Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 96 of 196
Found at i:28087056 original size:18 final size:18
Alignment explanation
Indices: 28087030--28087065 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
28087020 GGTCTCAGTT
*
28087030 TTTCTAAAGGTATCGATA
1 TTTCCAAAGGTATCGATA
*
28087048 TTTCCAAAGTTATCGATA
1 TTTCCAAAGGTATCGATA
28087066 CCTGGCCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TTTCCAAAGGTATCGATA
Found at i:28087153 original size:20 final size:20
Alignment explanation
Indices: 28087128--28087179 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
28087118 GACAATCATT
*
28087128 TTAAAATGATTTTGACTTGG
1 TTAAAATGATTTTGACATGG
28087148 TTAAAATGATTTTGACATGG
1 TTAAAATGATTTTGACATGG
*
28087168 TTAAAATCATTT
1 TTAAAATGATTT
28087180 GCACTTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (20 bp):
TTAAAATGATTTTGACATGG
Found at i:28087427 original size:30 final size:29
Alignment explanation
Indices: 28087391--28087461 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
28087381 TCCACGTGAC
* *
28087391 TTAGATAGCCACAGAGGTG-TCTACACATCA
1 TTAGATAGCCACA-AGG-GATCCAAACATCA
*
28087421 TTAGATAGCCATAAGGGCATCCAAACATCA
1 TTAGATAGCCACAAGGG-ATCCAAACATCA
28087451 TTAGATAGCCA
1 TTAGATAGCCA
28087462 TAAAGGCGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 3 0.08
30 32 0.89
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (29 bp):
TTAGATAGCCACAAGGGATCCAAACATCA
Found at i:28087462 original size:30 final size:30
Alignment explanation
Indices: 28087415--28087473 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
28087405 AGGTGTCTAC
*
28087415 ACATCATTAGATAGCCATAAGGGCATCCAA
1 ACATCATTAGATAGCCATAAAGGCATCCAA
*
28087445 ACATCATTAGATAGCCATAAAGGCGTCCA
1 ACATCATTAGATAGCCATAAAGGCATCCA
28087474 TACACATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (30 bp):
ACATCATTAGATAGCCATAAAGGCATCCAA
Found at i:28088930 original size:20 final size:20
Alignment explanation
Indices: 28088905--28088943 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
28088895 TACTTTCTTC
28088905 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
28088925 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
28088944 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:28090738 original size:50 final size:50
Alignment explanation
Indices: 28090512--28090741 Score: 370
Period size: 50 Copynumber: 4.6 Consensus size: 50
28090502 GAGCCAATGT
* * * * * *
28090512 CATGTCCCAGACATGGTCTTACACTGACTCTTCTCTGTCCGTGCCGATGG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
* *
28090562 CATGTCCCAAACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
28090612 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
* *
28090662 CATGTCCTAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
28090712 CATGTCCCAGACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
28090742 ACTTACTGCC
Statistics
Matches: 167, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 167 1.00
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGCCGATGC
Found at i:28090826 original size:44 final size:44
Alignment explanation
Indices: 28090769--28090856 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
28090759 AACCATGGTA
* * *
28090769 TTTTTCGTTAATTCTTTCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
28090813 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
1 TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
28090857 CTTGAGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (44 bp):
TTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGGAC
Found at i:28092437 original size:50 final size:50
Alignment explanation
Indices: 28092366--28092496 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
28092356 CTGTACTGCA
* * ** * *
28092366 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACC
* * ** * *
28092416 CATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCAGTACC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACC
*
28092466 AACGCCATGTCCCAGACATGGTCTTACATGA
1 AATGCCATGTCCCAGACATGGTCTTACATGA
28092497 TGTCTCATCC
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACC
Found at i:28093591 original size:50 final size:50
Alignment explanation
Indices: 28093537--28093657 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
28093527 CCAAATATGG
* ** * * *
28093537 TCTTACATGAGAGTTCTCATATCAGTGCCCATGCCATGTCCCAGACATGA
1 TCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGACATGA
** * * *
28093587 TCTTATGGGGGACCTCTCATCTCAGTACCAATGACATGTCCCAGACATGG
1 TCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGACATGA
28093637 TCTTACAAGG-GACCTCTCATA
1 TCTTAC-AGGAGACCTCTCATA
28093658 ACCTCAATAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 54 0.96
51 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTTACAGGAGACCTCTCATATCAGTACCAATGACATGTCCCAGACATGA
Found at i:28096885 original size:49 final size:49
Alignment explanation
Indices: 28096824--28096921 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
28096814 CTAATCCAAG
*
28096824 AAAACTTCTAACCTCTGACACATTTCTGGGTGGTTTCCACTCAACAATT
1 AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
* *
28096873 AAAACTTTTAACCTCTCACACATTTTTGGGTGGTTTCCACTCAACAATT
1 AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
28096922 GCTGAAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (49 bp):
AAAACTTCTAACCTCTCACACATTTCTGGGTGGTTTCCACTCAACAATT
Found at i:28105243 original size:20 final size:18
Alignment explanation
Indices: 28105218--28105254 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
28105208 CTACCTAATA
28105218 AAAGAAGGAGAGAGAAGAAG
1 AAAGAA-GA-AGAGAAGAAG
28105238 AAAGAAGAAGAGAAGAA
1 AAAGAAGAAGAGAAGAA
28105255 TTTGTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAGAGAAGAAG
Found at i:28114060 original size:26 final size:26
Alignment explanation
Indices: 28114025--28114076 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
28114015 AATGTGAAAG
*
28114025 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114051 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114077 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:28114163 original size:26 final size:26
Alignment explanation
Indices: 28114128--28114179 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
28114118 AAATGAAAAG
*
28114128 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114154 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114180 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:28114214 original size:102 final size:102
Alignment explanation
Indices: 28113947--28114301 Score: 604
Period size: 102 Copynumber: 3.5 Consensus size: 102
28113937 TGTATATAAA
** * * *
28113947 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
28114011 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
28114050 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
28114115 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
28114153 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
28114218 TGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
28114255 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTG
28114302 GGATCCACCA
Statistics
Matches: 242, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
102 120 0.50
103 81 0.33
104 40 0.17
105 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:28114265 original size:26 final size:26
Alignment explanation
Indices: 28114230--28114281 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
28114220 AAATAAAAAG
*
28114230 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114256 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
28114282 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:28121634 original size:25 final size:25
Alignment explanation
Indices: 28121601--28121649 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
28121591 ATGTGAAAGG
*
28121601 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
28121626 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
28121650 TTCATTGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:28121685 original size:101 final size:104
Alignment explanation
Indices: 28121522--28121886 Score: 609
Period size: 101 Copynumber: 3.6 Consensus size: 104
28121512 TTGTATATAA
** * * *
28121522 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
28121586 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
28121625 A-GGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
28121688 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
28121727 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
28121792 TGAAA--T-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
28121828 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
28121887 ATAACGGTTA
Statistics
Matches: 251, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
101 153 0.61
102 30 0.12
103 25 0.10
104 43 0.17
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:28129202 original size:101 final size:99
Alignment explanation
Indices: 28129019--28129380 Score: 459
Period size: 101 Copynumber: 3.6 Consensus size: 99
28129009 TGTATATAAA
** * * * *
28129019 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCTG-TGATCCACCATATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-GAT-ATCCACCATATC
28129083 TTTGAAATGTGAAA-GGGGTTTATGTGCTGATTCCCCG
64 TTTGAAA--TGAAAGGGGGTTTATGTGCTGATTCCCCG
28129120 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCTATTGGTGGTGCTAAGTGCGATATCCACCATA-C
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTC-ATTGGTGGTGCTAAGTGCGATATCCACCATATC
28129184 TTTGAAATGAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGAAA-GGGGGTT--TATGTGCTGATT-CCCCG
28129224 AGGGGTTGCTAAGTGCTGGA-TCCCC-ATTCATTGGTGGT-CTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCT-GATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
* *
28129286 TTGAAAATAAAAGGGGGTGCTATGTGCTGATT-CCCG
