Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 14 of 23
Found at i:2057707 original size:28 final size:28
Alignment explanation
Indices: 2057627--2057838 Score: 163
Period size: 28 Copynumber: 7.4 Consensus size: 28
2057617 TGGGCTTGAA
*
2057627 AAAGGTTGCCACTAACTTGTGTGGACTTTG
1 AAAGGGTGCCACTAACTTGTG-GG-CTTTG
* *
2057657 AAAAGAGATGCCACTAACCTGTGGGCTTTG
1 -AAAG-GGTGCCACTAACTTGTGGGCTTTG
* * **
2057687 GAAGGGTGCCACCAACTTGTGGGCTTAA
1 AAAGGGTGCCACTAACTTGTGGGCTTTG
* ** *
2057715 AAAGGGTGCCGCTTGCTTGTGGGCTTCG
1 AAAGGGTGCCACTAACTTGTGGGCTTTG
* * * **
2057743 GAAGGGTGCCACTGACTTGTGGTCTTAA
1 AAAGGGTGCCACTAACTTGTGGGCTTTG
* **
2057771 AAAGGGTACCACTTGCTTGTGGGCTTTG
1 AAAGGGTGCCACTAACTTGTGGGCTTTG
* * * **
2057799 AAAGAGTGCCACTGACTTATGGGCTTAA
1 AAAGGGTGCCACTAACTTGTGGGCTTTG
*
2057827 AAAGGATGCCAC
1 AAAGGGTGCCAC
2057839 CTGCTACTAC
Statistics
Matches: 142, Mismatches: 38, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
28 113 0.80
29 3 0.02
30 5 0.04
31 6 0.04
32 15 0.11
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (28 bp):
AAAGGGTGCCACTAACTTGTGGGCTTTG
Found at i:2057746 original size:56 final size:56
Alignment explanation
Indices: 2057676--2057843 Score: 237
Period size: 56 Copynumber: 3.0 Consensus size: 56
2057666 GCCACTAACC
** *
2057676 TGTGGGCTTTGGAAGGGTGCCACCAACTTGTGGGCTTAAAAAGGGTGCCGCTTGCT
1 TGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGGTGCCACTTGCT
* * *
2057732 TGTGGGCTTCGGAAGGGTGCCACTGACTTGTGGTCTTAAAAAGGGTACCACTTGCT
1 TGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGGTGCCACTTGCT
* * * * *
2057788 TGTGGGCTTTGAAAGAGTGCCACTGACTTATGGGCTTAAAAAGGATGCCACCTGCT
1 TGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGGTGCCACTTGCT
2057844 ACTACCACAA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 98 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (56 bp):
TGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGGTGCCACTTGCT
Found at i:2059496 original size:20 final size:20
Alignment explanation
Indices: 2059471--2059524 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2059461 AAAACCCTTA
2059471 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
2059491 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
2059511 AAAGTATCGATACA
1 AAAGTATCGATACA
2059525 TGTTGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:2059662 original size:34 final size:32
Alignment explanation
Indices: 2059598--2059662 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2059588 TAGCCAAACT
**
2059598 TGTATCGATACACAAAGTATATATCGATACAA
1 TGTATCGATACACAAAAAATATATCGATACAA
*
2059630 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TATATCGATACA
2059663 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 4 0.14
34 11 0.39
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATATATCGATACAA
Found at i:2059727 original size:20 final size:21
Alignment explanation
Indices: 2059697--2059735 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2059687 CTATATTTTC
2059697 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
2059718 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
2059736 CACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:2061845 original size:21 final size:21
Alignment explanation
Indices: 2061812--2061861 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2061802 TTGTAAGTTG
*
2061812 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2061834 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2061855 AAATAAA
1 AAATAAA
2061862 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2065788 original size:13 final size:13
Alignment explanation
Indices: 2065770--2065807 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2065760 CATTTTTCTT
2065770 TGTATCGATACAA
1 TGTATCGATACAA
*
2065783 TGTATCGATACAC
1 TGTATCGATACAA
*
2065796 TATATCGATACA
1 TGTATCGATACA
2065808 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2068382 original size:13 final size:13
Alignment explanation
Indices: 2068364--2068389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2068354 TACACAAAGT
2068364 ATGTATCGATACA
1 ATGTATCGATACA
2068377 ATGTATCGATACA
1 ATGTATCGATACA
2068390 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2068408 original size:34 final size:32
Alignment explanation
Indices: 2068346--2068410 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2068336 TAGCCAAACT
**
2068346 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
2068378 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
2068411 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:2074264 original size:20 final size:20
Alignment explanation
Indices: 2074239--2074335 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
2074229 TTGGGTACAA
*
2074239 TGTATCAATACATTTCATCT
1 TGTATCGATACATTTCATCT
*
2074259 TGTATCGATACAATGTC--CT
1 TGTATCGATAC-ATTTCATCT
*
2074278 ATATATCGATACATTTCATCT
1 -TGTATCGATACATTTCATCT
* * * *
2074299 TGTGTCGATACAATGTC-CCA
1 TGTATCGATAC-ATTTCATCT
2074319 TGTATCGATACATTTCA
1 TGTATCGATACATTTCA
2074336 CTTAGGGTAG
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
19 10 0.17
20 40 0.67
21 10 0.17
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCATCT
Found at i:2074291 original size:40 final size:40
Alignment explanation
Indices: 2074241--2074335 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
2074231 GGGTACAATG
* *
2074241 TATCAATACATTTCATCTTGTATCGATACAATGTCCTATA
1 TATCGATACATTTCATCTTGTATCGATACAATGTCCCATA
* *
2074281 TATCGATACATTTCATCTTGTGTCGATACAATGTCCCATG
1 TATCGATACATTTCATCTTGTATCGATACAATGTCCCATA
2074321 TATCGATACATTTCA
1 TATCGATACATTTCA
2074336 CTTAGGGTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (40 bp):
TATCGATACATTTCATCTTGTATCGATACAATGTCCCATA
Found at i:2080341 original size:70 final size:69
Alignment explanation
Indices: 2080193--2080345 Score: 164
Period size: 70 Copynumber: 2.2 Consensus size: 69
2080183 TCGAGGAGAT
* *
2080193 ACTCCAACCCCATTTTTAACTTGTCAAGATCTAAATATTATTACTGCTTAAATTGTCAACATCAA
1 ACTCCAACCCCATTTTTAACTTGTCAAGATCTAAATATTATTACTGCCTAAATTGCCAACATCAA
*
2080258 GGAT
66 GGAC
* * * * * * * *
2080262 ACTCTAACCCTATTTTTAAACTTTTCAAGATTTAAATCTTATT-TTCGCCTAAATTGCCATCGTC
1 ACTCCAACCCCATTTTT-AACTTGTCAAGATCTAAATATTATTACT-GCCTAAATTGCCAACATC
**
2080326 GGGGAC
64 AAGGAC
2080332 ACTCCAACCCCATT
1 ACTCCAACCCCATT
2080346 CCTCTGAGAG
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
69 16 0.24
70 51 0.76
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (69 bp):
ACTCCAACCCCATTTTTAACTTGTCAAGATCTAAATATTATTACTGCCTAAATTGCCAACATCAA
GGAC
Found at i:2089014 original size:13 final size:13
Alignment explanation
Indices: 2088996--2089021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2088986 TTTCCCCTTA
2088996 GGTAATACTGCCC
1 GGTAATACTGCCC
2089009 GGTAATACTGCCC
1 GGTAATACTGCCC
2089022 CAGATGCACT
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:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
GGTAATACTGCCC
Found at i:2091145 original size:13 final size:13
Alignment explanation
Indices: 2091127--2091158 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2091117 TTCAGTATCA
2091127 ATACATTGCATCG
1 ATACATTGCATCG
2091140 ATACATTGCATCG
1 ATACATTGCATCG
2091153 ATACAT
1 ATACAT
2091159 AGTAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (13 bp):
ATACATTGCATCG
Found at i:2092736 original size:3 final size:3
Alignment explanation
Indices: 2092728--2092752 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2092718 TCAACCATCA
2092728 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
2092753 AGTTGACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:2094668 original size:32 final size:30
Alignment explanation
Indices: 2094632--2094690 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
2094622 GAAATCAAAT
2094632 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
2094664 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
2094691 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:2094988 original size:13 final size:13
Alignment explanation
Indices: 2094970--2094995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2094960 CAATTTTTTA
2094970 TGTATCGATACAT
1 TGTATCGATACAT
2094983 TGTATCGATACAT
1 TGTATCGATACAT
2094996 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2095011 original size:32 final size:33
Alignment explanation
Indices: 2094950--2095012 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
2094940 TACAAGCCAA
**
2094950 TGTATCGATACAATTTTTTATGTATCGATACAT
1 TGTATCGATACAATACTTTATGTATCGATACAT
*
2094983 TGTATCGATAC-ATACTTTGTGTATCGATAC
1 TGTATCGATACAATACTTTATGTATCGATAC
2095013 TTTGAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (33 bp):
TGTATCGATACAATACTTTATGTATCGATACAT
Found at i:2097024 original size:21 final size:20
Alignment explanation
Indices: 2096995--2097035 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2096985 GACTAGTGTG
*
2096995 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTTGCGACCT
*
2097016 GGGAGTGCCGGTTGCGACCT
1 GGGACTGCCGGTTGCGACCT
2097036 AGTGGTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (20 bp):
GGGACTGCCGGTTGCGACCT
Found at i:2097486 original size:13 final size:13
Alignment explanation
Indices: 2097468--2097505 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2097458 ATAATCCCCC
2097468 TGTATCGATACAG
1 TGTATCGATACAG
*
2097481 TGTATCGATACAT
1 TGTATCGATACAG
2097494 TGTATCGATACA
1 TGTATCGATACA
2097506 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2099598 original size:15 final size:15
Alignment explanation
Indices: 2099578--2099608 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2099568 ATTTCGTTTG
*
2099578 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2099593 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2099608 G
1 G
2099609 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2102808 original size:32 final size:30
Alignment explanation
Indices: 2102772--2102830 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
2102762 GAAATCAAAT
2102772 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
2102804 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
2102831 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:2103128 original size:13 final size:13
Alignment explanation
