Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1248949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:764930 original size:278 final size:276
Alignment explanation
Indices: 764294--765228 Score: 1270
Period size: 278 Copynumber: 3.4 Consensus size: 276
764284 ACTTTAGGCC
* * * *
764294 TAATTTCAAACTTAGTCATTAAA-TCAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTTGAGGT
1 TAATTTCACACTTAGTCCTTAAATTTAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTCGAGGT
* * *
764358 TCCATTTTAATTATTTGAATCAAATAATTGGATAAAATTGACTAGGTTAATAATTAGAGCCTCCA
66 TCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATAATTAGAGCCTCTA
* *
764423 TTTTAGGCTTAATTTCAAATTAAGTCCTTAAATTAGGGGAATTTTTTAATTTGTTCATCGCTTTT
131 TTTTAGGCTTAATTTCAAATTAAGTCCTTAAATTAGGGGAA-TTTTTAATTTG-TCCTC-ATTTT
* * *
764488 GA-TCGAAGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGATTAATTTTT
193 TATTCGAGGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATTTTT
*
764552 TAGAGCCTCCATTTTATGCT
258 TAGAGCCTCCATTTTA-GGT
* * * * * *
764572 TAATTTAACACTTAGTCCTTAAATTTATGGAAAATTTTAATTTGGTCATCGCTTTTGTTTGAGGT
1 TAATTTCACACTTAGTCCTTAAATTTAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTCGAGGT
* *
764637 TCCATTTTTATTATTCGAATCAAATAATTGGTTAAAATTGATTAGGTTAATAATTAGAGCCTCTA
66 TCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATAATTAGAGCCTCTA
* *
764702 TTTGAGGCTTAATTTCAAATTAAGTCCTTCAATTAGGGGAATTTTTAATTTAGTCCTCATTTTTA
131 TTTTAGGCTTAATTTCAAATTAAGTCCTTAAATTAGGGGAATTTTTAATTT-GTCCTCATTTTTA
* * * * *
764767 TTCTAGGTTTCATTTTAATTATTTGAATCAAATAGTTGGTAAAAATTGACTAGGTTAATTTTTTA
195 TTCGAGGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATTTTTTA
*
764832 GAGCCTCAATTTTAGGTT
260 GAGCCTCCATTTTAGG-T
* * * ** *
764850 TAATTTCACACTTAGTCCTTAAATTTAGGGTAATTTTTAATTTGATCCTCAATTTTGCTCGAGAT
1 TAATTTCACACTTAGTCCTTAAATTTAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTCGAGGT
* * *
764915 TTCATTTTAATTATTCGAATCAAATAATCGTTTAAAATTGACTAGGTTAATAATTAGAGCCTCTA
66 TCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATAATTAGAGCCTCTA
* * * * *
764980 TTTTAGGTTTAATTTTAAGATTAGGTCCTTAAATTAAGGGAATTTTTAATTGGTCCTCATTTTT-
131 TTTTAGGCTTAATTTCAA-ATTAAGTCCTTAAATTAGGGGAATTTTTAATTTGTCCTCATTTTTA
* *
765044 TCTCGAGATTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTATTTTTTT
195 T-TCGAGGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATTTTTT
* *
765109 AGAGCTTCCATTTTAGGC
259 AGAGCCTCCATTTTAGGT
* * * * *
765127 T--TTTCA-AATTAGATTCTTAAATTTAGGGGAATTTTGAATTTTGTCTTCGCTTTTGCTCGAGG
1 TAATTTCACACTTAG-TCCTTAAATTTAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTCGAGG
*
765189 TTCCATTTTAATTATTCGAATCAAATAATTTGTTAAAATT
65 TTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATT
765229 AATTAGGATA
Statistics
Matches: 576, Mismatches: 74, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
274 5 0.01
275 81 0.14
277 8 0.01
278 317 0.55
279 165 0.29
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (276 bp):
TAATTTCACACTTAGTCCTTAAATTTAGGGGAATTTTTAATTTGGTCATCGCTTTTGCTCGAGGT
TCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATAATTAGAGCCTCTA
TTTTAGGCTTAATTTCAAATTAAGTCCTTAAATTAGGGGAATTTTTAATTTGTCCTCATTTTTAT
TCGAGGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATTGACTAGGTTAATTTTTTAG
AGCCTCCATTTTAGGT
Found at i:772556 original size:22 final size:21
Alignment explanation
Indices: 772514--772553 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
772504 AAAACTATTT
772514 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
772535 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
772554 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:773828 original size:3 final size:3
Alignment explanation
Indices: 773820--773938 Score: 139
Period size: 3 Copynumber: 39.0 Consensus size: 3
773810 TTTTTTCATT
** **
773820 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA AAA TTA TTA AAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** ** *
773868 TTA TTA TTA AAA TTA TTA AAA TTA TTA TTTA TTA ATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
773915 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
773939 AATAAATAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
3 90 0.94
4 6 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:775083 original size:22 final size:21
Alignment explanation
Indices: 775058--775098 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
775048 TAGTTTGATA
*
775058 ATTTTTATTTAATATATTTTGC
1 ATTTTAATTTAATA-ATTTTGC
*
775080 ATTTTAATTTTATAATTTT
1 ATTTTAATTTAATAATTTT
775099 AATTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTAATTTAATAATTTTGC
Found at i:775182 original size:12 final size:12
Alignment explanation
Indices: 775117--775184 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
775107 TTATTTTTAT
* *
775117 TTATTTACAATA
1 TTATTTTCATTA
775129 TTATTTT-ATTA
1 TTATTTTCATTA
*
775140 TTACTTTTGA-TA
1 TTA-TTTTCATTA
**
775152 -TATTTAAATTA
1 TTATTTTCATTA
*
775163 TTACTTTCATTA
1 TTATTTTCATTA
775175 TTATTTTCAT
1 TTATTTTCAT
775185 CTTAGTCATA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
10 4 0.09
11 10 0.23
12 29 0.66
13 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (12 bp):
TTATTTTCATTA
Found at i:783204 original size:75 final size:75
Alignment explanation
Indices: 783116--783288 Score: 213
Period size: 75 Copynumber: 2.3 Consensus size: 75
783106 TCAACAAAAA
* **
783116 AGCAAATGTTGGGGCATGTTGAAAACCCATTTCAATCAGAAAT-TGGAATATTAACGCATTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAG-AATCAAGAATATTAACGCATTTTGA
**
783180 ACGTTTGTATC
65 ACGCCTGTATC
* * * * * ***
783191 AGTAAATGTTGGGGCATGCTGAAAGCCCCTTTCAATTAGAATCAAGAATGTTGGTGCATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAGAATCAAGAATATTAACGCATTTTGAA
783256 CGCCTGTATC
66 CGCCTGTATC
783266 AGCAAATGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
783289 GGCCCATATC
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 3 0.04
75 80 0.96
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAGAATCAAGAATATTAACGCATTTTGAA
CGCCTGTATC
Found at i:784230 original size:54 final size:54
Alignment explanation
Indices: 784161--784314 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 54
784151 ACATCTGTGT
* *
784161 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACAT-TTGGGC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTT-AGC
*
784215 AGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTATGAACATCTTAGC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTTAGC
* * * * * *
784269 AGAAACCACATGAGATGATGAATGTGTTATTAAATGTTTTATGAAC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAAC
784315 CAGTTATTCT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 87 0.98
55 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (54 bp):
AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTTAGC
Found at i:784668 original size:22 final size:21
Alignment explanation
Indices: 784640--784715 Score: 118
Period size: 22 Copynumber: 3.6 Consensus size: 21
784630 TACATCTACA
784640 CTCTTCAAAGATGATAGATTAT
1 CTCTTCAAAGATGATAGATT-T
784662 CTCTTCAAAGATGATAGA-TT
1 CTCTTCAAAGATGATAGATTT
784682 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATT-T
*
784704 CTTTTCAAAGAT
1 CTCTTCAAAGAT
784716 AAAAACTTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 19 0.37
21 2 0.04
22 30 0.59
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (21 bp):
CTCTTCAAAGATGATAGATTT
Found at i:784686 original size:20 final size:20
Alignment explanation
Indices: 784640--784706 Score: 116
Period size: 20 Copynumber: 3.2 Consensus size: 20
784630 TACATCTACA
784640 CTCTTCAAAGATGATAGATTAT
1 CTCTTCAAAGATGATAGA-T-T
784662 CTCTTCAAAGATGATAGATT
1 CTCTTCAAAGATGATAGATT
784682 CTCTTCAAAGATGATAGATT
1 CTCTTCAAAGATGATAGATT
784702 CTCTT
1 CTCTT
784707 TTCAAAGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 26 0.58
21 1 0.02
22 18 0.40
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (20 bp):
CTCTTCAAAGATGATAGATT
Found at i:785460 original size:45 final size:45
Alignment explanation
Indices: 785393--785866 Score: 623
Period size: 45 Copynumber: 10.6 Consensus size: 45
785383 CTATTTCCCA
* * * *
785393 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTCGGAT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
785438 TATCTGTAAGCCCTACAATGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
785483 CATTTGTAAGCCCTTCAGTGCATGATG-TTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
785527 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
785572 CATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAATCTTCGAGT
1 CATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
785617 CATCTATAAGCCCTTCAGTGCATGATG-TTTCAAAGCCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
785661 CATCTATAAGCCCTTCAGTGCATGATG-TTTCAAAGCCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
785705 CATCTGTAAGCCCTACAGTGCATGATATTTTCAAAACCTTCGTGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* ** *
785750 TATCTGTAAAACCTTCAGTGCATGATGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
785795 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * * *
785840 TATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
785867 ATAAGACCTT
Statistics
Matches: 383, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
44 121 0.32
45 261 0.68
46 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:785549 original size:89 final size:89
Alignment explanation
Indices: 785393--785866 Score: 628
Period size: 89 Copynumber: 5.3 Consensus size: 89
785383 CTATTTCCCA
* * * * *
785393 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTCGGATTATCTGTAAGCCCTACAATG
1 CATCTGTAAGACCTTCAGTGCATGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTG
785458 CATGATGTTTTCAAAACCTTCGGGT
65 CATGATGTTTTCAAAACCTTCGGGT
* * *
785483 CATTTGTAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTTAGTGC
1 CATCTGTAAGACCTTCAGTGCATGATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
*
785548 ATGATGTTTTCAAAGCCTTCGGGT
66 ATGATGTTTTCAAAACCTTCGGGT
* ** * *
785572 CATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAATCTTCGAGTCATCTATAAGCCCTTCAGT
1 CATCTGTAAGACCT-TCAGTGCATGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
* *
785636 GCATGATG-TTTCAAAGCCTTTGGGT
64 GCATGATGTTTTCAAAACCTTCGGGT
* * * *
785661 CATCTATAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTACAGTGC
1 CATCTGTAAGACCTTCAGTGCATGATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* *
785726 ATGATATTTTCAAAACCTTCGTGT
66 ATGATGTTTTCAAAACCTTCGGGT
* * * *
785750 TATCTGTAAAACCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTT-TCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTG
*
785815 CATGATGTTTTCAAAACCTTTGGGT
65 CATGATGTTTTCAAAACCTTCGGGT
* * *
785840 TATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGACCTTCAGTGCATGATG
785867 ATAAGACCTT
Statistics
Matches: 338, Mismatches: 41, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
88 38 0.11
89 159 0.47
90 141 0.42
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (89 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
ATGATGTTTTCAAAACCTTCGGGT
Found at i:785633 original size:134 final size:134
Alignment explanation
Indices: 785393--785866 Score: 698
Period size: 134 Copynumber: 3.5 Consensus size: 134
785383 CTATTTCCCA
* * * *
785393 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAGCCTTCGGATTATCTGTAAGCCCTACAATG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTG
* *
785458 CATGATGTTTTCAAAACCTTCGGGTCATTTGTAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTC
66 CATGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTC
785523 GGGT
131 GGGT
* * *
785527 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTATAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTG
* * *
785592 CATGATGTTTTCAAAATCTTCGAGTCATCTATAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTT
66 CATGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTC
785657 GGGT
131 GGGT
* * *
785661 CATCTATAAGCCCTTCAGTGCATGATG-TTTCAAAGCCTTCAGGTCATCTGTAAGCCCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTG
* * * ** *
785725 CATGATATTTTCAAAACCTTCGTGTTATCTGTAAAACCTTCAGTGCATGATGTTATCAAAACCTT
66 CATGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTT-TCAAAGCCTT
785790 CGGGT