65 TTG-AAATGAAAGGGGGT-TTATGTGCTGATTCCCCG
* **
28129322 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
28129381 ATAACGGCTA
Statistics
Matches: 235, Mismatches: 11, Indels: 31
0.85 0.04 0.11
Matches are distributed among these distances:
97 2 0.01
98 26 0.11
99 17 0.07
100 50 0.21
101 58 0.25
102 23 0.10
103 30 0.13
104 27 0.11
105 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (99 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAGGGGGTTTATGTGCTGATTCCCCG
Found at i:28129309 original size:100 final size:101
Alignment explanation
Indices: 28129019--28129380 Score: 463
Period size: 100 Copynumber: 3.6 Consensus size: 101
28129009 TGTATATAAA
** * * * *
28129019 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCTG-TGATCCACCATATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-GAT-ATCCACCATATC
* * *
28129083 TTTGAAATGTGAAA-GGGGT-TTATGTGCTGATTCCCCG
64 TTTGAAA-ATAAAAGGGGGTGCTATGTGCTGATTCCCCG
28129120 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCTATTGGTGGTGCTAAGTGCGATATCCACCATA-C
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTC-ATTGGTGGTGCTAAGTGCGATATCCACCATATC
*
28129184 TTTG-AAATGAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAAAT-AAAAGGGGG-TGCTATGTGCTGATT-CCCCG
28129224 AGGGGTTGCTAAGTGCTGGA-TCCCC-ATTCATTGGTGGT-CTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCT-GATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
28129286 TTGAAAATAAAAGGGGGTGCTATGTGCTGATT-CCCG
65 TTGAAAATAAAAGGGGGTGCTATGTGCTGATTCCCCG
* **
28129322 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
28129381 ATAACGGCTA
Statistics
Matches: 233, Mismatches: 14, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
97 2 0.01
98 26 0.11
99 13 0.06
100 57 0.24
101 55 0.24
102 21 0.09
103 30 0.13
104 27 0.12
105 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAATAAAAGGGGGTGCTATGTGCTGATTCCCCG
Found at i:28129331 original size:25 final size:25
Alignment explanation
Indices: 28129297--28129345 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
28129287 TGAAAATAAA
*
28129297 AGGGGGTGCTATGTGCTGATTCCCG
1 AGGGGGTGCTAAGTGCTGATTCCCG
*
28129322 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGGTGCTAAGTGCTGATTCCC
28129346 CGATTCAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.20, G:0.37, T:0.29
Consensus pattern (25 bp):
AGGGGGTGCTAAGTGCTGATTCCCG
Found at i:28131133 original size:27 final size:26
Alignment explanation
Indices: 28131086--28131141 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
28131076 GAGGGTGGTT
*
28131086 CTTAAGAGTGTGCCACGAAGGCATTC
1 CTTAAGAGTGTGCCACAAAGGCATTC
* *
28131112 CTTACAGAGTTTGCGACAAAGGCATTC
1 CTTA-AGAGTGTGCCACAAAGGCATTC
28131139 CTT
1 CTT
28131142 CCATATTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAAGAGTGTGCCACAAAGGCATTC
Found at i:28131220 original size:25 final size:26
Alignment explanation
Indices: 28131127--28131220 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
28131117 AGAGTTTGCG
* * *
28131127 ACAAAGGCATTCCTTCCATATTCCACC
1 ACAAAGGC-TTTCTTTCATATTACACC
** *
28131154 GTAAAGGCTTTCTTTCATATTACGCC
1 ACAAAGGCTTTCTTTCATATTACACC
28131180 ACAAAGGCTTTCTTTCATATTACACC
1 ACAAAGGCTTTCTTTCATATTACACC
* *
28131206 A-AAAGGATTTATTTC
1 ACAAAGGCTTTCTTTC
28131221 TGGATGTGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 12 0.21
26 38 0.68
27 6 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTACACC
Found at i:28137211 original size:27 final size:27
Alignment explanation
Indices: 28137180--28137384 Score: 215
Period size: 27 Copynumber: 7.7 Consensus size: 27
28137170 TATATGAGTC
* * * *
28137180 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
28137207 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28137234 CGCACACTTAGTGCTACAT--T-AAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
28137259 CGCACACTTAGTGC-GCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
28137285 CGCACACTTAGTGC-ACATATTCATTT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
28137311 CCGCACACTTAGTGCAACATAGTCAAAT
1 -CGCACACTTAGTGCTACATAGTCAAAT
28137339 CGCACACTTAGTGCTAACATAGTC-AAT
1 CGCACACTTAGTGCT-ACATAGTCAAAT
28137366 CGCACACTTAGTGCGTACA
1 CGCACACTTAGTGC-TACA
28137385 ATTACTCCCG
Statistics
Matches: 155, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
24 6 0.04
25 16 0.10
26 24 0.15
27 91 0.59
28 18 0.12
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:28145123 original size:27 final size:27
Alignment explanation
Indices: 28145093--28145296 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
28145083 ATATTGAGTC
* * * *
28145093 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
28145120 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28145147 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
28145175 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
28145202 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
28145229 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28145256 CGCACACTTAGTGCTACATAGT-AAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
28145282 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28145297 GTACAATTAC
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
26 19 0.12
27 113 0.72
28 24 0.15
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:28145232 original size:82 final size:81
Alignment explanation
Indices: 28145093--28145296 Score: 250
Period size: 82 Copynumber: 2.5 Consensus size: 81
28145083 ATATTGAGTC
* * * * * *
28145093 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
*
28145158 TGCTACATAGTCAAACT
66 TGCAACATAGTCAAA-T
* * * * **
28145175 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTA
28145239 GTGCAACATAGTCAAAT
65 GTGCAACATAGTCAAAT
*
28145256 CGCACACTTAGTGCTACATAGT-AAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCT
28145297 GTACAATTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 17 0.16
81 21 0.20
82 66 0.63
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:28147257 original size:6 final size:7
Alignment explanation
Indices: 28147240--28147265 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
28147230 TTTCCATGTC
28147240 TTTTTCA
1 TTTTTCA
28147247 TTTTTCA
1 TTTTTCA
28147254 TTTTTCA
1 TTTTTCA
28147261 TTTTT
1 TTTTT
28147266 GAGAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:28147305 original size:41 final size:43
Alignment explanation
Indices: 28147248--28147327 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
28147238 TCTTTTTCAT
*
28147248 TTTTCATTTTTCATTTTTG-AGAAAACGACA-TTCATTTCTCCA
1 TTTTCATTTTTCA-TTTTGCAGAAAACCACATTTCATTTCTCCA
28147290 TTTTCA-TTTTCATTTTGCAGAAAACCACATTTCATTTC
1 TTTTCATTTTTCATTTTGCAGAAAACCACATTTCATTTC
28147328 CAAATGTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 5 0.14
41 16 0.46
42 14 0.40
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.47
Consensus pattern (43 bp):
TTTTCATTTTTCATTTTGCAGAAAACCACATTTCATTTCTCCA
Found at i:28151669 original size:42 final size:42
Alignment explanation
Indices: 28151588--28151714 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
28151578 TTCCAATATT
* * * ** *
28151588 GATTTGAGATCCCGTATAATACCATATATGGGATA-TGGCATC
1 GATTTGAGAT-TCGTGTAAGACCATAGCTGGGCTATTGGCATC
*
28151630 GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATT
1 GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
* * *
28151672 GATTTAAGATTTTGTGTAAGACTATAGCTGGGCTATTGGCATC
1 GATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATC
28151715 AATACGAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 18 0.25
42 24 0.33
43 30 0.42
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
GATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
Found at i:28151725 original size:43 final size:43
Alignment explanation
Indices: 28151642--28151740 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
28151632 TTTGAGATTC
** **
28151642 GTGTAAGACCATAGCTGGGCTATTGGCATTGATTTAAGATTTT
1 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTTT
* * *
28151685 GTGTAAGACTATAGCTGGGCTATTGGCATCAATACGAGATTTCC
1 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTT-T
*
28151729 ATGTAAGACCAT
1 GTGTAAGACCAT
28151741 GTCTGGGACA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 36 0.78
44 10 0.22
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATTGGCATCAATACAAGATTTT
Found at i:28156896 original size:10 final size:10
Alignment explanation
Indices: 28156881--28156922 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
28156871 AACTTCAATT
28156881 ATTTCTATTC
1 ATTTCTATTC
28156891 ATTTCTA-TC
1 ATTTCTATTC
28156900 ATTTGC-ATTC
1 ATTT-CTATTC
28156910 ATTTCTATTC
1 ATTTCTATTC
28156920 ATT
1 ATT
28156923 GGTTCTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTCTATTC
Found at i:28167537 original size:42 final size:41
Alignment explanation
Indices: 28167441--28167537 Score: 151
Period size: 42 Copynumber: 2.4 Consensus size: 41
28167431 TACTTAGTGA
*
28167441 GTTACACAGC-TGGGACACACCGTGTGTCCCTTGTTTGAAT
1 GTTACACAGCTTGGGACACACCGTGTGTCCCTTGTTCGAAT
* *
28167481 GTTACACGGGTTGGGACACAACCGTGTGTCCCTTGTTCGAAT
1 GTTACACAGCTTGGGACAC-ACCGTGTGTCCCTTGTTCGAAT
28167523 GTTACACAGCTTGGG
1 GTTACACAGCTTGGG
28167538 GAGATATTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 8 0.16
41 8 0.16
42 34 0.68
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (41 bp):
GTTACACAGCTTGGGACACACCGTGTGTCCCTTGTTCGAAT
Found at i:28167634 original size:21 final size:21
Alignment explanation
Indices: 28167608--28167647 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28167598 TTTTCTTAAA
*
28167608 AGTTCTCATTTGCTTCAAATT
1 AGTTCTCAATTGCTTCAAATT
*
28167629 AGTTCTGAATTGCTTCAAA
1 AGTTCTCAATTGCTTCAAA
28167648 GTTATTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
AGTTCTCAATTGCTTCAAATT
Found at i:28186038 original size:33 final size:32
Alignment explanation
