Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 19
Found at i:2513781 original size:3 final size:3
Alignment explanation
Indices: 2513773--2513807 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
2513763 ATATTACATT
2513773 TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T
2513808 ATGTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2513783 original size:16 final size:16
Alignment explanation
Indices: 2513764--2513800 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2513754 TATCTTTTTA
*
2513764 TATTACATTTTATTAT
1 TATTACATATTATTAT
*
2513780 TATTATATATTATTAT
1 TATTACATATTATTAT
2513796 TATTA
1 TATTA
2513801 TTATTATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTACATATTATTAT
Found at i:2513944 original size:21 final size:20
Alignment explanation
Indices: 2513866--2513944 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
2513856 TTATTATATA
*
2513866 TATTTATTTGTTTTTCGTTAT
1 TATTTATTTATTTTTC-TTAT
* *
2513887 TATCT-TTTATTCTTTATTTAT
1 TATTTATTTATT-TTT-CTTAT
*
2513908 TA-TTACTTGCATTTTTCTTAT
1 TATTTA-TT-TATTTTTCTTAT
2513929 TATTTATTTATCTTTT
1 TATTTATTTAT-TTTT
2513945 TTCTTTCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
20 8 0.18
21 25 0.57
22 8 0.18
23 3 0.07
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (20 bp):
TATTTATTTATTTTTCTTAT
Found at i:2514076 original size:9 final size:9
Alignment explanation
Indices: 2514052--2514137 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 9
2514042 TTTAGTTTCC
*
2514052 TTATTTCAT
1 TTATTTTAT
2514061 TTA-TTTAT
1 TTATTTTAT
2514069 TTATTTTACT
1 TTATTTTA-T
2514079 TT-TTATTAT
1 TTATT-TTAT
*
2514088 TT-TGCTTAT
1 TTAT-TTTAT
2514097 TTACTTTT-T
1 TTA-TTTTAT
2514106 TTATTTTCATT
1 TTATTTT-A-T
*
2514117 CTTATTTTCT
1 -TTATTTTAT
2514127 TTATTTTAT
1 TTATTTTAT
2514136 TT
1 TT
2514138 CCTTTGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
8 11 0.18
9 33 0.53
10 9 0.15
11 2 0.03
12 7 0.11
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.73
Consensus pattern (9 bp):
TTATTTTAT
Found at i:2514089 original size:23 final size:21
Alignment explanation
Indices: 2514060--2514113 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 21
2514050 CCTTATTTCA
2514060 TTTATTTAT-TTATTTTACTTTT
1 TTTATTT-TCTTA-TTTACTTTT
2514082 TATTATTTTGCTTATTTACTTTT
1 T-TTATTTT-CTTATTTACTTTT
2514105 TTTATTTTC
1 TTTATTTTC
2514114 ATTCTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 16 0.55
24 3 0.10
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTATTTTCTTATTTACTTTT
Found at i:2514137 original size:14 final size:14
Alignment explanation
Indices: 2514093--2514150 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
2514083 ATTATTTTGC
*
2514093 TTATTTACTTT-TT
1 TTATTTTCTTTATT
2514106 TTATTTTC---ATT
1 TTATTTTCTTTATT
2514117 CTTATTTTCTTTATT
1 -TTATTTTCTTTATT
* *
2514132 TTATTTCCTTTGTT
1 TTATTTTCTTTATT
2514146 TTATT
1 TTATT
2514151 CATTTTCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.05
12 8 0.22
13 7 0.19
14 17 0.46
15 3 0.08
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTTTCTTTATT
Found at i:2518100 original size:24 final size:20
Alignment explanation
Indices: 2518073--2518130 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2518063 GCATGGGTAG
2518073 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
2518097 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
2518117 TGTATCGATGCACT
1 TGCATCGATGCACT
2518131 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:2518469 original size:15 final size:15
Alignment explanation
Indices: 2518449--2518481 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2518439 ATGAGTGTAT
2518449 ATATAT-GCTATGTGA
1 ATATATGGCTATG-GA
2518464 ATATATGGCTATGGA
1 ATATATGGCTATGGA
2518479 ATA
1 ATA
2518482 AAGTATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (15 bp):
ATATATGGCTATGGA
Found at i:2519196 original size:32 final size:32
Alignment explanation
Indices: 2519155--2519244 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
2519145 AGTCGAGGGT
2519155 TTACCTATGTTCTACGGAACATATGGACAAAA
1 TTACCTATGTTCTACGGAACATATGGACAAAA
* **
2519187 TTACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TTACCTATGTTC-TACGGA-ACATATGGACAAAA
* *
2519219 -TACCTATTTTCTAAGGAACATATGGA
1 TTACCTATGTTCTACGGAACATATGGA
2519245 TAGTTTACTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
31 21 0.44
32 27 0.56
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAAAA
Found at i:2523658 original size:16 final size:16
Alignment explanation
Indices: 2523633--2523671 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2523623 ATTATCTTGT
2523633 TTCA-TTTCTTTTGAA
1 TTCATTTTCTTTTGAA
**
2523648 TTCATTTTCTTTTTTA
1 TTCATTTTCTTTTGAA
2523664 TTCATTTT
1 TTCATTTT
2523672 AAATACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (16 bp):
TTCATTTTCTTTTGAA
Found at i:2528345 original size:43 final size:43
Alignment explanation
Indices: 2528237--2528338 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
2528227 ACGAAGGGGT
* *
2528237 CATCCACGATTTCAACTCCACAACGGAGGATATTGTACCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * * *
2528280 AATCCATGATTTTAACTCCACGACGGAGGATATCGTGCTCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
2528323 CATCCACGATTTCAAC
1 CATCCACGATTTCAAC
2528339 ATCACGATGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:2528820 original size:254 final size:254
Alignment explanation
Indices: 2528445--2529108 Score: 840
Period size: 254 Copynumber: 2.6 Consensus size: 254
2528435 CCCAGTTTCA
* * * ** *
2528445 TTTAGAGCCAATTTCAACTTCACGGTGAAGGATATTGGACTCAAAAGAATACAA-GT---TTGGA
1 TTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAAACAGCACAACTTACATTGGA
* * * *
2528506 TTTTAACTTCACGACGAAGGATATCCAAGT-CAAGGCT-ACTCTTCACGATGAAGGGGCCATCCA
66 TTTCAACTTCACGACGAAGGATATCCAATTCCAAGGCTCA-ACTTCACGACGAAGGGGCCATCCA
* * *
2528569 TGATTTCAACTTCACGACGAA-GGATATCGTACACACAAGCAACATCTATCTCTAGATTGGATTT
130 CGATTTCAACTTCACGACGAAGGGA-ATCGTACACACAAACAACATCCATCTCTAGATTGGATTT
* *
2528633 CAACTTCACGACGAATGATATAGATCTCAAAGAAGGAGTG-CTTGTCAACAAACTTTCCAGT
194 CAACTTCACGACGAAGGATATAGAACTCAAAGAAGGAGTGTC-TGTCAACAAACTTTCCAGT
*
2528694 TTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAAACAGCACAACTTACATTGGA
1 TTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAAACAGCACAACTTACATTGGA
* * *
2528759 ATTCAACTTCACGACGAAGGATATCCAATTCCATGGCTCAACTTCACAACGAAGGGGCCATCCAC
66 TTTCAACTTCACGACGAAGGATATCCAATTCCAAGGCTCAACTTCACGACGAAGGGGCCATCCAC
* * * *
2528824 GGTTTCAACTTTACGACGAAGGGAATCGTGCACACAAACAACATCCATCTCTAGATTGGATTTCT
131 GATTTCAACTTCACGACGAAGGGAATCGTACACACAAACAACATCCATCTCTAGATTGGATTTCA
** * * *
2528889 ACTTCACGACGAAGGATATCTAACTCAAAGAATGAGTGTCTGTCAATAAACTTTCTAGT
196 ACTTCACGACGAAGGATATAGAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGT
* * * * * *
2528948 TTCAGAGTCAATTTTAACTTCACAGTAAAGGATATTGGCCTCGAAACAGCGCAACTTACATTGGA
1 TTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAAACAGCACAACTTACATTGGA
* * * * **
2529013 TTTCAACTTCATGATGAAGGATATTCAATTCCAAGGCTCAACTTCACGTCGAAGGGGCCATATAC
66 TTTCAACTTCACGACGAAGGATATCCAATTCCAAGGCTCAACTTCACGACGAAGGGGCCATCCAC
* * * * *
2529078 AATTCCAACTTCACAATGAAGGGTATCGTAC
131 GATTTCAACTTCACGACGAAGGGAATCGTAC
2529109 CCCAACAGAT
Statistics
Matches: 355, Mismatches: 52, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
249 48 0.14
250 1 0.00
253 32 0.09
254 269 0.76
255 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (254 bp):
TTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAAACAGCACAACTTACATTGGA
TTTCAACTTCACGACGAAGGATATCCAATTCCAAGGCTCAACTTCACGACGAAGGGGCCATCCAC
GATTTCAACTTCACGACGAAGGGAATCGTACACACAAACAACATCCATCTCTAGATTGGATTTCA
ACTTCACGACGAAGGATATAGAACTCAAAGAAGGAGTGTCTGTCAACAAACTTTCCAGT
Found at i:2529519 original size:11 final size:11
Alignment explanation
Indices: 2529499--2529529 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2529489 CCCTCACTAT
2529499 TATAATATTTA
1 TATAATATTTA
*
2529510 TATTATATTTA
1 TATAATATTTA
2529521 TATAATATT
1 TATAATATT
2529530 ATTAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATAATATTTA
Found at i:2530658 original size:3 final size:3
Alignment explanation
Indices: 2530650--2530684 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
2530640 ATGTTGCGTT
*
2530650 TTA TTA TTA TTA TTA TACA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
2530685 ATGTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.93
4 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2530695 original size:2 final size:2
Alignment explanation
Indices: 2530682--2530722 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2530672 TTATTATTAT
*
2530682 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2530723 TTCTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2531001 original size:12 final size:11
Alignment explanation
Indices: 2530986--2531066 Score: 62
Period size: 12 Copynumber: 7.1 Consensus size: 11
2530976 CCATTATTTA
2530986 TTTATTTTACTT
1 TTTATTTT-CTT
2530998 TTTATTATT-TT
1 TTTATT-TTCTT
*
2531009 TCTTATTTACTTT
1 T-TTATTTTC-TT
2531022 TTCTATTTTCTAT
1 TT-TATTTTCT-T
2531035 TTTATTTT-TAT
1 TTTATTTTCT-T
2531046 TTTATTTTC--
1 TTTATTTTCTT
2531055 TTTATTTTCTT
1 TTTATTTTCTT
2531066 T
1 T
2531067 ATTTTATTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
9 9 0.16
11 16 0.28
12 19 0.33
13 14 0.24
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:2531001 original size:16 final size:15
Alignment explanation
Indices: 2530982--2531057 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 15
2530972 TATTCCATTA
2530982 TTTATTTATTTTACTT
1 TTTATTTATTTT-CTT
2530998 TTTA-TTA-TTT-TT
1 TTTATTTATTTTCTT
* *
2531010 CTTATTTACTTTTTCTA
1 TTTATTTA--TTTTCTT
* *
2531027 TTT-TCTATTTTATT
1 TTTATTTATTTTCTT
2531041 TTTATTTTATTTTCTT
1 TTTA-TTTATTTTCTT
2531057 T
1 T
2531058 ATTTTCTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
12 5 0.11
13 3 0.07
14 11 0.24
15 3 0.07
16 20 0.44
17 3 0.07
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTTCTT
Found at i:2531005 original size:23 final size:22
Alignment explanation
Indices: 2530978--2531046 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
2530968 TCCTTATTCC
2530978 ATTATTTATTTATTTTACTTTTT
1 ATTATTT-TTTATTTTACTTTTT
2531001 ATTATTTTTCT-TATTTACTTTTT
1 ATTATTTTT-TAT-TTTACTTTTT
* *
2531024 -CTATTTTCTATTTTA-TTTTT
1 ATTATTTTTTATTTTACTTTTT
2531044 ATT
1 ATT
2531047 TTATTTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.13
21 6 0.15
22 10 0.26
23 18 0.46
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTATTTTTTATTTTACTTTTT
Found at i:2531055 original size:23 final size:22
Alignment explanation
Indices: 2530990--2531074 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
2530980 TATTTATTTA
*
2530990 TTTTACTTTTTATTAT-TTTTCT
1 TTTTA-TTTTTATTTTATTTTCT
* *
2531012 TATTTA-CTTT-TTCTATTTTCT
1 T-TTTATTTTTATTTTATTTTCT
2531033 ATTTTATTTTTATTTTATTTTCT
1 -TTTTATTTTTATTTTATTTTCT
2531056 TTATT-TTCTTTATTTTATT
1 TT-TTATT-TTTATTTTATT
2531075 CATTTTCACT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.06
21 13 0.25
22 9 0.17
23 27 0.52
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTTTTATTTTATTTTCT
Found at i:2531060 original size:14 final size:14
Alignment explanation
Indices: 2530982--2531074 Score: 51
Period size: 14 Copynumber: 7.1 Consensus size: 14
2530972 TATTCCATTA
2530982 TTTATTTATTTTACT
1 TTTATTTATTTTA-T
2530997 TTT-TATTATTTT-T
1 TTTAT-TTATTTTAT
* *
2531010 CTTATTTACTTT-T
1 TTTATTTATTTTAT
* *
2531023 TCTA-TT-TTCTAT
1 TTTATTTATTTTAT
2531035 TTTA--T-TTTTAT
1 TTTATTTATTTTAT
2531046 TTTATTT-TCTTTAT
1 TTTATTTAT-TTTAT
*
2531060 TTTCTTTATTTTAT
1 TTTATTTATTTTAT
2531074 T
1 T
2531075 CATTTTCACT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
11 12 0.19
12 6 0.10
13 14 0.23
14 19 0.31
15 11 0.18
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:2531067 original size:18 final size:18
Alignment explanation
Indices: 2531046--2531081 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2531036 TTATTTTTAT
* *
2531046 TTTATTTTCTTTATTTTC
1 TTTATTTTATTCATTTTC
2531064 TTTATTTTATTCATTTTC
1 TTTATTTTATTCATTTTC
2531082 ACTTGTTTTA
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:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATTCATTTTC
Found at i:2532045 original size:20 final size:20
Alignment explanation
Indices: 2532020--2532066 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2532010 CATGTTCTGG
*
2532020 TTGACTCTGG-TCGGTTTATA
1 TTGACTC-GGTTCGGTCTATA
*
2532040 TTGACTCGGTTCGGTCTATG
1 TTGACTCGGTTCGGTCTATA
2532060 TTGACTC
1 TTGACTC
2532067 AGCCTGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGACTCGGTTCGGTCTATA
Found at i:2533571 original size:28 final size:29
Alignment explanation
Indices: 2533553--2533611 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
2533543 AATAAAGTTC
*
2533553 ATTTTGATT-TAATTTAAAAATAATATAT
1 ATTTTAATTATAATTTAAAAATAATATAT
2533581 ATTTTAATTATAATTT-AAAATAAGTATAT
1 ATTTTAATTATAATTTAAAAATAA-TATAT
2533610 AT
1 AT
2533612 ATAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTTTAATTATAATTTAAAAATAATATAT
Found at i:2535742 original size:15 final size:15
Alignment explanation
Indices: 2535722--2535755 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2535712 AAAACGATGA
2535722 TATTTTGACAATTTG
1 TATTTTGACAATTTG
2535737 TATTTTGACAATTTG
1 TATTTTGACAATTTG
2535752 TATT
1 TATT
2535756 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TATTTTGACAATTTG
Found at i:2542296 original size:22 final size:22
Alignment explanation
Indices: 2542271--2542317 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2542261 TAAATATCTA