Indices: 2103110--2103135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2103100 CAATTTTTTG
2103110 TGTATCGATACAT
1 TGTATCGATACAT
2103123 TGTATCGATACAT
1 TGTATCGATACAT
2103136 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2103147 original size:32 final size:33
Alignment explanation
Indices: 2103090--2103153 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2103080 TACAAGCCAA
**
2103090 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2103123 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2103154 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2105986 original size:190 final size:190
Alignment explanation
Indices: 2105663--2106033 Score: 715
Period size: 190 Copynumber: 2.0 Consensus size: 190
2105653 ATTGTGGTAC
*
2105663 CCTAAAGAATCCTCCCTAGCTTTACATGCCTACTCGGATGTGGATTTTGGTGGTTATAAGATAGA
1 CCTAAAGAATCCTCCCTAGCTTTACATGCCTACTCGGATGTAGATTTTGGTGGTTATAAGATAGA
2105728 TAGGAAGAGTACTTCTGATGCTTGTCAATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGA
66 TAGGAAGAGTACTTCTGATGCTTGTCAATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGA
2105793 AACAAAATAGTGTTGCATTATCCACAACCAAGGCGAAGTACATATCCGTAGCTTTACATG
131 AACAAAATAGTGTTGCATTATCCACAACCAAGGCGAAGTACATATCCGTAGCTTTACATG
*
2105853 CCTAAAGAATCCTCCCTAGCTTTACATGCCTACTCGGATGTAGATTTTGGTGGTTGTAAGATAGA
1 CCTAAAGAATCCTCCCTAGCTTTACATGCCTACTCGGATGTAGATTTTGGTGGTTATAAGATAGA
2105918 TAGGAAGAGTACTTCTGATGCTTGTCAATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGA
66 TAGGAAGAGTACTTCTGATGCTTGTCAATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGA
*
2105983 AACAAAATAGTGTTGCATTATCCACAACCAAGGCGAAGTACATATTCGTAG
131 AACAAAATAGTGTTGCATTATCCACAACCAAGGCGAAGTACATATCCGTAG
2106034 GAAGTTGTTG
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 178 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (190 bp):
CCTAAAGAATCCTCCCTAGCTTTACATGCCTACTCGGATGTAGATTTTGGTGGTTATAAGATAGA
TAGGAAGAGTACTTCTGATGCTTGTCAATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGA
AACAAAATAGTGTTGCATTATCCACAACCAAGGCGAAGTACATATCCGTAGCTTTACATG
Found at i:2108304 original size:21 final size:21
Alignment explanation
Indices: 2108264--2108304 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2108254 CTCTCAGTGC
* * *
2108264 ATAGCTCAATGCTTTGACACA
1 ATAGATCAATGCCTTAACACA
2108285 ATAGATCAATGCCTTAACAC
1 ATAGATCAATGCCTTAACAC
2108305 GATGGACCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (21 bp):
ATAGATCAATGCCTTAACACA
Found at i:2114928 original size:15 final size:15
Alignment explanation
Indices: 2114908--2114936 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2114898 AACTTGAGCT
2114908 TTACTGGTAATTCAG
1 TTACTGGTAATTCAG
2114923 TTACTGGTAATTCA
1 TTACTGGTAATTCA
2114937 AGTTTGTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
TTACTGGTAATTCAG
Found at i:2120320 original size:22 final size:22
Alignment explanation
Indices: 2120281--2120328 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2120271 TGAACCATGA
*
2120281 GCTTTGATACCACCTATCACGG
1 GCTTTGATACCAACTATCACGG
* * *
2120303 GCTTTGATACGAATTATCATGG
1 GCTTTGATACCAACTATCACGG
2120325 GCTT
1 GCTT
2120329 AGGCTTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (22 bp):
GCTTTGATACCAACTATCACGG
Found at i:2120961 original size:15 final size:16
Alignment explanation
Indices: 2120941--2120970 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2120931 ATCTGTTAGT
2120941 ATAGGT-GAATTTTAC
1 ATAGGTAGAATTTTAC
2120956 ATAGGTAGAATTTTA
1 ATAGGTAGAATTTTA
2120971 TTCTTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (16 bp):
ATAGGTAGAATTTTAC
Found at i:2121731 original size:21 final size:21
Alignment explanation
Indices: 2121685--2121727 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2121675 ATTGGATTGA
2121685 TTGGTTGTGATTGATATTTAT
1 TTGGTTGTGATTGATATTTAT
*
2121706 TTGGTTGTG-TTTAT-TTTAT
1 TTGGTTGTGATTGATATTTAT
2121725 TTG
1 TTG
2121728 TGGTGGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.14, C:0.00, G:0.23, T:0.63
Consensus pattern (21 bp):
TTGGTTGTGATTGATATTTAT
Found at i:2122052 original size:18 final size:18
Alignment explanation
Indices: 2122026--2122060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2122016 GTGATAATTT
*
2122026 ATTTGTGACAAAATTTAA
1 ATTTATGACAAAATTTAA
*
2122044 ATTTATGACACAATTTA
1 ATTTATGACAAAATTTA
2122061 GTTACAAAAA
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:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
ATTTATGACAAAATTTAA
Found at i:2124290 original size:43 final size:42
Alignment explanation
Indices: 2124241--2124335 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 42
2124231 TTGATTAGCA
* *
2124241 AAGATAAGTTATA-GTAATTTTAATTATATAAAAAATACTTAG-
1 AAGATAAG-AATAGGTAATTTTAATTATAT-AAAAATACCTAGT
* * *
2124283 ATAGATAAGAATAGGTAGTTTTAATTTTATTAAAATACCTAGT
1 A-AGATAAGAATAGGTAATTTTAATTATATAAAAATACCTAGT
2124326 AAGATAAGAA
1 AAGATAAGAA
2124336 CATTTCCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 23 0.51
43 22 0.49
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (42 bp):
AAGATAAGAATAGGTAATTTTAATTATATAAAAATACCTAGT
Found at i:2127719 original size:73 final size:73
Alignment explanation
Indices: 2127600--2127747 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
2127590 TGACAGAAGG
2127600 GAAAGAGTGGTATGAGCATCACGAACTCATTTACACAATCCCGAAGTAGTTTGGGATGATGAAAC
1 GAAAGAGTGGTATGAGCATCACGAACTCATTTACACAATCCCGAAGTAGTTTGGGATGATGAAAC
2127665 AGCCCGTT
66 AGCCCGTT
2127673 GAAAGAGTGGTATGAGCATCACGAACTCATTTACACAATCCCGAAGTAGTTTGGGATGATGAAAC
1 GAAAGAGTGGTATGAGCATCACGAACTCATTTACACAATCCCGAAGTAGTTTGGGATGATGAAAC
2127738 AGCCCGTT
66 AGCCCGTT
2127746 GA
1 GA
2127748 TCATATCACT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (73 bp):
GAAAGAGTGGTATGAGCATCACGAACTCATTTACACAATCCCGAAGTAGTTTGGGATGATGAAAC
AGCCCGTT
Found at i:2128992 original size:20 final size:20
Alignment explanation
Indices: 2128967--2129071 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
2128957 TTTTAACTAG
2128967 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2128987 ATGTATCGATACATTTGGGTAAAAAGACAGA
1 ATGTATCGATACA-TT--G-----A-A-A-A
* * *
2129018 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
2129038 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATTGAAAA
2129058 ATGTATCGATACAT
1 ATGTATCGATACAT
2129072 CTGGGTACTT
Statistics
Matches: 66, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
20 42 0.64
21 3 0.05
23 2 0.03
28 1 0.02
29 1 0.02
30 3 0.05
31 14 0.21
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2130868 original size:4 final size:4
Alignment explanation
Indices: 2130848--2130911 Score: 80
Period size: 4 Copynumber: 16.5 Consensus size: 4
2130838 TATATTTGAG
*
2130848 TTTC -TTC TTTA TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
2130894 TCTT- TTTC TTTC ATTC TT
1 T-TTC TTTC TTTC TTTC TT
2130912 GCTTGGTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
3 6 0.11
4 47 0.89
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:2136004 original size:49 final size:49
Alignment explanation
Indices: 2135939--2136073 Score: 225
Period size: 49 Copynumber: 2.8 Consensus size: 49
2135929 AAGAGAAGTG
* * *
2135939 CCAATGTGCCAATTCAAGGCCAGCAACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGA
2135988 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGA
* *
2136037 CCAATGTGCTGATTCAAAGCCAACGACATTGGGCTAA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAA
2136074 TAAAGGTGCC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.19
Consensus pattern (49 bp):
CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGA
Found at i:2136192 original size:28 final size:28
Alignment explanation
Indices: 2136150--2137109 Score: 1037
Period size: 28 Copynumber: 33.4 Consensus size: 28
2136140 ACCAACTTAC
* *
2136150 GTGGGCTTTTAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * *
2136178 ATGGGTTTTGAAAGGATACCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
2136206 GTGGGCTTTGAAAAGAATGCCACTGACTT
1 GTGGGCTTTG-AAAGGATGCCACTGACTT
* * *
2136235 GTGGTCTTTGAAAAGAGTTGCCACCGA-TT
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT
2136264 CGTGGGCTTTGAAAGGATGCCACTGACTT
1 -GTGGGCTTTGAAAGGATGCCACTGACTT
* *
2136293 GTGGGTTTTGAAAAGAATGCCACTGACTT
1 GTGGGCTTTG-AAAGGATGCCACTGACTT
* *
2136322 GTGAGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * *
2136350 GTAGGCTTTGAAAGAATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
2136378 GTGGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
2136406 GTGGTCTTTGAAAAGAGTTGCCACTGA-TT
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT
2136435 CGTGGGCTTTGAAAGGATGCCACTGACTT
1 -GTGGGCTTTGAAAGGATGCCACTGACTT
* *
2136464 GTGGGTTTTGAAAAGAATGCCACTGACTT
1 GTGGGCTTTG-AAAGGATGCCACTGACTT
* *
2136493 GTGAGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * *
2136521 GTAGGCTTTGAAAGAATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
2136549 GTAGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * *
2136577 GTGGGCTTTGAAAATAGTTGCCA-TCGACTC
1 GTGGGCTTTG-AAA-GGATGCCACT-GACTT
* *
2136607 GTAGGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * * *
2136635 ATGAGCTTTGAAAAGAGTTGCCACCGACTC
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT
*
2136665 GTGGGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * *
2136693 GTGGGCTTTAAAAAGAGTTGCCACCGACTCAT
1 GTGGGCTTT-GAAAG-GATGCCACTGACT--T
* * *
2136725 GTGGGTTTTAAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
*
2136754 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
2136782 GTGGGCTTTGAAAAGATGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * *
2136810 GTGGGCTTTGAAAAGAGTTACCATTGACTC
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT
* * * * *
2136840 GTGGGCATTAAAAGGATGTCACTAACTG
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
2136868 GTGGGCTTTGAAAAGAGTTGCCACCGACTCGT
1 GTGGGCTTTG-AAAG-GATGCCACTGACT--T
*
2136900 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
2136929 G-GGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* ** *
2136956 ATGATCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
2136984 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
*
2137013 GTGGGCTTTGAAAGGATGCCATTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
2137041 GTGGGCTTTGAAAAGAATGCCACTGACTT
1 GTGGGCTTTG-AAAGGATGCCACTGACTT
* * *
