Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 16 of 25
Found at i:2426476 original size:19 final size:19
Alignment explanation
Indices: 2426405--2426485 Score: 56
Period size: 19 Copynumber: 4.0 Consensus size: 19
2426395 ATAATTAAAT
*
2426405 TTTAAAAAAA-TATTTTTA
1 TTTAAAAAAATTATTTTAA
* * *
2426423 TTTATAAATAATAATTTAAA
1 TTTA-AAAAAATTATTTTAA
*
2426443 TTAAATATATTAAATTATTTTAA
1 TTTAA-A-A--AAATTATTTTAA
2426466 TTTAAAAAAATTATTATTAA
1 TTTAAAAAAATTATT-TTAA
2426486 AAGTTGATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
18 4 0.09
19 14 0.30
20 13 0.28
21 2 0.04
22 1 0.02
23 13 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAAAAAATTATTTTAA
Found at i:2436582 original size:20 final size:19
Alignment explanation
Indices: 2436529--2436586 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 19
2436519 TACATAAGTA
*
2436529 AATGTATCGATACATACTTAT
1 AATGTATTGATACAT--TTAT
2436550 AAT-TATATCGATACATTTAT
1 AATGTAT-T-GATACATTTAT
2436570 CAATGTATTGATACATT
1 -AATGTATTGATACATT
2436587 CTGGGTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
20 15 0.47
21 7 0.22
22 10 0.31
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (19 bp):
AATGTATTGATACATTTAT
Found at i:2439135 original size:51 final size:51
Alignment explanation
Indices: 2439073--2439173 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
2439063 TATTTTTGAG
2439073 GAGATACTCCAATCTCGATTTTATTTATAAAACATCAATTTTTCACCATCC
1 GAGATACTCCAATCTCGATTTTATTTATAAAACATCAATTTTTCACCATCC
* * * *
2439124 GAGATACTCCAATCTCGATTTTGTTTCTAAAACATCGATTTTTGACCATC
1 GAGATACTCCAATCTCGATTTTATTTATAAAACATCAATTTTTCACCATC
2439174 GAGGATATGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (51 bp):
GAGATACTCCAATCTCGATTTTATTTATAAAACATCAATTTTTCACCATCC
Found at i:2439196 original size:130 final size:130
Alignment explanation
Indices: 2439017--2439261 Score: 305
Period size: 130 Copynumber: 1.9 Consensus size: 130
2439007 CCCGGCTTTA
* * * * * **
2439017 TTTCTAAAACATTGATTTTTCACCATTGGGGATATTCCAACTCCATTATTTT-TGAGGAGATACT
1 TTTCTAAAACATCGATTTTTCACCATCGAGGATATGCCAACCCCATTATTTTCAAAGG-GATACT
* * * *
2439081 CCAA-TCTCGATTTTATTTATAAAACATCAATTTTTCACCATCCGAGATACTCCAATCTCGATTT
65 CCAACCCT-GATTTTATTTATAAAACACCAATTTTCCACCATCAGAGATACTCCAATCTCGATTT
2439145 TG
129 TG
* *
2439147 TTTCTAAAACATCGATTTTTGACCATCGAGGATATGCCAACCCCGTTATTTTCAAAGGGATACTC
1 TTTCTAAAACATCGATTTTTCACCATCGAGGATATGCCAACCCCATTATTTTCAAAGGGATACTC
* * * *
2439212 TAACCCTGGTTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACT
66 CAACCCTGATTTTATTTATAAAACACCAATTTTCCACCATCAGAGATACT
2439262 TCAACCCTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
130 91 0.95
131 5 0.05
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (130 bp):
TTTCTAAAACATCGATTTTTCACCATCGAGGATATGCCAACCCCATTATTTTCAAAGGGATACTC
CAACCCTGATTTTATTTATAAAACACCAATTTTCCACCATCAGAGATACTCCAATCTCGATTTTG
Found at i:2439267 original size:79 final size:79
Alignment explanation
Indices: 2439126--2439347 Score: 193
Period size: 79 Copynumber: 2.8 Consensus size: 79
2439116 CACCATCCGA
* * * * * *
2439126 GATACTCCAATCTCGA-TTTTGTTTCTAAAACATCGATTTTTGACCATC-GAGGATA-TGCCAAC
1 GATACTCCAA-CTCCAGTTTTATTTCTAAAACACCAACTTTTCACCATCAG-GGATACT-CCAAC
*
2439188 CCCGTTATTTTCAAAGG
63 CCCATTATTTTCAAAGG
* * *
2439205 GATACTCTAAC-CCTGGTTTTATTTCTAAAACACCAA-TTTTCCACCATCAGGGATACTTCAACC
1 GATACTCCAACTCC-AGTTTTATTTCTAAAACACCAACTTTT-CACCATCAGGGATACTCCAACC
* ** *
2439268 CTATTATTTTTGAGGG
64 CCATTATTTTCAAAGG
* * ** *
2439284 GATACTCCAACTCCAGTTTTATTTTTAAAATATTAACTTTTCACCATCGGGGATACTCCAACCC
1 GATACTCCAACTCCAGTTTTATTTCTAAAACACCAACTTTTCACCATCAGGGATACTCCAACCC
2439348 AGTTTTTATC
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 5 0.04
79 101 0.88
80 8 0.07
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
GATACTCCAACTCCAGTTTTATTTCTAAAACACCAACTTTTCACCATCAGGGATACTCCAACCCC
ATTATTTTCAAAGG
Found at i:2451678 original size:23 final size:23
Alignment explanation
Indices: 2451652--2451697 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2451642 AACCAATAAC
*
2451652 AACAACAACAAAAAGAAAAAAAA
1 AACAAAAACAAAAAGAAAAAAAA
***
2451675 AACAAAAATGGAAAGAAAAAAAA
1 AACAAAAACAAAAAGAAAAAAAA
2451698 GAACTTGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.80, C:0.09, G:0.09, T:0.02
Consensus pattern (23 bp):
AACAAAAACAAAAAGAAAAAAAA
Found at i:2451680 original size:17 final size:19
Alignment explanation
Indices: 2451658--2451696 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
2451648 TAACAACAAC
2451658 AACAAAAA-GAAA-AAAAA
1 AACAAAAAGGAAAGAAAAA
2451675 AACAAAAATGGAAAGAAAAA
1 AACAAAAA-GGAAAGAAAAA
2451695 AA
1 AA
2451697 AGAACTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (19 bp):
AACAAAAAGGAAAGAAAAA
Found at i:2452830 original size:60 final size:60
Alignment explanation
Indices: 2452671--2453157 Score: 486
Period size: 60 Copynumber: 8.1 Consensus size: 60
2452661 AACCTTTTAT
* * * * *
2452671 CCTTTTAGTCCT-GAAGAAGCAAGATGCATTTTCCTTTTAAAGCCCATATAAGTCGGTGGCA
1 CCTTTTAGTCCTCAAAG-AGCAAGATGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
2452732 -CTTTTCAATCCTCAAAGAGTAAGATACC--TTCTTTTAAAGGCCACACAAGTTGGTGACA
1 CCTTTT-AGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2452790 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
2452850 CCTTCTAATCCTCAAAGAGCAAGA--CACTTTCCTTTAAAAGCTCACATAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGATGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2452909 CCTTTTAGTCCTTAAAGAGCAAGATGCCTTATCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * *
2452969 CCTTCTAGTCCTCAAAGAGCAAGACACCTTCT-TTTTAAAGCCCACACAAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2453028 CTTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCTTTTCAAAGCCTACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * * *
2453089 CCTTCTAGTACC-CAAAGAGCGGGACACTTCCTTTTTTCTTTTAAAGCCTACACAAGCTGGTGGC
1 CCTTTTAGT-CCTCAAAGAGC--AAGA-TGCC--TTTTCTTTTAAAGCCCACACAAGTTGGTGGC
2453153 A
60 A
2453154 CCTT
1 CCTT
2453158 CCACTCCTCA
Statistics
Matches: 354, Mismatches: 56, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
58 42 0.12
59 108 0.31
60 110 0.31
61 48 0.14
62 5 0.01
63 2 0.01
64 3 0.01
65 27 0.08
66 9 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (60 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2452909 original size:59 final size:59
Alignment explanation
Indices: 2452671--2453123 Score: 420
Period size: 59 Copynumber: 7.6 Consensus size: 59
2452661 AACCTTTTAT
* * * * *
2452671 CCTTTTAGTCCT-GAAGAAGCAAGATGCATTTTCCTTTTAAAGCCCATATAAGTCGGTGGCA
1 CCTTTTAGTCCTCAAAG-AGCAAGA--CACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2452732 -CTTTTCAATCCTCAAAGAGTAAGATACCTT-CTTTTAAAGGCCACACAAGTTGGTGACA
1 CCTTTT-AGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2452790 CCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGA--CACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2452850 CCTTCTAATCCTCAAAGAGCAAGACACTTTCCTTTAAAAGCTCACATAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2452909 CCTTTTAGTCCTTAAAGAGCAAGATGC-CTTAT-CTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGA--CACTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2452969 CCTTCTAGTCCTCAAAGAGCAAGACACCTTCTTTTTAAAGCCCACACAAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
2453028 CTTTTTAGTCCTCAAAGAGTAAGATGC-CTTTTCTTTTCAAAGCCTACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGA--CACTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* **
2453089 CCTTCTAGTACC-CAAAGAGCGGGACAC-TTCCTTTT
1 CCTTTTAGT-CCTCAAAGAGCAAGACACTTTCCTTTT
2453124 TTCTTTTAAA
Statistics
Matches: 320, Mismatches: 55, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
58 41 0.13
59 117 0.37
60 107 0.33
61 50 0.16
62 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (59 bp):
CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2452913 original size:119 final size:118
Alignment explanation
Indices: 2452671--2453122 Score: 543
Period size: 119 Copynumber: 3.8 Consensus size: 118
2452661 AACCTTTTAT
* * * * *
2452671 CCTTTTAGTCCT-GAAGAAGCAAGATGCATTTTCCTTTTAAAGCCCATATAAGTCGGTGGCA-CT
1 CCTTTTAGTCCTCAAAG-AGCAAGATGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * *
2452734 TTTCAATCCTCAAAGAGTAAGATACCTTCTTTTAAAGGCCACACAAGTTGGTGACA
64 TCT-AATCCTCAAAGAGCAAGACACCTTCCTTTAAAAGCCACACAAGTTGGTGGCA
* *
2452790 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGTACCTTC
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
2452855 TAATCCTCAAAGAGCAAGACACTTTCCTTTAAAAGCTCACATAAGTTGGTGGTA
66 TAATCCTCAAAGAGCAAGACACCTTCCTTTAAAAGC-CACACAAGTTGGTGGCA
* * *
2452909 CCTTTTAGTCCTTAAAGAGCAAGATGCCTTATCTTTTAAAGCCCATACAAGTTGGTGGCACCTTC
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2452974 TAGTCCTCAAAGAGCAAGACACCTTCTTTTTAAAGCCCACACAAGTTGGTAGCA
66 TAATCCTCAAAGAGCAAGACACCTTCCTTTAAAAG-CCACACAAGTTGGTGGCA
* * * *
2453028 CTTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCTTTTCAAAGCCTACACAAGCTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
* **
2453093 CTAGTACC-CAAAGAGCGGGACA-CTTCCTTT
65 CTAAT-CCTCAAAGAGCAAGACACCTTCCTTT
2453123 TTTCTTTTAA
Statistics
Matches: 289, Mismatches: 38, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
118 54 0.19
119 188 0.65
120 45 0.16
121 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (118 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
TAATCCTCAAAGAGCAAGACACCTTCCTTTAAAAGCCACACAAGTTGGTGGCA
Found at i:2453732 original size:21 final size:19
Alignment explanation
Indices: 2453708--2453761 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
2453698 CTGTAATTTG
2453708 TATCGATACAAATAGTAAATA
1 TATCGATACAAATA--AAATA
*
2453729 TATCGATACAGACCTAAAATA
1 TATCGATACA-A-ATAAAATA
2453750 TATCGATACAAA
1 TATCGATACAAA
2453762 ATTACCCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 1 0.03
23 2 0.07
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (19 bp):
TATCGATACAAATAAAATA
Found at i:2453815 original size:20 final size:22
Alignment explanation
Indices: 2453790--2453841 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
2453780 AAGGATATGC
2453790 ATCGATACATAAGTA-AA-TGT
1 ATCGATACATAAGTATAATTGT
**
2453810 ATCGATACATACTTATAATTGT
1 ATCGATACATAAGTATAATTGT
2453832 ATCGATACAT
1 ATCGATACAT
2453842 TCTGGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.46
21 2 0.07
22 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (22 bp):
ATCGATACATAAGTATAATTGT
Found at i:2456287 original size:79 final size:79
Alignment explanation
Indices: 2456195--2456708 Score: 484
Period size: 79 Copynumber: 6.5 Consensus size: 79
2456185 TCATTGATGT
* *
2456195 TTTTATTTCTAAAATATCGATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAAGGGA
* *
2456260 TACTCCAATCTCGA
66 TACTCCAACCCCGA
* * * * * * *
2456274 TTTTATTTATAAAATATCGATTTTTCACTATTAGAGATACTCTAACCCTATTATTTTTGAGAAGG
1 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGA-AGGG
* * *
2456339 ATACTCTAATCCCGG
65 ATACTCCAACCCCGA
* * * * * * *
2456354 TTTTATTTCTAAAACACCGA-TTTTCACTATCGGGGAT-CTTCTAACCCCATTATTTCTGAAGAG
1 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATAC-TCCAACCCCATTATTTTTGAAGGG
* *
2456417 ATATTCCAACCTCGA
65 ATACTCCAACCCCGA
* * * * * *
2456432 TTTTATTTCTTAAACATCGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCGAGGGGA
1 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAAGGGA
*
2456497 TACTCCAAACCCGA
66 TACTCCAACCCCGA
* * * *
2456511 TTTTATTTCTAAAATA-CTAATTTTTCACCATT-GGGATATTCCAACCCCGTTATTTCTG-AGGA
1 TTTTATTTCTAAAATATC-GATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAAGG-
*
2456573 GATACTCCAACCTC-A
64 GATACTCCAACCCCGA
* * * * * *** *
2456588 GTTTTATTTCTAAAACACCAATTTTTCACTATCGAAAATACTCCAACCCCATTATTTTCG-AGAG
1 -TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAAG-G
* *
2456652 GATACTTCAACCCTGA
64 GATACTCCAACCCCGA
* * *
2456668 TTTTATTTCTAAAATATCGACTTTTCATCGTTGGGGATACT
1 TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACT
2456709 ATAACTCTGT
Statistics
Matches: 349, Mismatches: 75, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
77 3 0.01
78 92 0.26
79 219 0.63
80 35 0.10
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAAGGGA
TACTCCAACCCCGA
Found at i:2456702 original size:157 final size:157
Alignment explanation
Indices: 2456195--2456706 Score: 606
Period size: 157 Copynumber: 3.2 Consensus size: 157
2456185 TCATTGATGT
* *
2456195 TTTTATTTCTAAAATATCGATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTTGAAGG-G
1 TTTTATTTCTAAAATATCGATTTT-CACCATTGGGGATATTCCAACCCCGTTATTTCTG-AGGAG
* * * * * *
2456259 ATACTCCAATCTCGATTTTATTTATAAAATATCGATTTTTCACTAT-TAGAGATACTCTAACCCT
64 ATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTTCACTATCGA-AGATACTCCAACCCC
* * *
2456323 ATTATTTTTGAGAAGGATAC-TCTAATCCCGG
128 ATTATTTTCGAG-AGGATACTTC-AAACCCGA
* * * * * * * *
2456354 TTTTATTTCTAAAACACCGATTTTCACTATCGGGGATCTTCTAACCCCATTATTTCTGAAGAGAT
1 TTTTATTTCTAAAATATCGATTTTCACCATTGGGGATATTCCAACCCCGTTATTTCTGAGGAGAT
* * * *
2456419 ATTCCAACCTCGATTTTATTTCTTAAACATCGATTTTTCACCATCGAGGATACTCCAACCCCATT
66 ACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTTCACTATCGAAGATACTCCAACCCCATT
* *
2456484 ATTTTCGAGGGGATACTCCAAACCCGA
131 ATTTTCGAGAGGATACTTCAAACCCGA
*
2456511 TTTTATTTCTAAAATA-CTAATTTTTCACCATT-GGGATATTCCAACCCCGTTATTTCTGAGGAG
1 TTTTATTTCTAAAATATC-GA-TTTTCACCATTGGGGATATTCCAACCCCGTTATTTCTGAGGAG
* * *
2456574 ATACTCCAACCTC-AGTTTTATTTCTAAAACACCAATTTTTCACTATCGAAAATACTCCAACCCC
64 ATACTCCAACCTCGA-TTTTATTTCTAAAACATCGATTTTTCACTATCGAAGATACTCCAACCCC
2456638 ATTATTTTCGAGAGGATACTTC-AACCCTGA
128 ATTATTTTCGAGAGGATACTTCAAACCC-GA
* *