*
2542271 TCTTATCTTCTACTTAGATAAG
1 TCTTAACTTCTACTTAGATAAG
*
2542293 TCTTAACTTCTATTTAGATAAG
1 TCTTAACTTCTACTTAGATAAG
2542315 TCT
1 TCT
2542318 AAGATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (22 bp):
TCTTAACTTCTACTTAGATAAG
Found at i:2547430 original size:87 final size:87
Alignment explanation
Indices: 2547284--2547446 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
2547274 TATGTTATAT
*
2547284 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
2547349 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
2547371 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
1 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
2547436 AGCGCTTATAT
66 AGCGCTTATAT
2547447 TGACATATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:2550755 original size:183 final size:183
Alignment explanation
Indices: 2550447--2551013 Score: 976
Period size: 183 Copynumber: 3.1 Consensus size: 183
2550437 TTAAAATTAG
*
2550447 CGACACAATATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
2550512 ATACAGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACAGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
2550577 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
*
2550630 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
2550695 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGTTGA
66 ATACAGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
*
2550760 CACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
2550813 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * * * *
2550878 ATACTGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAA--T
66 ATACAGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA---TATGTAAATGT
*
2550941 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
128 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
2550997 CGACACAATATTAAAAA
1 CGACACAATATTAAAAA
2551014 TGTGAAAACT
Statistics
Matches: 365, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
183 289 0.79
184 71 0.19
186 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACAGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:2552259 original size:12 final size:12
Alignment explanation
Indices: 2552226--2552262 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2552216 ACTTGTTTGG
*
2552226 ATCATCATCATC
1 ATCATCATCGTC
2552238 ATCATCATCGTC
1 ATCATCATCGTC
*
2552250 ATCTTCATCGTC
1 ATCATCATCGTC
2552262 A
1 A
2552263 GGTTCATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:2554095 original size:200 final size:200
Alignment explanation
Indices: 2553795--2554734 Score: 1727
Period size: 200 Copynumber: 4.7 Consensus size: 200
2553785 TTATATATCA
* * *
2553795 ATTCTCTCATAAAATCGGTATACTTATACCGGTTAGATTGAAAAATTACCTAATACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
* *
2553860 TTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
2553925 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
2553990 GACCT
196 GACCT
2553995 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
2554060 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
*
2554125 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
2554190 GACCT
196 GACCT
*
2554195 ATTCTCTCAAAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
*
2554260 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTATTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
* *
2554325 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTGTTTA
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
2554390 GACCT
196 GACCT
2554395 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
*
2554460 ATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
* *
2554525 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATATATTATTTA
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
2554590 GACCT
196 GACCT
* *
2554595 ATTCTCTCATAAAATCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
* *
2554660 TTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
2554725 TGTTTGCCAT
131 TGTTTGCCAT
2554735 ATTGTAAATT
Statistics
Matches: 719, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 719 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
GACCT
Found at i:2554979 original size:18 final size:18
Alignment explanation
Indices: 2554956--2555016 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2554946 TCTCATTCAT
*
2554956 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2554974 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2554993 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2555012 AATTA
1 AATTA
2555017 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2554992 original size:19 final size:19
Alignment explanation
Indices: 2554968--2555016 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2554958 TTATATTCAC
2554968 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2554987 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2555006 ATACAAAATTA
1 ATACAAAATTA
2555017 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2556844 original size:33 final size:33
Alignment explanation
Indices: 2556807--2556872 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2556797 CATCTTAATA
*
2556807 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2556840 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2556873 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2556931 original size:21 final size:21
Alignment explanation
Indices: 2556906--2556970 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2556896 CCCCTTATGC
* *
2556906 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2556927 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
2556948 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2556969 CT
1 CT
2556971 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:2559418 original size:20 final size:19
Alignment explanation
Indices: 2559372--2559418 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2559362 TCCGGTAACG
2559372 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2559391 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2559412 TTTTACC
1 TTTTACC
2559419 TGGTATATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2559462 original size:181 final size:182
Alignment explanation
Indices: 2559158--2559630 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 182
2559148 CGTACTTACG
* *
2559158 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
2559223 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
2559288 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
2559339 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
2559404 TATCATATTTTTACCTGGTATATTGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
2559469 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * **
2559521 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
2559586 TGTCATAGTTTTACATGTTATATCATTTTGGATCGACACATTTTT
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTT
2559631 AATTTGGATC
Statistics
Matches: 263, Mismatches: 28, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 167 0.63
182 96 0.37
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2560581 original size:183 final size:182
Alignment explanation
Indices: 2560122--2561444 Score: 1952
Period size: 182 Copynumber: 7.3 Consensus size: 182
2560112 AATACAAATG
* * * * *
2560122 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* * * *
2560187 AAACCGGTAAAACGCTACCGGATATGTTGAAAATG-CTGATAATTTAATATAAGTATCAACACTT
66 AAACAGGTAAAACACTACCGGATATGTTGAAAGTGTC-GATAATTTAATATAAGTATCGACACTT
2560251 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * *
2560304 GAGAATGTATCGATCTATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* *
2560369 AAACAGGTAAATA-ACTACCGAATATGTTGAAAGTGTCGATATTTTAATATAAGTATCGACACTT
66 AAACAGGTAAA-ACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * *
2560433 T-TGGAATTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTGTCGATACTTTTAA
130 TCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACAC-TTTAT
2560487 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* * *
2560552 AAACCGGTAAAACGCTACCGGATATGTTGAATAGTGTTGATAATTTAATATAAGTATCGACACTT
66 AAACAGGTAAAACACTACCGGATATGTTGAA-AGTGTCGATAATTTAATATAAGTATCGACACTT
2560617 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * ** *
2560670 GAAAATGTATTGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTTTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
** *
2560735 AAACAGGTAAATA-ACTATTGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
66 AAACAGGTAAA-ACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * *
2560799 T-TGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
130 TCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTT-AT
2560853 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
2560918 AAATC-GGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
66 AAA-CAGGTAAAACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
*
2560982 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTAGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
*
2561035 GAAAATGTATC-AGTCCATAACAATATAAC---TAAAAATATGACAAAACCGGTCTCAAAATGAC
1 AAAAATGTATCGA-TCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGAC
* *
2561096 AAAACATGTAAATA-ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
65 AAAACAGGTAAA-ACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
* * *
2561160 TT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
129 TTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
** * *
2561214 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATAACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* *
2561279 AAACTA-GTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTT
66 AAAC-AGGTAAAACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
*
2561343 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * **
2561396 GAAAATGTATCGATACATAACTATATAACAACTAAAAATATGACAAAAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
2561445 AGGTAAATAA
Statistics
Matches: 1030, Mismatches: 87, Indels: 48
0.88 0.07 0.04
Matches are distributed among these distances:
178 2 0.00
179 163 0.16
180 2 0.00
181 4 0.00
182 435 0.42
183 346 0.34
184 77 0.07
185 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
AAACAGGTAAAACACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
Found at i:2560793 original size:366 final size:365
Alignment explanation
Indices: 2560122--2563243 Score: 4787
Period size: 366 Copynumber: 8.6 Consensus size: 365
2560112 AATACAAATG
* * * * *
2560122 AAAAATGTATTGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* *
2560187 AAACCGGTAAAACGCTACCGGATATGTTGAAAATG-CTGATAATTTAATATAAGTATCAACACTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTC-GATAATTTAATATAAGTATCGACACTT
*
2560251 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAGAATGTATCG
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
* *
2560316 ATCTATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
195 ATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
* *
2560381 AACTACCGAATATGTTGAAAGTGTCGATATTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
260 AACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
* *
2560446 GAGAAGAAGTTACAGCGCCTATAAAGTGTCGATACTTTTAA
325 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
2560487 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
2560552 AAACCGGTAAAACGCTACCGGATATGTTGAATAGTGTTGATAATTTAATATAAGTATCGACACTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAA-AGTGTCGATAATTTAATATAAGTATCGACACTT
*
2560617 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTG
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG
*
2560682 ATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTTTCAAAATGACAAAACAGGTAAAT
195 ATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
**
2560747 AACTATTGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
260 AACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
*
2560812 GAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
325 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
2560853 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
2560918 AAATCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2560983 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTAGACACTTTATGAAAATGTATC-A
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
*
2561047 GTCCATAACAATAT---AACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACATGTAAAT
196 -TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
2561109 AACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
260 AACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAA
2561174 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AA
325 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
** * *
2561214 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATAACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
** * * *
2561279 AAACTAGTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2561344 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
* *
2561409 TACATAACTATATAACAAC--------T-A-AAAA------T----ATGACAAAACAGGTAAATA
196 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
*
2561454 ACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
261 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
2561519 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
326 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
** * *
2561559 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATAACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* * * * *