2137070 GTGGACTTTGAAAGGGTACCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
2137098 GTGGGCTTTGAA
1 GTGGGCTTTGAA
2137110 GAGATAAACG
Statistics
Matches: 776, Mismatches: 125, Indels: 62
0.81 0.13 0.06
Matches are distributed among these distances:
27 12 0.02
28 408 0.53
29 198 0.26
30 112 0.14
31 27 0.03
32 19 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
GTGGGCTTTGAAAGGATGCCACTGACTT
Found at i:2136292 original size:58 final size:58
Alignment explanation
Indices: 2136124--2137109 Score: 1162
Period size: 58 Copynumber: 17.1 Consensus size: 58
2136114 ACAGTGGTGA
* ** * * * *
2136124 TTTGAAAAGGGATGCCACCAACTTACGTGGGCTTTTAAAGGGTGCCACTGACTTATGGGT
1 TTTGAAAAGAGATGCCACTGACTT--GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
2136184 TTTG-AAAG-GATACCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGTC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGC
* * *
2136241 TTTGAAAAGAGTTGCCACCGA-TTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGT
1 TTTGAAAAGAGATGCCACTGACTT-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
2136299 TTTGAAAAGA-ATGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTTGTAGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
2136356 TTTG-AAAGA-ATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGTC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
2136412 TTTGAAAAGAGTTGCCACTGA-TTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGT
1 TTTGAAAAGAGATGCCACTGACTT-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
2136470 TTTGAAAAGA-ATGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTTGTAGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
2136527 TTTG-AAAGA-ATGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * * *
2136583 TTTGAAAATAGTTGCCA-TCGACTCGTAGGCTTTGAAAGGATGCCACTAACTTATGAGC
1 TTTGAAAAGAGATGCCACT-GACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * *
2136641 TTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * *
2136699 TTTAAAAAGAGTTGCCACCGACTCATGTGGGTTTTAAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
* *
2136760 TTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * * * * *
2136816 TTTGAAAAGAGTTACCATTGACTCGTGGGCATTAAAAGGATGTCACTAACTGGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
2136874 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTG-GGGC
1 TTTGAAAAGAGATGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
* ** *
2136934 TTTG-AAAG-GATGCCACTGACTTATGATCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
*
2136990 TTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
2137047 TTTGAAAAGA-ATGCCACTGACTTGTGGACTTTGAAAGGGTACCACTGACTTGTGGGC
1 TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
2137104 TTTGAA
1 TTTGAA
2137110 GAGATAAACG
Statistics
Matches: 802, Mismatches: 99, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
55 13 0.02
56 153 0.19
57 242 0.30
58 285 0.36
59 37 0.05
60 42 0.05
61 30 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (58 bp):
TTTGAAAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
Found at i:2136446 original size:171 final size:171
Alignment explanation
Indices: 2136150--2137109 Score: 1162
Period size: 171 Copynumber: 5.6 Consensus size: 171
2136140 ACCAACTTAC
* * * * * *
2136150 GTGGGCTTTTAAAGGGTGCCACTGACTTATGGGTTTTGAAAGGATACCACTGACTTGTGGGCTTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT
* * *
2136215 GAAAAGAATGCCACTGACTTGTGGTCTTTGAAAAGAGTTGCCACCGATTCGTGGGCTTTGAAAGG
66 G-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGATTCGTGGGCTTTGAAAGG
*
2136280 ATGCCACTGACTTGTGGGTTTTGAAAAGAATGCCACTGACTT
130 ATGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTT
* * * *
2136322 GTGAGCTTTGAAAGGGTGCCACTGACTTGTAGGCTTTGAAAGAATGCCACTAACTTGTGGGCTTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT
*
2136387 GAAAGGATGCCACTGACTTGTGGTCTTTGAAAAGAGTTGCCACTGATTCGTGGGCTTTGAAAGGA
66 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGATTCGTGGGCTTTGAAAGGA
*
2136452 TGCCACTGACTTGTGGGTTTTGAAAAGAATGCCACTGACTT
131 TGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTT
* * * * *
2136493 GTGAGCTTTGAAAGGGTGCCACTGACTTGTAGGCTTTGAAAGAATGCCACTAACTTGTAGGCTTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT
* * *
2136558 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAATAGTTGCCA-TCGACTCGTAGGCTTTGAAAGG
66 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACT-GATTCGTGGGCTTTGAAAGG
* * * * * *
2136622 ATGCCACTAACTTATGAGCTTTGAAAAGAGTTGCCACCGACTC
130 ATGCCACTGACTTGTGGGCTTTGAAAAGA-ATGCCACTGACTT
* * * *
2136665 GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCATGTGGG
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAGA-ATGCCACTGACT--TGTGGG
* * * *
2136730 TTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTT-GTGGGCTTTG
62 CTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGA-TTCGTGGGCTTTG
* * * * *
2136792 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCATTGACTC
125 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-ATGCCACTGACTT
* * * * * * *
2136840 GTGGGCATTAAAAGGATGTCACTAACTGGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGG
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGA-ATGCCACTGACT--TGTGGG
* * * **
2136905 CTTTGAAAAGAGTGCCACTGACTTG-GGGCTTTG-AAAG-GATGCCACTGACTT-ATGATCTTTG
62 CTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGA-TTCGTGGGCTTTG
* *
2136966 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
125 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTT
* *
2137013 GTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGAATGCCACTGACTTGTGGGCTT
* *
2137078 TGAAAGGGTACCACTGACTTGTGGGCTTTGAA
65 TGAAAGGATGCCACTGACTTGTGGGCTTTGAA
2137110 GAGATAAACG
Statistics
Matches: 701, Mismatches: 75, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
169 12 0.02
170 23 0.03
171 251 0.36
172 111 0.16
173 52 0.07
174 73 0.10
175 139 0.20
176 18 0.03
177 22 0.03
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (171 bp):
GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT
GAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGATTCGTGGGCTTTGAAAGGA
TGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTT
Found at i:2138331 original size:10 final size:10
Alignment explanation
Indices: 2138314--2138431 Score: 77
Period size: 10 Copynumber: 11.9 Consensus size: 10
2138304 AACCCCTTTC
2138314 TGTTTTTTGT
1 TGTTTTTTGT
* *
2138324 TATTTTTTTCT
1 T-GTTTTTTGT
*
2138335 TGGTTTTTTTT
1 T-GTTTTTTGT
2138346 TGTTTTTT-T
1 TGTTTTTTGT
2138355 TGTTTTATT-T
1 TGTTTT-TTGT
2138365 T-TTTTTTGT
1 TGTTTTTTGT
*
2138374 T-TTTGTTTTT
1 TGTTT-TTTGT
*
2138384 TGTTTTTTTT
1 TGTTTTTTGT
*
2138394 TGTTTTTTTT
1 TGTTTTTTGT
* *
2138404 TATTTTTTCT
1 TGTTTTTTGT
2138414 AT-TTTTTTGT
1 -TGTTTTTTGT
2138424 T-TTTTTTG
1 TGTTTTTTG
2138432 GGTATGAAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.02
9 24 0.26
10 47 0.51
11 20 0.22
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (10 bp):
TGTTTTTTGT
Found at i:2138340 original size:22 final size:18
Alignment explanation
Indices: 2138314--2138430 Score: 110
Period size: 19 Copynumber: 5.9 Consensus size: 18
2138304 AACCCCTTTC
2138314 TGTTTTTTGTTATTTTTTTCT
1 TGTTTTTT-TT-TTTTTTT-T
2138335 TGGTTTTTTTTTGTTTTTTT
1 T-GTTTTTTTTT-TTTTTTT
2138355 TGTTTTATTTTTTTTTTGTT
1 TGTTTT-TTTTTTTTTT-TT
2138375 T-TTGTTTTTTGTTTTTTTT
1 TGTT-TTTTTT-TTTTTTTT
*
2138394 TGTTTTTTTTTATTTTTTC
1 TGTTTTTTTTT-TTTTTTT
*
2138413 TATTTTTTTGTTTTTTTT
1 TGTTTTTTT-TTTTTTTT
2138431 GGGTATGAAG
Statistics
Matches: 85, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
18 1 0.01
19 45 0.53
20 23 0.27
21 9 0.11
22 7 0.08
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.85
Consensus pattern (18 bp):
TGTTTTTTTTTTTTTTTT
Found at i:2138342 original size:1 final size:1
Alignment explanation
Indices: 2138338--2138430 Score: 87
Period size: 1 Copynumber: 93.0 Consensus size: 1
2138328 TTTTTCTTGG
* * * * * * *
2138338 TTTTTTTTTGTTTTTTTTGTTTTATTTTTTTTTTGTTTTTGTTTTTTGTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
2138403 TTATTTTTTCTATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
2138431 GGGTATGAAG
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.03, C:0.01, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:2138347 original size:25 final size:22
Alignment explanation
Indices: 2138316--2138431 Score: 110
Period size: 25 Copynumber: 4.9 Consensus size: 22
2138306 CCCCTTTCTG
2138316 TTTTTTGTTATTTTTTTCTTGGTTT
1 TTTTTTGTT-TTTTTTT-TT-GTTT
*
2138341 TTTTTTGTTTTTTTTGTTTTATTTT
1 TTTTTTG-TTTTTTT-TTTT-GTTT
2138366 TTTTTTGTTTTTGTTTTTTGTTT
1 TTTTTTGTTTTT-TTTTTTGTTT
2138389 TTTTTTGTTTTTTTTTATT-TTT
1 TTTTTTGTTTTTTTTT-TTGTTT
2138411 TCTATTTT-TTTGTTTTTTTTG
1 T-T-TTTTGTTT-TTTTTTTTG
2138432 GGTATGAAGG
Statistics
Matches: 80, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
22 8 0.10
23 23 0.29
24 19 0.24
25 26 0.32
26 4 0.05
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.85
Consensus pattern (22 bp):
TTTTTTGTTTTTTTTTTTGTTT
Found at i:2138351 original size:9 final size:9
Alignment explanation
Indices: 2138339--2138431 Score: 100
Period size: 9 Copynumber: 10.0 Consensus size: 9
2138329 TTTTCTTGGT
2138339 TTTTTTTTG
1 TTTTTTTTG
2138348 TTTTTTTTG
1 TTTTTTTTG
2138357 TTTTATTTT-
1 TTTT-TTTTG
*
2138366 TTTTTTGTTT
1 TTTTTT-TTG
2138376 TTGTTTTTTG
1 TT-TTTTTTG
2138386 TTTTTTTTTG
1 -TTTTTTTTG
2138396 TTTTTTTT-
1 TTTTTTTTG
* *
2138404 TATTTTTTC
1 TTTTTTTTG
2138413 TATTTTTTTG
1 T-TTTTTTTG
2138423 TTTTTTTTG
1 TTTTTTTTG
2138432 GGTATGAAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
8 9 0.12
9 36 0.49
10 22 0.30
11 6 0.08
ACGTcount: A:0.03, C:0.01, G:0.09, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2138360 original size:17 final size:17
Alignment explanation
Indices: 2138340--2138429 Score: 100
Period size: 17 Copynumber: 5.4 Consensus size: 17
2138330 TTTCTTGGTT
2138340 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
*
2138357 TTTTATT-TTTTTTTTG
1 TTTTTTTGTTTTTTTTG
2138373 --TTTTTGTTTTTTGTT-
1 TTTTTTTGTTTTTT-TTG
2138388 TTTTTTTGTTTTTTTT-
1 TTTTTTTGTTTTTTTTG
*
2138404 TATTTTTTCTATTTTTTTG
1 T-TTTTTTGT-TTTTTTTG
2138423 TTTTTTT
1 TTTTTTT
2138430 TGGGTATGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
14 4 0.06
15 6 0.10
16 14 0.22
17 25 0.40
18 13 0.21
19 1 0.02
ACGTcount: A:0.03, C:0.01, G:0.08, T:0.88