2456668 TTTTATTTCTAAAATATCGACTTTTCATCGTTGGGGATA
1 TTTTATTTCTAAAATATCGA-TTTTCACCATTGGGGATA
2456707 CTATAACTCT
Statistics
Matches: 298, Mismatches: 46, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
156 7 0.02
157 160 0.54
158 108 0.36
159 23 0.08
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (157 bp):
TTTTATTTCTAAAATATCGATTTTCACCATTGGGGATATTCCAACCCCGTTATTTCTGAGGAGAT
ACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTTCACTATCGAAGATACTCCAACCCCATT
ATTTTCGAGAGGATACTTCAAACCCGA
Found at i:2459663 original size:40 final size:40
Alignment explanation
Indices: 2459608--2459687 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
2459598 GTGAAAAGAA
2459608 AGGAAAAATATACGCGTTACAGTTTTAGTGGCTGTGATAC
1 AGGAAAAATATACGCGTTACAGTTTTAGTGGCTGTGATAC
2459648 AGGAAAAATATACGCGTTACAGTTTTAGTGGCTGTGATAC
1 AGGAAAAATATACGCGTTACAGTTTTAGTGGCTGTGATAC
2459688 CAAAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (40 bp):
AGGAAAAATATACGCGTTACAGTTTTAGTGGCTGTGATAC
Found at i:2460594 original size:12 final size:11
Alignment explanation
Indices: 2460577--2460609 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2460567 TCTTTCCTGA
2460577 GTTTTTGTTTTT
1 GTTTTT-TTTTT
2460589 GTTTTTTTTTT
1 GTTTTTTTTTT
2460600 -TTTTTTTTTT
1 GTTTTTTTTTT
2460610 AATTTGGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 5 0.24
12 6 0.29
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:2461194 original size:3 final size:3
Alignment explanation
Indices: 2461186--2461317 Score: 128
Period size: 3 Copynumber: 44.0 Consensus size: 3
2461176 CCAACGTTTC
2461186 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * *
2461234 ATT ATT ATA ACTT -TG CTG AAG A-C ATT -TT AGGCT ATCT -TT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A--TT AT-T ATT ATT ATT
2461279 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2461318 TTCCCTTCTA
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
2 5 0.04
3 103 0.92
4 2 0.02
5 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2465500 original size:14 final size:14
Alignment explanation
Indices: 2465481--2465509 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2465471 TCTTGATAAA
2465481 AATAAGTTAAAAAT
1 AATAAGTTAAAAAT
2465495 AATAAGTTAAAAAT
1 AATAAGTTAAAAAT
2465509 A
1 A
2465510 TGTAATTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AATAAGTTAAAAAT
Found at i:2465810 original size:45 final size:45
Alignment explanation
Indices: 2465760--2465851 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
2465750 ATTTACTAAG
*
2465760 TAAATTTTAAATAAAAGATTATTAATTATTAACTGTGCATTTTTC
1 TAAATTTTAAATAAAAGATTATTAATTATTAACCGTGCATTTTTC
*
2465805 TAAATTTTAAATAAAAGATTGTTAATTATTAACCGTGCATTTTTC
1 TAAATTTTAAATAAAAGATTATTAATTATTAACCGTGCATTTTTC
2465850 TA
1 TA
2465852 TTTACTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (45 bp):
TAAATTTTAAATAAAAGATTATTAATTATTAACCGTGCATTTTTC
Found at i:2465927 original size:43 final size:43
Alignment explanation
Indices: 2465880--2465968 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
2465870 TTACTTAATG
*
2465880 TTTAATTAAAATT-AATAAGAAT-TTAATTAGTTTTAAAATTATC
1 TTTAATTAAAATTAAATAA-AATGTTAAATA-TTTTAAAATTATC
** * *
2465923 TTTAATTCTAATTAAATTAAATGTTAAATATTTTAAACTTATC
1 TTTAATTAAAATTAAATAAAATGTTAAATATTTTAAAATTATC
2465966 TTT
1 TTT
2465969 TATTTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 29 0.74
44 10 0.26
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (43 bp):
TTTAATTAAAATTAAATAAAATGTTAAATATTTTAAAATTATC
Found at i:2466095 original size:17 final size:18
Alignment explanation
Indices: 2466060--2466108 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
2466050 AATTTTAATG
* *
2466060 ATAAAGAAATTAATTAAA
1 ATAAAGAAATAAATAAAA
2466078 ATAAA-AAATAAATAAAA
1 ATAAAGAAATAAATAAAA
*
2466095 AGGAAAGAAATAAA
1 A-TAAAGAAATAAA
2466109 GCAGAAGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.42
18 8 0.31
19 7 0.27
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (18 bp):
ATAAAGAAATAAATAAAA
Found at i:2466725 original size:24 final size:24
Alignment explanation
Indices: 2466676--2466725 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
2466666 TCCTTATTTC
*
2466676 TTTATTAAAAATTTTAATTAAGTT
1 TTTATTAAAAATTTTAAATAAGTT
2466700 TTTA-TAAAAGATTTTGAAATAA-TT
1 TTTATTAAAA-ATTTT-AAATAAGTT
2466724 TT
1 TT
2466726 CTCAATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTATTAAAAATTTTAAATAAGTT
Found at i:2468975 original size:27 final size:24
Alignment explanation
Indices: 2468945--2469013 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 24
2468935 ATAACTTATT
2468945 AAATATAATTTATTTTAAATTATATAA
1 AAATATAATTTATTTTAAA--A-ATAA
*
2468972 AAATA-AATTATATTTTTAAAATAA
1 AAATATAATT-TATTTTAAAAATAA
2468996 AAATAATATATTTATTTT
1 AAAT-ATA-ATTTATTTT
2469014 TACTAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
24 8 0.22
25 2 0.05
26 11 0.30
27 16 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATATAATTTATTTTAAAAATAA
Found at i:2469021 original size:27 final size:24
Alignment explanation
Indices: 2468968--2469015 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
2468958 TTTAAATTAT
2468968 ATAAAAATAAATTATATTTTTAAA
1 ATAAAAATAAATTATATTTTTAAA
*
2468992 ATAAAAATAATATATTTATTTTTA
1 ATAAAAATAA-AT-TATATTTTTA
2469016 CTAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 2 0.10
26 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAAAATAAATTATATTTTTAAA
Found at i:2469468 original size:16 final size:15
Alignment explanation
Indices: 2469449--2469625 Score: 63
Period size: 16 Copynumber: 12.0 Consensus size: 15
2469439 ATAAAATTAT
2469449 AATTAAGTTAAATTTA
1 AATTAA-TTAAATTTA
2469465 AATT-ATT----TTA
1 AATTAATTAAATTTA
*
2469475 AATTAATT--AGTTA
1 AATTAATTAAATTTA
*
2469488 AATAAATTTAAATTTA
1 AATTAA-TTAAATTTA
2469504 AATT-ATTATGAATTTA
1 AATTAATTA--AATTTA
* *
2469520 AATCAATCAAATTTA
1 AATTAATTAAATTTA
*
2469535 TATTAATTTAAATTT-
1 AATTAA-TTAAATTTA
* *
2469550 AATTATTTTAATTTTA
1 AATTA-ATTAAATTTA
* *
2469566 TATTAA--ATATTTA
1 AATTAATTAAATTTA
*
2469579 AATTTAATTTAATTTA
1 AA-TTAATTAAATTTA
* *
2469595 TTAATTATTTTAA-TTA
1 --AATTAATTAAATTTA
* *
2469611 AATCAAATAAATTTA
1 AATTAATTAAATTTA
2469626 TTAAATCTTT
Statistics
Matches: 120, Mismatches: 23, Indels: 37
0.67 0.13 0.21
Matches are distributed among these distances:
10 7 0.06
11 3 0.03
13 14 0.12
14 18 0.15
15 26 0.22
16 39 0.32
17 11 0.09
18 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTAATTAAATTTA
Found at i:2469623 original size:91 final size:87
Alignment explanation
Indices: 2469437--2469626 Score: 201
Period size: 91 Copynumber: 2.1 Consensus size: 87
2469427 ATGATGGTAA
* *
2469437 AAATAAAATTATAATTAAGTTAAATTTAAATTATTTTAAATTAATTAGTTAAATAAATTTAAATT
1 AAATAAATTTATAATTAAGTTAAATTTAAATTATTTTAAATTAAATAGTTAAATAAATTTAAATT
2469502 TAAATTATTATGAATTTAAATC
66 TAAATTATTATGAATTTAAATC
* * * *
2469524 -AATCAAATTTAT-ATTAATTTAAATTTAATTATTTTAATTTTATATTAAATATTTAAATTTAAT
1 AAAT-AAATTTATAATTAAGTTAAATTTAA--A--TT-ATTTTAAATTAAATAGTTAAA-TAAAT
*
2469587 TT-AATTTATTAATTATT-TTAA-TTAAATC
59 TTAAATTTA--AATTATTATGAATTTAAATC
2469615 AAATAAATTTAT
1 AAATAAATTTAT
2469627 TAAATCTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
86 18 0.21
87 7 0.08
88 1 0.01
90 2 0.02
91 39 0.45
92 12 0.14
93 7 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (87 bp):
AAATAAATTTATAATTAAGTTAAATTTAAATTATTTTAAATTAAATAGTTAAATAAATTTAAATT
TAAATTATTATGAATTTAAATC
Found at i:2469625 original size:47 final size:47
Alignment explanation
Indices: 2469519--2469625 Score: 109
Period size: 47 Copynumber: 2.3 Consensus size: 47
2469509 TTATGAATTT
* *
2469519 AAATC-AATCAAATTTATATTAATTTAA-AT-TTAATTATTTTAATTTT
1 AAATCAAAT-AAATTTAAATTAATTTAATTTATTAATTATTTTAA-TTT
* *
2469565 ATATTAAAT--ATTTAAATTTAATTTAATTTATTAATTATTTTAA-TT
1 AAATCAAATAAATTTAAA-TTAATTTAATTTATTAATTATTTTAATTT
2469610 AAATCAAATAAATTTA
1 AAATCAAATAAATTTA
2469626 TTAAATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
44 6 0.12
45 18 0.37
46 4 0.08
47 21 0.43
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (47 bp):
AAATCAAATAAATTTAAATTAATTTAATTTATTAATTATTTTAATTT
Found at i:2480707 original size:27 final size:27
Alignment explanation
Indices: 2480676--2480829 Score: 175
Period size: 27 Copynumber: 5.6 Consensus size: 27
2480666 CTTTTCAAAA
* * *
2480676 TCCATAACTCCGTGACATCCTTTTGAG
1 TCCACAACTCCGTGGCATCCTTTTAAG
* * ** **
2480703 TCCATAACTTCACGGCATTTTTTTAAAG
1 TCCACAACTCCGTGGCATCCTTTT-AAG
2480731 TCCACAACTCCGTGGCA-CCTTTTTAAAG
1 TCCACAACTCCGTGGCATCC-TTTT-AAG
*
2480759 TCCACAACTCCGTGGCCTCCTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTAAG
2480786 TCCACAACTCCGTGGCATCCTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTAAG
*
2480813 TCCACAACTCTGTGGCA
1 TCCACAACTCCGTGGCA
2480830 GCACCCTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 63 0.58
28 43 0.40
29 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (27 bp):
TCCACAACTCCGTGGCATCCTTTTAAG
Found at i:2480739 original size:28 final size:28
Alignment explanation
Indices: 2480701--2480822 Score: 99
Period size: 28 Copynumber: 4.4 Consensus size: 28
2480691 CATCCTTTTG
* * **
2480701 AGTCCATAACTTCACGGCATTTTTTTAA
1 AGTCCACAACTCCACGGCACCTTTTTAA
**
2480729 AGTCCACAACTCCGTGGCACCTTTTTAA
1 AGTCCACAACTCCACGGCACCTTTTTAA
** *
2480757 AGTCCACAACTCCGTGGC-CTCCTTTT-A
1 AGTCCACAACTCCACGGCAC-CTTTTTAA
**
2480784 AGTCCACAACTCCGTGGCATCC-TTTT-A
1 AGTCCACAACTCCACGGCA-CCTTTTTAA
2480811 AGTCCACAACTC
1 AGTCCACAACTC
2480823 TGTGGCAGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
27 37 0.44
28 46 0.55
29 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (28 bp):
AGTCCACAACTCCACGGCACCTTTTTAA
Found at i:2480787 original size:55 final size:55
Alignment explanation
Indices: 2480666--2480922 Score: 185
Period size: 56 Copynumber: 4.6 Consensus size: 55
2480656 AGTGGCATTT
* * * * * * ** * *
2480666 CTTTTCAAAATCCATAACTCCGTGACATCCTTTTGAGTCCATAACTTCACGGCATT
1 CTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCCTC
*
2480722 TTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTAAAGTCCACAACTCCGTGGCCTC
1 CTTTTAAAGTCCACAACTCCGTGGCATCC-TTTT-AAGTCCACAACTCCGTGGCCTC
* *
2480778 CTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCAGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGC--C-TC
* * * * * * * * ** *
2480835 CTTTTAAAGCCCACAAGTCAGTGGCGTCATTTTAAAGCCCATAAGTCAATGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCCTC
* * * *
2480891 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTT
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTT
2480923 CAAAGCCCAC
Statistics
Matches: 164, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
54 20 0.12
55 46 0.28
56 56 0.34
57 6 0.04
58 22 0.13
59 14 0.09
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (55 bp):
CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCCTC
Found at i:2481032 original size:32 final size:32
Alignment explanation
Indices: 2480984--2481505 Score: 321
Period size: 32 Copynumber: 17.2 Consensus size: 32
2480974 CACTTCAAAA
* * **
2480984 CCCACACAAATCGGTGGCAACTTATTTGAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * *
2481016 CCCACATAAGTTGGTGGCAACCCATTTCAAAA
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
** *
2481048 CCCACACAAGTCAGTGGCAACTCATTTGAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* *
2481080 CCCACACAAGTTGGTGGTAACCCATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
*
2481112 CCCACACAAGTTGGTGGCAACCCATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
*
2481144 CCCACACAAGTTGGTGGTAACCCATTTTG-AAG
1 CCCACACAAGTTGGTGGCAACCCA-TTTGAAAG
2481176 CCCACACAAGTTGGTGGCAACCCATTTCG-AAG
1 CCCACACAAGTTGGTGGCAACCCATTT-GAAAG
* * *
2481208 -CC-CACAAGTTAGTGGC-ATCC-TTTCAAA-
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * ** * * *
2481235 ACC-CACGAGTCAGTGGCAACTCTTTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * * *
2481266 -CC-CACAAGTTAGTGAC-ATCC-TTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * * * *
2481294 CCCGCA-AA-TCGGTGGCAACTCTTTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * * *
2481324 -TC-CACAAGTTAGTGGC-ATCC-TTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* * ** * *
2481352 -CC-CATATGTCAGTGGC-ACCC-TTTCAGAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
** ** *
2481380 -CC-CACAAGTCAGTGGC-A-TTATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
** * *
2481408 -CC-CACAAGTCAGTGGC-A-TCATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
*
2481436 CCCACACAAGTTGGTGGCAACCCATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
* *
2481468 CCCACACAAGTCGGTGGCAACCCATTTCAAAG
1 CCCACACAAGTTGGTGGCAACCCATTTGAAAG
2481500 CCCACA
1 CCCACA
2481506 AGTCAGTGGC
Statistics
Matches: 412, Mismatches: 60, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
28 113 0.27
29 20 0.05
30 61 0.15
31 6 0.01
32 209 0.51
33 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (32 bp):
CCCACACAAGTTGGTGGCAACCCATTTGAAAG
Found at i:2481050 original size:64 final size:64
Alignment explanation
Indices: 2480977--2481505 Score: 405
Period size: 64 Copynumber: 8.7 Consensus size: 64
2480967 GTGGCATCAC
* ** *
2480977 TTCAAAACCCACACAAATCGGTGGCAACTTATTTGAAAGCCCACATAAGTTGGTGGCAACCCAT
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* * *
2481041 TTCAAAACCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGTAACCCAT
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* * * *
2481105 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGTAACCCAT
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
** * * * *
2481169 TTTGAAGCCCACACAAGTTGGTGGCAACCCATTTCG-AAG-CC-CACAAGTTAGTGGC-ATCC-T
