Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 16 of 259
Found at i:4704753 original size:13 final size:12
Alignment explanation
Indices: 4704735--4704771 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
4704725 ATCGTGTTCT
4704735 TTAGTTAATTTAA
1 TTAGTTAATTT-A
4704748 TTAGTTAATTTA
1 TTAGTTAATTTA
4704760 TTAAGTTAATTT
1 TT-AGTTAATTT
4704772 TAGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (12 bp):
TTAGTTAATTTA
Found at i:4705304 original size:28 final size:28
Alignment explanation
Indices: 4705255--4705311 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4705245 ATTATCAACT
4705255 CCATAAGTTATAAAACTCTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
* * * *
4705283 CCATAAGTTATGAGATTTTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
4705311 C
1 C
4705312 TATTAATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACC
Found at i:4705477 original size:14 final size:14
Alignment explanation
Indices: 4705437--4705477 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4705427 AAAAAGAAGA
4705437 TACACTCTCTCTTC
1 TACACTCTCTCTTC
4705451 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
4705462 TACACTCTTTCTTC
1 TACACTCTCTCTTC
4705476 TA
1 TA
4705478 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:4711194 original size:6 final size:6
Alignment explanation
Indices: 4711164--4711244 Score: 76
Period size: 6 Copynumber: 13.3 Consensus size: 6
4711154 AAAAAACATT
* *
4711164 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
4711211 GTGACAGA ATCAGA ATCAGG ATCAGA ATTAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
4711245 TAGGTGACAG
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
5 2 0.03
6 54 0.89
7 4 0.07
8 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:4711220 original size:19 final size:19
Alignment explanation
Indices: 4711196--4711266 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
4711186 GAATCAGAAT
4711196 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
4711215 CAGAATCAGAATCA-G-GA
1 CAGAATCAGAATCAGGTGA
* *
4711232 TCAGAATTAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
* *
4711252 CAGGATTAGAATCAG
1 CAGAATCAGAATCAG
4711267 AATGTGAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.04
18 13 0.29
19 28 0.62
20 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:4711228 original size:37 final size:37
Alignment explanation
Indices: 4711185--4711269 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
4711175 AATCAAAATG
4711185 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* * * * *
4711222 AGAATCAGGATCAGAATTAGAATTAGGTGACAGGATT
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
4711259 AGAATCAGAAT
1 AGAATCAGAAT
4711270 GTGAATCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:4711913 original size:27 final size:27
Alignment explanation
Indices: 4711866--4711972 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
4711856 ATTGGTCAAT
* * *
4711866 AGATA-TTGTGACAAAGTCACCAGATAC
1 AGATATTTGTGGCATAGCCACCAGA-AC
*
4711893 AGATA-TTGTGGCAGAGCCACCAGAAC
1 AGATATTTGTGGCATAGCCACCAGAAC
4711919 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCATAGCCACCAG-AAC
4711947 AGATATTTGTGGCATAGCCACCAGAA
1 AGATATTTGTGGCATAGCCACCAGAA
4711973 TGCTTCCTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.09
27 40 0.54
28 27 0.36
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
AGATATTTGTGGCATAGCCACCAGAAC
Found at i:4712256 original size:54 final size:54
Alignment explanation
Indices: 4712198--4712313 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
4712188 GGGCAAAATG
* * *
4712198 GTAATTTTACCCCACAAGGGTATCTCGA-AAATTTTACCCTACAGGAGTATTTTA
1 GTAATTCTACCCCACAAGGGTAT-TCGAGAAATTCTACCCTACAGGAGTATTTCA
* * * ** * *
4712252 GTAATTCTATCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGAGTATTTCA
4712306 GTAATTCT
1 GTAATTCT
4712314 GTAAATCGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGAGTATTTCA
Found at i:4712257 original size:27 final size:27
Alignment explanation
Indices: 4712227--4712313 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
4712217 GTATCTCGAA
* *
4712227 AATTTTACCCTACAGGAGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
*
4712254 AATTCTATCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
*
4712281 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTTAGT
4712308 AATTCT
1 AATTCT
4712314 GTAAATCGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTTAGT
Found at i:4712326 original size:27 final size:27
Alignment explanation
Indices: 4712304--4712786 Score: 538
Period size: 27 Copynumber: 17.9 Consensus size: 27
4712294 AGGGGTATTT
4712304 CAGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
4712331 CAGTAATTCTGTAAA-CTGAGGGTAAAA
1 CAGTAATTCTGTAAATC-GAGGGTAAAA
* * *
4712358 CAGTAATTTTGTAAACCGAGGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
4712385 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
4712412 -AGATAATTCTGTAAATCGAGGGTAAAA
1 CAG-TAATTCTGTAAATCGAGGGTAAAA
* *
4712439 TAGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4712466 CGGTAATTCTGTAAACCAAGGGTAAAC
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4712493 CAATAATTCTATAAATCGATGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4712520 CAGTAATTTTATAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
4712547 CGGTAATTCTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * ** * *
4712574 CGGTAATTCTATAAATAAATGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
*
4712601 CAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * *
4712628 CGGTAATTCTGTAAATTGAGAGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
4712655 CAGTAATTCTGTAAATCAATGGCAAAG
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4712682 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* * * * *
4712709 CGGTAATTTTGTAAATCAATGGCAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
** *
4712736 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTGTAAATCGAGGGTAAAA
* *
4712763 CGGTAATTCTGTAAATTGAGGGTA
1 CAGTAATTCTGTAAATCGAGGGTA
4712787 CTTTGGTAAT
Statistics
Matches: 385, Mismatches: 67, Indels: 8
0.84 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 380 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:4712799 original size:81 final size:81
Alignment explanation
Indices: 4712306--4712786 Score: 597
Period size: 81 Copynumber: 5.9 Consensus size: 81
4712296 GGGTATTTCA
4712306 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACAGTAATTTTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTTTGT
* * *
4712370 AAACCGAGGGCAAAATG
65 AAATCGAGGGTAAAACG
* * *
4712387 GTAATTTTGTAAATCGAGGGTAAAA-AGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGT
*
4712451 AAATTGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * * * * *
4712468 GTAATTCTGTAAACCAAGGGTAAACCAATAATTCTATAAATCGATGGTAAAACAGTAATTTTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTA
4712533 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * ** * *
4712549 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATAAATGGCAAAACAGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTA
4712614 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * * * * *
4712630 GTAATTCTGTAAATTGAGAGTAAAACAGTAATTCTGTAAATCAATGGCAAAGCGGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTA
4712695 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * * ** * * *
4712711 GTAATTTTGTAAATCAATGGCAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTA
*
4712776 AATTGAGGGTA
66 AATCGAGGGTA
4712787 CTTTGGTAAT
Statistics
Matches: 348, Mismatches: 49, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
80 2 0.01
81 344 0.99
82 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTA
AATCGAGGGTAAAACG
Found at i:4714619 original size:25 final size:25
Alignment explanation
Indices: 4714591--4714639 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4714581 ATATATATCA
4714591 TAAA-ATAACACATAAAAGAAATAAT
1 TAAACATAACACATAAAA-AAATAAT
* *
4714616 TAAACATAGCATATAAAAAAATAA
1 TAAACATAACACATAAAAAAATAA
4714640 AACTATGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.20
Consensus pattern (25 bp):
TAAACATAACACATAAAAAAATAAT
Found at i:4715158 original size:22 final size:21
Alignment explanation
Indices: 4715128--4715174 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4715118 TACAAATTAA
4715128 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
4715150 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
4715171 ATCT
1 ATCT
4715175 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:4715180 original size:19 final size:19
Alignment explanation
Indices: 4715145--4715204 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
4715135 AGATTACAAG
4715145 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
4715166 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
4715183 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
4715202 ATC
1 ATC
4715205 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:4715782 original size:44 final size:43
Alignment explanation
Indices: 4715721--4715968 Score: 119
Period size: 44 Copynumber: 5.6 Consensus size: 43
4715711 ATCTTCAACT