130 CGGGT
* * * *
785795 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGGGTTATCTGTAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTG
*
785860 CAAGATG
66 CATGATG
785867 ATAAGACCTT
Statistics
Matches: 304, Mismatches: 34, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
133 82 0.27
134 185 0.61
135 37 0.12
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (134 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTG
CATGATGTTTTCAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCAAAGCCTTC
GGGT
Found at i:785788 original size:25 final size:24
Alignment explanation
Indices: 785672--785834 Score: 75
Period size: 20 Copynumber: 7.2 Consensus size: 24
785662 ATCTATAAGC
*
785672 CCTTCAGTGCATGATGTTTCAAAG
1 CCTTCAGTGCATGATGTTTCAAAA
* **
785696 CCTTCAG-GTCAT-CTG--T-AAGC
1 CCTTCAGTG-CATGATGTTTCAAAA
* *
785716 CCTACAGTGCATGATATTTTCAAAA
1 CCTTCAGTGCATGAT-GTTTCAAAA
* * *
785741 CCTTC-GTG--TTATCTGT-AAAA
1 CCTTCAGTGCATGATGTTTCAAAA
785761 CCTTCAGTGCATGATGTTATCAAAA
1 CCTTCAGTGCATGATGTT-TCAAAA
* * *
785786 CCTTC-GGGTCAT-CTG--T-AAGA
1 CCTTCAGTG-CATGATGTTTCAAAA
785806 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATG-TTTCAAAA
785831 CCTT
1 CCTT
785835 TGGGTTATCT
Statistics
Matches: 99, Mismatches: 21, Indels: 37
0.63 0.13 0.24
Matches are distributed among these distances:
20 31 0.31
21 13 0.13
22 3 0.03
23 7 0.07
24 20 0.20
25 25 0.25
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (24 bp):
CCTTCAGTGCATGATGTTTCAAAA
Found at i:786163 original size:3 final size:3
Alignment explanation
Indices: 786155--786196 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
786145 ATTTTTCATT
**
786155 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
786197 AATAAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:787619 original size:17 final size:19
Alignment explanation
Indices: 787599--787640 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
787589 TTTAGGAAAA
787599 AATATTATA-TTA-TTATT
1 AATATTATATTTATTTATT
787616 AATATT-TATTTATTTATT
1 AATATTATATTTATTTATT
*
787634 ATTATTA
1 AATATTA
787641 AAGAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATATTATATTTATTTATT
Found at i:787922 original size:101 final size:102
Alignment explanation
Indices: 787667--787900 Score: 251
Period size: 102 Copynumber: 2.3 Consensus size: 102
787657 CACGAACAAT
* ** * *
787667 CTATATGGCA-ACAT-CCATTCTAGTTCAAGGGGAAGACAT-TCATCAACCAACTTCTTCGATCT
1 CTATATGGCACA-ATGCC-TTCAAGTTCAAGGGGAAGACATGT-ATCCGCAAACTTCTTCGAACT
** * * *
787729 CAACATGGAAATGTTATCAACACAATAGTCTGTTCAATAC
63 CAACATGGAAATGCCATCAACACAACAATCTGTTCAAAAC
* * * *
787769 CTATATGGCACTATGCCTTCAAGTTCAAGGGGAAGACATTTATCCGCCAACTTCTTTGAACTCAA
1 CTATATGGCACAATGCCTTCAAGTTCAAGGGGAAGACATGTATCCGCAAACTTCTTCGAACTCAA
* *
787834 CATGG-AATGCCATCGACACAACAATCTTTTCAAAAC
66 CATGGAAATGCCATCAACACAACAATCTGTTCAAAAC
* *
787870 CTATATGGCACAATGGCTTTAAGTTCAAGGG
1 CTATATGGCACAATGCCTTCAAGTTCAAGGG
787901 AACCGCATGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
101 52 0.46
102 58 0.51
103 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (102 bp):
CTATATGGCACAATGCCTTCAAGTTCAAGGGGAAGACATGTATCCGCAAACTTCTTCGAACTCAA
CATGGAAATGCCATCAACACAACAATCTGTTCAAAAC
Found at i:793107 original size:21 final size:20
Alignment explanation
Indices: 793082--793120 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
793072 TATCAAGGTC
*
793082 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
793103 TTTGTCGATGCCATAAAT
1 TTTGTCGAAGCCATAAAT
793121 TCATGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:803979 original size:9 final size:9
Alignment explanation
Indices: 803965--804013 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
803955 AGGGCTGGAA
803965 ACCGGTTTG
1 ACCGGTTTG
803974 ACCGGTTTG
1 ACCGGTTTG
* *
803983 ATCGGTCTG
1 ACCGGTTTG
*
803992 AATCGGTTTG
1 -ACCGGTTTG
*
804002 ACCGGTCTG
1 ACCGGTTTG
804011 ACC
1 ACC
804014 CGACCCGACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:804025 original size:14 final size:14
Alignment explanation
Indices: 804008--804036 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
803998 TTTGACCGGT
804008 CTGACCCGACCCGA
1 CTGACCCGACCCGA
804022 CTGACCCGACCCGA
1 CTGACCCGACCCGA
804036 C
1 C
804037 CGTTGACCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (14 bp):
CTGACCCGACCCGA
Found at i:811188 original size:19 final size:19
Alignment explanation
Indices: 811166--811203 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
811156 ACCAGTTTCG
*
811166 ACCGGTTTGATCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
811185 ACCGGTTTGACCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
811204 CCCGACCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTGA
Found at i:811197 original size:9 final size:9
Alignment explanation
Indices: 811147--811205 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
811137 AGGGCTGGAA
*
811147 ACCGATTTG
1 ACCGGTTTG
*
811156 ACCAGTTTCG
1 ACCGGTTT-G
811166 ACCGGTTTG
1 ACCGGTTTG
* *
811175 ATCGGTCTG
1 ACCGGTTTG
811184 AACCGGTTTG
1 -ACCGGTTTG
*
811194 ACCGGTCTG
1 ACCGGTTTG
811203 ACC
1 ACC
811206 CGACCCGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 25 0.62
10 15 0.38
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:818370 original size:9 final size:9
Alignment explanation
Indices: 818356--818404 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
818346 AGGGCTGGAA
818356 ACCGGTTTG
1 ACCGGTTTG
818365 ACCGGTTTG
1 ACCGGTTTG
* * *
818374 ATCTGTCTG
1 ACCGGTTTG
818383 AACCGGTTTG
1 -ACCGGTTTG
*
818393 ACCGGTCTG
1 ACCGGTTTG
818402 ACC
1 ACC
818405 CGACCCGACT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:818400 original size:19 final size:19
Alignment explanation
Indices: 818356--818402 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
818346 AGGGCTGGAA
*
818356 ACCGGTTTG-ACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
* *
818374 ATCTGTCTGAACCGGTTTG
1 ACCGGTCTGAACCGGTTTG
818393 ACCGGTCTGA
1 ACCGGTCTGA
818403 CCCGACCCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (19 bp):
ACCGGTCTGAACCGGTTTG
Found at i:818416 original size:14 final size:14
Alignment explanation
Indices: 818399--818427 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
818389 TTTGACCGGT
818399 CTGACCCGACCCGA
1 CTGACCCGACCCGA
818413 CTGACCCGACCCGA
1 CTGACCCGACCCGA
818427 C
1 C
818428 CGTTGACCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (14 bp):
CTGACCCGACCCGA
Found at i:820409 original size:18 final size:16
Alignment explanation
Indices: 820401--820430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
820391 CAAGATATCC
820401 TCAAATATCAACATAT
1 TCAAATATCAACATAT
820417 TCAAATATC-ACATA
1 TCAAATATCAACATA
820431 ATAGTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TCAAATATCAACATAT
Found at i:829298 original size:20 final size:22
Alignment explanation
Indices: 829226--829281 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
829216 CACTAGACAA
829226 TGCATCGATGCATCCTTGAATG
1 TGCATCGATGCATCCTTGAATG
829248 TGCATCGATGCATCCTTGAATG
1 TGCATCGATGCATCCTTGAATG
829270 TGCATCGATGCA
1 TGCATCGATGCA
829282 CTCTGTTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:831599 original size:14 final size:17
Alignment explanation
Indices: 831575--831610 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
831565 AGTAATTTTC
831575 AAAATTGA-TTTCAAA-
1 AAAATTGATTTTCAAAG
831590 AAAATT-ATTTTCAAAG
1 AAAATTGATTTTCAAAG
831606 AAAAT
1 AAAAT
831611 CTAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 13 0.68
16 5 0.26
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAATTGATTTTCAAAG
Found at i:834764 original size:4 final size:4
Alignment explanation
Indices: 834755--834788 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
834745 ACATTATATT
834755 GATG GATG GATG GATG GATG GATG GATG GATG GA
1 GATG GATG GATG GATG GATG GATG GATG GATG GA
834789 GTGGGTGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.50, T:0.24
Consensus pattern (4 bp):
GATG
Found at i:838414 original size:195 final size:198
Alignment explanation
Indices: 838068--838470 Score: 444
Period size: 196 Copynumber: 2.1 Consensus size: 198
838058 TGCTTAAATG
* * * * *
838068 GAGGA-AATACCCTTGAGTGGGATGGTAAAGGATGCCTCAAAGGTAACTCACGATTCTTCAGTTA
1 GAGGATAATAACCTTAAGTGAGATGGTAAAGGATGCCTCAAAGGTAACTCACGATTCTACAATTA
* * * * * *
838132 ACTGGTAGAGGTATCTCGACTCTTTTGACTAGAGAGGAGGTAGTTCAACTTATTATGGGAAAGTC
66 ACTGGGAGAGATATCTCGACTCTTTTGACAAGAGAAGAGGCAATTCAACTTATTATGGGAAAGTC
* * ** *
838197 CAAACAATGAACAGAGGCATCTTCATGCTAAT-AAAGGGATAGGAGCATCTCAACACTTGTAAAA
131 CAAACAATGAACAAAGGCATCTTCATGCCAATAAAAGGGATAAAAGCATCCCAACACTTGTAAAA
838261 GCG-
196 G-GA
* * * *
838264 TAGGATAATAACCTTAAGTGAGATGGTAAAGGATGCCTCAGAGGTAAGTCGC-AGTTCTACAATT
1 GAGGATAATAACCTTAAGTGAGATGGTAAAGGATGCCTCAAAGGTAACTCACGA-TTCTACAATT
* * * * *
838328 AAC-GGGGGATATATCTCTACTCTTTTG-CAAGAGAATAGGCAATTCAA-TGTATTCTGAGG-AA
65 AACTGGGAGAGATATCTCGACTCTTTTGACAAGAGAAGAGGCAATTCAACT-TATTATG-GGAAA
* * * *
838389 GTCCAAACAATGAGCAAATGCATCTTTATGCCAATAAAAGGGATAAAAGCATCCCATCACTTGTA
128 GTCCAAACAATGAACAAAGGCATCTTCATGCCAATAAAAGGGATAAAAGCATCCCAACACTTGTA
*
838454 GAAGGA
193 AAAGGA
838460 GAGGATAATAA
1 GAGGATAATAA
838471 TCTAAAAGAT
Statistics
Matches: 170, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
194 1 0.01
195 54 0.32
196 64 0.38
197 51 0.30
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (198 bp):
GAGGATAATAACCTTAAGTGAGATGGTAAAGGATGCCTCAAAGGTAACTCACGATTCTACAATTA
ACTGGGAGAGATATCTCGACTCTTTTGACAAGAGAAGAGGCAATTCAACTTATTATGGGAAAGTC
CAAACAATGAACAAAGGCATCTTCATGCCAATAAAAGGGATAAAAGCATCCCAACACTTGTAAAA
GGA
Found at i:839898 original size:13 final size:13
Alignment explanation
Indices: 839880--839904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
839870 TTACTTTACC
839880 TTTATATATTTTT
1 TTTATATATTTTT
839893 TTTATATATTTT
1 TTTATATATTTT
839905 ACCCCGTATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATATATTTTT
Found at i:841463 original size:105 final size:104
Alignment explanation
Indices: 841226--841644 Score: 521
Period size: 105 Copynumber: 4.0 Consensus size: 104
841216 AACCTCCCTC
* * * * *
841226 GGAGGGCATTACAGTTTAAATTAGCTTTATTTCTTCTGTAGCAGTATTGGCTATTTTTTTTTTAC
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGC----TCTTTTTT-C
* *
841291 TTTTTTGTTGCAAAGTTATAGCTATTTGTTTGC-TATAAATCTT
61 CTTTTTGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
* * *
841334 GGAGGGTATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGAAGTATTGGCTCTTTTTTCCTTTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTCCTTTT
841399 TGTTGCAAAGTTATAGCTAATTGTTTGCTATATAAATCTT
66 TGTTGCAAAGTTATAGCTAATTGTTTGC-ATATAAATCTT
*
841439 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCCGTATCGGCTCCTTTTTTTTCTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCT-C--TTTTTTC--
* * *
841504 TTCTTTTCGTTGCAAAGTTATAGCTATTTGTTTG-ATATAAATGTT
61 --CTTTTTGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
* *
841549 GGAGGGCGTTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTC--TTTT--TTGT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTCCTTTT
841610 TGTTGCAAAGTTATAGCT-ATTGTTTGC-TATAAATC
66 TGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATC
841645 AAGTTGCATT
Statistics
Matches: 280, Mismatches: 21, Indels: 30
0.85 0.06 0.09
Matches are distributed among these distances:
98 14 0.05
99 20 0.07
103 32 0.11
104 7 0.03
105 62 0.22
106 1 0.00
108 53 0.19
109 1 0.00
110 60 0.21
112 30 0.11
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (104 bp):
GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTCCTTTT
TGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
Found at i:841553 original size:215 final size:207
Alignment explanation
Indices: 841226--841640 Score: 616
Period size: 215 Copynumber: 2.0 Consensus size: 207
841216 AACCTCCCTC
* * * *
841226 GGAGGGCATTACAGTTTAAATTAGCTTTATTTCTTCTGTAGCAGTATTGGCTATTTTTTTTTTAC
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTATTTTTTTTTTA-
* *
841291 TTTTTTGTTGCAAAGTTATAGCTATTTGTTTGCTATAAATCTTGGAGGGTATTACAGTTAAAATT
65 TTTTTTGTTGCAAAGTTATAGCTATTTGTTTGATATAAATCTTGGAGGGCATTACAGTTAAAATT
* *
841356 AGCTTTATTTCCTCTCTAGAAGTATTGGCTCTTTTTTCCTTTTTGTTGCAAAGTTATAGCTAATT
130 AGCTTTATTTCCTCTCTAGAAGTATCGGCTC--TTTT--TTGTTGTTGCAAAGTTATAGCT-ATT