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTTG
Found at i:2138393 original size:50 final size:49
Alignment explanation
Indices: 2138316--2138430 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 49
2138306 CCCCTTTCTG
* *
2138316 TTTTTTGTTATTTTTTTCTTGGTTTTTTTTTGTTTTTTTTGTTTTATT-T-T
1 TTTTTTGTT-TTTTTTTCTTGGTTTTTTTGT-TTTTTTTTATTTT-TTCTAT
*
2138366 TTTTTTGTTTTTGTTTT-TTGTTTTTTTTTGTTTTTTTTTATTTTTTCTAT
1 TTTTTTGTTTTT-TTTTCTTG-GTTTTTTTGTTTTTTTTTATTTTTTCTAT
2138416 TTTTTTGTTTTTTTT
1 TTTTTTGTTTTTTTT
2138431 GGGTATGAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
48 2 0.03
49 22 0.38
50 34 0.59
ACGTcount: A:0.03, C:0.02, G:0.09, T:0.86
Consensus pattern (49 bp):
TTTTTTGTTTTTTTTTCTTGGTTTTTTTGTTTTTTTTTATTTTTTCTAT
Found at i:2149302 original size:18 final size:18
Alignment explanation
Indices: 2149279--2149314 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2149269 GCCTAGTTAG
2149279 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
2149297 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
2149315 GCTGTAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (18 bp):
TAGGTGGAGGATTCGACA
Found at i:2149521 original size:19 final size:19
Alignment explanation
Indices: 2149497--2149564 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2149487 AATTCAACAA
2149497 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2149516 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2149531 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2149548 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2149565 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2149536 original size:13 final size:13
Alignment explanation
Indices: 2149518--2149542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2149508 ACATAAGTTT
2149518 TGTATCGATACAA
1 TGTATCGATACAA
2149531 TGTATCGATACA
1 TGTATCGATACA
2149543 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2149540 original size:32 final size:32
Alignment explanation
Indices: 2149499--2149561 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2149489 TTCAACAATT
*
2149499 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2149531 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2149562 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2149622 original size:13 final size:13
Alignment explanation
Indices: 2149604--2149629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2149594 CATTTTTCTG
2149604 TGTATCGATACAT
1 TGTATCGATACAT
2149617 TGTATCGATACAT
1 TGTATCGATACAT
2149630 GGATCTTTGT
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:2149626 original size:33 final size:33
Alignment explanation
Indices: 2149584--2149650 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2149574 GCCAAGGAAA
***
2149584 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2149617 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2149650 T
1 T
2149651 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2152062 original size:51 final size:52
Alignment explanation
Indices: 2151986--2152372 Score: 193
Period size: 52 Copynumber: 7.4 Consensus size: 52
2151976 AATTCTCCGC
* * * *
2151986 AATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCTAT
* * * *
2152037 AATCGAGGATACTCCAACTCCGATTTTATTTTCAAAAAAACACAAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAATTTTCT-AT
* ** ** * * ***
2152091 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGTTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAAACACCAATTTTC--TAT
** * * ***
2152144 TTTCGAGGGGATACTCCAACCCCTG-CTTTATTCTT--AAAATATTGA-TTTCTCAT
1 AATC--GGGGATACTCCAACCCC-GATTTTATT-TTCAAAAACACCAATTTTCT-AT
* * * * *
2152197 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAA-TTTTCTAT
* *
2152249 AATCGGGGATACTCCAACCCCGATTTTATTTT-TAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTT-CTAT
** * * * * * *
2152301 AATCGGGGATACTTTAGCTCTGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCT-AT
*
2152354 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
2152373 TCGTTATTTC
Statistics
Matches: 249, Mismatches: 65, Indels: 42
0.70 0.18 0.12
Matches are distributed among these distances:
49 1 0.00
50 2 0.01
51 62 0.25
52 80 0.32
53 42 0.17
54 39 0.16
55 17 0.07
56 1 0.00
57 4 0.02
58 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTCTAT
Found at i:2152162 original size:28 final size:27
Alignment explanation
Indices: 2152092--2152166 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
2152082 ATTTTTCACA
2152092 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2152119 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2152145 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
2152167 TGCTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.52
28 17 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:2152364 original size:53 final size:52
Alignment explanation
Indices: 2152197--2152372 Score: 194
Period size: 52 Copynumber: 3.4 Consensus size: 52
2152187 GATTTCTCAT
* * * *
2152197 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTTTCAC
** *
2152249 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTT--T
1 AATCGGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTT--TTCAC
** * * *
2152301 AATCGGGGATACTTTAGCTCTGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-CAAAAACACCAATTTTTTCAC
*
2152354 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
2152373 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
51 2 0.02
52 70 0.69
53 28 0.28
54 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTTTCAC
Found at i:2152383 original size:31 final size:28
Alignment explanation
Indices: 2152355--2152431 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
2152345 TTTTTTCACA
*
2152355 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
2152383 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
2152411 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
2152432 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:2152454 original size:264 final size:263
Alignment explanation
Indices: 2151985--2152482 Score: 755
Period size: 264 Copynumber: 1.9 Consensus size: 263
2151975 CAATTCTCCG
* * * *
2151985 CAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGAGGATACT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
* *
2152050 CCAACTCCGATTTTATTTTCAAAAAAACACAAATTTTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
** * * **
2152115 AATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTGCTTTATTCTTA
131 AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCA
2152180 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
2152245 CCA
261 CCA
* * *
2152248 CAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATAC
** * * * * *
2152313 TTTAGCTCTGATTTTATTTCCAAAAACAC-CAATTTTTTCACAATCGAGGATACTCCAACCTCGT
65 TCCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGT
*
2152377 TATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
130 TA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
*
2152442 CAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
2152483 TTATTTTCGA
Statistics
Matches: 209, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
263 77 0.37
264 132 0.63
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (263 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
CCA
Found at i:2152616 original size:80 final size:77
Alignment explanation
Indices: 2152385--2152619 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 77
2152375 GTTATTTCAT
** * *
2152385 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GTTTTATT-CCAAAATAT
* *
2152450 TGATTTCTCATAAT
64 TGATTTCTCACAAC
* * * * *
2152464 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATGTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCC--CGTTTTATTCCAAAAT-
*
2152528 ATCGATTTCTCACAAC
62 ATTGATTTCTCACAAC
* * * *
2152544 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTAT-TCCAAAATAT
*
2152609 TAAATTTCTCA
64 T-GATTTCTCA
2152620 TCGAGAAATA
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
77 3 0.02
78 3 0.02
79 48 0.38
80 65 0.52
81 6 0.05
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTATTCCAAAATATTG
ATTTCTCACAAC
Found at i:2165003 original size:11 final size:11
Alignment explanation
Indices: 2164987--2165024 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
2164977 CTTCTCTTCA
2164987 AAAAAAAAAGC
1 AAAAAAAAAGC
2164998 AAAAAAAAAG-
1 AAAAAAAAAGC
*
2165008 GAAAAAAAA-C
1 AAAAAAAAAGC
2165018 AAAAAAA
1 AAAAAAA
2165025 CAAAACAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:2166082 original size:55 final size:55
Alignment explanation
Indices: 2165998--2166730 Score: 963
Period size: 55 Copynumber: 13.3 Consensus size: 55
2165988 TCTGCTTTTT
2165998 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2166053 AGTCCTCCAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2166108 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2166163 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACATTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** * * * * * *
2166218 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAGGCCCACACGAGTTGGTGGCGCTTTTT
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2166279 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAA-----T-GCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2166328 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCTCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2166383 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
2166438 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2166493 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2166548 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
2166603 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2166658 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2166713 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
2166731 TACACTTTAT
Statistics
Matches: 603, Mismatches: 49, Indels: 52
0.86 0.07 0.07
Matches are distributed among these distances:
48 4 0.01
49 36 0.06
50 3 0.00
54 15 0.02
55 480 0.80
56 18 0.03
57 1 0.00
59 1 0.00
60 4 0.01
61 41 0.07
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:2167346 original size:18 final size:18
Alignment explanation
