACCCATTGTCCATAATCGGGGATACTCCAA-CTCCGA
1 ACTCCAACTCCGATTTTATTTCCAAAACACTAATT-TTTACAATCGAGGATACTCCAACCTCCGA
269693 TTTTAGTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
65 TTTTAGTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
269758 C
130 C
* *
269759 ACTCCAAC-CCTGATTTTATTTCTAAAACA-TCAATTTTT-C-GTCGAGGATACTCCAACCT-CG
1 ACTCCAACTCC-GATTTTATTTCCAAAACACT-AATTTTTACAATCGAGGATACTCCAACCTCCG
** * * * * * *
269819 ATTTTTTTTCTAAAACATCAATTTTTCATAATTGGGGATACTCTAACCCCGTTATTTTCGAGGGG
64 ATTTTAGTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGA
*
269884 AT
129 AC
*
269886 ATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACC
1 ACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTT-ACAATCGAGGATACTCCAACC
269946 CCATTATTTC
Statistics
Matches: 160, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
127 105 0.66
128 5 0.03
129 4 0.03
130 46 0.29
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (130 bp):
ACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTACAATCGAGGATACTCCAACCTCCGAT
TTTAGTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAAC
Found at i:269892 original size:79 final size:79
Alignment explanation
Indices: 269803--269971 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
269793 TTTTCGTCGA
* * * * * *
269803 GGATACTCCAAC-CTCGATTTTTTTTCTAAAACA-TCAATTTTTCATAATTGGGGATACTCTAAC
1 GGATACTCCAACTC-CGATTTTATTTCCAAAACACT-AATTTTTCACAATCGAGGATACTCCAAC
*
269866 CCCGTTATTTTCGAGG
64 CCCATTATTTTCGAGG
*
269882 GGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCC
*
269947 CATTA-TTTC-ATCG
66 CATTATTTTCGA-GG
269960 GGATACTCCAAC
1 GGATACTCCAAC
269972 CCCGTTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 16 0.21
79 58 0.75
80 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCC
CATTATTTTCGAGG
Found at i:269967 original size:27 final size:29
Alignment explanation
Indices: 269928--270000 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
269918 ATTTTTCACA
269928 ATCGAGGATACTCCAACCCCATTA-TTTC-
1 ATCG-GGATACTCCAACCCCATTATTTTCG
*
269956 ATCGGGATACTCCAACCCCGTTATTTTCG
1 ATCGGGATACTCCAACCCCATTATTTTCG
*
269985 A-GGGGATACTCCAACC
1 ATCGGGATACTCCAACC
270001 TCAGTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 18 0.44
28 22 0.54
29 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
ATCGGGATACTCCAACCCCATTATTTTCG
Found at i:270043 original size:106 final size:106
Alignment explanation
Indices: 269853--270185 Score: 356
Period size: 106 Copynumber: 3.1 Consensus size: 106
269843 TTCATAATTG
* * *
269853 GGGATACTCTAACCCCGTTATTTTCGAGGGGATATTCCAACTCCGATTTTATTTCCAAAACACTA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACT-CGATTTTATTTCTAAAACACTA
* * *
269918 ATTTTTCACAATCGAGGATACTCCAACCCCATTA-TTTC-ATC
65 ATTTCTCACAATAGAGGATACTCCAACCCCACTATTTTCGA-C
* *
269959 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTC-AGTTTTATTTCTAAAATATT
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CTCGA-TTTTATTTCTAAAACACT
* * * *
270023 AATTTCTCATAGTTAG-GGATACTCCAACCCCGCTATTTTCGAG
64 AATTTCTCACA-ATAGAGGATACTCCAACCCCACTATTTTCGAC
* * *
270066 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAATCTCGATTTTATTTCTAAATCA-TC
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CTCGATTTTATTTCTAAAACACT-
* * * * * *
270130 GATTTTTCACAATCG-GGATACTCCAACCCTC-TTATTTCCGAG
64 AATTTCTCACAATAGAGGATACTCCAACCC-CACTATTTTCGAC
270172 GGGATACTCCAACC
1 GGGATACTCCAACC
270186 TCGGTTTTAT
Statistics
Matches: 195, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
105 1 0.01
106 120 0.62
107 72 0.37
108 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (106 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCGATTTTATTTCTAAAACACTAA
TTTCTCACAATAGAGGATACTCCAACCCCACTATTTTCGAC
Found at i:270076 original size:28 final size:28
Alignment explanation
Indices: 270038--270105 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
270028 CTCATAGTTA
* *
270038 GGGATACTCCAACCCCGCTATTTTCGAG
1 GGGATACTCCAACCCCACTATTTCCGAG
*
270066 GGGATACTCCAACCCCATTATTTCCGAG
1 GGGATACTCCAACCCCACTATTTCCGAG
270094 GGGATACTCCAA
1 GGGATACTCCAA
270106 TCTCGATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (28 bp):
