Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 8 of 313
Found at i:2458612 original size:25 final size:25
Alignment explanation
Indices: 2458556--2458698 Score: 229
Period size: 25 Copynumber: 5.8 Consensus size: 25
2458546 AGGAAGTGCA
2458556 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
2458579 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
2458604 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
2458629 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
2458654 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
2458678 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
2458699 CTAAAAGAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 22 0.20
24 21 0.19
25 69 0.62
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:2458655 original size:50 final size:49
Alignment explanation
Indices: 2458556--2458726 Score: 240
Period size: 50 Copynumber: 3.5 Consensus size: 49
2458546 AGGAAGTGCA
*
2458556 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
*
2458604 AAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTACGAT
* * *
2458654 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
*
2458702 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
2458727 GATAAAGCAG
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
48 31 0.28
49 34 0.31
50 46 0.41
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
Found at i:2458710 original size:25 final size:23
Alignment explanation
Indices: 2458555--2458725 Score: 200
Period size: 25 Copynumber: 7.0 Consensus size: 23
2458545 GAGGAAGTGC
2458555 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
2458578 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
2458601 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
* *
2458626 GATGAAGGGCTTATGCCCCAGTTACG
1 -A-AAAGGGCTTATGCCCCAGTTA-T
2458652 ATAAAGGGCTTATGCCCCAGTTAT
1 A-AAAGGGCTTATGCCCCAGTTAT
*
2458676 AAAAAGGGCTTTTGCCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
2458701 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
2458725 A
1 A
2458726 TGATAAAGCA
Statistics
Matches: 132, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
23 22 0.17
24 31 0.23
25 79 0.60
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:2458954 original size:31 final size:31
Alignment explanation
Indices: 2458918--2458981 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
2458908 CGTTTACAGT
*
2458918 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
2458949 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
2458980 AA
1 AA
2458982 TATGAATAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:2467829 original size:56 final size:56
Alignment explanation
Indices: 2467769--2467920 Score: 250
Period size: 56 Copynumber: 2.7 Consensus size: 56
2467759 CAGATAGGGT
* * *
2467769 CTTACTCACACACATATATCGGAATCGCATATCGATGCCAACGTATGAAACGTGGA
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATGAAACGTGGA
2467825 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATGAAACGTGGA
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATGAAACGTGGA
* * *
2467881 CTTATTCGCACACATGTATCGAAATCATATATCGATGCCA
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCA
2467921 CATATACTTC
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 90 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATGAAACGTGGA
Found at i:2468692 original size:15 final size:15
Alignment explanation
Indices: 2468672--2468711 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
2468662 AATTCCAATA
2468672 CAAAACATATTAATC
1 CAAAACATATTAATC
2468687 CAAAACATATTAATC
1 CAAAACATATTAATC
2468702 CAAAACATAT
1 CAAAACATAT
2468712 CTTTCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (15 bp):
CAAAACATATTAATC
Found at i:2469977 original size:43 final size:43
Alignment explanation
Indices: 2469921--2470063 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 43
2469911 CTTTGGTTTA
* *
2469921 TCCGATGATGCATTGTGTATACCAATATATTTGCTTTGATTTG
1 TCCGATGATGCATTATGTATACCAATATATTTGCTTTGATTCG
* ** *
2469964 TCTGATTG-TGCATTATGTACGCCAATGA-ATTTGCTTCGATTCG
1 TCCGA-TGATGCATTATGTATACCAAT-ATATTTGCTTTGATTCG
* * * * * **
2470007 TCCGATGATGCACTATGTGTACCAGTATATTCGCTTTGGTTTA
1 TCCGATGATGCATTATGTATACCAATATATTTGCTTTGATTCG
2470050 TCCGATGATGCATT
1 TCCGATGATGCATT
2470064 GAGGTGCCAG
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.04
43 72 0.92
44 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (43 bp):
TCCGATGATGCATTATGTATACCAATATATTTGCTTTGATTCG
Found at i:2504150 original size:55 final size:54
Alignment explanation
Indices: 2504018--2504150 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 54
2504008 CATGGCTATG
** * * *
2504018 GGCGAACCTGCCAAAACAACACCTGTGTACGATATGCCCGTGCCTAGAAACCGT
1 GGCGAACCTGCCAAAACAACACGAGCGTACGACATGCCCGTGCCAAGAAACCGT
** * * * *
2504072 GGTCGAACCTGCCAAATTAACACGAGCGTGCGACATGCCTGTGCCAAGCAATCGT
1 GG-CGAACCTGCCAAAACAACACGAGCGTACGACATGCCCGTGCCAAGAAACCGT
2504127 AGGCGAACCTGCCAAAACAACACG
1 -GGCGAACCTGCCAAAACAACACG
2504151 GGTGTGGACC
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
54 2 0.03
55 60 0.94
56 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (54 bp):
GGCGAACCTGCCAAAACAACACGAGCGTACGACATGCCCGTGCCAAGAAACCGT
Found at i:2508203 original size:13 final size:13
Alignment explanation
Indices: 2508185--2508224 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
2508175 GAAGTAATCG
2508185 CACACGGGAGTGT
1 CACACGGGAGTGT
2508198 CACACGGGAGTGT
1 CACACGGGAGTGT
*
2508211 CACACGGGCGTGT
1 CACACGGGAGTGT
2508224 C
1 C
2508225 CCTACTGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGAGTGT
Found at i:2514370 original size:46 final size:46
Alignment explanation
Indices: 2514262--2514373 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 46
2514252 CATTGTCATT
* * *
2514262 GAGATGAGAGCTAGTCTAAGACATCTCTGGGACATGCATCGGCCTC
1 GAGATGATAGCTAGTGTAAGACATCTCTGGGACATGCATCAGCCTC
* * * *
2514308 AAGA-CATAAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTAC
1 GAGATGAT-AGCTAGTGTAAGACATCTCTGGGACATGCATCAGCCT-C
*
2514354 GAGATGATAGTTAGTGTAAG
1 GAGATGATAGCTAGTGTAAG
2514374 GGGGCAATGA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
45 3 0.06
46 47 0.90
47 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGATGATAGCTAGTGTAAGACATCTCTGGGACATGCATCAGCCTC
Found at i:2517162 original size:22 final size:22
Alignment explanation
Indices: 2517137--2517183 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
2517127 TTTTCTTGAT
2517137 CTATAATATCACATTTAGCCTA
1 CTATAATATCACATTTAGCCTA
2517159 CTATAATATCACATTTAGCCTA
1 CTATAATATCACATTTAGCCTA
2517181 CTA
1 CTA
2517184 ATTAGTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (22 bp):
CTATAATATCACATTTAGCCTA
Found at i:2519955 original size:27 final size:27
Alignment explanation
Indices: 2519916--2519981 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
2519906 TGCCTCTCAA
* * *
2519916 AGAGGTGGTACTAATGACCCCTCTTAG
1 AGAGGCGGCACTAATGACCCCTATTAG
* * *
2519943 -GTAGGCGGCACTAGTGGCCCCTATTTG
1 AG-AGGCGGCACTAATGACCCCTATTAG
2519970 AGAGGCGGCACT
1 AGAGGCGGCACT
2519982 GGACTAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 29 0.94
28 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (27 bp):
AGAGGCGGCACTAATGACCCCTATTAG
Found at i:2521847 original size:20 final size:20
Alignment explanation
Indices: 2521822--2521861 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2521812 TAGGGACTAA
*
2521822 AATAAAAAGTTGTAAAATTT
1 AATAAAAAGTTCTAAAATTT
*
2521842 AATAAAAATTTCTAAAATTT
1 AATAAAAAGTTCTAAAATTT
2521862 TATGAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAAAAAGTTCTAAAATTT
Found at i:2523477 original size:28 final size:29
Alignment explanation
Indices: 2523373--2523480 Score: 123
Period size: 28 Copynumber: 3.8 Consensus size: 29
2523363 ACATACCTAT
* * * *
2523373 ATATGGCCCACTAAGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
2523401 ATATGGCCCATTAGGCCC-ATTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
2523429 ATGTGGCCCATTAAGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
2523458 ATATGG-CCATTAGGCCCAAATCA
1 ATATGGCCCATTAGGCCCAAATCA
2523481 TATTTACAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 54 0.81
29 13 0.19
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:2527885 original size:27 final size:27
Alignment explanation
Indices: 2527855--2528032 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2527845 ATATTGAGTC
* * * *
2527855 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2527882 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2527909 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2527937 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2527964 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2527991 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2528018 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2528033 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2527994 original size:82 final size:81
Alignment explanation
Indices: 2527876--2528031 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2527866 TGCTATATAA
* *
2527876 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2527941 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2527958 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2528022 CACTTAGTGC
65 CACTTAGTGC
2528032 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2538766 original size:28 final size:28
Alignment explanation
Indices: 2538725--2538781 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
2538715 TAACTCAAAA
2538725 ATCAGTTTCATAATTTTTCCCAGAAACT
1 ATCAGTTTCATAATTTTTCCCAGAAACT
*
2538753 ATCAGTTTCGTAATTTTTCCCAGAAACT
1 ATCAGTTTCATAATTTTTCCCAGAAACT
2538781 A
1 A
2538782 GACTCATGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (28 bp):
ATCAGTTTCATAATTTTTCCCAGAAACT
Found at i:2539260 original size:139 final size:139
Alignment explanation
Indices: 2539010--2539287 Score: 547
Period size: 139 Copynumber: 2.0 Consensus size: 139
2539000 TAATTATCTC
*
2539010 TGGTTAATTTGTAATGAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
1 TGGTTAATTTGTAATCAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
2539075 CACAATAATCTGATTATCTCTTAATATACTGCCCATATGATCTTATCGTTACTTCCTCATGAAAG
66 CACAATAATCTGATTATCTCTTAATATACTGCCCATATGATCTTATCGTTACTTCCTCATGAAAG
2539140 CAGACTCAT
131 CAGACTCAT
2539149 TGGTTAATTTGTAATCAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
1 TGGTTAATTTGTAATCAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
2539214 CACAATAATCTGATTATCTCTTAATATACTGCCCATATGATCTTATCGTTACTTCCTCATGAAAG
66 CACAATAATCTGATTATCTCTTAATATACTGCCCATATGATCTTATCGTTACTTCCTCATGAAAG
2539279 CAGACTCAT
131 CAGACTCAT
2539288 CGAGCTTCGA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (139 bp):
TGGTTAATTTGTAATCAATTTCCAAAGTCGGAGCAGGGAATCCAGAAACCGTTCTGGCCCTGTCC
CACAATAATCTGATTATCTCTTAATATACTGCCCATATGATCTTATCGTTACTTCCTCATGAAAG
CAGACTCAT
Found at i:2540124 original size:27 final size:27
Alignment explanation
Indices: 2540094--2540271 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
2540084 ATATTGAGCC
* *
2540094 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
2540121 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2540148 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
2540176 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
2540203 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
2540230 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2540257 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
2540272 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:2540233 original size:82 final size:81
Alignment explanation
Indices: 2540115--2540270 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
2540105 TGCTATATAA
* *
2540115 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2540180 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2540197 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
2540261 CCCTTAGTGC
65 CACTTAGTGC
2540271 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2540254 original size:54 final size:54
Alignment explanation
Indices: 2540094--2540270 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
2540084 ATATTGAGCC
* * * *
2540094 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
2540148 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
2540203 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
2540257 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
2540271 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:2544962 original size:187 final size:186
Alignment explanation
Indices: 2544642--2545019 Score: 738
Period size: 187 Copynumber: 2.0 Consensus size: 186
2544632 TTGACGATAA
2544642 TCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGA
1 TCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGA
2544707 GAAACTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACT
66 GAAACTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACT
*
2544772 CGGTTAGTGCCATACGATACGGAGCGATCGAAATTGGCGTAGTTCCAGGTACAAGC
131 CGGTTAGTGCCATACGATACGGAGCGATCGAAATAGGCGTAGTTCCAGGTACAAGC
2544828 TCAATGGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTG
1 TCAAT-GCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTG
2544893 AGAAACTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAAC
65 AGAAACTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAAC
2544958 TCGGTTAGTGCCATACGATACGGAGCGATCGAAATAGGCGTAGTTCCAGGTACAAGC
130 TCGGTTAGTGCCATACGATACGGAGCGATCGAAATAGGCGTAGTTCCAGGTACAAGC
2545015 TCAAT
1 TCAAT
2545020 ACCAAACTCT
Statistics
Matches: 190, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
186 5 0.03
187 185 0.97
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (186 bp):
TCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGA
GAAACTCGGTCGAGCGAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACT
CGGTTAGTGCCATACGATACGGAGCGATCGAAATAGGCGTAGTTCCAGGTACAAGC
Found at i:2545342 original size:58 final size:58
Alignment explanation
Indices: 2545250--2545362 Score: 208
Period size: 58 Copynumber: 1.9 Consensus size: 58
2545240 ATTATTTCGT
*
2545250 TATTTGCGCACCTCAAATCGATAGTCTTGATTTTGCAATTCACAACCGCATCATGAGC
1 TATTTGCACACCTCAAATCGATAGTCTTGATTTTGCAATTCACAACCGCATCATGAGC
*
2545308 TATTTGCACACCTCAAATCGATAGTCTTGCTTTTGCAATTCACAACCGCATCATG
1 TATTTGCACACCTCAAATCGATAGTCTTGATTTTGCAATTCACAACCGCATCATG
2545363 CGCGGTTAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
TATTTGCACACCTCAAATCGATAGTCTTGATTTTGCAATTCACAACCGCATCATGAGC
Found at i:2546609 original size:57 final size:57
Alignment explanation
Indices: 2546521--2546634 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
2546511 ACAAAGATAC
2546521 AGCACATTTTAGACATTCATCGGGTGTGCATGACAATTCATC-GAACACCCGAATGGT
1 AGCACATTTTAGACATTCATCGGGTGTGCATGACAATTCATCAG-ACACCCGAATGGT
2546578 AGCACATTTTAGACATTCATCGGGTGTGCATGACAATTCATCAGACACCCGAATGGT
1 AGCACATTTTAGACATTCATCGGGTGTGCATGACAATTCATCAGACACCCGAATGGT
2546635 GTTATCAAGC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 55 0.98
58 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (57 bp):
AGCACATTTTAGACATTCATCGGGTGTGCATGACAATTCATCAGACACCCGAATGGT
Found at i:2548062 original size:75 final size:75
Alignment explanation
Indices: 2547939--2548090 Score: 270
Period size: 75 Copynumber: 2.0 Consensus size: 75
2547929 ACTAGCTTAT
*
2547939 ACATGCCAAAATGATCTTCTAAGCACACTAAGAAGAAAGTACCAAAACTTGTTATCCGGTGTGAT
1 ACATGCCAAAATGATCTTCTAAGCACACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGAT
2548004 GACTTCGATG
66 GACTTCGATG
*
2548014 ACATGCCAAAATGTTCTTCTAAGC-CAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGA
1 ACATGCCAAAATGATCTTCTAAGCAC-ACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGA
2548078 TGACTTCGATG
65 TGACTTCGATG
2548089 AC
1 AC
2548091 GGCCTGACCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
74 1 0.01
75 73 0.99
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (75 bp):
ACATGCCAAAATGATCTTCTAAGCACACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTGTGAT
GACTTCGATG
Found at i:2548635 original size:27 final size:27
Alignment explanation
Indices: 2548605--2548782 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
2548595 ATATTGAGCC
* *
2548605 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
2548632 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2548659 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
2548687 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
2548714 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
2548741 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
2548768 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2548783 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:2548744 original size:82 final size:81
Alignment explanation
Indices: 2548626--2548781 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
2548616 TGCTATATAA
* * *
2548626 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
2548691 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2548708 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
2548772 CACTTAGTGC
65 CACTTAGTGC
2548782 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2550707 original size:44 final size:44
Alignment explanation
Indices: 2550654--2550741 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
2550644 CTCCTTCACT
* ** *
2550654 TCACGAGCTAGGATACGCATCCGTTCTTCTTCATAACTCATATC
1 TCACGAGCTAGGATACACATCCGCACTTCTTCATAAATCATATC
*
2550698 TCACGAGCTAGGATACACATCGGCACTTCTTCATAAATCATATC
1 TCACGAGCTAGGATACACATCCGCACTTCTTCATAAATCATATC
2550742 GGCTTGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
TCACGAGCTAGGATACACATCCGCACTTCTTCATAAATCATATC
Found at i:2556907 original size:27 final size:27
Alignment explanation
Indices: 2556877--2557054 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
2556867 ATATTGAGCC
* *
2556877 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
2556904 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2556931 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
2556959 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
2556986 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
2557013 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
2557040 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2557055 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:2557016 original size:82 final size:81
Alignment explanation
Indices: 2556897--2557053 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
2556887 GTGCTATATA
* *
2556897 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
2556962 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
2556979 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
2557043 ACACTTAGTGC
65 ACACTTAGTGC
2557054 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:2559861 original size:39 final size:40
Alignment explanation
Indices: 2559761--2559985 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
2559751 TTGAATGATG
* * * *
2559761 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
2559801 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2559841 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2559880 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2559920 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
2559961 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2559986 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2566894 original size:41 final size:41
Alignment explanation
Indices: 2566849--2566930 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
2566839 TGGATGGAAG
*
2566849 ATATACGAGTCTATATTCAGGAAAAATTAACGGCAAGTGAT
1 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGAT
2566890 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGAT
1 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGAT
2566931 TTGGAGTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (41 bp):
ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGAT
Found at i:2567314 original size:47 final size:47