* *
4715721 TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATC
1 TGTTCACTGTAAACACAGGGATGCCATGCTGAAATCTTCGATC
* * * **
4715764 TGCTTCACTGTAAGCACAGGAATGTCA-GATCTGCTATGTCTTCGATC
1 TG-TTCACTGTAAACACAGGGATGCCATG--CTG--AAATCTTCGATC
* * ** * *
4715811 TGTTCCCTGTAAACATAGGGATGCCAAAT-CTGCTACCTTC-AAC
1 TGTTCACTGTAAACACAGGGATGCC--ATGCTGAAATCTTCGATC
* * * * *
4715854 TTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTGATC
1 -TGTTCACTGTAAACACAGGGATGCCATGCTGAAATCTTCGATC
* * * * *
4715898 TGCTCCACTGTAAGCACAGGAATGTCA-GATCT-ACTATGTCTTCGATC
1 TG-TTCACTGTAAACACAGGGATGCCATG--CTGA--A-ATCTTCGATC
*
4715945 TGTTCCCTGTAAACACAGGGATGC
1 TGTTCACTGTAAACACAGGGATGC
4715969 AAAATCATCT
Statistics
Matches: 149, Mismatches: 39, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
42 2 0.01
43 13 0.09
44 68 0.46
45 4 0.03
46 39 0.26
47 22 0.15
48 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
TGTTCACTGTAAACACAGGGATGCCATGCTGAAATCTTCGATC
Found at i:4715791 original size:135 final size:134
Alignment explanation
Indices: 4715619--4715974 Score: 419
Period size: 134 Copynumber: 2.6 Consensus size: 134
4715609 ATGCCAAATC
* * * * * *
4715619 ATCTTGGATCTGCTTCGA-TGTAAACATATGAAGGTCAGATCTGCTATGTCTTTAATCTACTCCC
1 ATCTTCGATCTGCTTC-ACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCC
** * *
4715683 CATCGA-ATATGGAGATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
65 CATAAACATA-GG-GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
*
4715747 TGCTGAA
128 TGCTAAA
* ** *
4715754 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCC
* * *
4715819 GTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGT
66 ATAAACATAGGGATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGC
4715884 TAAA
131 TAAA
* * * * ** *
4715888 ATCTTTGATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCCCT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCC
* * *
4715953 GTAAACACAGGGATGCAAAATC
66 ATAAACATAGGGATGCCAAATC
4715975 ATCTTGGATC
Statistics
Matches: 196, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
134 136 0.69
135 57 0.29
136 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (134 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTACTCCCC
ATAAACATAGGGATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGC
TAAA
Found at i:4715874 original size:134 final size:134
Alignment explanation
Indices: 4715696--4715974 Score: 468
Period size: 134 Copynumber: 2.1 Consensus size: 134
4715686 CGAATATGGA
* * *
4715696 GATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCG
* *
4715761 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCCCTGTAAACA
*
4715826 TAGG
131 CAGG
* * *
4715830 GATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTG
1 GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCG
4715895 ATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCCCTGTAAACA
66 ATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCCCTGTAAACA
4715960 CAGG
131 CAGG
*
4715964 GATGCAAAATC
1 GATGCCAAATC
4715975 ATCTTGGATC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (134 bp):
GATGCCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCG
ATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTGTTCCCTGTAAACA
CAGG
Found at i:4716172 original size:353 final size:350
Alignment explanation
Indices: 4715608--4716545 Score: 928
Period size: 353 Copynumber: 2.7 Consensus size: 350
4715598 TCAATACCAA
* * *
4715608 GATGCCAAATCATCTTGGATCTGCTTCGATGTAAACATATGAAGGTCAGATCTGCTATGTCTTTA
1 GATGCAAAATCATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGTCTTCA
*
4715673 ATCTACTCCCCATCGAATATGGAGATGCCGAATCTACTATCTTCAACTTGTTCCCTATAAACACA
66 ATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACA
* * * * *
4715738 GGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATGT
131 GAGATGCAATGC---AATCTTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTATGT
* *
4715803 CTTCGATCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAA
193 CTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAA
* * * * * *
4715868 CACAGGGATGCCATGTTAAAATCTTTGATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTACT
258 CACAGGGATGCCATGCTAAAATCTTCGATCTGCTCC-CTATAAACACAGGAATGCCAAATCTACT
* *
4715933 ATGTCTTCGA-TCTGTTCCCTGTAAACACAGG
322 A--TCTTCAACT-TGTTCCCTATAAACACAGG
4715964 GATGCAAAATCATCTTGGATCTGCTTCAATGTGAAA-ATATCCGAAGGTCAGATCTGCTATGTCT
1 GATGCAAAATCATCTTGGATCTGCTTCAATGT-AAACATAT--GAAGGTCAGATCTGCTATGTCT
* * * * * * * * *
4716028 TCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT-GTTTCTTCAATTTGTTCTCTGA-CAA
63 TCAATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCT-ATAAA
* * * * * **
4716091 TATAGAGTTGCAAAT-C-ATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTAT
127 CACAGAGATGC-AATGCAATCTTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTAT
* * *
4716154 GTCTTTAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTATA
191 GTCTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATA
* * * *
4716219 AACACAGGGATGCCATGCTGAAATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
256 AACACAGGGATGCCATGCTAAAATCTTCGATCTGCTCCCTATAAACACAGGAATGCCAAATCTAC
4716284 TATCTTCAACTTGTTCCCTATAAACACAGG
321 TATCTTCAACTTGTTCCCTATAAACACAGG
*** * * ** * * * * *
4716314 GATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTA--TCT
1 GATG-CAAAAT--CATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGTCT
* ** * * * * * *
4716377 TCGATCTGTTCCCTAT-AAACACAGG-GATGCCAAATCTGCTATCTTCAACTTGTTCCCCATAAA
63 TCAATCTACTCCCCATCGAATA-TGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAA
* * * * * * *
4716440 CACAGGGATGCCATGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTG-T
127 CACAGAGATGCAATGC---AATCTTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCT
* ** * * * *
4716504 -TATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAAATCT
189 ATGTCTTCAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCT
4716546 TGCTTCTTTG
Statistics
Matches: 477, Mismatches: 87, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
348 18 0.04
349 41 0.09
350 28 0.06
351 55 0.12
352 26 0.05
353 189 0.40
356 34 0.07
357 29 0.06
358 57 0.12
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (350 bp):
GATGCAAAATCATCTTGGATCTGCTTCAATGTAAACATATGAAGGTCAGATCTGCTATGTCTTCA
ATCTACTCCCCATCGAATATGGAGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACA
GAGATGCAATGCAATCTTCGATCTACTTCACTGTAAACACAGGAAGGTCAGATCTGCTATGTCTT
CAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAAACAC
AGGGATGCCATGCTAAAATCTTCGATCTGCTCCCTATAAACACAGGAATGCCAAATCTACTATCT
TCAACTTGTTCCCTATAAACACAGG
Found at i:4716203 original size:130 final size:132
Alignment explanation
Indices: 4715970--4716212 Score: 302
Period size: 130 Copynumber: 1.9 Consensus size: 132
4715960 CAGGGATGCA
* * * *
4715970 AAATCATCTTGGATCTGCTTCAATGTGAAAATATCCGAAGGTCAGATCTGCTATGTCTTCGATCT
1 AAATCATCTTGGATCTACTTCAATGTGAAAACATCCGAAGGTCAGATCTGCTATGTCTTCAAGCT
** * *
4716035 TCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTGACAATATAGAGTT
66 TCTCTCCGTAAAATATGGAGATGCCAAATCTGTATCTTCAACTTGTTCTCTGACAATATAGAGTT
4716100 GC
131 GC
* *
4716102 AAATCATCTTGGATCTACTTC-A-GTGTAAACA-CCTGAAGGTCAGATCTGCTATGTCTTTAAGC
1 AAATCATCTTGGATCTACTTCAATGTGAAAACATCC-GAAGGTCAGATCTGCTATGTCTTCAAGC
4716164 TGT-TC-CCTGTAAACATA-GG-GATGCCAAATCTGCTATCTTCAACTTGTTC
65 T-TCTCTCC-GTAAA-ATATGGAGATGCCAAATCTG-TATCTTCAACTTGTTC
4716213 CTTATAAACA
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
129 17 0.18
130 54 0.56
131 5 0.05
132 20 0.21
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (132 bp):
AAATCATCTTGGATCTACTTCAATGTGAAAACATCCGAAGGTCAGATCTGCTATGTCTTCAAGCT
TCTCTCCGTAAAATATGGAGATGCCAAATCTGTATCTTCAACTTGTTCTCTGACAATATAGAGTT
GC
Found at i:4716228 original size:44 final size:44
Alignment explanation
Indices: 4716145--4716553 Score: 334
Period size: 44 Copynumber: 9.3 Consensus size: 44
4716135 TGAAGGTCAG
* * * *
4716145 ATCTGCTATGTCTTTAAGCTGTTCCCTGTAAACATAGGGATGCCAA
1 ATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
*
4716191 ATCTGCTATCTTCAA-CTTGTTCCTTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
** *
4716233 ATGCTGAAATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 AT-CTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
4716278 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
** ** * * * * * *
4716320 ATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
* *
4716366 ATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
*
4716410 ATCTGCTATCTTCAA-CTTGTTCCCCATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
** ** * * * * * *
4716452 ATGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
* ** *
4716498 ATCTGTTATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
4716542 ATCTTGCT-TCTT
1 ATC-TGCTATCTT
4716554 TGATCTACAT
Statistics
Matches: 292, Mismatches: 53, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
42 6 0.02
43 59 0.20
44 182 0.62
45 33 0.11
46 12 0.04
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:4716264 original size:87 final size:87
Alignment explanation
Indices: 4716163--4716452 Score: 370
Period size: 87 Copynumber: 3.3 Consensus size: 87
4716153 TGTCTTTAAG
* * *