GGGATACTCCAACCCCACTATTTCCGAG
Found at i:270158 original size:78 final size:78
Alignment explanation
Indices: 270065--270238 Score: 244
Period size: 78 Copynumber: 2.2 Consensus size: 78
270055 CTATTTTCGA
*
270065 GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAATCTCGATTTTATTTCT-AAATCAT
1 GGGGATACTCCAACCCC-TTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAAT-AT
* *
270129 CGATTTTTCACAATC
64 CAATTTCTCACAATC
* *
270144 -GGGATACTCCAACCCTCTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAATATT
1 GGGGATACTCCAACCC-CTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATATC
* *
270208 AATTTCTCATAGTC
65 AATTTCTCACAATC
270222 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
270239 GGTTTTATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 65 0.76
79 20 0.24
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATATCA
ATTTCTCACAATC
Found at i:270234 original size:51 final size:51
Alignment explanation
Indices: 270171--270288 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
270161 TTATTTCCGA
* * *
270171 GGGGATACTCCAACCTCGGTTTTATTTCTAAAATATTAATTTCTCATAGTC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAGTC
*
270222 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAGTC
*
270273 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
270289 TGTTATTTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAGTC
Found at i:270305 original size:79 final size:79
Alignment explanation
Indices: 270222--270397 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 79
270212 TCTCATAGTC
* * *
270222 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
* *
270287 CCTGTTATTTCCGA
66 CCCGTTATTTCCAA
* ** * * *
270301 GGGGATACTCCGATACTGATTTTATTTCTAAATCATCGATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
*
270366 CCCGTTATTTTCAA
66 CCCGTTATTTCCAA
*
270380 GGGGATGCTCCAACCCCG
1 GGGGATACTCCAACCCCG
270398 TTATTATCTC
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
CCCGTTATTTCCAA
Found at i:270309 original size:130 final size:129
Alignment explanation
Indices: 270093--270369 Score: 362
Period size: 130 Copynumber: 2.1 Consensus size: 129
270083 TTATTTCCGA
* * * *
270093 GGGGATACTCCAATCTCGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGATACTCCAACC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGATACTCCAACC
* * * *
270158 CTCTTATTTCCGAGGGGATACTCC-A-ACCTCGGTTTTATTTCTAAAAT-ATTAATTTCTCATAG
66 CTCTTATTTCCGAGGGGATACTCCGATA-CT-GATTTTATTTCT-AAATCATCAATTTCTCACAA
270220 TC
128 TC
* * *
270222 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCG-GGATACTCCAAC
* * *
270287 CCTGTTATTTCCGAGGGGATACTCCGATACTGATTTTATTTCTAAATCATCGATTTTTCACAATC
65 CCTCTTATTTCCGAGGGGATACTCCGATACTGATTTTATTTCTAAATCATCAATTTCTCACAATC
*
270352 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
270370 TTATTTTCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
129 49 0.38
130 76 0.59
131 3 0.02
132 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (129 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGATACTCCAACC
CTCTTATTTCCGAGGGGATACTCCGATACTGATTTTATTTCTAAATCATCAATTTCTCACAATC
Found at i:275174 original size:21 final size:21
Alignment explanation
Indices: 275148--275208 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 21
275138 AAAAGGTTAA
275148 AAGCTTTTCCTAATTATACCT
1 AAGCTTTTCCTAATTATACCT
275169 AAGCTTTTGGGTGACCTAATTATACCT
1 AAGC-TTT---T--CCTAATTATACCT
275196 AAGCTTTTCCTAA
1 AAGCTTTTCCTAA
275209 AATGTTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
23 1 0.03
25 1 0.03
26 3 0.09
27 17 0.50
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (21 bp):
AAGCTTTTCCTAATTATACCT
Found at i:279627 original size:79 final size:78
Alignment explanation
Indices: 279491--279874 Score: 378
Period size: 79 Copynumber: 4.9 Consensus size: 78
279481 GGATAACAAT
* * * * *
279491 GGGGCTGGAGTATCCCCGATTATGGAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTAT-GAAAATCGATGTTTTGAAAATAAAACCAGGGTTGGAGTATC
*
279556 CGCTCGAAAATAAC
65 CCCTCGAAAATAAC
* * * *
279570 AGGGTTGGAGTATCCCTGATTATAGAAAATCGACGTTTTGAAAATAAAATCAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTAT-GAAAATCGATGTTTTGAAAATAAAACCAGGGTTGGAGTATC