2561624 AAACTGATAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2561689 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
*
2561754 TCCATAACTATATAACAAC--------T-A-AAAA------T----ATGACAAAACAGGTAAATA
196 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
*
2561799 ACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
261 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
*
2561864 AGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAA
326 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
* *
2561904 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
2561969 AAATCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2562034 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCAA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
2562099 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
196 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
**
2562164 ACTACCATATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
261 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
*
2562229 AGAAGAATTTATAGCGCCTATAAAGTGTCGATACTTTAAAA
326 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAA
* *
2562270 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCAGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* * *
2562335 AAACCGGTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTT
66 AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2562400 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
* * * *
2562465 TCCATAATAATATAACAGCTAAAAATATTACAAAACCGGTCTCAAAATGACAAAACAAGTAAATA
196 TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
*
2562530 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTTTGGAATTTAAAAG
261 ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
* * * *
2562595 AGAAGAAGTTATAGTGCATATAAAGTGTCAATACGTT-AA
326 AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
* *
2562634 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATATGACAAAAGAGGTAT
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC--AA-A--AC-----CGGTCT
* *** *
2562699 AAAAATGACAAAACCGGTAAAAATATACCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTA
56 CAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTA
*
2562764 TCGTCACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAA
121 TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAA
* * *
2562829 AATGTATCTATCCATAACAATATAACAGCTAAAAATATGACAAAAACGGTCTCAAAATGACAAAA
186 AATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAA
* *
2562894 CAAGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACGCTTTTGG
251 CAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGG
*
2562959 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TA
316 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
* * * * * *
2563008 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGATAAAGCAGGTATAAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCT-CAAAATGAC
* * * * *
2563073 AAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAAAATAAGTATCAACACTT
65 AAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * * *
2563138 T-TGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TAAAAAATATAT
130 TCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT-GAAAATGTAT
* ** * *
2563201 CGATCCATAACAATATAATAGGTTAAAATATGATAAAACCGGT
193 CGATCCATAACAATATAACAACTAAAAATATGACAAAACCGGT
2563244 AAAGCGCTAT
Statistics
Matches: 2588, Mismatches: 127, Indels: 84
0.92 0.05 0.03
Matches are distributed among these distances:
344 119 0.05
345 544 0.21
348 1 0.00
353 1 0.00
354 5 0.00
355 5 0.00
356 1 0.00
361 195 0.08
362 147 0.06
364 58 0.02
365 475 0.18
366 695 0.27
367 1 0.00
369 2 0.00
371 1 0.00
372 2 0.00
374 336 0.13
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (365 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
AAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
TCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA
ACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAG
AGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
Found at i:2561468 original size:162 final size:162
Alignment explanation
Indices: 2561267--2562134 Score: 987
Period size: 162 Copynumber: 5.1 Consensus size: 162
2561257 CAAAATTGGT
2561267 CTAAAAATA--ACAAAACTA-GTAAA-ACACTACC-GAATATGTTGAAAGTGTCGATAATTTAAT
1 CTAAAAATATGACAAAAC-AGGTAAATA-ACTACCAG-ATATGTTGAAAGTGTCGATAATTTAAT
* *
2561327 ATAAGTATCGTCACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACT
63 ATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACT
* *
2561392 TTATGAAAATGTATCGATACATAACTATATAACAA
128 TTATGAAAATGTATCGATCCATAACAATATAACAA
*
2561427 CTAAAAATATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATA
1 CTAAAAATATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATAATTTAATATA
* *
2561492 AGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT
66 AGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTT
** *
2561556 AAAAAAAATGTATCGATCCATAACAATATAACAG
130 -ATGAAAATGTATCGATCCATAACAATATAACAA
* **
2561590 GTAAAAATATGACAAAATTGGTCTAAAAATAACAAAACTGATAAAACACTACCGAATATGTTGAA
1 CTAAAAATATGACAAAACAGG--T--AAAT-----AAC---T---AC-C-A--G-ATATGTTGAA
*
2561655 AGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
46 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* *
2561720 TAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATAACTATATAACAA
111 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAA
*
2561772 CTAAAAATATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATA
1 CTAAAAATATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATAATTTAATATA
* * *
2561837 AGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTT
66 AGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTT
** *
2561901 AAAAAAAATGTATCGATCCATAACAATATAACAG
130 -ATGAAAATGTATCGATCCATAACAATATAACAA
* *** *
2561935 GTAAAAATATGACAAAATC-GGTTTCAAAATGACAAAATCGGTAAAACGCTACCGGATATGTTGA
1 CTAAAAATATGACAAAA-CAGG--T--AAAT-----AA-C--T---AC-C-A-GATATG--TTGA
2561999 AAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGC
45 AAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGC
*
2562064 CTAAAAAGTGTCGACACTTTATGAAAATGTATCAATCCATAACAATATAACAA
110 CTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAA
2562117 CTAAAAATATGACAAAAC
1 CTAAAAATATGACAAAAC
2562135 CGGTCTCAAA
Statistics
Matches: 607, Mismatches: 49, Indels: 83
0.82 0.07 0.11
Matches are distributed among these distances:
160 9 0.01
161 3 0.00
162 191 0.31
163 96 0.16
164 1 0.00
165 3 0.00
166 1 0.00
167 10 0.02
170 1 0.00
172 5 0.01
173 4 0.01
175 2 0.00
178 8 0.01
179 2 0.00
180 3 0.00
181 3 0.00
182 93 0.15
183 170 0.28
184 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (162 bp):
CTAAAAATATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATAATTTAATATA
AGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTA
TGAAAATGTATCGATCCATAACAATATAACAA
Found at i:2561721 original size:345 final size:344
Alignment explanation
Indices: 2561091--2563284 Score: 2985
Period size: 345 Copynumber: 6.2 Consensus size: 344
2561081 CGGTCTCAAA
*
2561091 ATGACAAAACATGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
2561156 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
66 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
* **
2561221 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATAACAAAACTAG
131 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATGACAAAACCGG
2561286 TAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAATT
196 TAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAATT
*
2561351 TAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATACATAA
261 TAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATAA
*
2561416 CTATATAACAACTAAAAAT
326 CAATATAACAACTAAAAAT
*
2561435 ATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
2561500 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAAAT
66 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAAAAAAT
* *
2561565 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATAACAAAACTG
130 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATGACAAAACCG
*
2561630 ATAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAAT
195 GTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAAT
2561695 TTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATA
260 TTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATA
*
2561760 ACTATATAACAACTAAAAAT
325 ACAATATAACAACTAAAAAT
*
2561780 ATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
*
2561845 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAAAT
66 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-AAAAAAAT
* * * *
2561910 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAAAATGACAAAATCG
130 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATGACAAAACCG
* * *
2561975 GTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAAT
195 GTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAAT
* *
2562040 TTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCAATCCATA
260 TTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATA
2562105 ACAATATAACAACTAAAAATATGACAAAACCGGTCT
325 ACAATATAACAAC--------T-A-AAAA------T
**
2562141 CAAAATGACAAAACAGGTAAATAACTACCATATATGTTGAAAGTGTCGATACTTTAATATAAGTA
1 ----ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTA
*
2562206 TCGACACTTTTGGAATTTAAAAGAGAAGAATTTATAGCGCCTATAAAGTGTCGATACTTTAAAAA
62 TCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT--AAA
** *
2562271 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCAGTCTCAAAATGACAA
125 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATGACAA
2562336 AACCGGTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTC
190 AACCGGTAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTC
2562401 TGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGAT
255 TGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGAT
* *
2562466 CCATAATAATATAACAGCTAAAAATATTACAAAACCGGTCT
320 CCATAACAATAT-A-A-C-----A-ACTA-AAAA------T
* *
2562507 CAAAATGACAAAACAAGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGAA
1 ----ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTA
* * * *
2562572 TCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGTGCATATAAAGTGTCAATACGTTAAAAA
62 TCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAA
*
2562637 AATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATATGACAAAAGAGGTATAAA
127 AATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT-T---------GGTCTAAA
* * *
2562702 AATGACAAAACCGGTAAAA-ATATACCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATC
182 AATGACAAAACCGGTAAAACA-CTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATC
*
2562766 GTCACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAA
246 GTCACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAA
* *
2562831 TGTATCTATCCATAACAATATAACAGCTAAAAAT
311 TGTATCGATCCATAACAATATAACAACTAAAAAT
2562865 ATGACAAAAACGGTCTCAAAATGACAAAACAAGTAAATAACTACCGGATATGTTGAAAGTGTCGA
1 ATGAC-AAAA------C---A-G---------GTAAATAACTACCGGATATGTTGAAAGTGTCGA
*
2562930 TACTTTAATATAAGTATCGACGCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGT
46 TACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGT
* * * ***
2562995 GTCGATACTTTTAAAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGATAAAGCAGG
111 GTCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGG
* * *
2563060 TATAAAAAATGACAAAACCGGTAAAA-AGATACC-AGATATGTTGAAAGTGTCGATAATTTAAAA
176 TCT-AAAAATGACAAAACCGGTAAAACA-CTACCGA-ATATGTTGAAAGTGTCGATAATTTAATA
** * * * *
2563123 TAAGTATCAACACTTT-TGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACT
238 TAAGTATCGTCACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACT
* * * ** *
2563187 TT-TAAAAAATATATCGATCCATAACAATATAATAGGTTAAAAT
302 TTAT-GAAAATGTATCGATCCATAACAATATAACAACTAAAAAT
* * *** * *
2563230 ATGATAAAACCGGTAAAGCGCTATCGGGTATGTTGAAAGTGTCGATACTTTAATA
1 ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATA
2563285 AGTACTCGTA
Statistics
Matches: 1696, Mismatches: 88, Indels: 131
0.89 0.05 0.07
Matches are distributed among these distances:
344 119 0.07
345 582 0.34
353 1 0.00
354 7 0.00
355 8 0.00
358 2 0.00
361 2 0.00
364 67 0.04
365 270 0.16
366 332 0.20
367 2 0.00
368 1 0.00
369 1 0.00
371 1 0.00
372 1 0.00
373 2 0.00
374 297 0.18
375 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (344 bp):
ATGACAAAACAGGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATTGGTCTAAAAATGACAAAACCGG
TAAAACACTACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGTCACTTTCTGAATT
TAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAATGTATCGATCCATAA
CAATATAACAACTAAAAAT
Found at i:2562199 original size:182 final size:181
Alignment explanation
Indices: 2561780--2563243 Score: 1988
Period size: 182 Copynumber: 8.0 Consensus size: 181
2561770 AACTAAAAAT
*
2561780 ATGACAAAACAGGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* *
2561845 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAAAT
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-ATAAAAAT
* *
2561910 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* *
2561963 ATGACAAAATC-GGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
1 ATGACAAAA-CAGGTAAAA-ACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
* * *
2562027 ACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAA
64 ACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* **
2562091 TGTATCAATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAA
128 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* *
2562145 ATGACAAAACAGGTAAATAACTACCATATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* *
