Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009070.1 Hibiscus syriacus cultivar Beakdansim tig00112498_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: 2268343
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:842563 original size:103 final size:103
Alignment explanation
Indices: 842438--842758 Score: 624
Period size: 103 Copynumber: 3.1 Consensus size: 103
842428 TAATGTCCAT
842438 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
842503 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
842541 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
842606 GACTTCACACATGTTCCAAATAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
842644 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
842709 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
842747 AAGGACCACATA
1 AAGGACCACATA
842759 GACCCTCGAC
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 215 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:844229 original size:21 final size:21
Alignment explanation
Indices: 844205--844249 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
844195 TTTTGTTCGT
* *
844205 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
844226 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
844247 TTG
1 TTG
844250 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:845780 original size:3 final size:3
Alignment explanation
Indices: 845772--845808 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
845762 TTAATATTAG
*
845772 TAA TAA TAA TAA TAA TAA TGA TAA TAA -AA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
845809 AAAAAGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:848675 original size:28 final size:31
Alignment explanation
Indices: 848619--848676 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
848609 CGATGGAGAC
*
848619 ATGGAGATTACACGAAAAAGATTGAAGAATGG
1 ATGGAGATTACAC-AAAAAGAGTGAAGAATGG
848651 ATGGAGATT-CA-AAAAAGAGTG-AGAAT
1 ATGGAGATTACACAAAAAGAGTGAAGAAT
848677 ATACGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 5 0.20
29 9 0.36
31 2 0.08
32 9 0.36
ACGTcount: A:0.48, C:0.05, G:0.28, T:0.19
Consensus pattern (31 bp):
ATGGAGATTACACAAAAAGAGTGAAGAATGG
Found at i:850184 original size:108 final size:108
Alignment explanation
Indices: 850040--850323 Score: 372
Period size: 108 Copynumber: 2.6 Consensus size: 108
850030 AAACGGTAAG
* * *
850040 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATGAACATATTATGTTACACCTAAAATGTT
1 AAAATAAGTTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTTACACCTAAAATGTT
*
850105 ACCAAAATTTAAGTTGATGAGGCCTTAGAAATCACACGATAAAA
66 ACCAAAATTTAAGCTGATGAGGCCTTAGAAATCACACGA-AAAA
* *
850149 AAAATAAGTTAATTA-TTATTTTGTTATCAATATTATCAACATATTAGGTTGCACCTAAAATGTT
1 AAAATAAGTTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTTACACCTAAAATGTT
* ** * *
850213 ACCAAAGTTTAAGCTGATGAGGCCTTAGAAATTTCACGACAAC
66 ACCAAAATTTAAGCTGATGAGGCCTTAGAAATCACACGAAAAA
* * * ** * *
850256 AAAATATGTTAAATACGTATTTTGTTATAAATAAAGATTAACATATTAGGTTACGCCTAATAATG
1 AAAATAAGTTAATTACTTATTTTGTTATAAAT-ATTATCAACATATTAGGTTACACCTAA-AATG
850321 TTA
64 TTA
850324 TTGTGAATAA
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
107 15 0.10
108 94 0.61
109 37 0.24
110 7 0.05
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (108 bp):
AAAATAAGTTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTTACACCTAAAATGTT
ACCAAAATTTAAGCTGATGAGGCCTTAGAAATCACACGAAAAA
Found at i:851101 original size:20 final size:20
Alignment explanation
Indices: 851078--851126 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
851068 CGAAAGTGTC
851078 GATATTTATACGAAAATATT
1 GATATTTATACGAAAATATT
* * *
851098 GATATTTGTAGGAAAGTATT
1 GATATTTATACGAAAATATT
851118 GATACTTTA
1 GATA-TTTA
851127 CAACCTTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
GATATTTATACGAAAATATT
Found at i:855039 original size:64 final size:63
Alignment explanation
Indices: 854971--855126 Score: 163
Period size: 63 Copynumber: 2.5 Consensus size: 63
854961 TTGAAGGTGT
** ***
854971 ATCGATGCATTGGTAATGCATCGATGCACTCTTTTAA-AATAGAAACATCGAATGCA-ATTAGTG
1 ATCGATGCATAAGTAATGCATCGATGCA-TCCAGTAATAATA-AAACATCGAATGCATATTA-TG
855034 C
63 C
* * * *
855035 ATCGATGCAGAAGTCATGCATCGATGCATCCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAATGCATCGATGCATCCAGTAATAATAAAACATCGAATGCATATTATGC
* * *
855098 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAATGCATCGATGCAT
855127 ACCCTCATTA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
63 45 0.59
64 31 0.41
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAATGCATCGATGCATCCAGTAATAATAAAACATCGAATGCATATTATGC
Found at i:855774 original size:149 final size:149
Alignment explanation
Indices: 855581--855895 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
855571 GGGTAGAGGG
* *
855581 TCTATGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
855646 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
855711 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
855730 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
855795 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
*
855860 TATGGTACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
855879 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
855896 TGCATTTATA