Alignment explanation
Indices: 2567247--2568295 Score: 1864
Period size: 47 Copynumber: 22.3 Consensus size: 47
2567237 AAAGTGTATA
2567247 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
2567294 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * *
2567341 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
2567388 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567435 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567482 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567529 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567576 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567623 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567670 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567717 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567764 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567811 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567858 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567905 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567952 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
2567999 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * *
2568046 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * *
2568093 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * *
2568140 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
2568187 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * * * * * *
2568234 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
*
2568281 TATAAATGTGATAAG
1 TATATATGTGATAAG
2568296 TCCCGAAGGG
Statistics
Matches: 982, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 982 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
Found at i:2568472 original size:37 final size:37
Alignment explanation
Indices: 2568414--2568492 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
2568404 CCGAGCTCTA
* *
2568414 AAGACCCGATGACTACATGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
* *
2568451 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
2568488 AAGAC
1 AAGAC
2568493 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:2570404 original size:29 final size:29
Alignment explanation
Indices: 2570369--2570442 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
2570359 GTTGTGAGAT
* * *
2570369 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
2570398 TGGCACTAAATGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
2570427 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
2570443 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:2570945 original size:40 final size:40
Alignment explanation
Indices: 2570751--2570933 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
2570741 TTGAATGATG
* * *
2570751 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
2570791 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
2570831 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
2570871 TCCGTG-CTAA-ACCCTGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCC-GAAGAGCATTCGTGCTAGTGATATA
* *
2570911 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
2570934 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 104 0.83
41 11 0.09
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:2573747 original size:61 final size:60
Alignment explanation
Indices: 2573635--2573754 Score: 213
Period size: 61 Copynumber: 2.0 Consensus size: 60
2573625 CAGATGCTGG
**
2573635 CAGCAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGATTGGAATTAAATAGA
1 CAGCAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAGA
2573695 CAGCAGCAGTGATGTAGATTTGGAAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAG
1 CAGCAGCAGTGATGTAGATTTGG-AAAATCACTAAAAATAGTAGGAAGGGAATTAAATAG
2573755 TGAATAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 23 0.40
61 34 0.60
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.23
Consensus pattern (60 bp):
CAGCAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAAGGGAATTAAATAGA
Found at i:2580019 original size:47 final size:46
Alignment explanation
Indices: 2579943--2580217 Score: 193
Period size: 47 Copynumber: 5.8 Consensus size: 46
2579933 GACTTCTTGT
2579943 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATA-AGACGA
* * **
2579991 GTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAACAATA
1 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-AAGACGA
* * *** *
2580037 ATAGCCAGTGTAAGACGTGTCTGGGACA-CATATCGGC-TAAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATAAGACG-A
* * *
2580082 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCATGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCA--TA-AGACGA
* * * * * * * *
2580130 GAGCTAGTATAAGACAATGTCTGGGACATGACATCAGCCT-CGATGA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATAAGACGA
*
2580176 TGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -G-T-GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
2580218 ACTTATCCCA
Statistics
Matches: 180, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 28 0.16
45 4 0.02
46 17 0.09
47 48 0.27
48 30 0.17
49 45 0.25
50 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATAAGACGA
Found at i:2580158 original size:49 final size:47
Alignment explanation
Indices: 2579948--2580213 Score: 177
Period size: 49 Copynumber: 5.6 Consensus size: 47
2579938 CTTGTGTGCC
* * * * *
2579948 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-GACGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGATGATGAGAGCT
* * * ** * * *
2579996 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAATAATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATGAGAGCT
* * ** * * * *
2580043 AGTGTAAGACGTGTCTGGGACA--CAT-ATCGGCTAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATG-AGAGCT
2580087 AGTGTAAGACATGTCTGGGACATGCATCAGCAT-GTAT-ATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCG-ATGAT--GAGAGCT
* * *
2580135 AGTATAAGACAATGTCTGGGACATGACATCAGCCTCGATGATGATAGCT
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCAGCATCGATGATGAGAGCT
2580184 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
2580214 GGCAACTTAT
Statistics
Matches: 170, Mismatches: 33, Indels: 29
0.73 0.14 0.12
Matches are distributed among these distances:
44 27 0.16
45 3 0.02
46 14 0.08
47 43 0.25
48 22 0.13
49 46 0.27
50 12 0.07
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGATGATGAGAGCT
Found at i:2582426 original size:20 final size:22
Alignment explanation
Indices: 2582403--2582446 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2582393 GAATACTAGA
2582403 AGAAATCAAA-AAAG-AAAAAG
1 AGAAATCAAAGAAAGTAAAAAG
*
2582423 AG-AATGAAAGAAAGTAAAAAG
1 AGAAATCAAAGAAAGTAAAAAG
2582444 AGA
1 AGA
2582447 TTGAGATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.07
Consensus pattern (22 bp):
AGAAATCAAAGAAAGTAAAAAG
Found at i:2589448 original size:48 final size:48
Alignment explanation
Indices: 2589224--2589747 Score: 773
Period size: 48 Copynumber: 10.8 Consensus size: 48
2589214 AGCCGAAGCT
* * * **
2589224 ATCTGGTACGCATAGTAGGCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGC-ACCAACA
* * *
2589273 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTG-ACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTAC--ACATGCACC-AACA
* * * * ***
2589323 ATCTGATACACGTAGTAGCCTGCATTTAGTACTAAACACGTG-ATCGATGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATGCA-CCA-ACA
* * *
2589374 ATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
* **
2589422 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGCCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589470 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589518 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589566 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589614 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589662 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
2589710 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
2589748 CGTGACCTCA
Statistics
Matches: 434, Mismatches: 33, Indels: 17
0.90 0.07 0.04
Matches are distributed among these distances:
48 317 0.73
49 42 0.10
50 40 0.09
51 33 0.08
52 2 0.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCACCAACA
Found at i:2590435 original size:30 final size:30
Alignment explanation
Indices: 2590401--2590461 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
2590391 CCTTTAATAC
*
2590401 AAACTTTGGCAAAATTGC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
*
2590431 AAACTTTGGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
2590461 A
1 A
2590462 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:2595309 original size:49 final size:48
Alignment explanation
Indices: 2595237--2595475 Score: 235
Period size: 49 Copynumber: 4.8 Consensus size: 48
2595227 AAGCTATCTG
* * * *
2595237 GTACACATAGTAGGCTGCACTTAGTACTACACATGCGACCAATTATCCA
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACTAT-CA
* ** * * *
2595286 GTACACGTGGTAGCCTGCACTTAGTGTTACACACGTGACCTAACCATCT
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AACTATCA
* * *
2595335 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCA
1 G-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-CTATCA
* * * * * *
2595386 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATCTG
1 -GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACTATC-A
*
2595436 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
2595476 TCACAATAGC
Statistics
Matches: 153, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
49 73 0.48
50 43 0.28
51 36 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACTATCA
Found at i:2595458 original size:100 final size:99
Alignment explanation
Indices: 2595232--2595475 Score: 312
Period size: 100 Copynumber: 2.5 Consensus size: 99
2595222 AGCCGAAGCT
* * * * * *
2595232 ATCTGGTACACATAGTAGGCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTGGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGT
** ** *
2595297 AGCCTGCACTTAGTGTTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCAACCTAACA
* * *
2595331 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CAGGTACGCAT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCA-GTACACAT
*
2595395 AGTAGCCTGCACTTAGTACTACACATGCAACC-AACA
63 AGTAGCCTGCACTTAGTACTACACACGCAACCTAACA
2595431 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
2595476 TCACAATAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
99 39 0.31
100 50 0.40
101 36 0.29
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGT
AGCCTGCACTTAGTACTACACACGCAACCTAACA
Found at i:2596156 original size:30 final size:30
Alignment explanation
Indices: 2596122--2596182 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
2596112 CCTTTAATAC
2596122 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* *
2596152 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
2596182 A
1 A
2596183 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:2597307 original size:16 final size:17
Alignment explanation
Indices: 2597285--2597332 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
2597275 ATTGAAGCCG
2597285 TCCATGCATGTACCTCA
1 TCCATGCATGTACCTCA
* *
2597302 -CCATGCATTGAAGC-CA
1 TCCATGCA-TGTACCTCA
2597318 TCCATGCATGTACCT
1 TCCATGCATGTACCT
2597333 TTGAATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (17 bp):
TCCATGCATGTACCTCA
Found at i:2597311 original size:33 final size:33
Alignment explanation
Indices: 2597267--2597332 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2597257 AACATCAGCA
*
2597267 CACCATACATTGAAGCCGTCCATGCATGTACCT
1 CACCATACATTGAAGCCATCCATGCATGTACCT
*
2597300 CACCATGCATTGAAGCCATCCATGCATGTACCT
1 CACCATACATTGAAGCCATCCATGCATGTACCT
2597333 TTGAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (33 bp):
CACCATACATTGAAGCCATCCATGCATGTACCT
Found at i:2597324 original size:17 final size:17
Alignment explanation
Indices: 2597269--2597326 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
2597259 CATCAGCACA
* *
2597269 CCATACATTGAAGCCGT
1 CCATGCATTGAAGCCAT
* *
2597286 CCATGCA-TGTACCTCA-
1 CCATGCATTGAAGC-CAT
2597302 CCATGCATTGAAGCCAT
1 CCATGCATTGAAGCCAT
2597319 CCATGCAT
1 CCATGCAT
2597327 GTACCTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (17 bp):
CCATGCATTGAAGCCAT
Found at i:2602587 original size:40 final size:40
Alignment explanation
Indices: 2602529--2603475 Score: 1849
Period size: 40 Copynumber: 23.7 Consensus size: 40
2602519 AGCATTGGAT
*
2602529 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602569 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602609 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602649 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602689 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602729 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602769 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602809 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602849 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602889 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602929 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2602969 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603009 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603049 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603089 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603129 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603169 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603209 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603249 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603289 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603329 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
2603369 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
*
2603409 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
* * *
2603449 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTATGACCCGAAGGCAA
2603476 ATGTGTTTGC
Statistics
Matches: 903, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 903 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
Found at i:2605670 original size:36 final size:34
Alignment explanation
Indices: 2605583--2605670 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 34
2605573 ATATAGGCAT
* * *
2605583 ATATATTATATA-TTATATATATAATGACCATAG
1 ATATATTATATATTTATATATATAAAGACCACAC
* *
2605616 ATGTATGTATTTATTTTATATATATAACAAGACCACAC
1 ATATAT-TATATA-TTTATATATAT-A-AAGACCACAC
2605654 ATATATTATATATTTAT
1 ATATATTATATATTTAT
2605671 CGAGATGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
33 5 0.12
34 5 0.12
36 15 0.35
37 6 0.14
38 12 0.28
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (34 bp):
ATATATTATATATTTATATATATAAAGACCACAC
Found at i:2609826 original size:9 final size:9
Alignment explanation
Indices: 2609808--2609883 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
2609798 TTTGGTTAAA
*
2609808 AATTACCCG
1 AATTAACCG
2609817 AATTAACCG
1 AATTAACCG
*
2609826 AATTACCCG
1 AATTAACCG
2609835 AATTAACCG
1 AATTAACCG
* *
2609844 GATTACCCG
1 AATTAACCG
2609853 AATTAACCG
1 AATTAACCG
*
2609862 AATTACCCG
1 AATTAACCG
2609871 AATTAACCG
1 AATTAACCG
2609880 AATT
1 AATT
2609884 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:2609831 original size:18 final size:18
Alignment explanation
Indices: 2609808--2609883 Score: 143
Period size: 18 Copynumber: 4.2 Consensus size: 18
2609798 TTTGGTTAAA
2609808 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
2609826 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
2609844 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
2609862 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
2609880 AATT
1 AATT
2609884 GAATCACTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:2616606 original size:15 final size:15
Alignment explanation
Indices: 2616588--2616617 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2616578 TCTATTTTTT
2616588 TTATATCAATTTGAG
1 TTATATCAATTTGAG
*
2616603 TTATATCGATTTGAG
1 TTATATCAATTTGAG
2616618 CTTGAAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (15 bp):
TTATATCAATTTGAG
Found at i:2619413 original size:19 final size:20
Alignment explanation
Indices: 2619371--2619413 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2619361 TTAAAATACT
* *
2619371 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
2619391 TTTAAAATAA-TTTTTAATG
1 TTTAAAATAATTTTTTAATG
2619410 TTTA
1 TTTA
2619414 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:2620855 original size:28 final size:27
Alignment explanation
Indices: 2620800--2620872 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
2620790 AATTGGCTTG
* *
2620800 TTTTTGTATTTT-CTTTTTATTGTGTA
1 TTTTTTTATTTTCCTTTTTATTATGTA
2620826 TTTTTTTATTTTGCCTTTATTATTAT-TA
1 TTTTTTTATTTT-CCTTT-TTATTATGTA
*
2620854 TTATTTTATTATTTCCTTT
1 TTTTTTTA-T-TTTCCTTT
2620873 GTTTTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 11 0.28
28 13 0.33
29 12 0.31
30 3 0.08
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTTTTATTTTCCTTTTTATTATGTA
Found at i:2620889 original size:100 final size:105
Alignment explanation
Indices: 2620758--2620967 Score: 358
Period size: 101 Copynumber: 2.0 Consensus size: 105
2620748 ATTCATTTGC
2620758 TTATTATTTCCTTCGTTTTTTTTTATATTTACAATTGG-CTTGTTTTTGTATTTTCTTTTTATTG
1 TTATTATTTCCTTCGTTTTTTTTTATATTTACAATTGGCCTTGTTTTTGTATTTTCTTTTTATTG
* *
2620822 TGTA-TT-TTTTTATTTTGCCTTTATTATTATTATTATT-
66 TGCATTTCTTTTTAGTTTGCCTTTATTATTATTATTATTA
*
2620859 TTATTATTTCCTTTG-TTTTTTTTATATTTACAATTGGCCTTGTTTTTGTATTTTCTTTTTATTG
1 TTATTATTTCCTTCGTTTTTTTTTATATTTACAATTGGCCTTGTTTTTGTATTTTCTTTTTATTG
2620923 TGCATTTCTTTTTAGTTTGCCTTTATTATTATTATTATTA
66 TGCATTTCTTTTTAGTTTGCCTTTATTATTATTATTATTA
2620963 TTATT
1 TTATT
2620968 CCATTATTCA
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
100 22 0.22
101 43 0.42
102 2 0.02
103 30 0.29
104 5 0.05
ACGTcount: A:0.16, C:0.09, G:0.08, T:0.67
Consensus pattern (105 bp):
TTATTATTTCCTTCGTTTTTTTTTATATTTACAATTGGCCTTGTTTTTGTATTTTCTTTTTATTG
TGCATTTCTTTTTAGTTTGCCTTTATTATTATTATTATTA
Found at i:2621582 original size:29 final size:29
Alignment explanation
Indices: 2621542--2621600 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2621532 GAATAAAAAC
*
2621542 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
2621571 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
2621600 T
1 T
2621601 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:2624097 original size:5 final size:5
Alignment explanation
Indices: 2624089--2624136 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
2624079 CGAACAAATA
* *
2624089 ATTCG ATTCG ATTCG ATTCG ATCTCT ATCTC- ACTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG AT-TCG AT-TCG ATTCG ATTCG ATTCG AT
2624137 AAAACTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.05
5 29 0.76
6 7 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTCG
Found at i:2626407 original size:24 final size:23
Alignment explanation
Indices: 2626360--2626551 Score: 106
Period size: 24 Copynumber: 8.3 Consensus size: 23
2626350 ACCTATACAT
* *
2626360 ACCAAATTTAACAGCACT-TTTAC
1 ACCAAATTTAACAACA-TATATAC
2626383 ACCAAAATTTAACAACATATATAC
1 ACC-AAATTTAACAACATATATAC
* * * *
2626407 AGCAAA--TAGGCAACATATACAT
1 ACCAAATTTA-ACAACATATATAC
*
2626429 ACCAAATTTAACAACACT-TTTAC
1 ACCAAATTTAACAACA-TATATAC
*
2626452 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTTAACAACATATATAC
* ** * *
2626476 AACAAA-TTGGCAACATATACAT
1 ACCAAATTTAACAACATATATAC
* * * * *
2626498 ACCAAATTGAGCAGCATTTTTAC
1 ACCAAATTTAACAACATATATAC
* *
2626521 ACCAAAATTTATCAGCATATATAC
1 ACC-AAATTTAACAACATATATAC
*
2626545 AACAAAT
1 ACCAAAT
2626552 GGGCAGCATA
Statistics
Matches: 127, Mismatches: 32, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
21 2 0.02
22 31 0.24
23 37 0.29
24 57 0.45
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (23 bp):
ACCAAATTTAACAACATATATAC
Found at i:2626437 original size:69 final size:69
Alignment explanation
Indices: 2626353--2626593 Score: 392