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTT-GAAAGCCCACACAAGTTGGTGGCAACCCAT
* * * * * * * *
2481229 TTCAAAA-CC-CACGAGTCAGTGGCAACTCTTTTCAAAG-CC-CACAAGTTAGTGAC-ATCC-T
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* * * * * * * *
2481287 TTCAAAGCCCGCA-AA-TCGGTGGCAACTCTTTTCAAAG-TC-CACAAGTTAGTGGC-ATCC-T
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* * * * * * ** **
2481345 TTC-AAAGCC-CATATGTCAGTGGC-ACCC-TTTCAGAG-CC-CACAAGTCAGTGGC-A-TTAT
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* * * *
2481401 TTC-AAAGCC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
* *
2481461 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACA
1 TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACA
2481506 AGTCAGTGGC
Statistics
Matches: 396, Mismatches: 53, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
55 1 0.00
56 54 0.14
57 10 0.03
58 109 0.28
59 6 0.02
60 12 0.03
61 7 0.02
62 25 0.06
63 3 0.01
64 169 0.43
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (64 bp):
TTCAAAACCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
Found at i:2481254 original size:58 final size:58
Alignment explanation
Indices: 2480787--2482133 Score: 1120
Period size: 58 Copynumber: 23.0 Consensus size: 58
2480777 CCTTTTAAGT
* * * * * * *
2480787 CCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCAGCACCC-TTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA--ACCCATTTCAAAGC
* * * * * *
2480845 CCACAAGTCAGTGGCGTCATTTTAAAGCCCATAAGTCAATGGC-ATCC-TTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* *
2480901 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-A-TCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * ** *
2480957 CCACAAGTCAGTGGCATCAC-TTCAAAACCCACACAAATCGGTGGCAACTTATTTGAAAGC
1 CCACAAGTCAGTGGCATC-CTTTC-AAAGCC-CACAAGTCAGTGGCAACCCATTTCAAAGC
** * * * *
2481017 CCACATAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCAGTGGCAACTCATTTGAAAGCC
1 CCAC--AAGTCAGTGGC-ATCC-TTTC-AAAGCC-CACAAGTCAGTGGCAACCCATTTCAAAG-C
** * * **
2481082 CACACAAGTTGGTGGTAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGG-CATCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACCCATTTCAAAG-C
** * * ** ** *
2481146 CACACAAGTTGGTGGTAACCCATTTTGAAGCCCACACAAGTTGGTGGCAACCCATTTCGAAGC
1 C-CACAAGTCAGTGG-CATCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * *
2481209 CCACAAGTTAGTGGCATCCTTTCAAAACCCACGAGTCAGTGGCAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * * * * *
2481267 CCACAAGTTAGTGACATCCTTTCAAAGCCCGCAAATCGGTGGCAACTCTTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * *
2481325 CCACAAGTTAGTGGCATCCTTTCAAAGCCCATATGTCAGTGGC-ACCC-TTTCAGAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
** *
2481381 CCACAAGTCAGTGGCATTATTTCAAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAGCC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAG-C
** * *
2481438 CACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
1 C-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACCCATTTCAAAGC
** * * * *
2481501 CCACAAGTCAGTGGCATTTTTTCAAAGCCTACGAGTCAGTGGCAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * *
2481559 CCACAAGTCAGTGGCATCATTTCAAAGCCCACGAGTC-GATGGTAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG-TGGCAACCCATTTCAAAGC
* * * * *
2481617 CCACAAGTTAGTGGCATCCTCTCAAAGCCCACAAGTTAGTGGC-ATCC-TCTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * *
2481673 CCACAAGTTAGTGGCACCCTTTCAAAGTCCACAAGTCAGTGGC-ACCC-TTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * *
2481729 CCACAAGTCAGTGGCGCTCTTTTCAAAGCCTACACGAGTCGGTGGCAACCCATTTCAAAGC
1 CCACAAGTCAGTGGC-ATCCTTTCAAAGCC--CACAAGTCAGTGGCAACCCATTTCAAAGC
* ** * *
2481790 CCACAAGTCAGTAGCATCCTTTCAAAGCCCATGAGTCAGTGGCAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * *
2481848 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTC-GATGGTAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG-TGGCAACCCATTTCAAAGC
* * * * * *
2481906 CCACAAATCAGTGGCATCCTTTCAAAGCCCACGAGTC-GATGGTAACTCTTTTCGAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG-TGGCAACCCATTTCAAAGC
* * *
2481964 CCACAAGTCAGT-GCATCCTTTCAAAGCCCACAAGTCAATGAC-ATCC-TTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * *
2482019 CCACAAGTCAGTGGCATTCTTTTCAAAGCCCATAAGTCAATGGC-ATCC-TTTCAAAAC
1 CCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
* * * * *
2482076 CCACAAGTCAGTGGCACCCTTTAAAAGCTCACGCAAGTCGGTGGCAACCCTTTTCAAA
1 CCACAAGTCAGTGGCATCCTTTCAAAGC-C-CACAAGTCAGTGGCAACCCATTTCAAA
2482134 TCACCACTAT
Statistics
Matches: 1095, Mismatches: 154, Indels: 78
0.83 0.12 0.06
Matches are distributed among these distances:
55 22 0.02
56 217 0.20
57 103 0.09
58 416 0.38
59 36 0.03
60 58 0.05
61 28 0.03
62 47 0.04
63 10 0.01
64 153 0.14
65 2 0.00
66 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (58 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGC
Found at i:2481486 original size:292 final size:293
Alignment explanation
Indices: 2480892--2482133 Score: 1354
Period size: 292 Copynumber: 4.2 Consensus size: 293
2480882 AATGGCATCC
* * *
2480892 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-A-TCATTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAA
* * *
2480955 GCCCACAAGTCAGTGGCATCAC-TTCAAAACCCACACAAATCGGTGGCAACT-TATTTGAAAGCC
66 GCCCACAAGTCAGTGGCATC-CTTTC-AAAGCC-CACAAATCGATGGCAACTCT-TTTCAAAGCC
* * * * *
2481018 CACATAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCAGTGGCAACTCATTTGAAAGCCC
127 CAC--AAGTTAGTGGC-ATCC-TTTC-AAAGCC-CACAAGTCAGTGGC-ACTCCTTTCAAAG-CC
** * **
2481083 ACACAAGTTGGTGGTAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCA
184 -CACAAGTCAGTGG-CA-CCATTTCAAAG-CC-CACAAGTCAGTGGC-A-CCATTTCAAAGCCCA
* ** *
2481148 CACAAGTTGGTGGTAACCCATTTTGAAGCCCACACAAGTTGGTGGCAACCCA
242 CACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
2481200 TTTCGAAGCCCACAAGTTAGTGGCATCCTTTCAAAACCCACGAGTCAGTGGCAACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAA
* * * * *
2481265 GCCCACAAGTTAGTGACATCCTTTCAAAGCCCGCAAATCGGTGGCAACTCTTTTCAAAGTCCACA
66 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCGATGGCAACTCTTTTCAAAGCCCACA
* * *
2481330 AGTTAGTGGCATCCTTTCAAAGCCCATATGTCAGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTG
131 AGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTG
** *
2481394 GCATTATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
196 GCACCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
2481459 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
261 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** *
2481492 TTTCAAAGCCCACAAGTCAGTGGCATTTTTTCAAAGCCTACGAGTCAGTGGCAACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAA
* * * *
2481557 GCCCACAAGTCAGTGGCATCATTTCAAAGCCCACGAGTCGATGGTAACTCTTTTCAAAGCCCACA
66 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCGATGGCAACTCTTTTCAAAGCCCACA
* * * *
2481622 AGTTAGTGGCATCCTCTCAAAGCCCACAAGTTAGTGGCA-TCCTCTCAAAGCCCACAAGTTAGTG
131 AGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTG
* * * * ** * *
2481686 GCACCCTTTCAAAGTCCACAAGTCAGTGGCACCCTTTCAAAG-TC-CACAAGTCAGTGGC-GCTC
196 GCACCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
* * *
2481748 TTTTCAAAGCCTACACGAGTCGGTGGCAACCCA
261 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
2481781 TTTCAAAGCCCACAAGTCAGTAGCATCCTTTCAAAGCCCATGAGTCAGTGGCAACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAA
* * * *
2481846 GCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGATGGTAACTCTTTTCAAAGCCCACA
66 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCGATGGCAACTCTTTTCAAAGCCCACA
* * * * * *
2481911 AATCAGTGGCATCCTTTCAAAGCCCACGAGTC-GATGGTAACTCTTTTCGAAGCCCACAAGTCAG
131 AGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG-TGG-CACTCCTTTCAAAGCCCACAAGTCAG
* * **
2481975 T-GCATCC-TTTCAAAGCCCACAAGTCAATGACATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-
194 TGGCA-CCATTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACACAAGTTGGTGGCA
** * * ** *
2482034 ATTCTTTTCAAAG-CC-CATAAGTCAATGGC-ATCC-
257 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * * *
2482067 TTTCAAAACCCACAAGTCAGTGGCACCCTTTAAAAGCTCACGCAAGTCGGTGGCAACCCTTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACG--AGTCAGTGGCAACTCTTTTCA
2482132 AA
64 AA
2482134 TCACCACTAT
Statistics
Matches: 817, Mismatches: 105, Indels: 44
0.85 0.11 0.05
Matches are distributed among these distances:
286 36 0.04
287 3 0.00
288 32 0.04
289 186 0.23
290 72 0.09
291 25 0.03
292 269 0.33
293 1 0.00
294 12 0.01
295 2 0.00
296 9 0.01
297 1 0.00
298 11 0.01
299 2 0.00
300 7 0.01
301 2 0.00
302 12 0.01
303 5 0.01
304 4 0.00
305 3 0.00
306 10 0.01
308 75 0.09
309 8 0.01
310 30 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (293 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACTCTTTTCAAA
GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAATCGATGGCAACTCTTTTCAAAGCCCACA
AGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTG
GCACCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:2482096 original size:28 final size:28
Alignment explanation
Indices: 2480830--2482133 Score: 953
Period size: 28 Copynumber: 44.5 Consensus size: 28
2480820 CTCTGTGGCA
*
2480830 GCACCCTTTTAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
** * * * *
2480858 GCGTCATTTTAAAGCCCATAAGTCAATG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2480886 GCATCCTTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2480914 GCATCCTTTCAAAGCCCACAAGTTAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2480942 GCATCATTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * * *
2480970 GCATCAC-TTCAAAACCCACACAAATCGGTG
1 GCA-CCCTTTC-AAAGCC-CACAAGTCAGTG
** * **
2481000 GCAACTTATTTGAAAGCCCACATAAGTTGGTG
1 GC-AC-CCTTTCAAAGCCCAC--AAGTCAGTG
*
2481032 GCAACCCATTTCAAAACCCACACAAGTCAGTG
1 GC-ACCC-TTTC-AAAGCC-CACAAGTCAGTG
* * **
2481064 GCAACTCATTTGAAAGCCCACACAAGTTGGTG
1 GC-AC-CCTTTCAAAG-CC-CACAAGTCAGTG
* **
2481096 GTAACCCATTTCAAAGCCCACACAAGTTGGTG
1 G-CACCC-TTTCAAAG-CC-CACAAGTCAGTG
**
2481128 GCAACCCATTTCAAAGCCCACACAAGTTGGTG
1 GC-ACCC-TTTCAAAG-CC-CACAAGTCAGTG
* ** **
2481160 GTAACCCATTTTGAAGCCCACACAAGTTGGTG
1 G-CACCC-TTTCAAAG-CC-CACAAGTCAGTG
* *
2481192 GCAACCCATTTCGAAGCCCACAAGTTAGTG
1 GC-ACCC-TTTCAAAGCCCACAAGTCAGTG
* * *
2481222 GCATCCTTTCAAAACCCACGAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2481250 GCAACTCTTTTCAAAGCCCACAAGTTAGTG
1 GC-AC-CCTTTCAAAGCCCACAAGTCAGTG
* * * * *
2481280 ACATCCTTTCAAAGCCCGCAAATCGGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * *
2481308 GCAACTCTTTTCAAAGTCCACAAGTTAGTG
1 GC-AC-CCTTTCAAAGCCCACAAGTCAGTG
* * *
2481338 GCATCCTTTCAAAGCCCATATGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2481366 GCACCCTTTCAGAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
***
2481394 GCATTATTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * **
2481422 GCATCATTTCAAAGCCCACACAAGTTGGTG
1 GCACCCTTTCAAAG-CC-CACAAGTCAGTG
*
2481452 GCAACCCATTTCAAAGCCCACACAAGTCGGTG
1 GC-ACCC-TTTCAAAG-CC-CACAAGTCAGTG
2481484 GCAACCCATTTCAAAGCCCACAAGTCAGTG
1 GC-ACCC-TTTCAAAGCCCACAAGTCAGTG
*** * *
2481514 GCATTTTTTCAAAGCCTACGAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2481542 GCAACTCTTTTCAAAGCCCACAAGTCAGTG
1 GC-AC-CCTTTCAAAGCCCACAAGTCAGTG
* * *
2481572 GCATCATTTCAAAGCCCACGAGTC-GATG
1 GCACCCTTTCAAAGCCCACAAGTCAG-TG
* * *
2481600 GTAACTCTTTTCAAAGCCCACAAGTTAGTG
1 G-CAC-CCTTTCAAAGCCCACAAGTCAGTG
* * *
2481630 GCATCCTCTCAAAGCCCACAAGTTAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * *
2481658 GCATCCTCTCAAAGCCCACAAGTTAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2481686 GCACCCTTTCAAAGTCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
*
2481714 GCACCCTTTCAAAGTCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * * *
2481742 GCGCTCTTTTCAAAGCCTACACGAGTCGGTG
1 GCAC-CCTTTCAAAGCC--CACAAGTCAGTG
*
2481773 GCAACCCATTTCAAAGCCCACAAGTCAGTA
1 GC-ACCC-TTTCAAAGCCCACAAGTCAGTG
* **
2481803 GCATCCTTTCAAAGCCCATGAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2481831 GCAACTCTTTTCAAAGCCCACAAGTTAGTG
1 GC-AC-CCTTTCAAAGCCCACAAGTCAGTG
* *
2481861 GCATCCTTTCAAAGCCCACGAGTC-GATG
1 GCACCCTTTCAAAGCCCACAAGTCAG-TG
* * *
2481889 GTAACTCTTTTCAAAGCCCACAAATCAGTG
1 G-CAC-CCTTTCAAAGCCCACAAGTCAGTG
* *
2481919 GCATCCTTTCAAAGCCCACGAGTC-GATG
1 GCACCCTTTCAAAGCCCACAAGTCAG-TG
* * *
2481947 GTAACTCTTTTCGAAGCCCACAAGTCAGT-
1 G-CAC-CCTTTCAAAGCCCACAAGTCAGTG
* *
2481976 GCATCCTTTCAAAGCCCACAAGTCAATG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* *
2482004 ACATCCTTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * * *
2482032 GCATTCTTTTCAAAGCCCATAAGTCAATG
1 GCA-CCCTTTCAAAGCCCACAAGTCAGTG
* *
2482061 GCATCCTTTCAAAACCCACAAGTCAGTG
1 GCACCCTTTCAAAGCCCACAAGTCAGTG
* * *
2482089 GCACCCTTTAAAAGCTCACGCAAGTCGGTG
1 GCACCCTTTCAAAGC-C-CACAAGTCAGTG
2482119 GCAACCCTTTTCAAA
1 GC-ACCC-TTTCAAA
2482134 TCACCACTAT
Statistics
Matches: 1047, Mismatches: 176, Indels: 102
0.79 0.13 0.08
Matches are distributed among these distances:
27 23 0.02
28 496 0.47
29 64 0.06
30 221 0.21
31 36 0.03
32 198 0.19
33 6 0.01
34 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (28 bp):
GCACCCTTTCAAAGCCCACAAGTCAGTG
Found at i:2482308 original size:49 final size:49
Alignment explanation
Indices: 2482184--2482317 Score: 216
Period size: 49 Copynumber: 2.8 Consensus size: 49
2482174 GGCACCTTTA
* * *
2482184 TTAGCCCAATGTCACTGGCCTTGAATCAACACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
* *
2482233 TTAGCCCAATGTGGCTGGCCTTGAATTAGCAAATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
2482282 TTAGCCCAATGTCGCTGGCCTTGAATT-GCACATTGG