841421 GTTTGCTATATAAATCTT
190 GTTTGCTATATAAATCTT
* *
841439 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCCGTATCGGCTCCTTTTTTTTCTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCT-ATTTTTTTT-TT
* *
841504 -TTCTTTTCGTTGCAAAGTTATAGCTATTTGTTTGATATAAATGTTGGAGGGCGTTACAGTTAAA
64 ATT-TTTT-GTTGCAAAGTTATAGCTATTTGTTTGATATAAATCTTGGAGGGCATTACAGTTAAA
*
841568 ATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTGTTGTTGCAAAGTTATAGCTATTGT
127 ATTAGCTTTATTTCCTCTCTAGAAGTATCGGCTCTTTTTTGTTGTTGCAAAGTTATAGCTATTGT
841633 TTGCTATA
192 TTGCTATA
841641 AATCAAGTTG
Statistics
Matches: 185, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
210 13 0.07
211 21 0.11
213 53 0.29
214 12 0.06
215 86 0.46
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (207 bp):
GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTATTTTTTTTTTAT
TTTTTGTTGCAAAGTTATAGCTATTTGTTTGATATAAATCTTGGAGGGCATTACAGTTAAAATTA
GCTTTATTTCCTCTCTAGAAGTATCGGCTCTTTTTTGTTGTTGCAAAGTTATAGCTATTGTTTGC
TATATAAATCTT
Found at i:841583 original size:110 final size:111
Alignment explanation
Indices: 841226--841607 Score: 509
Period size: 110 Copynumber: 3.5 Consensus size: 111
841216 AACCTCCCTC
* * * * *
841226 GGAGGGCATTACAGTTTAAATTAGCTTTATTTCTTCTGTAGCAGTATTGGCT-ATTTTTTT-TTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTTTCTTT
* * * *
841289 ACTTTTTTGTTGCAAAGTTATAGCTATTTGTTTGC-TATAAATCTT
66 TCCTTTTCGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
* * *
841334 GGAGGGTATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGAAGTATTGGCTC------TT-TTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTTTCTTT
*
841392 TCCTTTTTGTTGCAAAGTTATAGCTAATTGTTTGCTATATAAATCTT
66 TCCTTTTCGTTGCAAAGTTATAGCTAATTGTTTGC-ATATAAATCTT
*
841439 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCCGTATCGGCTCCTTTTTTTTCTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCT-CTTTTTTTTCTT
* *
841504 TT-CTTTTCGTTGCAAAGTTATAGCTATTTGTTTG-ATATAAATGTT
65 TTCCTTTTCGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
*
841549 GGAGGGCGTTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTT
1 GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTT
841608 GTTGTTGCAA
Statistics
Matches: 246, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
103 37 0.15
105 58 0.24
106 1 0.00
108 47 0.19
109 7 0.03
110 60 0.24
112 32 0.13
113 4 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (111 bp):
GGAGGGCATTACAGTTAAAATTAGCTTTATTTCCTCTCTAGCAGTATCGGCTCTTTTTTTTCTTT
TCCTTTTCGTTGCAAAGTTATAGCTAATTGTTTGCATATAAATCTT
Found at i:843046 original size:97 final size:98
Alignment explanation
Indices: 842877--843075 Score: 355
Period size: 97 Copynumber: 2.0 Consensus size: 98
842867 TGCATCATAA
842877 CAACTGTGGTCATCGTCGTTTTCATGATCATCTTCTTCATAATAGTCATCTGAAACACCTGTATC
1 CAACTGTGGTCATCGTCGTTTTCATGATCA--TTCTTCATAATAGTCATCTGAAACACCTGTATC
842942 ATCTCTGTAGACATCAACAATATCACTACACTGTT
64 ATCTCTGTAGACATCAACAATATCACTACACTGTT
*
842977 CAACTGTGGTCATCTTCGTTTTCATGATCA-TCTTCATAATAGTCATCTGAAACACCTGTATCAT
1 CAACTGTGGTCATCGTCGTTTTCATGATCATTCTTCATAATAGTCATCTGAAACACCTGTATCAT
*
843041 CTCTGTAGACATCAACAATATGACTACACTGTT
66 CTCTGTAGACATCAACAATATCACTACACTGTT
843074 CA
1 CA
843076 GTGTCATCGA
Statistics
Matches: 97, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
97 68 0.70
100 29 0.30
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (98 bp):
CAACTGTGGTCATCGTCGTTTTCATGATCATTCTTCATAATAGTCATCTGAAACACCTGTATCAT
CTCTGTAGACATCAACAATATCACTACACTGTT
Found at i:844836 original size:21 final size:21
Alignment explanation
Indices: 844812--844851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
844802 GTTTTTATTG
* *
844812 TTATAATATTGATGTGATAAT
1 TTATAATATTCACGTGATAAT
844833 TTATAATATTCACGTGATA
1 TTATAATATTCACGTGATA
844852 GTCTATGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
TTATAATATTCACGTGATAAT
Found at i:846145 original size:20 final size:18
Alignment explanation
Indices: 846105--846147 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
846095 AAATTGAGAA
* *
846105 ATTAAAATTTCAAAATAT
1 ATTAAAATTTAAAAAAAT
846123 ATTAAAATATTAAAAAAACT
1 ATTAAAAT-TTAAAAAAA-T
846143 ATTAA
1 ATTAA
846148 TCATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAATTTAAAAAAAT
Found at i:848820 original size:12 final size:12
Alignment explanation
Indices: 848804--848844 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
848794 TTATTTTTTC
848804 TTTTATCTTTAT
1 TTTTATCTTTAT
* *
848816 CTTTATCCTTAT
1 TTTTATCTTTAT
848828 TTTTAT-TTTAT
1 TTTTATCTTTAT
848839 TTTTAT
1 TTTTAT
848845 TCGTGGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATCTTTAT
Found at i:849300 original size:160 final size:161
Alignment explanation
Indices: 849036--849356 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
849026 ATCCTGTCAT
849036 TGTTGAGCCAGTCCCAGATCCTTCCCACCAGTCCCCTACTCTAGAGTCTCTTGTAGCACCATCCA
1 TGTTGAGCCAGTCCCAGATCCTTCCCACCAGTCCCCTACTCTAGAGTCTCTTGTAGCACCATCCA
849101 AACCAACCCCCAATCCAGTTGTTGCACCTACACCTCCTTCCGCCCA-CGAACCAGCCGTCACACT
66 AACCAACCCCCAATCCAGTTGTTGCACCTACACCTCCTTCCGCCCACCGAACCAGCCGTCACACT
849165 AAGACATCGACGGGGTGTGTTAATATTGTTC
131 AAGACATCGACGGGGTGTGTTAATATTGTTC
849196 TGTTGAGCCAGTCCCAGATCCTTCCCACCAGTCCCCTACTCTAGAGTCTCTTGTAGCACCATCCA
1 TGTTGAGCCAGTCCCAGATCCTTCCCACCAGTCCCCTACTCTAGAGTCTCTTGTAGCACCATCCA
849261 AACCAACCCCCAATCCAGTTGTTGCACCTACACCTCCTTCCGCCCACCGAACCAGCCGTCACACT
66 AACCAACCCCCAATCCAGTTGTTGCACCTACACCTCCTTCCGCCCACCGAACCAGCCGTCACACT
849326 AAGACATCGACGGGGTGTGTTAATATTGTTC
131 AAGACATCGACGGGGTGTGTTAATATTGTTC
849357 ACTATCATTC
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 111 0.69
161 49 0.31
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.24
Consensus pattern (161 bp):
TGTTGAGCCAGTCCCAGATCCTTCCCACCAGTCCCCTACTCTAGAGTCTCTTGTAGCACCATCCA
AACCAACCCCCAATCCAGTTGTTGCACCTACACCTCCTTCCGCCCACCGAACCAGCCGTCACACT
AAGACATCGACGGGGTGTGTTAATATTGTTC
Found at i:851746 original size:113 final size:113
Alignment explanation
Indices: 851570--851798 Score: 404
Period size: 113 Copynumber: 2.0 Consensus size: 113
851560 TCTAACAGTG
*
851570 CATGTCGTAATCTGAAAATTACATGATTTCTGGTAATATGAATTAGCGTGATCTCAAATATTTGG
1 CATGTCGTAATCTGAAAATTACATGATTTCTGGTAATATGAATTAGCGTGATCTCAAAGATTTGG
*
851635 TCGTAACTCCAAGTCTGGTCTAAGGGTTGCAATTCCTAATTATGAGAT
66 TCGTAACTCCAAGTCGGGTCTAAGGGTTGCAATTCCTAATTATGAGAT
* * *
851683 CATGTCGTAATCTGAAAATTGCATGATTTCTGGTAATATGAATTAGTGTGATCTCAGAGATTTGG
1 CATGTCGTAATCTGAAAATTACATGATTTCTGGTAATATGAATTAGCGTGATCTCAAAGATTTGG
*
851748 TCGTAACTCTAAGTCGGGTCTAAGGGTTGCAATTCCTAATTATGAGAT
66 TCGTAACTCCAAGTCGGGTCTAAGGGTTGCAATTCCTAATTATGAGAT
851796 CAT
1 CAT
851799 AAAACTTATG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (113 bp):
CATGTCGTAATCTGAAAATTACATGATTTCTGGTAATATGAATTAGCGTGATCTCAAAGATTTGG
TCGTAACTCCAAGTCGGGTCTAAGGGTTGCAATTCCTAATTATGAGAT
Found at i:856357 original size:29 final size:29
Alignment explanation
Indices: 856315--856378 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
856305 ATATATCAAT
856315 GTCAAATATATATTCTATAATCCATAACA
1 GTCAAATATATATTCTATAATCCATAACA
856344 GTCAAATATATATTCTATAATCCATAACA
1 GTCAAATATATATTCTATAATCCATAACA
856373 GTCAAA
1 GTCAAA
856379 AACTAAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
GTCAAATATATATTCTATAATCCATAACA
Found at i:857197 original size:34 final size:35
Alignment explanation
Indices: 857154--857221 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
857144 AATAGGAATT
*
857154 ACAACTTCTCTCGAT-CTAACAAGGAGAAAACAATG
1 ACAACTTCTCTC-ATAATAACAAGGAGAAAACAATG
* *
857189 ACAA-TTCTCTCTTAATAAGAAGGAGAAAACAAT
1 ACAACTTCTCTCATAATAACAAGGAGAAAACAAT
857222 TCTCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 24 0.83
35 4 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (35 bp):
ACAACTTCTCTCATAATAACAAGGAGAAAACAATG
Found at i:857324 original size:30 final size:30
Alignment explanation
Indices: 857284--857348 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
857274 TGAGATGGTT
* *
857284 TTGAAGCTAAATGGGTTAGGGTATTTATAA
1 TTGAAACTAAATGGGTCAGGGTATTTATAA
857314 TTGAAACTAAATGGGTCAGGGTATTTATAA
1 TTGAAACTAAATGGGTCAGGGTATTTATAA
857344 TTGAA
1 TTGAA
857349 GTTTAAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
TTGAAACTAAATGGGTCAGGGTATTTATAA
Found at i:862368 original size:20 final size:20
Alignment explanation
Indices: 862336--862374 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
862326 GTAAATTCGT
862336 AATCGAAAAATCAAAATCAA
1 AATCGAAAAATCAAAATCAA
*
862356 AATC-AAAATATCAAGATCA
1 AATCGAAAA-ATCAAAATCA
862375 TAAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (20 bp):
AATCGAAAAATCAAAATCAA
Found at i:866408 original size:119 final size:118
Alignment explanation
Indices: 866234--866465 Score: 367
Period size: 119 Copynumber: 2.0 Consensus size: 118
866224 TGTATTCTTT
* *
866234 TATTTCTGTTGCTGCAGAAAATTCTAAGCGAAAATGAGTACATAAGTAACAAAAACAAAAACAAT
1 TATTTCTGTTGCCGCAGAAAATTCTAAGAGAAAATGAGTACATAAGTAACAAAAACAAAAACAAT
*
866299 TTATATTAATGACAAAAACAAAGGTACATAAGCACATAAGCAATTCCAACTTC
66 TTATATTAATGACAAAAACAAAAGTACATAAGCACATAAGCAATTCCAACTTC
* * * *
866352 TATTTCTGTTGCCGCA-AACAATTGTAAGTAGAAAATGTGTGCATAAGTAACAAAAACAAAACCA
1 TATTTCTGTTGCCGCAGAA-AATTCTAAG-AGAAAATGAGTACATAAGTAACAAAAACAAAAACA
*
866416 GTTTATATTAATGACAAAAACAAAAGTACATAAGCACATAAGCAATTCCA
64 ATTTATATTAATGACAAAAACAAAAGTACATAAGCACATAAGCAATTCCA
866466 CCTTATATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
117 2 0.02
118 23 0.22
119 79 0.76
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (118 bp):
TATTTCTGTTGCCGCAGAAAATTCTAAGAGAAAATGAGTACATAAGTAACAAAAACAAAAACAAT
TTATATTAATGACAAAAACAAAAGTACATAAGCACATAAGCAATTCCAACTTC
Found at i:868980 original size:39 final size:39
Alignment explanation
Indices: 868928--869105 Score: 241
Period size: 39 Copynumber: 4.6 Consensus size: 39
868918 ACATAGCATA
* * * *
868928 AGGA-CCTGCGGTAAGGACCTACCCTGAGCACAGAGCCA
1 AGGAGCCTGAGGTAAGGACTTACCCTGAGCACAAAGCCG
*
868966 AGGAGCCTGAGGTAAGGAGTTACCCTGAGCACAAAGCCG
1 AGGAGCCTGAGGTAAGGACTTACCCTGAGCACAAAGCCG
* * * * *
869005 AGGAGCCTGTGGTAAGGACTTACCCTAAACATAAAGTCG
1 AGGAGCCTGAGGTAAGGACTTACCCTGAGCACAAAGCCG
*
869044 AGGAGCCTGAGGTAAGGATTTACCCTGAGCACAAAGCCG
1 AGGAGCCTGAGGTAAGGACTTACCCTGAGCACAAAGCCG
*
869083 AGGAGCCTGCGGTAAGGACTTAC
1 AGGAGCCTGAGGTAAGGACTTAC
869106 AACTCATAGA
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
38 4 0.03
39 116 0.97
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.15
Consensus pattern (39 bp):
AGGAGCCTGAGGTAAGGACTTACCCTGAGCACAAAGCCG
Found at i:869175 original size:2 final size:2
Alignment explanation
Indices: 869168--869215 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
869158 TAATAAACAA
869168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
869210 AT AT AT
1 AT AT AT
869216 CGAGTGAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:869562 original size:3 final size:3
Alignment explanation
Indices: 869554--869622 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
869544 TCCATATCGG
869554 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
869602 AAT AAT AAT CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
869623 CCCTATTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:879044 original size:52 final size:53
Alignment explanation
Indices: 878975--879074 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 53
878965 AAAAGGTTAC
*
878975 AATTGTTACATTTCATGTTCTCCTCCTAGAGTGGAGAGGATGAATTTAGTTTA
1 AATTGTTACATTTCATGTTCTCATCCTAGAGTGGAGAGGATGAATTTAGTTTA
* * *
879028 AATTGTTACA-TTCATGTTCTGATCGTAGAGTGGAGAGGGTGAATTTA
1 AATTGTTACATTTCATGTTCTCATCCTAGAGTGGAGAGGATGAATTTA
879075 TTTTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 33 0.77
53 10 0.23
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (53 bp):
AATTGTTACATTTCATGTTCTCATCCTAGAGTGGAGAGGATGAATTTAGTTTA
Found at i:883112 original size:225 final size:226
Alignment explanation
Indices: 882718--884382 Score: 2196
Period size: 226 Copynumber: 7.4 Consensus size: 226
882708 AAATATATTA
* *
882718 ACGATAACATAATCGGTTAATTACTGGAAATATTA-C--GCATAATAACATTTTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * *
882780 ATGTAATGTAATAGGTAGCGCCTTTTTAAAGATGATGGGGCCTTAGAAATCCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
* *
882845 TAGGTTAATTACTTAATTTGTTA-CTAGTATTATCAACATATTAGGTAATGCCTAAAATATTACC