Period size: 69 Copynumber: 3.5 Consensus size: 69
2626343 TTTCCAAACC
* *
2626353 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAACATATATACAGCAAATAGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
2626418 AACA
66 AACA
* *
2626422 TATACATACCAAATTTAACAACACTTTTACACCAAAATTTAACAGCATATATACAACAAATTGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
2626487 AACA
66 AACA
* * * * *
2626491 TATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTATCAGCATATATACAACAAATGGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
*
2626556 AGCA
66 AACA
2626560 TATACATACCAAATTTAACAGCACTTTTACACCA
1 TATACATACCAAATTTAACAGCACTTTTACACCA
2626594 TAAGATTATA
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 158 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (69 bp):
TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
AACA
Found at i:2626561 original size:22 final size:23
Alignment explanation
Indices: 2626464--2626563 Score: 87
Period size: 22 Copynumber: 4.4 Consensus size: 23
2626454 CAAAATTTAA
2626464 CAGCATATATACAACAAATTG-G
1 CAGCATATATACAACAAATTGAG
* * * *
2626486 CAACATATACATACCAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * * * *
2626509 CAGCATTTTTACACCAAAATTTAT
1 CAGCATATATACAAC-AAATTGAG
*
2626533 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGAG
2626555 CAGCATATA
1 CAGCATATA
2626564 CATACCAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 27 0.46
23 14 0.24
24 18 0.31
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGAG
Found at i:2626800 original size:69 final size:69
Alignment explanation
Indices: 2626718--2627149 Score: 846
Period size: 69 Copynumber: 6.3 Consensus size: 69
2626708 GGACAGCTTT
* *
2626718 TATATACAACAAATGGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2626783 AGCA
66 AGCA
2626787 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2626852 AGCA
66 AGCA
2626856 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2626921 AGCA
66 AGCA
2626925 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2626990 AGCA
66 AGCA
2626994 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2627059 AGCA
66 AGCA
2627063 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
2627128 AGCA
66 AGCA
2627132 TATATACAGCAAATAGGC
1 TATATACAGCAAATAGGC
2627150 TTAAATATAA
Statistics
Matches: 361, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 361 1.00
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.25
Consensus pattern (69 bp):
TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
AGCA
Found at i:2627954 original size:41 final size:41
Alignment explanation
Indices: 2627909--2628065 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
2627899 TTGTATAAAA
* * * * *
2627909 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
2627950 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
2627991 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
2628032 CACCGGCATAAAGCTTGCTAGGCATAAAGCCTGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
2628066 ACTTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:2628481 original size:28 final size:30
Alignment explanation
Indices: 2628442--2628500 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
2628432 TTTTATTATA
2628442 TTAATATATTTAATTT-ATAA-AACTAACC
1 TTAATATATTTAATTTAATAATAACTAACC
*
2628470 TTAATGAT-TTTACTTTAATAATTAACTAACC
1 TTAAT-ATATTTAATTTAATAA-TAACTAACC
2628501 ATGTCCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 12 0.46
29 6 0.23
31 8 0.31
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAATATATTTAATTTAATAATAACTAACC
Found at i:2634612 original size:44 final size:44
Alignment explanation
Indices: 2634549--2634638 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
2634539 ACACTGTTAG
*
2634549 CCAAATCTCTACTCATCATTTTTTTTCTTTCTCCATTTCCTTTC
1 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
2634593 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
1 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
2634637 CC
1 CC
2634639 TTCTCTTCCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (44 bp):
CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
Found at i:2636323 original size:34 final size:35
Alignment explanation
Indices: 2636274--2636354 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
2636264 CATTGCATAT
* * *
2636274 ACTGATCCTGATACTG-TAATGGGCTAAGGCCCAC
1 ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
* * *
2636308 ACTGATACTGTTACTGTTAAAGGGCTTAGGCCTAG
1 ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
*
2636343 ACTGATTCTGTT
1 ACTGATACTGTT
2636355 TCTATAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 14 0.36
35 25 0.64
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (35 bp):
ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
Found at i:2637275 original size:25 final size:25
Alignment explanation
Indices: 2637223--2637309 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
2637213 AAAGTAAAAG
* *
2637223 AGAAAGAAATAG--AAAAAGAATGAG
1 AGAAAGAAA-AGAAAAAAAGAAGGAA
* *
2637247 AGAAAGAAACA-AAACAGAGAAGGAA
1 AGAAAGAAA-AGAAAAAAAGAAGGAA
2637272 AGAAAGAAAAGAAAAAAAGAAGGAA
1 AGAAAGAAAAGAAAAAAAGAAGGAA
2637297 AGAAGGAGAAAAG
1 AGAA--AGAAAAG
2637310 TTAAGTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.22
25 33 0.65
27 7 0.14
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAAGAAAAAAAGAAGGAA
Found at i:2644428 original size:44 final size:44
Alignment explanation
Indices: 2644365--2644645 Score: 159
Period size: 44 Copynumber: 6.1 Consensus size: 44
2644355 CATCGTGGCC
2644365 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCTACA
* * * * ***
2644409 AATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
2644453 AATCTTATTTCCTTGAAGTTACATTGGAACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-----A
** * * ***
2644502 CGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * *
2644548 AATCTTATTTCTTTGAAGTTGCAGTGGAACAGATTAAAGTGACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----TG--AAGCTACA
** * *
2644599 AATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAGCAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
2644643 AAT
1 AAT
2644646 TCTACACCTC
Statistics
Matches: 171, Mismatches: 51, Indels: 30
0.68 0.20 0.12
Matches are distributed among these distances:
44 102 0.60
45 3 0.02
46 2 0.01
49 2 0.01
50 1 0.01
51 61 0.36
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:2644548 original size:95 final size:95
Alignment explanation
Indices: 2644405--2644637 Score: 351
Period size: 95 Copynumber: 2.5 Consensus size: 95
2644395 AGATTAAGGC
* * *
2644405 TACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTGAATCTTATTTCCTTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
*
2644470 GTTACATTGGAACAGATTAAAGCT-ACAAGT
66 GTTACAGTGGAACAGATTAAAG-TGACAAGT
* ** * *
2644500 TACGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTGAATCTTATTTCTTTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
*
2644565 GTTGCAGTGGAACAGATTAAAGTGACAAGT
66 GTTACAGTGGAACAGATTAAAGTGACAAGT
*
2644595 TACAAATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAG
2644638 CAACAAATTC
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 1 0.01
95 121 0.99
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
GTTACAGTGGAACAGATTAAAGTGACAAGT
Found at i:2644660 original size:95 final size:95
Alignment explanation
Indices: 2644405--2644669 Score: 241
Period size: 95 Copynumber: 2.8 Consensus size: 95
2644395 AGATTAAGGC
** * * * *** **
2644405 TACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTGAATCTTATTTCCT-TGA
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTA-CACCTCTGA
*
2644469 AGTTACATTGGAACAGATTAAAGCTACAAGT
65 AGTTACAGTGGAACAGATTAAAGCTACAAGT
* * *** *** *
2644500 TACGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTGAATCTTATTTCTTTGAA
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTACACCTCTGAA
*
2644565 GTTGCAGTGGAACAGATTAAAG-TGACAAGT
66 GTTACAGTGGAACAGATTAAAGCT-ACAAGT
** *
2644595 TACAAATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAGCA-ACAAAT-TCTACACCTCTG
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAG-ATACAAATCT-TACACCTCTG
*
2644658 AAGTTAGAGTGG
64 AAGTTACAGTGG
2644670 GTTAGAATGA
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
94 6 0.04
95 135 0.95
96 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTACACCTCTGAA
GTTACAGTGGAACAGATTAAAGCTACAAGT
Found at i:2646328 original size:3 final size:3
Alignment explanation
Indices: 2646315--2646375 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
2646305 AAAAAATTAG
* * * *
2646315 ATT ATTT ATT ATT ATT GTT ATT ACT ATT GTT ATT ATT ATC ATT -TT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2646360 CATT ATT ATT ATT ATT
1 -ATT ATT ATT ATT ATT
2646376 TACGCATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2652073 original size:21 final size:22
Alignment explanation
Indices: 2652028--2652073 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2652018 CTGTTTGTGA
*
2652028 AACCTAGTGTGATTTTCTAGTAT
1 AACCTAGTGTAATTTTCTAG-AT
*
2652051 AACCTTGTGTAATTTTCTA-AT
1 AACCTAGTGTAATTTTCTAGAT
2652072 AA
1 AA
2652074 ATAATTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
23 17 0.81
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
AACCTAGTGTAATTTTCTAGAT
Found at i:2658823 original size:21 final size:21
Alignment explanation
Indices: 2658773--2658825 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
2658763 GGGACAGATT
*
2658773 GAATATATATAATTAAGGTTC
1 GAATATTTATAATTAAGGTTC
* *
2658794 AAATAATTTGTAATTAA-GTTCC
1 GAAT-ATTTATAATTAAGGTT-C
2658816 GAATATTTAT
1 GAATATTTAT
2658826 CTGTTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (21 bp):
GAATATTTATAATTAAGGTTC
Found at i:2663526 original size:27 final size:26
Alignment explanation
Indices: 2663495--2663559 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
2663485 AGTAAAACTG
2663495 CCAGTATCAATATATGTGGAAAAGCCA
1 CCAGTAT-AATATATGTGGAAAAGCCA
* **
2663522 CCAGTAAAAATATATGTGGCGAAGCCA