2562210 CACTTTTGGAATTTAAAAGAGAAGAATTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAAAA
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT--ATAAAAA
* *
2562275 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCAGTCTCAAA
128 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
*
2562329 ATGACAAAACCGGTAAAACACTACC-GAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
1 ATGACAAAACAGGTAAAA-ACTACCAG-ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
* * * * *
2562393 TCACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACACTTTATGAAAA
64 ACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* * *
2562457 TGTATCGATCCATAATAATATAACAGCTAAAAATATTACAAAACCGGTCTCAAA
128 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* * * *
2562511 ATGACAAAACAAGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGAATCGA
1 ATGACAAAACAGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* * * * *
2562576 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGTGCATATAAAGTGTCAATACGTTAAAAAAATG
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG
* * *
2562641 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATATGACAAAAGAGGTATAAAA
130 TATCGATCCATAACAATATAACAGGTAAAAATATGAC--AA-A--AC-----CGGTCTCAAA
* * * * *
2562703 ATGACAAAACCGGTAAAAATATACCGGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGT
1 ATGACAAAACAGGTAAAAA-CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* * *
2562768 CACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAAT
65 CACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAAT
* * *
2562832 GTATCTATCCATAACAATATAACAGCTAAAAATATGACAAAAACGGTCTCAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* * *
2562885 ATGACAAAACAAGTAAATAACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAA-AACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
*
2562950 CGCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TAAAAAAT
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT-AAAAAT
* * * * * *
2563014 GTATCGATCCATAACAATATAATAGGTAAAAATATGATAAAGCAGGTATAAAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCT-CAAA
* * * *
2563068 ATGACAAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAAAATAAGTATCAA
1 ATGACAAAACAGGTAAAAA-CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
*
2563133 CACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TAAAAAAT
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT-AAAAAT
* * * *
2563197 ATATCGATCCATAACAATATAATAGGTTAAAATATGATAAAACCGGT
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
2563244 AAAGCGCTAT
Statistics
Matches: 1135, Mismatches: 115, Indels: 62
0.87 0.09 0.05
Matches are distributed among these distances:
181 5 0.00
182 523 0.46
183 278 0.24
184 166 0.15
185 2 0.00
187 3 0.00
189 1 0.00
190 2 0.00
191 2 0.00
192 152 0.13
193 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (181 bp):
ATGACAAAACAGGTAAAAACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAC
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGT
ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
Found at i:2562717 original size:20 final size:20
Alignment explanation
Indices: 2562678--2562724 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2562668 AAAATATGAC
*
2562678 AAAATATGACAAAAGAGGTA
1 AAAATATGACAAAACAGGTA
*
2562698 TAAAA-ATGACAAAACCGGTA
1 -AAAATATGACAAAACAGGTA
2562718 AAAATAT
1 AAAATAT
2562725 ACCGGATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.17
Consensus pattern (20 bp):
AAAATATGACAAAACAGGTA
Found at i:2563082 original size:21 final size:22
Alignment explanation
Indices: 2563040--2563086 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
2563030 ATATAATAGG
* *
2563040 TAAAAATATGATAAAGCAGGTA
1 TAAAAATATGACAAAACAGGTA
*
2563062 TAAAAA-ATGACAAAACCGGTA
1 TAAAAATATGACAAAACAGGTA
2563083 -AAAA
1 TAAAA
2563087 GATACCAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.17
Consensus pattern (22 bp):
TAAAAATATGACAAAACAGGTA
Found at i:2563716 original size:22 final size:19
Alignment explanation
Indices: 2563671--2563739 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2563661 CTTTTATTTA
*
2563671 ATATTATATGTAAAAAAATG
1 ATATTATAGGT-AAAAAATG
* *
2563691 TTATTGTAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
*
2563710 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAAAAAATG
*
2563729 ATATTTTAGGT
1 ATATTATAGGT
2563740 TGTATAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 34 0.81
20 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:2565643 original size:14 final size:14
Alignment explanation
Indices: 2565624--2565666 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
2565614 GAAAAACTTG
2565624 GATGAAGGGATGAA
1 GATGAAGGGATGAA
2565638 GATGAAGGG-TGAA
1 GATGAAGGGATGAA
*
2565651 -ATAAAGGAGATGAA
1 GATGAAGG-GATGAA
2565665 GA
1 GA
2565667 GCTATGTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 13 0.52
15 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.14
Consensus pattern (14 bp):
GATGAAGGGATGAA
Found at i:2565728 original size:18 final size:18
Alignment explanation
Indices: 2565705--2565743 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2565695 GGAAAAATTT
*
2565705 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
2565723 GAAGAATAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
2565741 GAA
1 GAA
2565744 ATGGGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:2567235 original size:19 final size:19
Alignment explanation
Indices: 2567211--2567260 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2567201 AAATGTAGGG
* *
2567211 TTAATTTTGTATAATATTT
1 TTAATTTTATATAAGATTT
*
2567230 TTAATTTTATATACGATTT
1 TTAATTTTATATAAGATTT
*
2567249 ATAATTTTATAT
1 TTAATTTTATAT
2567261 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTAATTTTATATAAGATTT
Found at i:2568127 original size:199 final size:199
Alignment explanation
Indices: 2567634--2568528 Score: 1393
Period size: 199 Copynumber: 4.5 Consensus size: 199
2567624 TAAACTTATG
* *
2567634 TGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAT
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
2567699 GTAAATTAACAATTTAACCGGACTAAATATACCGGTTTTTGAGAAAACAGTTATACAAAAAGTAT
66 GTAAATTAACAATTTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATTTGTACAAAAAGTAT
*
2567764 CGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC-TA
131 CGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACATA
*
2567828 AAAG
196 AAAA
* *
2567832 TGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* *
2567897 GTAAATTAGCAATTTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATTTGTACAAAAAGTAT
66 GTAAATTAACAATTTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATTTGTACAAAAAGTAT
* * * *
2567962 CGACACAACTAAAACAAGTGTTGATACTTTTGGTCCATAATGTATTTCTTAACCAAGTGCACAGA
131 CGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACATA
2568027 AAAA
196 AAAA
*
2568031 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
2568096 GTAAATTAGCAATGTAACCGGTCTAAATATACCGGTTTTTAAGAAAACATTTGTACAAAAAGTAT
66 GTAAATTAACAATTTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATTTGTACAAAAAGTAT
* * *
2568161 CGACACAACTAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTTAACCAAGTACACATA
131 CGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACATA
2568226 AAAA
196 AAAA
*
2568230 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATGAA-GTAATA
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-AATGTAATA
* * *
2568294 GGTAAATTAACAATTTAACTGATCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
65 GGTAAATTAACAATTTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATTTGTACAAAAAGTA
* ** * *
2568359 TCGACACAAATAAAACAAGTGTCGATACTTTTTTTCCATAGTGTATTT-TAAAAACCAAGTGCAC
130 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCT--AAACCAAGTGCAC
*
2568423 A-ACAAAG
193 ATA-AAAA
* *
2568430 TTTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
2568495 GTAAATTAACAATGTAACCGGTATAAAAATACCG
66 GTAAATTAACAATTTAACCGGTCTAAATATACCG
2568529 TTTGAAAACA
Statistics
Matches: 646, Mismatches: 45, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
198 182 0.28
199 359 0.56
200 105 0.16
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAAATTAACAATTTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATTTGTACAAAAAGTAT
CGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACATA
AAAA
Found at i:2568894 original size:15 final size:15
Alignment explanation
Indices: 2568874--2568931 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
2568864 TTTCTCAAAG
2568874 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
2568889 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
2568904 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
2568921 CTCCTTCTCAA
1 CT-CTTCTCAA
2568932 ACAATCGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:2571518 original size:24 final size:24
Alignment explanation
Indices: 2571491--2571537 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2571481 TTTTATTTAT
2571491 AATTAGAGTTTGAATTTAAATTTC
1 AATTAGAGTTTGAATTTAAATTTC
* * *
2571515 AATTTGAGTTTGAGTTTGAATTT
1 AATTAGAGTTTGAATTTAAATTT
2571538 AAATGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (24 bp):
AATTAGAGTTTGAATTTAAATTTC
Found at i:2572134 original size:200 final size:200
Alignment explanation
Indices: 2571722--2572711 Score: 1427
Period size: 200 Copynumber: 4.9 Consensus size: 200
2571712 TTATTCATTC
* * * * ** * * *
2571722 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGCACGAAAAAAGTGTTGATAAAT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAC-AACAAAGTGTCGATACAT
* * *
2571786 TTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAAC
65 TTATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATTATAATGTAATAGGTAAATTAAC
**
2571850 AATGTAACCGACCTAAATATACTGGTTTTTGAGAAAACA-GTATACATAAAGTATCGACACAAAT
129 AATGTAACCGGTCTAAATATACTGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAAT
*
2571914 ACAATAA
194 ACAACAA
* *
2571921 GTGTCGATACTTTTTGTCCAGCGTGTATTTTATAAACCAAGTGCACTAA-AAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAC-AACAAAGTGTCGATACAT
* * *
2571985 TTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAAC
65 TTATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATTATAATGTAATAGGTAAATTAAC
* * *
2572049 AATATAACCGGCCTAAATATACTGGTTTTTGAGAAAACATGTATACATAAAGTATCGACATAAAT
129 AATGTAACCGGTCTAAATATACTGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAAT
*
2572114 ACAATAA
194 ACAACAA
*
2572121 GTGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* *
2572186 TATAACAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAA
* * * *
2572251 TGTAACCGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACATAAATGA
131 TGTAACCGGTCTAAATATACTGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAAT-A
2572316 -AACAA
195 CAACAA
*
2572321 GTATCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
*
2572386 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAA
* * * *
2572451 TGTAACCGATCTAAATATA-TCGATTTATGAGAAAACATGTATACATAAAGTATCGACACAAATC
131 TGTAACCGGTCTAAATATACT-GGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATA
2572515 CAACAA
195 CAACAA
*
2572521 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCGATACATT
1 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
* *
2572586 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATATGTAAATTAACAA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAA
* * * * * * * *
2572651 TGTAATCGGTTTAAATTTACCGGTTTTATGAGAAAAATATGTCTAAATAATGTATCGACAC
131 TGTAACCGGTCTAAATATACTGGTTTT-TGAG-AAAACATGTATACATAAAGTATCGACAC
2572712 TTTATTTATT
Statistics
Matches: 732, Mismatches: 49, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
199 139 0.19
200 564 0.77
201 5 0.01
202 24 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAATTAACAA
TGTAACCGGTCTAAATATACTGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATAC
AACAA
Found at i:2572855 original size:202 final size:198
Alignment explanation
Indices: 2572570--2573123 Score: 538
Period size: 202 Copynumber: 2.8 Consensus size: 198
2572560 AGTGCACAAC
* * * * *
2572570 AAAGTTTCGATACATTTA-TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 AAAGTTTCGATACATTTATTAA-AAGTATCGA-CCCAAATACATCGAGACCAAAAATTATAATGT
* * *
2572634 AATATGTAAATTAACAATGTAATCGGTTTAAATTTACCGGTTTTATGAGAAAAATATGTCTAAAT
64 AATAGGTCAATT-ACAATGTAATCGGTTTAAATTTACCGGTTTTATGAG-AAAATAGGTCTAAAT
*
2572699 AATGTATCGACACTTTATT-TATTTGTGTCGATACTTTTTATCCATAATAAAT-TCCCAAACT-A
127 AATGTATCGACACTTT-TTAAATTTGTGTCGATACTTTTTATCCATAATAAATGT--C-AACTGA
* *
2572761 TGTGCACGCTT
188 TGTCCACGCAT
*
2572772 AAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATACATCGAGACCAAAAATTATAATGTA
1 AAAGTTTCGATACATTTATTAAAAGTATCGA-CCCAAATACATCGAGACCAAAAATTATAATGTA
* * *
2572837 ATAGGTC----AC--TGT-A-C------AATGTAACCGGTTTTATGAGCAAATAGGTCTACATAA
65 ATAGGTCAATTACAATGTAATCGGTTTAAAT-TTACCGGTTTTATGAGAAAATAGGTCTAAATAA
* * * * * * * *
2572888 TGTATTGATACTTTTTACATTTTTGCCGATAC-TTATGTCCATAATTAATGTCAACTGATGTCCA
129 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCATAATAAATGTCAACTGATGTCCA
2572952 CGCAT
194 CGCAT
* **
2572957 AAAGTTTCGATACATTTATAAAAAGTATCGACCCAAATACATCGAGACCGGAAATTATAATGTAA
1 AAAGTTTCGATACATTTATTAAAAGTATCGACCCAAATACATCGAGACCAAAAATTATAATGTAA
* * * **
2573022 TAGGTCAATTTATAATGTAACCGGTTGAAATTTACCGGTATAAAT-AGAAAATAGGTC-AACATA
66 TAGGTCAA-TTACAATGTAATCGGTTTAAATTTACCGGT-TTTATGAGAAAATAGGTCTAA-ATA
* * *
2573085 ATGTGTCGACACTTTTTAAATTCGTGTCGACACTTTTTA
128 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTA
2573124 AAATTACGCG
Statistics