4716163 CTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTATAAACACAGGG
1 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
4716228 ATGCCATGCTGAAATCTTCGAT
66 ATGCCATGCTGAAATCTTCGAT
4716250 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
1 CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
*
4716315 ATGCCATGCTGAAATCTTTGAT
66 ATGCCATGCTGAAATCTTCGAT
* * * * * * * *
4716337 CTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTCGA-TCTGTTCCCTATAAACACAG
1 CTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAG
** *
4716401 GGATGCCAAAT-CTGCTATCTTC-AA
64 GGATGCC--ATGCTGAAATCTTCGAT
*
4716425 CTTGTTCCCCATAAACACAGGGATGCCA
1 C-TGTTCCCTATAAACACAGGGATGCCA
4716453 TGCTGGAATC
Statistics
Matches: 176, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
87 87 0.49
88 77 0.44
89 10 0.06
90 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (87 bp):
CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGG
ATGCCATGCTGAAATCTTCGAT
Found at i:4716388 original size:219 final size:219
Alignment explanation
Indices: 4715802--4716540 Score: 649
Period size: 219 Copynumber: 3.4 Consensus size: 219
4715792 ATCTGCTATG
* *
4715802 TCTTCGATCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTACCTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * *
4715867 ACACAGGGATGCCATGTTAAAATCTTTGATCTGCTCCACTGTAAGCACAGGAATGTCAGATCTAC
66 ACACAGGGATGCCATGCT-AAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTAC
* **
4715932 TATGTCTTCGATCTGTTCCCTGTAAACACAGGGATG-CAAA-AT-C-ATCTTGGA-TCTGCTTCA
130 TA-GTCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TG-TTC-
* * **
4715992 ATGTGA-AAATATCCGAAGGTCAGAT--C-TGCT-ATG
191 CT-T-ATAAACA--C--AGG---GATGCCATGCTGAAA
* * * * * *
4716025 TCTTCGATCT-TCTCTCC-GTCGAATA-TGGAGATGCCAAATCTG-TTTCTTCAATTTGTTCTCT
1 TCTTCGATCTGT-TC-CCTGT-AAACACAGG-GATGCCAAATCTGCTATCTTCAACTTGTTCCCT
* * * * * * * * * ** *
4716086 GA-CAATATAGAGTTGCAAAT-C---ATCTTGGATCTACTTCAG-TGTAAACACCTGAAGGTCAG
62 -ATAAACACAGGGATGC-CATGCTAAATCTTTGATCTGCTTC-GCTGTAAGCACAGGAATGTCAG
* ** * *
4716145 ATCTGCTATGTCTTTAAGCTGTTCCCTGTAAACATAGGGATGCCAAATCTGCTATCTTCAACTTG
124 ATCTACTA-GTCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTG
4716210 TTCCTTATAAACACAGGGATGCCATGCTGAAA
188 TTCCTTATAAACACAGGGATGCCATGCTGAAA
*
4716242 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
4716307 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTAC
66 ACACAGGGATGCCATGCT-AAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTAC
* **
4716372 TA-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCA
130 TAGTCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTA
*
4716436 TAAACACAGGGATGCCATGCTGGAA
195 TAAACACAGGGATGCCATGCTGAAA
* * * * * * * **
4716461 TCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTTGA-TCTGTTCCCTAT
1 TCTTCGATCTG-TTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTAT
*
4716525 AAACACAAGGATGCCA
64 AAACACAGGGATGCCA
4716541 AATCTTGCTT
Statistics
Matches: 413, Mismatches: 73, Indels: 63
0.75 0.13 0.11
Matches are distributed among these distances:
213 3 0.01
215 1 0.00
216 28 0.07
217 42 0.10
218 2 0.00
219 157 0.38
220 66 0.16
221 39 0.09
222 5 0.01
223 48 0.12
224 22 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (219 bp):
TCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACT
AGTCTTCGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTTAT
AAACACAGGGATGCCATGCTGAAA
Found at i:4716402 original size:132 final size:132
Alignment explanation
Indices: 4716241--4716553 Score: 556
Period size: 132 Copynumber: 2.4 Consensus size: 132
4716231 CCATGCTGAA
*
4716241 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
4716306 AACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
66 AACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
4716371 CT
131 CT
4716373 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
* *
4716438 AACACAGGGATGCCATGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTG
66 AACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
*
4716503 TT
131 CT
* *
4716505 ATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAAATCTTGCT-TCTT
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATC-TGCTATCTT
4716554 TGATCTACAT
Statistics
Matches: 174, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
132 170 0.98
133 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (132 bp):
ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCCATA
AACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTA
CT
Found at i:4717519 original size:11 final size:11
Alignment explanation
Indices: 4717457--4717519 Score: 72
Period size: 11 Copynumber: 5.6 Consensus size: 11
4717447 GGCCTCTCCA
*
4717457 TTTTATTCTTT
1 TTTTTTTCTTT
* *
4717468 CTTTTTTCTCT
1 TTTTTTTCTTT
*
4717479 TTTTTCTCTTT
1 TTTTTTTCTTT
*
4717490 ATTTTTTCTTT
1 TTTTTTTCTTT
4717501 TTTATTTTCTTT
1 TTT-TTTTCTTT
4717513 TTTTTTT
1 TTTTTTT
4717520 GAAATAGAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 31 0.74
12 11 0.26
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:4717602 original size:7 final size:7
Alignment explanation
Indices: 4717571--4717630 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
4717561 GGCCTCTCCA
4717571 TTTTATT
1 TTTTATT
* *
4717578 CTTTCTT
1 TTTTATT
*
4717585 TTTTCTCT
1 TTTTAT-T
*
4717593 TTTT-CT
1 TTTTATT
4717599 TTTTATT
1 TTTTATT
4717606 TTTTATT
1 TTTTATT
4717613 TTTTATT
1 TTTTATT
4717620 TTCTT-TT
1 TT-TTATT
4717627 TTTT
1 TTTT
4717631 TGAAATAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
6 7 0.16
7 31 0.69
8 7 0.16
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:4717608 original size:13 final size:12
Alignment explanation
Indices: 4717592--4717631 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4717582 CTTTTTTCTC
4717592 TTTTTCTTTTTAT
1 TTTTTCTTTTT-T
*
4717605 TTTTTATTTTTT
1 TTTTTCTTTTTT
*
4717617 ATTTTCTTTTTT
1 TTTTTCTTTTTT
4717629 TTT
1 TTT
4717632 GAAATAGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:4717628 original size:114 final size:113
Alignment explanation
Indices: 4717426--4717675 Score: 457
Period size: 112 Copynumber: 2.2 Consensus size: 113
4717416 TCTCAAGGCA
*
4717426 CCCTTTGCGGATTTTCACCTTGGCCTCTCCATTTTATTCTTTCTTTTTTCTCTTTTTTCTCTTTA
1 CCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTATTCTTTCTTTTTTCTCTTTTTTCTCTTTA
*
4717491 TTTTTTCTTTTTTATTTTCTTTTTTTTTTGAAATAGAAGTCCAAAAGTG
66 TTTTTTATTTTTTATTTTC-TTTTTTTTTGAAATAGAAGTCCAAAAGTG
*
4717540 CCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTATTCTTTCTTTTTTCTC-TTTTTCTTTTTA
1 CCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTATTCTTTCTTTTTTCTCTTTTTTCTCTTTA
4717604 TTTTTTATTTTTTATTTTCTTTTTTTTTGAAATAGAAGTCCAAAAGTG
66 TTTTTTATTTTTTATTTTCTTTTTTTTTGAAATAGAAGTCCAAAAGTG
4717652 CCCTTTGCGGGTTTTCACCTTGGC
1 CCCTTTGCGGGTTTTCACCTTGGC
4717676 TTCCCTTCTC
Statistics
Matches: 133, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
112 53 0.40
113 29 0.22
114 51 0.38
ACGTcount: A:0.13, C:0.20, G:0.11, T:0.56
Consensus pattern (113 bp):
CCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTATTCTTTCTTTTTTCTCTTTTTTCTCTTTA
TTTTTTATTTTTTATTTTCTTTTTTTTTGAAATAGAAGTCCAAAAGTG
Found at i:4722748 original size:24 final size:25
Alignment explanation
Indices: 4722720--4722770 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
4722710 AACAATATAT
4722720 ATAA-TAAA-ATAGCACATAAAAGAA
1 ATAATTAAACATAGCACATAAAA-AA
*
4722744 ATAATTAAACATAGCATATAAAAAA
1 ATAATTAAACATAGCACATAAAAAA
4722769 AT
1 AT
4722771 GAAACTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 8 0.33
26 12 0.50
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.22
Consensus pattern (25 bp):
ATAATTAAACATAGCACATAAAAAA
Found at i:4723316 original size:19 final size:19
Alignment explanation
Indices: 4723282--4723379 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
4723272 AGATTACAAG
4723282 ATCATATCTTTAAGATTGCAT
1 ATCATATC--TAAGATTGCAT
4723303 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
4723322 ATCATAACTAAGATTG--T
1 ATCATATCTAAGATTGCAT
4723339 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
4723358 ATCATATCTAAGATTGCGT
1 ATCATATCTAAGATTGCAT
4723377 ATC
1 ATC
4723380 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.67
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:4723345 original size:36 final size:37
Alignment explanation
Indices: 4723292--4723373 Score: 139
Period size: 36 Copynumber: 2.2 Consensus size: 37
4723282 ATCATATCTT
4723292 TAAGATTGCATATCATATCTAAGATTGCATATCATAAC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCATAAC
*
4723330 TAAGATTG-TATCATATCTAAGATTGCATATCATATC
1 TAAGATTGATATCATATCTAAGATTGCATATCATAAC
4723366 TAAGATTG
1 TAAGATTG
4723374 CGTATCCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 35 0.81
38 8 0.19
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCATAAC
Found at i:4723744 original size:28 final size:28
Alignment explanation
Indices: 4723704--4723766 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
4723694 GTTATTATCA
4723704 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
4723732 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
4723760 ACCCCAT
1 ACCCCAT