1 CCAGT-ATAATATATGTGGAAAAGCCA
2663549 CCAGTATAATA
1 CCAGTATAATA
2663560 CACTTCCTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (26 bp):
CCAGTATAATATATGTGGAAAAGCCA
Found at i:2674659 original size:56 final size:56
Alignment explanation
Indices: 2674599--2674789 Score: 321
Period size: 56 Copynumber: 3.4 Consensus size: 56
2674589 TCCCAGACAG
* * *
2674599 GGTCTTACTCGCACACATA-AACTGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATC-GGAATCACATATCAATGCCAACGTATTAAACGT
2674655 GGTCTTACTCACACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
2674711 GGTCTTACTCACACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
* *
2674767 GGTCCTACTCGCACACATATATC
1 GGTCTTACTCACACACATATATC
2674790 AATGCCATGG
Statistics
Matches: 129, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
56 127 0.98
57 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
Found at i:2683462 original size:20 final size:20
Alignment explanation
Indices: 2683447--2683486 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2683437 TTATATTATG
2683447 AAATGATGTTGAATATGTAA
1 AAATGATGTTGAATATGTAA
*
2683467 AAATTATGTTGAATATGTAA
1 AAATGATGTTGAATATGTAA
2683487 TTATATGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (20 bp):
AAATGATGTTGAATATGTAA
Found at i:2683490 original size:17 final size:18
Alignment explanation
Indices: 2683443--2683490 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
2683433 TGTCTTATAT
*
2683443 TATG-AAATGATGTTGAA
1 TATGTAAATTATGTTGAA
2683460 TATGTAAAAATTATGTTGAA
1 TATGT--AAATTATGTTGAA
2683480 TATGT-AATTAT
1 TATGTAAATTAT
2683491 ATGAGTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.37
20 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
TATGTAAATTATGTTGAA
Found at i:2689123 original size:68 final size:68
Alignment explanation
Indices: 2689005--2689177 Score: 179
Period size: 68 Copynumber: 2.5 Consensus size: 68
2688995 AAAGAGGTTT
* * * * * *
2689005 AAAGTGTGAGACCATAGCTCGGTTAAGACAACTAATAGAGTTCGCCAGGACATTAGAA-ATTA-G
1 AAAGTGTAAGACCATAGCTCGGATATGACAACCAATAAAGTTCGCCAGGACATTA-AACA-CAGG
2689068 ATTGC
64 ATTGC
* * * **
2689073 AAAGTGTAAGACCATAGCTCAGCTATGACAACCAATAAAGTTTGTTAGGACATTAAACACAGGAT
1 AAAGTGTAAGACCATAGCTCGGATATGACAACCAATAAAGTTCGCCAGGACATTAAACACAGGAT
2689138 TGC
66 TGC
* ** *
2689141 AAGGTGTAAGACTGTAGCTCGGATATGGCAACCAATA
1 AAAGTGTAAGACCATAGCTCGGATATGACAACCAATA
2689178 CAGTCCTCCA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
67 3 0.03
68 84 0.97
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (68 bp):
AAAGTGTAAGACCATAGCTCGGATATGACAACCAATAAAGTTCGCCAGGACATTAAACACAGGAT
TGC
Found at i:2695618 original size:10 final size:10
Alignment explanation
Indices: 2695586--2695619 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2695576 CGTTTTGCCC
2695586 CTTTTTGGCT
1 CTTTTTGGCT
2695596 CGTTTTTGGCT
1 C-TTTTTGGCT
*
2695607 CTTTTTGACT
1 CTTTTTGGCT
2695617 CTT
1 CTT
2695620 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:2705973 original size:23 final size:23
Alignment explanation
Indices: 2705929--2705976 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2705919 GAATAGCCAT
* *
2705929 ATATCGGAAAGTTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
* *
2705952 ATATCGGGAAGCTCCAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
2705975 AT
1 AT
2705977 TAATTAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:2705989 original size:25 final size:24
Alignment explanation
Indices: 2705848--2706000 Score: 73
Period size: 25 Copynumber: 6.2 Consensus size: 24
2705838 CATTTTTATA
2705848 AGAGCCATAATTAGGAAGCT-CATG
1 AGAGCCATAATTAGGAAGCTCCA-G
* * * * *
2705872 CGAGCCAATAA-TGGGTAGCTCGAA
1 AGAGCC-ATAATTAGGAAGCTCCAG
*
2705896 AGAGCCATTAATTAGGAAGCT-CTG
1 AGAGCCA-TAATTAGGAAGCTCCAG
* * * *
2705920 AATAGCCAT-ATATCGGAAAGTTCAAG
1 -AGAGCCATAAT-TAGG-AAGCTCCAG
* **
2705946 CGAGCCAT-ATCGGGAAGCTCCAG
1 AGAGCCATAATTAGGAAGCTCCAG
*
2705969 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCA-TAATTAGGAAGCTC-CAG
2705995 AGAGCC
1 AGAGCC
2706001 TTTAATCGGG
Statistics
Matches: 92, Mismatches: 26, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
23 16 0.17
24 27 0.29
25 40 0.43
26 9 0.10
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (24 bp):
AGAGCCATAATTAGGAAGCTCCAG
Found at i:2706005 original size:26 final size:25
Alignment explanation
Indices: 2705888--2706015 Score: 77
Period size: 25 Copynumber: 5.2 Consensus size: 25
2705878 AATAATGGGT
* *
2705888 AGCTCGAAAGAGCCATTAATTAGGA
1 AGCTCCAAAGAGCCATTAATCAGGA
** *
2705913 AGCTCTGAATAGCCA-TATATC-GGAA
1 AGCTCCAAAGAGCCATTA-ATCAGG-A
* * *
2705938 AG-TTCAAGCGAGCCA-T-ATCGGGA
1 AGCTCCAA-AGAGCCATTAATCAGGA
* *
2705961 AGCTCCAGAGAGCCATTAATTAGGA
1 AGCTCCAAAGAGCCATTAATCAGGA
* *
2705986 AGCTCACAAAGAGCCTTTAATCGGGA
1 AGCTC-CAAAGAGCCATTAATCAGGA
2706012 AGCT
1 AGCT
2706016 TTCGAAGAGC
Statistics
Matches: 77, Mismatches: 18, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
23 12 0.16
24 12 0.16
25 33 0.43
26 20 0.26
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCTCCAAAGAGCCATTAATCAGGA
Found at i:2708338 original size:13 final size:13
Alignment explanation
Indices: 2708320--2708344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2708310 CCAAGAACAA
2708320 GCCTGTGTCCTTG
1 GCCTGTGTCCTTG
2708333 GCCTGTGTCCTT
1 GCCTGTGTCCTT
2708345 TACATGGCCT
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:0.00, C:0.32, G:0.28, T:0.40
Consensus pattern (13 bp):
GCCTGTGTCCTTG
Found at i:2713379 original size:11 final size:11
Alignment explanation
Indices: 2713363--2713393 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2713353 CTGTATGGAG
2713363 CAATACCAATT
1 CAATACCAATT
2713374 CAATACCAATT
1 CAATACCAATT
2713385 CAATACCAA
1 CAATACCAA
2713394 ACTCTATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (11 bp):
CAATACCAATT
Found at i:2734576 original size:23 final size:22
Alignment explanation
Indices: 2734546--2734589 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2734536 ACCTACACAA
2734546 CATAACATAACACCAATTCAAG
1 CATAACATAACACCAATTCAAG
* *
2734568 CATACACATACCACCGATTCAA
1 CATA-ACATAACACCAATTCAA
2734590 CCATGACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (22 bp):
CATAACATAACACCAATTCAAG
Found at i:2735424 original size:42 final size:42
Alignment explanation
Indices: 2735302--2735433 Score: 160
Period size: 42 Copynumber: 3.1 Consensus size: 42
2735292 TTACATGTAA
* * * **
2735302 TCTCGTATCGATGCCAATAGCCCA-ACTATGGTCTTACAAAAAG
1 TCTCATATCGATGTC-ATATCCCAGA-TATGGTCTTACACGAAG
* *
2735345 CCTCATATTGATGTCATATCCCAGATATGGTCTTACACGAAG
1 TCTCATATCGATGTCATATCCCAGATATGGTCTTACACGAAG
2735387 TCTCATATCGATGTCATATCCCAGATATGGTCTTACACGTAA-
1 TCTCATATCGATGTCATATCCCAGATATGGTCTTACACG-AAG
2735429 TCTCA
1 TCTCA
2735434 GTAACCGTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 64 0.82
43 14 0.18
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
TCTCATATCGATGTCATATCCCAGATATGGTCTTACACGAAG
Found at i:2735899 original size:17 final size:17
Alignment explanation
Indices: 2735855--2735890 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2735845 AACCCAAGCC
2735855 TAGCTGAACCATTTTCA
1 TAGCTGAACCATTTTCA
2735872 TAGCTGAACCATTTTCA
1 TAGCTGAACCATTTTCA
2735889 TA
1 TA
2735891 CTTATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGCTGAACCATTTTCA
Found at i:2741693 original size:37 final size:37
Alignment explanation
Indices: 2741652--2741728 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
2741642 TATTTGAAGA
2741652 TCTCAATCTACCCTTAGATTTACTGTGAGGATTTTGT
1 TCTCAATCTACCCTTAGATTTACTGTGAGGATTTTGT
2741689 TCTCAATCTACCCTTAGATTTACTGTGAGGATTTTGT
1 TCTCAATCTACCCTTAGATTTACTGTGAGGATTTTGT
2741726 TCT
1 TCT
2741729 TATGTTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (37 bp):
TCTCAATCTACCCTTAGATTTACTGTGAGGATTTTGT
Found at i:2744509 original size:46 final size:46
Alignment explanation
Indices: 2744459--2744633 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
2744449 TGGTTGAGCA
2744459 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
2744505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
2744551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
2744597 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2744634 GCGGGTTACA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:2754992 original size:46 final size:46
Alignment explanation
Indices: 2754942--2755117 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
2754932 TGGTTGAGCA
2754942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
2754988 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
2755033 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
2755081 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2755118 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:2755098 original size:93 final size:93
Alignment explanation
Indices: 2754939--2755110 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2754929 GGATGGTTGA
* *
2754939 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
2755004 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
2755032 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
2755097 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
2755111 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:2761044 original size:47 final size:46
Alignment explanation
Indices: 2760943--2761251 Score: 185
Period size: 47 Copynumber: 6.7 Consensus size: 46
2760933 ATGCGTGCTA
* * *
2760943 ATGCATGTCCCAGACATGGTCTTACACTAGCACAACTCT-T--AGCCG
1 ATGCATGTCCCAGACA-GGTCTTACACTGGC-TATCTCTGTAAAGCCG
* *
2760988 ATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAAAGCCG
1 ATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCTGT-AAAGCCG
* * * *
2761035 ATGCATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTGT---GTCG
1 ATGCATGTCCCAGACAGGTCTTACACT-G-GCT-ATCTCTGTAAAGCCG
* **
2761081 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-ATAATATGGTTG
1 ATG-CATGTCCCAGACA-GGTCTTACACTGGCTATCTCTGTAA-A--GCCG
* * * * *
2761129 ATGCATGTCCCAGACATGTCTTACACTAGCCATCGTCTG-GATGCCG