Matches: 286, Mismatches: 43, Indels: 49
0.76 0.11 0.13
Matches are distributed among these distances:
184 42 0.15
185 40 0.14
186 16 0.06
187 42 0.15
188 15 0.05
189 1 0.00
191 3 0.01
192 1 0.00
193 2 0.01
194 1 0.00
195 3 0.01
197 3 0.01
198 46 0.16
199 9 0.03
202 59 0.21
203 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (198 bp):
AAAGTTTCGATACATTTATTAAAAGTATCGACCCAAATACATCGAGACCAAAAATTATAATGTAA
TAGGTCAATTACAATGTAATCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATG
TATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCATAATAAATGTCAACTGATGTCCACG
CAT
Found at i:2573016 original size:184 final size:187
Alignment explanation
Indices: 2572669--2573047 Score: 500
Period size: 184 Copynumber: 2.0 Consensus size: 187
2572659 GTTTAAATTT
* * *
2572669 ACCGGTTTTATGAGAAAAATATGTCTAAATAATGTATCGACACTTTATTTATTTGTGTCGATACT
1 ACCGGTTTTATGAGAAAAATAGGTCTAAATAATGTATCGACACTTTATTCATTTGTGCCGATACT
* * * *
2572734 TTTTATCCATAATAAATTCCCAAACTATGTGCACGCTTAAAGTGTCGATACATTTATTAAAAGTA
66 TTATATCCATAATAAATT-CCAAACTATGTCCACGCATAAAGTGTCGATACATTTATAAAAAGTA
*
2572799 TCGACCCCAAATACATCGAGACCAAAAATTATAATGTAATAGGTCACTGTACAATGTA
130 TCGACCCCAAATACATCGAGACCAAAAATTATAATGTAATAGGTCAATGTACAATGTA
* * * * *
2572857 ACCGGTTTTATGAG-CAAATAGGTCTACATAATGTATTGATACTTT-TTACATTTTTGCCGATAC
1 ACCGGTTTTATGAGAAAAATAGGTCTAAATAATGTATCGACACTTTATT-CATTTGTGCCGATAC
* * *
2572920 -TTATGTCCATAATTAATGT-C-AACTGATGTCCACGCATAAAGTTTCGATACATTTATAAAAAG
65 TTTATATCCATAATAAAT-TCCAAACT-ATGTCCACGCATAAAGTGTCGATACATTTATAAAAAG
** * *
2572982 TATCGA-CCCAAATACATCGAGACCGGAAATTATAATGTAATAGGTCAATTTATAATGTA
128 TATCGACCCCAAATACATCGAGACCAAAAATTATAATGTAATAGGTCAATGTACAATGTA
2573041 ACCGGTT
1 ACCGGTT
2573048 GAAATTTACC
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
184 59 0.35
185 40 0.24
186 16 0.10
187 39 0.23
188 14 0.08
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (187 bp):
ACCGGTTTTATGAGAAAAATAGGTCTAAATAATGTATCGACACTTTATTCATTTGTGCCGATACT
TTATATCCATAATAAATTCCAAACTATGTCCACGCATAAAGTGTCGATACATTTATAAAAAGTAT
CGACCCCAAATACATCGAGACCAAAAATTATAATGTAATAGGTCAATGTACAATGTA
Found at i:2578516 original size:23 final size:23
Alignment explanation
Indices: 2578460--2578516 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2578450 TTTATGAGAA
* *
2578460 AATAGGTTAATATAAGCGCTACCT
1 AATACGTT-ATATAAGCACTACCT
* *
2578484 ATTACATTATATAAGCACTACCT
1 AATACGTTATATAAGCACTACCT
*
2578507 AATATGTTAT
1 AATACGTTAT
2578517 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (23 bp):
AATACGTTATATAAGCACTACCT
Found at i:2578911 original size:182 final size:180
Alignment explanation
Indices: 2578595--2579104 Score: 715
Period size: 182 Copynumber: 2.8 Consensus size: 180
2578585 GCACTATTGG
* * *
2578595 ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTCTCTGAATTTAAAAGAGAATAAG
1 ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT-TTTGAAATTAAAAGAGAAGAAG
* * *
2578660 TTATAGCGCCTAAAAAATGTCGACACTTTATGAAAATGTATCGATATATAACAACATAACA-GCT
65 TTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTATAACAATATAACACG-T
2578724 AAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATA-ACTACCGA
129 AAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA-ACA-TACCGA
* * *
2578777 ATATGTTGACAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAAATAAAAAGAGAAGAAG
1 ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTT-GAAATTAAAAGAGAAGAAG
* * * *
2578842 TTATAGCGCCTAAAAAGTGTCGATACTTTGA-AAAAATATATCGATCTATAACAATATTACACGT
65 TTATAGCGCCTAAAAAGTGTCGACACTTT-ATGAAAATGTATCGATCTATAACAATATAACACGT
* * * *
2578906 AAAAATATGACAAAATCGGTCTTAAAATGACAAAACCGGTAAAACGATACCGG
129 AAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAAC-ATACCGA
2578959 ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-AAATTTAAAAGAGAAGAA
1 ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT-TGAAA-TTAAAAGAGAAGAA
* *
2579023 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAAACAAC
64 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTATAACAAT-ATAAC-AC
2579088 -TAAAAATATGACAAAAC
127 GTAAAAATATGACAAAAC
2579105 AGATAAATAA
Statistics
Matches: 291, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
181 7 0.02
182 259 0.89
183 23 0.08
184 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (180 bp):
ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGAAATTAAAAGAGAAGAAGT
TATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCTATAACAATATAACACGTAA
AAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAACATACCGA
Found at i:2579206 original size:163 final size:155
Alignment explanation
Indices: 2578953--2579258 Score: 443
Period size: 163 Copynumber: 1.9 Consensus size: 155
2578943 GGTAAAACGA
*
2578953 TACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTAAATTTAAAAGAG
1 TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTAAATTTAAAAGAG
* *
2579018 AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAA
66 AAGAAGTTATAGCGCCTAAAAAGTGT-----C--TATAAAAATATATCGATCCATAACAAT-AAA
2579083 ACAACTAAAAATATGACAAAACAGATAAATAAC
123 ACAACTAAAAATATGACAAAACAGATAAATAAC
* *
2579116 TACCGAATATGTTGAAAGTGTCGATATTTTAATATAAGTATCGACACTTT-TGGAATTTAAAAGA
1 TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-AAATTTAAAAGA
* * **
2579180 GAAGAAGTTATAGCGCCTATAAAGTGTCTATAAAAATATATCGATCCATAACAATATAACAGGTA
65 GAAGAAGTTATAGCGCCTAAAAAGTGTCTATAAAAATATATCGATCCATAACAATAAAACAACTA
2579245 AAAATATGACAAAA
130 AAAATATGACAAAA
2579259 TCGGTCTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
155 21 0.16
156 25 0.19
158 1 0.01
162 1 0.01
163 85 0.64
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (155 bp):
TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTAAATTTAAAAGAG
AAGAAGTTATAGCGCCTAAAAAGTGTCTATAAAAATATATCGATCCATAACAATAAAACAACTAA
AAATATGACAAAACAGATAAATAAC
Found at i:2579373 original size:338 final size:341
Alignment explanation
Indices: 2578593--2579440 Score: 1229
Period size: 338 Copynumber: 2.4 Consensus size: 341
2578583 AAGCACTATT
* *
2578593 GGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTCTCTGAATTTAAAAGAGAATA
1 GGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGA
* *
2578658 AGTTATAGCGCCTAAAAAATGTCGACACTTTATGAAAATGTATCGATATATAACAACATAACAGC
66 AGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCG----AT--C--CATAACA-A
* * * * *
2578723 TAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGAATATGTTGACA
122 TAAAAACA--ACTAAA--------AATATGACAAAACAGATAAATAACTACCGAATATGTTGAAA
2578788 GTGTCGATACTTTAATATAAGTATCGACACTTTTGGAAATAAAAAGAGAAGAAGTTATAGCGCCT
177 GTGTCGATACTTTAATATAAGTATCGACACTTTTGGAAATAAAAAGAGAAGAAGTTATAGCGCCT
* *
2578853 AAAAAGTGTCGATACTTTGAAAAAATATATCGATCTATAACAATATTACACGTAAAAATATGACA
242 AAAAAGTGTC-ATA--TT-AAAAAATATATCGATCCATAACAATATAACACGTAAAAATATGACA
*
2578918 AAATCGGTCTTAAAATGACAAAACCGGTAAAACGATACC
303 AAATCGGTCTCAAAATGACAAAACCGGTAAAACGATACC
*
2578957 GGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTAAATTTAAAAGAGAAGA
1 GGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGA
2579022 AGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAAACAA
66 AGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAAACAA
*
2579087 CTAAAAATATGACAAAACAGATAAATAACTACCGAATATGTTGAAAGTGTCGATATTTTAATATA
131 CTAAAAATATGACAAAACAGATAAATAACTACCGAATATGTTGAAAGTGTCGATACTTTAATATA
* * *
2579152 AGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTC-TA-T-AAA
196 AGTATCGACACTTTTGGAAATAAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCATATTAAAA
*
2579214 AATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACAAAA
261 AATATATCGATCCATAACAATATAACACGTAAAAATATGACAAAATCGGTCTCAAAATGACAAAA
*
2579279 CCGGTAAAACGCTACC
326 CCGGTAAAACGATACC
*
2579295 -GACTATGTTGAAAGTGTCGATAATTTAATACAAGTATCGACACTTTCTGAATTTAAAAGAGAAG
1 GGA-TATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAG
* *
2579359 AAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCGATAACAAT-ATAACA
65 AAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAAACA
* *
2579423 GCTAAAAATATGAGAAAA
130 ACTAAAAATATGACAAAA
2579441 TAGGTCAACA
Statistics
Matches: 458, Mismatches: 25, Indels: 29
0.89 0.05 0.06
Matches are distributed among these distances:
337 23 0.05
338 195 0.43
340 1 0.00
343 2 0.00
345 109 0.24
353 5 0.01
355 7 0.02
356 7 0.02
358 1 0.00
360 2 0.00
364 106 0.23
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (341 bp):
GGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGA
AGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAAAAACAA
CTAAAAATATGACAAAACAGATAAATAACTACCGAATATGTTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTTGGAAATAAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCATATTAAAA
AATATATCGATCCATAACAATATAACACGTAAAAATATGACAAAATCGGTCTCAAAATGACAAAA
CCGGTAAAACGATACC
Found at i:2579922 original size:20 final size:20
Alignment explanation
Indices: 2579897--2579936 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2579887 TCCGGTTAAA
2579897 TGCATATTTTATTATATAAG
1 TGCATATTTTATTATATAAG
2579917 TGCATATTTTATTATATAAG
1 TGCATATTTTATTATATAAG
2579937 CGCTACCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
TGCATATTTTATTATATAAG
Found at i:2580717 original size:23 final size:24
Alignment explanation
Indices: 2580691--2580741 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2580681 TTGTAATTAC
* * *
2580691 AAAATTATA-TAAATTTAAATTTT
1 AAAATAATATTAAATATAAAGTTT
*
2580714 AAAATAATATTAACTATAAAGTTT
1 AAAATAATATTAAATATAAAGTTT
2580738 AAAA
1 AAAA
2580742 AGTATAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AAAATAATATTAAATATAAAGTTT
Found at i:2589292 original size:3 final size:3
Alignment explanation
Indices: 2589280--2589322 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2589270 TTGAATTTTA
2589280 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2589323 AACATTAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2589753 original size:21 final size:21
Alignment explanation
Indices: 2589729--2589771 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2589719 TGTTATAATG
*
2589729 TTAACGTGATAATTTATGATA
1 TTAACATGATAATTTATGATA
* *
2589750 TTAATATGATAGTTTATGATA
1 TTAACATGATAATTTATGATA
2589771 T
1 T
2589772 CGATGTAATA
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:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (21 bp):
TTAACATGATAATTTATGATA
Found at i:2590535 original size:15 final size:16
Alignment explanation
Indices: 2590509--2590538 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2590499 TCGTCCATTG
2590509 ATATAGTTTTTTTATA
1 ATATAGTTTTTTTATA
2590525 ATATA-TTTTTTTAT
1 ATATAGTTTTTTTAT
2590539 TATTACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATATAGTTTTTTTATA
Found at i:2591658 original size:2 final size:2
Alignment explanation
Indices: 2591651--2591675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2591641 ATTATTACTT
2591651 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2591676 TTCTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2591715 original size:15 final size:13
Alignment explanation
Indices: 2591673--2591716 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2591663 TATATATATA
*
2591673 TATTTCTTATTTT
1 TATTTTTTATTTT
*
2591686 AATTTTTTATTTT
1 TATTTTTTATTTT
2591699 TATTTTATTACTTTT
1 TATTTT-TTA-TTTT
2591714 TAT
1 TAT
2591717 CTCTGTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 16 0.62
14 3 0.12
15 7 0.27
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:2592730 original size:2 final size:2
Alignment explanation
Indices: 2592723--2592777 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
2592713 ATTGTACTTG
2592723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2592765 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2592778 AATTGATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2612683 original size:17 final size:16
Alignment explanation
Indices: 2612661--2612714 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
2612651 CCGTGTCCCG
*
2612661 ACCCGGATGTTACGGGT
1 ACCCGGATATT-CGGGT
*
2612678 ACCCGG-TAATCGGGT
1 ACCCGGATATTCGGGT
*
2612693 ACCCGGATTTTGCGGGT
1 ACCCGGATATT-CGGGT
2612710 ACCCG
1 ACCCG
2612715 ATACCCGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 11 0.35
16 4 0.13
17 16 0.52
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (16 bp):
ACCCGGATATTCGGGT
Found at i:2612868 original size:16 final size:15
Alignment explanation
Indices: 2612842--2612877 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2612832 CAAAATACAA
2612842 AATATAATAATTCAT
1 AATATAATAATTCAT
2612857 AATATAAATAATTCAT
1 AATAT-AATAATTCAT
*
2612873 TATAT
1 AATAT
2612878 TTTATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAATAATTCAT
Found at i:2619410 original size:12 final size:12
Alignment explanation
Indices: 2619395--2619427 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
2619385 TTCTCTATCG
2619395 CTCTCTCTCTTA
1 CTCTCTCTCTTA
2619407 CTCTCTCTCTTA
1 CTCTCTCTCTTA
2619419 CTCTCTCTC
1 CTCTCTCTC
2619428 CCATGTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTCTCTCTTA
Found at i:2634067 original size:27 final size:27
Alignment explanation
Indices: 2634037--2634109 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
2634027 TTCTGTGTAT
* *
2634037 TTGTCTTCTATGATTCCATATGGTTGA
1 TTGTCTTCTAAGATTCCATATGGCTGA
2634064 TTGTCTTCTAAGATTCCATATGGCTGA
1 TTGTCTTCTAAGATTCCATATGGCTGA
* *
2634091 TTGTCTTCAAAGATACCAT
1 TTGTCTTCTAAGATTCCAT
2634110 GTGGATTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.42
Consensus pattern (27 bp):
TTGTCTTCTAAGATTCCATATGGCTGA
Found at i:2637903 original size:14 final size:15
Alignment explanation
Indices: 2637884--2637912 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2637874 GTATAAGGGA