131 TAGGTTAATTACTTAATTTGTTATC-AGTATTATCAACATATTAGGTAACGCCTAAAATGTTACC
882909 AAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
195 AAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * *
882941 ACGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATAATAGG-AGCGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * *
883005 ATGTAACATAATATGTAGCGCCTTTTTAAAGCTAATGAGGCCTTAGAAATTCGAAGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
* * * *
883070 TAAGTTAATTACTTAATTTGTTATCAGTATTATCAGCATATTAGGTAACACCAAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
*
883135 AAGTTTAAGCTGATGGAGCTTTAGAAATCCG
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* ** * * *
883166 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGTATAATAACATATTAGGTAGCTCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * *
883231 ATGTAACGTAATAGATAACTCCTTTTTAAAGTTGATGGGGTCTTAGAAA-TCTGACGATAACAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTC-GACGATAACAAA
* * * *** *
883295 ATAGGTTAATTACTTAATTTGTTACCATTATTATCAACAAATTAGGTAACAAAT-AAATGTTATC
130 ATAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACC
* *
883359 AAAGTTTAAGTTGATGGAGCCTTAGAAATCTG
195 AAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * *
883391 ACGATAACATGACTGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * * *
883456 ATATAACATATTAGGTAGCGCCCTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
*
883521 TAGGTTAATTACATAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
*
883586 AAGTTTAAGCTGATGGAGCCATAGAAATCCG
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * ** * *
883617 ACGATAACATAACCTGTTAATTACTTGATTTGTTATCAAGGATAATAACATATTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * * * * *
883682 ATGTAATGTAATAGGTAGCGCATTTTTAAAGTTGACGGGGCTTTAGAAATCCGAAGAAAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
* *
883747 TAGGTTAATTACTTAATTTGTTATTAGTATTATCAATATATTAGGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
* * *
883812 AAGTTTAAGCTGATGGAACCTTACAAATCTG
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * * ** * * * *
883843 AGGTTAGCATAACATGTAAATTACTGGAAAAATTATCAAACATAATAACATATTAGGTATCGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* *
883908 ATGTAATGTAATAGGTAGCACCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
* * * *
883973 TAGGTTAATTACTTAACTTGTTATCAGTATTATCAACATATTAAGTAACGTCTAAAATGCTACCA
131 TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
884038 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * ** * * * *
884069 ACGATAACATAACCAGTTAATTACTTGATTTGTTATTAAGCATAAAAACATATTAGGTAGTGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * ** * * * *
884134 CTGTAACATAAT-TGTAGTTCATTTTTAATGCTGATGGGGCCATAGAAATTCGACAATAACAAAA
66 ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
* *
884198 TATGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAAGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
* *
884263 AAGTTTAAGCTGATGGAGCATTAGAAATCTG
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * ** * * * *
884294 ACGATAACATAATCGGTTAATTACTTGATTTGTTATCAACCTTTATCAACATATTAGGTAGCG-T
1 ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAAT-AACATATTAGGTAGCGCT
* *
884358 TTTTTAACGTAATAGGTAGCGCCTT
65 TATGTAACGTAATAGGTAGCGCCTT
884383 AACACCTAAA
Statistics
Matches: 1250, Mismatches: 182, Indels: 17
0.86 0.13 0.01
Matches are distributed among these distances:
223 32 0.03
224 1 0.00
225 582 0.47
226 635 0.51
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (226 bp):
ACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTT
ATGTAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAA
TAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
AAGTTTAAGCTGATGGAGCCTTAGAAATCCG
Found at i:883531 original size:118 final size:114
Alignment explanation
Indices: 882718--884353 Score: 654
Period size: 108 Copynumber: 14.5 Consensus size: 114
882708 AAATATATTA
* * * * * *
882718 ACGATAACATAATCGGTTAATTACTGGAAATATTA-C--GCATAATAACATTTTAGGTAGCGCTT
1 ACGATAACAAAATAGGTTAATTACT-GAATTGTTATCAAGCATAATAACATATTAGGTAACGCTT
* * * * *
882780 ATGTAATGTAATAGGTAGCGCCTTTTTAAAGATGATGGGGCCTTAGAAATCCG
65 ATATAA-ATATTAGGTAGCG-C-TTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * * *
882833 ACGATAACAAAATAGGTTAATTACTTAATTTGTTA-CTAGTATTATCAACATATTAGGTAATGC-
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* ** **
882896 -CTA-AAATATTA-CCAAAG--TTT-AAGCTGATGGAGCCTTAGAAATCCG
64 TATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* ** *** * *
882941 ACGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATAATAGG-AGCGCTT
1 ACGATAACAAAATAGGTTAATTACT-GAATTGTTATCAAGCATAATAACATATTAGGTAACGCTT
* * * * *
883005 ATGTAACATAATATGTAGCGCCTTTTTAAAGCTAAT-GAGGCCTTAGAAATTCG
65 ATATAA-ATATTAGGTAGCG-C-TTTTAAAGCTGATGGA-GCCTTAGAAATCCG
* * * * * * *
883058 AAGATAACAAAATAAGTTAATTACTTAATTTGTTATC-AGTATTATCAGCATATTAGGTAACAC-
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* * ** ** *
883121 CA-A-AAATGTTA-CCAAAG--TTT-AAGCTGATGGAGCTTTAGAAATCCG
64 TATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* ** * * * *
883166 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGTATAATAACATATTAGGTAGCTCTT
1 ACGATAACAAAATAGGTTAATTAC-TGAATTGTTATCAAGCATAATAACATATTAGGTAACGCTT
* * * * * * * * * *
883231 ATGTAACGTAATAGATAACTCCTTTTTAAAGTTGATGGGGTCTTAGAAATCTG
65 ATATAA-ATATTAGGTAGC-GC-TTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * ** * *
883284 ACGATAACAAAATAGGTTAATTACTTAATTTGTTA-CCATTATTATCAACAAATTAGGTAA--C-
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* * ** * *
883345 -AAATAAATGTTA--TCAAAG--TTT-AAGTTGATGGAGCCTTAGAAATCTG
64 TATATAAATATTAGGT-AGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * *** *
883391 ACGATAACATGACT-GGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 ACGATAACA-AAATAGGTTAATTACT-GAATTGTTATCAAGCATAATAACATATTAGGTAACGCT
* *
883455 TATATAACATATTAGGTAGCGCCCTTTTAAAGTTGATGGGGCCTTAGAAATCCG
64 TATATAA-ATATTAGGTAGCG--CTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* *
883509 ACGATAACAAAATAGGTTAATTACAT-AATTTGTTATC-AGTATTATCAACATATTAGGTAACGC
1 ACGATAACAAAATAGGTTAATTAC-TGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGC
* * ** ** *
883572 --CTA-AAATGTTA-CCAAAG--TTT-AAGCTGATGGAGCCATAGAAATCCG
63 TTATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* *** * * *
883617 ACGATAACATAACCTGTTAATTACTTGATTTGTTATCAAGGATAATAACATATTAGGTAGCGCTT
1 ACGATAACAAAATAGGTTAATTAC-TGAATTGTTATCAAGCATAATAACATATTAGGTAACGCTT
* * * * * * *
883682 ATGTAATGTAATAGGTAGCGCATTTTTAAAGTTGACGGGGCTTTAGAAATCCG
65 ATATAA-ATATTAGGTAGCGC--TTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * * * * *
883735 AAGAAAACAAAATAGGTTAATTACTTAATTTGTTAT-TAGTATTATCAATATATTAGGTAACGC-
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* * ** ** * * *
883798 -CTA-AAATGTTA-CCAAAG--TTT-AAGCTGATGGAACCTTACAAATCTG
64 TATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * * * * * *** * *
883843 AGGTTAGCATAACATGTAAATTACTGGAAAAATTATCAAACATAATAACATATTAGGTATCGCTT
1 ACGATAACAAAATAGGTTAATTACT-GAATTGTTATCAAGCATAATAACATATTAGGTAACGCTT
* * * * * *
883908 ATGTAATGTAATAGGTAGCACCTTTTTAAAGCTGATGGGGCCTTAGAAATTCG
65 ATATAA-ATATTAGGTAGC-GC-TTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * *
883961 ACGATAACAAAATAGGTTAATTACTTAACTTGTTATC-AGTATTATCAACATATTAAGTAACG--
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* ** ** **
884023 TCTA-AAATGCTA-CCAAAG--TTT-AAGCTGATGGAGCCTTAGAAATCCG
64 TATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
** * * * **
884069 ACGATAACATAACCA-GTTAATTACTTGATTTGTTATTAAGCATAAAAACATATTAGGTAGTGCT
1 ACGATAACA-AAATAGGTTAATTAC-TGAATTGTTATCAAGCATAATAACATATTAGGTAACGCT
* * ** * * * *
884133 TCTGTAACATAATT--GTAGTTCATTTTTAATGCTGATGGGGCCATAGAAATTCG
64 TATATAA-AT-ATTAGGTAG--CGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * * * *
884186 ACAATAACAAAATATGTTAATTACTTAATTTGTTATC-AGTATTATCAACATATTAAGTAACGC-
1 ACGATAACAAAATAGGTTAATTACTGAA-TTGTTATCAAGCATAAT-AACATATTAGGTAACGCT
* * ** ** * *
884249 -CTA-AAATGTTA-CCAAAG--TTT-AAGCTGATGGAGCATTAGAAATCTG
64 TATATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
* * * * * *
884294 ACGATAACATAATCGGTTAATTACTTGATTTGTTATCAACCTTTATCAACATATTAGGTA
1 ACGATAACAAAATAGGTTAATTAC-TGAATTGTTATCAAGCATAAT-AACATATTAGGTA
884354 GCGTTTTTTA
Statistics
Matches: 1101, Mismatches: 318, Indels: 210
0.68 0.20 0.13
Matches are distributed among these distances:
107 61 0.06
108 360 0.33
109 85 0.08
110 7 0.01
111 19 0.02
112 23 0.02
113 23 0.02
114 28 0.03
115 40 0.04
116 33 0.03
117 165 0.15
118 256 0.23
119 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (114 bp):
ACGATAACAAAATAGGTTAATTACTGAATTGTTATCAAGCATAATAACATATTAGGTAACGCTTA
TATAAATATTAGGTAGCGCTTTTAAAGCTGATGGAGCCTTAGAAATCCG
Found at i:883598 original size:451 final size:452
Alignment explanation
Indices: 882718--884382 Score: 2295
Period size: 451 Copynumber: 3.7 Consensus size: 452
882708 AAATATATTA
* * ** * *
882718 ACGATAACATAATCGGTTAATTACTGGAAATATTA-C--GCATAATAACATTTTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGCATAATAACATATTAGGTAGCGCTT
* * *
882780 ATGTAATGTAATAGGTAGCGCCTTTTTAAAGATGATGGGGCCTTAGAAATCCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCATTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
* * * *
882845 TAGGTTAATTACTTAATTTGTTACTAGTATTATCAACATATTAGGTAATGCCTAAAATATTACCA
131 TAGGTTAATTACTTAATTTGTTACCAGTATTATCAACATATTAGGTAACGCATAAAATGTTACCA
* * *
882910 AAGTTTAAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTAGAAACATT
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACTGGTTAATTACTGGAAACATT
* * *
882975 ATCAAGCATAATAACATAATAGG-AGCGCTTATGTAACATAATATGTAGCGCCTTTTTAAAGCTA
261 ATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGCGCCTTTTTAAAGCTG
* * *
883039 ATGAGGCCTTAGAAATTCGAAGATAACAAAATAAGTTAATTACTTAATTTGTTATCAGTATTATC
326 ATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTATC
* * * *
883104 AGCATATTAGGTAACACCAAAAATGTTACCAAAGTTTAAGCTGATGGAGCTTTAGAAATCCG
391 AACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* *
883166 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGTATAATAACATATTAGGTAGCTCTT
1 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * * *
883231 ATGTAACGTAATAGATAACTCCTTTTTAAAGTTGATGGGGTCTTAGAAATCTGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCGCATTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
* * ** *
883296 TAGGTTAATTACTTAATTTGTTACCATTATTATCAACAAATTAGGTAACAAAT-AAATGTTATCA
131 TAGGTTAATTACTTAATTTGTTACCAGTATTATCAACATATTAGGTAACGCATAAAATGTTACCA
* *
883360 AAGTTTAAGTTGATGGAGCCTTAGAAATCTGACGATAACATGACTGGTTAATTACTGGAAACATT
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACTGGTTAATTACTGGAAACATT
* * * *
883425 ATCAAGCATAATAACATATTAGGTAGCGCTTATATAACATATTAGGTAGCGCCCTTTTAAAGTTG
261 ATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGCGCCTTTTTAAAGCTG
* *
883490 ATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACATAATTTGTTATCAGTATTATC
326 ATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTATC
*
883555 AACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCATAGAAATCCG
391 AACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* *
883617 ACGATAACATAACCTGTTAATTACTTGATTTGTTATCAAGGATAATAACATATTAGGTAGCGCTT
1 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * * *
883682 ATGTAATGTAATAGGTAGCGCATTTTTAAAGTTGACGGGGCTTTAGAAATCCGAAGAAAACAAAA
66 ATGTAACGTAATAGGTAGCGCATTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
** * *
883747 TAGGTTAATTACTTAATTTGTTATTAGTATTATCAATATATTAGGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTACCAGTATTATCAACATATTAGGTAACGCATAAAATGTTACCA
* * * * * * *
883812 AAGTTTAAGCTGATGGAACCTTACAAATCTGAGGTTAGCATAACAT-GTAAATTACTGGAAAAAT
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAAC-TGGTTAATTACTGGAAACAT
* * ** *
883876 TATCAAACATAATAACATATTAGGTATCGCTTATGTAATGTAATAGGTAGCACCTTTTTAAAGCT
260 TATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGCGCCTTTTTAAAGCT
*
883941 GATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTTAACTTGTTATCAGTATTAT
325 GATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTAT
* * *
884006 CAACATATTAAGTAACGTCTAAAATGCTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
390 CAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
* * * *
884069 ACGATAACATAACCAGTTAATTACTTGATTTGTTATTAAGCATAAAAACATATTAGGTAGTGCTT