Indices: 2167323--2167358 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2167313 GCCTAGTTAG
2167323 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
2167341 TAGGTGGAGGATTCGACA
1 TAGGTGGAGGATTCGACA
2167359 GTTGTAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (18 bp):
TAGGTGGAGGATTCGACA
Found at i:2167816 original size:33 final size:33
Alignment explanation
Indices: 2167779--2167845 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2167769 TTCAATGATT
2167779 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2167812 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2167845 T
1 T
2167846 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2167817 original size:13 final size:13
Alignment explanation
Indices: 2167799--2167823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2167789 CATAAAATGT
2167799 TGTATCGATACAA
1 TGTATCGATACAA
2167812 TGTATCGATACA
1 TGTATCGATACA
2167824 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2167912 original size:13 final size:13
Alignment explanation
Indices: 2167894--2167918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2167884 ATTACTCACA
2167894 TGTATCGATACAT
1 TGTATCGATACAT
2167907 TGTATCGATACA
1 TGTATCGATACA
2167919 CTGATTTTTG
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:2167983 original size:52 final size:52
Alignment explanation
Indices: 2167927--2168047 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2167917 CACTGATTTT
*
2167927 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2167979 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2168031 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2168048 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2175302 original size:1 final size:1
Alignment explanation
Indices: 2175298--2175331 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
2175288 AAAAAAGATG
* *
2175298 AAAAAAAAAAAAAAAAAAGAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2175332 CCCCTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:2175311 original size:10 final size:10
Alignment explanation
Indices: 2175287--2175331 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
2175277 TAATCTTCAC
*
2175287 AAAAAAAGATG
1 AAAAAAA-AAG
2175298 AAAAAAAAA-
1 AAAAAAAAAG
2175307 AAAAAAAAAG
1 AAAAAAAAAG
2175317 AAAAAAAAAG
1 AAAAAAAAAG
2175327 AAAAA
1 AAAAA
2175332 CCCCTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 9 0.28
10 16 0.50
11 7 0.22
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2175311 original size:19 final size:19
Alignment explanation
Indices: 2175287--2175331 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2175277 TAATCTTCAC
* *
2175287 AAAAAAAGATGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
2175306 AAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
*
2175325 AGAAAAA
1 AAAAAAA
2175332 CCCCTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAA
Found at i:2176554 original size:27 final size:27
Alignment explanation
Indices: 2176514--2176606 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 27
2176504 ACCTTCTTTT
* *
2176514 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCAC
2176541 CCTTTTAAGTCCACGACTCCGTGGCACTC
1 CCTTTTAAGTCCACGACTCCGTGGCA--C
2176570 TTTTCCTTTTAAGTCCACGACTCCGTGGCAC
1 ----CCTTTTAAGTCCACGACTCCGTGGCAC
*
2176601 TCTTTT
1 CCTTTT
2176607 CCTTTAAAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
27 29 0.51
29 1 0.02
31 1 0.02
33 26 0.46
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACGACTCCGTGGCAC
Found at i:2176730 original size:69 final size:69
Alignment explanation
Indices: 2176540--2177124 Score: 697
Period size: 69 Copynumber: 8.6 Consensus size: 69
2176530 CTCCGTGGCA
* * * *
2176540 CCCTTTTAAGTCCACGACTCCGTGGCA-CTCTTTTCCTTTT-AAGTCCACGACTCCGTGGCACTC
1 CCCTTTTAAGCCCACAACTCCGTGGCACCT-TTTTCCTTTTAAAGCCCACAACTCCGTGGCACTC
2176603 -TTTT
65 TTTTT
* * * *
2176607 -CCTTTAAAGCCCACAACTACGTGGCA-CTCTTTTCCTTCT-AAGCCCACAACTTCGTGGCACTC
1 CCCTTTTAAGCCCACAACTCCGTGGCACCT-TTTTCCTTTTAAAGCCCACAACTCCGTGGCACTC
2176669 TTTTT
65 TTTTT
* * *
2176674 -CCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT-AAGCCCACAACTTCGTGGCACT
1 CCCTTTTAAGCCCACAACTCCGTGGCACC-T-TTTTCCTTTTAAAGCCCACAACTCCGTGGCACT
2176737 CTTTCTT
64 CTTT-TT
2176744 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTGTTTAAAGCCCACAACTCCGTGGCAC
1 CCCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCAC
2176806 TCTTTTT
63 TCTTTTT
2176813 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTT-CTGTTTAAAGCCCACAACTCCGTGGCACTC
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACTC
2176877 TTTTT
65 TTTTT
2176882 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCT
2176946 TTTT
66 TTTT
* * * * * *
2176950 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-CTT-TTAAAG-CC-CACAACTCCGTGGC-
2177015 AC-C---TT
61 ACTCTTTTT
* **
2177020 --CGTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCT
2177082 TTTT
66 TTTT
* *
2177086 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 CCCTTTTAAGCCCACAACTCCGTGGCA-CCTTTTTCCTT
2177125 CCCAAAGCCC
Statistics
Matches: 460, Mismatches: 34, Indels: 45
0.85 0.06 0.08
Matches are distributed among these distances:
62 2 0.00
63 13 0.03
64 2 0.00
65 5 0.01
66 59 0.13
67 27 0.06
68 113 0.25
69 154 0.33
70 36 0.08
71 32 0.07
72 2 0.00
73 13 0.03
74 2 0.00
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (69 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCT
TTTT
Found at i:2177122 original size:35 final size:33
Alignment explanation
Indices: 2176269--2177124 Score: 837
Period size: 35 Copynumber: 25.1 Consensus size: 33
2176259 TCAAATACCT
* *
2176269 TTTTAAAGTCCACAACTCCGTGGCACTTTTTTCA
1 TTTT-AAGCCCACAACTCCGTGGCACTTTTTTCC
* *
2176303 TCTTTAAGTCCACAACTCCGTGGCACCTTTTT-C
1 T-TTTAAGCCCACAACTCCGTGGCACTTTTTTCC
** * *
2176336 TGTTTAAAGCCCACAACTCTATGGCACACTTTTTCT
1 T-TTT-AAGCCCACAACTCCGTGGCAC-TTTTTTCC
2176372 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
* *
2176408 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTT--AAGCCCACAACTCCGTGGCACTTTTTTCC
2176443 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
2176479 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCC
1 -TTTT-AAGCCCACAACTCCGTGGCA-CTT-TTTTCC
2176516 TTTTAAGCCCACAACTCCGTGGCAC------CC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
* * *
2176543 TTTTAAGTCCACGACTCCGTGGCACTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
* * *
2176576 TTTTAAGTCCACGACTCCGTGGCACTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
* * *
2176609 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
* *
2176642 TTCTAAGCCCACAACTTCGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACT-TTTTTCC
*
2176676 TTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA-CTT-TTTTCC
* *
2176711 TTCTAAGCCCACAACTTCGTGGCACTCTTTCTT-C
1 TTTTAAGCCCACAACTCCGTGGCACT-TTT-TTCC
*
2176745 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTT--AAGCCCACAACTCCGTGGCACTTTTTTCC
2176779 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
*
2176816 TTTTAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
2176848 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
*
2176885 TTTTAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
2176917 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
* *
2176953 TTTTAAGTCCACAACTCCGTGGCA-TCTTTCTCTC
1 TTTTAAGCCCACAACTCCGTGGCACT-TTTTTC-C
* * * *
2176987 TTCCTAAAGCCCACACAAGTCGGTGGCAAC---CTT-C
1 TT--TTAAG-CC-CACAACTCCGTGGC-ACTTTTTTCC
* ** *
2177021 GTCAAAGCCCACAACTCCGTGGCACCTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
2177053 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACT-TTTTT-CC
*
2177089 TTTTAAGTCCACAACTCCGTGGCATCTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCA-CTTTTTTCC
2177123 TT
1 TT
2177125 CCCAAAGCCC
Statistics
Matches: 716, Mismatches: 53, Indels: 106
0.82 0.06 0.12
Matches are distributed among these distances:
27 25 0.03
29 2 0.00
30 12 0.02
31 2 0.00
32 15 0.02
33 137 0.19
34 188 0.26
35 202 0.28
36 59 0.08
37 55 0.08
38 18 0.03
39 1 0.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCGTGGCACTTTTTTCC
Found at i:2177158 original size:32 final size:31
Alignment explanation
Indices: 2177121--2177218 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
2177111 CATCTTTTTT
2177121 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
2177152 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
2177184 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
2177217 CC
1 CC
2177219 CCTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:2177169 original size:68 final size:65
Alignment explanation
Indices: 2176750--2177217 Score: 237
Period size: 68 Copynumber: 6.9 Consensus size: 65
2176740 TCTTCTTTTC
* ** * *
2176750 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCT-TCCAAAGCCCACACAAGTCGGTGGCAACTC---T
2176812 TCCCTTT
62 T-CC--T
* * ** * *
2176819 TAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCT-TCCAAAGCCCACACAAGTCGGTGGCAACTC---T
2176881 TCCCTTT
62 T-CC--T
* * ** * *
2176888 TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTC---TT
2176950 CCCTTT
63 -CC--T
* *
2176956 TAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTT
1 AAAGCCCACAACTCCGTGGCATCTTT-T-TCTTCC-AAAGCCCACACAAGTCGGTGGCAACTCTT
*
2177020 CGT
63 CCT
* ** * *
2177023 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTC---T
2177085 TCCCTTT
62 T-CC--T
* *
2177092 TAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTT-CTT-CCAAAGCCCACACAAGTCGGTGGCAACTCTT
2177157 CCT
63 CCT
* * * *
2177160 AAAGCCCACACAAGTCGGTGGCAAC--CTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
1 AAAG-CC-CACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
2177218 CCCTCTAAGC
Statistics
Matches: 348, Mismatches: 29, Indels: 48
0.82 0.07 0.11
Matches are distributed among these distances:
62 2 0.01
63 13 0.04
64 2 0.01
65 31 0.09
66 9 0.03
67 5 0.01
68 109 0.31
69 107 0.31
70 25 0.07
71 10 0.03
72 4 0.01
73 25 0.07
74 6 0.02
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (65 bp):
AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTCTTCCT
Found at i:2177202 original size:33 final size:32
Alignment explanation
Indices: 2177126--2177218 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
2177116 TTTTTCCTTC