2637884 ATATTTTC-TCTGGT
1 ATATTTTCATCTGGT
2637898 ATATTTTCATCTGGT
1 ATATTTTCATCTGGT
2637913 GATACGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (15 bp):
ATATTTTCATCTGGT
Found at i:2641769 original size:72 final size:72
Alignment explanation
Indices: 2641687--2641902 Score: 432
Period size: 72 Copynumber: 3.0 Consensus size: 72
2641677 ATTTAATTTA
2641687 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
1 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
2641752 CATCACC
66 CATCACC
2641759 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
1 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
2641824 CATCACC
66 CATCACC
2641831 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
1 GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
2641896 CATCACC
66 CATCACC
2641903 AATGGATCCG
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 144 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (72 bp):
GACCGACTTGACTATACTTTGTTCTGGTTCAGGTTCATCTTCCCAACAGAGAGAATCACTTCCAT
CATCACC
Found at i:2643094 original size:16 final size:16
Alignment explanation
Indices: 2643073--2643107 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2643063 TTTTTTCGGA
2643073 TAAAAAACCAGTTTTT
1 TAAAAAACCAGTTTTT
*
2643089 TAAAAAAACCGGTTTTT
1 T-AAAAAACCAGTTTTT
2643106 TA
1 TA
2643108 TCCGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (16 bp):
TAAAAAACCAGTTTTT
Found at i:2643130 original size:41 final size:39
Alignment explanation
Indices: 2643032--2643131 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 39
2643022 TTCGGTTTGC
*
2643032 AAAAAACCGGTTTTTAAAAAAAAAAACCGGATTTTTTCGGAT
1 AAAAAACCGGTTTTT---TAAAAAAACCGGATTTTTTCGGAT
* *
2643074 AAAAAACCAGTTTTTTAAAAAAACCGGTTTTTTATCCGGAT
1 AAAAAACCGGTTTTTTAAAAAAACCGGATTTTT-T-CGGAT
2643115 AAAAAACCGGTTTTTTA
1 AAAAAACCGGTTTTTTA
2643132 TCCGGTTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 16 0.31
40 1 0.02
41 21 0.40
42 14 0.27
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (39 bp):
AAAAAACCGGTTTTTTAAAAAAACCGGATTTTTTCGGAT
Found at i:2643145 original size:27 final size:24
Alignment explanation
Indices: 2643089--2643176 Score: 124
Period size: 24 Copynumber: 3.5 Consensus size: 24
2643079 ACCAGTTTTT
2643089 TAAAAAAACCGGTTTTTTATCCGG
1 TAAAAAAACCGGTTTTTTATCCGG
2643113 -ATAAAAAACCGGTTTTTTATCCGG
1 TA-AAAAAACCGGTTTTTTATCCGG
*
2643137 TTTGAAAAAAACCGGTTTTTAATCCGG
1 --T-AAAAAAACCGGTTTTTTATCCGG
2643164 TAAAAAAACCGGT
1 TAAAAAAACCGGT
2643177 CATTCAATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
23 1 0.02
24 34 0.59
25 1 0.02
27 21 0.36
28 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (24 bp):
TAAAAAAACCGGTTTTTTATCCGG
Found at i:2649099 original size:23 final size:23
Alignment explanation
Indices: 2649065--2649151 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
2649055 AGAATATGCA
2649065 CCGAAGTG-CCACGTAGAAATGTC
1 CCGAAG-GACCACGTAGAAATGTC
* *
2649088 CCGAAGGACCACATAGATATGTC
1 CCGAAGGACCACGTAGAAATGTC
* *
2649111 TCGAAGGACCACGTAGAAATATC
1 CCGAAGGACCACGTAGAAATGTC
* *
2649134 CTGAAAGACCACGTAGAA
1 CCGAAGGACCACGTAGAA
2649152 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 1 0.02
23 53 0.98
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAAATGTC
Found at i:2649247 original size:14 final size:15
Alignment explanation
Indices: 2649228--2649292 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
2649218 TTATAACATT
2649228 TCACATA-ACTTATA
1 TCACATAGACTTATA
*
2649242 TCACATAGACATATAA
1 TCACATAGACTTAT-A
* *
2649258 TCACATAGA-TCATTG
1 TCACATAGACTTA-TA
2649273 TCACATAG-CTTATA
1 TCACATAGACTTATA
2649287 TCACAT
1 TCACAT
2649293 TTTTCATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 14 0.34
15 16 0.39
16 11 0.27
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (15 bp):
TCACATAGACTTATA
Found at i:2649262 original size:16 final size:15
Alignment explanation
Indices: 2649228--2649292 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 15
2649218 TTATAACATT
*
2649228 TCACATA-ACTTATA
1 TCACATAGACATATA
2649242 TCACATAGACATATAA
1 TCACATAGACATAT-A
*
2649258 TCACATAGATCAT-TG
1 TCACATAGA-CATATA
*
2649273 TCACATAG-CTTATA
1 TCACATAGACATATA
2649287 TCACAT
1 TCACAT
2649293 TTTTCATGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 2 0.05
14 14 0.33
15 13 0.30
16 11 0.26
17 3 0.07
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (15 bp):
TCACATAGACATATA
Found at i:2649285 original size:45 final size:45
Alignment explanation
Indices: 2649224--2649356 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 45
2649214 TCATTTATAA
* *** *
2649224 CATT-TCACATAACTTATATCACATAGACATATAATCACATAGAT
1 CATTGTCACATAGCTTATATCACATTTTCATGTAATCACATAGAT
* *
2649268 CATTGTCACATAGCTTATATCACATTTTTCATGTAATCACAAAGGT
1 CATTGTCACATAGCTTATATCACA-TTTTCATGTAATCACATAGAT
*
2649314 CAATGTCACATAGCTTATATCACATTTTCATGTAATCACATAG
1 CATTGTCACATAGCTTATATCACATTTTCATGTAATCACATAG
2649357 GTCAATATCA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
44 4 0.05
45 36 0.46
46 38 0.49
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (45 bp):
CATTGTCACATAGCTTATATCACATTTTCATGTAATCACATAGAT
Found at i:2649359 original size:45 final size:45
Alignment explanation
Indices: 2649228--2649371 Score: 189
Period size: 45 Copynumber: 3.2 Consensus size: 45
2649218 TTATAACATT
* *** * * *
2649228 TCACATAACTTATATCACATAGACATATAATCACATAGATCATTG
1 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATG
*
2649273 TCACATAGCTTATATCACATTTTTCATGTAATCACAAAGGTCAATG
1 TCACATAGCTTATATCACA-TTTTCATGTAATCACATAGGTCAATG
*
2649319 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATA
1 TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATG
*
2649364 TCATATAG
1 TCACATAG
2649372 TATAAAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 49 0.56
46 38 0.44
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (45 bp):
TCACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATG
Found at i:2653697 original size:2 final size:2
Alignment explanation
Indices: 2653690--2653723 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2653680 TACGATAATC
2653690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2653724 GGTTTATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2654193 original size:23 final size:23
Alignment explanation
Indices: 2654167--2654235 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
2654157 CACCACAGCT
*
2654167 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
2654190 CGTAGAATTGTACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* * * *
2654213 CATAGAATTACACTGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2654236 TATAATAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2659764 original size:30 final size:31
Alignment explanation
Indices: 2659714--2659785 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
2659704 AGACCCCCGT
* * * *
2659714 AACTATCCAGAGGTCACAAAGAACCTCGG-C
1 AACTGTCCATAGGTCACAAAGAACCTAGGTA
*
2659744 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCACAAAGAACCTAGGTA
2659775 AACTGTCCATA
1 AACTGTCCATA
2659786 TGTTCCTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (31 bp):
AACTGTCCATAGGTCACAAAGAACCTAGGTA
Found at i:2659782 original size:31 final size:31
Alignment explanation
Indices: 2659744--2659838 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
2659734 GAACCTCGGC
*
2659744 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
* * **
2659775 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
* * * *
2659806 TATTGTCCATATGTCTCGAAA-AACATAGGTA
1 AACTGTCCATAGGTC-CCAAAGAACATAGGTA
2659837 AA
1 AA
2659839 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 49 0.96
32 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCAAAGAACATAGGTA
Found at i:2663275 original size:23 final size:23
Alignment explanation
Indices: 2663244--2663289 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2663234 CACCACAGCT
* *
2663244 CGTATAATTGCATCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
2663267 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2663290 TATAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2663964 original size:21 final size:21
Alignment explanation
Indices: 2663940--2663982 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2663930 TCATATTCGT
* *
2663940 TTGAGGGGGAATCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
* *
2663961 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
2663982 T
1 T
2663983 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGAACCGATTCCCC
Found at i:2691177 original size:25 final size:25
Alignment explanation
Indices: 2691143--2691193 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2691133 TTAAATGCTG
2691143 ATTAAAATCTCGCATGAAACTAATA
1 ATTAAAATCTCGCATGAAACTAATA
2691168 ATTAAAATCTCGCATGAAACTAATA
1 ATTAAAATCTCGCATGAAACTAATA
2691193 A
1 A
2691194 AATTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (25 bp):
ATTAAAATCTCGCATGAAACTAATA
Found at i:2691666 original size:22 final size:22
Alignment explanation
Indices: 2691641--2691693 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
2691631 ACCTTTGCGG
*
2691641 CATGTTTTC-TCTGTCTTTATGA
1 CATGTTTTCTTCTATCTTT-TGA
2691663 CATGTTTTCTTCTATCTTTTGA
1 CATGTTTTCTTCTATCTTTTGA
*
2691685 CACGTTTTC
1 CATGTTTTC
2691694 GGTTGTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.13, C:0.21, G:0.11, T:0.55
Consensus pattern (22 bp):
CATGTTTTCTTCTATCTTTTGA
Found at i:2701974 original size:12 final size:12
Alignment explanation
Indices: 2701957--2701991 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
2701947 ACAACTTGAA
*
2701957 TAACTCAAATAG
1 TAACTCGAATAG
2701969 TAACTCGAATAG
1 TAACTCGAATAG
2701981 TAACTCGAATA
1 TAACTCGAATA
2701992 ACTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (12 bp):
TAACTCGAATAG
Found at i:2708724 original size:124 final size:124
Alignment explanation
Indices: 2708499--2708725 Score: 332
Period size: 124 Copynumber: 1.8 Consensus size: 124
2708489 TGAGGTGTAT
*
2708499 TAAAACATGTAAACAAAATAATCATTCTATCCTAATCCAAGAATTAAGTAAAGCAAGAGAAAGAC
1 TAAAACATGTAAACAAAATAATCATTCTATCCTAATCCAAGAATTAAGTAAAGCAAGAAAAAGAC
* * *
2708564 AATTGCAGAAGTTATTTATCTCTTTCATTATCTTAAAAGGAAAAATGATGAACGATTAG
66 AATTGCAGAACTTATTCATATCTTTCATTATCTTAAAAGGAAAAATGATGAACGATTAG
* *
2708623 TAAAACATGTAAACAAAATAATTATTCTAT-CTTATCCAAGAATTAAAGTAAAGCAAGAAAAATG
1 TAAAACATGTAAACAAAATAATCATTCTATCCTAATCCAAGAATT-AAGTAAAGCAAGAAAAA-G
* * * *
2708687 TCAATTGTAGAACTTGTTCATATCTTTTATTAT-TTAAAA
64 ACAATTGCAGAACTTATTCATATCTTTCATTATCTTAAAA
2708726 AAGAAAACTG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
123 13 0.14
124 51 0.56
125 27 0.30
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (124 bp):
TAAAACATGTAAACAAAATAATCATTCTATCCTAATCCAAGAATTAAGTAAAGCAAGAAAAAGAC
AATTGCAGAACTTATTCATATCTTTCATTATCTTAAAAGGAAAAATGATGAACGATTAG
Found at i:2726146 original size:14 final size:15
Alignment explanation
Indices: 2726135--2726352 Score: 66
Period size: 15 Copynumber: 14.5 Consensus size: 15
2726125 AAGTAAAATG
2726135 AGATAAAAAAAATAA
1 AGATAAAAAAAATAA
*
2726150 AGATAAAAAGGTAAT-A
1 AGATAAAAA--AAATAA
*
2726166 AGATAAATAAAATAA
1 AGATAAAAAAAATAA
*
2726181 AGGTAATAAAATAATAGA
1 AGATAA-AAAA-AATA-A
*
2726199 A-AAAATAAACAAATAA
1 AGATAA-AAA-AAATAA
*
2726215 A-ATAAATAAAATAA
1 AGATAAAAAAAATAA
* *
2726229 AGA-ACATAATAAT-A
1 AGATA-AAAAAAATAA
* *
2726243 ATATAATAAATACATAAA
1 AGATAA-AAA-AAAT-AA
2726261 TAGAT-AAAAAAATAA
1 -AGATAAAAAAAATAA
*
2726276 A-ATAAAAATGAAT-A
1 AGATAAAAA-AAATAA
*
2726290 A-ATAAACAAAATAA
1 AGATAAAAAAAATAA
* **
2726304 ATATAAAGGAAAT--
1 AGATAAAAAAAATAA
* *
2726317 AG--AAAATAAGTAA
1 AGATAAAAAAAATAA
2726330 AGATAAAAAAATATAA
1 AGATAAAAAAA-ATAA
*
2726346 ATATAAA
1 AGATAAA
2726353 TATAAAACTA
Statistics
Matches: 149, Mismatches: 30, Indels: 47
0.66 0.13 0.21
Matches are distributed among these distances:
11 6 0.04
13 8 0.05
14 30 0.20
15 46 0.31
16 31 0.21
17 20 0.13
18 5 0.03
19 3 0.02
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (15 bp):
AGATAAAAAAAATAA
Found at i:2726180 original size:9 final size:9
Alignment explanation
Indices: 2726094--2726421 Score: 106
Period size: 9 Copynumber: 36.1 Consensus size: 9
2726084 ATGAAAGTAC
2726094 ATAAATAACA
1 ATAAATAA-A
2726104 A-AAATAAA
1 ATAAATAAA
2726112 AGGTAAA-ATAA
1 A--TAAATA-AA
*
2726123 ATAAGTAAA
1 ATAAATAAA
*
2726132 ATGAGATAAA
1 AT-AAATAAA
*
2726142 AAAAATAAA
1 ATAAATAAA
*
2726151 GATAAA-AAG
1 -ATAAATAAA
* *
2726160 GT-AATAAG
1 ATAAATAAA
2726168 ATAAATAAA
1 ATAAATAAA
2726177 ATAAAGGTAATA
1 ATAAA--TAA-A
*
2726189 AAATAATAGAA
1 ATA-AATA-AA
2726200 A-AAAT-AA
1 ATAAATAAA
*
2726207 ACAAATAAA
1 ATAAATAAA
2726216 ATAAATAAA
1 ATAAATAAA
* *
2726225 ATAAAGAAC
1 ATAAATAAA
2726234 AT-AATAATA
1 ATAAATAA-A
2726243 ATATAAT-AA
1 ATA-AATAAA
*
2726252 ATACAT-AA
1 ATAAATAAA
*
2726260 ATAGATAAA
1 ATAAATAAA
2726269 A-AAATAAA
1 ATAAATAAA
2726277 ATAAA-AATGA
1 ATAAATAA--A
2726287 ATAAATAAA
1 ATAAATAAA
2726296 CA-AAATAAA
1 -ATAAATAAA
**
2726305 TATAAAGGAA
1 -ATAAATAAA
*
2726315 AT--AGAAA
1 ATAAATAAA
*
2726322 ATAAGTAAA
1 ATAAATAAA
*
2726331 GATAAAAAAA
1 -ATAAATAAA
2726341 TATAAATATAA
1 -ATAAATA-AA
2726352 AT--ATAAA
1 ATAAATAAA
2726359 ACTACAA-AAA
1 A-TA-AATAAA
*
2726369 ATAAAGAAA
1 ATAAATAAA
*
2726378 ATGAAAGAAA
1 AT-AAATAAA
2726388 A-AAA-AGAA
1 ATAAATA-AA
2726396 ATAAA-AGAA
1 ATAAATA-AA
2726405 ATAAAT--A
1 ATAAATAAA
2726412 ATAAATAAA
1 ATAAATAAA
2726421 A
1 A
2726422 AACTAAAAAA
Statistics
Matches: 248, Mismatches: 29, Indels: 83
0.69 0.08 0.23
Matches are distributed among these distances:
7 22 0.09
8 45 0.18
9 100 0.40