1 ATGCATGTCCCAGACAGGTCTTACACTGGCTATC-TCTGTAAAGCCG
* * *
2761175 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT--GGCCG
1 ATG-CATGTCCCAGACA-GGTCTTACACTGGCTATC-T-CTGTAAAGCCG
* *
2761223 AAGCATGTCCC-GACATGTCTTACACTGGC
1 ATGCATGTCCCAGACAGGTCTTACACTGGC
2761252 GCACAAATCA
Statistics
Matches: 210, Mismatches: 31, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 13 0.06
45 28 0.13
46 28 0.13
47 77 0.37
48 39 0.19
49 7 0.03
50 8 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCTGTAAAGCCG
Found at i:2761095 original size:94 final size:93
Alignment explanation
Indices: 2760890--2761248 Score: 391
Period size: 94 Copynumber: 3.8 Consensus size: 93
2760880 GGATATATTA
* **
2760890 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATATGCGTGCTAATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATA-AT-AG-GCCGATGCATGTCCC
*
2760954 AGACATGGTCTTACACTAGCA-CAACTCT-TAG
63 AGACAT-GTCTTACACTAGCACCATCTCTGT-G
* * *
2760985 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTGTCAA-A-GCCGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCTC-AT-AATAGGCCGATGCATGTCCC
*
2761046 AGACATGTCTTACTCTAGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCAC-CATCTCTGTG
* **
2761078 TCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATATGGTTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATAATA-GGCCGATGCATGTCCCAG
2761142 ACATGTCTTACACTAG--CCATCGTCTGGATG
65 ACATGTCTTACACTAGCACCATC-TCT-G-TG
* *
2761172 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGGCCGAAGCATGTCCC-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATAAT-AGGCCGATGCATGTCCCAG
2761235 ACATGTCTTACACT
65 ACATGTCTTACACT
2761249 GGCGCACAAA
Statistics
Matches: 228, Mismatches: 20, Indels: 34
0.81 0.07 0.12
Matches are distributed among these distances:
91 19 0.08
92 25 0.11
93 45 0.20
94 113 0.50
95 23 0.10
96 2 0.01
97 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCTCATAATAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACCATCTCTGTG
Found at i:2761151 original size:141 final size:139
Alignment explanation
Indices: 2760890--2761251 Score: 344
Period size: 141 Copynumber: 2.6 Consensus size: 139
2760880 GGATATATTA
* * * *
2760890 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG-CTAATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATA-ATGTG-GCCGAA-GCATGTCCC
* * * * * ** * *
2760954 AGACATGGTCTTACACTAG--CACA-ACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTG
63 -GACAT-GTCTTACACTGGCTCTCATAAT-ATGGTTGATGCATGTCCCAGACACGTCTTACACTA
*
2761016 GCTATC-TCTGTCAAAG
125 GCCATCGTCTG--AAAG
* * * * *
2761032 CCGATG-CATGTCCCAGACAT-GTCTTACTCTAGCACTCAT-CTCTGTGTCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATGTG-GCCGAAG-CATGTCCC-
*
2761094 GACATGGTCTTACACTGGCTCTCATAATATGGTTGATGCATGTCCCAGACATGTCTTACACTAGC
63 GACAT-GTCTTACACTGGCTCTCATAATATGGTTGATGCATGTCCCAGACACGTCTTACACTAGC
* *
2761159 CATCGTCTGGATG
127 CATCGTCTGAAAG
* *
2761172 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCGAC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATGTGGCCGAAGCATGTCCCGAC
2761237 ATGTCTTACACTGGC
66 ATGTCTTACACTGGC
2761252 GCACAAATCA
Statistics
Matches: 183, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
138 5 0.03
139 41 0.22
140 29 0.16
141 72 0.39
142 33 0.18
143 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (139 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATGTGGCCGAAGCATGTCCCGAC
ATGTCTTACACTGGCTCTCATAATATGGTTGATGCATGTCCCAGACACGTCTTACACTAGCCATC
GTCTGAAAG
Found at i:2761231 original size:188 final size:184
Alignment explanation
Indices: 2760891--2761245 Score: 486
Period size: 188 Copynumber: 1.9 Consensus size: 184
2760881 GATATATTAC
2760891 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTAATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGT-CTAATGCATGTCCCAG
* *
2760956 ACATGGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTAT
65 ACATGGTCTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAT
* *
2761021 CTCTGTCAAAGCCGATGCATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTGTGT
130 CTATGT--AAGCCGAAGCATGTCCC-GACATGTCTTACTCTAGCACTCATCTCTGTGT
*
2761079 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATG-GT-TGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGCGTCTAATGCATGTCCCAG
* *
2761142 ACAT-GTCTTACACTAGC-CATCGTCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
65 ACATGGTCTTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAGACA-CGTCTTACACTG
* *
2761205 GCTCTCATAATGT-GGCCGAAGCATGTCCCGACATGTCTTAC
125 GCTATC-T-ATGTAAGCCGAAGCATGTCCCGACATGTCTTAC
2761246 ACTGGCGCAC
Statistics
Matches: 150, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
184 3 0.02
185 16 0.11
186 19 0.13
187 19 0.13
188 68 0.45
189 21 0.14
190 1 0.01
191 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (184 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTCTAATGCATGTCCCAGA
CATGGTCTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATC
TATGTAAGCCGAAGCATGTCCCGACATGTCTTACTCTAGCACTCATCTCTGTGT
Found at i:2764460 original size:27 final size:27
Alignment explanation
Indices: 2764422--2764481 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
2764412 AGCCTGTAGT
*
2764422 TAGTACTACACATGCGACCTATCCATC
1 TAGTACTACACATGCGACCTATCAATC
2764449 TAGTACTACACATGCGACCTATCAATC
1 TAGTACTACACATGCGACCTATCAATC
*
2764476 TGGTAC
1 TAGTAC
2764482 ACGTAGTACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
TAGTACTACACATGCGACCTATCAATC
Found at i:2764893 original size:19 final size:20
Alignment explanation
Indices: 2764865--2764911 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2764855 AAGAACATGT
2764865 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
2764886 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
2764905 TATATAT
1 TATATAT
2764912 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:2770879 original size:49 final size:47
Alignment explanation
Indices: 2770716--2770901 Score: 300
Period size: 47 Copynumber: 3.9 Consensus size: 47
2770706 GAAATGATAG
*
2770716 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
2770763 TAAGGCATAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
2770810 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * *
2770859 TAAGGCCGAATGGCCAATGTGATAAATGTGAAAGTGTATATAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
2770902 TTTGCACTAA
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 87 0.67
49 43 0.33
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:2770899 original size:94 final size:93
Alignment explanation
Indices: 2770716--2770901 Score: 282
Period size: 96 Copynumber: 2.0 Consensus size: 93
2770706 GAAATGATAG
* * *
2770716 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCAGAATAGCCAAT
*
2770781 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATAAATGTGAAAGTG-ATATATGTGA
* *
2770810 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCAGAATAGCCA
2770875 ATGTGATAAATGTGAAAGTGTATATAT
64 ATGTGATAAATGTGAAAGTG-ATATAT
2770902 TTTGCACTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 35 0.42
96 49 0.58
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (93 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCAGAATAGCCAAT
GTGATAAATGTGAAAGTGATATATGTGA
Found at i:2781529 original size:3 final size:3
Alignment explanation
Indices: 2781521--2781549 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2781511 TTGAATAACT
2781521 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
2781550 GGAGGACGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2782850 original size:3 final size:3
Alignment explanation
Indices: 2782842--2782870 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2782832 TTGAATAACT
2782842 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
2782871 GGAGGACGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2790213 original size:51 final size:53
Alignment explanation
Indices: 2790114--2790231 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 53
2790104 CCGTATCAGT
*
2790114 AACAGTAACAGTAACAGTGACGGTACACAAAGTACCTCATCGAAACAAATCCGA
1 AACAGTAACAGTAACAGTCACGGTA-ACAAAGTACCTCATCGAAACAAATCCGA
* * * *
2790168 AACAGTAACAGTAACAGTCA-GGT-ACAAAGTACCTCTTTGGAACAAATCCGG
1 AACAGTAACAGTAACAGTCACGGTAACAAAGTACCTCATCGAAACAAATCCGA
*
2790219 AACAGTCACAGTA
1 AACAGTAACAGTA
2790232 GTCAACACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 36 0.62
53 3 0.05
54 19 0.33
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTCACGGTAACAAAGTACCTCATCGAAACAAATCCGA
Found at i:2790540 original size:8 final size:9
Alignment explanation
Indices: 2790527--2790565 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
2790517 TATTCAATTC
2790527 AATACT-AT
1 AATACTAAT
2790535 AATACTAAT
1 AATACTAAT
*
2790544 AATAATAAT
1 AATACTAAT
*
2790553 AATAATAAT
1 AATACTAAT
2790562 AATA
1 AATA
2790566 ATACTTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 6 0.21
9 23 0.79
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (9 bp):
AATACTAAT
Found at i:2790548 original size:3 final size:3
Alignment explanation
Indices: 2790533--2790568 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2790523 ATTCAATACT
*
2790533 ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2790569 CTTACCATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2791248 original size:22 final size:21
Alignment explanation
Indices: 2791223--2791263 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2791213 TCCCCTGTTC
*
2791223 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
2791245 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
2791264 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:2795597 original size:15 final size:15
Alignment explanation
Indices: 2795577--2795608 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2795567 CGCATCACTC
2795577 AAGTATGGTTCGATT
1 AAGTATGGTTCGATT
2795592 AAGTATGGTTCGATT
1 AAGTATGGTTCGATT
2795607 AA
1 AA
2795609 AGATTATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (15 bp):
AAGTATGGTTCGATT
Found at i:2795948 original size:11 final size:11