Indices: 28185996--28186061 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
28185986 CTTACCTCGA
28185996 TAAACAAAGCATAAAAACATAATCGATCAATC
1 TAAACAAAGCATAAAAACATAATCGATCAATC
28186028 TAAACGAAAGCATAAAAACATAATCGATCAATC
1 TAAAC-AAAGCATAAAAACATAATCGATCAATC
28186061 T
1 T
28186062 GAAGCTTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.20
Consensus pattern (32 bp):
TAAACAAAGCATAAAAACATAATCGATCAATC
Found at i:28189176 original size:558 final size:558
Alignment explanation
Indices: 28187675--28189352 Score: 3189
Period size: 557 Copynumber: 3.0 Consensus size: 558
28187665 CCCAAAAAAT
*
28187675 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAAAAGAATAGATCTT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCTT
28187740 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
28187805 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
131 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
28187870 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
28187935 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
28188000 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
*
28188065 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAAAAAAT
391 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
28188130 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
456 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
28188195 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
521 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
28188233 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCTT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCTT
*
28188298 GAATCCATTTATGTATTTA-TCACTTGTGATGTTCATAGTGTGGTATACCTACATCCTGAGTGGA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
28188362 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
131 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
28188427 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
28188492 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
*
28188557 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTTA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
*
28188622 CTTCTTATGAAAGAAAATGTAATGGTTACCATGATATAAAATAGGATCATATTGGGAGAACAAAT
391 CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
28188687 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
456 ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
28188752 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
521 GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
*
28188790 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCCT
1 AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCTT
*
28188855 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGCATACCTAAATCCTGAGTGGA
66 GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
** *
28188920 TGACAAGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTGAGTTTGAATAGATA
131 TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
* *
28188985 AGGAACCGAAAGCTGGTGTGTTGGATGTACGAATTCTACAATATGTAGCTTAATTTACAATAATG
196 AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
28189050 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
261 GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
28189115 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
326 TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
28189180 CTT-TTCATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAA
391 CTTCTT-ATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAA
* *
28189244 TATTATCCCAAAGAGATTAAGGATATCCTATTAGGGTAACACACATAAGACAAGGTCATTGGACG
455 TATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACG
* *
28189309 AGCATTGGTAGAGTTGATTTCATAATGGTATGCCATTGG
520 AGCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
28189348 AGAGA
1 AGAGA
28189353 GCTCAGTCTG
Statistics
Matches: 1099, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
557 554 0.50
558 545 0.50
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (558 bp):
AGAGACATAGATGTGACTGACTAGACTAGCAATACGTTGGACTGGACCTAAGAAGAATAGATCTT
GAATCCATTTATGTATTTATTCACTTGTGATGTTCATAGTGTGGTATACCTAAATCCTGAGTGGA
TGACGGGCTATGTATGCATGACTCGTACACTTTTATGTAAGTAAAAGCTTAAGTTTGAATAGATA
AGAAACCGAAAGCTGGTGTGTTGGATGTACGACTTCTACAATATGTAGCTTAATTTACAATAATG
GAATTCATAGCCCAAGACATGGGTAAATAATATCCTCTCATTTACATTACACAGTTGATGAAAAG
TAAACGTGGTCACAGGTTGTTTGTCTTTGTGATGAATGACTTGATTACTATTAGTTAGTAATTGA
CTTCTTATGAAAGAAAATGTAATGGTTACCATGAGATAAAATAGGATCATATTGGGAGAACAAAT
ATTATCCCAAAGAGATTAAGGATATCATATTAGGGTAACACACATATGACAAGGTCATTGGACGA
GCATTGGTAGAGTTGATTTCGTAATGGCATGCCATTGG
Found at i:28190679 original size:50 final size:50
Alignment explanation
Indices: 28190570--28190689 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
28190560 GGAACGAGAT
* * * * ***
28190570 CCCATGTAAGACCATGTCTGGGACATGGCATTGCCGCCGAGATGAGAGGT
1 CCCATGTAAGACCATGTTTGAGACATGGCATGGCCACCGAGATGAGAACA
** * *
28190620 CCCCCGTAAGACCATGTTTGAGACATGGCATGGGCACCGATATGAGAACA
1 CCCATGTAAGACCATGTTTGAGACATGGCATGGCCACCGAGATGAGAACA
*
28190670 CCCATGTAAGACCATATTTG
1 CCCATGTAAGACCATGTTTG
28190690 GGATATGGGA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (50 bp):
CCCATGTAAGACCATGTTTGAGACATGGCATGGCCACCGAGATGAGAACA
Found at i:28201465 original size:12 final size:12
Alignment explanation
Indices: 28201445--28201475 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28201435 TTATAAGTGT
*
28201445 TGGACAAAAGTC
1 TGGATAAAAGTC
28201457 TGGATAAAAGTC
1 TGGATAAAAGTC
28201469 TGGATAA
1 TGGATAA
28201476 CACATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (12 bp):
TGGATAAAAGTC
Found at i:28202714 original size:21 final size:23
Alignment explanation
Indices: 28202680--28202721 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
28202670 TTATACAAAC
28202680 AAAATACATAATACA-ATAAAGA
1 AAAATACATAATACATATAAAGA
*
28202702 AAAATATAT-ATACATATAAA
1 AAAATACATAATACATATAAA
28202722 TTATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATACATAATACATATAAAGA
Found at i:28203107 original size:17 final size:18
Alignment explanation
Indices: 28203077--28203112 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
28203067 TTAGGAAATA
*
28203077 AAAACTGTATATGTATAT
1 AAAACTGTAAATGTATAT
28203095 AAAA-TGTAAATGTATAT
1 AAAACTGTAAATGTATAT
28203112 A
1 A
28203113 TATGTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (18 bp):
AAAACTGTAAATGTATAT
Found at i:28203490 original size:88 final size:88
Alignment explanation
Indices: 28203318--28203868 Score: 552
Period size: 88 Copynumber: 6.3 Consensus size: 88
28203308 AATAAATAAA
* * * *
28203318 AAGACTGATGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACTATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* ** *
28203383 ACTCCACTGC-TGCTCAGGGAGAC
66 GCTCCACTGCAACCT-AGGGAGGC
* * * * * * **
28203406 AAGGCCGAAT-TTTTCGATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATCTTCAGTC
1 AAGACTG-GTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACC
*
28203470 TGCTCCACTACAACCTAGGGAGGC
65 TGCTCCACTGCAACCTAGGGAGGC
** * * * * * * * * *
28203494 AAGACTGACGTCTTCAATTTGGTTCGCTGTCAGTATAGGAAGCCAAGATCTACAATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* * *
28203559 GCTCCGCTACAATCC-AAGGAGGC
66 GCTCCACTGCAA-CCTAGGGAGGC
* * * * **
28203582 AAGGCTGGTGTCTTTGATCTGCTTCGTTGCC-GTTACAGGAAGGCAAGATCTGCTGTCTTCAGTC
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAG-TACAGGAAGGCAAGATCTGCTATCTTCAACC
* * * * *
28203646 TGCTCCATTGTAACCTAAGGACGT
65 TGCTCCACTGCAACCTAGGGAGGC
* **
28203670 AAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
28203735 GCTCCACTGCAACCTAGGGAGGC
66 GCTCCACTGCAACCTAGGGAGGC
* * * * *
28203758 AAGACTGGTGTCTTCGATCTACTTCACTGTCAGTACAGGAAGGCAATATCTGCTATTTTCAACCT
1 AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* *
28203823 GCTCCGCTGCAACCCAGGGAGGC
66 GCTCCACTGCAACCTAGGGAGGC
* *
28203846 AAGGCTGGTGTCTTTGATCTGCT
1 AAGACTGGTGTCTTCGATCTGCT
28203869 ATCTTCAATG
Statistics
Matches: 378, Mismatches: 78, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
87 4 0.01
88 367 0.97
89 7 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
GCTCCACTGCAACCTAGGGAGGC
Found at i:28203648 original size:45 final size:45
Alignment explanation
Indices: 28203599--28203737 Score: 119
Period size: 45 Copynumber: 3.1 Consensus size: 45
28203589 GTGTCTTTGA
28203599 TCTGCTTCGTTG-CCGTTACAGGAAGGCAAGATCTGCTGTCTTCAG
1 TCTGCTTCGTTGACCG-TACAGGAAGGCAAGATCTGCTGTCTTCAG
* * * * *
28203644 TCTGCTCCATTGTAACC-TA-AGG-ACGTAAGA-CTGGTGTCTTC-G
1 TCTGCTTCGTTG--ACCGTACAGGAAGGCAAGATCTGCTGTCTTCAG
* * * *
28203686 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGTTGACCGTACAGGAAGGCAAGATCTGCTGTCTTCAG
28203732 TCTGCT
1 TCTGCT
28203738 CCACTGCAAC
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 22 0.31
44 12 0.17
45 28 0.39
46 3 0.04
48 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (45 bp):
TCTGCTTCGTTGACCGTACAGGAAGGCAAGATCTGCTGTCTTCAG
Found at i:28203802 original size:44 final size:44
Alignment explanation
Indices: 28203578--28203803 Score: 162
Period size: 44 Copynumber: 5.1 Consensus size: 44
28203568 CAATCCAAGG
* * ** *
28203578 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTG-CCGTTACAGGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGA
* * * * *
28203622 AGGCAAGATCTGCTGTCTTC-AGTCTGCTCCATTGTAACCTA-AGG-
1 AGGCAAGA-CTGGTGTCTTCGA-TCTGCTTCACTGTCA-GTACAGGA
* * *
28203666 ACGTAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGA
* * * *
28203710 AGGCAAGATCTGCTATCTTC-AGTCTGCTCCACTG-CA--ACCTAGGG
1 AGGCAAGA-CTGGTGTCTTCGA-TCTGCTTCACTGTCAGTA-C-AGGA
*
28203754 AGGCAAGACTGGTGTCTTCGATCTACTTCACTGTCAGTACAGGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGA
28203798 AGGCAA
1 AGGCAA
28203804 TATCTGCTAT
Statistics
Matches: 139, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.02
43 44 0.32
44 47 0.34
45 42 0.30
46 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (44 bp):
AGGCAAGACTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGA
Found at i:28206115 original size:25 final size:26
Alignment explanation
Indices: 28206064--28206124 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
28206054 AAGAAAATCC
* **
28206064 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
28206090 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
28206115 AAAATGAATG
1 AAAA-GAATG
28206125 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:28209804 original size:21 final size:23
Alignment explanation
Indices: 28209770--28209811 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
28209760 TTATACAAAC
28209770 AAAATACATAATACA-ATAAAGA
1 AAAATACATAATACATATAAAGA
*
28209792 AAAATATAT-ATACATATAAA
1 AAAATACATAATACATATAAA
28209812 TTATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATACATAATACATATAAAGA
Found at i:28210024 original size:30 final size:31
Alignment explanation
Indices: 28209951--28210033 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
28209941 ACATATATAA
* ** *
28209951 AAATAATAATTATCTACATATATATAGATTAT
1 AAATAATAATAAT-TACATATATATAGAAAAC
28209983 AAA-AA-AGATAATTACATATATATA-AAAAC
1 AAATAATA-ATAATTACATATATATAGAAAAC
28210012 AAATAATAATAATTACATATAT
1 AAATAATAATAATTACATATAT
28210034 TGAAGTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 5 0.11
30 29 0.66
31 7 0.16
32 3 0.07
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATAATAATAATTACATATATATAGAAAAC
Found at i:28210395 original size:10 final size:10
Alignment explanation
Indices: 28210371--28210410 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
28210361 AATAACAAGA
*
28210371 AAATAAAATT
1 AAATAAAAAT
*
28210381 TAATAAAAAT
1 AAATAAAAAT
28210391 AAATAATAAAT
1 AAATAA-AAAT
28210402 AAATAAAAA
1 AAATAAAAA
28210411 GACTAAATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:28210736 original size:21 final size:20
Alignment explanation
Indices: 28210699--28210750 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
28210689 AATCACATCT
28210699 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
28210718 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
28210739 TCTAAGATTGCA
1 TCTAAGATTGCA
28210751 CATCCTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.35
21 20 0.65
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:28212278 original size:17 final size:18
Alignment explanation
Indices: 28212242--28212279 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
28212232 TTATATTTCA
28212242 TTAATATAAATCAATAAAT
1 TTAATATAAATC-ATAAAT
*
28212261 TTAATATAATTC-TAAAT
1 TTAATATAAATCATAAAT
28212278 TT
1 TT
28212280 TTTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATATAAATCATAAAT
Found at i:28212679 original size:19 final size:19
Alignment explanation
Indices: 28212648--28212694 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
28212638 ATTTAATTAT
28212648 TATATTTAAATATT-TAAA
1 TATATTTAAATATTCTAAA
*
28212666 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
*
28212686 TAAATTTAA
1 TATATTTAA
28212695 TAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TATATTTAAATATTCTAAA
Found at i:28246895 original size:27 final size:27
Alignment explanation
Indices: 28246864--28247129 Score: 269
Period size: 27 Copynumber: 9.9 Consensus size: 27
28246854 AAGCCCAACT
28246864 TACCCCTAAAGGGTAAAATGACTGAAA
1 TACCCCTAAAGGGTAAAATGACTGAAA
** * *
28246891 TACCCCCGAAGGGTAAAATAACCGAAA
1 TACCCCTAAAGGGTAAAATGACTGAAA
*
28246918 TACCCCTAAAGGGTAAAAT-AATCGAAA
1 TACCCCTAAAGGGTAAAATGACT-GAAA
* * *
28246945 TACCCCTAAATGGTAAAATGACCGAAG
1 TACCCCTAAAGGGTAAAATGACTGAAA
*
28246972 TACCTCC-AAAGGGTAAAATGACTGTAA
1 TACC-CCTAAAGGGTAAAATGACTGAAA
*
28246999 CA-CCCTCAAAGGGTAAAATGACTGAAA
1 TACCCCT-AAAGGGTAAAATGACTGAAA
* * *
28247026 TA-CTCTCAAAGGATAGAATGA-TCGAAA
1 TACCCCT-AAAGGGTAAAATGACT-GAAA
*
28247053 TA-CCCTCGAAGGGTAAAATGACTGAAA
1 TACCCCT-AAAGGGTAAAATGACTGAAA
*
28247080 TACCTCC-AAAGGGTAAAATGACTAAAA
1 TACC-CCTAAAGGGTAAAATGACTGAAA
*
28247107 TACCCC-ATAGGGTAAAATGACTG
1 TACCCCTAAAGGGTAAAATGACTG
28247130 TTATACCCAT
Statistics
Matches: 200, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.01
26 20 0.10
27 171 0.86
28 5 0.03
29 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAAATGACTGAAA
Found at i:28246963 original size:81 final size:81
Alignment explanation
Indices: 28246864--28247129 Score: 301
Period size: 81 Copynumber: 3.3 Consensus size: 81
28246854 AAGCCCAACT
* *
28246864 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCTAAAG
1 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTAAAG
*
28246929 GGTAAAAT-AATCGAAA
66 GGTAAAATGACT-GAAA
* * * * * * *
28246945 TACCCCTAAATGGTAAAATGACCGAAGTACCTCCAAAGGGTAAAATGACTGTAACA-CCCTCAAA
1 TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCT-AAA
28247009 GGGTAAAATGACTGAAA
65 GGGTAAAATGACTGAAA
* * * *
28247026 TA-CTCTCAAAGGATAGAATGA-TCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCC-A
1 TACCCCT-AAAGGGTAAAATGACT-GAAATACCCCCGAAGGGTAAAATGACTGAAATACC-CCTA
*
28247088 AAGGGTAAAATGACTAAAA
63 AAGGGTAAAATGACTGAAA
*
28247107 TACCCC-ATAGGGTAAAATGACTG
1 TACCCCTAAAGGGTAAAATGACTG
28247130 TTATACCCAT
Statistics
Matches: 151, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
80 19 0.13
81 125 0.83
82 5 0.03
83 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (81 bp):
TACCCCTAAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTAAAG
GGTAAAATGACTGAAA
Found at i:28247496 original size:28 final size:28
Alignment explanation
Indices: 28247464--28247517 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
28247454 GTTGCATTAT
* *
28247464 CACACTATTATTATATTGGGCTAAGGCC
1 CACACTATTATTATATCGAGCTAAGGCC
*
28247492 CACACTATTATTGTATCGAGCTAAGG
1 CACACTATTATTATATCGAGCTAAGG
28247518 ATGACACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (28 bp):
CACACTATTATTATATCGAGCTAAGGCC
Found at i:28253906 original size:40 final size:36
Alignment explanation
Indices: 28253862--28253943 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 36
28253852 CTCTATTCTC
* * *
28253862 TCTCTTTCCCTCTTCCTTTTTCTATTGGCCGAATCTCCT
1 TCTCTTT-CCTCTT-CTTCTTC-ATTGACCGAATATCCT
28253901 T-TCTCTT-CTCTTCTTCTTCATTGACCGAATATCCT
1 TCTCT-TTCCTCTTCTTCTTCATTGACCGAATATCCT
28253936 TCTCTTTC
1 TCTCTTTC
28253944 TGTCTTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
35 17 0.46
36 9 0.24
37 5 0.14
38 3 0.08
39 3 0.08
ACGTcount: A:0.10, C:0.34, G:0.06, T:0.50
Consensus pattern (36 bp):
TCTCTTTCCTCTTCTTCTTCATTGACCGAATATCCT
Found at i:28253950 original size:34 final size:35
Alignment explanation
Indices: 28253871--28253950 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
28253861 CTCTCTTTCC
* * *
28253871 CTCTTCCTTTTTCTATTGGCCGAATCTCCTTTCTCTT
1 CTCTT-CTTCTTC-ATTGACCGAATATCCTTTCTCTT
28253908 CTCTTCTTCTTCATTGACCGAATATCC-TTCTCTT
1 CTCTTCTTCTTCATTGACCGAATATCCTTTCTCTT
28253942 -TCTGTCTTC
1 CTCT-TCTTC
28253951 AATTTCTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.08
34 12 0.31
35 13 0.33
36 6 0.15
37 5 0.13
ACGTcount: A:0.10, C:0.33, G:0.07, T:0.50
Consensus pattern (35 bp):
CTCTTCTTCTTCATTGACCGAATATCCTTTCTCTT
Found at i:28254078 original size:19 final size:19
Alignment explanation
Indices: 28254040--28254091 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
28254030 TTCTATTGCT
* *
28254040 GTAAGTGTTTTTGGCTATCG
1 GTAAGTGTTTAT-ACTATCG
28254060 GTAAGTGTTTATACTATCG
1 GTAAGTGTTTATACTATCG
28254079 GTAAGTGTTTATA
1 GTAAGTGTTTATA
28254092 ATTCACACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (19 bp):
GTAAGTGTTTATACTATCG
Found at i:28254549 original size:27 final size:27
Alignment explanation
Indices: 28254518--28254647 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
28254508 AAGCCCAACT
*
28254518 TACCCTCGAAGGGTAAAATGACCGAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
*
28254545 TACCCCCGAAGGGTAAAATGACCAAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
*
28254572 TACCCCCGAAGGGTAAAATGACTGAAA
1 TACCCCCGAAGGGTAAAATGACCGAAA
* * *
28254599 TACCCCCAAAGGGTAAAAAGATC-AGAA
1 TACCCCCGAAGGGTAAAATGACCGA-AA
**
28254626 TACCCCTAAAGGGTAAAATGAC
1 TACCCCCGAAGGGTAAAATGAC
28254648 TAAAATGCCC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 90 0.99
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (27 bp):
TACCCCCGAAGGGTAAAATGACCGAAA
Found at i:28254897 original size:26 final size:25
Alignment explanation
Indices: 28254859--28254912 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
28254849 GTTGCCACAT
28254859 ATACTGTTCTGGCAGCTTCGCTGCG
1 ATACTGTTCTGGCAGCTTCGCTGCG
* *
28254884 ATACTTTTACTGGCAGCTTTGCTGCG
1 ATACTGTT-CTGGCAGCTTCGCTGCG
28254910 ATA
1 ATA
28254913 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (25 bp):
ATACTGTTCTGGCAGCTTCGCTGCG
Found at i:28260556 original size:29 final size:29
Alignment explanation
Indices: 28260493--28260560 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
28260483 TAATCAACCA
28260493 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
28260522 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
28260551 CGCACACTTA
1 CGCACACTTA
28260561 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:28260673 original size:174 final size:174
Alignment explanation
Indices: 28260382--28260709 Score: 568
Period size: 174 Copynumber: 1.9 Consensus size: 174
28260372 AACTCAAGGT
* *
28260382 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAAATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAAATTTAT
* *
28260447 AGAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
66 AGAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
28260512 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
28260556 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAAT-AATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAAATTTAT
* *
28260620 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
