Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold312
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: 1822960
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 6 of 12
Found at i:824444 original size:162 final size:159
Alignment explanation
Indices: 824179--824471 Score: 457
Period size: 162 Copynumber: 1.8 Consensus size: 159
824169 GGCACTTTTC
* *
824179 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTC
* * *
824244 CTCAAGGAGTAGGATGCCTTTTCCTTTTCAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTC
66 CTCAAAGAGTAGGATGCATTTTCCTTTTCAAGCCCACACAAGCTGGTGGCACCTT--CAGTCCTC
824308 AAAAAGCAAGATGCTATCTCCTTTCACCTTT
129 AAAAAGCAAGATGCTATCTCCTTTCACCTTT
*
824339 TAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTGAAAGCCCACACAAGTTGGTGGCACCTTCT-A
1 TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCTCA
824403 GTCCTCAAAGAGTAGGATGCATTTTCC-TTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCC
63 GTCCTCAAAGAGTAGGATGCATTTTCCTTTTC-AAGCCCACACAAGCTGGTGGCACCTTCAGTCC
824467 TCAAA
127 TCAAA
824472 GAGTAGGATG
Statistics
Matches: 122, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
160 26 0.21
161 20 0.16
162 69 0.57
163 7 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (159 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTC
CTCAAAGAGTAGGATGCATTTTCCTTTTCAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAA
AAAGCAAGATGCTATCTCCTTTCACCTTT
Found at i:824505 original size:222 final size:222
Alignment explanation
Indices: 824117--824517 Score: 653
Period size: 222 Copynumber: 1.8 Consensus size: 222
824107 GGCACTTTTC
*
824117 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAG
* * * * *
824182 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTC
66 TCCTCAAAGAGCAGGACGCATTTTCTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCCTC
* * *
824247 AAGGAGTAGGATGCCTTTTCCTTTTCAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAA
131 AAAGAGTAGGATGCCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAA
824312 AGCAAGATGCTATCTCCTTTCACCTTT
196 AGCAAGATGCTATCTCCTTTCACCTTT
*
824339 TAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTGAAAGCCCACACAAGTTGGTGGCAC-CTTCTA
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTCTTCTA
* *
824403 GTCCTCAAAGAGTAGGATGCATTTTCCTTTCAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCC
65 GTCCTCAAAGAGCAGGACGCATTTT-CTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCC
*
824467 TCAAAGAGTAGGATGCCTTTTCCTTTTAAAGACCACACAATTTGGTGGCAC
129 TCAAAGAGTAGGATGCCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCAC
824518 CTTTAGTCCT
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
222 114 0.70
223 50 0.30
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (222 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAG
TCCTCAAAGAGCAGGACGCATTTTCTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCCTC
AAAGAGTAGGATGCCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAA
AGCAAGATGCTATCTCCTTTCACCTTT
Found at i:824824 original size:34 final size:34
Alignment explanation
Indices: 824725--824824 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 34
824715 GCATAATGCT
824725 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
824759 TTTT-C---T--AGTCCTCAAAGAGTAGGAT-GC-C
1 TTTTCCTTTTAAAGCCCACACA-AGTTGG-TGGCAC
824787 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
824821 TTTT
1 TTTT
824825 TCAATCCTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 20
0.63 0.11 0.26
Matches are distributed among these distances:
28 12 0.25
29 8 0.17
30 2 0.04
32 2 0.04
33 8 0.17
34 16 0.33
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (34 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:824883 original size:185 final size:182
Alignment explanation
Indices: 824340--825043 Score: 826
Period size: 185 Copynumber: 3.8 Consensus size: 182
824330 TTCACCTTTT
*
824340 AGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTGAAAGCCCACACAAGTTGGTGGCAC-CTTCTAG
1 AGTCCTCAAAGAGCAGAACGCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTCTTCTAG
* ** *
824404 TCCTCAAAGAGTAGGATGCATTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTC
65 TCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTC
* * *
824469 AAAGAGTAGGATGCCTTTTCCTTTTAAAGACCACACAATTTGGTGGCACCTT-T
130 AAAGAGTAGGACGCCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTCC
* * * * * **
824522 AGTCCTTAAAGAGCA-AGACGCCTTTTCTTTTTAAAGCCCACATAATTTGGTGG-TGTCTTC-AG
1 AGTCCTCAAAGAGCAGA-ACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAG
* * * * *
824584 TCCTCAATGAGCAGGACACCTTTTCCTTTCAAAGCCCACATAAGCTAGTGGCACCCTCAGTCCTT
65 TCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTC
* * *
824649 AAGGAGTAGGACGCCTTTTCCTTTTAAAGCCCACAAAAGCTGGTGGCACCTTCC
130 AAAGAGTAGGACGCCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTCC
* * * * *
824703 AATGCTCAAAGAGCATAATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
1 AGTCCTCAAAGAGCAGAACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGT
* ** * * * *
824768 CCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTCAATCCT
66 CCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCAC--CTTCAGTCCT
*
824833 CAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCC
129 CAAAGAGTAGGACGCCTTTTCCTTTTAAAGCC-ACACAAGTTGGTGGCACCTTCC
* * * * * *
824888 AGTCCTTAAAAAGCAGGATGCTTTCTCCTTATAAAGCCCACACAAGTTGGTGGCAC-CTTTCTAG
1 AGTCCTCAAAGAGCAGAACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTC-TTCTAG
* * * ** *
824952 TCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTTTAGTCC
65 TCCTCAAAGAGCAGGACACC-TTTTCCTTTCAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCC
* *
825017 TTAAAGAGCAGGACGCCTTTTCCTTTT
128 TCAAAGAGTAGGACGCCTTTTCCTTTT
825044 CTCCTTTGTC
Statistics
Matches: 438, Mismatches: 72, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
180 104 0.24
181 66 0.15
182 32 0.07
183 48 0.11
184 2 0.00
185 156 0.36
186 30 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (182 bp):
AGTCCTCAAAGAGCAGAACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGT
CCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCA
AAGAGTAGGACGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCTTCC
Found at i:825097 original size:45 final size:45
Alignment explanation
Indices: 825039--825157 Score: 177
Period size: 45 Copynumber: 2.6 Consensus size: 45
825029 ACGCCTTTTC
*
825039 CTTTTCTCC-TTTGTCCTCAAAAAGCAGGACACATTTCTTTTCCTT
1 CTTTTC-CCTTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCTT
* *
825084 CTTTTCCCTTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCTT
* *
825129 CTTTTCCCTTTTGTCCTTAAACAGCAGGA
1 CTTTTCCCTTTTGTCCTCAAAAAGCAGGA
825158 TGCTTTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 2 0.03
45 65 0.97
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCCCTTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCTT
Found at i:825172 original size:28 final size:28
Alignment explanation
Indices: 825137--825192 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
825127 TTCTTTTCCC
* * * *
825137 TTTTGTCCTTAAACAGCAGGATGCTTTT
1 TTTTGTCCTCAAAAAGCACGACGCTTTT
825165 TTTTGTCCTCAAAAAGCACGACGCTTTT
1 TTTTGTCCTCAAAAAGCACGACGCTTTT
825193 CATTTCCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (28 bp):
TTTTGTCCTCAAAAAGCACGACGCTTTT
Found at i:825305 original size:41 final size:41
Alignment explanation
Indices: 825245--825338 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 41
825235 ACTTTATTCT
825245 CTTTTCTCCTTTGTCTTCAAAAAGCAAGACACATTTAATTTC
1 CTTTT-TCCTTTGTCTTCAAAAAGCAAGACACATTTAATTTC
* * ** *
825287 CTTTTTCCTTTGTTTTCAAAAGGCAAGATGCATTTTATTTC
1 CTTTTTCCTTTGTCTTCAAAAAGCAAGACACATTTAATTTC
825328 CTTTTTTCCTT
1 C-TTTTTCCTT
825339 AGTCCCCAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 32 0.70
42 14 0.30
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (41 bp):
CTTTTTCCTTTGTCTTCAAAAAGCAAGACACATTTAATTTC
Found at i:825332 original size:83 final size:88
Alignment explanation
Indices: 825166--825343 Score: 197
Period size: 83 Copynumber: 2.1 Consensus size: 88
825156 GATGCTTTTT
* * * * * *
825166 TTTGTCCTCAAAAAGCACGACGCTTTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAAAGTAGG
1 TTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTCTTTTCCCTTCTAGTTCTCAAAAAGCAAG
825231 ATGCACTTTATTCTCTTTTCTCC
66 ATGCACTTTATTCTCTTTTCTCC
* * *
825254 TTTGTCTTCAAAAAGCAAGACACATTTAATTTCC-T-TTTT-CCTT-T-GTTTTCAAAAGGCAAG
1 TTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTCTTTTCCCTTCTAGTTCTCAAAAAGCAAG
* *
825314 ATGCATTTTATT-TCCTTTTTTCC
66 ATGCACTTTATTCT-CTTTTCTCC
*
825337 TTAGTCC
1 TTTGTCC
825344 CCAAGGAGCA
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.01
83 36 0.47
84 1 0.01
85 4 0.05
86 4 0.05
87 1 0.01
88 29 0.38
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (88 bp):
TTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTCTTTTCCCTTCTAGTTCTCAAAAAGCAAG
ATGCACTTTATTCTCTTTTCTCC
Found at i:827948 original size:80 final size:77
Alignment explanation
Indices: 827706--827962 Score: 300
Period size: 79 Copynumber: 3.2 Consensus size: 77
827696 TGCCCCCAAG
* * ***
827706 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCG
1 GGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCTAA-CCCGATTTTATTTCTAAA-CATCG
*
827771 ATTTTCCACAATCA
64 ATTTTCCATAATCA
** * * *
827785 GGGATACTCCAACCCCATTATTTTCG-AGTAGATACTCTAACTCCGATTTTATTTTCAAAACATT
1 GGGATACTCCAACCCTGTTATTTTCGAAG-GGATACTCTAAC-CCGATTTTA-TTTCTAAACATC
*
827849 GATTTTCTATAATCA
63 GATTTTCCATAATCA
*
827864 GGGATGCTCCAACCCTGTTATTTTCGAAGGGATACTCTAAACCCTGATTTTATTTCTAGAACATC
1 GGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCT-AACCC-GATTTTATTTCTA-AACATC
*
827929 GATTTTCCATAATCG
63 GATTTTCCATAATCA
*
827944 GGGATACTCCAGCCCTGTT
1 GGGATACTCCAACCCTGTT
827963 GTTATCCCCA
Statistics
Matches: 149, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.01
79 93 0.62
80 54 0.36
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (77 bp):
GGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCTAACCCGATTTTATTTCTAAACATCGAT
TTTCCATAATCA
Found at i:829109 original size:19 final size:19
Alignment explanation
Indices: 829064--829119 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
829054 CTACTAGTTT
* *
829064 CATGTATCGATACAATTAT
1 CATGTATCGATACAATGAA
829083 CTATGTATCGATACAATGAA
1 C-ATGTATCGATACAATGAA
829103 CATGTATCGATACAATG