4723767 TATTTTGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:4724781 original size:25 final size:26
Alignment explanation
Indices: 4724747--4724803 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
4724737 GGTCATTTTT
**
4724747 TTAAAAAAATT-AATAGTTTGGTGAC
1 TTAAAAAAATTAAATAGTTCAGTGAC
4724772 TTAAAAAAATTAGAATAGTTCAGTGAC
1 TTAAAAAAATTA-AATAGTTCAGTGAC
4724799 TTAAA
1 TTAAA
4724804 TTAAAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.39
27 17 0.61
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (26 bp):
TTAAAAAAATTAAATAGTTCAGTGAC
Found at i:4725836 original size:27 final size:26
Alignment explanation
Indices: 4725799--4725910 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
4725789 AGCATGGCTG
** *
4725799 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4725825 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4725853 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
4725880 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
4725907 CCAG
1 CCAG
4725911 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4725858 original size:54 final size:54
Alignment explanation
Indices: 4725799--4725910 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
4725789 AGCATGGCTG
* *
4725799 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
4725853 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
4725907 CCAG
1 CCAG
4725911 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:4727552 original size:26 final size:26
Alignment explanation
Indices: 4727523--4727658 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
4727513 CATGAAATTC
* * *
4727523 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
4727549 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
4727575 TTATCATGGAACATTGACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
4727601 TTCTCTTGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
4727627 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4727653 TTATCA
1 TTATCA
4727659 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:4731666 original size:27 final size:26
Alignment explanation
Indices: 4731629--4731740 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
4731619 AGCATGGCTG
** *
4731629 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4731655 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4731683 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
4731710 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
4731737 CCAG
1 CCAG
4731741 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4731688 original size:54 final size:54
Alignment explanation
Indices: 4731629--4731740 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
4731619 AGCATGGCTG
* *
4731629 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
4731683 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
4731737 CCAG
1 CCAG
4731741 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:4733399 original size:26 final size:26
Alignment explanation
Indices: 4733361--4733470 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4733351 CATGAAATTC
*
4733361 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
4733387 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
4733413 TTACCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4733439 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4733465 TTATCA
1 TTATCA
4733471 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4734848 original size:21 final size:21
Alignment explanation
Indices: 4734822--4734864 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4734812 TTAAATATAA
4734822 GACTAAGACCTAAGGAGATTT
1 GACTAAGACCTAAGGAGATTT
* * *
4734843 GACTAAGTCTTAGGGAGATTT
1 GACTAAGACCTAAGGAGATTT
4734864 G
1 G
4734865 TTAGCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (21 bp):
GACTAAGACCTAAGGAGATTT
Found at i:4737974 original size:30 final size:29
Alignment explanation
Indices: 4737938--4738010 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
4737928 TCATCGACGA
* **
4737938 ATGAAAAGGGATGGCTTTGGCTATTGATCT
1 ATGAAAAGGGATGGCTTTGGATATCAAT-T
* *
4737968 ATGAAAATGGATAGCTTTGGATATCAATT
1 ATGAAAAGGGATGGCTTTGGATATCAATT
4737997 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
4738011 TGACGATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATGGCTTTGGATATCAATT
Found at i:4738358 original size:30 final size:30
Alignment explanation
Indices: 4738322--4738512 Score: 155
Period size: 30 Copynumber: 6.4 Consensus size: 30
4738312 TCATCGACGA
*
4738322 ATGAAAAGGGATGGCTTCAG-CTATCAATCT
1 ATGAAAAGGGATAGCTTCAGACTATCAAT-T
*
4738352 ATGAAAAGGGATAGCTTC-GGCTATCAATT
1 ATGAAAAGGGATAGCTTCAGACTATCAATT
* * *
4738381 ATGAAAAGGGAT-G-GTGACGACTATCGATT
1 ATGAAAAGGGATAGCTTCA-GACTATCAATT
* *
4738410 ATGAAAAGGGAT-G-ATGACGACTATCAAATT
1 ATGAAAAGGGATAGCTTCA-GACTATC-AATT
* * *
4738440 ATGAAAAAGGAAAGCTTC-GACTATCGAACT
1 ATGAAAAGGGATAGCTTCAGACTATC-AATT
* **
4738470 ATGAAAAGGGATAACTTC-GGTTATCAATTT
1 ATGAAAAGGGATAGCTTCAGACTATCAA-TT
4738500 ATGAAAAGGGATA
1 ATGAAAAGGGATA
4738513 CGCTAACCAT
Statistics
Matches: 135, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 49 0.36
30 82 0.61
31 1 0.01
32 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGACTATCAATT
Found at i:4738379 original size:384 final size:382
Alignment explanation
Indices: 4737671--4738421 Score: 1272
Period size: 384 Copynumber: 2.0 Consensus size: 382
4737661 TTCTAACAAT
* *
4737671 CCAATTTTTGGAGAAAGAAAACACCATTTTTGGTGCTTTGAAGGTTCGGCTAGGCTACCTTGTGC
1 CCAATTTTTAGAGAAAGAAAACACCATTTTTGGTGCTTTGAAGGTTCGGCTAGGCTACCTTATGC
*
4737736 ATATCAAGATAAATCACGTACGACTCTAGATCGAGGCAAAGAAAAAGCTTCGGACTAGTCGACTT
66 ATATCAAGATAAACCACGTACGACTCTAGATCGAGGCAAAGAAAAAGCTTCGGACTAGTCGACTT
*
4737801 CATTTCCTATGTTTATAGTTGAGGTAAGTTCGTATGCTTAAATAATATTTTTAATTATGATTTAA
131 CATTTCCTATGTTTATAGTTGAGGTAAGTTCGTACGCTTAAATAATATTTTTAATTATGATTTAA
* *
4737866 ATGTTATTATTGGATATTATTAAATTGTATGTTGACGGGAAAATTCAACGATGTAACGGCGATCA
196 ATGTTATTATTGCATATTATTAAATTGTATGTTGACGGGAAAATTCAACGATGTAACGACGATCA
** ** * *
4737931 TCGACGAATGAAAAGGGATGGCTTTGGCTATTGATCTATGAAAATGGATAGCTTTGGATATCAAT
261 TCGACGAATGAAAAGGGATGGCTTCAGCTATCAATCTATGAAAAGGGATAGCTTCGGATATCAAT
4737996 TATGAAAAGGGATGGTGACGA-TCATCGAAAAATGAAAAGGGATCTCACTTTGTTTCCA
326 TATGAAAAGGGATGGTGACGACT-ATCG-AAAATGAAAAGGGATCTCACTTTGTTTCCA
*
4738054 CCAATTTTTAGAGAAATAAAACACCATTTTTGGTGCTTTGAAGGTTCGGCTAGGCTACCCTTATG
1 CCAATTTTTAGAGAAAGAAAACACCATTTTTGGTGCTTTGAAGGTTCGGCTAGGCTA-CCTTATG
4738119 CATATCAAGATAAACCACGTACGACTCTAGATCGAGGCAAAGAAAAAGCTTCGGACTAGTCGACT
65 CATATCAAGATAAACCACGTACGACTCTAGATCGAGGCAAAGAAAAAGCTTCGGACTAGTCGACT
* * *
4738184 TCATTTTCTATGTTTATCA-TTGAGGTAAGTTCGTACGCTTAAATAGTGTTTTTAATTATGATTT
130 TCATTTCCTATGTTTAT-AGTTGAGGTAAGTTCGTACGCTTAAATAATATTTTTAATTATGATTT
*
4738248 AAATGTTATTATTGCATATTATTAAATTGTATGTTGACGGGAAAATTTAACGATGTAACGACGAT
194 AAATGTTATTATTGCATATTATTAAATTGTATGTTGACGGGAAAATTCAACGATGTAACGACGAT
*
4738313 CATCGACGAATGAAAAGGGATGGCTTCAGCTATCAATCTATGAAAAGGGATAGCTTCGGCTATCA
259 CATCGACGAATGAAAAGGGATGGCTTCAGCTATCAATCTATGAAAAGGGATAGCTTCGGATATCA
**
4738378 ATTATGAAAAGGGATGGTGACGACTATCGATTATGAAAAGGGAT
324 ATTATGAAAAGGGATGGTGACGACTATCGAAAATGAAAAGGGAT
4738422 GATGACGACT
Statistics
Matches: 345, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
383 68 0.20
384 275 0.80
385 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (382 bp):
CCAATTTTTAGAGAAAGAAAACACCATTTTTGGTGCTTTGAAGGTTCGGCTAGGCTACCTTATGC
ATATCAAGATAAACCACGTACGACTCTAGATCGAGGCAAAGAAAAAGCTTCGGACTAGTCGACTT
CATTTCCTATGTTTATAGTTGAGGTAAGTTCGTACGCTTAAATAATATTTTTAATTATGATTTAA
ATGTTATTATTGCATATTATTAAATTGTATGTTGACGGGAAAATTCAACGATGTAACGACGATCA
TCGACGAATGAAAAGGGATGGCTTCAGCTATCAATCTATGAAAAGGGATAGCTTCGGATATCAAT
TATGAAAAGGGATGGTGACGACTATCGAAAATGAAAAGGGATCTCACTTTGTTTCCA
Found at i:4744977 original size:12 final size:12
Alignment explanation
Indices: 4744944--4744977 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4744934 TTCTCTGTAA
*
4744944 AATAGTAAAAAT
1 AATAGTAAAGAT
4744956 AATAGTAAAGAT
1 AATAGTAAAGAT
4744968 AATAGTAAAG
1 AATAGTAAAG
4744978 GGGAAGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:4745878 original size:20 final size:20
Alignment explanation
Indices: 4745853--4745900 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4745843 TAAATTCTAA
* *
4745853 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
*
4745873 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAATT
4745893 AAA-ATAAA
1 AAAGATAAA
4745901 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:4745911 original size:19 final size:18
Alignment explanation
Indices: 4745887--4745930 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4745877 ATAATTAAAT
4745887 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
4745907 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
4745924 ATAATTA
1 ATAATTA
4745931 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:4745948 original size:15 final size:15
Alignment explanation
Indices: 4745900--4745960 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
4745890 ATTAAAATAA
*
4745900 AATCCTAAAATTTAAAT
1 AATCCTAATA-TT-AAT
4745917 AATCCT-A-A-TAAT