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGG
2482318 CACTCCTTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
48 8 0.10
49 70 0.90
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (49 bp):
TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
Found at i:2482713 original size:20 final size:20
Alignment explanation
Indices: 2482688--2482742 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2482678 AAGTACCCAG
*
2482688 ATGTATCGATACATAT-ATGA
1 ATGTATCGATACAT-TCATCA
*
2482708 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCATCA
2482728 ATGTATCGATACATT
1 ATGTATCGATACATT
2482743 TTATCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCATCA
Found at i:2484959 original size:24 final size:25
Alignment explanation
Indices: 2484927--2484977 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
2484917 CAAAATTTTT
2484927 ATTCATCC-GGGATACTCCAACCCC
1 ATTCATCCAGGGATACTCCAACCCC
*
2484951 ATTCCTCCGAAGGGATACTCCAACCCC
1 ATTCATCC--AGGGATACTCCAACCCC
2484978 GCTTTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
27 16 0.70
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.20
Consensus pattern (25 bp):
ATTCATCCAGGGATACTCCAACCCC
Found at i:2487784 original size:19 final size:19
Alignment explanation
Indices: 2487762--2487802 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2487752 TCAAGATAAC
*
2487762 CCAAATGAACAAGCGAATG
1 CCAAATGAACAAGCAAATG
2487781 CCAAATGAACAAGCAAATG
1 CCAAATGAACAAGCAAATG
2487800 CCA
1 CCA
2487803 TTGGAGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (19 bp):
CCAAATGAACAAGCAAATG
Found at i:2490188 original size:31 final size:31
Alignment explanation
Indices: 2490150--2490208 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
2490140 TATCTCCAAA
2490150 GGGTATTGAGGTTGATAAATCAAAAATAGAT
1 GGGTATTGAGGTTGATAAATCAAAAATAGAT
2490181 GGGTATTGAGGTTGATAAATCAAAAATA
1 GGGTATTGAGGTTGATAAATCAAAAATA
2490209 AATGTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.29
Consensus pattern (31 bp):
GGGTATTGAGGTTGATAAATCAAAAATAGAT
Found at i:2492030 original size:26 final size:25
Alignment explanation
Indices: 2491990--2492057 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 25
2491980 ATTTGCTTCG
*
2491990 AAAAAAAAAAG-AAAATGAAAAGTA
1 AAAAAAAAAAGAAAAAAGAAAAGTA
* *
2492014 AAAAAAAAAGAGCAAAAAAGAAAATTG
1 AAAAAAAAA-AG-AAAAAAGAAAAGTA
**
2492041 AAAAAAAATTGAAAAAA
1 AAAAAAAAAAGAAAAAA
2492058 AGTGAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 9 0.25
25 8 0.22
26 1 0.03
27 18 0.50
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAAAGAAAAGTA
Found at i:2492047 original size:10 final size:10
Alignment explanation
Indices: 2492034--2492070 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
2492024 AGCAAAAAAG
2492034 AAAATTGAAAA
1 AAAATTG-AAA
2492045 AAAATTGAAA
1 AAAATTGAAA
*
2492055 AAAAGTGAAA
1 AAAATTGAAA
2492065 AAAATT
1 AAAATT
2492071 TATTTAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (10 bp):
AAAATTGAAA
Found at i:2492066 original size:11 final size:11
Alignment explanation
Indices: 2492029--2492068 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2492019 AAAAGAGCAA
2492029 AAAAGAAAATTG
1 AAAA-AAAATTG
2492041 AAAAAAAATTG
1 AAAAAAAATTG
*
2492052 -AAAAAAAGTG
1 AAAAAAAATTG
2492062 AAAAAAA
1 AAAAAAA
2492069 TTTATTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:2492938 original size:23 final size:23
Alignment explanation
Indices: 2492902--2492966 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
2492892 TTAAATAGAC
* *
2492902 CATGGGCACACTCTATGGGCAAA
1 CATGGGCACGCTCTATAGGCAAA
**
2492925 TGTGGGCACGCTCTATAGGCAAA
1 CATGGGCACGCTCTATAGGCAAA
* *
2492948 CATGGGCACGGTTTATAGG
1 CATGGGCACGCTCTATAGG
2492967 TAGTCAACTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (23 bp):
CATGGGCACGCTCTATAGGCAAA
Found at i:2499315 original size:52 final size:52
Alignment explanation
Indices: 2499230--2499354 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2499220 ATATGAAAAG
* *
2499230 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATACTGTATCGATACATCTGGGCAAAT
*
2499282 TTGCCTGCATGTATCGATACATTTTATACTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATACTGTATCGATACATCTGGGCAAAT
2499334 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2499355 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATACTGTATCGATACATCTGGGCAAAT
Found at i:2499367 original size:52 final size:51
Alignment explanation
Indices: 2499230--2499374 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2499220 ATATGAAAAG
*
2499230 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2499282 TTGCCTGCATGTATCGATACATTTTATACTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2499334 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2499375 ATGCATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2499469 original size:13 final size:13
Alignment explanation
Indices: 2499451--2499475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2499441 ACAAAAAAAA
2499451 TGTATCGATACAT
1 TGTATCGATACAT
2499464 TGTATCGATACA
1 TGTATCGATACA
2499476 ACATTTTATG
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:2506004 original size:13 final size:13
Alignment explanation
Indices: 2505986--2506107 Score: 82
Period size: 13 Copynumber: 8.0 Consensus size: 13
2505976 CATTTTGGGA
2505986 TGTATCGATACAT
1 TGTATCGATACAT
2505999 TGTATCGATACATCTTGT
1 TGTATCGATACA-----T
2506017 GTGTATCGATACAT
1 -TGTATCGATACAT
2506031 TGTATCGATACATCTTGT
1 TGTATCGATACA-----T
2506049 GTGTATCGATACAT
1 -TGTATCGATACAT
2506063 TGTATCGATACATCTTGT
1 TGTATCGATACA-----T
2506081 GTGTATCGATACAT
1 -TGTATCGATACAT
2506095 TGTATCGATACAT
1 TGTATCGATACAT
2506108 CTTGTGTGTA
Statistics
Matches: 91, Mismatches: 0, Indels: 36
0.72 0.00 0.28
Matches are distributed among these distances:
13 49 0.54
14 3 0.03
18 3 0.03
19 36 0.40
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2506023 original size:19 final size:19
Alignment explanation
Indices: 2505999--2506125 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2505989 ATCGATACAT
2505999 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2506018 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
2506031 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2506050 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
2506063 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2506082 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
2506095 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2506114 TGTATCGATACA
1 TGTATCGATACA
2506126 AACAGTTAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 36
0.71 0.00 0.29
Matches are distributed among these distances:
13 36 0.40
14 3 0.03
18 3 0.03
19 48 0.53
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTGTG
Found at i:2506027 original size:32 final size:32
Alignment explanation
Indices: 2505966--2506125 Score: 284
Period size: 32 Copynumber: 5.0 Consensus size: 32
2505956 TACAAGCCAA
* * *
2505966 TGTATCAATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGTG-TGTATCGATACAT
2505999 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
2506031 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
2506063 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
2506095 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
2506126 AACAGTTAAG
Statistics
Matches: 124, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 108 0.87
33 16 0.13
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:2506968 original size:21 final size:21
Alignment explanation
Indices: 2506944--2506984 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2506934 GATAGGTCTA
*
2506944 AATGTTTTTCAAGTATAAATC
1 AATGTTTTTCAAGTAAAAATC
2506965 AATGTTTTTCAAGTAAAAAT
1 AATGTTTTTCAAGTAAAAAT
2506985 ACATGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
AATGTTTTTCAAGTAAAAATC
Found at i:2507101 original size:13 final size:13
Alignment explanation
Indices: 2507083--2507107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2507073 CACACCCAGA
2507083 TGTATCGATACAT
1 TGTATCGATACAT
2507096 TGTATCGATACA
1 TGTATCGATACA
2507108 ACTTGCTTTG
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:2507231 original size:20 final size:21
Alignment explanation
Indices: 2507186--2507242 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
2507176 ATGCCGATAT
2507186 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATGATTAA
* *
2507207 ATTGTATTGATACATGA-TGA
1 ATTGTATCGATACATGATTAA
*
2507227 ATTGTATCAATACATG
1 ATTGTATCGATACATG
2507243 TGGCCCAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATGATTAA
Found at i:2507731 original size:35 final size:34
Alignment explanation
Indices: 2507685--2507843 Score: 138
Period size: 35 Copynumber: 4.9 Consensus size: 34
2507675 AGTGATTGAG
2507685 AGGTTCTATCTTAGCTTTTGTAAAAGATAGAGAAT
1 AGGTTCTATCTTAGCTTTTG-AAAAGATAGAGAAT
*
2507720 AGGTTCTATCTTAG-TCTATGAAAAGAT--AG--T
1 AGGTTCTATCTTAGCT-TTTGAAAAGATAGAGAAT
* * * *
2507750 AGGTTTTATCTTAGCCTTTGAAAAAGATAGGGAAG
1 AGGTTCTATCTTAGCTTTTG-AAAAGATAGAGAAT
** *
2507785 AGGTTCTATCTTAGCTTGCGAAAAGATAG-G--G
1 AGGTTCTATCTTAGCTTTTGAAAAGATAGAGAAT
* *
2507816 AGGTTTTATCTTAGCCTTT-AAAAGATAG
1 AGGTTCTATCTTAGCTTTTGAAAAGATAG
2507844 TGTTGTAAGA
Statistics
Matches: 103, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
30 26 0.25
31 23 0.22
32 2 0.02
33 2 0.02
34 17 0.17
35 33 0.32
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (34 bp):
AGGTTCTATCTTAGCTTTTGAAAAGATAGAGAAT
Found at i:2507775 original size:65 final size:64
Alignment explanation
Indices: 2507684--2507843 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 64
2507674 AAGTGATTGA
* * *
2507684 GAGGTTCTATCTTAGCTTTTGTAAAAGATAGAGAATAGGTTCTATCTTAGTCTAT-GAAAAGATA
1 GAGGTTTTATCTTAGCCTTTG-AAAAGATAGAGAAGAGGTTCTATCTTAG-CT-TCGAAAAGATA
2507748 -G
63 GG
* *
2507749 TAGGTTTTATCTTAGCCTTTGAAAAAGATAGGGAAGAGGTTCTATCTTAGCTTGCGAAAAGATAG
1 GAGGTTTTATCTTAGCCTTTG-AAAAGATAGAGAAGAGGTTCTATCTTAGCTT-CGAAAAGATAG
2507814 G
64 G
2507815 GAGGTTTTATCTTAGCCTTT-AAAAGATAG
1 GAGGTTTTATCTTAGCCTTTGAAAAGATAG
2507844 TGTTGTAAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 11 0.13
65 53 0.62
66 20 0.24
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (64 bp):
GAGGTTTTATCTTAGCCTTTGAAAAGATAGAGAAGAGGTTCTATCTTAGCTTCGAAAAGATAGG
Found at i:2507864 original size:66 final size:63
Alignment explanation
Indices: 2507739--2507865 Score: 150
Period size: 66 Copynumber: 1.9 Consensus size: 63
2507729 CTTAGTCTAT
* * *
2507739 GAAAAGATAGTAGGTTTTATCTTAGCCTTTGAAAAAGATAGGGAAGAGGTTCTATCTTAGCTTGC
1 GAAAAGATAGGAGGTTTTATCTTAGCCTTT-AAAAAGATAGGGAAGA-GTTATACCTTAGCTTGC
2507804 GAAAAGATAGGGAGGTTTTATCTTAGCCTTT-AAAAGATAGTGTTGTAAGA-TTATACCTTAGC
1 GAAAAGATA-GGAGGTTTTATCTTAGCCTTTAAAAAGATAG-G--G-AAGAGTTATACCTTAGC
2507866 CTCAAAGGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
64 9 0.17
65 10 0.19
66 30 0.56
67 1 0.02
68 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (63 bp):
GAAAAGATAGGAGGTTTTATCTTAGCCTTTAAAAAGATAGGGAAGAGTTATACCTTAGCTTGC
Found at i:2510891 original size:13 final size:13
Alignment explanation
Indices: 2510873--2510897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2510863 TTTTACTATG
2510873 TATCGATACAATA
1 TATCGATACAATA
2510886 TATCGATACAAT
1 TATCGATACAAT
2510898 GTCCCATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:2514507 original size:252 final size:252
Alignment explanation
Indices: 2514057--2514565 Score: 858
Period size: 252 Copynumber: 2.0 Consensus size: 252
2514047 CCCTTGGTGT
* *
2514057 AAAAGCGGACCCGGTGGTTATTTAGGATTAAGCTCTAAGAAAAATCTAAAACATTCCTAACATTT
1 AAAAGCGGACCCGGTGGTTATTTAAGACTAAGCTCTAAGAAAAATCTAAAACATTCCTAACATTT
*
2514122 ATCATTGACACTAAGGGACTCGATAACAGCTTAGAACTCGATTAAGTTATCCTTGAAGCTTACCA
66 ATCATTGACACTAAGAGACTCGATAACAGCTTAGAACTCGATTAAGTTATCCTTGAAGCTTACCA
* *
2514187 TTGACACTAAGGCACCAGGAAAATCTAAAGGGCTAAGTTTAAAGAAAATTAAAAAAATGCCCTTA
131 TTGACACTAAGGCACCAGGAAAATCTAAAGGGCTAAGTTTAAAGAAAAATAAAAAAATGCCATTA
*
2514252 GAGAATACTTTTGATGTAAAAGTACCTAATACCCCTAAAGGACTTAAAAAGGACTAA
196 GAGAATACTTTTGACGTAAAAGTACCTAATACCCCTAAAGGACTTAAAAAGGACTAA
* * *
2514309 AAAAGCGGACCTGGTGGTTATTTAAGACTAAGCTCTAAGAAAAATCTAAAATATTCCTAACGTTT
1 AAAAGCGGACCCGGTGGTTATTTAAGACTAAGCTCTAAGAAAAATCTAAAACATTCCTAACATTT
2514374 ATCATTGACACTAAGAGACTCGATAACAGCTTAGAACTCGATTAAGTTATCCTTGAAGCTTACCA
66 ATCATTGACACTAAGAGACTCGATAACAGCTTAGAACTCGATTAAGTTATCCTTGAAGCTTACCA
* * *
2514439 TTGACACTAAGGCACTAGGTAAATCTAAAGGGCTAAGTTT-AAGAAAAATAACGAAAATGCCATT
131 TTGACACTAAGGCACCAGGAAAATCTAAAGGGCTAAGTTTAAAGAAAAATAA-AAAAATGCCATT
* * * *
2514503 AGAGAATACTTTTGACGTAAAAGTACTTGATACCCCTAAAGGACTTAAAAAGGAGTAG
195 AGAGAATACTTTTGACGTAAAAGTACCTAATACCCCTAAAGGACTTAAAAAGGACTAA
2514561 AAAAG
1 AAAAG
2514566 GGATGGACCT
Statistics
Matches: 240, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
251 10 0.04
252 230 0.96
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (252 bp):
AAAAGCGGACCCGGTGGTTATTTAAGACTAAGCTCTAAGAAAAATCTAAAACATTCCTAACATTT
ATCATTGACACTAAGAGACTCGATAACAGCTTAGAACTCGATTAAGTTATCCTTGAAGCTTACCA
TTGACACTAAGGCACCAGGAAAATCTAAAGGGCTAAGTTTAAAGAAAAATAAAAAAATGCCATTA
GAGAATACTTTTGACGTAAAAGTACCTAATACCCCTAAAGGACTTAAAAAGGACTAA
Found at i:2514780 original size:157 final size:155
Alignment explanation
Indices: 2514502--2515252 Score: 714
Period size: 156 Copynumber: 4.8 Consensus size: 155
2514492 AAAATGCCAT
* * * ** * * *
2514502 TAGAGAATACTTTTGACGTAAAAGTA-CTTGATACCCCTAAAGGACTTAAAAAGGAGTAGAAAAG
1 TAGAGGATACTTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAA-GACTAGAAATG
* * * * * *
2514566 GGATGGACCTATCCTAAATGCCCACCTTTGGCATAAAAGCAGACCCAGG-GATGACCTAGGAGTT