1 CATGTATCGATACAATG
829120 CATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:831349 original size:13 final size:13
Alignment explanation
Indices: 831331--831357 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
831321 TAGTAACCCA
831331 TGTATCGATACAT
1 TGTATCGATACAT
831344 TGTATCGATACAT
1 TGTATCGATACAT
831357 T
1 T
831358 TGGGTTTTTC
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:835703 original size:20 final size:20
Alignment explanation
Indices: 835678--835727 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
835668 TATCCAAATG
835678 TATCGATACATTGTTCATTA
1 TATCGATACATTGTTCATTA
*
835698 TATCGATACATTGTTCATTG
1 TATCGATACATTGTTCATTA
*
835718 TTTCGATACA
1 TATCGATACA
835728 ATCTGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGTTCATTA
Found at i:835710 original size:70 final size:69
Alignment explanation
Indices: 835628--835778 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 69
835618 TCACAATTTG
* * * *
835628 TATCGTTACATTGTTCATTGTATCGATACATTTTGGGTTTTATCC-AAATGTATCGATACATTGT
1 TATCGATACATTGTTCATTGTATCGATACAATCTGGG-TTT-GCCTAAATGTATCGATACATTGT
*
835692 TCATTA
64 TCAATA
* * *
835698 TATCGATACATTGTTCATTGTTTCGATACAATCTGGGTTTGCCTAGATGTATCGATACATTTTTC
1 TATCGATACATTGTTCATTGTATCGATACAATCTGGGTTTGCCTAAATGTATCGATACATTGTTC
835763 AATA
66 AATA
835767 TATCGATACATT
1 TATCGATACATT
835779 TAGGCATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
68 2 0.03
69 37 0.51
70 33 0.46
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (69 bp):
TATCGATACATTGTTCATTGTATCGATACAATCTGGGTTTGCCTAAATGTATCGATACATTGTTC
AATA
Found at i:838161 original size:27 final size:26
Alignment explanation
Indices: 838126--838200 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 26
838116 ATTTTTCACA
* *
838126 ATCGAGGATACTCTAACCCCTTATTT
1 ATCGGGGATACTCCAACCCCTTATTT
*
838152 CATCGGGGATACTCCAACCACGTTATTT
1 -ATCGGGGATACTCCAACC-CCTTATTT
838180 -TCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
838201 GGCTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 17 0.41
28 22 0.54
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCCTTATTT
Found at i:838367 original size:79 final size:78
Alignment explanation
Indices: 838153--838484 Score: 321
Period size: 79 Copynumber: 4.2 Consensus size: 78
838143 CCCTTATTTC
* * *
838153 ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACC-CGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAAC
* *
838218 AT-TAATTTCTCACA
65 ATCGATTTTC-CACA
* * * * * * * *
838232 ACCGGGAATACTCCAACCCCGTTATTTTGGCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGC
1 ATCGGGGATACTCCAA-CCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAAC
*
838297 TTCGATTTTCCACA
65 ATCGATTTTCCACA
* ** *
838311 ATCGGGGATACTCTAACCCGGTTATCATCGAGAGGATACTCCAACCCCGATTTTATTT-TCAAAA
1 ATCGGGGATACTCCAACCC-GTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCT-AAAA
* * * *
838375 CACCAATTTTCTATA
64 CATCGATTTTCCACA
* * *
838390 ATCAGGGATGCTCCAACCCTGTTA-TTTCTGA-AGAGATACTCCAACCCCGATTTTATTTCTAAA
1 ATCGGGGATACTCCAACCC-GTTATTTTC-GAGAG-GATACTCCAACCCCGACTTTATTTCTAAA
*
838453 ACATCGATTTTCCATA
63 ACATCGATTTTCCACA
838469 ATCAGGGGATACTCCA
1 ATC-GGGGATACTCCA
838485 GCCCTGTTGC
Statistics
Matches: 207, Mismatches: 38, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
78 8 0.04
79 181 0.87
80 18 0.09
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAACA
TCGATTTTCCACA
Found at i:838446 original size:158 final size:158
Alignment explanation
Indices: 838153--838484 Score: 377
Period size: 158 Copynumber: 2.1 Consensus size: 158
838143 CCCTTATTTC
** * * *
838153 ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCACGTTATCATCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAAC
** * ** * *
838218 ATTAATTTCTCACAACCGGGAATACTCCAACCCCGTTATTTTGGCGGGGATACTCCAACCCCGGC
66 ACCAATTTCTCACAACAGGGAATACTCCAACCCCGTTATTTTGGAAGAGATACTCCAACCCCGAC
* *
838283 CTTATTTCTAAAGCTTCGATTTTCCACA
131 CTTATTTCTAAAACATCGATTTTCCACA
* *
838311 ATCGGGGATACTCTAACC-CGGTTATCATCGAGAGGATACTCCAACCCCGATTTTATTT-TCAAA
1 ATCGGGGATACTCCAACCAC-GTTATCATCGAGAGGATACTCCAACCCCGACTTTATTTCT-AAA
* * *
838374 ACACCAATTT-TCTATAATCAGGG-ATGCTCCAACCCTGTTATTTCT-GAAGAGATACTCCAACC
64 ACACCAATTTCTC-ACAA-CAGGGAATACTCCAACCCCGTTATTT-TGGAAGAGATACTCCAACC
** *
838436 CCGATTTTATTTCTAAAACATCGATTTTCCATA
126 CCGACCTTATTTCTAAAACATCGATTTTCCACA
838469 ATCAGGGGATACTCCA
1 ATC-GGGGATACTCCA
838485 GCCCTGTTGC
Statistics
Matches: 145, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
157 4 0.03
158 125 0.86
159 16 0.11
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (158 bp):
ATCGGGGATACTCCAACCACGTTATCATCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAAC
ACCAATTTCTCACAACAGGGAATACTCCAACCCCGTTATTTTGGAAGAGATACTCCAACCCCGAC
CTTATTTCTAAAACATCGATTTTCCACA
Found at i:850585 original size:20 final size:20
Alignment explanation
Indices: 850538--850612 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
850528 AAAAAGACAT
*
850538 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
850557 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
850578 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
850598 AATGTATCGATACAT
1 AATGTATCGATACAT
850613 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:850606 original size:40 final size:39
Alignment explanation
Indices: 850535--850612 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
850525 GGTAAAAAGA
* *
850535 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
850574 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
850613 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:851189 original size:32 final size:32
Alignment explanation
Indices: 851140--852410 Score: 1595
Period size: 32 Copynumber: 41.2 Consensus size: 32
851130 AATATGGTGA
* * **
851140 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851172 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851204 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
851236 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851268 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851300 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851332 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851364 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851396 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851428 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851460 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851492 TTTGAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851524 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
851556 TTTAAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
851588 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851620 TTTGAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851652 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851684 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851716 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
851748 TTTGGAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851780 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851812 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851844 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851876 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851908 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
851940 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
851972 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
852002 TCTGAAA-GGG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * * *
852030 TCTGAAAAGAG-TGCCACTGGC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
852059 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* ** *
852088 TTTGAAA--GGATGCCAATGA-GT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
852116 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
852144 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
852173 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
852202 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
* * * *
852231 TTTAAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * ** *
852260 TTTGAAAAGAG-TGCCACTAAC-T-TGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
852289 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
852318 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
852346 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
852375 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
852404 TTTGAAA
1 TTTGAAA
852411 GGGATGAACA
Statistics
Matches: 1166, Mismatches: 55, Indels: 39
0.93 0.04 0.03
Matches are distributed among these distances:
27 1 0.00
28 100 0.09
29 260 0.22
30 14 0.01
31 1 0.00
32 790 0.68
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:853659 original size:13 final size:13
Alignment explanation
Indices: 853643--853679 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
853633 TTTTTTGCTA
853643 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
*
853656 TTTTTTTGTTTTG
1 TTTTTTTTTTTTG
853669 TTTTTTTTTTT
1 TTTTTTTTTTT
853680 GGGTGTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:865660 original size:20 final size:20
Alignment explanation
Indices: 865613--865687 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
865603 AAAAAGACAT
*
865613 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
865632 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
865653 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
865673 AATGTATCGATACAT
1 AATGTATCGATACAT
865688 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:865681 original size:40 final size:39
Alignment explanation
Indices: 865610--865687 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
865600 GGTAAAAAGA
* *
865610 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
865649 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
865688 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:867896 original size:5 final size:5
Alignment explanation
Indices: 867888--867920 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
867878 AAAAAAACAA
*
867888 AAAAC AAAAC AAAAC AAAAC AAAA- AGAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
867921 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:867906 original size:15 final size:14
Alignment explanation
Indices: 867878--867929 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