1 AATCCTAATATTAAT
*
4745929 TATCCTAATATTAAT
1 AATCCTAATATTAAT
*
4745944 AATCCTAATATAAAT
1 AATCCTAATATTAAT
4745959 AA
1 AA
4745961 AATGGAGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 1 0.03
15 20 0.53
16 1 0.03
17 6 0.16
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCCTAATATTAAT
Found at i:4746553 original size:29 final size:30
Alignment explanation
Indices: 4746494--4746553 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
4746484 AGGGATGGTG
* * * *
4746494 GCTTCGGCTATCGATCTATGAAAATATATA
1 GCTTCGGATATCAATCTATGAAAAGAGATA
*
4746524 GCTTCGGATATCAAT-TATGAAAAGGGATA
1 GCTTCGGATATCAATCTATGAAAAGAGATA
4746553 G
1 G
4746554 TGACGACCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (30 bp):
GCTTCGGATATCAATCTATGAAAAGAGATA
Found at i:4746612 original size:30 final size:30
Alignment explanation
Indices: 4746536--4746613 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
4746526 TTCGGATATC
* *
4746536 AATTATGAAAAGGGATAGTGACGACCATCG
1 AATTATGAAAAGGGATGGTGACGACCATCA
* * *
4746566 AATAATGATAAGGGATGGTGACGACCATTA
1 AATTATGAAAAGGGATGGTGACGACCATCA
4746596 AATTATGAAAAGGGATGG
1 AATTATGAAAAGGGATGG
4746614 CTTCGGCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:4746633 original size:60 final size:60
Alignment explanation
Indices: 4746569--4746699 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 60
4746559 ACCATCGAAT
* *
4746569 AATGATAAGGGATGG-TGACGACCATTAAAT-TATGAAAAGGGATGGCTTCGGCTATCATAC
1 AATGAAAAGGGATGGCT-ACGACCA-TAAATATATGAAAAGGGATAGCTTCGGCTATCATAC
* * ** *
4746629 AATGAAAAGGGATGGCTTCGACTATCGATATATGAAAAGGGATAGCTTCGGCTATCA-AT
1 AATGAAAAGGGATGGCTACGACCATAAATATATGAAAAGGGATAGCTTCGGCTATCATAC
*
4746688 TATGAAAAGGGA
1 AATGAAAAGGGA
4746700 AAGCTTAAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
59 15 0.25
60 45 0.74
61 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (60 bp):
AATGAAAAGGGATGGCTACGACCATAAATATATGAAAAGGGATAGCTTCGGCTATCATAC
Found at i:4746689 original size:89 final size:89
Alignment explanation
Indices: 4746596--4746761 Score: 208
Period size: 89 Copynumber: 1.9 Consensus size: 89
4746586 ACGACCATTA
** ** * **
4746596 AATTATGAAAAGGGATGGCTTCGGCTATCATA-CAATGAAAAGGGATGGCTTCGACTATCGATAT
1 AATTATGAAAAGGGAAAGCTTAAGCTAT-AGACCAATGAAAAGGGATAACTTCGACTATCGATAT
*
4746660 ATGAAAAGGGATAGCTTCGGCTATC
65 ATGAAAAAGGATAGCTTCGGCTATC
* ** *
4746685 AATTATGAAAAGGGAAAGCTTAAGCTATAGACCTATGAAAAGGGATAACTTCGGTTATCGATTTA
1 AATTATGAAAAGGGAAAGCTTAAGCTATAGACCAATGAAAAGGGATAACTTCGACTATCGATATA
4746750 TGAAAAAGGATA
66 TGAAAAAGGATA
4746762 CGCTAACCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 2 0.03
89 62 0.97
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (89 bp):
AATTATGAAAAGGGAAAGCTTAAGCTATAGACCAATGAAAAGGGATAACTTCGACTATCGATATA
TGAAAAAGGATAGCTTCGGCTATC
Found at i:4746725 original size:59 final size:59
Alignment explanation
Indices: 4746599--4746755 Score: 172
Period size: 59 Copynumber: 2.6 Consensus size: 59
4746589 ACCATTAAAT
* ** ** * * *
4746599 TATGAAAAGGGATGGCTTCGGCTATCATACAATGAAAAGGGATGGCTTCGACTATCGATA
1 TATGAAAAGGGATAGCTTCGGCTATCA-ATTATGAAAAGGGAAAGCTTAGACTATAGACA
*
4746659 TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTA-AGCTATAGACC
1 TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTAGA-CTATAGACA
* * *
4746718 TATGAAAAGGGATAACTTCGGTTATCGATTTATGAAAA
1 TATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAA
4746756 AGGATACGCT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 1 0.01
59 46 0.55
60 36 0.43
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (59 bp):
TATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGAAAGCTTAGACTATAGACA
Found at i:4746752 original size:30 final size:30
Alignment explanation
Indices: 4746598--4746761 Score: 161
Period size: 30 Copynumber: 5.5 Consensus size: 30
4746588 GACCATTAAA
*
4746598 TTATGAAAAGGGATGGCTTCGGCTATC-AT
1 TTATGAAAAGGGATAGCTTCGGCTATCGAT
** * *
4746627 ACAATGAAAAGGGATGGCTTCGACTATCGAT
1 -TTATGAAAAGGGATAGCTTCGGCTATCGAT
* *
4746658 ATATGAAAAGGGATAGCTTCGGCTATC-AA
1 TTATGAAAAGGGATAGCTTCGGCTATCGAT
* ** * *
4746687 TTATGAAAAGGGAAAGCTTAAGCTATAGAC
1 TTATGAAAAGGGATAGCTTCGGCTATCGAT
* * *
4746717 CTATGAAAAGGGATAACTTCGGTTATCGAT
1 TTATGAAAAGGGATAGCTTCGGCTATCGAT
*
4746747 TTATGAAAAAGGATA
1 TTATGAAAAGGGATA
4746762 CGCTAACCAT
Statistics
Matches: 108, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
29 23 0.21
30 83 0.77
31 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.26
Consensus pattern (30 bp):
TTATGAAAAGGGATAGCTTCGGCTATCGAT
Found at i:4748824 original size:23 final size:25
Alignment explanation
Indices: 4748796--4748845 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4748786 TCCCAAATTT
4748796 TATAC-TT-TTTTACATTCC-AAATG
1 TATACTTTATTTTACA-TCCTAAATG
4748819 TATACTTTATTTTACATCCTAAATG
1 TATACTTTATTTTACATCCTAAATG
4748844 TA
1 TA
4748846 CACTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.21
24 5 0.21
25 14 0.58
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (25 bp):
TATACTTTATTTTACATCCTAAATG
Found at i:4751446 original size:22 final size:22
Alignment explanation
Indices: 4751418--4751461 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4751408 GTGTCGTAGG
*
4751418 ACCAATGACCAAATACGTCTTA
1 ACCAATGACCAAAAACGTCTTA
*
4751440 ACCAATGATCAAAAACGTCTTA
1 ACCAATGACCAAAAACGTCTTA
4751462 CTATCCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (22 bp):
ACCAATGACCAAAAACGTCTTA
Found at i:4756784 original size:13 final size:13
Alignment explanation
Indices: 4756766--4756790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4756756 ATGAAGTGTT
4756766 GAAGATCAAGCTA
1 GAAGATCAAGCTA
4756779 GAAGATCAAGCT
1 GAAGATCAAGCT
4756791 GCTATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (13 bp):
GAAGATCAAGCTA
Found at i:4756839 original size:49 final size:49
Alignment explanation
Indices: 4756780--4756873 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
4756770 ATCAAGCTAG
* * *
4756780 AAGATCAAGCTGCTATAATATTTCTGGATGAAGTACATGCAGCTGTAAA
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
* **
4756829 AAGATTAAGCTACTACAATATTTCTGAATGAAGTGTATGCAGCTG
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTG
4756874 CTGAAGTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (49 bp):
AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
Found at i:4762285 original size:42 final size:43
Alignment explanation
Indices: 4762213--4762297 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
4762203 TTCTACAACT
* *
4762213 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATCATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
4762256 TATAAAAGTTTC-TTTTTGGCCTGGGAAATATAATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
4762298 CTGCATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 28 0.70
43 12 0.30
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (43 bp):
TATAAAAGTTTCTTTTTTGGCCTGGGAAATATAATAGTTTGAC
Found at i:4769680 original size:18 final size:18
Alignment explanation
Indices: 4769657--4769704 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
4769647 TGAGCGATGT
*
4769657 AAGTCCTAGGATCGCTGC
1 AAGTCCAAGGATCGCTGC
* *
4769675 AAGTCCAAGGATTGCTGT
1 AAGTCCAAGGATCGCTGC
4769693 AAGTCCAAGGAT
1 AAGTCCAAGGAT
4769705 ATCTATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (18 bp):
AAGTCCAAGGATCGCTGC
Found at i:4769785 original size:5 final size:5
Alignment explanation
Indices: 4769775--4769802 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4769765 ATTTCTCTGA
4769775 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
4769803 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4774232 original size:5 final size:5
Alignment explanation
Indices: 4774222--4774249 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4774212 CCAATTCGTG
4774222 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
4774250 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4775942 original size:12 final size:12
Alignment explanation
Indices: 4775925--4775949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4775915 TTGGGTGTTC
4775925 TTTATTTTATTT
1 TTTATTTTATTT
4775937 TTTATTTTATTT
1 TTTATTTTATTT
4775949 T
1 T
4775950 ATTTTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:4780370 original size:5 final size:5
Alignment explanation
Indices: 4780360--4780396 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
4780350 TTGTATGTTC
4780360 TTTAT TTTAT TTTA- TTT-T TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
4780397 ACAAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:4780382 original size:13 final size:13
Alignment explanation
Indices: 4780364--4780390 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4780354 ATGTTCTTTA
4780364 TTTTATTTTATTT
1 TTTTATTTTATTT
4780377 TTTTATTTTATTT
1 TTTTATTTTATTT
4780390 T
1 T
4780391 ATTTTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:4780383 original size:18 final size:18
Alignment explanation
Indices: 4780360--4780395 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4780350 TTGTATGTTC
4780360 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4780378 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4780396 AACAAAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTATTTTATTTTATTTT
Found at i:4786587 original size:48 final size:48
Alignment explanation
Indices: 4786510--4786696 Score: 223
Period size: 48 Copynumber: 3.9 Consensus size: 48
4786500 GGGAGTTTCA
* * * * **
4786510 CACCCTAAGTGCCT-ATATCATGGCTCGAAGCCAAATCAATGTAACTCG
1 CACCCGAAGTG-CTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
*
4786558 CACTCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
* * * * * * * *
4786606 TACCCAAAGTGCTAATATTATGGCTCAAATCCAAATCGATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
4786654 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATA
1 CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATA
4786697 TCTTCTAATG
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
47 2 0.02
48 112 0.98
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (48 bp):
CACCCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
Found at i:4786680 original size:96 final size:96
Alignment explanation
Indices: 4786511--4786696 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
4786501 GGAGTTTCAC
* * * *
4786511 ACCCTAAGTGCCTATATCATGGCTCGAAGCCAAATCAATGTAACTCGCACTCGAAGTGCTAATAT
1 ACCCAAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
4786576 CATAGCCCGAAGCCAAATCAATATAGTTCGT
66 CATAGCCCGAAGCCAAATCAATATAGTTCGT
* * * **
4786607 ACCCAAAGTG-CTAATATTATGGCTCAAATCCAAATCGATATAGTTCGCACCCGAAGTGCTAATA
1 ACCCAAAGTGCCT-ATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATA
4786671 TCATAGCCCGAAGCCAAATCAATATA
65 TCATAGCCCGAAGCCAAATCAATATA
4786697 TCTTCTAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 2 0.03
96 78 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (96 bp):
ACCCAAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
CATAGCCCGAAGCCAAATCAATATAGTTCGT
Found at i:4789219 original size:8 final size:9
Alignment explanation
Indices: 4789196--4789222 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4789186 TTACTTGACT
4789196 TTAAAAATA
1 TTAAAAATA
4789205 TTAAAAATA
1 TTAAAAATA
4789214 TTAAAAATA
1 TTAAAAATA
4789223 AATAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:4791303 original size:11 final size:12
Alignment explanation
Indices: 4791287--4791318 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
4791277 ACTAGGCGAT
4791287 AATTTTTTTAA-
1 AATTTTTTTAAG
4791298 AA-TTTTTTAAG
1 AATTTTTTTAAG
4791309 AATTTTTTTA
1 AATTTTTTTA
4791319 GATTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 4 0.21
12 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
AATTTTTTTAAG
Found at i:4813425 original size:30 final size:31
Alignment explanation
Indices: 4813365--4813425 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
4813355 ATAATTAATT
* *
4813365 TAAAATATAAGTATAAGAATAATAAGTAAAA
1 TAAAATATAAGTATAAGAATAAAAAATAAAA
*
4813396 TAAAATA-AATTAGTAA-AATAAAAAATAAAA
1 TAAAATATAAGTA-TAAGAATAAAAAATAAAA
4813426 ATATAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.25
Consensus pattern (31 bp):
TAAAATATAAGTATAAGAATAAAAAATAAAA
Found at i:4813436 original size:15 final size:13
Alignment explanation
Indices: 4813410--4813457 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
4813400 ATAAATTAGT
4813410 AAAATAAAAAATA
1 AAAATAAAAAATA
4813423 AAAATATAACAAATA
1 AAAATA-AA-AAATA
*
4813438 ATAATAAATAAAATA
1 AAAAT-AA-AAAATA
4813453 AAAAT
1 AAAAT
4813458 GGGGTGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 19 0.66
16 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:4822270 original size:62 final size:63
Alignment explanation
Indices: 4822147--4822273 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
4822137 TGTAATATGC
* * *
4822147 TTGTGTGTACTATAGTGCTTGTGTAAAATAAATTGATGTTAAAGGTGTTGATGCAAGGAATGA
1 TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGTTAAAGGTGTTGATACAAGGAATGA
* * * * * * **
4822210 TTGTGCGTGCTATGGTGTTTGTGTAAACTAAACTGA-GTTGAATGTGTTGATACGGGGAATGA
1 TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGTTAAAGGTGTTGATACAAGGAATGA
4822272 TT
1 TT
4822274 ATGCATGTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
62 23 0.43
63 30 0.57
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.37
Consensus pattern (63 bp):
TTGTGCGTACTATAGTGCTTGTGTAAAATAAACTGATGTTAAAGGTGTTGATACAAGGAATGA
Found at i:4823275 original size:21 final size:21
Alignment explanation
Indices: 4823249--4823367 Score: 123
Period size: 21 Copynumber: 5.7 Consensus size: 21
4823239 TTAAAAAAAT
* *
4823249 AATTGAGAACTGAGAATTAAG
1 AATTGAGGATTGAGAATTAAG
* *
4823270 AATTGAGGATTGAGGATTGAG
1 AATTGAGGATTGAGAATTAAG
* *
4823291 GATTGAGGATTGAGAATTGAG
1 AATTGAGGATTGAGAATTAAG
* * *
4823312 AATTGAGAAATGAGAAATGAA-
1 AATTGAGGATTGAG-AATTAAG
*
4823333 AATTGAGGATTGAGAATTTAG
1 AATTGAGGATTGAGAATTAAG
*
4823354 GATTGAGGATTGAG
1 AATTGAGGATTGAG
4823368 TTAAAAAGAA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
20 4 0.05
21 72 0.90
22 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.32, T:0.27
Consensus pattern (21 bp):
AATTGAGGATTGAGAATTAAG
Found at i:4823281 original size:7 final size:7
Alignment explanation
Indices: 4823271--4823367 Score: 104
Period size: 7 Copynumber: 13.9 Consensus size: 7
4823261 AGAATTAAGA
4823271 ATTGAGG
1 ATTGAGG
4823278 ATTGAGG
1 ATTGAGG
4823285 ATTGAGG
1 ATTGAGG
4823292 ATTGAGG
1 ATTGAGG
*
4823299 ATTGAGA
1 ATTGAGG
*
4823306 ATTGAGA
1 ATTGAGG
*
4823313 ATTGAGA
1 ATTGAGG
* *
4823320 AATGAGA
1 ATTGAGG
* **
4823327 AATGAAA
1 ATTGAGG
4823334 ATTGAGG
1 ATTGAGG
*
4823341 ATTGAGA
1 ATTGAGG
*
4823348 ATTTAGG
1 ATTGAGG
4823355 ATTGAGG
1 ATTGAGG
4823362 ATTGAG
1 ATTGAG
4823368 TTAAAAAGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 80 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (7 bp):
ATTGAGG
Found at i:4823288 original size:14 final size:14
Alignment explanation
Indices: 4823249--4823367 Score: 121
Period size: 14 Copynumber: 8.5 Consensus size: 14
4823239 TTAAAAAAAT
* *
4823249 AATTGAGAACTGAG
1 AATTGAGGATTGAG
* *
4823263 AATTAAGAATTGAG
1 AATTGAGGATTGAG
*
4823277 GATTGAGGATTGAG
1 AATTGAGGATTGAG
*
4823291 GATTGAGGATTGAG
1 AATTGAGGATTGAG
*
4823305 AATTGAGAATTGAG
1 AATTGAGGATTGAG
* * * *
4823319 AAATGAGAAATGAA
1 AATTGAGGATTGAG
4823333 AATTGAGGATTGAG
1 AATTGAGGATTGAG
*
4823347 AATTTAGGATTGAG
1 AATTGAGGATTGAG
*
4823361 GATTGAG
1 AATTGAG
4823368 TTAAAAAGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 88 1.00
ACGTcount: A:0.40, C:0.01, G:0.32, T:0.27
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:4827041 original size:27 final size:24
Alignment explanation
Indices: 4826991--4827044 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 24
4826981 CTATTGCCCA
* *
4826991 TTTTAAATTTTATATATTATTTAT
1 TTTTAAATTTTATATATCACTTAT
4827015 TTTTAAATTATTATTTATATCACTTAT
1 TTTTAAATT-TTA--TATATCACTTAT
4827042 TTT
1 TTT
4827045 GGTCTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 3 0.12
27 13 0.52
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAAATTTTATATATCACTTAT
Found at i:4827229 original size:22 final size:22
Alignment explanation
Indices: 4827204--4827251 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4827194 TATCTCAAGA
*
4827204 TATTATATATATATAT-ATATAT
1 TATTATAGAT-TATATCATATAT
* *
4827226 TATTTTAGATTATTTCATATAT
1 TATTATAGATTATATCATATAT
4827248 TATT
1 TATT
4827252 TATTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTATAGATTATATCATATAT
Found at i:4827251 original size:12 final size:11
Alignment explanation
Indices: 4827206--4827254 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
4827196 TCTCAAGATA
4827206 TTATATATATAT
1 TTATATAT-TAT
*
4827218 ATATATATTAT
1 TTATATATTAT
*
4827229 TT-TAGATTAT
1 TTATATATTAT
4827239 TTCATATATTAT
1 TT-ATATATTAT
4827251 TTAT
1 TTAT
4827255 TCAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 9 0.29
11 6 0.19
12 16 0.52
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTATATATTAT
Found at i:4829511 original size:19 final size:21
Alignment explanation
Indices: 4829464--4829515 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
4829454 ATAACATTTC
4829464 TTATT-TAAAT-TATTAGATA
1 TTATTATAAATATATTAGATA
*
4829483 TAATTA-AAATATATTA-AT-
1 TTATTATAAATATATTAGATA
4829501 TTATTATAAATATAT
1 TTATTATAAATATAT
4829516 ATTTCTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATTATAAATATATTAGATA
Found at i:4832061 original size:27 final size:27
Alignment explanation
Indices: 4832023--4832076 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4832013 CCCAAAAAGA
4832023 CTAAAATTATAAGAACTAATACTTATG
1 CTAAAATTATAAGAACTAATACTTATG
4832050 CTAAAATTATAAGAACTAATACTTATG
1 CTAAAATTATAAGAACTAATACTTATG
4832077 GACCCAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
CTAAAATTATAAGAACTAATACTTATG
Found at i:4832662 original size:17 final size:17
Alignment explanation
Indices: 4832640--4832674 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4832630 AATGTAGAAG
4832640 TGCCAAATTATCTTAAA
1 TGCCAAATTATCTTAAA
4832657 TGCCAAATTATCTTAAA
1 TGCCAAATTATCTTAAA
4832674 T
1 T
4832675 ATATGTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
TGCCAAATTATCTTAAA
Found at i:4833262 original size:28 final size:28
Alignment explanation