65 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGGCCC-GGTGATAACCTAGGACTT
*
2514630 GATTCTAGAAAATTATC-AAAATGCCCC
129 GATTCTAGAAAATTA-CAAAAATACCCC
* *
2514657 TAGGGGTATACTTTCGATGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAATG
1 TAGAGG-ATACTTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAATG
* * * *
2514722 GTGATGAACCTATCCTAAATGCCCACTTTCGGCATAAAAGTAGGCTCGGTGACAACCTAAGACTT
65 G-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGGCCCGGTGATAACCTAGGACTT
* ** *
2514787 GGTTCTAAGAAGAATTATGAAGATACCCC
129 GATTCT-AGAA-AATTACAAAAATACCCC
* * * *
2514816 TAGGGGATACCTTCGACGTGAAAGTATCTC-G-ATACCTCTAAAGGACTTAAAACAGACTATAAA
1 TAGAGGATACTTTCGACGTAAAAGTATCTCGGCA-ACC-CTAAAGGACTTAAAA-AGACTAGAAA
* * *
2514879 AGGGATGAACCTATCCTAAATGCCCACCTTCGGTATAAAAGT-GGACCTGGTGATAACCTAGGAC
63 TGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGG-CCCGGTGATAACCTAGGAC
* * *
2514943 TCG-TTCTAAAAAATTACAAAAATACCCA
127 TTGATTCTAGAAAATTACAAAAATACCCC
* * * * * * * * *
2514971 TAAATGATACATTCGACATGAAAGCATC-CTGGTACCCCTAACGGACTTAAAAAGGACTAGAAAT
1 TAGAGGATACTTTCGACGTAAAAGTATCTC-GGCAACCCTAAAGGACTTAAAAA-GACTAGAAAT
* ** * *
2515035 GGTGATGAACCTATCCTAAATGCCCACCTTCGGTATAAAAGTATACTCGGTGATAACTTAGGACT
64 GG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGGCCCGGTGATAACCTAGGACT
* * **
2515100 CGATTCTA-AAAATTACAAAAATGCCTT
128 TGATTCTAGAAAATTACAAAAATACCCC
* * * * *
2515127 TATAGGTATACCTTT-GATGTAAAAGTATCCCGGCAAACCTAAAGGACTTAAAAAGACTAGAGAT
1 TAGAGG-ATA-CTTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAAT
* * * *
2515191 GGGATGAACCTATCCTAAATGCCTACCTTCGGCTTAAAAAT-GGACCCGGTGATGACCTAGGA
64 GGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGG-CCCGGTGATAACCTAGGA
2515253 GTTGGTTTTG
Statistics
Matches: 494, Mismatches: 80, Indels: 44
0.80 0.13 0.07
Matches are distributed among these distances:
154 2 0.00
155 113 0.23
156 126 0.26
157 125 0.25
158 98 0.20
159 30 0.06
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (155 bp):
TAGAGGATACTTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAATGG
GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTAGGCCCGGTGATAACCTAGGACTTGA
TTCTAGAAAATTACAAAAATACCCC
Found at i:2514889 original size:158 final size:160
Alignment explanation
Indices: 2514516--2515259 Score: 683
Period size: 157 Copynumber: 4.8 Consensus size: 160
2514506 GAATACTTTT
* * *
2514516 GACGTAAAAGTA-CT-TGATACCCCTAAAGGACTTAAAAAGGAGTAGAAAAGG-GATGGACCTAT
1 GACGTAAAAGTATCTCGGATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTGATGAACCTAT
* * * * * *
2514578 CCTAAATGCCCACCTTTGGCATAAAAGCAGACCCAGG-GATGACCTAGGAGTTGATTCT-AGAAA
66 CCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTTCTAAGAAA
* * *
2514641 ATTATCAAAATGCCCCTAGGGGTATACTTTC
131 ATTATAAAAATACCCCTAGGGG-ATACATTC
* *
2514672 GATGTAAAAGTATCTCGGCA-A-CCCTAAAGGACTTAAAAA-GACTAGAAATGGTGATGAACCTA
1 GACGTAAAAGTATCTCGG-ATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTGATGAACCTA
* * * *
2514734 TCCTAAATGCCCACTTTCGGCATAAAAGTAGGCTC-GGTGACAACCTAAGACTTGGTTCTAAGAA
65 TCCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTTCTAAGAA
* * *
2514798 GAATTATGAAGATACCCCTAGGGGATACCTTC
130 -AATTATAAAAATACCCCTAGGGGATACATTC
* * *
2514830 GACGTGAAAGTATCTC-GATACCTCTAAAGGACTTAAAACA-GACTATAAAAGG-GATGAACCTA
1 GACGTAAAAGTATCTCGGATACCCCTAAAGGACTTAAAA-AGGACTAGAAAAGGTGATGAACCTA
* * * *
2514892 TCCTAAATGCCCACCTTCGGTATAAAAGTGGAC-CTGGTGATAACCTAGGAC-TCGTTCTAA-AA
65 TCCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTTCTAAGAA
* * ***
2514954 AATTACAAAAATACCCATAAATGATACATTC
130 AATTATAAAAATACCCCTAGGGGATACATTC
* * * * *
2514985 GACATGAAAGCATC-CTGG-TACCCCTAACGGACTTAAAAAGGACTAGAAATGGTGATGAACCTA
1 GACGTAAAAGTATCTC-GGATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTGATGAACCTA
* * * * *
2515048 TCCTAAATGCCCACCTTCGGTATAAAAGTATACTC-GGTGATAACTTAGGACTCGATTCT-A-AA
65 TCCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTTCTAAGAA
* * ** * * * *
2515110 AATTACAAAAATGCCTTTATAGGTATACCTTT
130 AATTATAAAAATACCCCTA-GGGGATACATTC
* * * * *
2515142 GATGTAAAAGTATCCCGGCA-A-ACCTAAAGGACTTAAAAA-GACTAGAGATGG-GATGAACCTA
1 GACGTAAAAGTATCTCGG-ATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTGATGAACCTA
* * * * * * *
2515203 TCCTAAATGCCTACCTTCGGCTTAAAAATGGAC-CCGGTGATGACCTAGGAGTTGGTT
65 TCCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTT
2515260 TTGTAACAAA
Statistics
Matches: 489, Mismatches: 77, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
154 3 0.01
155 117 0.24
156 113 0.23
157 126 0.26
158 98 0.20
159 32 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (160 bp):
GACGTAAAAGTATCTCGGATACCCCTAAAGGACTTAAAAAGGACTAGAAAAGGTGATGAACCTAT
CCTAAATGCCCACCTTCGGCATAAAAGTAGACTCAGGTGATAACCTAGGACTTGGTTCTAAGAAA
ATTATAAAAATACCCCTAGGGGATACATTC
Found at i:2516249 original size:161 final size:157
Alignment explanation
Indices: 2516031--2516444 Score: 542
Period size: 161 Copynumber: 2.6 Consensus size: 157
2516021 TAATGGATAG
* * * *
2516031 TTATTTATATTCGAAAAAAAATCATTTCATATTTAATGGATACCCGAAAAGATACGAAAAGTTTT
1 TTATTTATTTTTG-AAAAAAATCATTTCATACTTAATGGATA-CCAAAAAGATACGAAAAGTTTT
* * *
2516096 TGAAATCTTTTATACCCCTATGGATACCCATAAGAATATAAAAGA-TTAAGAAATGATTAATGTT
64 TGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTTAA-AAATGATCAATATT
2516160 TCTTGTAATTAACGAGGAGTGAATTTAATA
128 TCTTGTAATTAACGAGGAGTGAATTTAATA
* ** *
2516190 TTATTTATTTATTTTAAAAAAATCATTTTGTACTATAATAGATATCCAAAAAGATACGAAAAGTT
1 TTATTTA-TT-TTTGAAAAAAATCATTTCATACT-TAATGGATA-CCAAAAAGATACGAAAAGTT
* * * * **
2516255 TTTGAAATCATTTATACCCCTACGAACACCTATGGGAATATAAAAGATTTAAAAATGATCAATAT
62 TTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTTAAAAATGATCAATAT
*
2516320 TTGTTGTAATTAACGAGGAGTGAATTTAATA
127 TTCTTGTAATTAACGAGGAGTGAATTTAATA
*
2516351 TTATTTATTTTTGAAAAAAATCATTTCCTACCTTAATGGATACCTGAAAAAGATACGAAAAGTTT
1 TTATTTATTTTTGAAAAAAATCATTTCATA-CTTAATGGATACC--AAAAAGATACGAAAAGTTT
* *
2516416 TTGAAATCTTCTATACCCCCACGGATACC
63 TTGAAATCTTTTATACCCCTACGGATACC
2516445 TATGGGAATA
Statistics
Matches: 220, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
158 2 0.01
159 33 0.15
160 64 0.29
161 117 0.53
162 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (157 bp):
TTATTTATTTTTGAAAAAAATCATTTCATACTTAATGGATACCAAAAAGATACGAAAAGTTTTTG
AAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTTAAAAATGATCAATATTTCT
TGTAATTAACGAGGAGTGAATTTAATA
Found at i:2517251 original size:11 final size:11
Alignment explanation
Indices: 2517235--2517275 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2517225 TTTCAGCAAG
2517235 GAGAAAAAAGA
1 GAGAAAAAAGA
*
2517246 GAGAAAAAAGT
1 GAGAAAAAAGA
*
2517257 GA-AAAAATGA
1 GAGAAAAAAGA
2517267 GAGAAAAAA
1 GAGAAAAAA
2517276 ATATAATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (11 bp):
GAGAAAAAAGA
Found at i:2517268 original size:21 final size:20
Alignment explanation
Indices: 2517237--2517275 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2517227 TCAGCAAGGA
2517237 GAAAAAAGAGAGAAAAAAGT
1 GAAAAAAGAGAGAAAAAAGT
2517257 GAAAAAATGAGAGAAAAAA
1 GAAAAAA-GAGAGAAAAAA
2517276 ATATAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
GAAAAAAGAGAGAAAAAAGT
Found at i:2518430 original size:162 final size:162
Alignment explanation
Indices: 2518147--2518719 Score: 588
Period size: 162 Copynumber: 3.5 Consensus size: 162
2518137 AAATAGCAAA
* ** * * * *
2518147 TGAAAACCGAGAAAAATTTCTTCGAAAAAATTTACGGAGTAGAAAACATCGT-TTTAGGAAAAAA
1 TGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACCATATTTA-GAAAAAA
* * *
2518211 -AGGTATTTC-A-AAAAAAATCCAAAACTCATGAAATGAATTTATTTTTTAAACCTGAATTAACA
65 TAAGAATTTCAAGAAAAAAATCCAAAACTCATGAAATGAA-TT-TTTTTTAAAACTGAATTAACA
2518273 TGAAATAAATGATAATATTTATGACTTTTAAAAAT
128 TGAAATAAATGATAATATTTATGACTTTTAAAAAT
* * * *
2518308 TGAAAACTGAGAAAAATCCCCTCGAAAATATTTACTGAATAGAAAACACCATATTTAGGAAAAAT
1 TGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACCATATTTAGAAAAAAT
*
2518373 AAGAATTTCAAGAAAAAAATCCAAAACTCATGAAAAT-AATTTTTTTTAAAACTGAATTAACATA
66 AAGAATTTCAAGAAAAAAATCCAAAACTCATG-AAATGAATTTTTTTTAAAACTGAATTAACATG
*
2518437 AAATAAATGATAATATTTTATTACTTTTAAAAAT
130 AAATAAATGATAATA-TTTATGACTTTTAAAAAT
** * * * * * *
2518471 AAAAAATTGAAAAAAATCCCCTTG-AAAAATTTACAGAGTAAAAAATATCATATTTA-AAAAAAT
1 TGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACCATATTTAGAAAAAAT
* ** * * * * *
2518534 AGGAATTTCAAGGAAAAAAATTTAAAATTCATGGAAATGAATGAATTTTTGAAAACTGAATCAAT
66 AAGAATTTCAA-GAAAAAAATCCAAAACTCAT-GAAATGAAT--TTTTTTTAAAACTGAATTAAC
** *
2518599 ATGAAATAAACAATAATATTTGATGAATTTT-AAAAT
127 ATGAAATAAATGATAATATTT-ATGACTTTTAAAAAT
* * * * * ** *
2518635 T-AAAAATCAAGAAAAATCCTCTCGAAAAAATTCACAGAGTAGAAAACTCTGTATTTCGAAAAAA
1 TGAAAACT-GAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACCATATTTAGAAAAAA
*
2518699 TGAGAATTTCAAGAAAAAAAT
65 TAAGAATTTCAAGAAAAAAAT
2518720 TAAAAAAACT
Statistics
Matches: 341, Mismatches: 56, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
161 65 0.19
162 94 0.28
163 48 0.14
164 42 0.12
165 76 0.22
166 16 0.05
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (162 bp):
TGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACAGAGTAGAAAACACCATATTTAGAAAAAAT
AAGAATTTCAAGAAAAAAATCCAAAACTCATGAAATGAATTTTTTTTAAAACTGAATTAACATGA
AATAAATGATAATATTTATGACTTTTAAAAAT
Found at i:2520202 original size:84 final size:84
Alignment explanation
Indices: 2520087--2520378 Score: 230
Period size: 84 Copynumber: 3.5 Consensus size: 84
2520077 GGCAAAAAAG
* ** * *
2520087 GGATAAAGAAGTTGATCGGAATTGGACCGATAAGTCAACAAAAGATAAAAAGAAGTACCTGGGAC
1 GGATAAA-AAGTTGATCGGGATTAAATCGACAAGTCAACAAAAGATAAAAAGAAGTACCTGGGAC
* *
2520152 CAAGCTGACAGGGGAATAAA
65 CGAGCTGATAGGGGAATAAA
* * * * * ** * * **
2520172 GGATAAAAAATTGATCGAGATTAAATCGATAAGTGAACGAGGGAT--AAAGGATTTTCTCGGGAC
1 GGATAAAAAGTTGATCGGGATTAAATCGACAAGTCAACAAAAGATAAAAAGAAGTACCT-GGGAC
* * * ** *
2520235 GGGGTTGATAGGTAAACAAA
65 CGAGCTGATAGGGGAATAAA
* * * *
2520255 GGATAAAGAAGTTGACCGGGATTAGA-CTGACAAGTCAACAAAAGATAAAAAAAAAGTACTTGGG
1 GGATAAA-AAGTTGATCGGGATTAAATC-GACAAGTCAACAAAAGAT-AAAAAGAAGTACCTGGG
* *
2520319 ACTGAGCCGATAGGGGAATAAA
63 ACCGAGCTGATAGGGGAATAAA
* *
2520341 GGATAAAAAGTTGATTGGGATTAAATTGACAAGTCAAC
1 GGATAAAAAGTTGATCGGGATTAAATCGACAAGTCAAC
2520379 GAGGGATAAA
Statistics
Matches: 152, Mismatches: 48, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
82 8 0.05
83 25 0.16
84 55 0.36
85 33 0.22
86 25 0.16
87 6 0.04
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (84 bp):
GGATAAAAAGTTGATCGGGATTAAATCGACAAGTCAACAAAAGATAAAAAGAAGTACCTGGGACC
GAGCTGATAGGGGAATAAA
Found at i:2520387 original size:169 final size:169
Alignment explanation
Indices: 2520087--2520518 Score: 559
Period size: 169 Copynumber: 2.6 Consensus size: 169
2520077 GGCAAAAAAG
* * *
2520087 GGATAAAGAAGTTGATCGGAATTGGACCGATAAGTCAACAAAAGAT-AAAAAGAAGTACCTGGGA
1 GGATAAAGAAGTTGACCGGGATTGGACCGATAAGTCAACAAAAGATAAAAAAGAAGTACTTGGGA
* * * *
2520151 CCAAGCTGACAGGGGAATAAAGGATAAAAAATTGATCGAGATTAAATCGATAAGTGAACGAGGGA
66 CCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGATCGAGATTAAATCGACAAGTCAACGAGGGA
* *
2520216 TAAAGGATTTTCTCGGGACGGGGTTGATAGGTAAACAAA
131 TAAAGGATTTACCCGGGACGGGGTTGATAGGTAAACAAA
* * * *
2520255 GGATAAAGAAGTTGACCGGGATTAGACTGACAAGTCAACAAAAGATAAAAAAAAAGTACTTGGGA
1 GGATAAAGAAGTTGACCGGGATTGGACCGATAAGTCAACAAAAGATAAAAAAGAAGTACTTGGGA
** * * * *
2520320 CTGAGCCGATAGGGGAATAAAGGATAAAAAGTTGATTGGGATTAAATTGACAAGTCAACGAGGGA
66 CCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGATCGAGATTAAATCGACAAGTCAACGAGGGA
** * *
2520385 TAAAGGATTTACCCGGGATTGGGTTGGTGGGTAAACAAA
131 TAAAGGATTTACCCGGGACGGGGTTGATAGGTAAACAAA
* *
2520424 GGATAAA-AATGTTGACTGGGATTGGACCGATAAGTCAACAAAA-A-AAAAAGGAAGTGA-TTGG
1 GGATAAAGAA-GTTGACCGGGATTGGACCGATAAGTCAACAAAAGATAAAAAAGAAGT-ACTTGG
* * *
2520485 GACCAAGTCGACAGGTGAATGAAGGATAAAAAGT
64 GACCAAGCCGACAGGGGAATAAAGGATAAAAAGT
2520519 CGACCAGAGA
Statistics
Matches: 226, Mismatches: 35, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
167 41 0.18
168 45 0.20
169 140 0.62
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.19
Consensus pattern (169 bp):
GGATAAAGAAGTTGACCGGGATTGGACCGATAAGTCAACAAAAGATAAAAAAGAAGTACTTGGGA
CCAAGCCGACAGGGGAATAAAGGATAAAAAGTTGATCGAGATTAAATCGACAAGTCAACGAGGGA
TAAAGGATTTACCCGGGACGGGGTTGATAGGTAAACAAA
Found at i:2520936 original size:85 final size:84
Alignment explanation
Indices: 2520778--2521720 Score: 497
Period size: 85 Copynumber: 11.2 Consensus size: 84
2520768 AAGAAGTCTC
* * ** * * * * * *
2520778 CCGACGGGTAAACGATTGATAAAAAAAGTCTCCCGGGATTGAGCCGACGGGTAGACTATGGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
*
2520843 AGAAGTCTCCAAGGTCTAAG
66 AGAAGTCTCC-GGGTCTAAG
* * * * *
2520863 CTGACAGGCAGACGGTTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAAACAATAGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
* *
2520928 AGAAGTCTCTCAGGTTTAAG
66 AGAAGTCTC-CGGGTCTAAG
* * * * * * ** * *
2520948 CCGACAGGTAGAC-AGTTAATAAAGG-A--CT-C-GAGATTGAGTCGATAGGCAGGCAATGCATG
1 CCGACGGGCAGACGA-TTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATG
*
2521007 AAGAAGTCTATCGGGT-TAAAG
65 AAGAAGTCT-CCGGGTCT-AAG
* * ** * * * * *
2521028 CCGACGAGCAAACGAAAGATAAAGGAAGTCT-CTCGAGTCAAAGCTGACGGGCAGACTATGGATT
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCT-GAGACTAAGCCGACGGGCAGACAATGGATG
* *
2521092 AAGAAGTTTCCCGGGTCTGAG
65 AAGAAGTCT-CCGGGTCTAAG
* * * * * * * * ** * *
2521113 TCGATGAGTAGACAATTGATAAAGAAAGTCTCCTAAGACTGAGTTGACGGGCAAACGATGGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
* * *
2521178 AGAAGT-TAGTCGAGTATAAG
66 AGAAGTCT--CCGGGTCTAAG