2177126 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
2177157 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
2177191 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
2177219 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:2177202 original size:136 final size:135
Alignment explanation
Indices: 2176341--2177169 Score: 725
Period size: 136 Copynumber: 6.1 Consensus size: 135
2176331 TTTTCTGTTT
**
2176341 AAAGCCCACAACTCTATGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCAC-C--TTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * ** * *
2176406 CCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAAG-CC-CACAACTCCGTGGCA
62 CCTTTT--AAGCCCACAACTCCGTGGCATCTTTTTTCCTTCCAAAGCCCACACAAGTCGGTGGCA
*
2176468 CTCTTTTTCCCTTTTT
125 CTC--TTT-CC--TTC
2176484 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTTT-AAGCCCACAACTCCGTGGCA--------
1 AAAGCCCACAACTCCGTGGCA-C--C-TTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* * * ** * *
2176540 CCCTTTTAAGTCCACGACTCCGTGGCA-CTCTTTTCCTT-TTAAGTCCACGAC---TCCGTGGCA
61 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTTCCTTCCAAAGCCCAC-ACAAGTCGGTGGCA
*
2176600 CTCTTTTCCTTT
125 CTC-TTTCCTTC
* * *
2176612 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTTCGTGGCACTCTTTTT-C
1 AAAGCCCACAACTCCGTGGCAC-C-TTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* * * **
2176675 CTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCCTT-CTAAGCCCACA-ACTTC-GTGGCACT
63 CTTTTAAGCCCACAACTCCGTGGCATCTT-TTTTCCTTCCAAAGCCCACACAAGTCGGTGGCACT
2176737 CTTTCTTCTTTTC
127 CTTTC--C--TTC
2176750 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACC--TTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* ** * *
2176815 CTTTTAAGCCCACAACTCCGTGGCA-CCTTTTT-CTGTTTAAAG-CC-CACAACTCCGTGGCACT
63 CTTTTAAGCCCACAACTCCGTGGCATCTTTTTTCCT-TCCAAAGCCCACACAAGTCGGTGGCACT
*
2176876 CTTTTTCCCTTT
127 C--TTT-CCTTC
*
2176888 TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACC--TTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
* *
2176953 TTTTAAGTCCACAACTCCGTGGCATC-TTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAAC
64 TTTTAAGCCCACAACTCCGTGGCATCTTTTTTC-CTTCC-AAAGCCCACACAAGTCGGTGGC-AC
*
2177017 -C-TT-CGTC
126 TCTTTCCTTC
2177024 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACC--TTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
*
2177089 TTTTAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACT
64 TTTTAAGCCCACAACTCCGTGGCATCTTTTTTCCTT-CCAAAGCCCACACAAGTCGGTGGC-ACT
2177154 C-TTCC-T-
127 CTTTCCTTC
2177160 AAAGCCCACA
1 AAAGCCCACA
2177170 CAAGTCGGTG
Statistics
Matches: 601, Mismatches: 40, Indels: 97
0.81 0.05 0.13
Matches are distributed among these distances:
126 30 0.05
127 1 0.00
128 23 0.04
130 2 0.00
131 4 0.01
132 16 0.03
133 51 0.08
134 8 0.01
135 34 0.06
136 133 0.22
137 80 0.13
138 75 0.12
139 47 0.08
140 28 0.05
141 16 0.03
142 3 0.00
143 39 0.06
144 9 0.01
145 2 0.00
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (135 bp):
AAAGCCCACAACTCCGTGGCACCTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
TTAAGCCCACAACTCCGTGGCATCTTTTTTCCTTCCAAAGCCCACACAAGTCGGTGGCACTCTTT
CCTTC
Found at i:2177305 original size:49 final size:49
Alignment explanation
Indices: 2177248--2177864 Score: 844
Period size: 49 Copynumber: 12.8 Consensus size: 49
2177238 TGGCCTTTTC
*
2177248 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
2177297 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
2177346 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2177395 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
2177444 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2177493 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2177542 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2177591 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
2177640 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2177685 C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
2177732 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
2177777 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT
*
2177826 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 -CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2177865 GTTGACATCC
Statistics
Matches: 498, Mismatches: 55, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
43 78 0.16
45 2 0.00
47 1 0.00
49 384 0.77
50 1 0.00
52 32 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:2177415 original size:98 final size:98
Alignment explanation
Indices: 2177248--2177930 Score: 1066
Period size: 98 Copynumber: 7.0 Consensus size: 98
2177238 TGGCCTTTTC
2177248 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
* *
2177313 ATCGCTGGCCTTGAATCAGCATATTGGCAACTC
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2177346 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2177411 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2177444 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2177509 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
*
2177542 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2177607 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2177640 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
2177699 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
*
2177732 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
* *
2177791 ATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
66 ATCGCTGGCCTTGAATCAGCATATTGG--CATCTT
* * * * *
2177826 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAG
1 -CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTTTAA
* * * *
2177891 GCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
59 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2177931 TATCACTTTT
Statistics
Matches: 553, Mismatches: 17, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
92 130 0.24
94 6 0.01
95 42 0.08
98 335 0.61
105 6 0.01
107 34 0.06
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (98 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
Found at i:2177714 original size:92 final size:92
Alignment explanation
Indices: 2177594--2177864 Score: 479
Period size: 92 Copynumber: 2.9 Consensus size: 92
2177584 GCACCTTCAT
2177594 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
2177659 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
2177686 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
2177751 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
2177778 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
2177843 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
2177865 GTTGACATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2178837 original size:33 final size:33
Alignment explanation
Indices: 2178800--2178866 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2178790 TTCAATGATT
2178800 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2178833 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2178866 T
1 T
2178867 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2178838 original size:13 final size:13
Alignment explanation
Indices: 2178820--2178844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2178810 CATAAAATGT
2178820 TGTATCGATACAA
1 TGTATCGATACAA
2178833 TGTATCGATACA
1 TGTATCGATACA
2178845 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2178931 original size:13 final size:13
Alignment explanation
Indices: 2178913--2178937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2178903 ATTACTCACA
2178913 TGTATCGATACAT
1 TGTATCGATACAT
2178926 TGTATCGATACA
1 TGTATCGATACA
2178938 CTGATTTTTG
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:2179002 original size:52 final size:52
Alignment explanation
Indices: 2178946--2179066 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2178936 CACTGATTTT
*
2178946 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2178998 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2179050 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2179067 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2182234 original size:19 final size:19
Alignment explanation
Indices: 2182210--2182277 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2182200 AATTCAACAA
2182210 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2182229 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2182244 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2182261 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2182278 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2182249 original size:13 final size:13
Alignment explanation
Indices: 2182231--2182255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2182221 ACATAAGTTT
2182231 TGTATCGATACAA
1 TGTATCGATACAA
2182244 TGTATCGATACA
1 TGTATCGATACA
2182256 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2182253 original size:32 final size:32
Alignment explanation
Indices: 2182212--2182274 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2182202 TTCAACAATT
*
2182212 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2182244 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2182275 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2182335 original size:13 final size:13
Alignment explanation
Indices: 2182317--2182342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2182307 CATTTTTCTG
2182317 TGTATCGATACAT
1 TGTATCGATACAT
2182330 TGTATCGATACAT
1 TGTATCGATACAT
2182343 GGATCTTTGT
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:2182339 original size:33 final size:33
Alignment explanation
Indices: 2182297--2182363 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2182287 GCCAAGGAAA
***
2182297 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2182330 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2182363 T
1 T
2182364 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2184814 original size:54 final size:51
Alignment explanation
Indices: 2184698--2184821 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
2184688 CAATTCTCCG
* *
2184698 CAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACAAATTTTCTA
* *
2184749 TAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAAAAACACAAATTTT-TCA
1 CAATCGGGGATATTCCAACTCCGATTTTATTTTC---AAAACACAAATTTTCT-A