66 AGAAAATATATATTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATG
* *
28260685 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
28260710 TGTACAATTT
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
173 26 0.18
174 119 0.82
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAAATTTAT
AGAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:28260701 original size:29 final size:30
Alignment explanation
Indices: 28260662--28260740 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
28260652 CTTAATAATC
28260662 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
28260692 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
28260721 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
28260741 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:28268020 original size:22 final size:22
Alignment explanation
Indices: 28267993--28268035 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
28267983 AGTGATATAA
28267993 GGTGGTGCCAAGGTGGTGATAC
1 GGTGGTGCCAAGGTGGTGATAC
** *
28268015 GGTGGTGTTAGGGTGGTGATA
1 GGTGGTGCCAAGGTGGTGATA
28268036 TGTTGGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.07, G:0.49, T:0.28
Consensus pattern (22 bp):
GGTGGTGCCAAGGTGGTGATAC
Found at i:28272135 original size:48 final size:47
Alignment explanation
Indices: 28272057--28272148 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 47
28272047 AACACACCAT
*
28272057 TTGTGGACAAGCTACCACATAAATGATGATAAACAACCACATAATACA
1 TTGTGGACAAGCCACCACATAAATGATGAT-AACAACCACATAATACA
* * * *
28272105 TTGTGGACAAGCCACTACATAATTGTTGATAACGACCACATAAT
1 TTGTGGACAAGCCACCACATAAATGATGATAACAACCACATAAT
28272149 CCCAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (47 bp):
TTGTGGACAAGCCACCACATAAATGATGATAACAACCACATAATACA
Found at i:28282632 original size:12 final size:12
Alignment explanation
Indices: 28282590--28282633 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
28282580 TTAGTGAGTA
* *
28282590 ACACGGCCTAGC
1 ACACGGGCTGGC
*
28282602 ACACGGTCTGGC
1 ACACGGGCTGGC
28282614 ACACGGGCTGGC
1 ACACGGGCTGGC
28282626 ACACGGGC
1 ACACGGGC
28282634 GTTTGACACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.20, C:0.36, G:0.34, T:0.09
Consensus pattern (12 bp):
ACACGGGCTGGC
Found at i:28289483 original size:22 final size:21
Alignment explanation
Indices: 28289458--28289502 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
28289448 AACACACCAT
*
28289458 TTATGGATAAGCCACCACATAA
1 TTATCGATAA-CCACCACATAA
*
28289480 TTATCGATAACGACCACATAA
1 TTATCGATAACCACCACATAA
28289501 TT
1 TT
28289503 GCAGATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (21 bp):
TTATCGATAACCACCACATAA
Found at i:28289509 original size:21 final size:21
Alignment explanation
Indices: 28289471--28289510 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28289461 TGGATAAGCC
*
28289471 ACCACATAATTATCGATAACG
1 ACCACATAATTAGCGATAACG
28289492 ACCACATAATT-GCAGATAA
1 ACCACATAATTAGC-GATAA
28289511 ACTGCCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (21 bp):
ACCACATAATTAGCGATAACG
Found at i:28297385 original size:14 final size:14
Alignment explanation
Indices: 28297366--28297393 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
28297356 AATATGTGAA
28297366 ACAAAAAGAGAATT
1 ACAAAAAGAGAATT
28297380 ACAAAAAGAGAATT
1 ACAAAAAGAGAATT
28297394 GGTACAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
ACAAAAAGAGAATT
Found at i:28304137 original size:37 final size:37
Alignment explanation
Indices: 28304087--28304165 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28304077 TTATTACGAA
* * *
28304087 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
28304124 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
28304161 GTCTT
1 GTCTT
28304166 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:28304385 original size:47 final size:47
Alignment explanation
Indices: 28304283--28304917 Score: 802
Period size: 47 Copynumber: 13.4 Consensus size: 47
28304273 CCTTTCGGGA
* * * * * * * *
28304283 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28304330 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28304377 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28304424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304471 CTTATTAC--ATAT--A---T-ACA-TCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28304509 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304556 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304603 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28304654 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304701 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304748 CTTATTACATATATACATATACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
*
28304799 CTTATCACATATATACATACACTTTCACCTTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
28304850 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28304899 CTTATTACACATATACACT
1 CTTATCACATATATACACT
28304918 CTCTTGGCTA
Statistics
Matches: 530, Mismatches: 37, Indels: 42
0.87 0.06 0.07
Matches are distributed among these distances:
38 27 0.05
39 3 0.01
40 5 0.01
42 1 0.00
43 1 0.00
45 5 0.01
46 3 0.01
47 303 0.57
48 1 0.00
49 60 0.11
50 1 0.00
51 112 0.21
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28304664 original size:145 final size:145
Alignment explanation
Indices: 28304488--28304915 Score: 712
Period size: 145 Copynumber: 2.9 Consensus size: 145
28304478 CATATATACA
28304488 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
28304553 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATA
66 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATA
*
28304618 CATACACTTTCACAT
131 CATACACTTTCACAG
28304633 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
28304698 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATA
66 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATA
*
28304763 CATATACTTTCACAG
131 CATACACTTTCACAG
* * * * *
28304778 TCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACCTTCATCACATCGGCC
1 TCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATACACTTTCACATTCATCACGTCGGCT
* *
28304843 ATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACA
62 ATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACA
*
28304908 CATATACA
125 TATATACA
28304916 CTCTCTTGGC
Statistics
Matches: 267, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
145 171 0.64
147 3 0.01
149 43 0.16
151 50 0.19
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (145 bp):
TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATA
CATACACTTTCACAG
Found at i:28307607 original size:40 final size:40
Alignment explanation
Indices: 28307562--28307837 Score: 261
Period size: 40 Copynumber: 6.9 Consensus size: 40
28307552 CGAATACACG
* * * * *
28307562 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
28307602 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
28307642 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
28307682 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
28307722 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * **
28307762 GTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
* *
28307803 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
28307838 CATCATTCAA
Statistics
Matches: 198, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
40 182 0.92
41 16 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:28307827 original size:120 final size:120
Alignment explanation
Indices: 28307576--28307839 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
28307566 CAGCATGATT
* * **
28307576 GCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 GCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATAT
* * * *
28307641 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAAT
66 ATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAA
* * * * * * *
28307696 GCTCTTTGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTT
1 GCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATAT
* ** * **
28307761 AGTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA-CAAA
66 A-TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCATCAAA
28307817 GC-CTTCGGGACTTAGCCCGGACA
1 GCTCTTCGGGACTTAGCCCGGACA
28307840 TCATTCAAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
120 92 0.78
121 21 0.18
122 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
GCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATAT
ATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAA
Found at i:28310080 original size:37 final size:37
Alignment explanation
Indices: 28310030--28310108 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28310020 TTATTACGAA
* * *
28310030 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
28310067 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
28310104 GTCTT
1 GTCTT
28310109 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:28310314 original size:47 final size:47
Alignment explanation
Indices: 28310227--28310870 Score: 883
Period size: 47 Copynumber: 13.4 Consensus size: 47
28310217 CCTTTCGAGA
* * * * * * * *
28310227 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28310274 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28310321 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28310368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28310415 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
28310462 CTTATCACACATATACACTTTCACATTCATCACGTCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28310509 CTGATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28310556 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28310607 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28310654 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28310701 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