** * * * * * * *
2521198 TTGATGGGCAGACGGTTGATAAAGAAAGTCT-CTCGTGACTAAGCCAACGGGCAGGCAATAGATG
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCT-GAGACTAAGCCGACGGGCAGACAATGGATG
* *
2521262 AAGAAGTCACCAGGGTCAAAG
65 AAGAAGTCTCC-GGGTCTAAG
* * ** * * * * ** * *
2521283 CCAACGGGTAGACGAAAGATGAAGGAAGTCTCCCGAGTCAAAGCTAACAGGCAGACTATGGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
*
2521348 AGAAATCTCTCGGGTCTAAG
66 AGAAGTCTC-CGGGTCTAAG
* * * * * * * * * * * **
2521368 CAGACGGGCAGATGGTTGATAAAAGATGTCTCCCGAGACTGAGTCAATGGGTAGATGATGGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
* * *
2521433 AAAAGTCTCTCGAGTCTACG
66 AGAAGTCTC-CGGGTCTAAG
* * * * * *
2521453 CTGACGGGCAGACAATTGATAAAGGCAGTCTTCC-GAGACTGAGCCGACAGGCAGATAATGGATG
1 CCGACGGGCAGACGATTGATAAAGGAAGTC-TCCTGAGACTAAGCCGACGGGCAGACAATGGATG
*
2521517 AAGAAGTTTCCTGGGTCTAAG
65 AAGAAGTCTCC-GGGTCTAAG
* * * * * ** * * *** * *
2521538 CCAATGGGCAAACGGTTGATAAAGAAAGT-TTTTCGAGACAAAACCGGTAGGCAAACAATAGATG
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCT-GAGACTAAGCCGACGGGCAGACAATGGATG
2521602 AAGAAGTCTCTCGGGTCTAAG
65 AAGAAGTCTC-CGGGTCTAAG
* * * * * *
2521623 CCGATGGGCAGACGATTGATAAAGGAAGTCTCTTGGGACTGAGCCAACGGGTAGACAATGGATGA
1 CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
* **
2521688 AGAAATCTCCCAAGTCTAAG
66 AGAAGTCT-CCGGGTCTAAG
* *
2521708 TCAACGGGCAGAC
1 CCGACGGGCAGAC
2521721 TTAAGGTGAA
Statistics
Matches: 634, Mismatches: 199, Indels: 50
0.72 0.23 0.06
Matches are distributed among these distances:
79 1 0.00
80 53 0.08
81 3 0.00
82 2 0.00
83 4 0.01
84 6 0.01
85 551 0.87
86 14 0.02
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (84 bp):
CCGACGGGCAGACGATTGATAAAGGAAGTCTCCTGAGACTAAGCCGACGGGCAGACAATGGATGA
AGAAGTCTCCGGGTCTAAG
Found at i:2521266 original size:43 final size:43
Alignment explanation
Indices: 2521219--2521379 Score: 134
Period size: 42 Copynumber: 3.8 Consensus size: 43
2521209 ACGGTTGATA
* * * *
2521219 AAGAAAGTCTCTCGTGACTAAGCCAACGGGCAGGCAATAGATG
1 AAGAAAGTCTCTCGGGTCAAAGCCAACGGGCAGACAATAGATG
* *
2521262 AAG-AAGTCAC-CAGGGTCAAAGCCAACGGGTAGACGAA-AGATG
1 AAGAAAGTCTCTC-GGGTCAAAGCCAACGGGCAGAC-AATAGATG
* * * * * * *
2521304 AAGGAAGTCTCCCGAGTCAAAGCTAACAGGCAGACTATGGATG
1 AAGAAAGTCTCTCGGGTCAAAGCCAACGGGCAGACAATAGATG
*
2521347 AAGAAA-TCTCTCGGGTCTAAG-CAGACGGGCAGA
1 AAGAAAGTCTCTCGGGTCAAAGCCA-ACGGGCAGA
2521380 TGGTTGATAA
Statistics
Matches: 93, Mismatches: 19, Indels: 13
0.74 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 52 0.56
43 38 0.41
44 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.14
Consensus pattern (43 bp):
AAGAAAGTCTCTCGGGTCAAAGCCAACGGGCAGACAATAGATG
Found at i:2521285 original size:42 final size:42
Alignment explanation
Indices: 2521238--2521351 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
2521228 TCTCGTGACT
* *
2521238 AAGCCAACGGGCAGGCAATAGATGAAGAAGTCACCAGGGTCA
1 AAGCCAACGGGCAGACAATAGATGAAGAAGTCACCAGAGTCA
* * *
2521280 AAGCCAACGGGTAGACGAA-AGATGAAGGAAGTCTCCCGAGTCA
1 AAGCCAACGGGCAGAC-AATAGATGAA-GAAGTCACCAGAGTCA
* * * *
2521323 AAGCTAACAGGCAGACTATGGATGAAGAA
1 AAGCCAACGGGCAGACAATAGATGAAGAA
2521352 ATCTCTCGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.39, C:0.19, G:0.30, T:0.11
Consensus pattern (42 bp):
AAGCCAACGGGCAGACAATAGATGAAGAAGTCACCAGAGTCA
Found at i:2521464 original size:255 final size:255
Alignment explanation
Indices: 2520992--2521551 Score: 549
Period size: 255 Copynumber: 2.2 Consensus size: 255
2520982 TGAGTCGATA
* * *
2520992 GGCAGGCAATGCATGAAGAAGTCTATCGGGTTAAAGCCGACGAGCAAACGAAAGATAAAGGAAGT
1 GGCAGGCAATGCATGAAGAAGTCTACCGGGTCAAAGCCAACGAGCAAACGAAAGATAAAGGAAGT
* * * * * * * * *
2521057 CTCTCGAGTCAAAGCTGACGGGCAGACTATGGATTAAGAAGTTTCCCGGGTCTGAGTCGATGAGT
66 CTCCCGAGTCAAAGCTAACAGGCAGACTATGGATGAAGAAATCTCCCGGGTCTAAGTCGACGAGC
* ** * *
2521122 AGACAATTGATAAAGAAAGTCTCCTAAGACTGAGTTGACGGGCAAACGATGGATGAAGAAGTTAG
131 AGACAATTGATAAAGAAAGTCTCCCAAGACTGAGTCAACGGGCAAACGATGGATGAAAAAGTTAC
* * **
2521187 TCGAGTATAAGTTGATGGGCAGACGGTTGATAAAGAAAGTCTCTCGTGACTAAGCCAACG
196 TCGAGTATAAGCTGACGGGCAGACAATTGATAAAGAAAGTCTCTCGTGACTAAGCCAACG
* * * *
2521247 GGCAGGCAATAG-ATGAAGAAGTC-ACCAGGGTCAAAGCCAACGGGTAGACGAAAGATGAAGGAA
1 GGCAGGCAAT-GCATGAAGAAGTCTACC-GGGTCAAAGCCAACGAGCAAACGAAAGATAAAGGAA
*
2521310 GTCTCCCGAGTCAAAGCTAACAGGCAGACTATGGATGAAGAAATCTCTCGGGTCTAAG-CAGACG
64 GTCTCCCGAGTCAAAGCTAACAGGCAGACTATGGATGAAGAAATCTCCCGGGTCTAAGTC-GACG
* *** * * * * * *
2521374 GGCAGATGGTTGATAAA-AGATGTCTCCCGAGACTGAGTCAATGGGTAGATGATGGATGAAAAAG
128 AGCAGACAATTGATAAAGA-AAGTCTCCCAAGACTGAGTCAACGGGCAAACGATGGATGAAAAAG
* * ** * * *
2521438 TCT-CTCGAGTCTACGCTGACGGGCAGACAATTGATAAAGGCAGTCT-TCCGAGACTGAGCCGAC
192 T-TACTCGAGTATAAGCTGACGGGCAGACAATTGATAAAGAAAGTCTCT-CGTGACTAAGCCAAC
*
2521501 A
255 G
** * * * * *
2521502 GGCAGATAATGGATGAAGAAGT-TTCCTGGGTCTAAGCCAATGGGCAAACG
1 GGCAGGCAATGCATGAAGAAGTCTACC-GGGTCAAAGCCAACGAGCAAACG
2521552 GTTGATAAAG
Statistics
Matches: 245, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
254 6 0.02
255 237 0.97
256 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (255 bp):
GGCAGGCAATGCATGAAGAAGTCTACCGGGTCAAAGCCAACGAGCAAACGAAAGATAAAGGAAGT
CTCCCGAGTCAAAGCTAACAGGCAGACTATGGATGAAGAAATCTCCCGGGTCTAAGTCGACGAGC
AGACAATTGATAAAGAAAGTCTCCCAAGACTGAGTCAACGGGCAAACGATGGATGAAAAAGTTAC
TCGAGTATAAGCTGACGGGCAGACAATTGATAAAGAAAGTCTCTCGTGACTAAGCCAACG
Found at i:2521821 original size:43 final size:43
Alignment explanation
Indices: 2521765--2521940 Score: 151
Period size: 43 Copynumber: 4.1 Consensus size: 43
2521755 TGGGCAGACA
* *
2521765 AAGGGTAAAGAAGTCCCCAGGGTCAAAGTTGACAGGTAGACTT
1 AAGGGTAAGGAAGTCCCCAGGGTCAAAGTCGACAGGTAGACTT
* * * * *
2521808 AAGGGTAAGGAAGTCTCCAAGGTTAAAGCCGACAGATAGACTT
1 AAGGGTAAGGAAGTCCCCAGGGTCAAAGTCGACAGGTAGACTT
* * *
2521851 AAGGGTGAAGGAAGTCTCCC-GGGTCTAAGTCGACAAGCAGACTT
1 AAGGGT-AAGGAAGTC-CCCAGGGTCAAAGTCGACAGGTAGACTT
* * * * * *
2521895 AA-GATAAATGAAGTCTCCTA-GGTCTAAGCCGACAAGTAGACTT
1 AAGGGT-AAGGAAGTC-CCCAGGGTCAAAGTCGACAGGTAGACTT
2521938 AAG
1 AAG
2521941 ATGAAGGAAG
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
43 78 0.72
44 28 0.26
45 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (43 bp):
AAGGGTAAGGAAGTCCCCAGGGTCAAAGTCGACAGGTAGACTT
Found at i:2521895 original size:87 final size:87
Alignment explanation
Indices: 2521765--2521996 Score: 253
Period size: 87 Copynumber: 2.7 Consensus size: 87
2521755 TGGGCAGACA
* * * * * *
2521765 AAGGGT-AAAGAAGTC-CCCAGGGTCAAAGTTGACAGGTAGACTTAAGGGT-AAGGAAGTCTCCA
1 AAGGGTGAAGGAAGTCTCCC-GGGTCTAAGTCGACAAGCAGACTTAA-GATAAAGGAAGTCTCCA
2521827 AGGT-TAAAGCCGAC-AGATAGACTT
64 AGGTCT-AAGCCGACAAG-TAGACTT
* *
2521851 AAGGGTGAAGGAAGTCTCCCGGGTCTAAGTCGACAAGCAGACTTAAGATAAATGAAGTCTCCTAG
1 AAGGGTGAAGGAAGTCTCCCGGGTCTAAGTCGACAAGCAGACTTAAGATAAAGGAAGTCTCCAAG
2521916 GTCTAAGCCGACAAGTAGACTT
66 GTCTAAGCCGACAAGTAGACTT
* * * ** *
2521938 AA-GATGAAGGAAGTATCCCGGGTCTAAGCCGACAAGCAGACAAAAGATGAA-GAAGTCTC
1 AAGGGTGAAGGAAGTCTCCCGGGTCTAAGTCGACAAGCAGACTTAAGATAAAGGAAGTCTC
2521997 TCGAGTCAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
85 8 0.06
86 51 0.40
87 62 0.49
88 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (87 bp):
AAGGGTGAAGGAAGTCTCCCGGGTCTAAGTCGACAAGCAGACTTAAGATAAAGGAAGTCTCCAAG
GTCTAAGCCGACAAGTAGACTT
Found at i:2521941 original size:43 final size:43
Alignment explanation
Indices: 2521795--2521996 Score: 205
Period size: 43 Copynumber: 4.7 Consensus size: 43
2521785 GGTCAAAGTT
* * *
2521795 GACAGGTAGACTTAAG-GGTAAGGAAGTCTCCAAGGT-TAAAGCC
1 GACAAGTAGACTTAAGATG-AAGGAAGTCTCCCAGGTCT-AAGCC
* * *
2521838 GAC-AGATAGACTTAAGGGTGAAGGAAGTCTCCCGGGTCTAAGTC
1 GACAAG-TAGACTTAA-GATGAAGGAAGTCTCCCAGGTCTAAGCC
* * * *
2521882 GACAAGCAGACTTAAGATAAATGAAGTCTCCTAGGTCTAAGCC
1 GACAAGTAGACTTAAGATGAAGGAAGTCTCCCAGGTCTAAGCC
* *
2521925 GACAAGTAGACTTAAGATGAAGGAAGTATCCCGGGTCTAAGCC
1 GACAAGTAGACTTAAGATGAAGGAAGTCTCCCAGGTCTAAGCC
* **
2521968 GACAAGCAGACAAAAGATGAA-GAAGTCTC
1 GACAAGTAGACTTAAGATGAAGGAAGTCTC
2521997 TCGAGTCAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
42 8 0.06
43 89 0.67
44 31 0.23
45 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (43 bp):
GACAAGTAGACTTAAGATGAAGGAAGTCTCCCAGGTCTAAGCC
Found at i:2521985 original size:86 final size:86
Alignment explanation
Indices: 2521817--2521996 Score: 249
Period size: 86 Copynumber: 2.1 Consensus size: 86
2521807 TAAGGGTAAG
* * *
2521817 GAAGTCTCCAAGGTTAAAGCCGACAGATAGACTTAAGGGTGAAGGAAGTCTCCCGGGTCTAAGTC
1 GAAGTCTCCAAGGTTAAAGCCGACAGATAGACTTAAGGATGAAGGAAGTATCCCGGGTCTAAGCC
**
2521882 GACAAGCAGACTTAAGATAAA
66 GACAAGCAGACAAAAGATAAA
*
2521903 TGAAGTCTCCTAGGTCT-AAGCCGACA-AGTAGACTTAA-GATGAAGGAAGTATCCCGGGTCTAA
1 -GAAGTCTCCAAGGT-TAAAGCCGACAGA-TAGACTTAAGGATGAAGGAAGTATCCCGGGTCTAA
*
2521965 GCCGACAAGCAGACAAAAGATGAA
63 GCCGACAAGCAGACAAAAGATAAA
2521989 GAAGTCTC
1 GAAGTCTC
2521997 TCGAGTCAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
85 8 0.10
86 44 0.52
87 31 0.37
88 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (86 bp):
GAAGTCTCCAAGGTTAAAGCCGACAGATAGACTTAAGGATGAAGGAAGTATCCCGGGTCTAAGCC
GACAAGCAGACAAAAGATAAA
Found at i:2522010 original size:42 final size:43
Alignment explanation
Indices: 2521856--2522023 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
2521846 GACTTAAGGG
* * **
2521856 TGAAGGAAGTCTCCCGGGTCTAAGTCGACAAGCAGACTTAAGA
1 TGAAGGAAGTCTCCCGAGTCTAAGCCGACAAGCAGACAAAAGA
* * * * **
2521899 TAAATGAAGTCT-CCTAGGTCTAAGCCGACAAGTAGACTTAAGA
1 TGAAGGAAGTCTCCCGA-GTCTAAGCCGACAAGCAGACAAAAGA
* *
2521942 TGAAGGAAGTATCCCGGGTCTAAGCCGACAAGCAGACAAAAGA
1 TGAAGGAAGTCTCCCGAGTCTAAGCCGACAAGCAGACAAAAGA
* * **
2521985 TGAA-GAAGTCTCTCGAGTCAAAGCCGATGAGCAGACAAA
1 TGAAGGAAGTCTCCCGAGTCTAAGCCGACAAGCAGACAAA
2522024 GGGTGAGGAA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 31 0.30
43 70 0.68
44 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (43 bp):
TGAAGGAAGTCTCCCGAGTCTAAGCCGACAAGCAGACAAAAGA
Found at i:2522140 original size:36 final size:37
Alignment explanation
Indices: 2522056--2522159 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
2522046 TCCTAACGTC
* *
2522056 AATATAGTCAAACGAGGGATAAAAAGAGTTTAACACC
1 AATACAGTCAAACGAGGGATAAAAAGAGTTTAACACA
* * * *
2522093 AATACAATCAAACGAGGGATGAATAGAGTTTGAC-CA
1 AATACAGTCAAACGAGGGATAAAAAGAGTTTAACACA
* *
2522129 AATACAGTCAAATGAGGGATAAAAAAAGTTT
1 AATACAGTCAAACGAGGGATAAAAAGAGTTT
2522160 GGCCAAGCCC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
36 27 0.48
37 29 0.52
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AATACAGTCAAACGAGGGATAAAAAGAGTTTAACACA
Found at i:2522160 original size:36 final size:36
Alignment explanation
Indices: 2522056--2522165 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
2522046 TCCTAACGTC
* * *
2522056 AATATAGTCAAACGAGGGATAAAAAGAGTTTAACACC
1 AATACAGTCAAACGAGGGATAAAAAGAGTTTGAC-CA
* * *
2522093 AATACAATCAAACGAGGGATGAATAGAGTTTGACCA
1 AATACAGTCAAACGAGGGATAAAAAGAGTTTGACCA
* * *
2522129 AATACAGTCAAATGAGGGATAAAAAAAGTTTGGCCA
1 AATACAGTCAAACGAGGGATAAAAAGAGTTTGACCA
2522165 A
1 A
2522166 GCCCTAACAC
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
36 32 0.52
37 29 0.48
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (36 bp):
AATACAGTCAAACGAGGGATAAAAAGAGTTTGACCA
Found at i:2522188 original size:84 final size:84
Alignment explanation
Indices: 2522086--2522293 Score: 247
Period size: 84 Copynumber: 2.5 Consensus size: 84
2522076 AAAAAGAGTT
* *
2522086 TAACACCAATACAATCAAACGAGGGATGAATAGAGTTTGACCAAATACAGTCAAATGAGGGATAA
1 TAACACCAATACAATCAAACGAGGGATGAAAAGAGTTTGACCAAATACAGTCAAATAAGGGATAA
*
2522151 AAAAAGTTTGGCCAAGCCC
66 AAAAAGTTTGGCCAAACCC
* * * * ** * *
2522170 TAACACTAATACAATCAAACGAGGGATGAACAGAGTTTAATCGGATACAGTTAAATAAGGGATGA
1 TAACACCAATACAATCAAACGAGGGATGAAAAGAGTTTGACCAAATACAGTCAAATAAGGGATAA
* * *
2522235 AAAGAGTTTGTCTAAACCC
66 AAAAAGTTTGGCCAAACCC
* * *
2522254 TAACACCAATATAGTCAAAC-ATGGGATGAAAAGAATTTGA
1 TAACACCAATACAATCAAACGA-GGGATGAAAAGAGTTTGA
2522294 TCAGGCCCTA
Statistics
Matches: 104, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 1 0.01
84 103 0.99
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (84 bp):
TAACACCAATACAATCAAACGAGGGATGAAAAGAGTTTGACCAAATACAGTCAAATAAGGGATAA
AAAAAGTTTGGCCAAACCC
Found at i:2522207 original size:48 final size:48
Alignment explanation
Indices: 2522129--2522629 Score: 377
Period size: 48 Copynumber: 10.6 Consensus size: 48
2522119 AGTTTGACCA
* * * * *
2522129 AATACAGTCAAATGAGGGATAAAAAAAGTTTGGCCAAGCCCTAACACT
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * *
2522177 AATACAATCAAACGAGGGATGAACAGAGTTT----AA----T----CG
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * ** * * *
2522213 GATACAGTTAAATAAGGGATGAAAAGAGTTTGTCTAAACCCTAACACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * * *
2522261 AATATAGTCAAAC-ATGGGATGAAAAGAATTTGATCAGGCCCTAACACC
1 AATACAGTCAAACGA-GGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * * **** *
2522309 AATACAATCAAATGAGGGAAGTTTTGAGTTTGACCAAGCCCTAGCACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * **
2522357 AATATAGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* *** * * * *
2522405 AATACAGTCAAACGAGGGAAGACTTGATTTTGATCAGGCCCTAATACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* * * *
2522453 AATATAGTCAAATGAGGGATGAAAAGAGTTTGACTAGGCCCTAACACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* *
2522501 AATTCAGTCAAACGAGGAGA-GAACTTA-AGTTTGACCAAGCCCTAACACC
1 AATACAGTCAAACGAGG-GATGAA--AAGAGTTTGACCAAGCCCTAACACC
* * * *
2522550 AATAAAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACC
1 AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
* *
2522598 AATACAATTAAACGAGGAGA-GAAAAAGAGTTT
1 AATACAGTCAAACGAGG-GATG-AAAAGAGTTT
2522630 AACCGGATAC
Statistics