867868 CATTCTTTTT
*
867878 AAAAAAACAAAAAAC
1 AAAAAAA-ACAAAAC
867893 AAAACAAAACAAAAC
1 AAAA-AAAACAAAAC
*
867908 AAAAAGAACAAAA-
1 AAAAAAAACAAAAC
867921 AAAGAAAAA
1 AAA-AAAAA
867930 AAGAGAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.09
14 12 0.38
15 14 0.44
16 3 0.09
ACGTcount: A:0.85, C:0.12, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:867947 original size:19 final size:18
Alignment explanation
Indices: 867878--867947 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
867868 CATTCTTTTT
*
867878 AAAAAAACAAAAAACAAAAC
1 AAAAAAA-AAAAAA-AGAAC
*
867898 AAAACAAAACAAAAAGAAC
1 AAAA-AAAAAAAAAAGAAC
*
867917 AAAAAAAGAAAAAAAGAGAG
1 AAAAAAA-AAAAAAAGA-AC
867937 AAAAGAAAAAA
1 AAAA-AAAAAA
867948 GCCTGCTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.07
19 16 0.38
20 17 0.40
21 6 0.14
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAGAAC
Found at i:869133 original size:61 final size:61
Alignment explanation
Indices: 869010--869350 Score: 471
Period size: 61 Copynumber: 5.7 Consensus size: 61
869000 TCTCTCATTT
869010 CACCCTTTAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
869065 CACCCTTTAGTCCTCAAAGAGCGGGACGCCTTTTCCTTTTAAAGCCCACACGAGCTGGTAG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
869126 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
869187 CACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGG
1 CACCCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGG
* ** *
869250 CACCTTTTAGTCCTCAAAGAGCAGGACATCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGG
**
869311 CACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
869351 CTCCTTTGCC
Statistics
Matches: 258, Mismatches: 18, Indels: 13
0.89 0.06 0.04
Matches are distributed among these distances:
55 29 0.11
56 3 0.01
57 1 0.00
61 135 0.52
62 61 0.24
63 29 0.11
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (61 bp):
CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:869266 original size:124 final size:121
Alignment explanation
Indices: 869010--869349 Score: 492
Period size: 124 Copynumber: 2.8 Consensus size: 121
869000 TCTCTCATTT
*
869010 CACCCTTTAGTCCTCAAAGAGCAGGACG-----CCTTTCAAAGCCCACACAAGTTGGTGGCACCC
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * *
869070 TTTAGTCCTCAAAGAGCGGGACGCCTTTTCCTTTTAAAGCCCACACGAGCTGGTAG
66 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTAG
869126 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 CACCCTTTAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* * * *
869191 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGG
65 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT-CAAAGCCCACACAAGCTGGTAG
* * * * *
869250 CACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
1 CACCCTTTAGTCCTCAAAGAGCAGGAC-GCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
869315 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
65 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
869350 TCTCCTTTGC
Statistics
Matches: 200, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
116 28 0.14
122 33 0.17
123 59 0.29
124 80 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (121 bp):
CACCCTTTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTAG
Found at i:869370 original size:37 final size:38
Alignment explanation
Indices: 869322--869724 Score: 251
Period size: 37 Copynumber: 10.3 Consensus size: 38
869312 ACTTTTTAGT
869322 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
** *
869360 CCTC-TTGAGCA-GACACCTTTTCCTTTTCT-CTTTGC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
* * * *
869395 CCTCAAAGAGCAGGACACATTTCATTTCCTTATTTTCCCTTTTGT
1 CCTCAAAGAGCAGGACGC----CTTTTCCTT-TTCT-CC-TTTGC
* ** * * *
869440 CCTCAAAGAGCAGGATGTTTTTTTTTCTTTTTTCCTTTGT
1 CCTCAAAGAGCAGGACG--CCTTTTCCTTTTCTCCTTTGC
* * *
869480 CCTCAAAGAGCAGGACACCTTTTCCTTTTCTCTTTTAC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
*** * * * *
869518 CCT-TTTGAGCAGGATGCCTTTTTCTTTTCTCTTTTAC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
* * * * *
869555 CCTCAAAGAGCAAGACACATTTCATTTCCTTCTTATCCCTTTTGT
1 CCTCAAAGAGCAGGACGC----CTTTTCCTT-TTCT-CC-TTTGC
**** * *
869600 CCTCAAAGAGCAGGATTTTTTTTTCATTTT-TCCTTTGT
1 CCTCAAAGAGCAGGA-CGCCTTTTCCTTTTCTCCTTTGC
* *
869638 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTTC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
** * *
869676 CCTC-TTGAGCATGACGCATTTTCCTTTTCTCCTTTGC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
869713 CCTCAAAGAGCA
1 CCTCAAAGAGCA
869725 AGACACATTT
Statistics
Matches: 278, Mismatches: 64, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
35 10 0.04
36 22 0.08
37 81 0.29
38 63 0.23
39 2 0.01
40 21 0.08
41 12 0.04
42 20 0.07
43 9 0.03
44 2 0.01
45 36 0.13
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.42
Consensus pattern (38 bp):
CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
Found at i:869380 original size:36 final size:36
Alignment explanation
Indices: 869329--869412 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
869319 AGTCCTCAAA
*
869329 GAGCAGGACGCCTTTTCCTTTTCTCCTTTGCCCTCTT
1 GAGCAGGACACCTTTTCCTTTTCT-CTTTGCCCTCTT
**
869366 GAGCA-GACACCTTTTCCTTTTCTCTTTGCCCTCAAA
1 GAGCAGGACACCTTTTCCTTTTCTCTTTGCCCTC-TT
869402 GAGCAGGACAC
1 GAGCAGGACAC
869413 ATTTCATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 10 0.24
36 22 0.52
37 10 0.24
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (36 bp):
GAGCAGGACACCTTTTCCTTTTCTCTTTGCCCTCTT
Found at i:869446 original size:45 final size:42
Alignment explanation
Indices: 869378--870027 Score: 261
Period size: 41 Copynumber: 15.9 Consensus size: 42
869368 GCAGACACCT
* *
869378 TTTCCTTTTCT-CTTTGCCCTCAAAGAGCAGGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
** **
869419 TTTCCTTATTTTCCCTTTTGTCCTCAAAGAGCAGG--ATGTTTTT
1 TTTCCTT-TTTT-CC-TTTGTCCTCAAAGAGCAGGACACATTTCA
* *
869462 TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC----CT
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * ** *** ** *
869500 TTTCCTTTTCTCTTTTACCCT-TTTGAGCAGGATGC-CTT--
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * ** *
869538 TTT-CTTTTCTCTTTTACCCTCAAAGAGCAAGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* **
869579 TTTCCTTCTTATCCCTTTTGTCCTCAAAGAGCAGG----ATTTTT
1 TTTCCTT-TT-TTCC-TTTGTCCTCAAAGAGCAGGACACATTTCA
* * * *
869620 TTTTCATTTTTCCTTTGTCCTCAAAGAGCAGGACGC----CT
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * ** * *
869658 TTTCCTTTTCT-CTTTTTCCCTC-TTGAGCATGACGCA--T--
1 TTTCCTTTTTTCCTTTGT-CCTCAAAGAGCAGGACACATTTCA
* * *
869695 TTTCCTTTTCTCCTTTGCCCTCAAAGAGCAAGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * ** **
869737 TTTCCATCTTTTCCCTTTTGTCCTCAAAGAGCATG--ATGTTTTT
1 TTTCC-T-TTTTTCC-TTTGTCCTCAAAGAGCAGGACACATTTCA
* * * ** *
869780 TTTTCTTTTTTCCTTTGTCCTCAAAGAGTAGAATGCACTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
869822 TTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCATGATGTAC-TTT-A
1 TTTCCTT-TTTT-CCTT-T-GTCCTCAAAGAGCAGGA--CACATTTCA
* * *
869868 TTCTCC-TTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAA
1 TT-TCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * ** *
869910 TTTCC-TGTTTCCTTTGTCTTCAAAAAGCAGGATGCATTTTA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * *
869951 TTTCCTTTTCTCCTTAGTCCCCAAGGAGCAGGACCCATTTC-
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
* **
869992 TTT-CTCCTTTTCCTTAATCCTCAAAGAGCAGGACAC
1 TTTCCT-TTTTTCCTTTGTCCTCAAAGAGCAGGACAC
870028 CTCTTTCCTT
Statistics
Matches: 460, Mismatches: 103, Indels: 92
0.70 0.16 0.14
Matches are distributed among these distances:
37 56 0.12
38 74 0.16
39 5 0.01
40 42 0.09
41 95 0.21
42 67 0.15
43 26 0.06
44 15 0.03
45 56 0.12
46 17 0.04
47 5 0.01
48 2 0.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCA
Found at i:869501 original size:158 final size:159
Alignment explanation
Indices: 869320--869807 Score: 784
Period size: 158 Copynumber: 3.1 Consensus size: 159
869310 GCACTTTTTA
* * *
869320 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGCCCTCTTGAGCA-GACACCTTTTCCT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTACCCTCTTGAGCAGGACGCCTTTTCCT
* *
869384 TTTCTCTTTGCCCTCAAAGAGCAGGACACATTTCATTTCCTTATTTTCCCTTTTGTCCTCAAAGA
66 TTTCTCTTTGCCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGA
869449 GCAGGATGTTTTTTTTTCTTTTTTCCTTT
131 GCAGGATGTTTTTTTTTCTTTTTTCCTTT
* * * *
869478 GTCCTCAAAGAGCAGGACACCTTTTCCTTTTCTCTTTTACCCTTTTGAGCAGGATGCCTTTTTCT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTACCCTCTTGAGCAGGACGCCTTTTCCT
* *
869543 TTTCTCTTTTACCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTATCCCTTTTGTCCTCAAAG
66 TTTCTC-TTTGCCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAG
*
869608 AGCAGGA--TTTTTTTTTCATTTTTCCTTT
130 AGCAGGATGTTTTTTTTTCTTTTTTCCTTT
* * *
869636 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTTCCCTCTTGAGCATGACGCATTTTCCT
1 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTACCCTCTTGAGCAGGACGCCTTTTCCT
*
869701 TTTCTCCTTTGCCCTCAAAGAGCAAGACACATTTCATTTCCATCTTTTCCCTTTTGTCCTCAAAG
66 TTTCT-CTTTGCCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAG
*
869766 AGCATGATGTTTTTTTTTCTTTTTTCCTTT
130 AGCAGGATGTTTTTTTTTCTTTTTTCCTTT
869796 GTCCTCAAAGAG
1 GTCCTCAAAGAG
869808 TAGAATGCAC
Statistics
Matches: 301, Mismatches: 24, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
158 191 0.63
159 17 0.06
160 93 0.31
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.43
Consensus pattern (159 bp):
GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCTTTTACCCTCTTGAGCAGGACGCCTTTTCCT
TTTCTCTTTGCCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGA
GCAGGATGTTTTTTTTTCTTTTTTCCTTT
Found at i:869642 original size:83 final size:82
Alignment explanation
Indices: 869377--870024 Score: 412
Period size: 83 Copynumber: 7.9 Consensus size: 82
869367 AGCAGACACC
* * *
869377 TTTTCC-TTTTCTCTTTGCCCTCAAAGAGCAGGACACATTTCATTTCCTTATTTTCCCTTTTGTC
1 TTTTCCTTTTTC-CTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTT-CTTTCCCTTTTGTC
869441 CTCAAAGAGCAGGATGTTTTT
64 CTCAAAGAGCAGGA--TTTTT
* * * * **
869462 TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC----CTTTTCC-T-TTTCTCTTTTACCCT
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTCCCTTTTGTCCT
*** ***
869521 -TTTGAGCAGGATGCCT
66 CAAAGAGCAGGATTTTT
* **