*
28310752 CTTATCACATATATACATACACTTTCACCTTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
28310803 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28310852 CTTATTACACATATACACT
1 CTTATCACATATATACACT
28310871 CTCTTGGCTG
Statistics
Matches: 547, Mismatches: 38, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
47 363 0.66
48 1 0.00
49 60 0.11
50 1 0.00
51 114 0.21
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28310639 original size:145 final size:145
Alignment explanation
Indices: 28310286--28310868 Score: 922
Period size: 145 Copynumber: 4.0 Consensus size: 145
28310276 TGTCACATAT
*
28310286 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* *
28310351 CGCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
28310416 TTATTAC--ATAT--
131 TTATTACATATATAC
*
28310427 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* * * * *
28310492 CACGTCGACTATTAGGCCTGATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
28310557 TTATTACATATATAC
131 TTATTACATATATAC
*
28310572 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* * *
28310637 CACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
28310702 TTATTACATATATAC
131 TTATTACATATATAC
* * *
28310717 ATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACCT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACAT--ATACACTTTCACAT
*
28310782 TCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCAT
62 TCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCACATCGGCCAT
*
28310847 TAGGCCTTATTACACATATAC
125 TAGGCCTTATTACATATATAC
28310868 A
1 A
28310869 CTCTCTTGGC
Statistics
Matches: 412, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
141 128 0.31
143 4 0.01
145 184 0.45
147 3 0.01
149 43 0.10
151 50 0.12
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (145 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATTACATATATAC
Found at i:28442704 original size:17 final size:17
Alignment explanation
Indices: 28442682--28442716 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
28442672 CATAGATATT
28442682 AACTAACACAAAAATAA
1 AACTAACACAAAAATAA
**
28442699 AACTAATGCAAAAATAA
1 AACTAACACAAAAATAA
28442716 A
1 A
28442717 TACATAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (17 bp):
AACTAACACAAAAATAA
Found at i:28451155 original size:69 final size:69
Alignment explanation
Indices: 28451017--28451186 Score: 214
Period size: 69 Copynumber: 2.4 Consensus size: 69
28451007 TGATTCCGCC
* * * * *
28451017 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTTAGTGCTGATTCCACCATATT
1 AAGGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GGTTGCTAAGTGCTGATCCCACCATATC
28451082 TTAAATGTGA
60 TTAAATGTGA
* *
28451092 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATCCCACCGTATCTTAAAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATCCCACCATATCTTAAAT
28451157 GTGA
66 GTGA
*
28451161 AAGGGGTTGTTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
28451187 GATTCACTGG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
69 58 0.67
70 2 0.02
71 2 0.02
75 24 0.28
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (69 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATCCCACCATATCTTAAAT
GTGA
Found at i:28455721 original size:23 final size:23
Alignment explanation
Indices: 28455695--28455740 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
28455685 ACTGGTGAAC
28455695 TCAGTGTTCTCGTCTTAACAATA
1 TCAGTGTTCTCGTCTTAACAATA
28455718 TCAGTGTTCTCGTCTTAACAATA
1 TCAGTGTTCTCGTCTTAACAATA
28455741 GTTAAACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (23 bp):
TCAGTGTTCTCGTCTTAACAATA
Found at i:28466836 original size:69 final size:69
Alignment explanation
Indices: 28466751--28466894 Score: 225
Period size: 69 Copynumber: 2.1 Consensus size: 69
28466741 TATTATCTTC
* * *
28466751 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCGAAATAGAGACCCCAAATACGG
1 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAAAGACCCCAAATACAG
28466816 AAGA
66 AAGA
* * * *
28466820 AAGTAATTTTTTTTATTTAAAAAACTTTGTGAGCCAGATAATCAAAATAAAGACCCTAAATACAG
1 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAAAGACCCCAAATACAG
28466885 AAGA
66 AAGA
28466889 AAGTAA
1 AAGTAA
28466895 ATCAACACAC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (69 bp):
AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAAAGACCCCAAATACAG
AAGA
Found at i:28470741 original size:20 final size:20
Alignment explanation
Indices: 28470699--28470741 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
28470689 CTAACCAAAG
** *
28470699 ATATACTATAAATATTAATA
1 ATATACTATAAATAGAAAAA
28470719 ATATACTATAAATAGAAAAA
1 ATATACTATAAATAGAAAAA
28470739 ATA
1 ATA
28470742 AATGCAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATACTATAAATAGAAAAA
Found at i:28478286 original size:15 final size:15
Alignment explanation
Indices: 28478266--28478300 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
28478256 ATTGACAATG
28478266 TTCTCAGTAGATTCT
1 TTCTCAGTAGATTCT
**
28478281 TTCTCAGTATTTTCT
1 TTCTCAGTAGATTCT
28478296 TTCTC
1 TTCTC
28478301 GGCCTTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.54
Consensus pattern (15 bp):
TTCTCAGTAGATTCT
Found at i:28487522 original size:16 final size:16
Alignment explanation
Indices: 28487501--28487532 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28487491 GTTTTCTTGC
*
28487501 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
28487517 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
28487533 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:28487818 original size:51 final size:51
Alignment explanation
Indices: 28487760--28487946 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 51
28487750 TCGGTTCACA
* * *
28487760 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * * * * *
28487811 TAGTAGCCTACCCATAATACTACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
* * *
28487862 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
*
28487912 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
28487947 AAATTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 2 0.02
50 40 0.36
51 65 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:28490390 original size:20 final size:20
Alignment explanation
Indices: 28490365--28490403 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
28490355 TACTTTCTTC
28490365 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
28490385 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
28490404 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:28490743 original size:50 final size:50
Alignment explanation
Indices: 28490603--28490795 Score: 151
Period size: 50 Copynumber: 3.9 Consensus size: 50
28490593 TAATAACATG
* * * ** *
28490603 CCAAAGCCATGTCCCAGACATGTTCTTACATGGGATGTTTC-T-T-GTACTA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCG-A-TA
* * * * * ** *
28490652 CAAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATC-AGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGA-TA
* * *
28490702 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGATA
* * *
28490752 CCAACGCCATGTCCTAGACATGGTCTTATGTGGGACCTCTCATA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
28490796 ACCTCAATAA
Statistics
Matches: 112, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 32 0.29
50 78 0.70
51 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGATA
Found at i:28493831 original size:9 final size:9
Alignment explanation
Indices: 28493817--28493844 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
28493807 TGCAACTGAG
28493817 CTTTCAATT
1 CTTTCAATT
28493826 CTTTCAATT
1 CTTTCAATT
28493835 CTTTCAATT
1 CTTTCAATT
28493844 C
1 C
28493845 CAATGGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (9 bp):
CTTTCAATT
Found at i:28512217 original size:79 final size:82
Alignment explanation
Indices: 28512106--28512290 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
28512096 GCTACTCGTT
* * *
28512106 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28512169 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
28512186 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28512249 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
28512266 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28512291 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:28512290 original size:40 final size:40
Alignment explanation
Indices: 28512087--28512290 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
28512077 CGGAATTTAA
** *
28512087 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28512127 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28512167 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28512206 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
28512246 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28512286 CCGGA
1 CCGGA
28512291 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28520115 original size:79 final size:81
Alignment explanation
Indices: 28519991--28520174 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
28519981 GCTACTCGTT
* *
28519991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
28520054 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
28520070 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
28520133 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
28520150 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28520175 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:28520174 original size:40 final size:40
Alignment explanation
Indices: 28519972--28520174 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
28519962 CGGAATTTAA
** *
28519972 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28520012 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28520051 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28520090 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