*
2184803 CAATCGGGGATACTCCAAC
1 CAATCGGGGATATTCCAAC
2184822 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 31 0.50
53 1 0.02
54 30 0.48
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (51 bp):
CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACAAATTTTCTA
Found at i:2184839 original size:27 final size:28
Alignment explanation
Indices: 2184805--2184879 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
2184795 ATTTTTCACA
2184805 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
2184832 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
2184860 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
2184880 TGCTTTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:2184930 original size:51 final size:52
Alignment explanation
Indices: 2184863--2185027 Score: 167
Period size: 52 Copynumber: 3.2 Consensus size: 52
2184853 TTATTTCCGA
* * * *
2184863 GGGGATACTCCAACCCCTG-CTTTATT-CTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCC-GACTTTATTGC-TAAAACACTAATTTCTCCACAATC
* *
2184914 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCCACAATC
* ** * **
2184966 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTT-TCCTTTAATC
1 GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCC-ACAATC
2185018 GGGGATACTC
1 GGGGATACTC
2185028 TAGCTCTGAT
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.01
51 38 0.38
52 60 0.61
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGACTTTATTGCTAAAACACTAATTTCTCCACAATC
Found at i:2185077 original size:53 final size:52
Alignment explanation
Indices: 2184910--2185085 Score: 194
Period size: 52 Copynumber: 3.4 Consensus size: 52
2184900 GATTTCTCAT
* * * * *
2184910 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCTAACCCCGATTTTATTTCAAAAACACCAATTTTTTCAC
* ** *
2184962 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTT--T
1 AATCGGGGATACTCTAACCCCGATTTTATTTCAAAAACACCAATTTT--TTCAC
* * *
2185014 AATCGGGGATACTCTAGCTCTGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCTAACCCCGATTTTATTT-CAAAAACACCAATTTTTTCAC
*
2185067 AATCGAGGATACTCTAACC
1 AATCGGGGATACTCTAACC
2185086 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 2 0.02
52 71 0.68
53 30 0.29
54 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCTAACCCCGATTTTATTTCAAAAACACCAATTTTTTCAC
Found at i:2185167 original size:264 final size:263
Alignment explanation
Indices: 2184698--2185195 Score: 755
Period size: 264 Copynumber: 1.9 Consensus size: 263
2184688 CAATTCTCCG
* * * * *
2184698 CAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGAGGATATT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
* *
2184763 CCAACTCCGATTTTATTTTCAAAAAAACACAAATTTTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
** * **
2184828 AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCTGCTTTATTCTTA
131 AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCA
2184893 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
2184958 CCA
261 CCA
* * *
2184961 CAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATAC
* * * * * * *
2185026 TCTAGCTCTGATTTTATTTCCAAAAACAC-CAATTTTTTCACAATCGAGGATACTCTAACCTCGT
65 TCCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGT
*
2185090 TATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
130 TA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
*
2185155 CAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
194 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
2185196 TTATTTTCGA
Statistics
Matches: 209, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
263 76 0.36
264 133 0.64
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (263 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACT
CCAACTCCGATTTTATTTCCAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
CCA
Found at i:2185329 original size:80 final size:77
Alignment explanation
Indices: 2185098--2185332 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 77
2185088 GTTATTTCAT
** * *
2185098 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GTTTTATT-CCAAAATAT
* *
2185163 TGATTTCTCATAAT
64 TGATTTCTCACAAC
* * * * *
2185177 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATGTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCC--CGTTTTATTCCAAAAT-
*
2185241 ATCGATTTCTCACAAC
62 ATTGATTTCTCACAAC
* * * *
2185257 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTAT-TCCAAAATAT
*
2185322 TAAATTTCTCA
64 T-GATTTCTCA
2185333 TCGAGAAATA
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
77 3 0.02
78 3 0.02
79 48 0.38
80 65 0.52
81 6 0.05
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTATTCCAAAATATTG
ATTTCTCACAAC
Found at i:2188258 original size:21 final size:19
Alignment explanation
Indices: 2188194--2188263 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
2188184 TTCGGATTGA
* *
2188194 TAAATTTAATTTAATTTAAAT
1 TAAATTTAAATT-ATTT-ATT
*
2188215 TAAATTTAAAATATTATATTT
1 TAAATTTAAATTATT-TA-TT
2188236 TAAATTTAAATTGATTTGATT
1 TAAATTTAAATT-ATTT-ATT
2188257 TAAATTT
1 TAAATTT
2188264 TTATTTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAAATTTAAATTATTTATT
Found at i:2188263 original size:6 final size:6
Alignment explanation
Indices: 2188194--2188247 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 6
2188184 TTCGGATTGA
*
2188194 TAAATT T-AATT T-AATT TAAA-T TAAATT TAAAATAT TATATTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT T-AAAT-T TA-AATT TAAATT
2188242 TAAATT
1 TAAATT
2188248 GATTTGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 15 0.37
6 14 0.34
7 8 0.20
8 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:2189693 original size:16 final size:16
Alignment explanation
Indices: 2189672--2189798 Score: 107
Period size: 16 Copynumber: 8.1 Consensus size: 16
2189662 TTATTCAAAT
2189672 TTAAAATAATTTAAAA
1 TTAAAATAATTTAAAA
*
2189688 TTAAAATAATTTAAAC
1 TTAAAATAATTTAAAA
2189704 TTAAAATAATTTAAAA
1 TTAAAATAATTTAAAA
* * * * *
2189720 TCAAATTAATCTGAAC
1 TTAAAATAATTTAAAA
* *
2189736 TCAAAATAACTTAAAA
1 TTAAAATAATTTAAAA
*
2189752 TCAAAATAA-TTAAAA
1 TTAAAATAATTTAAAA
* *
2189767 TGAAAA-ATATTTAATA
1 TTAAAATA-ATTTAAAA
**
2189783 TTTTAA-AATTTAAAA
1 TTAAAATAATTTAAAA
2189798 T
1 T
2189799 AATCTAACTT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
14 1 0.01
15 20 0.22
16 70 0.77
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (16 bp):
TTAAAATAATTTAAAA
Found at i:2189708 original size:32 final size:32
Alignment explanation
Indices: 2189672--2189762 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
2189662 TTATTCAAAT
*
2189672 TTAAAATAATTTAAAATTAAAATAATTTAAAC
1 TTAAAATAATTTAAAATCAAAATAATTTAAAC
* * *
2189704 TTAAAATAATTTAAAATCAAATTAATCTGAAC
1 TTAAAATAATTTAAAATCAAAATAATTTAAAC
* *
2189736 TCAAAATAACTTAAAATCAAAATAATT
1 TTAAAATAATTTAAAATCAAAATAATT
2189763 AAAATGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.57, C:0.08, G:0.01, T:0.34
Consensus pattern (32 bp):
TTAAAATAATTTAAAATCAAAATAATTTAAAC
Found at i:2190530 original size:25 final size:27
Alignment explanation
Indices: 2190500--2190617 Score: 81
Period size: 26 Copynumber: 4.4 Consensus size: 27
2190490 ATATTTAGTA
2190500 AATTTAAATATATAATAAATAATA-TT
1 AATTTAAATATATAATAAATAATATTT
*
2190526 -ATTT-AATTTA-AATTTAAATAATATTT
1 AATTTAAATATATAA--TAAATAATATTT
*
2190552 AAATTAAATATGATTAATAAATAA-ATTT
1 AATTTAAATAT-A-TAATAAATAATATTT
* *
2190580 GAATTT-CATA-ATAATTATATAA-ATTT
1 -AATTTAAATATATAA-TAAATAATATTT
2190606 AAATTTAAATAT
1 -AATTTAAATAT
2190618 TTTTAAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
23 2 0.03
24 5 0.07
25 16 0.22
26 18 0.25
27 6 0.08
28 11 0.15
29 12 0.17
31 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (27 bp):
AATTTAAATATATAATAAATAATATTT
Found at i:2190550 original size:22 final size:22
Alignment explanation
Indices: 2190515--2190616 Score: 71
Period size: 22 Copynumber: 4.3 Consensus size: 22
2190505 AAATATATAA
2190515 TAAATAATATTATTTAATTTAAATT
1 TAAATAATATTA---AATTTAAATT
*
2190540 TAAATAATATTTAAA-TTAAATA
1 TAAATAATA-TTAAATTTAAATT
* * * *
2190562 TGATTAATAAATAAATTTGAATT
1 TAAATAAT-ATTAAATTTAAATT
2190585 TCATAATAATTATATAAATTTAAATT
1 T-A-AATAA-TAT-TAAATTTAAATT
2190611 TAAATA
1 TAAATA
2190617 TTTTTAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
22 16 0.27
23 9 0.15
24 4 0.07
25 15 0.25
26 16 0.27
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATAATATTAAATTTAAATT
Found at i:2190842 original size:17 final size:17
Alignment explanation
Indices: 2190820--2190857 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2190810 GCGACTTGAA
*
2190820 TTTTTTTTGTTT-CCTT
1 TTTTTTTTTTTTGCCTT
*
2190836 TTTTTTTTTTTTGGCTT
1 TTTTTTTTTTTTGCCTT
2190853 TTTTT
1 TTTTT
2190858 GGTGTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTTTTGCCTT
Found at i:2191790 original size:24 final size:25
Alignment explanation
Indices: 2191762--2191814 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
2191752 TTTCATGTGC
2191762 AAATTAAATTATTAA-ATTAATATA
1 AAATTAAATTATTAATATTAATATA
* * * *
2191786 AAATTTATTTTTTAATGTTAATATA
1 AAATTAAATTATTAATATTAATATA
2191811 AAAT
1 AAAT
2191815 AAAAAATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATTAAATTATTAATATTAATATA
Found at i:2197135 original size:73 final size:73
Alignment explanation
Indices: 2197048--2197191 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
2197038 TATTAAACAC
* * *
2197048 AGATATCGAATGTTAATAGTTTAAAAACAATATAAACTTTGAATAACATGCATAGTGATATATAT
1 AGATATCGAATGTTAATAGTTTAAAAACAATATAAAATTTGAATAACATACATAGTGACATATAT
2197113 TATCCCAT
66 TATCCCAT
* * *
2197121 AGATGTCGAATGTTAATAGTTTAAAAATAATATAAAATTTGAATAACATACATATTGACATATAT
1 AGATATCGAATGTTAATAGTTTAAAAACAATATAAAATTTGAATAACATACATAGTGACATATAT
2197186 TATCCC
66 TATCCC
2197192 GAGCTAGGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (73 bp):
AGATATCGAATGTTAATAGTTTAAAAACAATATAAAATTTGAATAACATACATAGTGACATATAT
TATCCCAT
Found at i:2198395 original size:3 final size:3
Alignment explanation
Indices: 2198387--2198421 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2198377 ACCTCATGAT
*
2198387 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2198422 TTTTGAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2200440 original size:26 final size:26
Alignment explanation
Indices: 2200411--2200462 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2200401 GCATTCTACT