10 54 0.22
11 21 0.08
12 4 0.02
13 2 0.01
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.19
Consensus pattern (9 bp):
ATAAATAAA
Found at i:2726196 original size:31 final size:31
Alignment explanation
Indices: 2726135--2726310 Score: 82
Period size: 31 Copynumber: 5.7 Consensus size: 31
2726125 AAGTAAAATG
*
2726135 AGATAAAAAAAATAAAGATAAAAAGGTAATA
1 AGATAAAAAAAATAAAGATAAAAAGATAATA
* *
2726166 AGATAAATAAAATAAAGGTAATAAA-ATAATA
1 AGATAAAAAAAATAAAGATAA-AAAGATAATA
* * * *
2726197 GAAAAAATAAACAAATAAA-ATAAATAAAATAAAGA
1 -AGATAA-AAA-AAATAAAGATAAA-AAGAT-AATA
* * * * * *
2726232 ACATAATAATAATATA-ATAAATACATAA-A
1 AGATAAAAAAAATAAAGATAAAAAGATAATA
2726261 TAGAT-AAAAAAATAAA-AT-AAAA-ATGAATA
1 -AGATAAAAAAAATAAAGATAAAAAGAT-AATA
* *
2726290 A-ATAAACAAAATAAATATAAA
1 AGATAAAAAAAATAAAGATAAA
2726311 GGAAATAGAA
Statistics
Matches: 111, Mismatches: 21, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
27 4 0.04
28 16 0.14
29 14 0.13
30 7 0.06
31 27 0.24
32 18 0.16
33 9 0.08
34 13 0.12
35 3 0.03
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (31 bp):
AGATAAAAAAAATAAAGATAAAAAGATAATA
Found at i:2726259 original size:8 final size:7
Alignment explanation
Indices: 2726236--2726310 Score: 50
Period size: 8 Copynumber: 10.3 Consensus size: 7
2726226 TAAAGAACAT
2726236 AATAATA
1 AATAATA
2726243 ATATAATA
1 A-ATAATA
2726251 AATACATA
1 AATA-ATA
2726259 AATAGATAA
1 AATA-AT-A
*
2726268 AAAAATAA
1 AATAAT-A
2726276 AATAA-A
1 AATAATA
2726282 AATGAATA
1 AAT-AATA
2726290 AATAA-A
1 AATAATA
2726296 CAA-AATA
1 -AATAATA
2726303 AAT-ATA
1 AATAATA
2726309 AA
1 AA
2726311 GGAAATAGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
6 14 0.25
7 11 0.19
8 28 0.49
9 4 0.07
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:2726445 original size:21 final size:22
Alignment explanation
Indices: 2726344--2726451 Score: 75
Period size: 21 Copynumber: 5.1 Consensus size: 22
2726334 AAAAAAATAT
* *
2726344 AAAT-ATAAATATAAAACTACA
1 AAATAATAAATAAAAAACTAAA
* **
2726365 AAA-AATAAAGAAAATGAAAGAAA
1 AAATAATAAATAAAA--AACTAAA
* * *
2726388 AAA-AAGAAATAAAAGA--AAT
1 AAATAATAAATAAAAAACTAAA
2726407 AAATAATAAATAAAAAACTAAA
1 AAATAATAAATAAAAAACTAAA
*
2726429 AAATAAT-AATGAAAAACTAAA
1 AAATAATAAATAAAAAACTAAA
2726450 AA
1 AA
2726452 CTAAAATATA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
19 5 0.07
20 11 0.16
21 27 0.40
22 9 0.13
23 16 0.24
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.16
Consensus pattern (22 bp):
AAATAATAAATAAAAAACTAAA
Found at i:2726496 original size:20 final size:20
Alignment explanation
Indices: 2726473--2726525 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2726463 AACTATTATG
2726473 TAAAATAATAATAATAATAA
1 TAAAATAATAATAATAATAA
* *
2726493 T-AAATAGTGAAAAATAATAA
1 TAAAATAAT-AATAATAATAA
2726513 -AAAATAA-AATAAT
1 TAAAATAATAATAAT
2726526 TACTCCACCG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
TAAAATAATAATAATAATAA
Found at i:2726608 original size:8 final size:8
Alignment explanation
Indices: 2726580--2727207 Score: 126
Period size: 9 Copynumber: 73.8 Consensus size: 8
2726570 GTAAAAACAT
2726580 AATATAATA
1 AATA-AATA
*
2726589 AATACA-A
1 AATAAATA
2726596 AATAAATA
1 AATAAATA
*
2726604 CATAAAATA
1 AAT-AAATA
*
2726613 AAAAACATA
1 AATAA-ATA
*
2726622 AAGAAATA
1 AATAAATA
*
2726630 ATATAAAGA
1 A-ATAAATA
2726639 AATACAAATA
1 AAT--AAATA
2726649 GAATAAATA
1 -AATAAATA
*
2726658 CATAAATA
1 AATAAATA
*
2726666 GAATAAAGA
1 -AATAAATA
2726675 AATAAA-A
1 AATAAATA
2726682 ACAT-AATA
1 A-ATAAATA
2726690 TAATAAAATAA
1 -AAT-AAAT-A
*
2726701 AAGAACATA
1 AATAA-ATA
2726710 ATATAAA-A
1 A-ATAAATA
*
2726718 CTAATAAAAGA
1 --AAT-AAATA
2726729 AATACAAATAA
1 AAT--AAAT-A
2726740 AATAAAGGT-
1 AATAAA--TA
2726749 AATAAAATAA
1 AAT-AAAT-A
*
2726759 AAGAAATA
1 AATAAATA
*
2726767 CAA-AAAAA
1 -AATAAATA
*
2726775 AACATAATA
1 AATA-AATA
*
2726784 AAAAATATA
1 AATAA-ATA
*
2726793 ATATAAAGA
1 A-ATAAATA
2726802 AATAATATA
1 AATAA-ATA
*
2726811 AAGAAATA
1 AATAAATA
2726819 AA-AACATA
1 AATAA-ATA
*
2726827 AAGAAATAA
1 AATAAAT-A
2726836 AATAAA-A
1 AATAAATA
*
2726843 CTAATAAAAGA
1 --AAT-AAATA
2726854 AATATAA-A
1 AATA-AATA
* *
2726862 TATAAAGA
1 AATAAATA
2726870 AATACAAATA
1 AAT--AAATA
2726880 TAATAAATA
1 -AATAAATA
*
2726889 CATAAATA
1 AATAAATA
2726897 AATAATATA
1 AATAA-ATA
*
2726906 AAGAAATA
1 AATAAATA
2726914 AA-AACAT-
1 AATAA-ATA
2726921 AATATAATA
1 AATA-AATA
2726930 AATACAAATAA
1 AAT--AAAT-A
2726941 AATAAAGGTA
1 AATAAA--TA
2726951 AATAAATAA
1 AATAAAT-A
*
2726960 AATAAAGA
1 AATAAATA
2726968 ACAT-AAT-
1 A-ATAAATA
2726975 AAT-AATA
1 AATAAATA
2726982 TAATAAATA
1 -AATAAATA
*
2726991 CATAAATA
1 AATAAATA
*
2726999 GAT-AA-A
1 AATAAATA
2727005 AATAAA-A
1 AATAAATA
*
2727012 TAA-AAATG
1 -AATAAATA
*
2727020 AATAAAGA
1 AATAAATA
*
2727028 AACAAAATA
1 AA-TAAATA
2727037 AAT--ATA
1 AATAAATA
*
2727043 AAGAAAATA
1 AA-TAAATA
*
2727052 GA-AAATA
1 AATAAATA
*
2727059 AATACATA
1 AATAAATA
*
2727067 AAGAAATA
1 AATAAATA
*
2727075 ATATAAAGA
1 A-ATAAATA
2727084 AATAAA-A
1 AATAAATA
2727091 ACAT-AATA
1 A-ATAAATA
2727099 TAATAAATACA
1 -AATAAAT--A
2727110 AATAAAATA
1 AAT-AAATA
2727119 AAGGT-AATAA
1 AA--TAAAT-A
*
2727129 AATAAAAGA
1 AAT-AAATA
2727138 AATAAA-A
1 AATAAATA
2727145 GTAA-AAATA
1 --AATAAATA
2727154 AATAAATAA
1 AATAAAT-A
*
2727163 AATAAAGA
1 AATAAATA
2727171 ACAT-AAT-
1 A-ATAAATA
2727178 AAT-AATA
1 AATAAATA
2727185 TAATAAATA
1 -AATAAATA
*
2727194 CATAAATA
1 AATAAATA
*
2727202 GATAAA
1 AATAAA
2727208 AATAAAATAA
Statistics
Matches: 473, Mismatches: 55, Indels: 183
0.67 0.08 0.26
Matches are distributed among these distances:
6 18 0.04
7 46 0.10
8 159 0.34
9 170 0.36
10 54 0.11
11 26 0.05
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (8 bp):
AATAAATA
Found at i:2726622 original size:14 final size:14
Alignment explanation
Indices: 2726572--2726623 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
2726562 TAAGTTTGGT
*
2726572 AAAAACATAATATA
1 AAAAACATAAAATA
* * *
2726586 ATAAATACAAAAT-
1 AAAAACATAAAATA
*
2726599 AAATACATAAAATA
1 AAAAACATAAAATA
2726613 AAAAACATAAA
1 AAAAACATAAA
2726624 GAAATAATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAACATAAAATA
Found at i:2726663 original size:49 final size:49
Alignment explanation
Indices: 2726578--2727232 Score: 146
Period size: 49 Copynumber: 14.0 Consensus size: 49
2726568 TGGTAAAAAC
* *
2726578 ATAATATAATAAATACAAAATAAATACATAAAATAAA-AAACATAAAGAA
1 ATAATATAAGAAATACAAAATAAATAAATAAAATAAATAAA-ATAAAGAA
* *
2726627 ATAATATAAAGAAATAC-AAATAGAATAAAT-ACATAAATAGAATAAAGAA
1 ATAATAT-AAGAAATACAAAATA-AATAAATAAAATAAATAAAATAAAGAA
* * * *
2726676 AT-A-A-AA-ACAT--AATAT-AATAAAATAAAAGAACATAATAT-AA-AA
1 ATAATATAAGAAATACAAAATAAAT-AAATAAAATAA-ATAAAATAAAGAA
* * *
2726718 CTAATAAAAGAAATAC-AAAT--A-AAATAAAGGT-AATAAAATAAAAGAA
1 ATAATATAAGAAATACAAAATAAATAAATAAA-ATAAATAAAAT-AAAGAA
* * *
2726764 AT-ACA-AA-AAA-A-AACAT-AAT-AA-AAAAT--ATAATATAAAGAA
1 ATAATATAAGAAATACAAAATAAATAAATAAAATAAATAAAATAAAGAA
* * *
2726803 ATAATATAAAGAAATAAAAACATAAAGAAATAAAATAAA-ACTAATAAAAGAAA
1 ATAATAT-AAGAAATACAAA-ATAAATAAATAAAATAAATA-AAAT-AAAG-AA
* *
2726856 TATAAATATAAAGAAATAC-AAATATAATAAAT-ACATAAAT-AAATAATATAA
1 -AT-AATAT-AAGAAATACAAAATA-AATAAATAAAATAAATAAAATAA-AGAA
* * * *
2726907 AGAA-AT-A-AAA-ACATAATATAATAAATACAAATAAAATAAAGGTAAATAA
1 ATAATATAAGAAATACAAAATA-AATAAATA-AAAT-AAATAAA-ATAAAGAA
* * * * * * *
2726956 ATAAAATAA-AGA-ACATAAT-AAT-AATATAATAAAT-ACATAAATAG
1 ATAATATAAGAAATACAAAATAAATAAATAAAATAAATAAAATAAAGAA
* * *
2727000 ATAA-A-AATAAAATA-AAAATGAATAAAGAAACA-AAATAAATATAAAG-A
1 ATAATATAA-GAAATACAAAATAAATAAATAAA-ATAAATAAA-ATAAAGAA
* * * *
2727047 A-AATA-GA-AAATA-AATACATAAAGAAATAATATAAA-GAAATAAA-AA
1 ATAATATAAGAAATACAA-A-ATAAATAAATAAAATAAATAAAATAAAGAA
* *
2727092 CATAATATAATAAATAC-AAAT--A-AAATAAAGGT-AATAAAATAAAAGAA
1 -ATAATATAAGAAATACAAAATAAATAAATAAA-ATAAATAAAAT-AAAGAA
* * *
2727139 AT-A-A-AAG---TA-AAAATAAATAAATAAAATAAAGAACAT-AA-TA
1 ATAATATAAGAAATACAAAATAAATAAATAAAATAAATAAAATAAAGAA
* *
2727179 ATAATATAATAAATACATAAATAGATAAAAATAAAATAAA-AATGAATAAAGAA
1 ATAATATAAGAAATACA-AAATA-A-ATAAATAAAATAAATAA--AATAAAGAA
2727232 A
1 A
2727233 CAAAATAAAT
Statistics
Matches: 450, Mismatches: 67, Indels: 174
0.65 0.10 0.25
Matches are distributed among these distances:
39 8 0.02
40 17 0.04
41 7 0.02
42 21 0.05
43 43 0.10
44 47 0.10
45 50 0.11
46 36 0.08
47 38 0.08
48 25 0.06
49 56 0.12
50 36 0.08
51 19 0.04
52 10 0.02
53 13 0.03
54 10 0.02
55 14 0.03
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (49 bp):
ATAATATAAGAAATACAAAATAAATAAATAAAATAAATAAAATAAAGAA
Found at i:2726675 original size:24 final size:24
Alignment explanation
Indices: 2726650--2726712 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
2726640 ATACAAATAG
*
2726650 AATAAATACATAAATAGAATAAAGA
1 AATAAAAACAT-AATAGAATAAAGA
*
2726675 AATAAAAACATAATATAATAAA-A
1 AATAAAAACATAATAGAATAAAGA
*
2726698 TAA-AAGAACATAATA
1 -AATAAAAACATAATA
2726713 TAAAACTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.35
24 12 0.35
25 10 0.29
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (24 bp):
AATAAAAACATAATAGAATAAAGA
Found at i:2726679 original size:17 final size:17
Alignment explanation
Indices: 2726632--2726680 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2726622 AAGAAATAAT
2726632 ATAAAGAAATACAAATAGA
1 ATAAAGAAAT--AAATAGA
* *
2726651 ATAAATACATAAATAGA
1 ATAAAGAAATAAATAGA
2726668 ATAAAGAAATAAA
1 ATAAAGAAATAAA
2726681 AACATAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 18 0.69
19 8 0.31
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.18
Consensus pattern (17 bp):
ATAAAGAAATAAATAGA
Found at i:2726692 original size:21 final size:22
Alignment explanation
Indices: 2726668--2726729 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
2726658 CATAAATAGA
2726668 ATAAAGAAAT-AAA-AACATAAT
1 ATAAA-AAATAAAAGAACATAAT
2726689 ATAATAAAATAAAAGAACATAAT
1 ATAA-AAAATAAAAGAACATAAT
2726712 ATAAAACTAATAAAAGAA
1 ATAAAA--AATAAAAGAA
2726730 ATACAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.22
22 6 0.17
23 12 0.33
24 10 0.28
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAAAAAATAAAAGAACATAAT
Found at i:2726694 original size:29 final size:28
Alignment explanation
Indices: 2726662--2727191 Score: 67
Period size: 29 Copynumber: 18.4 Consensus size: 28
2726652 TAAATACATA
2726662 AATAGAATAAAGAAATAAAAACATAATAT
1 AATA-AATAAAGAAATAAAAACATAATAT
* *
2726691 AATAAAATAAAAGAACATAATATAAAACTAATAA
1 AAT-AAAT-AAAGAA-ATAA-A-AACA-TAATAT
* * * **
2726725 AAGAAAT--ACAAAT-AAAATA-AAGGT
1 AATAAATAAAGAAATAAAAACATAATAT
* * *
2726749 AATAAAATAAAAGAAATACAAAAAAAAACAT
1 AAT-AAAT-AAAGAAATA-AAAACATAATAT
* * *
2726780 AATAAA-AAATATAAT-ATAA-AGAA-AT
1 AATAAATAAAGA-AATAAAAACATAATAT
*
2726805 AAT--ATAAAGAAATAAAAACATAA-AGA
1 AATAAATAAAGAAATAAAAACATAATA-T
*
2726831 AATAAAATAAA-ACTAAT-AAAAGA-AATAT
1 AAT-AAATAAAGA--AATAAAAACATAATAT
* * *
2726859 AA-ATATAAAGAAATACAAATATAATAAAT
1 AATAAATAAAGAAATAAAAACATAAT--AT
*
2726888 ACATAAATAAATAATATAAAGAA-ATAA-A-
1 A-ATAAATAAAGAA-ATAAA-AACATAATAT
* * * * *
2726916 AACATAATATAATAAATACAAATAAAATA-
1 AATA-AATA-AAGAAATAAAAACATAATAT
*
2726945 AAGGTAAATAAATAAAATAAAGAACATAATAAT
1 AA--TAAATAAA-GAAATAAA-AACATAAT-AT
* * * *
2726978 AATATAATAAATACATAAATAGATAA-A-
1 AATA-AATAAAGAAATAAAAACATAATAT
* * *
2727005 AATAAAATAAAAATGAATAAAGAAACAAAATAA
1 AAT-AAATAAAGA--AAT-AA-AAACATAATAT
* * *
2727038 ATATAAAGAAAATAGAAAATAAATACATAA-AG
1 A-AT-AA-ATAA-AGAA-ATAAAAACATAATAT
2727070 AAATAATATAAAGAAATAAAAACATAATAT
1 AA-TAA-ATAAAGAAATAAAAACATAATAT
* * **
2727100 AATAAAT--ACAAAT-AAAATA-AAGGT
1 AATAAATAAAGAAATAAAAACATAATAT
*
2727124 AATAAAATAAAAGAAAT-AAAA-GTAA-A-
1 AAT-AAAT-AAAGAAATAAAAACATAATAT
*
2727150 AATAAATAAATAAAATAAAGAACATAATAAT
1 AATAAATAAA-GAAATAAA-AACATAAT-AT
2727181 AATATAATAAA
1 AATA-AATAAA
2727192 TACATAAATA
Statistics
Matches: 368, Mismatches: 63, Indels: 137
0.65 0.11 0.24
Matches are distributed among these distances:
23 4 0.01
24 20 0.05
25 33 0.09
26 29 0.08
27 24 0.07
28 45 0.12
29 52 0.14
30 47 0.13
31 48 0.13
32 26 0.07
33 18 0.05
34 15 0.04
35 5 0.01
36 2 0.01
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (28 bp):
AATAAATAAAGAAATAAAAACATAATAT
Found at i:2726695 original size:65 final size:65
Alignment explanation
Indices: 2726580--2726701 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 65
2726570 GTAAAAACAT
* *
2726580 AATATAATAAATACAAAATAAATACATAAAATAAAAAACATAAAGAAATAATATAAAGAAATACA
1 AATAGAATAAATACAAAATAAATACATAAAATAAAAAACATAAAGAAATAAAATAAAGAAATACA
*
2726645 AATAGAATAAATACATAAATAGAATA-A-AGAAAT-AAAAACATAATA-TAATAAAATAAA
1 AATAGAATAAATACA-AAATA-AATACATA-AAATAAAAAACATAA-AGAAATAAAATAAA
2726702 AGAACATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
65 35 0.70
66 11 0.22
67 4 0.08
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.20
Consensus pattern (65 bp):
AATAGAATAAATACAAAATAAATACATAAAATAAAAAACATAAAGAAATAAAATAAAGAAATACA
Found at i:2726739 original size:24 final size:24
Alignment explanation
Indices: 2726696--2726741 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2726686 AATATAATAA
*
2726696 AATAAAAGAACATAATATAAAACT
1 AATAAAAGAACATAAAATAAAACT
2726720 AATAAAAGAA-ATACAAATAAAA
1 AATAAAAGAACATA-AAATAAAA
2726742 TAAAGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (24 bp):
AATAAAAGAACATAAAATAAAACT
Found at i:2726786 original size:12 final size:11
Alignment explanation
Indices: 2726771--2727098 Score: 52
Period size: 12 Copynumber: 28.1 Consensus size: 11
2726761 GAAATACAAA
2726771 AAAAAACATAAT
1 AAAAAA-ATAAT
2726783 AAAAAATATAAT
1 AAAAAA-ATAAT
2726795 ATAAAGAAATAAT
1 A-AAA-AAATAAT
2726808 ATAAAGAAATAA-
1 A-AAA-AAATAAT