28520130 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28520170 CCGGA
1 CCGGA
28520175 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28538497 original size:5 final size:5
Alignment explanation
Indices: 28538487--28538538 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
28538477 AGAAGAGGGA
28538487 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA- AGAAAG AAAA- AGAAAG -AAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG A-AAAG AAAAG
28538536 AAA
1 AAA
28538539 GGAGGAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 6 0.14
5 35 0.83
6 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:28545409 original size:6 final size:6
Alignment explanation
Indices: 28545393--28545433 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
28545383 GGAGAAGAAG
28545393 GAAAAA G-AAAA GAAAAA -AAAAA GAAAAA GAAAGAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA
28545434 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
7 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:28545409 original size:11 final size:11
Alignment explanation
Indices: 28545393--28545424 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
28545383 GGAGAAGAAG
28545393 GAAAAAGAAAA
1 GAAAAAGAAAA
*
28545404 GAAAAAAAAAA
1 GAAAAAGAAAA
28545415 GAAAAAGAAA
1 GAAAAAGAAA
28545425 GAAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:28545425 original size:21 final size:22
Alignment explanation
Indices: 28545393--28545434 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
28545383 GGAGAAGAAG
28545393 GAAAAAGAAAAGAAAAAAAAAA
1 GAAAAAGAAAAGAAAAAAAAAA
*
28545415 GAAAAAG-AAAGAAGAAAAAA
1 GAAAAAGAAAAGAAAAAAAAA
28545435 TTTAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
GAAAAAGAAAAGAAAAAAAAAA
Found at i:28547966 original size:28 final size:28
Alignment explanation
Indices: 28547902--28548052 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
28547892 ATATTAAGTC
*
28547902 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
28547929 TGCACTCTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
28547957 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
28547985 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
28548013 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
28548042 CGCACACTTAG
1 CGCACACTTAG
28548053 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 20 0.18
28 75 0.68
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28558505 original size:28 final size:28
Alignment explanation
Indices: 28558442--28558513 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
28558432 ATTGTTTTGG
* *
28558442 CAGACTTCCACATTTAAGATCATACTGA
1 CAGACTTCCACGTTTAAGATCATACTAA
* * * * *
28558470 CGGGCTTCCATGTTTAAGATCGTCCTAA
1 CAGACTTCCACGTTTAAGATCATACTAA
28558498 CAGACTTCCACGTTTA
1 CAGACTTCCACGTTTA
28558514 TGGTAATGCC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CAGACTTCCACGTTTAAGATCATACTAA
Found at i:28560008 original size:9 final size:9
Alignment explanation
Indices: 28559994--28560030 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
28559984 TTAAATCATG
28559994 ATTATGTTA
1 ATTATGTTA
28560003 ATTATGTTA
1 ATTATGTTA
28560012 ATTATGTTA
1 ATTATGTTA
*
28560021 ATTAAGTTA
1 ATTATGTTA
28560030 A
1 A
28560031 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (9 bp):
ATTATGTTA
Found at i:28563137 original size:72 final size:72
Alignment explanation
Indices: 28563020--28563185 Score: 298
Period size: 72 Copynumber: 2.3 Consensus size: 72
28563010 GATACCTAGG
*
28563020 TTAAGTATTGATACCGTATTTAACTTTGGTGTTTTGAAAATCAAGTTAAAATACTCAAGTATCGA
1 TTAAGTATTGATACCGTATTTAGCTTTGGTGTTTTGAAAATCAAGTTAAAATACTCAAGTATCGA
28563085 AACCAAT
66 AACCAAT
*
28563092 TTAAGTATTGATACAGTATTTAGCTTTGGTGTTTTGAAAATCAAGTTAAAATACTCAAGTATCGA
1 TTAAGTATTGATACCGTATTTAGCTTTGGTGTTTTGAAAATCAAGTTAAAATACTCAAGTATCGA
28563157 AACCAAT
66 AACCAAT
*
28563164 TTAAGTATTAATACCGT-TTTAG
1 TTAAGTATTGATACCGTATTTAG
28563186 AATTTTTCAA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 5 0.06
72 85 0.94
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (72 bp):
TTAAGTATTGATACCGTATTTAGCTTTGGTGTTTTGAAAATCAAGTTAAAATACTCAAGTATCGA
AACCAAT
Found at i:28570995 original size:28 final size:28
Alignment explanation
Indices: 28570942--28571022 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
28570932 TCTAAGGGCA
*
28570942 TTCGATCATTTTA-CCTTACAG-GGGTAC
1 TTCGGTCATTTTACCCTT-CAGAGGGTAC
*
28570969 TTCGGTCATTTTACCCTTCAGAGGGTAT
1 TTCGGTCATTTTACCCTTCAGAGGGTAC
* *
28570997 TTTGGTCAATTTACCCTTCA-AGGGTA
1 TTCGGTCATTTTACCCTTCAGAGGGTA
28571023 TTTCAGCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.44
28 27 0.56
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (28 bp):
TTCGGTCATTTTACCCTTCAGAGGGTAC
Found at i:28594549 original size:15 final size:15
Alignment explanation
Indices: 28594529--28594563 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
28594519 GCTGAATATA
*
28594529 ATAATTATAATAATT
1 ATAATTACAATAATT
*
28594544 ATAATTACCATAATT
1 ATAATTACAATAATT
28594559 ATAAT
1 ATAAT
28594564 ATTGTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTACAATAATT
Found at i:28597141 original size:27 final size:28
Alignment explanation
Indices: 28597063--28597212 Score: 214
Period size: 27 Copynumber: 5.4 Consensus size: 28
28597053 GAGATTGGCG
* * * *
28597063 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
28597092 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28597120 CTAAGTGTGC-AGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28597147 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28597175 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28597202 CTGAGTGTGCG
1 CTAAGTGTGCG
28597213 GACTTAATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 51 0.45
28 47 0.42
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:28597152 original size:55 final size:55
Alignment explanation
Indices: 28597088--28597212 Score: 207
Period size: 55 Copynumber: 2.3 Consensus size: 55
28597078 TAAATTGTAC
* *
28597088 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGC-AGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATAT
28597143 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
28597198 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28597213 GACTTAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
55 64 0.97
56 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:28602690 original size:40 final size:40
Alignment explanation
Indices: 28602644--28602858 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
28602634 AGCTCTCGTT
* *
28602644 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
28602684 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
28602724 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGT-A-TC-C-
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
28602758 CAAATGCCTTC-GGA-TTAGTCCGGATATA-T--CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
28602793 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
28602834 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28602859 CATCATTCAA
Statistics
Matches: 154, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
33 15 0.10
34 14 0.09
35 15 0.10
36 2 0.01
37 14 0.09
38 5 0.03
39 11 0.07
40 67 0.44
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:28610707 original size:76 final size:77
Alignment explanation
Indices: 28610566--28610786 Score: 209
Period size: 76 Copynumber: 2.8 Consensus size: 77
28610556 GCTCCTCGTT
28610566 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACATA-CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
28610631 ATTTAGTAACTCGCA
64 ATAT-GCAACTCGCA
* * **
28610646 CAAATGCCTTCGGACTTA-CCGGATT-TAGTATC-CGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGACATACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
28610707 ATATGCATCTCGCA
64 ATATGCAACTCGCA
* * * * * * *
28610721 CAAATGCCTTCGAATCTTAGCCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CATA-CCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
28610785 GA
63 GA
28610787 CATCATTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
75 24 0.20
76 30 0.25
77 11 0.09
78 10 0.08
79 22 0.19
80 21 0.18
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGCAACTCGCA
Found at i:28610721 original size:39 final size:39
Alignment explanation
Indices: 28610566--28610786 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 39
28610556 GCTCCTCGTT
* * *
28610566 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTATCTCGCA
* * *
28610606 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTATCTCGCA
*
28610646 CAAATGCCTTCGGACTTA--CCGGATTTAGTATC-CGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATAGTATCTCGCA
* *
28610682 CAAATGCCTTCGGATCTTAGTCCGGATAT-GCATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTATCTCGCA
* * *
28610721 CAAATGCCTTCGAATCTTAGCCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGT-ATC-TCGCA
28610762 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
28610787 CATCATTCAA
Statistics
Matches: 161, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
36 18 0.11
37 17 0.11
38 4 0.02
39 45 0.28
40 66 0.41
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTATCTCGCA
Found at i:28616268 original size:20 final size:20
Alignment explanation
Indices: 28616243--28616280 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28616233 TATTAAAGGG
* *
28616243 GTGTTTTATGTTTAAAAAGA
1 GTGTTTTAGGGTTAAAAAGA
28616263 GTGTTTTAGGGTTAAAAA
1 GTGTTTTAGGGTTAAAAA
28616281 TTGGGTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (20 bp):
GTGTTTTAGGGTTAAAAAGA
Found at i:28623265 original size:14 final size:14
Alignment explanation
Indices: 28623246--28623275 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
28623236 ATTTTTCTTA