869537 TTTT-CTTTTCTCTTTTACCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTATCCCTTTTGTC
1 TTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTT-TCCCTTTTGTC
869601 CTCAAAGAGCAGGATTTTT
64 CTCAAAGAGCAGGATTTTT
* * * * *
869620 TTTTCATTTTTCCTTTGTCCTCAAAGAGCAGGACGC----CTTTTCC-T-TTTCTCTTTT-TCCC
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTCCCTTTTGT-CC
** * ****
869678 TC-TTGAGCATGA-CGCA
65 TCAAAGAGCAGGATTTTT
* *
869694 TTTTCCTTTTCTCCTTTGCCCTCAAAGAGCAAGACACATTTCATTTCCATCTTTTCCCTTTTGTC
1 TTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTC-TTTCCCTTTTGTC
*
869759 CTCAAAGAGCATGATGTTTTT
64 CTCAAAGAGCAGGA--TTTTT
* * * *
869780 TTTTCTTTTTTCCTTTGTCCTCAAAGAG-TAGA-ATGCACTTCATTTCCTTCTTTTCCCTTCTAG
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACA--CATTTCATTTCCTTC-TTTCCCTT-TTG
* *
869843 TTCTCAAAGAGCATGATGTACTTT
62 TCCTCAAAGAGCAGGAT-T--TTT
* * * * *
869867 ATTCTCCTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCC-TGTTT-CC-TTTGTCT
1 -TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTCCCTTTTGTCC
*
869929 TCAAAAAGCAGGATGCATTTT
65 TCAAAGAGCAGGAT---TTTT
* * * * * * * * **
869950 ATTTCCTTTTCTCCTTAGTCCCCAAGGAGCAGGACCCATTTC-TTT-CTCCTTTTCC-TTAATCC
1 TTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTCCCTTTTGTCC
870012 TCAAAGAGCAGGA
65 TCAAAGAGCAGGA
870025 CACCTCTTTC
Statistics
Matches: 435, Mismatches: 89, Indels: 80
0.72 0.15 0.13
Matches are distributed among these distances:
74 13 0.03
75 59 0.14
76 11 0.03
77 10 0.02
78 13 0.03
79 18 0.04
80 3 0.01
81 9 0.02
82 37 0.09
83 105 0.24
84 9 0.02
85 71 0.16
86 34 0.08
87 4 0.01
88 35 0.08
89 3 0.01
90 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.43
Consensus pattern (82 bp):
TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTCCCTTTTGTCCT
CAAAGAGCAGGATTTTT
Found at i:870045 original size:41 final size:39
Alignment explanation
Indices: 869950--870046 Score: 92
Period size: 41 Copynumber: 2.4 Consensus size: 39
869940 GATGCATTTT
* *
869950 ATTTCCTTTTC--TCCTTAGTCCCCAAGGAGCAGGACCC
1 ATTTCCTTTTCTTTCCTTAATCCCCAAAGAGCAGGACCC
*
869987 ATTT-CTTTCTCCTTTTCCTTAATCCTCAAAGAGCAGGACACC
1 ATTTCCTTT-T-C-TTTCCTTAATCCCCAAAGAGCAGGAC-CC
*
870029 TCTTTCCTTTTCTTTCCT
1 -ATTTCCTTTTCTTTCCT
870047 CTTCCAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
36 4 0.08
37 5 0.10
38 1 0.02
41 27 0.56
42 3 0.06
43 4 0.08
44 4 0.08
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (39 bp):
ATTTCCTTTTCTTTCCTTAATCCCCAAAGAGCAGGACCC
Found at i:870520 original size:20 final size:20
Alignment explanation
Indices: 870495--870601 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
870485 TTTTCACAAT
870495 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
870515 TTGTATCGATACATTCTGGGTTTTACCCA
1 TTGTATCGATACA-T-T--G--TT---CA
* *
870544 GATGTATCGATACATTATTCA
1 -TTGTATCGATACATTGTTCA
870565 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
870585 TTGTATCGATACATTGT
1 TTGTATCGATACATTGT
870602 ATCGATACAT
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
20 48 0.66
21 3 0.04
22 1 0.01
24 3 0.04
26 2 0.03
28 1 0.01
29 3 0.04
30 12 0.16
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:870581 original size:13 final size:13
Alignment explanation
Indices: 870563--870612 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
870553 ATACATTATT
870563 CATTGTATCGATA
1 CATTGTATCGATA
870576 CATTGT-TC---A
1 CATTGTATCGATA
870585 --TTGTATCGATA
1 CATTGTATCGATA
870596 CATTGTATCGATA
1 CATTGTATCGATA
870609 CATT
1 CATT
870613 CTGGGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
9 1 0.03
11 1 0.03
12 2 0.06
13 21 0.68
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:873050 original size:28 final size:28
Alignment explanation
Indices: 873014--873087 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
873004 ATTTTTCACA
873014 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
873042 ATCGTGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
***
873070 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
873088 TCGACTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:873130 original size:79 final size:77
Alignment explanation
Indices: 873042--873375 Score: 278
Period size: 79 Copynumber: 4.2 Consensus size: 77
873032 CCGTTATTTC
*
873042 ATCGTGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC-CGACTTTATTTCTAAAAT
*
873107 ATTGATTTCTCACA
65 ATCGATTT-TCACA
** * * * *
873121 ATCGGGGATACTCCAACCCCGTTATTTTGGCGGGGATACTCTAACCCCGGCTTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCGACTTTATTTCTAAA-A
873186 T-TCGATTTTCCACA
64 TATCGATTTT-CACA
* * * *
873200 ATCGGGGATACTCCAAACCCGTTATCTT-CTAAGGGATACTCCAACCCTGATTTTATTT-TCAAA
1 ATCGGGGATACTCCAACCCCGTTAT-TTCCGAGGGGATACTCCAACCC-GACTTTATTTCT-AAA
* *
873263 ACATCGATTTTCTATA
63 ATATCGATTTTC-ACA
* ** * * * * * *
873279 ATCAGGGACGCTCCAACCCTGTTATTTCTGAGGGAATACTTCAACCCCGATTTTTTTTTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCGA--CTTTATTTCTAAA
* * *
873344 ACACCGATTTTTCATA
63 ATATCGA-TTTTCACA
*
873360 ATTAGGGGATACTCCA
1 A-TCGGGGATACTCCA
873376 GCCTTGTTGT
Statistics
Matches: 205, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
78 8 0.04
79 153 0.75
80 8 0.04
81 20 0.10
82 16 0.08
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (77 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCGACTTTATTTCTAAAATA
TCGATTTTCACA
Found at i:879929 original size:2 final size:2
Alignment explanation
Indices: 879922--879949 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
879912 TTTAACATGC
879922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
879950 CATGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:880021 original size:101 final size:101
Alignment explanation
Indices: 879846--880050 Score: 392
Period size: 101 Copynumber: 2.0 Consensus size: 101
879836 CCTCAATTGT
*
879846 TATCATGATTTTTAATTTTCATTTGAAAATTAAGAATTTCAATTTTGAATGCTAGGAATATGATG
1 TATCATGATTTTTAATTTTCATTAGAAAATTAAGAATTTCAATTTTGAATGCTAGGAATATGATG
879911 CTTTAACATGCATATATATATATATATATATATATA
66 CTTTAACATGCATATATATATATATATATATATATA
*
879947 TATCATGATTTTTAATTTTCATTAGAAAATTAAGGATTTCAATTTTGAATGCTAGGAATATGATG
1 TATCATGATTTTTAATTTTCATTAGAAAATTAAGAATTTCAATTTTGAATGCTAGGAATATGATG
880012 CTTTAACATGCATATATATATATATATATATATATA
66 CTTTAACATGCATATATATATATATATATATATATA
880048 TAT
1 TAT
880051 ATATATATAT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (101 bp):
TATCATGATTTTTAATTTTCATTAGAAAATTAAGAATTTCAATTTTGAATGCTAGGAATATGATG
CTTTAACATGCATATATATATATATATATATATATA
Found at i:880030 original size:2 final size:2
Alignment explanation
Indices: 880023--880066 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
880013 TTTAACATGC
880023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
880065 AT
1 AT
880067 CAACTAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:880681 original size:18 final size:18
Alignment explanation
Indices: 880636--880691 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
880626 TAAGAGTTAA
880636 ATAAATAAATTTTATTTTTT
1 ATAAA-AAA-TTTATTTTTT
880656 ATTAAAAAAATTTATTTTTT
1 A-T-AAAAAATTTATTTTTT
**
880676 ATAAAAGTTTTATTTT
1 ATAAAAAATTTATTTT
880692 ATCTTATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 12 0.38
19 1 0.03
20 12 0.38
21 4 0.12
22 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAAAAAATTTATTTTTT
Found at i:881558 original size:28 final size:28
Alignment explanation
Indices: 881499--881564 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
881489 TGAACATACA
* **
881499 TATTAATATTTTAATAATATATAATATTT
1 TATTAATA-TCTAATAATATATAATAAAT
*
881528 TATTTATATCTAATAATATATAATAAAT
1 TATTAATATCTAATAATATATAATAAAT
881556 TATTAATAT
1 TATTAATAT
881565 AATTGATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTAATATCTAATAATATATAATAAAT
Found at i:881610 original size:21 final size:22
Alignment explanation
Indices: 881586--881628 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
881576 CGTATTATTT
881586 TAATAAAAATATTA-TTTAATA
1 TAATAAAAATATTACTTTAATA
*
881607 TAATAATAATATTACTTTAATA
1 TAATAAAAATATTACTTTAATA
881629 ATAAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATAAAAATATTACTTTAATA
Found at i:881830 original size:19 final size:17
Alignment explanation
Indices: 881790--881832 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
881780 TAGTATAAAT
881790 AATATTTTAATAATTAA
1 AATATTTTAATAATTAA
* *
881807 TATATTTTCAATATTTTAA
1 AATATTTT-AATA-ATTAA
881826 AATATTT
1 AATATTT
881833 ATATAGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTTAATAATTAA
Found at i:882081 original size:17 final size:17
Alignment explanation
Indices: 882033--882084 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
882023 TTAAAAAGTG
882033 TAAAAATAATATTTTAA
1 TAAAAATAATATTTTAA
* *
882050 TAATAAT--TATATTAA
1 TAAAAATAATATTTTAA
882065 TAAAAATAATATTTTAA
1 TAAAAATAATATTTTAA
882082 TAA
1 TAA
882085 TCATTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.45
17 16 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAATAATATTTTAA
Found at i:882104 original size:32 final size:32
Alignment explanation
Indices: 882033--882143 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
882023 TTAAAAAGTG
*
882033 TAAAAATAATATTTTAATAATAATTATATTAA
1 TAAAAATAATATTTTAATAATAATTATAATAA
* *
882065 TAAAAATAATATTTTAATAATCATTATAATAT
1 TAAAAATAATATTTTAATAATAATTATAATAA
** *
882097 TTTAAAT-AT-TTATATAATTAAT-GTTATAATAA
1 TAAAAATAATATT-T-TAA-TAATAATTATAATAA
*
882129 TAAATATAATATTTT
1 TAAAAATAATATTTT
882144 GGTATTAACT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.03
31 3 0.05
32 50 0.78
33 7 0.11
34 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAAAAATAATATTTTAATAATAATTATAATAA
Found at i:882231 original size:23 final size:23
Alignment explanation
Indices: 882184--882238 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
882174 ATTTGAAATA
*
882184 TTAATATCTTAATAATAAATATT
1 TTAATATTTTAATAATAAATATT
* ** *
882207 TTTATATTTTAATAATTTATGTT
1 TTAATATTTTAATAATAAATATT
882230 TTAATATTT
1 TTAATATTT
882239 ATGTCAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTAATATTTTAATAATAAATATT
Found at i:882240 original size:14 final size:15
Alignment explanation
Indices: 882207--882242 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
882197 AATAAATATT
*
882207 TTTATATTTTAATAA
1 TTTATGTTTTAATAA
882222 TTTATGTTTTAAT-A
1 TTTATGTTTTAATAA
882236 TTTATGT
1 TTTATGT
882243 CAATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTATGTTTTAATAA
Found at i:884181 original size:20 final size:20
Alignment explanation
Indices: 884158--884199 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
884148 TTATTTTAAG
*
884158 TAAAAATGTATTAAATAAAA
1 TAAAAATATATTAAATAAAA
* *
884178 TAAAAATATATTTATTAAAA
1 TAAAAATATATTAAATAAAA
884198 TA
1 TA
884200 CATATAGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATATATTAAATAAAA
Found at i:886237 original size:20 final size:20
Alignment explanation
Indices: 886212--886286 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
886202 TTTTACCCAG
886212 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
886232 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
886252 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTCTTCA
886272 ATGTATCGATACATT
1 ATGTATCGATACATT
886287 TTGTCCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:887248 original size:20 final size:22
Alignment explanation
Indices: 887208--887255 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
887198 TAACCTTTGA
*
887208 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
887230 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
887249 CCA-GCAT
1 CCATGCAT
887256 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:890587 original size:19 final size:19
Alignment explanation
Indices: 890563--890600 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
890553 TTCTATCACA
*
890563 AAATTTTGTTACAAATTTT
1 AAATTTTATTACAAATTTT
890582 AAATTTTATTACAAATTTT
1 AAATTTTATTACAAATTTT
890601 TGCCATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTTTATTACAAATTTT
Found at i:891216 original size:7 final size:8
Alignment explanation
Indices: 891196--891244 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
891186 TTTACTAATT
891196 ATTTTTAA
1 ATTTTTAA
891204 ATTTTTAA
1 ATTTTTAA
*
891212 ATTTTTAT
1 ATTTTTAA
*
891220 TTTTTTAA
1 ATTTTTAA
**
891228 ATTAATAA
1 ATTTTTAA
*
891236 ATATTTAA
1 ATTTTTAA
891244 A
1 A
891245 GAGGTTAATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTTTAA
Found at i:891236 original size:24 final size:24
Alignment explanation
Indices: 891197--891242 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
891187 TTACTAATTA
** *
891197 TTTTTAAATTTTTAAATTTTTATT
1 TTTTTAAATTAATAAATATTTATT
891221 TTTTTAAATTAATAAATATTTA
1 TTTTTAAATTAATAAATATTTA
891243 AAGAGGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTAAATTAATAAATATTTATT
Found at i:891724 original size:14 final size:13
Alignment explanation
Indices: 891696--891732 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
891686 TATATTATTT
891696 AAAAA-TAAAATA
1 AAAAATTAAAATA
891708 AAAAATTAAATATA
1 AAAAATTAAA-ATA
891722 AAAAATTAAAA
1 AAAAATTAAAA
891733 ATAATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTAAAATA
Found at i:891736 original size:14 final size:14
Alignment explanation
Indices: 891702--891736 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
891692 ATTTAAAAAT
891702 AAAATAAAAAATTA
1 AAAATAAAAAATTA
*
891716 AATATAAAAAATTA
1 AAAATAAAAAATTA
891730 AAAATAA
1 AAAATAA
891737 TTAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAAAATTA
Found at i:891992 original size:12 final size:12
Alignment explanation
Indices: 891955--891997 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
891945 ATATATTATT
*
891955 TAAATAATAAAA
1 TAAAAAATAAAA
* *
891967 TAAAAATCTTAAA
1 TAAAAA-ATAAAA
891980 TAAAAAATAAAA
1 TAAAAAATAAAA
891992 TAAAAA
1 TAAAAA
891998 CCCACAACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:893004 original size:16 final size:15
Alignment explanation
Indices: 892958--893006 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
892948 CGATAATAGT
892958 ATAATATAAAA-AA-
1 ATAATATAAAATAAC
892971 ATAAT-TAAAATAATAC
1 ATAATATAAAAT-A-AC
892987 ATAATATAAAAATAAC
1 ATAATAT-AAAATAAC
893003 ATAA
1 ATAA
893007 CAAAAATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 1 0.03
15 1 0.03
16 11 0.37
17 2 0.07
18 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAATATAAAATAAC
Found at i:894655 original size:18 final size:18
Alignment explanation
Indices: 894612--894655 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
894602 ATCAAATTTA
894612 TAAGTAAAAAATTTTAGT
1 TAAGTAAAAAATTTTAGT
* *
894630 TTATTAAAAGAATTTT-GT
1 TAAGTAAAA-AATTTTAGT
894648 TAAGTAAA
1 TAAGTAAA
894656 TTTATTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
TAAGTAAAAAATTTTAGT
Found at i:895247 original size:15 final size:14
Alignment explanation
Indices: 895217--895262 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
895207 TAGTATTAAA
895217 TTTAAA-TTTTGAG
1 TTTAAATTTTTGAG
895230 TTTAAATTTTTCGAG
1 TTTAAATTTTT-GAG
*
895245 TTTAAACTTTTTAAG
1 TTTAAA-TTTTTGAG
895260 TTT
1 TTT
895263 GATAATTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 4 0.14
15 14 0.48
16 5 0.17
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (14 bp):
TTTAAATTTTTGAG
Found at i:897870 original size:21 final size:19
Alignment explanation
Indices: 897846--897885 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
897836 TTTTTTCAGC
897846 AAAAGAGAAAGAAAGAAAAAA
1 AAAAGAG-AAGAAA-AAAAAA
897867 AAAAGAGAAGAAAAAAAAA
1 AAAAGAGAAGAAAAAAAAA
897886 TGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAGAAAAAAAAA
Found at i:897871 original size:15 final size:16
Alignment explanation
Indices: 897853--897885 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
897843 AGCAAAAGAG
897853 AAAGA-AAGAAAAAAA
1 AAAGAGAAGAAAAAAA
897868 AAAGAGAAGAAAAAAA
1 AAAGAGAAGAAAAAAA
897884 AA
1 AA
897886 TGGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAGAGAAGAAAAAAA
Found at i:897937 original size:35 final size:34
Alignment explanation
Indices: 897892--897993 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 34
897882 AAAATGGAAA
*
897892 AAAATTTATATTTATATTTAATTTTTT-TATATGT
1 AAAATTTATATTTATATAT-ATTTTTTATATATGT
*
897926 AAAATATTATATTTTTATATATTTTTTATATATG-
1 AAAAT-TTATATTTATATATATTTTTTATATATGT
* * *
897960 AATAATTT-TTTTTATTTTATATATATTTATATAT
1 AA-AATTTATATTTA-TATATAT-TTTTTATATAT
897994 ATATATGTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
33 4 0.07
34 22 0.39
35 31 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (34 bp):
AAAATTTATATTTATATATATTTTTTATATATGT
Found at i:898777 original size:594 final size:598
Alignment explanation
Indices: 897912--899110 Score: 1590
Period size: 596 Copynumber: 2.0 Consensus size: 598
897902 TTTATATTTA
**
897912 ATTTTTTTATATGTAAAATATTATATTTTTATATATTTTTTATATATGAATAATTTTTTTTATTT
1 ATTTTTTTATATGTAAAATATTATATTTTTATATATTTTTTATATATGAATAATTCATTTTATTT
* * **
897977 TATATATATTTATATATATATATGTGTATTCATGTTATGTGTATATAATTTTTCAAGTTATATTT
66 CATATATATTTATATATATATATGTATATTCACATTATGTGTATATAATTTTTCAAGTTATATTT
* *
898042 TAAATATTTTTTATAAATATCATGTTTATGTTATTTTGTATATTTAAAATAAAGTAAATTTATAT
131 TAAATATTTTTTATAAACATCATGTTTATGTTATTTTGTATATTTAAAATAAAATAAATTTATAT
* * *
898107 AAATTTGTATATGTTATTTATTTATTTATCTATATTTTGATATATTAATGTATTCGTACCGTATT
196 AAATTTGTACATGTTAATTATTTATTTATCTATATTTTGACATATTAATGTATTCGTACCGTATT
* * * *
898172 TATATTATTTTTTATATTGTGTTTTAATTATATATATATATATTGAGTTTGCATTATATTTCAAT
261 TATATTATTTTTCATATTGTATTTTAATTATATATATATATATTGAGTTTACATTATATCTCAAT
*
898237 TCATGTTATATTTT-GCATAG-TCAATCACCGTGATTCAAATTAT-AAAAAAATTTATATATTCG
326 TCATGTTATATTTTAGCATAGCT-AATCAACGTGATTCAAATTATAAAAAAAATTTATATATTCG
* * * *
898299 TATCATGTTAATAACCTATCTCAATTCAAGATATATTTTATAAAATTTTTTATCATGTTTCAATT
390 TATAATGTTAATAACCTATCTCAATTCAAAATATATTTTATAAAATTTTTCATCATATTTCAATT
* *
898364 TAGTGAAAATTTTGT-ACGTTCATAACGAGTTCGCATTATTTTTTACATGTTAAAAATATTATAA
455 TAGTAAAAATTTTGTGA-GTTCATAACGAGTTCGCATTATTTTTTACATGTAAAAAATATTATAA
* * * * *
898428 ATTTATATAAATTTGTATATGTCAATAATTAGCATTATATATATTTTAGTACGTTTGCTTATTTG
519 AGTTATAGAAATTTGTATATATCAATAATTAACATTATATATATTTTAGTACATTTGCTTATTTG
* **
898493 TACTCGTATTTGTATT
584 TA-TCATATTCATATT
* * * *
898509 ATTTTTTTATATTTAAAATATTATATTTTTGTATA-TTTTTATGTATTAATAATTCATTTTATTT
1 ATTTTTTTATATGTAAAATATTATATTTTTATATATTTTTTATATATGAATAATTCATTTTATTT
* * * * *
898573 CATGTATA-TT-TGTATATGTATGTATATTCACATTATGTGTATATCATTTTT-ATA-TTATGTT
66 CATATATATTTATATATATATATGTATATTCACATTATGTGTATATAATTTTTCA-AGTTATATT
* * * * *
898634 TTAAATTATTTTTTCTAAACATTATGTTTATGTTATTTTTTTATGTTTAAAATAAAATAAATTTT
130 TTAAA-TATTTTTTATAAACATCATGTTTATGTTA-TTTTGTATATTTAAAATAAAATAAATTTA
* ** * *
898699 TAT-AATTTTTACATGTTAATTATTTATTTATCTATATTTTGACATATTCGTGTATTTGTATCGT
193 TATAAATTTGTACATGTTAATTATTTATTTATCTATATTTTGACATATTAATGTATTCGTACCGT
* * * * * *
898763 GTTTATATTATTTTTCATGTTGTATTTTAATTTTTTATATATATGTTGAGTTTATATTATATCTC
258 ATTTATATTATTTTTCATATTGTATTTTAATTATATATATATATATTGAGTTTACATTATATCTC
* * * *
898828 AATTCATGTTATATTTTATCCTAGCTAATTAACGTGATTCAATTTATAAAAAAAATTTATATATT
323 AATTCATGTTATATTTTAGCATAGCTAATCAACGTGATTCAAATTATAAAAAAAATTTATATATT
* *** * * *
898893 TGTATAATGTTAATGGTCTATCTCAATTCAAAATATATTTTGTATAATTTTTCATCGTATTTCAA
388 CGTATAATGTTAATAACCTATCTCAATTCAAAATATATTTTATAAAATTTTTCATCATATTTCAA
* * ** *
898958 TTTAGTAAAAATTTTGTGAGTTCATAACGTGTTCGTATTATTTTTTATGTGTAAAAAATATTATG
453 TTTAGTAAAAATTTTGTGAGTTCATAACGAGTTCGCATTATTTTTTACATGTAAAAAATATTATA
* * * * *
899023 AAGTTATAGAAATTTTTATATATTAATTATTAATATTATATATATTTTGGTACATTTGCTTATTT
518 AAGTTATAGAAATTTGTATATATCAATAATTAACATTATATATATTTTAGTACATTTGCTTATTT
899088 GTATCATATTCATATT
583 GTATCATATTCATATT
899104 ATTTTTT
1 ATTTTTT
899111 ATGCTGTTTT
Statistics
Matches: 519, Mismatches: 76, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
593 12 0.02
594 187 0.36
595 69 0.13
596 217 0.42
597 34 0.07
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (598 bp):
ATTTTTTTATATGTAAAATATTATATTTTTATATATTTTTTATATATGAATAATTCATTTTATTT
CATATATATTTATATATATATATGTATATTCACATTATGTGTATATAATTTTTCAAGTTATATTT
TAAATATTTTTTATAAACATCATGTTTATGTTATTTTGTATATTTAAAATAAAATAAATTTATAT
AAATTTGTACATGTTAATTATTTATTTATCTATATTTTGACATATTAATGTATTCGTACCGTATT
TATATTATTTTTCATATTGTATTTTAATTATATATATATATATTGAGTTTACATTATATCTCAAT
TCATGTTATATTTTAGCATAGCTAATCAACGTGATTCAAATTATAAAAAAAATTTATATATTCGT
ATAATGTTAATAACCTATCTCAATTCAAAATATATTTTATAAAATTTTTCATCATATTTCAATTT
AGTAAAAATTTTGTGAGTTCATAACGAGTTCGCATTATTTTTTACATGTAAAAAATATTATAAAG
TTATAGAAATTTGTATATATCAATAATTAACATTATATATATTTTAGTACATTTGCTTATTTGTA
TCATATTCATATT
Found at i:899789 original size:10 final size:9
Alignment explanation
Indices: 899771--899824 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
899761 ATAATATATA
899771 AAAATAAAAT