Indices: 4833225--4833279 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4833215 AATGAATTAT
4833225 TTACTCTTATATGTTGCATTTTTGGTTA
1 TTACTCTTATATGTTGCATTTTTGGTTA
4833253 TTACTCTTATATGTTGCATTTTTGGTT
1 TTACTCTTATATGTTGCATTTTTGGTT
4833280 TCAATAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.58
Consensus pattern (28 bp):
TTACTCTTATATGTTGCATTTTTGGTTA
Found at i:4835588 original size:16 final size:15
Alignment explanation
Indices: 4835569--4835631 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
4835559 AAAGAATAAA
4835569 AGAAAAGGGAAAAATG
1 AGAAAA-GGAAAAATG
* *
4835585 AGAAAATGAAATAATAAA
1 AGAAAAGGAAA-AAT--G
*
4835603 AGAAAAGGGAAAAACG
1 AGAAAA-GGAAAAATG
4835619 AGAAAAGGAAAAA
1 AGAAAAGGAAAAA
4835632 GGAAATTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 11 0.29
16 15 0.39
18 8 0.21
19 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.06
Consensus pattern (15 bp):
AGAAAAGGAAAAATG
Found at i:4835602 original size:34 final size:34
Alignment explanation
Indices: 4835557--4835629 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
4835547 AACAAAAATG
*
4835557 GGAAAGAATAAAAGAAAAGGGAAAAATGAGAAAA
1 GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
* *
4835591 TGAAATAATAAAAGAAAAGGGAAAAACGAGAAAA
1 GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
4835625 GGAAA
1 GGAAA
4835630 AAGGAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.67, C:0.01, G:0.25, T:0.07
Consensus pattern (34 bp):
GGAAAGAATAAAAGAAAAGGGAAAAACGAGAAAA
Found at i:4842915 original size:48 final size:47
Alignment explanation
Indices: 4842839--4842950 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 47
4842829 ACACGGGTAG
* * * * *
4842839 ACCACACGCCCGTGTCTATTTAATAGACTGTAACACGGTCTAAGCCA
1 ACCACACGGCCATGTCTATTTAACAGACTCTAACACGGCCTAAGCCA
* *
4842886 TACCACACGGCCATGTCTATTTAGCAGACTCTAACATGGCCTAAGCCA
1 -ACCACACGGCCATGTCTATTTAACAGACTCTAACACGGCCTAAGCCA
* *
4842934 CCTCACACGGGCATGTC
1 AC-CACACGGCCATGTC
4842951 CCTGTCGAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 53 0.98
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (47 bp):
ACCACACGGCCATGTCTATTTAACAGACTCTAACACGGCCTAAGCCA
Found at i:4849208 original size:6 final size:6
Alignment explanation
Indices: 4849197--4849239 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
4849187 TTTGAAGATT
* * *
4849197 TTTTTA TTTTTA TCTTTTA CTTTTA TCTTTA TTTATA TTTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA
4849240 AATTACTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:4851350 original size:48 final size:48
Alignment explanation
Indices: 4851260--4851359 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 48
4851250 CACATGCCCA
** * *
4851260 TGTCTATTTAACAAACTGTAACATGGCCTAAGCCACACCACACAGTCG
1 TGTCTATTTAACAAACCCTAACACGGCCTAAGCCACACCACACAGGCG
* * *
4851308 TGTCTATTTAGCAGACCCTAACACGGCCTAAGCCAC-CTCACACGGGCG
1 TGTCTATTTAACAAACCCTAACACGGCCTAAGCCACAC-CACACAGGCG
4851356 TGTC
1 TGTC
4851360 CTTGTTGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (48 bp):
TGTCTATTTAACAAACCCTAACACGGCCTAAGCCACACCACACAGGCG
Found at i:4857142 original size:60 final size:60
Alignment explanation
Indices: 4857005--4857153 Score: 142
Period size: 60 Copynumber: 2.5 Consensus size: 60
4856995 CTATTCAGAA
* *
4857005 ATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
* * * * * *
4857066 ATCAGAGTATAATGGGCCTAGCCCATGTTAGTATCAATCTGGGCCGTAGCCCTATTATAA-
1 ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAAT
* **
4857126 GTCA-AGATATATTGGGCCTTTCCCATAT
1 ATCAGAG-TATATTGGGCCTAGCCCATAT
4857154 TAACACAGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
59 2 0.03
60 49 0.68
61 20 0.28
62 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (60 bp):
ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
Found at i:4858677 original size:12 final size:12
Alignment explanation
Indices: 4858638--4858671 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
4858628 CGGCTAGAGA
4858638 AGAAAAGAAAGG
1 AGAAAAGAAAGG
4858650 AGAAAAGAAAGG
1 AGAAAAGAAAGG
4858662 AGAAAAGAAA
1 AGAAAAGAAA
4858672 ATAGAAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAGG
Found at i:4877206 original size:22 final size:23
Alignment explanation
Indices: 4877177--4877229 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4877167 GGTAAAGGCA
4877177 GTAAATGAAGAA-AAAAAAAGGG
1 GTAAATGAAGAAGAAAAAAAGGG
* *
4877199 GTCAATGAAGAAGAAAAGAAGGG
1 GTAAATGAAGAAGAAAAAAAGGG
4877222 GTAAATGA
1 GTAAATGA
4877230 GTGTATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.57, C:0.02, G:0.30, T:0.11
Consensus pattern (23 bp):
GTAAATGAAGAAGAAAAAAAGGG
Found at i:4880561 original size:15 final size:15
Alignment explanation
Indices: 4880541--4880570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4880531 CATTTTATTT
*
4880541 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4880556 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4880571 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4880598 original size:27 final size:26
Alignment explanation
Indices: 4880537--4880599 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
4880527 ACTACATTTT
4880537 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
4880564 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
4880592 ATTTTATT
1 ATTTTATT
4880600 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:4880614 original size:10 final size:10
Alignment explanation
Indices: 4880595--4880626 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4880585 TTTTAGGATT
4880595 TTAT-TTTAA
1 TTATCTTTAA
4880604 TTATCTTTAA
1 TTATCTTTAA
4880614 TTATCTTTAA
1 TTATCTTTAA
4880624 TTA
1 TTA
4880627 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:4890577 original size:20 final size:20
Alignment explanation
Indices: 4890531--4890579 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
4890521 ATTTAAATTT
4890531 AAAAA-TATTTAAAAATAAA
1 AAAAATTATTTAAAAATAAA
* *
4890550 AAACAATTATTTAAAACTATA
1 AAA-AATTATTTAAAAATAAA
4890571 AAAAATTAT
1 AAAAATTAT
4890580 AAACTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 8 0.31
21 15 0.58
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTATTTAAAAATAAA
Found at i:4894012 original size:15 final size:15
Alignment explanation
Indices: 4893992--4894021 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4893982 TATTTTATTT
4893992 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4894007 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4894022 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:4897781 original size:20 final size:20
Alignment explanation
Indices: 4897756--4897799 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4897746 CAACCCAATT
4897756 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
4897776 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
4897796 TTTT
1 TTTT
4897800 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:4899246 original size:15 final size:15
Alignment explanation
Indices: 4899226--4899255 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4899216 CATTTTATTT
*
4899226 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4899241 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4899256 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4899320 original size:20 final size:19
Alignment explanation
Indices: 4899280--4899323 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4899270 ATTTTAGGAT
*
4899280 TTTATTTTAATTATCTTTA
1 TTTATTTTAATTATCTGTA
4899299 TTTATATTTAATTAAT-TGTA
1 TTTAT-TTTAATT-ATCTGTA
4899319 TTTAT
1 TTTAT
4899324 CTTTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTTAATTATCTGTA
Found at i:4903973 original size:43 final size:43
Alignment explanation
Indices: 4903849--4903973 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
4903839 GCTTACCATA
* * * *
4903849 AAAATGCCACTAAAGGTCATGTTCTTTAGCTGCGTTTATGTGT
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
* * *
4903892 AAAGCACCACTAAAGGTCATGTTCTATAGCGGCATTTGTGTGT
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
4903935 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGT
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGT
4903974 AGGAAATCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
Found at i:4905943 original size:6 final size:5
Alignment explanation
Indices: 4905917--4905956 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
4905907 TGAAAATGTG
4905917 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
4905957 GAACACAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4905943 original size:11 final size:11
Alignment explanation
Indices: 4905917--4905956 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
4905907 TGAAAATGTG
4905917 AAAATAAAAT-
1 AAAATAAAATA
4905927 AAAATAAAATA
1 AAAATAAAATA
4905938 AAAATAAAA-A
1 AAAATAAAATA
4905948 TAAAATAAA
1 -AAAATAAA
4905957 GAACACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:4906321 original size:29 final size:29
Alignment explanation
Indices: 4906284--4906339 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4906274 CACCTTGACA
* *
4906284 CGAATTCTCAAGGAACAAGTTCTTCATTG
1 CGAACTCTCAACGAACAAGTTCTTCATTG
4906313 CGAACTCTCAACGAACAAGTTCTTCAT