*
2200411 TCCTGGAAGTGAGATGCAGACAATTA
1 TCCTGAAAGTGAGATGCAGACAATTA
2200437 TCCTGAAAGTGAGATGCAGACAATTA
1 TCCTGAAAGTGAGATGCAGACAATTA
2200463 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (26 bp):
TCCTGAAAGTGAGATGCAGACAATTA
Found at i:2202921 original size:2 final size:2
Alignment explanation
Indices: 2202914--2202943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2202904 TAACTAATAC
2202914 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
2202944 TTTGTTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2204314 original size:6 final size:6
Alignment explanation
Indices: 2204303--2204330 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2204293 GGTTGGAGAA
2204303 GCTTGG GCTTGG GCTTGG GCTTGG GCTT
1 GCTTGG GCTTGG GCTTGG GCTTGG GCTT
2204331 TAAATTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.46, T:0.36
Consensus pattern (6 bp):
GCTTGG
Found at i:2209621 original size:20 final size:20
Alignment explanation
Indices: 2209598--2209693 Score: 138
Period size: 20 Copynumber: 4.8 Consensus size: 20
2209588 AAGTACCTAG
*
2209598 ATGTATCGATACATTTTTAA
1 ATGTATCGATACATTTATAA
* *
2209618 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATAA
*
2209638 ATGTATCGATACATTTTTAA
1 ATGTATCGATACATTTATAA
*
2209658 ATGTATCGATACATTGTATGA
1 ATGTATCGATACATT-TATAA
2209679 ATGTATCGATACATT
1 ATGTATCGATACATT
2209694 ACTCAATGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
20 49 0.73
21 18 0.27
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:2209653 original size:40 final size:41
Alignment explanation
Indices: 2209598--2209693 Score: 185
Period size: 40 Copynumber: 2.4 Consensus size: 41
2209588 AAGTACCTAG
2209598 ATGTATCGATACATTTTTAAATGTATCGATACA-TGTATGA
1 ATGTATCGATACATTTTTAAATGTATCGATACATTGTATGA
2209638 ATGTATCGATACATTTTTAAATGTATCGATACATTGTATGA
1 ATGTATCGATACATTTTTAAATGTATCGATACATTGTATGA
2209679 ATGTATCGATACATT
1 ATGTATCGATACATT
2209694 ACTCAATGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 33 0.60
41 22 0.40
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (41 bp):
ATGTATCGATACATTTTTAAATGTATCGATACATTGTATGA
Found at i:2209703 original size:20 final size:19
Alignment explanation
Indices: 2209598--2209710 Score: 118
Period size: 20 Copynumber: 5.6 Consensus size: 19
2209588 AAGTACCTAG
*
2209598 ATGTATCGATACATTTTTAA
1 ATGTATCGATACA-TTATAA
*
2209618 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATAA
*
2209638 ATGTATCGATACATTTTTAA
1 ATGTATCGATACA-TTATAA
*
2209658 ATGTATCGATACATTGTATGA
1 ATGTATCGATACA-T-TATAA
*
2209679 ATGTATCGATACATTACTCA
1 ATGTATCGATACATTA-TAA
*
2209699 ATGTATCAATAC
1 ATGTATCGATAC
2209711 GTTCTGTCCT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.04
20 61 0.75
21 17 0.21
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATTATAA
Found at i:2210686 original size:22 final size:23
Alignment explanation
Indices: 2210661--2210707 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
2210651 TTTTAATATG
*
2210661 TCCAGCATTTCATTGAATG-TTA
1 TCCAGCAGTTCATTGAATGATTA
* *
2210683 TCCATCAGTTCATTGTATGATTA
1 TCCAGCAGTTCATTGAATGATTA
2210706 TC
1 TC
2210708 ACATTTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (23 bp):
TCCAGCAGTTCATTGAATGATTA
Found at i:2223645 original size:8 final size:8
Alignment explanation
Indices: 2223632--2223673 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
2223622 TTCATACCCA
2223632 AAAAAAAT
1 AAAAAAAT
2223640 AAAAAAAT
1 AAAAAAAT
2223648 AGAAAAAAT
1 A-AAAAAAT
2223657 AAAAAAAAAT
1 --AAAAAAAT
2223667 AAAAAAA
1 AAAAAAA
2223674 ACAAGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 16 0.52
9 7 0.23
10 7 0.23
11 1 0.03
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:2223645 original size:9 final size:9
Alignment explanation
Indices: 2223631--2223694 Score: 67
Period size: 10 Copynumber: 6.9 Consensus size: 9
2223621 CTTCATACCC
2223631 AAAAAAAAT
1 AAAAAAAAT
2223640 -AAAAAAAT
1 AAAAAAAAT
*
2223648 AGAAAAAAT
1 AAAAAAAAT
2223657 AAAAAAAAAT
1 -AAAAAAAAT
*
2223667 AAAAAAAAC
1 AAAAAAAAT
*
2223676 AAGGAAAAAT
1 AA-AAAAAAT
2223686 AACAAAAAA
1 AA-AAAAAA
2223695 ATAGAAAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
8 8 0.18
9 17 0.38
10 20 0.44
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:2223670 original size:17 final size:17
Alignment explanation
Indices: 2223633--2223672 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2223623 TCATACCCAA
*
2223633 AAAAAATAAAAAAATAG
1 AAAAAATAAAAAAAAAG
*
2223650 AAAAAATAAAAAAAAAT
1 AAAAAATAAAAAAAAAG
2223667 AAAAAA
1 AAAAAA
2223673 AACAAGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAG
Found at i:2223701 original size:19 final size:17
Alignment explanation
Indices: 2223631--2223695 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 17
2223621 CTTCATACCC
*
2223631 AAAAAAAATAAAAAAAT
1 AAAAAAAAAAAAAAAAT
2223648 AGAAAAAATAAAAAAAAAT
1 A-AAAAAA-AAAAAAAAAT
*
2223667 AAAAAAAACAAGGAAAAAT
1 AAAAAAAA-AA-AAAAAAT
2223686 AACAAAAAAA
1 AA-AAAAAAA
2223696 TAGAAAGGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.05
18 14 0.34
19 19 0.46
20 6 0.15
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAT
Found at i:2225118 original size:29 final size:28
Alignment explanation
Indices: 2224915--2225237 Score: 351
Period size: 28 Copynumber: 11.1 Consensus size: 28
2224905 CGTTCATCTC
* * *
2224915 TTCAAAGCGCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
2224943 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
**
2224972 TTCAAAGCCCACACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
*
2225004 TTCAAAGCCCACAAGTCAGTGGCATCC-G
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
2225032 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
2225060 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * * **
2225088 TTTAGAGCCCATAAGTCAGTGGCATTTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
2225117 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
2225145 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
2225174 TTCAAAGCCCACACAAGTCAGTAGCAACTATT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CTT
* *
2225206 TTCAAAGCCCACACAAGTTAGTGGCACTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
2225236 TT
1 TT
2225238 TTTAAAAAAA
Statistics
Matches: 254, Mismatches: 30, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.01
28 120 0.47
29 48 0.19
30 15 0.06
31 22 0.09
32 47 0.19
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:2225139 original size:57 final size:57
Alignment explanation
Indices: 2224915--2225238 Score: 366
Period size: 57 Copynumber: 5.5 Consensus size: 57
2224905 CGTTCATCTC
* * * *
2224915 TTCAAAGCGCACAAGTTAGTGGCAC-CCTTTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTT
** *
2224972 TTCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCC-G
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTT
2225032 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTT
* * * * * *
2225088 TTTAGAGCCCATAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
2225145 TTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAAGTCAGTAGCAACTATT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CTT
* *
2225206 TTCAAAGCCCACACAAGTTAGTGGCACTTTTTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACTCTTTT
2225239 TTAAAAAAAA
Statistics
Matches: 230, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
55 2 0.01
56 48 0.21
57 73 0.32
58 10 0.04
59 22 0.10
60 17 0.07
61 34 0.15
62 3 0.01
63 21 0.09
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:2228553 original size:52 final size:51
Alignment explanation
Indices: 2228475--2228623 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 51
2228465 CGAAATATGA
*
2228475 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* * *
2228527 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGT
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
* * **
2228579 AAATTTGCCTGCGTGCATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
2228624 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:2228630 original size:13 final size:13
Alignment explanation
Indices: 2228612--2228636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2228602 CAAAGATCAG
2228612 TGTATCGATACAA
1 TGTATCGATACAA
2228625 TGTATCGATACA
1 TGTATCGATACA
2228637 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2228716 original size:13 final size:13
Alignment explanation
Indices: 2228698--2228722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2228688 ACAAAAAAAA
2228698 TGTATCGATACAT
1 TGTATCGATACAT
2228711 TGTATCGATACA
1 TGTATCGATACA
2228723 ACACTTTATG
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:2230261 original size:79 final size:78
Alignment explanation
Indices: 2230164--2230653 Score: 610
Period size: 79 Copynumber: 6.2 Consensus size: 78
2230154 GAGATAATAA
* * * * *
2230164 CGGGATTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCCGGTTGTGAAAAATCAATGA
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-A
2230229 -TTAGGAAATAAAAT
65 TTTA-GAAATAAAAT
* * * *
2230243 TGAGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTA-CCCCGATTATGAGAAATTAATAT
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA-
*
2230307 TTTAGAAAGAAAAT
65 TTTAGAAATAAAAT
* * * *
2230321 CGGGGTTGGAGTATCCCCCCGGAAAGAACAGGGTTGGAGTATCCCCGATTATGAAAAAAT-AATA
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG-AAAAATCAATA
* *
2230385 TTTTAGAAATTAAAC
65 -TTTAGAAATAAAAT
* * * * *
2230400 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAGAATCGATGA
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-A
2230465 TTTAGAAATAAAAT
65 TTTAGAAATAAAAT
* * *
2230479 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATTAATAT
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA-
*
2230544 TTTAGAAATAAGAT
65 TTTAGAAATAAAAT
* * *
2230558 CGGGGTTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATAAAAAAT-AATAT
1 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA-
*
2230622 TTTAGAAATAAAAC
65 TTTAGAAATAAAAT
*
2230636 CGGGGTTGGAGTATCCCC
1 CGGGATTGGAGTATCCCC
2230654 GATTGTGGAA
Statistics
Matches: 358, Mismatches: 46, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.00
78 101 0.28
79 250 0.70
80 6 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
TTAGAAATAAAAT
Done.