1 AAAA-AAAAT
*
899781 AATTAAAAAT
1 AA-AAAAAAT
*
899791 ATATAAAAAT
1 A-AAAAAAAT
899801 AAAAAAAAT
1 AAAAAAAAT
899810 AAAAAAAAT
1 AAAAAAAAT
899819 AAAAAA
1 AAAAAA
899825 TAAATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 22 0.55
10 16 0.40
11 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:899791 original size:25 final size:25
Alignment explanation
Indices: 899763--899834 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
899753 TTATTTATAT
899763 AATATATAAAAATAAAATAATTAAA
1 AATATATAAAAATAAAATAATTAAA
* *
899788 AATATATAAAAATAAAAAAAATAAA
1 AATATATAAAAATAAAATAATTAAA
* *
899813 AA-AAATAAAAAATAAATTAATT
1 AATATAT-AAAAATAAAATAATT
899835 GTATATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 3 0.08
25 37 0.93
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
AATATATAAAAATAAAATAATTAAA
Found at i:899954 original size:18 final size:18
Alignment explanation
Indices: 899919--899977 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
899909 TATTTTATTT
**
899919 TATTTATATTTTTATATA
1 TATTTATATTCATATATA
*
899937 TATTTATATTCATGTATA
1 TATTTATATTCATATATA
**
899955 TGCTTATATTTCATAT-TA
1 TATTTATA-TTCATATATA
899973 TATTT
1 TATTT
899978 TAAATATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (18 bp):
TATTTATATTCATATATA
Found at i:900312 original size:22 final size:22
Alignment explanation
Indices: 900286--900327 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
900276 AAAAAAATTT
*
900286 ATTTTAGATTTT-TTATATTTAA
1 ATTTTAAATTTTATT-TATTTAA
900308 ATTTTAAATTTTATTTATTT
1 ATTTTAAATTTTATTTATTT
900328 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTAAATTTTATTTATTTAA
Found at i:900324 original size:18 final size:18
Alignment explanation
Indices: 900301--900335 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
900291 AGATTTTTTA
900301 TATTTAAATTTTAAATTT
1 TATTTAAATTTTAAATTT
**
900319 TATTTATTTTTTAAATT
1 TATTTAAATTTTAAATT
900336 ATCTATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTAAATTTTAAATTT
Found at i:900590 original size:419 final size:426
Alignment explanation
Indices: 900129--900947 Score: 1535
Period size: 425 Copynumber: 1.9 Consensus size: 426
900119 TGTAGCTTGA
900129 TTTAATATTCATCCTTGACTCACTTAAAAAAAAATATTATTTTATAATTAATTTTAAGTTTTTTA
1 TTTAATATTCATCCTTGACTCACTT-AAAAAAAATATTATTTTATAATTAATTTTAAGTTTTTTA
*
900194 TTATATTTGTAAATGATATATTTAAAAGAGTTAATTATCATACTATAATTT-TAATTTGATTTAG
65 TTATATTTGTAAATGATATATTTAAAAGAGTTAATTATCATACTATAATTTATAAGTTGATTTAG
* *
900258 AATCCCTA-TT-ATCACCT-TAAAAAAATTTATTTTAGATTTTTTATATTTAAATTTTAAA-TTT
130 AATCCATATTTAATCAACTCTAAAAAAATTTATTTTAGATTTTTTATATTTAAATTTTAAATTTT
* *
900319 TATTTATTTTTTAAATTATCTATAAAGCGATTGATCTGTGCATTGATTAGAATATGATTTAAGAT
195 TATTTAATTTTTAAATGATCTATAAAGCGATTGATCTGTGCATTGATTAGAATATGATTTAAGAT
900384 TTATATATAAATTATTTAGT-AAAAAATTAATCAATAAATTTATTTATTTTTAAATGATATATTA
260 TTATATATAAATTATTTAGTAAAAAAATTAATCAATAAATTTATTTATTTTTAAATGATATATTA
900448 AATAAGTTAGTTTGCACGTTAACTTATATGTCGATCTAAGAATCATAACCAATCAGCTTAAAATT
325 AATAAGTTAGTTTGCACGTTAACTTATATGTCGATCTAAGAATCATAACCAATCAGCTTAAAATT
900513 TTTTTAAAAACTTGATCGATATTGATCGATAAATTAT
390 TTTTTAAAAACTTGATCGATATTGATCGATAAATTAT
900550 TTTAATATTCATCCTTGACTCACTT-AAAAAAATATTATTTTATAATTAATTTTAAGTTTTTTAT
1 TTTAATATTCATCCTTGACTCACTTAAAAAAAATATTATTTTATAATTAATTTTAAGTTTTTTAT
900614 TATATTTGTAAATGATATATTTAAAAGAGTTAATTATCATACTATAATTTATAAGTTGATTTAGA
66 TATATTTGTAAATGATATATTTAAAAGAGTTAATTATCATACTATAATTTATAAGTTGATTTAGA
900679 ATCCATATTTAATCAACTCTAAAAAAATTTATTTTAGATTTTTTATATTTAAATTTTAAATTTTT
131 ATCCATATTTAATCAACTCTAAAAAAATTTATTTTAGATTTTTTATATTTAAATTTTAAATTTTT
900744 ATTTAATTTTTAAATGATCTATAAAGCGATTGATCTGTGCATTGATTAGAATATGATTTAAGATT
196 ATTTAATTTTTAAATGATCTATAAAGCGATTGATCTGTGCATTGATTAGAATATGATTTAAGATT
900809 TATATATAAATTATTTAGTAAAAAAATTAATCAATAAATTTATTTATTTTTAAATGATATATTAA
261 TATATATAAATTATTTAGTAAAAAAATTAATCAATAAATTTATTTATTTTTAAATGATATATTAA
900874 ATAAGTTAGTTTGCACGTTAACTTATATGTCGATCTAAGAATCATAACCAATCAGCTTAAAATTT
326 ATAAGTTAGTTTGCACGTTAACTTATATGTCGATCTAAGAATCATAACCAATCAGCTTAAAATTT
900939 TTTTAAAAA
391 TTTTAAAAA
900948 TAAATTTATT
Statistics
Matches: 387, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
419 89 0.23
420 19 0.05
421 27 0.07
422 6 0.02
423 41 0.11
424 86 0.22
425 119 0.31
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (426 bp):
TTTAATATTCATCCTTGACTCACTTAAAAAAAATATTATTTTATAATTAATTTTAAGTTTTTTAT
TATATTTGTAAATGATATATTTAAAAGAGTTAATTATCATACTATAATTTATAAGTTGATTTAGA
ATCCATATTTAATCAACTCTAAAAAAATTTATTTTAGATTTTTTATATTTAAATTTTAAATTTTT
ATTTAATTTTTAAATGATCTATAAAGCGATTGATCTGTGCATTGATTAGAATATGATTTAAGATT
TATATATAAATTATTTAGTAAAAAAATTAATCAATAAATTTATTTATTTTTAAATGATATATTAA
ATAAGTTAGTTTGCACGTTAACTTATATGTCGATCTAAGAATCATAACCAATCAGCTTAAAATTT
TTTTAAAAACTTGATCGATATTGATCGATAAATTAT
Found at i:900748 original size:19 final size:20
Alignment explanation
Indices: 900719--900758 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
900709 ATTTTAGATT
900719 TTTTATATTTAAATTTTAAA
1 TTTTATATTTAAATTTTAAA
*
900739 TTTT-TATTTAATTTTTAAA
1 TTTTATATTTAAATTTTAAA
900758 T
1 T
900759 GATCTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATATTTAAATTTTAAA
Found at i:901049 original size:19 final size:18
Alignment explanation
Indices: 901011--901050 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
901001 GATTGATACT
901011 AATTTTTATATTAATTTA
1 AATTTTTATATTAATTTA
* *
901029 AATTTTATATTTTATTTTA
1 AATTTT-TATATTAATTTA
901048 AAT
1 AAT
901051 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTATATTAATTTA
Found at i:901677 original size:15 final size:15
Alignment explanation
Indices: 901657--901701 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
901647 TTTTATTTTA
901657 TTTTTAATAATATAT
1 TTTTTAATAATATAT
*
901672 TTTTTAAGAATA-A-
1 TTTTTAATAATATAT
*
901685 ATTTTAATAATATAT
1 TTTTTAATAATATAT
901700 TT
1 TT
901702 AAAATGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTTTAATAATATAT
Found at i:903373 original size:20 final size:20
Alignment explanation
Indices: 903349--903386 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
903339 TTTTTTCTTT
903349 TTTTTTC-CTTTCCTTCTCC
1 TTTTTTCTCTTTCCTTCTCC
*
903368 TTTTTTCTCTTTCTTTCTC
1 TTTTTTCTCTTTCCTTCTC
903387 TCTTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTCTCTTTCCTTCTCC
Found at i:904151 original size:19 final size:19
Alignment explanation
Indices: 904127--904190 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
904117 TTTCAACGAT
904127 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
904146 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
904160 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
904178 TTGTATCGATACA
1 TTGTATCGATACA
904191 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:904164 original size:32 final size:32
Alignment explanation
Indices: 904128--904203 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
904118 TTCAACGATT
904128 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
904160 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
904192 TGTATCGATACA
1 TGTATCGATACA
904204 ATGTATCGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:904165 original size:13 final size:13
Alignment explanation
Indices: 904147--904211 Score: 76
Period size: 13 Copynumber: 4.5 Consensus size: 13
904137 ACATAAGTGT
904147 TGTATCGATACAA
1 TGTATCGATACAA
904160 TGTATCGATACATAA
1 TGTATCGATAC--AA
904175 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
904192 TGTATCGATACAA
1 TGTATCGATACAA
904205 TGTATCG
1 TGTATCG
904212 CTATAAAGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
13 31 0.67
15 2 0.04
17 2 0.04
19 11 0.24
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:904274 original size:13 final size:13
Alignment explanation
Indices: 904256--904280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
904246 ATTACTCAAA
904256 TGTATCGATACAT
1 TGTATCGATACAT
904269 TGTATCGATACA
1 TGTATCGATACA
904281 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:904333 original size:52 final size:52
Alignment explanation
Indices: 904289--904417 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
904279 CACTGATCTT
* *
904289 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
904341 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
904393 TGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
904418 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:907871 original size:20 final size:20
Alignment explanation
Indices: 907846--907883 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
907836 TATTGCCAGT
907846 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
907866 TTCATGTATCGATACATT
1 TTCATGTATCGATACATT
907884 GTATGGATAC
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:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:908858 original size:33 final size:33
Alignment explanation
Indices: 908821--908887 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
908811 AAGAGAACTA
908821 AAGTGCTCATCCATGAGCTGC-AAGAGTGAAGTG
1 AAGTGCTCATCCATGAGCTGCGAA-AGTGAAGTG
* *
908854 AAGTGCTCATTCATGTGCTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGAGCTGCGAAAGTGAAGTG
908887 A
1 A
908888 TCAACTCTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGAGCTGCGAAAGTGAAGTG
Found at i:911334 original size:30 final size:30
Alignment explanation
Indices: 911298--911363 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
911288 GAAGTATCGC
911298 GTAAATATTTAAAAATTCTTCTTATGGGAA
1 GTAAATATTTAAAAATTCTTCTTATGGGAA
911328 GTAAATATTTAAAAATTCTTCTTATGGGAA
1 GTAAATATTTAAAAATTCTTCTTATGGGAA
911358 GTAAAT
1 GTAAAT
911364 GAGACTCCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (30 bp):
GTAAATATTTAAAAATTCTTCTTATGGGAA
Found at i:916601 original size:13 final size:13
Alignment explanation
Indices: 916583--916610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
916573 AATTCTTTAC
916583 GTATCGATACATT
1 GTATCGATACATT
916596 GTATCGATACATT
1 GTATCGATACATT
916609 GT
1 GT
916611 GTCATGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:916679 original size:20 final size:20
Alignment explanation
Indices: 916654--916711 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
916644 CACTACCAGT
916654 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
*
916674 TTCATGTATCGATACA-ATG
1 TTCATGTATCGATACATTTG
** *
916693 AACACGTATCGATACATTT
1 TTCATGTATCGATACATTT