1 CGAACTCTCAACGAACAAGTTCTTCAT
4906340 CTCTTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCATTG
Found at i:4910390 original size:18 final size:17
Alignment explanation
Indices: 4910362--4910397 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
4910352 CCAATTTGTG
4910362 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
4910379 AAAATAAAAATAAAATAA
1 AAAAT-AAAATAAAATAA
4910397 A
1 A
4910398 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:4913814 original size:257 final size:257
Alignment explanation
Indices: 4913040--4913815 Score: 1456
Period size: 253 Copynumber: 3.0 Consensus size: 257
4913030 TCATTTTACC
4913040 CACA-AGCTT-GTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
4913103 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4913168 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
4913233 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
* *
4913295 CACACAGCTTCGTAGGAGTCCTATATTCACTGTATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
4913360 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTAATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4913425 TACCG---A-TAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
4913486 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
4913548 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
4913613 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4913678 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
* *
4913743 TGGTTATTTGAGAATTAGTTATTCAAACAATGCTTTAGGTCATCCCTAAGCATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
4913805 CACACAGCTTC
1 CACACAGCTTC
4913816 TTTCATACTT
Statistics
Matches: 506, Mismatches: 9, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
253 249 0.49
254 1 0.00
255 4 0.01
256 6 0.01
257 246 0.49
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (257 bp):
CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
Found at i:4917183 original size:24 final size:24
Alignment explanation
Indices: 4917147--4917197 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4917137 GACTAAGTCT
* *
4917147 TAGGGGGATTTGTTAACTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
*
4917171 TAGGAGGAGTTGTTAGCTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
4917195 TAG
1 TAG
4917198 CAATTTGAAT
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:0.04, G:0.35, T:0.39
Consensus pattern (24 bp):
TAGGAGGAGTTGTTAACTTGTTAG
Found at i:4926356 original size:31 final size:31
Alignment explanation
Indices: 4926321--4926379 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4926311 GTATAATTCA
4926321 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
4926352 TATTCGAGTTGACCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
4926380 AACTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:4927359 original size:32 final size:32
Alignment explanation
Indices: 4927323--4927387 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4927313 CAATAAGTTA
4927323 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
4927355 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
4927387 T
1 T
4927388 GCTTCTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.03, G:0.31, T:0.38
Consensus pattern (32 bp):
TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
Found at i:4929425 original size:28 final size:28
Alignment explanation
Indices: 4929374--4929487 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 28
4929364 CTATTCAGAA
* *
4929374 ATCAGTGTTAAT-TGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
4929401 ATCAGTATTAATCTGGGCCGTAGCCC-T
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
* *
4929428 ATTACAATATCAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCGTAGCCCAT
* *
4929462 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCGTAGCCC
4929488 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 20 0.29
28 20 0.29
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCGTAGCCCAT
Found at i:4929559 original size:19 final size:20
Alignment explanation
Indices: 4929516--4929571 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4929506 ATTGGGTCTT
4929516 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
4929536 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
4929555 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
4929572 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:4937736 original size:22 final size:20
Alignment explanation
Indices: 4937691--4937736 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
4937681 ATACATGCAG
4937691 TAATATTTTTCTAATAATAA
1 TAATATTTTTCTAATAATAA
* *
4937711 TAATAATTTTATCTCATAATAC
1 TAAT-ATTTT-TCTAATAATAA
4937733 TAAT
1 TAAT
4937737 TAAAATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATTTTTCTAATAATAA
Found at i:4942089 original size:15 final size:15
Alignment explanation
Indices: 4942069--4942099 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4942059 CTATCATCTT
4942069 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
4942084 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
4942099 T
1 T
4942100 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:4942133 original size:20 final size:20
Alignment explanation
Indices: 4942108--4942149 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4942098 CTTACAACGG
*
4942108 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
4942128 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
4942148 TA
1 TA
4942150 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:4942988 original size:18 final size:18
Alignment explanation
Indices: 4942942--4942981 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4942932 GGCTACACCA
*
4942942 AGCATACCAGTCTTGAGT
1 AGCATGCCAGTCTTGAGT
4942960 AGCATGCCAGTCTTGAGT
1 AGCATGCCAGTCTTGAGT
4942978 AGCA
1 AGCA
4942982 GTTCAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (18 bp):
AGCATGCCAGTCTTGAGT
Found at i:4945557 original size:18 final size:18
Alignment explanation
Indices: 4945534--4945568 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4945524 ACCAGCAGAT
*
4945534 GGCATACTAACTTGTTGG
1 GGCATACTAACCTGTTGG
4945552 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
4945569 TGGAGAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:4946818 original size:15 final size:15
Alignment explanation
Indices: 4946798--4946828 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4946788 CTATCATCTT
4946798 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
4946813 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
4946828 T
1 T
4946829 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:4946862 original size:20 final size:20
Alignment explanation
Indices: 4946837--4946878 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4946827 CTTACAACGG
*
4946837 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
4946857 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
4946877 TA
1 TA
4946879 ACTCTAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:4952934 original size:25 final size:27
Alignment explanation
Indices: 4952897--4952949 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4952887 TCAAACATGC
4952897 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4952923 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4952949 A
1 A
4952950 AAACCGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4954460 original size:26 final size:26
Alignment explanation
Indices: 4954429--4954536 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4954419 TGAAATGCCC
4954429 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4954455 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4954481 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4954507 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
4954533 ATCA
1 ATCA
4954537 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4960026 original size:25 final size:27
Alignment explanation
Indices: 4959989--4960041 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4959979 TCAAACATGC
4959989 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4960015 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4960041 A
1 A
4960042 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4961555 original size:26 final size:26
Alignment explanation
Indices: 4961524--4961631 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4961514 TGAAATGCCC
4961524 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4961550 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4961576 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4961602 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
4961628 ATCA
1 ATCA
4961632 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4962324 original size:18 final size:18
Alignment explanation
Indices: 4962292--4962328 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4962282 AAGTTAAAGC
4962292 TCTCCAAACATCACTTAT
1 TCTCCAAACATCACTTAT
4962310 TCTCGCAAACA-CACTTAT
1 TCTC-CAAACATCACTTAT
4962328 T
1 T
4962329 TTTCCACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (18 bp):
TCTCCAAACATCACTTAT
Done.