Matches: 349, Mismatches: 83, Indels: 41
0.74 0.18 0.09
Matches are distributed among these distances:
36 26 0.07
40 3 0.01
44 3 0.01
47 2 0.01
48 262 0.75
49 52 0.15
50 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (48 bp):
AATACAGTCAAACGAGGGATGAAAAGAGTTTGACCAAGCCCTAACACC
Found at i:2522378 original size:96 final size:96
Alignment explanation
Indices: 2522251--2522614 Score: 489
Period size: 96 Copynumber: 3.8 Consensus size: 96
2522241 TTTGTCTAAA
* *
2522251 CCCTAACACCAATATAGTCAAACATGGGATGAAAAGAATTTGA-TCAGGCCCTAACACCAATACA
1 CCCTAACACCAATATAGTCAAACAAGGGATGAAAAGAGTTTGACT-AGGCCCTAACACCAATACA
* **
2522315 ATCAAATGAGGGAAGTTTTGAGTTTGACCAAG
65 ATCAAACGAGGGAAGACTTGAGTTTGACCAAG
* * * * * *
2522347 CCCTAGCACCAATATAGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACCAATACAG
1 CCCTAACACCAATATAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAA
* * *
2522412 TCAAACGAGGGAAGACTTGATTTTGATCAGG
66 TCAAACGAGGGAAGACTTGAGTTTGACCAAG
* ** * *
2522443 CCCTAATACCAATATAGTCAAATGAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATTCAG
1 CCCTAACACCAATATAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAA
*
2522508 TCAAACGA-GGAGAGAACTTAAGTTTGACCAAG
66 TCAAACGAGGGA-AG-ACTTGAGTTTGACCAAG
*
2522540 CCCTAACACCAATAAAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAA
1 CCCTAACACCAATATAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAA
*
2522605 TTAAACGAGG
66 TCAAACGAGG
2522615 AGAGAAAAAG
Statistics
Matches: 232, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
95 3 0.01
96 149 0.64
97 79 0.34
98 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (96 bp):
CCCTAACACCAATATAGTCAAACAAGGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAA
TCAAACGAGGGAAGACTTGAGTTTGACCAAG
Found at i:2522482 original size:144 final size:143
Alignment explanation
Indices: 2522217--2522629 Score: 440
Period size: 144 Copynumber: 2.9 Consensus size: 143
2522207 TAATCGGATA
* * * * *
2522217 CAGTTAAATAAGGGATGAAAAGAGTTTGTCTAAACCCTAACACCAATATAGTCAAACATGGGATG
1 CAGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACCAATAAAGTCAAACA-GGGAAG
****
2522282 AAAAGAATTTGATCAGGCCCTAACACCAATACAATCAAATGAGGGAAGTTTTGAGTTTGACCAAG
65 AAAAGAATTTGATCAGGCCCTAACACCAATACAATCAAATGAGGGAAGAAAAGAGTTTGACCAAG
*
2522347 CCCTAGCACCAATAT
130 CCCTAACACCAAT-T
*
2522362 -AGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACCAATACAGTCAAACGAGGGAAG
1 CAGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACCAATAAAGTCAAAC-AGGGAAG
*** * * * * * * *
2522426 ACTTGATTTTGATCAGGCCCTAATACCAATATAGTCAAATGAGGGATGAAAAGAGTTTGACTAGG
65 AAAAGAATTTGATCAGGCCCTAACACCAATACAATCAAATGAGGGAAGAAAAGAGTTTGACCAAG
2522491 CCCTAACACCAATT
130 CCCTAACACCAATT
* ** *
2522505 CAGTCAAACGAGGAGA-GAACTTA-AGTTTGACCAAGCCCTAACACCAATAAAGTCAAACAAGGG
1 CAGTTAAATAAGG-GATGAA--AAGAGTTTGACCAAGCCCTAACACCAATAAAGTCAAAC-AGGG
* * * *
2522568 ATGAAAAGAGTTTGA-CTAGGCCCTAACACCAATACAATTAAACGA-GGAGAGAAAAAGAGTTT
62 AAGAAAAGAATTTGATC-AGGCCCTAACACCAATACAATCAAATGAGGGA-AG-AAAAGAGTTT
2522630 AACCGGATAC
Statistics
Matches: 223, Mismatches: 37, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
143 1 0.00
144 136 0.61
145 75 0.34
146 11 0.05
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (143 bp):
CAGTTAAATAAGGGATGAAAAGAGTTTGACCAAGCCCTAACACCAATAAAGTCAAACAGGGAAGA
AAAGAATTTGATCAGGCCCTAACACCAATACAATCAAATGAGGGAAGAAAAGAGTTTGACCAAGC
CCTAACACCAATT
Found at i:2523817 original size:13 final size:13
Alignment explanation
Indices: 2523799--2523824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2523789 AATTTTTTTG
2523799 TGTATCGATACAT
1 TGTATCGATACAT
2523812 TGTATCGATACAT
1 TGTATCGATACAT
2523825 ATTTTGTGTA
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:2523835 original size:32 final size:34
Alignment explanation
Indices: 2523778--2523842 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
2523768 TACAAGCCAA
*
2523778 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2523812 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
2523843 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:2523947 original size:20 final size:20
Alignment explanation
Indices: 2523895--2523949 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2523885 CATCTTTTTT
*
2523895 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
2523915 ATGTATCGATACTTTG-AAC
1 ATGTATCGATACTTTGCAAC
*
2523934 TGTGTATCGATACTTT
1 -ATGTATCGATACTTT
2523950 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:2526368 original size:13 final size:13
Alignment explanation
Indices: 2526350--2526387 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2526340 ATAATCCCCC
2526350 TGTATCGATACAG
1 TGTATCGATACAG
*
2526363 TGTATCGATACAT
1 TGTATCGATACAG
2526376 TGTATCGATACA
1 TGTATCGATACA
2526388 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:2528489 original size:15 final size:15
Alignment explanation
Indices: 2528469--2528499 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2528459 ATTTCGTTTG
*
2528469 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2528484 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2528499 G
1 G
2528500 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:2530330 original size:21 final size:21
Alignment explanation
Indices: 2530301--2530345 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2530291 AAGTTTTTAT
*
2530301 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2530321 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2530343 TTT
1 TTT
2530346 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2532593 original size:13 final size:13
Alignment explanation
Indices: 2532575--2532600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2532565 AATTTTTTTG
2532575 TGTATCGATACAT
1 TGTATCGATACAT
2532588 TGTATCGATACAT
1 TGTATCGATACAT
2532601 ATTTTGTGTA
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:2532611 original size:32 final size:34
Alignment explanation
Indices: 2532554--2532765 Score: 206
Period size: 32 Copynumber: 6.0 Consensus size: 34
2532544 TACAAGCCAA
*
2532554 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2532588 TGTATCGATAC-A-TATTTTGTGTATCGATACATATTTT
1 TGTATCGATACAATTATTTTGTGTATCGATAC--A---T
2532625 GTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
1 -TGTATCGATAC-----A---AT---TATTTTGTGTATCGATACAT
2532671 TGTATCGATAC-A-TATTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2532703 TGTATCGATAC-A-TATTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2532735 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
2532766 AGTTTGGCTA
Statistics
Matches: 158, Mismatches: 1, Indels: 40
0.79 0.01 0.20
Matches are distributed among these distances:
32 100 0.63
33 1 0.01
34 12 0.08
36 1 0.01
37 1 0.01
38 11 0.07
45 11 0.07
46 1 0.01
47 1 0.01
49 1 0.01
51 18 0.11
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:2532612 original size:19 final size:19
Alignment explanation
Indices: 2532588--2532765 Score: 188
Period size: 19 Copynumber: 10.6 Consensus size: 19
2532578 ATCGATACAT
2532588 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532607 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532626 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2532639 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532658 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2532671 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532690 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2532703 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532722 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2532735 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2532754 TGTATCGATACA
1 TGTATCGATACA
2532766 AGTTTGGCTA
Statistics
Matches: 135, Mismatches: 0, Indels: 48
0.74 0.00 0.26
Matches are distributed among these distances:
13 44 0.33
14 4 0.03
15 4 0.03
17 4 0.03
18 4 0.03
19 75 0.56
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2532632 original size:51 final size:51
Alignment explanation
Indices: 2532554--2532765 Score: 259
Period size: 51 Copynumber: 4.2 Consensus size: 51
2532544 TACAAGCCAA
*
2532554 TGTATCGATACAATTTTTTTGTGTATCGATACATTGTATCGATACATATTTTG
1 TGTATCGATAC-A-TATTTTGTGTATCGATACATTGTATCGATACATATTTTG
2532607 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTG
1 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTG
2532658 TGTATCGATAC--A---T-TGTATCGATACATATTTTGTGTATCGATAC--A---T-
1 TGTATCGATACATATTTTGTGTATCGATAC--A---T-TGTATCGATACATATTTTG
2532703 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTG
1 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTG
2532754 TGTATCGATACA
1 TGTATCGATACA
2532766 AGTTTGGCTA
Statistics
Matches: 140, Mismatches: 1, Indels: 38
0.78 0.01 0.21
Matches are distributed among these distances:
45 33 0.24
46 3 0.02
47 3 0.02
49 3 0.02
50 3 0.02
51 83 0.59
52 1 0.01
53 11 0.08
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (51 bp):
TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTG
Found at i:2532644 original size:13 final size:13
Alignment explanation
Indices: 2532626--2532747 Score: 82
Period size: 13 Copynumber: 8.0 Consensus size: 13
2532616 ACATATTTTG
2532626 TGTATCGATACAT
1 TGTATCGATACAT
2532639 TGTATCGATACATATTTT
1 TGTATCGATAC--A---T
2532657 GTGTATCGATACAT
1 -TGTATCGATACAT
2532671 TGTATCGATACATATTTT
1 TGTATCGATAC--A---T
2532689 GTGTATCGATACAT
1 -TGTATCGATACAT
2532703 TGTATCGATACATATTTT
1 TGTATCGATAC--A---T
2532721 GTGTATCGATACAT
1 -TGTATCGATACAT
2532735 TGTATCGATACAT
1 TGTATCGATACAT
2532748 ATTTTGTGTA
Statistics
Matches: 91, Mismatches: 0, Indels: 36
0.72 0.00 0.28
Matches are distributed among these distances:
13 46 0.51
14 3 0.03
15 3 0.03
17 3 0.03
18 3 0.03
19 33 0.36
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2532678 original size:64 final size:64
Alignment explanation
Indices: 2532607--2532765 Score: 318
Period size: 64 Copynumber: 2.5 Consensus size: 64
2532597 ACATATTTTG
2532607 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
1 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
2532671 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
1 TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
2532735 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCGATACATATTTTGTGTATCGATACA
2532766 AGTTTGGCTA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 95 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (64 bp):
TGTATCGATACATATTTTGTGTATCGATACATTGTATCGATACATATTTTGTGTATCGATACAT
Found at i:2532870 original size:20 final size:20
Alignment explanation
Indices: 2532817--2532872 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2532807 ACATCTTTTT
*
2532817 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
2532837 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
2532856 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
2532873 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:2533845 original size:13 final size:13
Alignment explanation
Indices: 2533827--2533852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2533817 TACACAAAGT
2533827 ATGTATCGATACA
1 ATGTATCGATACA
2533840 ATGTATCGATACA
1 ATGTATCGATACA
2533853 CAAAAATATG
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:2533845 original size:17 final size:18
Alignment explanation
Indices: 2533809--2533870 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 18
2533799 TAGCCAAACT
2533809 TGTATCGATACACAAAGTA
1 TGTATCGATA-ACAAAGTA
2533828 TGTATCGAT-AC--A--A
1 TGTATCGATAACAAAGTA
*
2533841 TGTATCGATACACAAAAATA
1 TGTATCGATA-AC-AAAGTA
2533861 TGTATCGATA
1 TGTATCGATA
2533871 CATTGGCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.28
15 3 0.08
17 2 0.06
18 1 0.03
19 9 0.25
20 11 0.31
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (18 bp):
TGTATCGATAACAAAGTA
Found at i:2533850 original size:32 final size:33
Alignment explanation
Indices: 2533809--2533872 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2533799 TAGCCAAACT
*
2533809 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
2533841 TGTATCGATACACAAAAATATGTATCGATACA
1 TGTATCGATACACAAAAATATGTATCGATACA
2533873 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:2534991 original size:89 final size:88
Alignment explanation
Indices: 2534888--2535090 Score: 210
Period size: 89 Copynumber: 2.3 Consensus size: 88
2534878 GATGCATATG
* * * * *
2534888 AAATGATGTAAATGCAAGCATCAGTAAAATGGAAAATGCATAT-GAGATGATGCAAACACCAAAC
1 AAATAATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGA-ATAATGCAAACACC-AAC
* * * * *
2534952 GTCATTTAAATTGCAAATGTATGTG
64 GTCATCTAAAATGCAAATGCAGGTA
* * * * * *
2534977 AAGTAATGCAAATGCAAACATCAATAGAAGGGCAAATGCATATGGAATAATGCAAATACCAATGT
1 AAATAATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGAATAATGCAAACACCAACGT
* *
2535042 TATCTAAAATGCAGATGCAGGTA
66 CATCTAAAATGCAAATGCAGGTA
*
2535065 AAATGATGCAAATGCAAGCATCAATA
1 AAATAATGCAAATGCAAGCATCAATA
2535091 GGAAGACAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
88 43 0.47
89 47 0.51
90 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (88 bp):
AAATAATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGAATAATGCAAACACCAACGT
CATCTAAAATGCAAATGCAGGTA
Found at i:2535835 original size:17 final size:17
Alignment explanation
Indices: 2535815--2535848 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2535805 TCCATTGCTC
*
2535815 TTTTTTCTTCTTTTTCA
1 TTTTTTCTTCTCTTTCA
2535832 TTTTTTCTTCTCTTTCA
1 TTTTTTCTTCTCTTTCA
2535849 CAACCTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTCTTCTCTTTCA
Found at i:2539826 original size:157 final size:155