916712 TATCGATACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:916721 original size:32 final size:33
Alignment explanation
Indices: 916680--916744 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
916670 TTTGTTCATG
* *
916680 TATCGATACAATGAA-CACGTATCGATACATTT
1 TATCGATACAAAGAATAACGTATCGATACATTT
*
916712 TATCGATACAAAGAATAATGTATCGATACATTT
1 TATCGATACAAAGAATAACGTATCGATACATTT
916745 GAAAGTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAGAATAACGTATCGATACATTT
Found at i:917937 original size:24 final size:24
Alignment explanation
Indices: 917910--917975 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
917900 AGGGGAGAGG
*
917910 AAGAAAAGAA-ACAAAAAGAAAGAA
1 AAGAAAAGAAGA-AAAAAAAAAGAA
* *
917934 AAGAGAGGAAGAAAAAAAAAAGAA
1 AAGAAAAGAAGAAAAAAAAAAGAA
*
917958 AAGGAGAGAGAAGAAAAA
1 AA-GA-AAAGAAGAAAAA
917976 TATATATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 21 0.64
25 3 0.09
26 9 0.27
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (24 bp):
AAGAAAAGAAGAAAAAAAAAAGAA
Found at i:917945 original size:27 final size:27
Alignment explanation
Indices: 917907--917975 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 27
917897 TAAAGGGGAG
*
917907 AGGA-AGAAAAGAAACAAAAAGAAAGAAA
1 AGGAGAGAGAAGAAA-AAAAA-AAAGAAA
917935 A-GAGAG-GAAG-AAAAAAAAAAGAAA
1 AGGAGAGAGAAGAAAAAAAAAAAGAAA
917959 AGGAGAGAGAAGAAAAA
1 AGGAGAGAGAAGAAAAA
917976 TATATATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
26 6 0.17
27 9 0.25
28 3 0.08
ACGTcount: A:0.72, C:0.01, G:0.26, T:0.00
Consensus pattern (27 bp):
AGGAGAGAGAAGAAAAAAAAAAAGAAA
Found at i:917948 original size:23 final size:26
Alignment explanation
Indices: 917922--917975 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 26
917912 GAAAAGAAAC
*
917922 AAAAAGAAAGAAAA-GAGAG-GAAGA
1 AAAAAAAAAGAAAAGGAGAGAGAAGA
917946 AAAAAAAAAGAAAAGGAGAGAGAAGA
1 AAAAAAAAAGAAAAGGAGAGAGAAGA
917972 AAAA
1 AAAA
917976 TATATATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.48
25 5 0.19
26 9 0.33
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGAAAAGGAGAGAGAAGA
Found at i:919362 original size:20 final size:20
Alignment explanation
Indices: 919333--919374 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
919323 GCCCATTTTA
919333 TAATTATATAATATATATAT
1 TAATTATATAATATATATAT
* * *
919353 TAATTTTATATTTTATATAT
1 TAATTATATAATATATATAT
919373 TA
1 TA
919375 GATAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTATATAATATATATAT
Found at i:923033 original size:22 final size:21
Alignment explanation
Indices: 922997--923046 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
922987 ATTCAAGTCG
*
922997 TATTTATATTATTTTTTATGTTA
1 TATTT-TATTATTTTGTATG-TA
*
923020 TATTTTATTTTTTTGTATGTA
1 TATTTTATTATTTTGTATGTA
923041 TATTTT
1 TATTTT
923047 GACACTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (21 bp):
TATTTTATTATTTTGTATGTA
Found at i:923042 original size:21 final size:22
Alignment explanation
Indices: 922997--923046 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
922987 ATTCAAGTCG
922997 TATTTATATTATTTTTTATGTTA
1 TATTT-TATTATTTTTTATGTTA
923020 TATTTTATT-TTTTTGTATG-TA
1 TATTTTATTATTTTT-TATGTTA
923041 TATTTT
1 TATTTT
923047 GACACTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (22 bp):
TATTTTATTATTTTTTATGTTA
Found at i:923930 original size:29 final size:31
Alignment explanation
Indices: 923893--923963 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
923883 TATTGATCAA
* * *
923893 TATTGAATTTTATTATTGT-ATTTTAATTT-
1 TATTAAATTTTATCATTATAATTTTAATTTG
923922 TATTAAATTTTATCATTATAATTTTAATTTG
1 TATTAAATTTTATCATTATAATTTTAATTTG
923953 T-TTAAATTTTA
1 TATTAAATTTTA
923964 AAGTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.43
30 20 0.54
31 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (31 bp):
TATTAAATTTTATCATTATAATTTTAATTTG
Found at i:923931 original size:16 final size:16
Alignment explanation
Indices: 923912--923964 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
923902 TTATTATTGT
923912 ATTTTAATTTTATTAA
1 ATTTTAATTTTATTAA
*
923928 ATTTT-A--TCATTATA
1 ATTTTAATTTTATTA-A
923942 ATTTTAATTTGT-TTAA
1 ATTTTAATTT-TATTAA
923958 ATTTTAA
1 ATTTTAA
923965 AGTTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 2 0.07
16 13 0.43
17 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTTAATTTTATTAA
Found at i:925468 original size:15 final size:16
Alignment explanation
Indices: 925440--925471 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
925430 TTTTTAAAAT
925440 ATTTAATGAATATTAA
1 ATTTAATGAATATTAA
925456 ATTTAAT-AATATTAA
1 ATTTAATGAATATTAA
925471 A
1 A
925472 AATAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTAATGAATATTAA
Found at i:926140 original size:22 final size:22
Alignment explanation
Indices: 926089--926150 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
926079 TATATAAAAT
* *
926089 AAATTAAAATATTAAAAATATTTT
1 AAATT-AAA-ATTAAATATATTTA
* **
926113 ATATTAATTTTAAATATATTTA
1 AAATTAAAATTAAATATATTTA
926135 AAATTAAAATTAAATA
1 AAATTAAAATTAAATA
926151 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 24 0.80
23 2 0.07
24 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATTAAAATTAAATATATTTA
Found at i:926260 original size:18 final size:18
Alignment explanation
Indices: 926237--926288 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
926227 TTTAAATCTG
*
926237 TATACTTAATAAATTTTA
1 TATACTTAATAAATTCTA
*
926255 TATACTTAATAAA-TCTG
1 TATACTTAATAAATTCTA
926272 TATACTTAATAAATTCT
1 TATACTTAATAAATTCT
926289 TCAACAACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (18 bp):
TATACTTAATAAATTCTA
Found at i:926277 original size:17 final size:17
Alignment explanation
Indices: 926229--926285 Score: 87
Period size: 17 Copynumber: 3.3 Consensus size: 17
926219 ATTTAAACTT
926229 TAAATCTGTATACTTAA
1 TAAATCTGTATACTTAA
* *
926246 TAAATTTTATATACTTAA
1 TAAA-TCTGTATACTTAA
926264 TAAATCTGTATACTTAA
1 TAAATCTGTATACTTAA
926281 TAAAT
1 TAAAT
926286 TCTTCAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 20 0.57
18 15 0.43
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (17 bp):
TAAATCTGTATACTTAA
Found at i:927651 original size:20 final size:22
Alignment explanation
Indices: 927602--927655 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
927592 AAATAAATGC
927602 ATCGATACATT-TACTATTTAT
1 ATCGATACATTATACTATTTAT
* *
927623 ATTGATACATTATTC-ATTT-T
1 ATCGATACATTATACTATTTAT
927643 ATCGATACATTAT
1 ATCGATACATTAT
927656 GGGTTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.45
21 14 0.48
22 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (22 bp):
ATCGATACATTATACTATTTAT
Found at i:929220 original size:193 final size:193
Alignment explanation
Indices: 928891--929265 Score: 723
Period size: 193 Copynumber: 1.9 Consensus size: 193
928881 CATGTTAGCT
928891 TCAATCAATAAGGATTAACATAAGCTTAAGGTTTTTACTCAGCAAACATCACAATCTTGGGGTAA
1 TCAATCAATAAGGATTAACATAAGCTTAAGGTTTTTACTCAGCAAACATCACAATCTTGGGGTAA
928956 ATTTAATTTTTAGGTCTAGAATCTTGATTAAAAAAGGTCCAAACTTTTGATTTTTAAACCAAAAT
66 ATTTAATTTTTAGGTCTAGAATCTTGATTAAAAAAGGTCCAAACTTTTGATTTTTAAACCAAAAT
*
929021 AATCTTATACTTGTGTATGAAGTGTTTGTGCCTTGCTTTGTGTCAAAACCTTAAGGTTTTGAC
131 AATCTTATACTTGTCTATGAAGTGTTTGTGCCTTGCTTTGTGTCAAAACCTTAAGGTTTTGAC
929084 TCAATCAATAAGGATTAACATAAGCTTAAGGTTTTTACTCAGCAAACATCACAATCTTGGGGTAA
1 TCAATCAATAAGGATTAACATAAGCTTAAGGTTTTTACTCAGCAAACATCACAATCTTGGGGTAA
*
929149 ATTTAATTTTTAGGTCTAGAATCTTGATTAAAAGAGGTCCAAACTTTTGATTTTTAAACCAAAAT
66 ATTTAATTTTTAGGTCTAGAATCTTGATTAAAAAAGGTCCAAACTTTTGATTTTTAAACCAAAAT
*
929214 AATCTTATACTTGTCTATGAAGTGTTTGTGCTTTGCTTTGTGTCAAAACCTT
131 AATCTTATACTTGTCTATGAAGTGTTTGTGCCTTGCTTTGTGTCAAAACCTT
929266 GAGTGGTATG
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
193 179 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (193 bp):
TCAATCAATAAGGATTAACATAAGCTTAAGGTTTTTACTCAGCAAACATCACAATCTTGGGGTAA
ATTTAATTTTTAGGTCTAGAATCTTGATTAAAAAAGGTCCAAACTTTTGATTTTTAAACCAAAAT
AATCTTATACTTGTCTATGAAGTGTTTGTGCCTTGCTTTGTGTCAAAACCTTAAGGTTTTGAC
Found at i:936212 original size:32 final size:30
Alignment explanation
Indices: 936176--936234 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
936166 GAAATCAAAT
936176 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
936208 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
936235 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:936532 original size:13 final size:13
Alignment explanation
Indices: 936514--936539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
936504 CATATTTATG
936514 TGTATCGATACAT
1 TGTATCGATACAT
936527 TGTATCGATACAT
1 TGTATCGATACAT
936540 ATTTGTGTAT
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:936555 original size:31 final size:33
Alignment explanation
Indices: 936494--936556 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
936484 TACAAGCCAA
936494 TGTATCGATACATATTTATGTGTATCGATACAT
1 TGTATCGATACATATTTATGTGTATCGATACAT
*
936527 TGTATCGATACATA-TT-TGTGTATTGATACA
1 TGTATCGATACATATTTATGTGTATCGATACA
936557 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 13 0.45
32 2 0.07
33 14 0.48
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATATTTATGTGTATCGATACAT
Found at i:936562 original size:18 final size:18
Alignment explanation
Indices: 936494--936556 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
936484 TACAAGCCAA
936494 TGTATCGATACATATTTATG
1 TGTATCGATACATA-TT-TG
936514 TGTATCGATAC--A--T-
1 TGTATCGATACATATTTG
936527 TGTATCGATACATATTTG
1 TGTATCGATACATATTTG
*
936545 TGTATTGATACA
1 TGTATCGATACA
936557 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
17 1 0.03
18 12 0.32
20 11 0.30
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (18 bp):
TGTATCGATACATATTTG
Found at i:938911 original size:17 final size:17
Alignment explanation
Indices: 938889--938922 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
938879 ACATTGATTC
*
938889 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
938906 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
938923 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:945770 original size:79 final size:79
Alignment explanation
Indices: 945656--945857 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 79
945646 AATAACGGGG
* * * * * * *
945656 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
945720 AAAAAAAAATCAGGA
65 AAAAAAAAACCAGGA
* * * *
945735 TTTGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * * *
945800 GAATAAAGCCGGGG
66 AAAAAAAACCAGGA
* *
945814 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
945858 GAAATAACGA
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 1 0.01
79 100 0.99
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCAGGA
Found at i:945865 original size:28 final size:28
Alignment explanation
Indices: 945809--945885 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
945799 GGAATAAAGC
*** *
945809 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
945837 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
945865 CGAGGTTAGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
945886 TATGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:945938 original size:52 final size:51
Alignment explanation
Indices: 945868--946253 Score: 280
Period size: 52 Copynumber: 7.4 Consensus size: 51
945858 GAAATAACGA
* * *
945868 GGTTAGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTTGGAAATAAAATCGG
* * * * * *
945920 AGTTGGGGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * * * *
945972 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTGGAAATAAAATCGG
* *** * *
946024 GGTTGGAGTATCCCCGACTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
** * *** * *
946075 GGTTGGAGTATCCCC---TCGGAAATAAGGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGG
946130 GGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTGGTG--TTTTGGAAATAAAATCGG
* * * *
946184 AGTTTGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGG
* *
946235 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
946254 GTGGAGAATT
Statistics
Matches: 260, Mismatches: 54, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 72 0.28
52 94 0.36
53 29 0.11
54 26 0.10
55 20 0.08
56 3 0.01
57 2 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:946139 original size:27 final size:28
Alignment explanation
Indices: 946072--946147 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
946062 GAAATAAAGT
***
946072 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
946100 GGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
946127 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
946148 TATGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:946225 original size:263 final size:263
Alignment explanation
Indices: 945758--946258 Score: 799
Period size: 263 Copynumber: 1.9 Consensus size: 263
945748 TCGAAAATAA
* * *
945758 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAACTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
945823 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTA
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCCCGATTA
* *
945888 TGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGGGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* *
945953 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
196 GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
946018 AAC
261 AAC
* *
946021 CGGGGTTGGAGTATCCCCGACTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAACTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * * *
946086 CCCCTCGGAAATAAGGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTA
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCCCGATTA
* * *
946150 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTTGAGTATCCCCGATTATA-GAAAATTA
131 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTA
*
946214 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
946259 GAATTGAGAA
Statistics
Matches: 217, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 28 0.13
263 151 0.70
264 38 0.18
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAACTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCCCGATTA
TGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:948647 original size:34 final size:33
Alignment explanation
Indices: 948601--948667 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
948591 AACTTCCTAG
* * *
948601 ATGTATCGATACAAAGAATAGATGTATTGATACA
1 ATGTATCAATACAAAGAA-AAATGTATCGATACA
*
948635 ATGTATCAATACACAGAAAAATGTATCGATACA
1 ATGTATCAATACAAAGAAAAATGTATCGATACA
948668 TTCCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (33 bp):
ATGTATCAATACAAAGAAAAATGTATCGATACA
Found at i:948803 original size:21 final size:20
Alignment explanation
Indices: 948779--948833 Score: 92
Period size: 21 Copynumber: 2.7 Consensus size: 20
948769 ATTTGTAGAT
948779 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCAC-AA
*
948800 TGTATCGATACATTCTACAA
1 TGTATCGATACATTCCACAA
948820 TGTATCGATACATT
1 TGTATCGATACATT
948834 GGGAAATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTCCACAA
Found at i:948841 original size:20 final size:20
Alignment explanation
Indices: 948758--948834 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
948748 GTTGGGACCC
* *
948758 TGTATCGATACATTTGTAGAT
1 TGTATCGATACA-TTGTACAA
**
948779 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTGTAC-AA
*
948800 TGTATCGATACATTCTACAA
1 TGTATCGATACATTGTACAA
948820 TGTATCGATACATTG
1 TGTATCGATACATTG
948835 GGAAATGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
20 19 0.39
21 30 0.61
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGTACAA
Found at i:951115 original size:52 final size:51
Alignment explanation
Indices: 951030--951167 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 51
951020 ATTTAACTGG
* * * *
951030 ATGTATCGATATATTTAAGAATGTATCGGTACATTTGGGTCAACAACCCAGA
1 ATGTATCGATATAATGAAGAATGTATCGATACATTTGGATCAA-AACCCAGA
* *
951082 ATGTATCGATATAATGAAGAATGTTTCGATACATTTGGATCAAAACCCATA
1 ATGTATCGATATAATGAAGAATGTATCGATACATTTGGATCAAAACCCAGA
* * * *
951133 ATGTATTGATACAATGAA-AATGTATTGATATATTT
1 ATGTATCGATATAATGAAGAATGTATCGATACATTT
951168 TCTTTCTAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 14 0.19
51 23 0.31
52 38 0.51
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (51 bp):
ATGTATCGATATAATGAAGAATGTATCGATACATTTGGATCAAAACCCAGA
Found at i:959787 original size:163 final size:168
Alignment explanation
Indices: 959435--959798 Score: 431
Period size: 163 Copynumber: 2.2 Consensus size: 168
959425 AAATCTTTTT
* ** * *
959435 ATTTT-TTGAGTTATTA-ATTTTCTTTTGAAATTTCTCATGTTTTCAAATTACAGAGTTTTCTTC
1 ATTTTCTTGAG-TATTAGATTTT-TTTTGAAATTTCTCATGTTTCCAAAAAACAAAGTTTTCTAC
* *
959498 TCCATAAATTTTTTTCAAAAGGATTTTTCTTGGCTTTTAATTTTTAAAATTCATTCAAATATTGT
64 TCCATAAATTTTTTTCAAAAGGATTTTTCTTGGCTTTTAATTTTTAAAATCCATTCAAATATTAT
*
959563 TATTTAATTCATATTAAATCAGTTCTCAAAAATTCATTCC
129 TATTTAATTCATATTAAATCAATTCTCAAAAATTCATTCC
* * * * * * *
959603 -TTTTCATAACTTTTTGATTTTTTTTGAAATTTTTC-T-TTTCCAAAAAACAAAGTTTTCTACTT
1 ATTTTCTTGAGTATTAGATTTTTTTTGAAATTTCTCATGTTTCCAAAAAACAAAGTTTTCTACTC
* ** *
959665 TATAAA-TTTTTTC-GGAGGAATTTTTCTTGGTTTTTAATTTTTAAAATCCA-TCAAATATTATT
66 CATAAATTTTTTTCAAAAGG-ATTTTTCTTGGCTTTTAATTTTTAAAATCCATTCAAATATTATT
* *
959727 ATTTATTTCATATTAAATCAATTTTCAAAAATTCA-TCC
130 ATTTAATTCATATTAAATCAATTCTCAAAAATTCATTCC
959765 ATTTTCTTGAGTATTAGATTTTTTCTTTGAAATT
1 ATTTTCTTGAGTATTAGA-TTTTT-TTTGAAATT
959799 CCCTTTTTTT
Statistics
Matches: 164, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
162 3 0.02
163 58 0.35
164 41 0.25
165 34 0.21
166 1 0.01
167 20 0.12
168 7 0.04
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.52
Consensus pattern (168 bp):
ATTTTCTTGAGTATTAGATTTTTTTTGAAATTTCTCATGTTTCCAAAAAACAAAGTTTTCTACTC
CATAAATTTTTTTCAAAAGGATTTTTCTTGGCTTTTAATTTTTAAAATCCATTCAAATATTATTA
TTTAATTCATATTAAATCAATTCTCAAAAATTCATTCC
Found at i:962198 original size:20 final size:20
Alignment explanation
Indices: 962173--962229 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
962163 CGTTGGGCCA
962173 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATTCAT
* * *
962193 AATGTATCAATAAAATTTAT
1 AATGTATCGATACAATTCAT
962213 ACATGTATCGATACAAT
1 A-ATGTATCGATACAAT
962230 CACAGGGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACAATTCAT
Found at i:977655 original size:103 final size:103
Alignment explanation
Indices: 977469--977699 Score: 252
Period size: 103 Copynumber: 2.3 Consensus size: 103
977459 AAGGATGGGA
* * * *
977469 TTGGAGTATCCCTATGGATGAAAAATAGTTTTGATAAAGGAAAAGTTCAAACCTTGATAAATTTT
1 TTGGAGTATCCCTATGAATGAAAAATAGTTTTGACAAAGGAAAAGTTCAAACCTTGAGAAATTTC
* * *
977534 GAAGAACAAGGTTGGAGTATCCCCTCGAAAGGTCGAGG
66 AAAGAACAAGGTTAGAGTATCCCCTCAAAAGGTCGAGG
* * * *
977572 TTGGAGTATCCCTATGAATGACAAAT-GATTTTGACGAAGGAAAAGTTCCAATCTTGAGAAATTT
1 TTGGAGTATCCCTATGAATGAAAAATAG-TTTTGACAAAGGAAAAGTTCAAACCTTGAGAAATTT
* ** ** * *
977636 CAAAGAGCGGGGTTAGAGTATCCTTTTAAAAGGTCGGGG
65 CAAAGAACAAGGTTAGAGTATCCCCTCAAAAGGTCGAGG
*
977675 TTGGAGTAT-TCTCATGAAT-AAAAAT
1 TTGGAGTATCCCT-ATGAATGAAAAAT
977700 TTTGATGTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
102 8 0.08
103 98 0.92
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (103 bp):
TTGGAGTATCCCTATGAATGAAAAATAGTTTTGACAAAGGAAAAGTTCAAACCTTGAGAAATTTC
AAAGAACAAGGTTAGAGTATCCCCTCAAAAGGTCGAGG
Found at i:979814 original size:20 final size:21
Alignment explanation
Indices: 979786--979837 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
979776 ACAGGGTCTA
* *
979786 GTATTGATACATTCACTTA-T
1 GTATCGATACATTAACTTATT
979806 GTATCGATACATTAACTTATT
1 GTATCGATACATTAACTTATT
979827 GTATCGATACA
1 GTATCGATACA
979838 AATTATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTAACTTATT
Found at i:983371 original size:15 final size:15
Alignment explanation
Indices: 983333--983362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
983323 AAAAGTAGAG
*
983333 AGAAAAAAAGAAAAA
1 AGAAAGAAAGAAAAA
983348 AGAAAGAAAGAAAAA
1 AGAAAGAAAGAAAAA
983363 GAGAGGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAA
Found at i:988091 original size:16 final size:16
Alignment explanation
Indices: 988070--988109 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
988060 TTGACATCAT
*
988070 TATTTTGAAATATGTA
1 TATTTTGAAATATGAA
* *
988086 TATTTTGAATTTTGAA
1 TATTTTGAAATATGAA
988102 TATTTTGA
1 TATTTTGA
988110 TGAGATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
TATTTTGAAATATGAA
Found at i:988716 original size:13 final size:13
Alignment explanation
Indices: 988698--988722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
988688 TTTTCACCAA
988698 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
988711 AAAAAAAGAAAA
1 AAAAAAAGAAAA
988723 ATTAGATGTA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Done.