279635 CCCTCGAAAATAAC
65 CCCTCGAAAATAAC
* * * ** * * *
279649 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAATTAAGGCCTGAGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTGA-AAATAAAACCAGGGTTGGAGTAT
*
279713 -CCCTGCCAAAATAAC
64 CCCCT-CGAAAATAAC
* * * * **
279728 GGGGTTGGAGTATCCCCGATTGTGATAAATCAATATTTT-AGAAATAAAGCTGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGA-AAATCGATGTTTTGA-AAATAAAACCAGGGTTGGAGTAT
**
279792 CCCCTAAAAAATAAC
64 CCCCTCGAAAATAAC
* * * * * *
279807 GGGATTAGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTGAAAATAAAACCAGGGTTGGAGTATC
279872 CCC
65 CCC
279875 GAGATGAAAA
Statistics
Matches: 253, Mismatches: 45, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
78 7 0.03
79 241 0.95
80 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATTATGAAAATCGATGTTTTGAAAATAAAACCAGGGTTGGAGTATCC
CCTCGAAAATAAC
Found at i:279901 original size:50 final size:51
Alignment explanation
Indices: 279811--279913 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 51
279801 AATAACGGGA
* * ** * *
279811 TTAGAGTATCCTCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGG
1 TTAGAGTATCCCCGATGATGAAAAATCAATATTTTAGAAATAAAACCAGGG
* *
279862 TTAGAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAGCCATGG
1 TTAGAGTATCCCCGATGATGAAAAATCAATATTTTAGAAATAAAACCAGGG
279912 TT
1 TT
279914 TAGGGGTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 30 0.68
51 14 0.32
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (51 bp):
TTAGAGTATCCCCGATGATGAAAAATCAATATTTTAGAAATAAAACCAGGG
Found at i:282169 original size:20 final size:20
Alignment explanation
Indices: 282144--282214 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
282134 TGCCTTAATA
* *
282144 TATCGATACATTGAAAAATG
1 TATCGATACAATGAACAATG
*
282164 TATCGATACAATGAACCATG
1 TATCGATACAATGAACAATG
282184 TATCGATACAATGAACAATG
1 TATCGATACAATGAACAATG
*
282204 TATCAATACAA
1 TATCGATACAA
282215 ATTGTGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
TATCGATACAATGAACAATG
Found at i:283126 original size:60 final size:62
Alignment explanation
Indices: 282832--283230 Score: 382
Period size: 61 Copynumber: 6.7 Consensus size: 62
282822 TGAACCTTGG
* * * * *
282832 GGACTAG-CAGGTGCCACCAACTTGTATAGGCTTTACAAGGAGAAA-GCATCCTGCT-TATTAA
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTGCTCT-TTAA
* * * * *
282893 GGACTAG-AAGATGCCACCAACTTGTGTGGGATTTAAAGGGAAAAGGCATCCTGCTCTTTGA
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
* * * *
282954 GGACTAGAAAAGTGCCA-CAACTTGTGTGGGCTTTAAAAGGAAAAGGTGCCCTGCTCTTTGA
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
* *
283015 GGACTAGCAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTAA
1 GGACTAG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
* * ** * *
283077 GGACT-G-AAGGTGCCACCAGCTTGTATGGGCTTTGCAAGGAGAAGGCGTCCTGCTCCTTAA
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
* * * * *
283137 GGACT-G-AAGGTTCCACGAGCTTGTGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGA
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
** *
283191 GGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTCAAAGG
1 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
283231 CATCCTGCTT
Statistics
Matches: 286, Mismatches: 40, Indels: 25
0.81 0.11 0.07
Matches are distributed among these distances:
54 22 0.08
55 23 0.08
59 2 0.01
60 77 0.27
61 107 0.37
62 55 0.19
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (62 bp):
GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
Found at i:286702 original size:13 final size:13
Alignment explanation
Indices: 286684--286709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
286674 TACACAAAGT
286684 ATGTATCGATACA
1 ATGTATCGATACA
286697 ATGTATCGATACA
1 ATGTATCGATACA
286710 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:286707 original size:32 final size:33
Alignment explanation
Indices: 286666--286729 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
286656 TAGCCAAACT
**
286666 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