*
2726820 AAACATAAAGAAAT
1 AAA-A-AAA-TAAT
2726834 AAAATAAAACTAAT
1 -AAA-AAAA-TAAT
2726848 AAAAGAAAT-AT
1 AAAA-AAATAAT
*
2726859 AAATATAAAGAA-
1 AAA-A-AAATAAT
* *
2726871 ATACAAAT-AT
1 AAAAAAATAAT
*
2726881 -AATAAATACAT
1 AAAAAAATA-AT
*
2726892 AAATAAATAAT
1 AAAAAAATAAT
* *
2726903 ATAAAGA-AAT
1 AAAAAAATAAT
*
2726913 AAAAACATAAT
1 AAAAAAATAAT
*
2726924 ATAATAAATACA-
1 A-AAAAAATA-AT
*
2726936 AATAAAATAAAGGT
1 AAAAAAAT-AA--T
*
2726950 AAATAAATAAAAT
1 AAA-AAA-ATAAT
*
2726963 AAAGAACATAAT
1 AAA-AAAATAAT
* *
2726975 AATAATATAAT
1 AAAAAAATAAT
* *
2726986 AAATACATAAAT
1 AAAAAAAT-AAT
2726998 AGATAAAAATAA-
1 A-A-AAAAATAAT
2727010 AATAAAAATGAAT
1 AA-AAAAAT-AAT
* *
2727023 AAAGAAA-CA-
1 AAAAAAATAAT
*
2727032 AAATAAAT-AT
1 AAAAAAATAAT
2727042 AAAGAAAATAGA-
1 AAA-AAAATA-AT
*
2727054 AAATAAATACAT
1 AAAAAAATA-AT
*
2727066 AAAGAAATAAT
1 AAAAAAATAAT
* *
2727077 ATAAAGA-AAT
1 AAAAAAATAAT
*
2727087 AAAAACATAAT
1 AAAAAAATAAT
2727098 A
1 A
2727099 TAATAAATAC
Statistics
Matches: 236, Mismatches: 46, Indels: 69
0.67 0.13 0.20
Matches are distributed among these distances:
9 13 0.06
10 23 0.10
11 65 0.28
12 69 0.29
13 42 0.18
14 14 0.06
15 9 0.04
16 1 0.00
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.21
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:2726827 original size:21 final size:21
Alignment explanation
Indices: 2726795--2726927 Score: 85
Period size: 21 Copynumber: 6.8 Consensus size: 21
2726785 AAAATATAAT
2726795 ATAAAGAA-ATAATATAAAGAA
1 ATAAA-AACATAATATAAAGAA
* *
2726816 ATAAAAACATAA-AGAAATAA
1 ATAAAAACATAATATAAAGAA
2726836 A-ATAAAAC-TAATA-AAAGAA
1 ATA-AAAACATAATATAAAGAA
*
2726855 AT----ATA-AATATAAAGAA
1 ATAAAAACATAATATAAAGAA
* * * *
2726871 ATACAAATAT-A-ATAAATAC
1 ATAAAAACATAATATAAAGAA
2726890 ATAAATAA-ATAATATAAAGAA
1 ATAAA-AACATAATATAAAGAA
2726911 ATAAAAACATAATATAA
1 ATAAAAACATAATATAA
2726928 TAAATACAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
15 5 0.06
16 8 0.09
19 22 0.25
20 24 0.27
21 29 0.33
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAAAAACATAATATAAAGAA
Found at i:2726870 original size:16 final size:16
Alignment explanation
Indices: 2726781--2726882 Score: 79
Period size: 16 Copynumber: 6.2 Consensus size: 16
2726771 AAAAAACATA
2726781 ATAAA-AAATAT-AAT
1 ATAAAGAAATATAAAT
2726795 ATAAAG-AA-AT-AAT
1 ATAAAGAAATATAAAT
* *
2726808 ATAAAGAAATAAAAAC
1 ATAAAGAAATATAAAT
2726824 ATAAAGAAATAAAATAAAACT
1 ATAAAGAAAT---AT-AAA-T
2726845 AATAAAAGAAATATAAAT
1 -AT-AAAGAAATATAAAT
*
2726863 ATAAAGAAATACAAAT
1 ATAAAGAAATATAAAT
2726879 ATAA
1 ATAA
2726883 TAAATACATA
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
13 11 0.15
14 9 0.12
15 1 0.01
16 29 0.40
17 2 0.03
18 1 0.01
19 4 0.06
20 5 0.07
22 2 0.03
23 8 0.11
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (16 bp):
ATAAAGAAATATAAAT
Found at i:2726909 original size:95 final size:95
Alignment explanation
Indices: 2726734--2727246 Score: 270
Period size: 96 Copynumber: 5.2 Consensus size: 95
2726724 AAAGAAATAC
* * * * * * * *
2726734 AAATAAAATAAAGGTAATAAAATAAA-AGAAATACAAAAAAAAACATAATA-AAAAATATAATAT
1 AAATAAAATAAA-ATAATAAAAGAAATATAAATATAAAGAAATACATAATATAATAA-AT-ACAT
*
2726797 AAAGAAATAATATAAAGAAATAAAAACATAAAG
63 AAATAAATAATATAAAGAAATAAAAACATAAAG
2726830 AAATAAAATAAAACTAATAAAAGAAATATAAATATAAAGAAATACA-AATATAATAAATACATAA
1 AAATAAAATAAAA-TAATAAAAGAAATATAAATATAAAGAAATACATAATATAATAAATACATAA
2726894 ATAAATAATATAAAGAAATAAAAACATAATA-
65 ATAAATAATATAAAGAAATAAAAACATAA-AG
* * *
2726925 TAAT-AAATACAAATAAAATAAAGGTAAATAAATAAA-ATAAAGAACATAATAATAATATAATAA
1 AAATAAAATA-AAAT--AATAAAAG-AAAT--ATAAATATAAAGAA-AT-A-CATAATATAATAA
* *
2726988 ATACATAAATAGATAA-A-AATA-AAATAAAAATGAATAAAG
57 ATACATAAATAAATAATATAA-AGAAATAAAAA--CATAAAG
* * *
2727027 AAACAAAATAAATATAAAGAAAATAGAAA-ATAAATACATAAAGAAATA-AT-ATA-AAGAAATA
1 AAATAAAATAAA-AT-AA-TAAA-AGAAATATAAAT--ATAAAGAAATACATAATATAATAAATA
* *
2727088 -AAAACATAATATAATA-AATACAAAT--AAA-ATAAAGG
60 CATAA-ATAA-ATAATATAA-AGAAATAAAAACATAAA-G
* * * * *
2727123 TAATAAAATAAAAGAAATAAAAGTAAAAATAAATAAATAAAATAAAGAACATAATAATAATATAA
1 AAATAAAATAAAA-TAATAAAAG-AAATATAAAT--AT-AAAGAAA-TACATAAT-ATAATA-AA
* * * * *
2727188 TAAATACATAAATAGATAAAAATAAAATAAAAATGAATAAAG
58 TACATAAATAAATA-ATATAAA-GAAATAAAAA--CATAAAG
*
2727230 AAACAAAATAAATATAA
1 AAATAAAATAAA-ATAA
2727247 AGAAAATAGA
Statistics
Matches: 332, Mismatches: 35, Indels: 89
0.73 0.08 0.20
Matches are distributed among these distances:
93 2 0.01
94 12 0.04
95 56 0.17
96 57 0.17
97 34 0.10
98 20 0.06
99 16 0.05
100 22 0.07
101 11 0.03
102 50 0.15
103 29 0.09
104 1 0.00
105 3 0.01
107 13 0.04
108 6 0.02
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (95 bp):
AAATAAAATAAAATAATAAAAGAAATATAAATATAAAGAAATACATAATATAATAAATACATAAA
TAAATAATATAAAGAAATAAAAACATAAAG
Found at i:2727082 original size:13 final size:13
Alignment explanation
Indices: 2727064--2727088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2727054 AAATAAATAC
2727064 ATAAAGAAATAAT
1 ATAAAGAAATAAT
2727077 ATAAAGAAATAA
1 ATAAAGAAATAA
2727089 AAACATAATA
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:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
ATAAAGAAATAAT
Found at i:2727105 original size:37 final size:38
Alignment explanation
Indices: 2726808--2727105 Score: 112
Period size: 39 Copynumber: 7.5 Consensus size: 38
2726798 AAGAAATAAT
* *
2726808 ATAAAGAAATAAAAACATAAAGAAATAAA-ATAAA-ACTA
1 ATAAA-AAATAAATACATAAAGAAATAAATATAAAGA-AA
* *
2726846 ATAAAAGAAATATAA-ATATAAAGAAATACAA-ATATAA-TAA
1 AT-AAA-AAATA-AATACATAAAGAAATA-AATATA-AAGAAA
* * * * * *
2726886 ATACATAAATAAATAATATAAAGAAATAAAAACATAATATA
1 ATA-AAAAATAAAT-ACATAAAGAAATAAATATA-AAGAAA
* * *
2726927 ATAAATACAAATAAAATAAAGGTAAATAAATAAA-ATAAAGAAC
1 AT-AA-A-AAAT-AAATACA--TAAAGAAATAAATATAAAGAAA
* * * * * *
2726970 ATAATAATAATATAATAAATACATAAATAGATAAAAATAAA
1 ATAA-AA-AATA-AATACATAAAGAAATAAATATAAAGAAA
* * * *
2727011 AT-AAAAATGAATAAAGAAACAAAATAAATATAAAGAAA
1 ATAAAAAATAAATACATAAA-GAAATAAATATAAAGAAA
*
2727049 ATAGAAAATAAATACATAAAGAAAT-AATATAAAG-AA
1 ATAAAAAATAAATACATAAAGAAATAAATATAAAGAAA
2727085 ATAAAAACATAATATA-ATAAA
1 ATAAAAA-ATAA-ATACATAAA
2727106 TACAAATAAA
Statistics
Matches: 206, Mismatches: 32, Indels: 45
0.73 0.11 0.16
Matches are distributed among these distances:
36 8 0.04
37 26 0.13
38 30 0.15
39 44 0.21
40 40 0.19
41 16 0.08
42 14 0.07
43 11 0.05
44 6 0.03
45 11 0.05
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (38 bp):
ATAAAAAATAAATACATAAAGAAATAAATATAAAGAAA
Found at i:2727228 original size:10 final size:11
Alignment explanation
Indices: 2726830--2727221 Score: 78
Period size: 11 Copynumber: 33.4 Consensus size: 11
2726820 AAACATAAAG
2726830 AAATAAAATAA
1 AAATAAAATAA
*
2726841 AACTAATAA-AA
1 AAATAA-AATAA
*
2726852 GAAATATAAATAT
1 -AAATA-AAATAA
* *
2726865 AAA-GAAATAC
1 AAATAAAATAA
*
2726875 AAATATAATAA
1 AAATAAAATAA
2726886 ATACAT-AAATAA
1 A-A-ATAAAATAA
*
2726898 ATAATATAAAGAA
1 A-AATA-AAATAA
2726911 ATAA-AAACATAA
1 A-AATAAA-ATAA
*
2726923 TATAAT-AAATAC
1 -A-AATAAAATAA
2726935 AAATAAAATAA
1 AAATAAAATAA
**
2726946 AGGT-AAAT--
1 AAATAAAATAA
2726954 AAATAAAATAA
1 AAATAAAATAA
* *
2726965 AGAACATAATAA
1 A-AATAAAATAA
* *
2726977 TAATATAATAA
1 AAATAAAATAA
2726988 ATACATAAATAGATAA
1 A-A-AT-AA-A-ATAA
2727004 AAATAAAATAA
1 AAATAAAATAA
*
2727015 AAATGAATAA-AG
1 AAAT-AA-AATAA
*
2727027 AAACAAAATAA
1 AAATAAAATAA
*
2727038 ATATAAAGA-AA
1 AAATAAA-ATAA
* *
2727049 ATAGAAAATAA
1 AAATAAAATAA
2727060 ATACATAAAGA-AA
1 A-A-ATAAA-ATAA
* *
2727073 TAATATAAAGAA
1 AAATA-AAATAA
2727085 ATAA-AAACATAA
1 A-AATAAA-ATAA
*
2727097 TATAAT-AAATAC
1 -A-AATAAAATAA
2727109 AAATAAAATAA
1 AAATAAAATAA
2727120 AGGTAATAAAATAAAA
1 A---AATAAAAT--AA
2727136 GAAATAAAAGTAA
1 -AAATAAAA-TAA
2727149 AAAT-AAAT--
1 AAATAAAATAA
2727157 AAATAAAATAA
1 AAATAAAATAA
* *
2727168 AGAACATAATAA
1 A-AATAAAATAA
* *
2727180 TAATATAATAA
1 AAATAAAATAA
2727191 ATACATAAATAGATAA
1 A-A-AT-AA-A-ATAA
2727207 AAATAAAATAA
1 AAATAAAATAA
2727218 AAAT
1 AAAT
2727222 GAATAAAGAA
Statistics
Matches: 286, Mismatches: 42, Indels: 106
0.66 0.10 0.24
Matches are distributed among these distances:
8 6 0.02
9 8 0.03
10 22 0.08
11 95 0.33
12 70 0.24
13 45 0.16
14 22 0.08
15 5 0.02
16 12 0.04
17 1 0.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:2727267 original size:26 final size:23
Alignment explanation
Indices: 2727247--2727296 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
2727237 ATAAATATAA
*
2727247 AGAAAATAGAAAATAAGTAAAGATAA
1 AGAAAATA-AAAAT-A-TAAATATAA
*
2727273 AGAAAATATAAATATAAATATAA
1 AGAAAATAAAAATATAAATATAA
2727296 A
1 A
2727297 ACTACAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.41
24 1 0.05
25 4 0.18
26 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (23 bp):
AGAAAATAAAAATATAAATATAA
Found at i:2727322 original size:10 final size:9
Alignment explanation
Indices: 2727223--2727326 Score: 56
Period size: 9 Copynumber: 11.2 Consensus size: 9
2727213 AATAAAAATG
2727223 AATAAAGAA
1 AATAAAGAA
*
2727232 ACA-AAATAA
1 A-ATAAAGAA
2727241 ATATAAAGAA
1 A-ATAAAGAA
2727251 AAT--AGAA
1 AATAAAGAA
2727258 AAT-AAGTAA
1 AATAAAG-AA
2727267 AGATAAAGAAA
1 A-ATAAAG-AA
*
2727278 ATATAAATATA
1 A-ATAAAGA-A
*
2727289 AATATA-AA
1 AATAAAGAA
* *
2727297 ACTACAGAA
1 AATAAAGAA
2727306 AATAAAGAA
1 AATAAAGAA
2727315 AATGAAAGAA
1 AAT-AAAGAA
2727325 AA
1 AA
2727327 AAAAACTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
7 7 0.09
8 7 0.09
9 26 0.35
10 22 0.29
11 13 0.17
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (9 bp):
AATAAAGAA
Found at i:2727352 original size:22 final size:21
Alignment explanation
Indices: 2727327--2727381 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 21
2727317 TGAAAGAAAA
*
2727327 AAAAACTAAAAAATAATAAATT
1 AAAAACTAAAAAATAAT-AATG
2727349 AAAAACTAAAAAATAATAATG
1 AAAAACTAAAAAATAATAATG
2727370 AAAAACTAAAAA
1 AAAAACTAAAAA
2727382 CAAAAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAACTAAAAAATAATAATG
Found at i:2727382 original size:7 final size:7
Alignment explanation
Indices: 2727327--2727387 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
2727317 TGAAAGAAAA
2727327 AAAAACT
1 AAAAACT
*
2727334 AAAAAAT
1 AAAAACT
*
2727341 AATAAATT
1 AA-AAACT
2727349 AAAAACT
1 AAAAACT
*
2727356 AAAAAAT
1 AAAAACT
*
2727363 AATAA-T
1 AAAAACT
2727369 GAAAAACT
1 -AAAAACT
2727377 AAAAAC-
1 AAAAACT
2727383 AAAAA
1 AAAAA
2727388 TATATAACTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
6 6 0.13
7 32 0.71
8 7 0.16
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (7 bp):
AAAAACT
Found at i:2727763 original size:2 final size:2
Alignment explanation
Indices: 2727756--2727782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2727746 ACATAATTAA
2727756 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2727783 ATAATAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2727764 original size:35 final size:33
Alignment explanation
Indices: 2727664--2727764 Score: 84
Period size: 33 Copynumber: 3.0 Consensus size: 33
2727654 GTGAAGTAAA
2727664 AAAAAT-AATAATAAGAA-AAAAAGTAAATATA-AT
1 AAAAATAAATAA-AA-AACAAAAA-TAAATATATAT
* * *
2727697 ATAAATAAATAAAAACCAAAAATAAA-AAATAT
1 AAAAATAAATAAAAAACAAAAATAAATATATAT
* *
2727729 AGAAAATAAATATAAAAACATAATTAAATATATAT
1 A-AAAATAAATA-AAAAACAAAAATAAATATATAT
2727764 A
1 A
2727765 TATATATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
31 2 0.04
32 8 0.15
33 21 0.39
34 17 0.31
35 6 0.11
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (33 bp):
AAAAATAAATAAAAAACAAAAATAAATATATAT
Found at i:2727809 original size:8 final size:8
Alignment explanation
Indices: 2727796--2727861 Score: 50
Period size: 8 Copynumber: 8.0 Consensus size: 8
2727786 ATAAGGGTTA
2727796 AATAAAAT
1 AATAAAAT
2727804 AATAAAA-
1 AATAAAAT
2727811 AATAAATACAT
1 AAT-AA-A-AT
2727822 ATATAACAA-
1 A-ATAA-AAT
2727831 AAT-AAAT
1 AATAAAAT
2727838 AATAAAAT
1 AATAAAAT
2727846 AA-AATAAT
1 AATAA-AAT
2727854 AATAAAAT
1 AATAAAAT
2727862 GATTAAATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 18
0.72 0.01 0.27
Matches are distributed among these distances:
6 2 0.04
7 9 0.19
8 25 0.52
9 4 0.08
10 2 0.04
11 4 0.08
12 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:2727856 original size:16 final size:16
Alignment explanation
Indices: 2727795--2727861 Score: 77
Period size: 16 Copynumber: 4.2 Consensus size: 16
2727785 AATAAGGGTT
2727795 AAATAAAATAATAA-A
1 AAATAAAATAATAATA
2727810 AAAT-AAATACAT-ATA
1 AAATAAAATA-ATAATA
* *
2727825 TAACAAAATAAATAATA
1 AAATAAAAT-AATAATA
2727842 AAATAAAATAATAATA
1 AAATAAAATAATAATA
2727858 AAAT
1 AAAT
2727862 GATTAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.14
15 9 0.21
16 17 0.40
17 11 0.26
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAATAATAATA
Found at i:2728269 original size:20 final size:20
Alignment explanation
Indices: 2728222--2728272 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
2728212 ACCGACGTTG
*
2728222 ATCGGC-GTCGACTAGCAGTC
1 ATCGGCGGT-GACTACCAGTC
2728242 ATCGGCGGTGACTACCAGTC
1 ATCGGCGGTGACTACCAGTC
2728262 ATCGGCGGTGA
1 ATCGGCGGTGA
2728273 ACCTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (20 bp):
ATCGGCGGTGACTACCAGTC
Found at i:2729013 original size:2 final size:2
Alignment explanation
Indices: 2728995--2729051 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
2728985 AGAAAGAAAA
* * * *
2728995 AT AT AT AA AT A- AC AT AT AT AT AT AT AT AT A- AC AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2729035 -T AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
2729052 GTTATTTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Done.