1 ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGCATAATAACATATTAGGTAGCGCTT
* * * ** * * * * *
884134 CTGTAACATAAT-TGTAGTTCATTTTTAATGCTGATGGGGCCATAGAAATTCGACAATAACAAAA
66 ATGTAACGTAATAGGTAGCGCATTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
* * * *
884198 TATGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAAGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTTGTTACCAGTATTATCAACATATTAGGTAACGCATAAAATGTTACCA
* * ****
884263 AAGTTTAAGCTGATGGAGCATTAGAAATCTGACGATAACATAA-TCGGTTAATTACTTGATTTGT
196 AAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACT-GGTTAATTACTGGAAACAT
* * * * * *
884327 TATCAACCTTTATCAACATATTAGGTAGCG-TTTTTTAACGTAATAGGTAGCGCCTT
260 TATCAAGCATAAT-AACATATTAGGTAGCGCTTATGTAACATAATAGGTAGCGCCTT
884383 AACACCTAAA
Statistics
Matches: 1070, Mismatches: 138, Indels: 15
0.87 0.11 0.01
Matches are distributed among these distances:
448 30 0.03
449 2 0.00
450 91 0.09
451 622 0.58
452 324 0.30
453 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (452 bp):
ACGATAACATAACCGGTTAATTACTTGATTTGTTATCAAGCATAATAACATATTAGGTAGCGCTT
ATGTAACGTAATAGGTAGCGCATTTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAA
TAGGTTAATTACTTAATTTGTTACCAGTATTATCAACATATTAGGTAACGCATAAAATGTTACCA
AAGTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACATAACTGGTTAATTACTGGAAACATT
ATCAAGCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGCGCCTTTTTAAAGCTG
ATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTATC
AACATATTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGCTGATGGAGCCTTAGAAATCCG
Found at i:888571 original size:6 final size:6
Alignment explanation
Indices: 888560--888659 Score: 96
Period size: 6 Copynumber: 16.7 Consensus size: 6
888550 TAGTGGAGCC
* * * * *
888560 GAAATT GAAATT GAAATT CAAACT CAAATT GAAATT GAAATT CAAACT
1 GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT
* * *
888608 CAAATT -AAATTT GAAATT GAAATT GAAATT -CAATAT CAAATT GAAATT
1 GAAATT GAAA-TT GAAATT GAAATT GAAATT GAAAT-T GAAATT GAAATT
888656 GAAA
1 GAAA
888660 ACTGCATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
5 6 0.08
6 68 0.85
7 6 0.08
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (6 bp):
GAAATT
Found at i:888593 original size:24 final size:24
Alignment explanation
Indices: 888561--888625 Score: 114
Period size: 24 Copynumber: 2.7 Consensus size: 24
888551 AGTGGAGCCG
888561 AAATTGAAATTGAAATTCAAACTC
1 AAATTGAAATTGAAATTCAAACTC
888585 AAATTGAAATTGAAATTCAAACTC
1 AAATTGAAATTGAAATTCAAACTC
888609 AAATT-AAATTTGAAATT
1 AAATTGAAA-TTGAAATT
888626 GAAATTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 3 0.08
24 37 0.93
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (24 bp):
AAATTGAAATTGAAATTCAAACTC
Found at i:888596 original size:30 final size:29
Alignment explanation
Indices: 888560--888659 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 29
888550 TAGTGGAGCC
888560 GAAATTGAAATTGAAATTCAAACTCAAATT
1 GAAATTGAAATTGAAATTCAAA-TCAAATT
* * *
888590 GAAATTGAAATTCAAACTCAAATTAAATTT
1 GAAATTGAAATTGAAATTCAAATCAAA-TT
888620 GAAATTGAAATTGAAATTCAATATCAAATT
1 GAAATTGAAATTGAAATTCAA-ATCAAATT
888650 GAAATTGAAA
1 GAAATTGAAA
888660 ACTGCATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 4 0.06
30 53 0.85
31 5 0.08
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (29 bp):
GAAATTGAAATTGAAATTCAAATCAAATT
Found at i:888658 original size:36 final size:36
Alignment explanation
Indices: 888585--888659 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
888575 ATTCAAACTC
888585 AAATTGAAATTGAAATTCAAACTCAAATTAAATTTG
1 AAATTGAAATTGAAATTCAAACTCAAATTAAATTTG
888621 AAATTGAAATTGAAATTCAATA-TCAAATTGAAA-TTG
1 AAATTGAAATTGAAATTCAA-ACTCAAATT-AAATTTG
888657 AAA
1 AAA
888660 ACTGCATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (36 bp):
AAATTGAAATTGAAATTCAAACTCAAATTAAATTTG
Found at i:889003 original size:15 final size:15
Alignment explanation
Indices: 888979--889008 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
888969 CCAAACATAC
888979 ATACAAAACAATGTT
1 ATACAAAACAATGTT
*
888994 ATACATAACAATGTT
1 ATACAAAACAATGTT
889009 CTAATAGTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
ATACAAAACAATGTT
Found at i:889984 original size:18 final size:18
Alignment explanation
Indices: 889961--889998 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
889951 ATATTAAGAA
889961 AAAATAATAG-AAAAAAAT
1 AAAATAA-AGTAAAAAAAT
*
889979 AAAATAAAGTAAAAATAT
1 AAAATAAAGTAAAAAAAT
889997 AA
1 AA
889999 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAGTAAAAAAAT
Found at i:890174 original size:25 final size:25
Alignment explanation
Indices: 890128--890176 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
890118 CTATAAATAC
* *
890128 ATATATATATATATAATGATATAAG
1 ATATATATATATAAAATAATATAAG
890153 ATATATATA-ATAAAAATAATATAA
1 ATATATATATAT-AAAATAATATAA
890177 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATATATATATAAAATAATATAAG
Found at i:890179 original size:23 final size:21
Alignment explanation
Indices: 890153--890229 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 21
890143 ATGATATAAG
890153 ATATATATAATAAAAATAATATA
1 ATATA-ATAATAAAAA-AATATA
890176 ATATAAATAA-AAAAAGGAATATA
1 ATAT-AATAATAAAAA--AATATA
*
890199 GTA-AATCAATAAAAAAATATA
1 ATATAAT-AATAAAAAAATATA
*
890220 AT-TAAAAATA
1 ATATAATAATA
890230 TATATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
22 7 0.16
23 21 0.47
24 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (21 bp):
ATATAATAATAAAAAAATATA
Found at i:892749 original size:36 final size:37
Alignment explanation
Indices: 892665--892750 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
892655 CAATGTTTAT
* * * *
892665 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
892702 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTC
1 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
892738 GTTTCAAGGGAAA
1 GTTTCAAGGGAAA
892751 TGTTTTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 15 0.33
37 30 0.67
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (37 bp):
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTC
Found at i:892775 original size:102 final size:102
Alignment explanation
Indices: 892599--892792 Score: 325
Period size: 102 Copynumber: 1.9 Consensus size: 102
892589 GAAGATTTTG
* * * * * *
892599 TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
892664 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
892701 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
892766 TGTTTCAAGAGAAACTGTCTCAAGGGA
66 TGTTTCAAGAGAAACTGTCTCAAGGGA
892793 AACTATCTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:892788 original size:15 final size:15
Alignment explanation
Indices: 892770--892804 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
892760 TGTTTATGTT
*
892770 TCAAGAGAAACTGTC
1 TCAAGAGAAACTATC
*
892785 TCAAGGGAAACTATC
1 TCAAGAGAAACTATC
892800 TCAAG
1 TCAAG
892805 CGAGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
TCAAGAGAAACTATC
Found at i:894381 original size:69 final size:69
Alignment explanation
Indices: 894266--894403 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
894256 TGTGTCTCTC
**
894266 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
894331 TCAT
66 TCAT
* * *
894335 TTGATGCTCTATGATCTTCGAGTAAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
894400 TCAT
66 TCAT
894404 AGTTTGAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:894517 original size:26 final size:25
Alignment explanation
Indices: 894475--894525 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
894465 TTTTTCTTCA
*
894475 ATTTTCCTTTGTTTTTTCTCTTTTT
1 ATTTTCCTTTGCTTTTTCTCTTTTT
*
894500 ATTTTCTCTTTGCTTTTTTTCTTTTT
1 ATTTTC-CTTTGCTTTTTCTCTTTTT
894526 TTCTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (25 bp):
ATTTTCCTTTGCTTTTTCTCTTTTT
Found at i:894522 original size:13 final size:13
Alignment explanation
Indices: 894476--894538 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
894466 TTTTCTTCAA
894476 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
894488 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
894500 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
894515 TTTT-TCTTT-TT
1 TTTTCTCTTTGTT
* *
894526 TTCTCTTTTTGTT
1 TTTTCTCTTTGTT
894539 CCGATTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
11 5 0.12
12 11 0.26
13 21 0.49
14 4 0.09
15 2 0.05
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:897608 original size:18 final size:17
Alignment explanation
Indices: 897576--897622 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
897566 TATTAATGGA
897576 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
897593 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
897611 G-AATAAAAATAA
1 GTAA-AAAAATAA
897623 TGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:897750 original size:18 final size:18
Alignment explanation
Indices: 897729--897783 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 18
897719 AAGAAAAAAT
897729 AATAATAGAAAAAAATAA
1 AATAATAGAAAAAAATAA
* *
897747 AATAA-AG-TAAAAATAT
1 AATAATAGAAAAAAATAA
* *
897763 AATATATATAAATAAATAA
1 AATA-ATAGAAAAAAATAA
897782 AA
1 AA
897784 ACAAAAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 6 0.21
19 8 0.29
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AATAATAGAAAAAAATAA
Found at i:897776 original size:31 final size:31
Alignment explanation
Indices: 897723--897782 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
897713 GATCTTAAGA
897723 AAAAATAATAATAGAAAAAAATAAAATAAAGT
1 AAAAATAATAATAGAAAAAAAT-AAATAAAGT
* * *
897755 AAAAAT-ATAATATATATAAATAAATAAA
1 AAAAATAATAATAGAAAAAAATAAATAAA
897783 AACAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 12 0.48
32 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (31 bp):
AAAAATAATAATAGAAAAAAATAAATAAAGT
Found at i:897815 original size:17 final size:17
Alignment explanation
Indices: 897795--897854 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
897785 CAAAAATAGA
897795 ATATTAAGAAAAAATAT
1 ATATTAAGAAAAAATAT
* *
897812 ATATAAAAACGTATAAAATAT
1 ATAT--TAA-G-AAAAAATAT
897833 AATATTAAGAAAAAATAT
1 -ATATTAAGAAAAAATAT
897851 ATAT
1 ATAT
897855 ACATAGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 3 0.09
20 3 0.09
21 8 0.24
22 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATTAAGAAAAAATAT
Found at i:897895 original size:2 final size:2
Alignment explanation
Indices: 897878--897937 Score: 70
Period size: 2 Copynumber: 30.5 Consensus size: 2
897868 AGAAAAATTA
* *
897878 AT AT AT CT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
897919 AT GAT AT A- AG AT AT AT AT A
1 AT -AT AT AT AT AT AT AT AT A
897938 ATAAAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:897941 original size:14 final size:14
Alignment explanation
Indices: 897890--897960 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
897880 ATATCTATAC
*
897890 ATATATATATATAT
1 ATATATATAAATAT
*
897904 ATATATATATATAT
1 ATATATATAAATAT
897918 A-ATGATATAAGATAT
1 ATAT-ATATAA-ATAT
*
897933 ATATA-ATAAAAAT
1 ATATATATAAATAT
897946 AATATAATATAAATA
1 -ATAT-ATATAAATA
897961 AAAAAGGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
13 5 0.10
14 28 0.58
15 7 0.15
16 8 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
ATATATATAAATAT
Found at i:897950 original size:25 final size:27
Alignment explanation
Indices: 897902--897952 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
897892 ATATATATAT
* *
897902 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
897929 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
897953 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:897961 original size:14 final size:15
Alignment explanation
Indices: 897880--897960 Score: 74
Period size: 16 Copynumber: 5.2 Consensus size: 15
897870 AAAAATTAAT
* *
897880 ATATCTATACATATAT
1 ATATATATA-ATATAA
*
897896 ATATATATATATATAT
1 ATATATATA-ATATAA
*
897912 ATATATAATGATATAA
1 ATATAT-ATAATATAA
*
897928 GATATATATAATAAAA
1 -ATATATATAATATAA
897944 ATA-ATATAATATAA
1 ATATATATAATATAA
897958 ATA
1 ATA
897961 AAAAAGGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 13 0.23
15 3 0.05
16 32 0.57
17 8 0.14
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATATATAATATAA
Found at i:897998 original size:20 final size:19
Alignment explanation
Indices: 897937--897998 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
897927 AGATATATAT
*
897937 AATAAAAATAATATAATATA
1 AATAAAAAAAATATAAT-TA
*
897957 AATAAAAAAGGAATAT-AGTA
1 AATAAAAAA--AATATAATTA
897977 AATAAATAAAAATATAATTA
1 AATAAA-AAAAATATAATTA
897997 AA
1 AA
897999 AATATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 5 0.14
20 21 0.60
21 4 0.11
22 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAAAAAAAATATAATTA
Found at i:898553 original size:18 final size:18
Alignment explanation
Indices: 898532--898594 Score: 101
Period size: 18 Copynumber: 3.5 Consensus size: 18
898522 ATCCCTTACA
*
898532 TGAGAAGAAGAG-CTTGGT
1 TGAGAAGAAG-GTTTTGGT
898550 TGAGAAGAAGGTTTTGGT
1 TGAGAAGAAGGTTTTGGT
898568 TGAGAAGAAGGTTTTGGT
1 TGAGAAGAAGGTTTTGGT
898586 TGAGAAGAA
1 TGAGAAGAA
898595 CTATGCCTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
17 1 0.02
18 42 0.98
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (18 bp):
TGAGAAGAAGGTTTTGGT
Found at i:899963 original size:18 final size:18
Alignment explanation
Indices: 899940--899988 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
899930 TTGCTCATCT
* * *
899940 CATACATAATTTCATTTA
1 CATACAAAATTTAATTCA
899958 CATACAAAATTATAATTCA
1 CATACAAAATT-TAATTCA
899977 CATACAAAATTT
1 CATACAAAATTT
899989 GGCTTACATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (18 bp):
CATACAAAATTTAATTCA
Found at i:903308 original size:15 final size:15
Alignment explanation
Indices: 903288--903322 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
903278 CTGAGGGTAT
903288 GATGGAATCAGGTTC
1 GATGGAATCAGGTTC
*
903303 GATGGAATCGGGTTC
1 GATGGAATCAGGTTC
903318 GATGG
1 GATGG
903323 GATCTCGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.26
Consensus pattern (15 bp):
GATGGAATCAGGTTC
Found at i:903789 original size:7 final size:8
Alignment explanation
Indices: 903776--903836 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
903766 TTGATATTAT
903776 TAATAAAA
1 TAATAAAA
903784 -AATAAAA
1 TAATAAAA
*
903791 TAGTAAAAA
1 TAAT-AAAA
*
903800 TAAAAAAA
1 TAATAAAA
903808 TAATAAAA
1 TAATAAAA
903816 -AATTTAAAA
1 TAA--TAAAA
903825 TAATAAAA
1 TAATAAAA
903833 -AATA
1 TAATA
903837 TTTTTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
7 13 0.30
8 18 0.41
9 11 0.25
10 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
TAATAAAA
Found at i:903806 original size:8 final size:9
Alignment explanation
Indices: 903776--903833 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
903766 TTGATATTAT
903776 TAAT-AAAA
1 TAATAAAAA
903784 -AAT-AAAA
1 TAATAAAAA
*
903791 TAGTAAAAA
1 TAATAAAAA
903800 TAA-AAAAA
1 TAATAAAAA
903808 TAATAAAAA
1 TAATAAAAA
* *
903817 -ATTTAAAA
1 TAATAAAAA
903825 TAATAAAAA
1 TAATAAAAA
903834 ATATTTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 7 0.17
8 16 0.40
9 17 0.43
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
TAATAAAAA
Found at i:903823 original size:20 final size:19
Alignment explanation
Indices: 903800--903839 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
903790 ATAGTAAAAA
903800 TAAAAAAATAATAAAAAATT
1 TAAAAAAATAA-AAAAAATT
* *
903820 TAAAATAATAAAAAATATT
1 TAAAAAAATAAAAAAAATT
903839 T
1 T
903840 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAAAATAAAAAAAATT
Found at i:904463 original size:21 final size:21
Alignment explanation
Indices: 904437--904510 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
904427 ATAATATATC
904437 AAATTATTAATTTTTTAAATT
1 AAATTATTAATTTTTTAAATT
* *
904458 AAATTA-TAAATATTTAAA-T
1 AAATTATTAATTTTTTAAATT
**
904477 --ATTATTGTTTTTTTAAATT
1 AAATTATTAATTTTTTAAATT
*
904496 ATAA-TATAAATTTTT
1 A-AATTATTAATTTTT
904511 CATATACATA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
17 4 0.10
18 8 0.21
19 2 0.05
20 10 0.26
21 14 0.36
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
AAATTATTAATTTTTTAAATT
Found at i:906689 original size:30 final size:31
Alignment explanation
Indices: 906653--906719 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
906643 AGTGAATCGG
* **
906653 CGGTTCAAACC-GGTTTTGCTGGTTTTCAGC
1 CGGTTCAAACCTGGTTTTACCAGTTTTCAGC
*
906683 CGGTTC-ACCCTGGTTTTACCAGTTTTCAGC
1 CGGTTCAAACCTGGTTTTACCAGTTTTCAGC
906713 CGGTTCA
1 CGGTTCA
906720 TTGCCAGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.13, C:0.27, G:0.24, T:0.36
Consensus pattern (31 bp):
CGGTTCAAACCTGGTTTTACCAGTTTTCAGC
Found at i:911229 original size:12 final size:12
Alignment explanation
Indices: 911212--911240 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
911202 CCACTCTGGT
911212 TTTATAATGAAA
1 TTTATAATGAAA
911224 TTTATAATGAAA
1 TTTATAATGAAA
911236 TTTAT
1 TTTAT
911241 CATTTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTATAATGAAA
Found at i:911921 original size:19 final size:19
Alignment explanation
Indices: 911897--911933 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
911887 TGTTACACCT
911897 TGTTATTGTTCTTATATAA
1 TGTTATTGTTCTTATATAA
911916 TGTTATTGTTCTTATATA
1 TGTTATTGTTCTTATATA
911934 TCGTTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.59
Consensus pattern (19 bp):
TGTTATTGTTCTTATATAA
Found at i:912959 original size:230 final size:224
Alignment explanation
Indices: 912546--913002 Score: 618
Period size: 230 Copynumber: 2.0 Consensus size: 224
912536 GTAAAACGAA
* *
912546 TTCCTTCAAAGGAATGGGAATACTCTCTACTACAAGTATATGTAAATTTATACAACTTACAATAT
1 TTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATATGTAAATTTATACAACCTACAATAT
* * *
912611 CATTTTCTACCTATTATATTATATAAAATTATCGATATTTATTTTCTACCTAGAATATAAATTTC
66 CATTTTCTACCTATTATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATAAATTTA
* * *
912676 TAACTCTAATCGGTCCTAAATCTTTCTTTACTTTGAAAATGCCAAACCCATAAAACCCTAATCCC
131 TAACTCTAATAGGTCCTAAATCTTTCTTTACTTTGAAAATCCCAAAACCATAAAA--C----CCC
*
912741 TATTTCCAAATACTATAATACTAAAAAACTAGGGT
190 TATTTCCAAATACTATAATACTAAAAAACTAAGGT
* *
912776 TTCCTTTAAAGGAATGAGAATACTCTCTACTACAAGTATCA-GTACATTTATACAACCTACAATA
1 TTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTAT-ATGTAAATTTATACAACCTACAATA
* *
912840 TCATTTTCTACCTA-TATTATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACTT
65 TCATTTTCTACCTATTA-TATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATAAATT
* *
912904 TATACCTGTAATAGGT-CTCAAATGC-TTCTTTACTTTGAAAA-CCTCAAAACCATAAAACCCCT
129 TATAACTCTAATAGGTCCT-AAAT-CTTTCTTTACTTTGAAAATCC-CAAAACCATAAAACCCCT
* * *
912966 ATTTCCAATTATTGTAATACTAAAAAACTAAGGT
191 ATTTCCAAATACTATAATACTAAAAAACTAAGGT
913000 TTC
1 TTC
913003 GACAACGTAC
Statistics
Matches: 204, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
224 37 0.18
228 1 0.00
229 5 0.02
230 159 0.78
231 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (224 bp):
TTCCTTCAAAGGAATGAGAATACTCTCTACTACAAGTATATGTAAATTTATACAACCTACAATAT
CATTTTCTACCTATTATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATAAATTTA
TAACTCTAATAGGTCCTAAATCTTTCTTTACTTTGAAAATCCCAAAACCATAAAACCCCTATTTC
CAAATACTATAATACTAAAAAACTAAGGT
Found at i:915154 original size:22 final size:22
Alignment explanation
Indices: 915129--915186 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
915119 TTATTCTTCT
915129 TTTTCTTTTTTCTTTTTCAAAA
1 TTTTCTTTTTTCTTTTTCAAAA
* * ** *
915151 TTTTCTCTTTCCTTTTTTTAAG
1 TTTTCTTTTTTCTTTTTCAAAA
*
915173 TTTTCATTTTTCTT
1 TTTTCTTTTTTCTT
915187 CTTTTTTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTTTCAAAA
Found at i:915192 original size:16 final size:15
Alignment explanation
Indices: 915125--915206 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
915115 TTATTTATTC
915125 TTCTTTTTC--TTTT
1 TTCTTTTTCATTTTT
***
915138 TTCTTTTTCAAAATT
1 TTCTTTTTCATTTTT
* *
915153 TTCTCTTTCCTTTTT
1 TTCTTTTTCATTTTT
**
915168 TTAAGTTTTCATTTTT
1 TT-CTTTTTCATTTTT
*
915184 CTTCTTTTTTATTTTT
1 -TTCTTTTTCATTTTT
915200 TTCTTTT
1 TTCTTTT
915207 CAAATTGTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
13 9 0.18
15 21 0.41
16 19 0.37
17 2 0.04
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (15 bp):
TTCTTTTTCATTTTT
Found at i:921688 original size:95 final size:96
Alignment explanation
Indices: 921501--921688 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 96
921491 ACCGTTGAGA
* * *
921501 TAGTATCGATACCATTGTAAGGGTATCGATACCAATCAAACATCGAATCTAATTTTGGTATTGAT
1 TAGTATCGATACCATTGTAAGGGTATCGATACCAATCAAACATCGAACCTAATTTTGATATCGAT
*
921566 ACCGTAAGGGAGTATCAGTACCATAGTAGGG
66 ACCGGAAGGGAGTATCAGTACCATAGTAGGG
*
921597 TAGTATCGATACCA-TGTTAAGGGTATCGATACC-ATGAAACATCGAACCTAATTTTGATATCGA
1 TAGTATCGATACCATTG-TAAGGGTATCGATACCAATCAAACATCGAACCTAATTTTGATATCGA
*
921660 TACCAGGAAGGG-GTATCAGTACCCTAGTA
65 TACC-GGAAGGGAGTATCAGTACCATAGTA
921689 TAGAAGTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
95 48 0.57
96 36 0.43
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (96 bp):
TAGTATCGATACCATTGTAAGGGTATCGATACCAATCAAACATCGAACCTAATTTTGATATCGAT
ACCGGAAGGGAGTATCAGTACCATAGTAGGG
Found at i:922199 original size:45 final size:45
Alignment explanation
Indices: 922135--922494 Score: 510
Period size: 45 Copynumber: 8.0 Consensus size: 45
922125 TGAAAATAAT
* * * * *
922135 AATGTATATGGGTGCATTATCAGCATG-AAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATACTATAGTTGA
* * *
922180 AATGTATATGGGTACATTATTAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* * * *
922225 AATGTACAGGGGTGTATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
922270 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* * *
922315 AATGCATATGGGTGCATTATCAATAGAAAATTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
922360 AATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
* *
922405 AATGCATATGAGTGCATTATCAATAGAAAA-TATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
*
922449 AATGCATATGGGTGCATTATCAACAG-AAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
922493 AA
1 AA
922495 GTGCTTAATA
Statistics
Matches: 283, Mismatches: 30, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
43 3 0.01
44 54 0.19
45 226 0.80
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGA
Found at i:928867 original size:64 final size:65
Alignment explanation
Indices: 928792--928947 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
928782 ACATCCCATT
* * * *
928792 TCGAATGCATTTTATGCACCGATGCACAG-TCATGCATCGATGCACT-TAGGATTTTATTGAAAC
1 TCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGGATTGT-TTAAAAC
928855 A
65 A
* *
928856 TCGAATACATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGGCTTGTTTAAAACA
1 TCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGGATTGTTTAAAACA
* *
928921 TCTAATGTATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
928948 CCTTAGTGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 27 0.33
65 47 0.58
66 7 0.09
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (65 bp):
TCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGGATTGTTTAAAACA
Found at i:937583 original size:64 final size:65
Alignment explanation
Indices: 937511--937666 Score: 208
Period size: 65 Copynumber: 2.4 Consensus size: 65
937501 ACACCCCATT
* * *
937511 TCGAATGCATTTTATATATCGATGCACA-ACCATGCATCGATGCACT-CATAATTTTATTGAAAC
1 TCGAATGCATTTTATATATCGATGCACAGACCATGCATCGATGCACTCCAGAATTGT-TTAAAAC
937574 A
65 A
* **
937575 TCGAATGCATTTTATTTATCGATGCACAGACCATGCATCGATGCACTCCAGGCTTGTTTAAAACA
1 TCGAATGCATTTTATATATCGATGCACAGACCATGCATCGATGCACTCCAGAATTGTTTAAAACA
* **
937640 TCGAATGTATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATATATCGATGCAC
937667 CCTTAGCGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 27 0.33
65 49 0.60
66 5 0.06
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (65 bp):
TCGAATGCATTTTATATATCGATGCACAGACCATGCATCGATGCACTCCAGAATTGTTTAAAACA
Found at i:943484 original size:45 final size:45
Alignment explanation
Indices: 943430--943784 Score: 482
Period size: 45 Copynumber: 7.8 Consensus size: 45
943420 GCATGAAAGG
* * *
943430 ATACCATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAAT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAT
*
943475 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAT
943520 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAA-T
*
943566 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAT
* * * * *
943611 ATACTATAGTTGAAATGTATATGGGTACATTATGAATAGAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAT
*
943656 ATACTATAGTTGAAATGCATATGGGAGCATTATCAA-A-AAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAA-T
* * *
943700 ATATTGTAGTTGAAATACATATGGGTGCATTATCAACAGAAAAAGT
1 ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAA-T
* * * *
943746 GTGCTATAGTTGAAAGTGCTTAAT-GGTGCATTATAAACA
1 ATACTATAGTTGAAA-TGCAT-ATGGGTGCATTATCAACA
943785 TGAATGGAGG
Statistics
Matches: 278, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
43 4 0.01
44 34 0.12
45 159 0.57
46 62 0.22
47 17 0.06
48 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (45 bp):
ATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAAT
Found at i:943679 original size:136 final size:134
Alignment explanation
Indices: 943425--943760 Score: 510
Period size: 136 Copynumber: 2.5 Consensus size: 134
943415 TATCTGCATG
* * * * *
943425 AAAGGATACCATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATATACTATAGTTGAAA
1 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAA
* *
943490 TGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCA
66 TGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGAGCATTATCA
943555 ACAGAA
131 A-A-AA
943561 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAA
1 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAA
* * *
943626 TGTATATGGGTACATTATGAATAGAAAAGTATACTATAGTTGAAATGCATATGGGAGCATTATCA
66 TGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGAGCATTATCA
943691 AAAA
131 AAAA
* * * * *
943695 AAAGTATATTGTAGTTGAAATACATATGGGTGCATTATCAACAGAAAAAGTGTGCTATAGTTGAA
1 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAG-AAAAGTATACTATAGTTGAA
943760 A
65 A
943761 GTGCTTAATG
Statistics
Matches: 184, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
134 43 0.23
135 20 0.11
136 121 0.66
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (134 bp):
AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAA
TGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGAGCATTATCA
AAAA
Found at i:944783 original size:55 final size:55
Alignment explanation
Indices: 944680--945207 Score: 686
Period size: 55 Copynumber: 9.6 Consensus size: 55
944670 TACAAATATG
* * * * *
944680 GAAATTTATACACTTACTATGAATTTCCT-AGTTTTTCACATAAAGTGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCCATACA
* * * * *
944735 GAAATTCATCCACCTAGTATGAATTCCTTAAGTTTACACACAAGGTGCCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
944790 GAAATTCATCCGCTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* * * * * *
944845 AAAATTCATCCA--TACTATGAATTTATTAAGTTTACACACAAGGTGCCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
*
944898 GAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
944953 GAAATTAATCCACTTAGTATGAATTTCTTAAGTTTACACATAAGGTGCCCATAC-
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* * * * *
945007 GAAAATTCATCTACTTAGTATGAATTTCTTAAATTTACACATAAAGTTCCTATATA
1 G-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* * * * *
945063 GAAATTCATCCATTTAGTATGAATTTCTTAAGTTCACACACAAGGTGCCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* * *
945118 GAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGTCCATGCA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
* *
945173 AAAATTCATCCACTCAGTATGAATTTCTTAAGTTT
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
945208 TTGCACACCT
Statistics
Matches: 405, Mismatches: 63, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.11
54 1 0.00
55 355 0.88
56 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (55 bp):
GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACA
Found at i:944884 original size:110 final size:109
Alignment explanation
Indices: 944679--945207 Score: 799
Period size: 110 Copynumber: 4.8 Consensus size: 109
944669 CTACAAATAT
* * * * ** *
944679 GGAAATTTATACACTTACTATGAATTTCCTAGTTTTTCACATAAAGTGCCCATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
*
944744 CCACCTAGTATGAATTCCTTAAGTTTACACACAAGGTGCCCATAC
66 CCA-CTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
* *
944789 GGAAATTCATCCGCTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAAAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
* *
944854 CCA-TACTATGAATTTATTAAGTTTACACACAAGGTGCCCATAC
66 CCACTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
*
944897 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTAAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
*
944962 CCACTTAGTATGAATTTCTTAAGTTTACACATAAGGTGCCCATAC
66 CCAC-TAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
* * * * *
945007 GAAAATTCATCTACTTAGTATGAATTTCTTAAATTTACACATAAAGTTCCTATATAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
* *
945072 CCATTTAGTATGAATTTCTTAAGTTCACACACAAGGTGCCCATAC
66 CCA-CTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
* * *
945117 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGTCCATGCAAAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
945182 CCACTCAGTATGAATTTCTTAAGTTT
66 CCACT-AGTATGAATTTCTTAAGTTT
945208 TTGCACACCT
Statistics
Matches: 378, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
108 102 0.27
109 1 0.00
110 275 0.73
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (109 bp):
GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
CCACTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
Found at i:945070 original size:218 final size:219
Alignment explanation
Indices: 944679--945207 Score: 817
Period size: 218 Copynumber: 2.4 Consensus size: 219
944669 CTACAAATAT
* * * * ** *
944679 GGAAATTTATACACTTACTATGAATTTCCTAGTTTTTCACATAAAGTGCCCATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
* * * *
944744 CCACCTAGTATGAATTCCTTAAGTTTACACACAAGGTGCCCATACGGAAATTCATCCGCTTAGTA
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACGAAAATTCATCCACTTAGTA
944809 TGAATTTCTTAAATTTACACATAAAGTGCCCATACAAAAATTCATCCA-TACTATGAATTTATTA
131 TGAATTTCTTAAATTTACACATAAAGTGCCCATACAAAAATTCATCCATTACTATGAATTTATTA
*
944873 AGTTTACACACAAGGTGCCCATAC
196 AGTTCACACACAAGGTGCCCATAC
*
944897 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTAAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
* *
944962 CCACTTAGTATGAATTTCTTAAGTTTACACATAAGGTGCCCATACGAAAATTCATCTACTTAGTA
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACGAAAATTCATCCACTTAGTA
* * * * * *
945027 TGAATTTCTTAAATTTACACATAAAGTTCCTATATAGAAATTCATCCATTTAGTATGAATTTCTT
131 TGAATTTCTTAAATTTACACATAAAGTGCCCATACAAAAATTCATCCA-TTACTATGAATTTATT
945092 AAGTTCACACACAAGGTGCCCATAC
195 AAGTTCACACACAAGGTGCCCATAC
* * *
945117 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGTCCATGCAAAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
*
945182 CCACTCAGTATGAATTTCTTAAGTTT
66 CCACTTAGTATGAATTTCTTAAGTTT
945208 TTGCACACCT
Statistics
Matches: 283, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
218 160 0.57
220 123 0.43
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (219 bp):
GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACGAAAATTCATCCACTTAGTA
TGAATTTCTTAAATTTACACATAAAGTGCCCATACAAAAATTCATCCATTACTATGAATTTATTA
AGTTCACACACAAGGTGCCCATAC
Found at i:945645 original size:20 final size:20
Alignment explanation
Indices: 945616--945665 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
945606 TGTTTTGAAT
945616 GGTATCGATACC-CTCCCTTC
1 GGTATCGATACCTCT-CCTTC
* *
945636 GGTATTGATACTTCTCCTTC
1 GGTATCGATACCTCTCCTTC
945656 GGTATCGATA
1 GGTATCGATA
945666 TTGATTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (20 bp):
GGTATCGATACCTCTCCTTC
Found at i:950362 original size:55 final size:55
Alignment explanation
Indices: 950258--950787 Score: 713
Period size: 55 Copynumber: 9.6 Consensus size: 55
950248 TACAAATATG
* * * * * **
950258 GAAATTTATACACTTAGTATGAATTTCCT-AGTTTTTCACATAAAATGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACACAAGGTGCCCATACA
* * * * **
950313 TAAATTCATCCACTTATTATGAATTCCTTAAGTTTACATACAAGGTGCCCATATG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* ** * *
950368 GAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACTTAATGTGCCGATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* *
950423 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGTCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* * * *
950478 GAAATTCATCCACTTAGTATGATTTTCTTAAATTTACACATAAAGTGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
950533 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC-
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* * * * *
950587 GAAAATTCATCCACTTAGTATTAATTTCTTAAATTTACATATAAAGTGCCCATACA
1 G-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* *
950643 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTACCCATACG
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
* * * *
950698 GAAATTCATCCACTTAGTATGAATTCCTTAAATTTACACATAAAGTGCCCATACA
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
950753 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
1 GAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
950788 TTGCACACTT
Statistics
Matches: 411, Mismatches: 61, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
54 1 0.00
55 407 0.99
56 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (55 bp):
GAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATACA
Found at i:950446 original size:110 final size:110
Alignment explanation
Indices: 950257--950787 Score: 864
Period size: 110 Copynumber: 4.8 Consensus size: 110
950247 CTACAAATAT
* * * ** * * *
950257 GGAAATTTATACACTTAGTATGAATTTCCTAGTTTTTCACATAAAATGCCCATACATAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
* * * *
950322 CCACTTATTATGAATTCCTTAAGTTTACATACAAGGTGCCCATAT
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
* * *
950367 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACTTAATGTGCCGATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
*
950432 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGTCCATAC
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
*
950477 GGAAATTCATCCACTTAGTATGATTTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
950542 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
* * *
950587 GAAAATTCATCCACTTAGTATTAATTTCTTAAATTTACATATAAAGTGCCCATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
*
950652 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTACCCATAC
66 CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
*
950697 GGAAATTCATCCACTTAGTATGAATTCCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
950762 CCACTTAGTATGAATTTCTTAAGTTT
66 CCACTTAGTATGAATTTCTTAAGTTT
950788 TTGCACACTT
Statistics
Matches: 391, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 391 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (110 bp):
GGAAATTCATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAGAAATTCAT
CCACTTAGTATGAATTTCTTAAGTTTACACACAAGGTGCCCATAC
Found at i:951176 original size:19 final size:21
Alignment explanation
Indices: 951133--951179 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
951123 TACCCCTACC
951133 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTACTATA-T
951155 ATGGTATCGATACT-CTAT-T
1 ATGGTATCGATACTACTATAT
951174 ATGGTA
1 ATGGTA
951180 ACTGATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.28
21 4 0.16
22 14 0.56
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGGTATCGATACTACTATAT
Found at i:966535 original size:22 final size:22
Alignment explanation
Indices: 966507--966561 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
966497 TACTCAAGGG
966507 GTATCGATACTGTAAAACCTAA
1 GTATCGATACTGTAAAACCTAA
966529 GTATCGATACTGTAAAACCTAA
1 GTATCGATACTGTAAAACCTAA
*
966551 GTATTGATACT
1 GTATCGATACT
966562 AACAAGTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (22 bp):
GTATCGATACTGTAAAACCTAA
Found at i:974207 original size:1 final size:1
Alignment explanation
Indices: 974201--974276 Score: 89
Period size: 1 Copynumber: 76.0 Consensus size: 1
974191 AAGAAAGAAG
* * * * * *
974201 AAAAAAATAAAAAAAATAAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
974266 AAAAAGAAAAA
1 AAAAAAAAAAA
974277 GGAGAGAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.03
Consensus pattern (1 bp):
A
Found at i:974207 original size:32 final size:29
Alignment explanation
Indices: 974158--974274 Score: 99
Period size: 27 Copynumber: 4.1 Consensus size: 29
974148 TATGATTGAA
*