28623246 TAGTCAACAAAATC
1 TAGTCAACAAAATC
28623260 TAGTCAACAAAATC
1 TAGTCAACAAAATC
28623274 TA
1 TA
28623276 AGTGTGGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (14 bp):
TAGTCAACAAAATC
Found at i:28625793 original size:18 final size:19
Alignment explanation
Indices: 28625770--28625805 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
28625760 TCCCTTAATG
28625770 ATTAGATTCTCAA-AATCC
1 ATTAGATTCTCAATAATCC
*
28625788 ATTAGATTGTCAATAATC
1 ATTAGATTCTCAATAATC
28625806 GTAGCAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
ATTAGATTCTCAATAATCC
Found at i:28645427 original size:14 final size:14
Alignment explanation
Indices: 28645408--28645434 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28645398 TATAATAAGA
28645408 AAAGAAATCAAAAT
1 AAAGAAATCAAAAT
28645422 AAAGAAATCAAAA
1 AAAGAAATCAAAA
28645435 AATAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAGAAATCAAAAT
Found at i:28655669 original size:20 final size:20
Alignment explanation
Indices: 28655599--28655663 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
28655589 TACGGGATTT
28655599 ACACTTCGGTGTCCCTGTTC
1 ACACTTCGGTGTCCCTGTTC
* *
28655619 ACACTTCGGTGCCCCTATAT-
1 ACACTTCGGTGTCCCTGT-TC
28655639 ACACTTCGGTGTCCCTGTTC
1 ACACTTCGGTGTCCCTGTTC
28655659 ACACT
1 ACACT
28655664 ATGGTGCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.32
Consensus pattern (20 bp):
ACACTTCGGTGTCCCTGTTC
Found at i:28657340 original size:111 final size:111
Alignment explanation
Indices: 28657146--28657363 Score: 310
Period size: 111 Copynumber: 2.0 Consensus size: 111
28657136 CGACCTAGCG
* * * *
28657146 CACGGGCGTGTGGTTTGGCCATGTGACCAAACTCAAAGAGTTACATGGGTGACGACACGGGTAAG
1 CACGGGCGTATGGTTTGGCCATGTGACCAAACTCAAAGAGTTACACGGGTAACGACACGGATAAG
* * *
28657211 GACAGAAGCTAGGACATGAACTTGTGTCCTTATTTCGATTGTGGCA
66 GACACAAGCTAGGACATGAACGTGTGTCCTTACTTCGATTGTGGCA
* * * * *
28657257 CACGGGCGTATGGTTTGGCCGTGTGACCAAACTCAGAGAGTTACACGGGTAAGGACTCGGATGAG
1 CACGGGCGTATGGTTTGGCCATGTGACCAAACTCAAAGAGTTACACGGGTAACGACACGGATAAG
* *
28657322 GACACAAGTTGGGACATGAACGTGTGTCCTTACTTCGATTGT
66 GACACAAGCTAGGACATGAACGTGTGTCCTTACTTCGATTGT
28657364 TACACGGCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (111 bp):
CACGGGCGTATGGTTTGGCCATGTGACCAAACTCAAAGAGTTACACGGGTAACGACACGGATAAG
GACACAAGCTAGGACATGAACGTGTGTCCTTACTTCGATTGTGGCA
Found at i:28659325 original size:26 final size:25
Alignment explanation
Indices: 28659265--28659339 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
28659255 TGAGGTCAGG
*
28659265 CGAGCTGGTGTTCGTAGTAGGACTGG
1 CGAGCTGGTGTTCGTAGTAGG-CTGA
* * * *
28659291 TGAGTTGGTATTTGTAGTAGGCTTGA
1 CGAGCTGGTGTTCGTAGTAGGC-TGA
28659317 CGAGCTGGTGTTCGTCAGTAGGC
1 CGAGCTGGTGTTCGT-AGTAGGC
28659340 CAGACAAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.79
27 7 0.18
ACGTcount: A:0.16, C:0.13, G:0.39, T:0.32
Consensus pattern (25 bp):
CGAGCTGGTGTTCGTAGTAGGCTGA
Found at i:28671157 original size:30 final size:30
Alignment explanation
Indices: 28671121--28671190 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
28671111 TGTCGCATGG
28671121 CCGTGTGTCACACACAGCTAAGTCACACGC
1 CCGTGTGTCACACACAGCTAAGTCACACGC
* *
28671151 CCGTGTGTCACACCCGGCTAAGTCACACGC
1 CCGTGTGTCACACACAGCTAAGTCACACGC
*
28671181 CTGTGTGTCA
1 CCGTGTGTCA
28671191 GGCCGTATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCTAAGTCACACGC
Found at i:28675583 original size:27 final size:27
Alignment explanation
Indices: 28675552--28675697 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 27
28675542 CCCAATATTT
* * *
28675552 GTAAAATGACCGTAATA-CCTCTGTAGG
1 GTAAAATGATCGAAATACCCTC-GAAGG
*
28675579 GTAAAATGATCGAAATACCCTCGAACG
1 GTAAAATGATCGAAATACCCTCGAAGG
* *
28675606 GTAAAATGATTGAAATACCCCCGAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
*
28675633 GTAAAATGATCGAAATACCCTCAAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
* * *
28675660 GTAAAATGACCAAAATACCCTCAAAGG
1 GTAAAATGATCGAAATACCCTCGAAGG
28675687 GTAAAATGATC
1 GTAAAATGATC
28675698 AAAAAATCCC
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 101 0.96
28 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (27 bp):
GTAAAATGATCGAAATACCCTCGAAGG
Found at i:28675700 original size:27 final size:27
Alignment explanation
Indices: 28675576--28675787 Score: 187
Period size: 27 Copynumber: 7.9 Consensus size: 27
28675566 ATACCTCTGT
*
28675576 AGGGTAAAATGATCGAAATACCCTCGA
1 AGGGTAAAATGATCGAAATACCCTCAA
* * * *
28675603 ACGGTAAAATGATTGAAATACCCCCGA
1 AGGGTAAAATGATCGAAATACCCTCAA
28675630 AGGGTAAAATGATCGAAATACCCTCAA
1 AGGGTAAAATGATCGAAATACCCTCAA
* *
28675657 AGGGTAAAATGACCAAAATACCCTCAA
1 AGGGTAAAATGATCGAAATACCCTCAA
* * *
28675684 AGGGTAAAATGATCAAAAAATCCC-CAT
1 AGGGTAAAATGATCGAAATA-CCCTCAA
* * * * *
28675711 AGGGCAAAATGGTCGTAATGCCC-CTAT
1 AGGGTAAAATGATCGAAATACCCTC-AA
* * * * *
28675738 AGAGTAAAATGATTGTAATACCCTTAT
1 AGGGTAAAATGATCGAAATACCCTCAA
*
28675765 AGGGTTAAATGA-CTGAAATACCC
1 AGGGTAAAATGATC-GAAATACCC
28675788 CTATAAGGTA
Statistics
Matches: 153, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 146 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (27 bp):
AGGGTAAAATGATCGAAATACCCTCAA
Found at i:28675792 original size:27 final size:27
Alignment explanation
Indices: 28675552--28675801 Score: 140
Period size: 27 Copynumber: 9.3 Consensus size: 27
28675542 CCCAATATTT
* * * *
28675552 GTAAAATGACCGTAATACCTCTGTAGG
1 GTAAAATGACTGAAATACCCCTATAGG
* *
28675579 GTAAAATGA-TCGAAATACCCTCGA-ACG
1 GTAAAATGACT-GAAATACCC-CTATAGG
* *
28675606 GTAAAATGATTGAAATACCCCCGA-AGG
1 GTAAAATGACTGAAATA-CCCCTATAGG
*
28675633 GTAAAATGA-TCGAAATA-CCCTCAAAGG
1 GTAAAATGACT-GAAATACCCCT-ATAGG
** *
28675660 GTAAAATGACCAAAATA-CCCTCAAAGG
1 GTAAAATGACTGAAATACCCCT-ATAGG
* *
28675687 GTAAAATGA-TCAAAAAATCCCC-ATAGG
1 GTAAAATGACT-GAAATA-CCCCTATAGG
* * * * *
28675714 GCAAAATG-GTCGTAATGCCCCTATAGA
1 GTAAAATGACT-GAAATACCCCTATAGG
* * *
28675741 GTAAAATGATTGTAATACCCTTATAGG
1 GTAAAATGACTGAAATACCCCTATAGG
* *
28675768 GTTAAATGACTGAAATACCCCTATAAG
1 GTAAAATGACTGAAATACCCCTATAGG
28675795 GTAAAAT
1 GTAAAAT
28675802 ATCCGTAATG
Statistics
Matches: 179, Mismatches: 30, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
25 3 0.02
26 6 0.03
27 161 0.90
28 6 0.03
29 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (27 bp):
GTAAAATGACTGAAATACCCCTATAGG
Found at i:28675920 original size:24 final size:24
Alignment explanation
Indices: 28675849--28675945 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
28675839 CCCTCGAGTG
* *
28675849 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACTGATTTGTCTGTGATT
** *
28675873 TAAATGAGGGATTTATCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
28675897 TAAATGACTAATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*** * *
28675921 GGTATAACTGATTTGTCTATGATT
1 TAAATGACTGATTTGTCTGTGATT
28675945 T
1 T
28675946 GTATTACTGA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:28675949 original size:24 final size:24
Alignment explanation
Indices: 28675907--28675957 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
28675897 TAAATGACTA
*
28675907 ATTTGTCTGTGATTGGTATAACTG
1 ATTTGTCTATGATTGGTATAACTG
* *
28675931 ATTTGTCTATGATTTGTATTACTG
1 ATTTGTCTATGATTGGTATAACTG
28675955 ATT
1 ATT
28675958 CTGAGCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.51
Consensus pattern (24 bp):
ATTTGTCTATGATTGGTATAACTG
Found at i:28676106 original size:26 final size:26
Alignment explanation
Indices: 28676073--28676130 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
28676063 TTGGCCACAT
* * *
28676073 ATACTATTACGGGCAGCTTTGTTGTG
1 ATACTATTACGAGCAGCTTTGCTGCG
* *
28676099 ATACTATTGCTAGCAGCTTTGCTGCG
1 ATACTATTACGAGCAGCTTTGCTGCG
28676125 ATACTA
1 ATACTA
28676131 CTGATGGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTATTACGAGCAGCTTTGCTGCG
Found at i:28676170 original size:32 final size:32
Alignment explanation
Indices: 28676129--28676298 Score: 195
Period size: 32 Copynumber: 5.4 Consensus size: 32
28676119 GCTGCGATAC
**
28676129 TACTGATGGCTTTGTGTTGATCATATTA-TCGT
1 TACTGATGGCTTTGTGCCGATCATATTACT-GT
28676161 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
28676193 TACTAATGGCTTTGTGCCGATCATATTACCG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * * *
28676224 CACTGATAG-TTGTGTGCCGGTCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATTACTGT
*
28676256 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
28676287 TACTTATGGCTT
1 TACTGATGGCTT
28676299 GTAGCCATTC
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.02
31 33 0.28
32 80 0.68
33 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:28676265 original size:63 final size:64
Alignment explanation
Indices: 28676128--28676284 Score: 201
Period size: 63 Copynumber: 2.5 Consensus size: 64
28676118 TGCTGCGATA
** * * * *
28676128 CTACTGATGGCTTTGTGTTGATCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACTG
1 CTACTGATGGCTTTGTGCCGATCATATTACCGTCACTGATAGCTTTGTGCCGATCATATCACTG
* * *
28676192 TTACTAATGGCTTTGTGCCGATCATATTACCG-CACTGATAG-TTGTGTGCCGGTCATATCACTG
1 CTACTGATGGCTTTGTGCCGATCATATTACCGTCACTGATAGCTT-TGTGCCGATCATATCACTG
*
28676255 CTACTGATGGCTTTGTGCCAATCATATTAC
1 CTACTGATGGCTTTGTGCCGATCATATTAC
28676285 TGTACTTATG
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.03
63 51 0.64
64 27 0.34
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (64 bp):
CTACTGATGGCTTTGTGCCGATCATATTACCGTCACTGATAGCTTTGTGCCGATCATATCACTG
Found at i:28676646 original size:32 final size:33
Alignment explanation
Indices: 28676586--28676647 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
28676576 GATACTGTAA
* *
28676586 TGGGCTAAGGCCCACACTACACTTTTACTGTTT
1 TGGGCTAAAGCCCACACTACACTGTTACTGTTT
*
28676619 TGGGCTAAAG-CCACACTATACTGTTACTG
1 TGGGCTAAAGCCCACACTACACTGTTACTG
28676648 GATAGGGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (33 bp):
TGGGCTAAAGCCCACACTACACTGTTACTGTTT
Done.