Alignment explanation
Indices: 2539534--2540156 Score: 605
Period size: 157 Copynumber: 4.0 Consensus size: 155
2539524 TAAGTTCAAG
* * * * * ** *
2539534 AAAAATTACGAAAATGCCTTTAG-AGAATACCTTCGACGTAAAAGTA-CTTGA-TACCCTTAAAG
1 AAAAATTACAAAAATACCTCTAGAAGTATACCTTCGATGTAAAAGTATCCCGACAACCC-TAAAG
* * * **
2539596 GATTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGA
65 GACTTAAAAA-GACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGA
* *
2539661 CTCAGTGATGACCTAGGAGTTGGTTTT
129 CCCGGTGATGACCTAGGAGTTGGTTTT
* * ** *
2539688 AGAAAATTACCAAAATGCCTCTAGGGGTATACCTTCGATATAAAAGTATCCCGACAACCCTAAAG
1 A-AAAATTACAAAAATACCTCTAGAAGTATACCTTCGATGTAAAAGTATCCCGACAACCCTAAAG
* *
2539753 GACTTAAAAAGACTAGACATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGA
65 GACTTAAAAAGACTAGAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGA
* * * *
2539818 CCCGGTGATGACCTAAGACTCGGTTCTA
129 CCCGGTGATGACCTAGGAGTTGGTT-TT
* *
2539846 AAAAATTACAAAAATACC-CTTAGAAG-ATACCTTCGATGTGAAAGCATCCCTGTAC--CCCTAA
1 AAAAATTACAAAAATACCTC-TAGAAGTATACCTTCGATGTAAAAGTATCCC-G-ACAACCCTAA
* * ** * * *
2539907 AGGACTTGAAAAAGACTAGAAATGGTGATCAACCAATCCTAAATGCTTACCTTTGTCGTAAAAGC
63 AGGACTT-AAAAAGACTAGAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGC
** * * *
2539972 AGACTTGGTGATAACCTTGGA-TTCGATTTT
126 AGACCCGGTGATGACCTAGGAGTT-GGTTTT
* * * * * * ** *
2540002 AAAAATTACAAAAATACCCCTATAGGTATACTTTCGATGTAAAAGGATCTCGGTAACCCTAAAAG
1 AAAAATTACAAAAATACCTCTAGAAGTATACCTTCGATGTAAAAGTATCCCGACAACCCTAAAGG
* *
2540067 ACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACC
66 ACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
* * *
2540132 CGATGACGGCCTAGGAGTTGGTTTT
131 CGGTGATGACCTAGGAGTTGGTTTT
2540157 GTAACAAATT
Statistics
Matches: 383, Mismatches: 70, Indels: 31
0.79 0.14 0.06
Matches are distributed among these distances:
154 1 0.00
155 70 0.18
156 106 0.28
157 198 0.52
158 8 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (155 bp):
AAAAATTACAAAAATACCTCTAGAAGTATACCTTCGATGTAAAAGTATCCCGACAACCCTAAAGG
ACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
CGGTGATGACCTAGGAGTTGGTTTT
Found at i:2541059 original size:128 final size:129
Alignment explanation
Indices: 2540813--2541060 Score: 295
Period size: 128 Copynumber: 1.9 Consensus size: 129
2540803 AATTATTTCT
* * * **
2540813 AAAAAATTATTTTGTACCTTAATGGATACCTGAAAAGATATAAATTTTTTTTTGAAATATTTTAT
1 AAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATATAAA-TAGTTTTTGAAATATTTTAT
* * * * * * *
2540878 TCCCCTACGGATACTCATAGGAATATAAAAGACTTGACAATAATTGATATTTATTTATCTTTGAA
65 ACCCCTACAGATACCCATAAGAATATAAAAGACTTAAAAATAATTAATATTTATTTATCTTTGAA
* *
2540943 AAAAAATCATTTCGTACTTTAAT-GATACCCGAAAAGATATGAAA-AGTTTTTGAAATCTTTTAT
1 AAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATAT-AAATAGTTTTTGAAATATTTTAT
* * *
2541006 ACCCCTATAGATACCCATAAGAATATAAAAGA-TTAAAAAATGATTAATGTTTATT
65 ACCCCTACAGATACCCATAAGAATATAAAAGACTT-AAAAATAATTAATATTTATT
2541061 ATAATTAACG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
127 2 0.02
128 58 0.59
129 16 0.16
130 23 0.23
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (129 bp):
AAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATATAAATAGTTTTTGAAATATTTTATA
CCCCTACAGATACCCATAAGAATATAAAAGACTTAAAAATAATTAATATTTATTTATCTTTGAA
Found at i:2541163 original size:161 final size:162
Alignment explanation
Indices: 2540925--2541312 Score: 566
Period size: 161 Copynumber: 2.4 Consensus size: 162
2540915 CAATAATTGA
*
2540925 TATTTATTTATCTTTGAAAAAAAATCATTTCGTACTTTAAT-GATACCCGAAAAGATATGAAAAG
1 TATTTATTTAT-TTT-AAAAAAAATCATTTCGTACTTTAATGGATACCCGAAAAGATACGAAAAG
* * * *
2540989 TTTTTGAAATCTTTTATACCCCTATAGATACCCATAAGAATATAAAAGATTAAAAAATGATTAAT
64 CTTTTAAAATCTTTTATACCCCTACAGATACCCATAAGAATATAAAAGATTAAAAAATGATCAAT
*
2541054 GTTTATTATAATTAACGAGGAGTGAATTTAATAT
129 ATTTATTATAATTAACGAGGAGTGAATTTAATAT
* * * *
2541088 TATTTATTTATTTT-AAAAAAATCATTTCATACCTTAATGGATACTCGAAAAGATGCGAAAAGCT
1 TATTTATTTATTTTAAAAAAAATCATTTCGTACTTTAATGGATACCCGAAAAGATACGAAAAGCT
* * * *
2541152 TTTAAAATCTTTTATATCCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATCAATAT
66 TTTAAAATCTTTTATACCCCTACAGATACCCATAAGAATATAAAAGATTAAAAAATGATCAATAT
* *
2541217 TTGTTGTAATTAACGAGGAGTGAATTTAATAT
131 TTATTATAATTAACGAGGAGTGAATTTAATAT
2541249 TATTTATTTATTTTTTGAAAAAAAATCATTTCGTACTTTAATGGATACCCGAAAAGATA-GAAAA
1 TATTTATTTA--TTTT-AAAAAAAATCATTTCGTACTTTAATGGATACCCGAAAAGATACGAAAA
2541313 AGTTTTTGAA
Statistics
Matches: 200, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
160 22 0.11
161 118 0.59
162 3 0.01
163 15 0.08
164 5 0.03
165 37 0.19
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (162 bp):
TATTTATTTATTTTAAAAAAAATCATTTCGTACTTTAATGGATACCCGAAAAGATACGAAAAGCT
TTTAAAATCTTTTATACCCCTACAGATACCCATAAGAATATAAAAGATTAAAAAATGATCAATAT
TTATTATAATTAACGAGGAGTGAATTTAATAT
Found at i:2542296 original size:11 final size:11
Alignment explanation
Indices: 2542280--2542311 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2542270 CTTGAATTTC
2542280 CTTTTTTCTCA
1 CTTTTTTCTCA
*
2542291 CTTTTTTCTCT
1 CTTTTTTCTCA
2542302 CTTTTTTCTC
1 CTTTTTTCTC
2542312 CTTGCTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTTTTTCTCA
Found at i:2543529 original size:166 final size:163
Alignment explanation
Indices: 2542989--2543557 Score: 566
Period size: 166 Copynumber: 3.4 Consensus size: 163
2542979 ATGCATGAAA
* **
2542989 ATGAATTTTAAAAATCGAAAACCAAGAAAAAAT-TTCTCGAAAAAATTTACGGAGTAGAAAATAT
1 ATGAATTTTAAAAATCAAAAACCAAG-AAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATAT
* *
2543053 CG-ATTTTAGGAAAAAT-AGGTATTTCAAAGAAAAAAATCCAAAACTCATGAAAATGAATTTATT
65 CGTATTTTAGGAAAAATGAGG-ATTTC-AAGGAAAAAATCCAAAACTCATG-AAATGAA-TGATT
* **
2543116 TTTTAAACTTGAATT-AATGAAATAAATGATAATATTT
126 TTTAAAAAATGAATTAAATGAAATAAATGATAATATTT
* * ** * * *
2543153 ATGACTTTTAAAAATTAAAAACTGAGAAAAATCCCCTCGAAAAGATTTACGGAGTAGAAAACACC
1 ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATATC
*
2543218 GTA-TTTAGGAAAAA-GAGAAATTTCAAGGAAAAAAATCCAAAACTCATG-AA--AATGATTTTT
66 GTATTTTAGGAAAAATGAG-GATTTCAAGG-AAAAAATCCAAAACTCATGAAATGAATGATTTTT
* *
2543278 AAAAAAAAAACTAAATTAACATAAAATAAATGATAATATCTT
129 ----AAAAAA-TGAATTAA-ATGAAATAAATGATAATAT-TT
* * ** * *
2543320 ATTACTTTTAAAAATCAAAAACTGAGAAAAATCCCCTCGAAAAAATTTACGGACTAGAAAATATT
1 ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATATC
* * *
2543385 GTATTTTA-GAAAAATGAGGATTTCAAGGAAAAAATTCAAAATTCATAGAAATGAAGGAATTTTT
66 GTATTTTAGGAAAAATGAGGATTTCAAGGAAAAAATCCAAAACTCAT-GAAATGAATG-ATTTTT
* ***
2543449 GAAAAATGAATTAATATGAAATAAGCAATAATATTT
129 AAAAAATGAATTAA-ATGAAATAAATGATAATATTT
* * * **
2543485 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTCGAAAAAATTCACAAAGTAGAAAAT-T
1 -ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATAT
2543549 CTGTATTTT
65 C-GTATTTT
2543558 TTTTGTTAGG
Statistics
Matches: 336, Mismatches: 47, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
159 7 0.02
160 2 0.01
162 2 0.01
163 12 0.04
164 91 0.27
165 5 0.01
166 115 0.34
167 84 0.25
168 9 0.03
170 3 0.01
171 6 0.02
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.28
Consensus pattern (163 bp):
ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATATC
GTATTTTAGGAAAAATGAGGATTTCAAGGAAAAAATCCAAAACTCATGAAATGAATGATTTTTAA
AAAATGAATTAAATGAAATAAATGATAATATTT
Found at i:2543875 original size:20 final size:20
Alignment explanation
Indices: 2543852--2543924 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2543842 ACAATTCAAA
2543852 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2543872 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2543893 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2543913 GTATCGATACAT
1 GTATCGATACAT
2543925 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2543896 original size:21 final size:21
Alignment explanation
Indices: 2543870--2543945 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2543860 ACATGTTGCA
2543870 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2543891 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2543911 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
2543932 TTGTATCGATACAT
1 ATGTATCGATACAT
2543946 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2543903 original size:41 final size:41
Alignment explanation
Indices: 2543852--2543945 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2543842 ACAATTCAAA
*
2543852 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
2543893 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2543934 GTATCGATACAT
1 GTATCGATACAT
2543946 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2544002 original size:13 final size:13
Alignment explanation
Indices: 2543984--2544009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2543974 TACAGCAAGT
2543984 ATGTATCGATACA
1 ATGTATCGATACA
2543997 ATGTATCGATACA
1 ATGTATCGATACA
2544010 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2548066 original size:15 final size:15
Alignment explanation
Indices: 2548046--2548076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2548036 TAAAAATGTC
*
2548046 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2548061 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2548076 C
1 C
2548077 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2550172 original size:20 final size:21
Alignment explanation
Indices: 2550093--2550171 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
2550083 AATGTCCAAA
*
2550093 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2550113 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2550138 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2550158 TTGTATCGATACAT
1 ATGTATCGATACAT
2550172 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2550176 original size:13 final size:13
Alignment explanation
Indices: 2550158--2550196 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2550148 ACATTTTTCT
2550158 TTGTATCGATACA
1 TTGTATCGATACA
2550171 TTGTATCGATACA
1 TTGTATCGATACA
*
2550184 CTGTATCGATACA
1 TTGTATCGATACA
2550197 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2552666 original size:20 final size:20
Alignment explanation
Indices: 2552643--2552715 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2552633 ACAATTCAAA
2552643 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2552663 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2552684 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2552704 GTATCGATACAT
1 GTATCGATACAT
2552716 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2552687 original size:21 final size:21
Alignment explanation
Indices: 2552661--2552736 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2552651 ACATGTTGCA
2552661 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2552682 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2552702 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
2552723 TTGTATCGATACAT
1 ATGTATCGATACAT
2552737 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2552694 original size:41 final size:41
Alignment explanation
Indices: 2552643--2552736 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2552633 ACAATTCAAA
*
2552643 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
2552684 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2552725 GTATCGATACAT
1 GTATCGATACAT
2552737 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2552793 original size:13 final size:13
Alignment explanation
Indices: 2552775--2552800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2552765 TACAGCAAGT
2552775 ATGTATCGATACA
1 ATGTATCGATACA
2552788 ATGTATCGATACA
1 ATGTATCGATACA
2552801 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2556122 original size:13 final size:13
Alignment explanation
Indices: 2556104--2556128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2556094 AGATTGCACA
2556104 GTATCGATACATT
1 GTATCGATACATT
2556117 GTATCGATACAT
1 GTATCGATACAT
2556129 GACTAAATGT
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):
GTATCGATACATT
Found at i:2556141 original size:20 final size:21
Alignment explanation
Indices: 2556116--2556166 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2556106 ATCGATACAT
**
2556116 TGTATCGATACATGACTA-AA
1 TGTATCGATACATGAAAAGAA
*
2556136 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
2556157 TGTATCGATA
1 TGTATCGATA
2556167 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:2556245 original size:20 final size:20
Alignment explanation
Indices: 2556202--2556253 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2556192 TAGCCAAATT
*
2556202 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
*
2556221 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
2556241 TGTATCGATACAT
1 TGTATCGATACAT
2556254 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:2562467 original size:13 final size:13
Alignment explanation
Indices: 2562449--2562478 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2562439 ACTTTTTAAT
*
2562449 ATGTATCGATACA
1 ATGTATCAATACA
2562462 ATGTATCAATACA
1 ATGTATCAATACA
2562475 ATGT
1 ATGT
2562479 CCCATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:2562604 original size:33 final size:32
Alignment explanation
Indices: 2562546--2562608 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2562536 TAATTCTTTA
* *
2562546 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTAGCGATACAAAGAACATGTATCGATACAT
*
2562578 TGTAGCGATACAAAGCAATATGTATCGATAC
1 TGTAGCGATACAAAG-AACATGTATCGATAC
2562609 TTCTGGGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (32 bp):
TGTAGCGATACAAAGAACATGTATCGATACAT
Done.