974158 AAAGAAA-AAGAACAAAAAAAGAAAAATCCAG
1 AAAGAAAGAA-AAAAAAAAAAGAAAAAT--AG
974189 CAAAGAAAGAAGAAAAAAATAAA-AAAAATA-
1 -AAAGAAAGAA-AAAAAAA-AAAGAAAAATAG
974219 AAA-AAAGAAAAAAGAAAAAAGAAAAA-A-
1 AAAGAAAGAAAAAA-AAAAAAGAAAAATAG
974246 AAAGAAA-AAAAAAAAAAAA-AAAAA-AG
1 AAAGAAAGAAAAAAAAAAAAGAAAAATAG
974272 AAA
1 AAA
974275 AAGGAGAGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 18
0.80 0.01 0.19
Matches are distributed among these distances:
25 6 0.08
26 9 0.12
27 17 0.22
28 17 0.22
29 3 0.04
31 1 0.01
32 7 0.09
33 15 0.19
34 3 0.04
ACGTcount: A:0.84, C:0.03, G:0.10, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAAAAAAAAAAAAGAAAAATAG
Found at i:974233 original size:39 final size:39
Alignment explanation
Indices: 974190--974276 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
974180 AAAATCCAGC
* * *
974190 AAAGAAAGAAGAAAAAAATAA-AAAAAATAAAAAAAGAAA
1 AAAGAAAAAAGAAAAAAA-AAGAAAAAAAAAAAAAAAAAA
974229 AAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAAAAAA
1 AAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAAAAAA
974268 AAAGAAAAA
1 AAAGAAAAA
974277 GGAGAGAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (39 bp):
AAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAAAAAA
Found at i:974275 original size:32 final size:32
Alignment explanation
Indices: 974201--974276 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
974191 AAGAAAGAAG
* * *
974201 AAAAAAA-TAAAAAAAATAAAAAAAGAAAAAA
1 AAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAA
*
974232 GAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAA
974264 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
974277 GGAGAGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 6 0.15
32 33 0.85
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.03
Consensus pattern (32 bp):
AAAAAAAGAAAAAAAAAGAAAAAAAAAAAAAA
Found at i:977511 original size:75 final size:74
Alignment explanation
Indices: 977337--977511 Score: 192
Period size: 74 Copynumber: 2.4 Consensus size: 74
977327 AACAAGAAGC
* * * *
977337 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCCAAATCAGAAATGTTAAAATATTCTGAATAT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCCAAATCAGAAATGTTAAAACATTCTGAAAAT
977402 TTATCAGCA
66 TTATCAGCA
* * * ** *
977411 AAATGCTGGGGCATGCTGAAAGCCCATTTCAAT-CAGAATCAGAACTGTTGATGCATTTTGAACA
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCCA-AATCAGAAATGTTAAAACATTCTGAA-A
*
977475 ATTGTATTAGC-
64 ATT-TATCAGCA
* *
977486 CAATGTTGGGGCATGCTGAAGGCCCA
1 AAATGTTGGGGCATGCTGAAAGCCCA
977512 CAACATCCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
73 2 0.02
74 50 0.60
75 26 0.31
76 6 0.07
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (74 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCCAAATCAGAAATGTTAAAACATTCTGAAAAT
TTATCAGCA
Found at i:978876 original size:22 final size:22
Alignment explanation
Indices: 978845--978899 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
978835 ATCTACACTC
*
978845 TTCAAAGATGATAAATTC-CTTT
1 TTCAAAGATGACAAATTCTC-TT
* *
978867 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAAATTCTCTT
978889 TTCAAAGATGA
1 TTCAAAGATGA
978900 AAACTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCTCTT
Found at i:979476 original size:113 final size:112
Alignment explanation
Indices: 979332--979932 Score: 710
Period size: 113 Copynumber: 5.4 Consensus size: 112
979322 AACATTTCCG
* * *
979332 GAAG-AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATCAA
* * *
979396 CATTGCCAGGTAGAGTTCATAATGAGAAGAAATCATCTGAAGAAAGAA
66 CATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
* * * * *
979444 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG-TTCAAATCCAT-A-ACAACGGATCA
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT-GAATTCATCACTCGATGGATCA
* * * *
979506 ACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATATGAAGAAGAAA
65 ACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
* * * * *
979555 GAAGAAGTTTATAATGAGAAGAACTTATTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATCAA
* *
979620 CATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
66 CATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
* * * *
979668 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGGTGGATCAG
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATCAA
* * *
979733 CAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
66 CATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
* * * * * * * *
979780 GAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGAATTAT
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATCAA
** * * *
979845 TTTTTCCAGAG-AAAGTTCTTAATGAGAAGAACTTATCTGAAGAGGAA
66 CATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
* *
979892 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCT
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
979933 CGACTCTATC
Statistics
Matches: 419, Mismatches: 62, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
111 89 0.21
112 146 0.35
113 184 0.44
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (112 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATCAA
CATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
Found at i:979899 original size:224 final size:224
Alignment explanation
Indices: 979338--979932 Score: 754
Period size: 224 Copynumber: 2.7 Consensus size: 224
979328 TCCGGAAGAG
* * *
979338 TTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCA-TTGATGGATCAACATTACC
* * *
979403 AGGTAGAGTTCATAATGAGAAGAAATCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAAC
65 AGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
** *
979468 TTGTTCAACTTTTTG-TTCAAATCCATAACAACGGATCAACTTTTCCAGAGAAAGTTCATAATGA
130 TTGTTCAACTTTTTGCTTCAAATCCATAACAACGGATCAACAGTGCCAGAGAAAGTTCATAATGA
*
979532 GAAGAACTCATATGAAGAAGAAAGAAGAAG
195 GAAGAACTCATATGAAGAAGAAAGAAGAAA
* * *
979562 TTTATAATGAGAAGAACTTATTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTAC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCATT-GATGGATCAACATTAC
*
979626 CAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
64 CAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
* * * * ** *
979691 CTTGTTCAACTTTTTGCTT-AAATTCATCAC-CCGGTGGATCAGCAGTGCCAGTTAGAGTTCATA
129 CTTGTTCAACTTTTTGCTTCAAATCCATAACAAC---GGATCAACAGTGCCAGAGAAAGTTCATA
* *
979754 ATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAA
191 ATGAGAAGAACTCATATGAAGAAGAAAGAAGAAA
* * * * *** *
979787 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGAATTATTTTTTCC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCA-TTGATGGATCAACATTACC
* * *
979852 AGAG-AAAGTTCTTAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAG
65 AG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
*
979915 CTTGTTCAACCTTTTGCT
129 CTTGTTCAACTTTTTGCT
979933 CGACTCTATC
Statistics
Matches: 324, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
223 7 0.02
224 180 0.56
225 88 0.27
226 49 0.15
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (224 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTGATGGATCAACATTACCA
GGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
TGTTCAACTTTTTGCTTCAAATCCATAACAACGGATCAACAGTGCCAGAGAAAGTTCATAATGAG
AAGAACTCATATGAAGAAGAAAGAAGAAA
Found at i:985272 original size:16 final size:16
Alignment explanation
Indices: 985251--985287 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
985241 GTCTCCAACG
985251 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
985267 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
985283 TTTAT
1 TTTAT
985288 TTATTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:985373 original size:16 final size:16
Alignment explanation
Indices: 985352--985384 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
985342 AAAAAAAAAT
985352 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
985368 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
985384 T
1 T
985385 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:987829 original size:17 final size:17
Alignment explanation
Indices: 987807--987843 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
987797 TATTAATCAA
987807 TTAATTCAAATTAAATT
1 TTAATTCAAATTAAATT
*
987824 TTAATTCAAATTGAATT
1 TTAATTCAAATTAAATT
987841 TTA
1 TTA
987844 CAGAGATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (17 bp):
TTAATTCAAATTAAATT
Found at i:991094 original size:22 final size:23
Alignment explanation
Indices: 991069--991112 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
991059 GGGTATATTT
*
991069 ATATAAATA-ACATAAAATTTTC
1 ATATAAATACAAATAAAATTTTC
*
991091 ATATAGATACAAATAAAATTTT
1 ATATAAATACAAATAAAATTTT
991113 TAGGTGGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAATACAAATAAAATTTTC
Found at i:992245 original size:34 final size:33
Alignment explanation
Indices: 992169--992275 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
992159 GTGGTAAAAA
* *
992169 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
992203 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
992238 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
992272 ATTT
1 ATTT
992276 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:992257 original size:36 final size:34
Alignment explanation
Indices: 992202--992280 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
992192 TTTAAATAGT
*
992202 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
992234 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
992268 TATTATTTATTTA
1 TATTATTTTTTTA
992281 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:995601 original size:12 final size:13
Alignment explanation
Indices: 995568--995605 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
995558 AAATACATAA
995568 ATATATTTAATAT
1 ATATATTTAATAT
*
995581 ATTTATTTAATAT
1 ATATATTTAATAT
995594 A-ATATTTAATAT
1 ATATATTTAATAT
995606 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:996525 original size:20 final size:20
Alignment explanation
Indices: 996500--996550 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
996490 TATTATTCAA
996500 AAAAATATTAATAATACTTT
1 AAAAATATTAATAATACTTT
** *
996520 AAAAATATTTTTTTATACTTT
1 AAAAATA-TTAATAATACTTT
996541 AAAAAT-TTAA
1 AAAAATATTAA
996551 CAATTATCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 7 0.28
21 16 0.64
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATATTAATAATACTTT
Found at i:997811 original size:19 final size:19
Alignment explanation
Indices: 997787--997835 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
997777 ATGACCAACA
997787 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
997806 AAATCGCAACGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
997825 ATTATCGCAAT
1 A-AATCGCAAT
997836 TCAGTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:997920 original size:21 final size:19
Alignment explanation
Indices: 997849--997942 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 19
997839 GTTTTCAGAT
* *
997849 TCGCAACGCGATTTTGACCA
1 TCGCAATGCGATTTTGA-AA
*
997869 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTT-GAAA
**
997889 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GA-AA
* *
997911 TCGCAATGCGAATATGAAAA
1 TCGCAATGCGATTTTG-AAA
*
997931 TCGCAACGCGAT
1 TCGCAATGCGAT
997943 AACACGTGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 28 0.47
21 28 0.47
22 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (19 bp):
TCGCAATGCGATTTTGAAA
Found at i:997976 original size:20 final size:20
Alignment explanation
Indices: 997951--998097 Score: 217
Period size: 20 Copynumber: 7.3 Consensus size: 20
997941 ATAACACGTG
997951 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
997971 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
997991 ATCGCAACGCGAAAATAC-G-CG
1 ATCGCAACGCG---ATTCTGACT
998012 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
998032 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
998052 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
998072 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
998092 AACGCA
1 ATCGCA
998098 TCACTGAATT
Statistics
Matches: 115, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
18 3 0.03
19 1 0.01
20 95 0.83
21 12 0.10
22 1 0.01
23 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Done.