Alignment explanation
Indices: 2795903--2795940 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2795893 GAGTGAACTA
*
2795903 AGAGAATTGAG
1 AGAGAATTAAG
2795914 TA-AGAATTAAG
1 -AGAGAATTAAG
2795925 AGAGAATTAAG
1 AGAGAATTAAG
2795936 AGAGA
1 AGAGA
2795941 GTTGAGAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (11 bp):
AGAGAATTAAG
Found at i:2799910 original size:108 final size:108
Alignment explanation
Indices: 2799790--2799990 Score: 366
Period size: 108 Copynumber: 1.9 Consensus size: 108
2799780 AAAAAACACG
* *
2799790 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
2799855 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
2799898 TCAAAAAATTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
* *
2799963 AAAACTTATTCTAACTTAAGATATCATT
66 AAAACTTATTCCAACTTAACATATCATT
2799991 TTAAAAAAAC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (108 bp):
TCAAAAAATTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:2804448 original size:22 final size:22
Alignment explanation
Indices: 2804420--2804495 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
2804410 CGTAGTAATT
2804420 AGTAGGCACTGTAGTGTAGAAC
1 AGTAGGCACTGTAGTGTAGAAC
* * *
2804442 AGTAGGCACCGTAGTGCAAAAC
1 AGTAGGCACTGTAGTGTAGAAC
* *
2804464 AGTAGGCA-TCGAAATGTAGAAC
1 AGTAGGCACT-GTAGTGTAGAAC
*
2804486 AGTAAGCACT
1 AGTAGGCACT
2804496 AAAATGCAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
22 42 0.98
23 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (22 bp):
AGTAGGCACTGTAGTGTAGAAC
Found at i:2806830 original size:9 final size:9
Alignment explanation
Indices: 2806786--2806946 Score: 71
Period size: 10 Copynumber: 16.7 Consensus size: 9
2806776 TATTTAAATC
2806786 TAAAAATTA
1 TAAAAATTA
*
2806795 TTAATATATTA
1 -TAA-AAATTA
2806806 TAATAAAATT-
1 T-A-AAAATTA
2806816 TAAAAATTA
1 TAAAAATTA
2806825 TAAAAATGATA
1 TAAAAAT--TA
* *
2806836 GAAAAACTA
1 TAAAAATTA
2806845 T-AAAATT-
1 TAAAAATTA
*
2806852 TAATTAACTTA
1 TAA--AAATTA
2806863 TAAAATATTA
1 TAAAA-ATTA
2806873 TGAAAAA-TA
1 T-AAAAATTA
2806882 TGAAATAATTA
1 T-AAA-AATTA
2806893 TAAAAACTT-
1 TAAAAA-TTA
** *
2806902 TAAATTTTT
1 TAAAAATTA
*
2806911 TATAAATTATA
1 TA-AAAAT-TA
2806922 TAAAAATTA
1 TAAAAATTA
2806931 TTAAAAATTA
1 -TAAAAATTA
2806941 TAAAAA
1 TAAAAA
2806947 CAAATAAAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 39
0.70 0.08 0.23
Matches are distributed among these distances:
7 1 0.01
8 14 0.12
9 35 0.29
10 38 0.32
11 30 0.25
12 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
TAAAAATTA
Found at i:2806942 original size:19 final size:19
Alignment explanation
Indices: 2806786--2806946 Score: 84
Period size: 20 Copynumber: 8.3 Consensus size: 19
2806776 TATTTAAATC
*
2806786 TAAAAATTATTAATATATTA
1 TAAAAATTATTAA-AAATTA
*
2806806 TAATAAAAT-TTAAAAATTA
1 TAA-AAATTATTAAAAATTA
* * *
2806825 TAAAAATGATAGAAAAACTA
1 TAAAAATTAT-TAAAAATTA
* *
2806845 TAAAATTTAATT--AACTTA
1 TAAAAATT-ATTAAAAATTA
*
2806863 TAAAATATTATGAAAAA-TA
1 TAAAA-ATTATTAAAAATTA
2806882 TGAAATAATTA-TAAAAACTT-
1 T-AAA-AATTATTAAAAA-TTA
* * *
2806902 T-AAATTTTTTATAAATTATA
1 TAAAAATTATTA-AAAAT-TA
2806922 TAAAAATTATTAAAAATTA
1 TAAAAATTATTAAAAATTA
2806941 TAAAAA
1 TAAAAA
2806947 CAAATAAAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 33
0.66 0.13 0.21
Matches are distributed among these distances:
17 3 0.03
18 19 0.18
19 31 0.30
20 35 0.34
21 16 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAATTATTAAAAATTA
Found at i:2809310 original size:21 final size:21
Alignment explanation
Indices: 2809284--2809325 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2809274 TTAGATGACG
2809284 TGAAATCATAGGTACCAAACA
1 TGAAATCATAGGTACCAAACA
2809305 TGAAATCATAGGTACCAAACA
1 TGAAATCATAGGTACCAAACA
2809326 GAGAGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (21 bp):
TGAAATCATAGGTACCAAACA
Found at i:2824564 original size:55 final size:55
Alignment explanation
Indices: 2824422--2824564 Score: 173
Period size: 55 Copynumber: 2.6 Consensus size: 55
2824412 TGCGACATGG
** * * *
2824422 CCATGGTCGAACCTGCCAAAACAACACGGGCGCGCAACACGCCCGTATAGAAGAT
1 CCATGGTCGAACCTGTTAAAACAACACGGGCGTGCAACACGCCCGTATACAAGAC
* *
2824477 CCATGGGT-GAACCTGTTAAAACAGCACGGGCGTGCAACACGCCCGTAT-CTAGTAC
1 CCAT-GGTCGAACCTGTTAAAACAACACGGGCGTGCAACACGCCCGTATACAAG-AC
**
2824532 CCATGGTCGAACCTGTTAAATTAACACGGGCGT
1 CCATGGTCGAACCTGTTAAAACAACACGGGCGT
2824565 AGACCTTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
54 5 0.07
55 67 0.89
56 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (55 bp):
CCATGGTCGAACCTGTTAAAACAACACGGGCGTGCAACACGCCCGTATACAAGAC
Found at i:2830387 original size:40 final size:40
Alignment explanation
Indices: 2830343--2830534 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
2830333 GAGTTACTAA
*
2830343 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
2830383 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
*
2830423 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
* * * *
2830463 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
** * ** *
2830503 ATCCATGCTAAATCTTGAAGAGCAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
2830535 GGTGACGTGT
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
Found at i:2830495 original size:80 final size:80
Alignment explanation
Indices: 2830264--2830539 Score: 297
Period size: 80 Copynumber: 3.5 Consensus size: 80
2830254 TCGAATGATG
** ** * *
2830264 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
* * * *
2830326 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* * *
2830344 TCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
* * *
2830409 CATGCTAGCGATGTA
66 CGTGCTAGTGATATA
2830424 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
2830489 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
** * ** * *
2830504 TCCATGCTAAATCTTGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
2830540 CGTGTATTCA
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 141 0.86
81 17 0.10
82 6 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:2835204 original size:47 final size:47
Alignment explanation
Indices: 2834227--2835168 Score: 1812
Period size: 47 Copynumber: 20.0 Consensus size: 47
2834217 GAAATGATAG
* *
2834227 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
*
2834276 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834323 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834370 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834417 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834464 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834511 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834558 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834605 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834652 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834699 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834746 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834793 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834840 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834887 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834934 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2834981 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2835028 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
2835075 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
2835122 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
2835169 CGGGGCCAAG
Statistics
Matches: 889, Mismatches: 4, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
47 853 0.96
49 36 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:2835361 original size:113 final size:113
Alignment explanation
Indices: 2835163--2835387 Score: 432
Period size: 113 Copynumber: 2.0 Consensus size: 113
2835153 AAGTGTATAT
2835163 ATGTGACGGGGCCAAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAG
1 ATGTGACGGGGCCAAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAG
2835228 GGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTAG
66 GGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTAG
* *
2835276 ATGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCGCGAAG
1 ATGTGACGGGGCCAAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAG
2835341 GGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTA
66 GGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTA
2835388 TGCGAGAATA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (113 bp):
ATGTGACGGGGCCAAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAG
GGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTAG
Found at i:2835508 original size:38 final size:37
Alignment explanation
Indices: 2835451--2835530 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 37
2835441 CCGAGCTCTA
* *
2835451 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
2835489 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
2835526 AAGAC
1 AAGAC
2835531 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 16 0.42
38 21 0.55
39 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:2835530 original size:37 final size:38
Alignment explanation
Indices: 2835451--2835530 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
2835441 CCGAGCTCTA
* *
2835451 AAGACCCGATGACTACGTGTGGGAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTTATGTCCGGGT
*
2835489 AAGACCCGATAACTTCGTGT-GGAGA-TTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTTATGTCCGGGT
2835526 AAGAC
1 AAGAC
2835531 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGGAATTTATGTCCGGGT
Found at i:2844195 original size:29 final size:29
Alignment explanation
Indices: 2844159--2844216 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2844149 AATTTGTTAA
*
2844159 GCATGCATGGATATCCATATTTTTAAATG
1 GCATGCATGCATATCCATATTTTTAAATG
*
2844188 GCATGCATGCATATCCATCTTTTTAAATG
1 GCATGCATGCATATCCATATTTTTAAATG
2844217 TGGGTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (29 bp):
GCATGCATGCATATCCATATTTTTAAATG
Done.