286698 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
286730 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:299184 original size:79 final size:79
Alignment explanation
Indices: 299040--299385 Score: 303
Period size: 79 Copynumber: 4.4 Consensus size: 79
299030 TGGGGATAAC
* * * * * *
299040 AACGGGGCTGGAGTATCCTC-GATTATGGAAAATCGGTGTTCTGAAAATAAAATC-GAGGTTAGA
1 AACGGGGTTGGAGTATCC-CAGATTGT-GAAAATCGATGTTTTAAAAATAAAATCAGAGGTTGGA
299103 GTATCCCCTCGAAAAT
64 GTATCCCCTCGAAAAT
* * * * *
299119 AACAGGGTTAGAGTATCCCTGATTTTAGAAAATTGATGTTTTAAAAATAAAATCAG-GGTTGGAG
1 AACGGGGTTGGAGTATCCCAGATTGT-GAAAATCGATGTTTTAAAAATAAAATCAGAGGTTGGAG
*
299183 TATCCCCTCAAAAAT
65 TATCCCCTCGAAAAT
* * * ** *
299198 AACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAAT-AAGGCCGAGGTTGGAG
1 AACGGGGTTGGAGTATCCCAGATTGT-GAAAATCGATGTTTTAAAAATAAAATCAGAGGTTGGAG
*
299262 TAT-CCCTGCCAAAAT
65 TATCCCCT-CGAAAAT
* * * * * *
299277 AATGGGGTTGGAGCATCCCAGATTGTGAGAAATCAATATTTTAGAAA-AAAGTCAG-GGTTGGAG
1 AACGGGGTTGGAGTATCCCAGATTGTGA-AAATCGATGTTTTAAAAATAAAATCAGAGGTTGGAG
*
299340 TATCCCTTCGAAAAT
65 TATCCCCTCGAAAAT
* * * *
299355 AACGAGATTGGTA-TATCCCCGATTATGAAAA
1 AACGGGGTTGG-AGTATCCCAGATTGTGAAAA
299386 ATTACTGTTT
Statistics
Matches: 220, Mismatches: 39, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
77 3 0.01
78 48 0.22
79 168 0.76
80 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCAGATTGTGAAAATCGATGTTTTAAAAATAAAATCAGAGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:299434 original size:50 final size:50
Alignment explanation
Indices: 299379--299488 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
299369 ATCCCCGATT
* * * * * *
299379 ATGAAAAATTACTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCTCGAG
1 ATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAG
* * *
299429 ATGAAATATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCAAG
1 ATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAG
299479 ATGAAAAATC
1 ATGAAAAATC
299489 TAGAAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAG
Found at i:301743 original size:20 final size:20
Alignment explanation
Indices: 301718--301772 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
301708 AAAATGCCTG
301718 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
301738 AATGTATCGATACAATGAAC
1 AATGTATCGATACATTGAAA
*
301758 CATGTATCGATACAT
1 AATGTATCGATACAT
301773 CTAGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:302027 original size:152 final size:152
Alignment explanation
Indices: 301748--302045 Score: 497
Period size: 152 Copynumber: 2.0 Consensus size: 152
301738 AATGTATCGA
* * *
301748 TACAATGAACCATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATGAATAATGT
1 TACAATAAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAATGAATAATGT
301813 ATCGATACAAATTGTGAAAATTTTGAATTTTTGACCATTGAGACCTTGTATCGATACATTAAGGG
66 ATCGATACAAATTGTGAAAATTTTGAATTTTTGACCATTGAGACCTTGTATCGATACATTAAGGG
301878 TATGTATCGATACATTCTGGGT
131 TATGTATCGATACATTCTGGGT
* *
301900 TACAATAAACAATGTATCGATATATCTGGGTAAAACCCAAAATGTATCGATACAATGAATAATGT
1 TACAATAAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAATGAATAATGT
** * *
301965 ATCGATACAAATTGTGAAAATTTTGAATTTTTGACTGTTGGGACCTTGTATCGATACGTTAAGGG
66 ATCGATACAAATTGTGAAAATTTTGAATTTTTGACCATTGAGACCTTGTATCGATACATTAAGGG
* *
302030 TATGTCTTGATACATT
131 TATGTATCGATACATT
302046 TTAGCAAAAG
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 135 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (152 bp):
TACAATAAACAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATACAATGAATAATGT
ATCGATACAAATTGTGAAAATTTTGAATTTTTGACCATTGAGACCTTGTATCGATACATTAAGGG
TATGTATCGATACATTCTGGGT
Found at i:311001 original size:19 final size:20
Alignment explanation
Indices: 310956--311007 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
310946 TTACAAGCTA
310956 ATGTATCGATACATTATGGG
1 ATGTATCGATACATTATGGG
*
310976 ATGTATCGATACATCT-TGTG
1 ATGTATCGATACAT-TATGGG
310996 -TGTATCGATACA
1 ATGTATCGATACA
311008 AATAGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 17 0.57
21 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTATGGG
Done.