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:858613 original size:19 final size:19
Alignment explanation
Indices: 858589--858627 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
858579 TCGAATGCAT
858589 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
858608 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
858627 T
1 T
858628 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:858644 original size:65 final size:64
Alignment explanation
Indices: 858526--858735 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
858516 TATTCAAAGG
** *
858526 CATGCATCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCA
*
858588 TTC
62 TTT
* *** *
858591 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATT
1 CATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCATT
858655 T
64 T
* * ** *
858656 GATGCATCGATACACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATTGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
858720 CATGCATCGATGCACA
1 CATGCATCGATGCACA
858736 CTTGGTGCAC
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
63 6 0.05
64 51 0.43
65 62 0.52
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
Found at i:858750 original size:64 final size:64
Alignment explanation
Indices: 858526--858755 Score: 216
Period size: 64 Copynumber: 3.6 Consensus size: 64
858516 TATTCAAAGG
* * *
858526 CATGCATCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
858588 TTC
62 TTT
* * *
858591 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* * ** ** *
858656 GATGCATCGATACACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATTGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
858720 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
858756 AGTGTTCCAA
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
63 6 0.04
64 67 0.50
65 62 0.46
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:866176 original size:21 final size:21
Alignment explanation
Indices: 866134--866177 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
866124 ACCCCGGGAG
*
866134 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
866155 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
866176 CT
1 CT
866178 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:867241 original size:19 final size:19
Alignment explanation
Indices: 867217--867255 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
867207 TCGAATGCAT
867217 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
867236 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
867255 T
1 T
867256 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:867272 original size:65 final size:63
Alignment explanation
Indices: 867154--867362 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
867144 TATTCAAAGG
* *
867154 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATAT-TTTCAAACATCGAATGCA
*
867216 TTC
61 TTT
867219 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * ** *
867284 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATACATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATA-TTTTCAAACATCGAATGCATTT
*
867348 CATGCATCGATGCAC
1 CATGCACCGATGCAC
867363 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.42
65 64 0.51
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATATTTTCAAACATCGAATGCATTT
Found at i:867357 original size:64 final size:65
Alignment explanation
Indices: 867203--867363 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
867193 GAATTAATTG
* * *** *
867203 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
867268 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
867331 A
65 A
*
867332 AACATCGAATACATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
867364 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:867378 original size:64 final size:64
Alignment explanation
Indices: 867154--867383 Score: 216
Period size: 64 Copynumber: 3.6 Consensus size: 64
867144 TATTCAAAGG
* * * *
867154 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
867216 TTC
62 TTT
* * *
867219 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** ** *
867284 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATACATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
867348 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
867384 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 6 0.04
64 68 0.49
65 64 0.46
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:881276 original size:26 final size:26
Alignment explanation
Indices: 881242--881298 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
881232 AACATTATAA
*
881242 AATTTTATAGGCTCAAATTTAGAAAT
1 AATTCTATAGGCTCAAATTTAGAAAT
881268 AATTCTATAGGCTCAAATTTAGAAAT
1 AATTCTATAGGCTCAAATTTAGAAAT
881294 AATTC
1 AATTC
881299 AACGCTCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (26 bp):
AATTCTATAGGCTCAAATTTAGAAAT
Found at i:884831 original size:11 final size:11
Alignment explanation
Indices: 884817--884863 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
884807 TGTTAGAGTA
884817 TTATTAGTTTG
1 TTATTAGTTTG
* *
884828 TTA-TGGGTTG
1 TTATTAGTTTG
* *
884838 TTATTAGCTGG
1 TTATTAGTTTG
884849 TTATTAGTTTG
1 TTATTAGTTTG
884860 TTAT
1 TTAT
884864 GTTGGTTACT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.57
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:886555 original size:11 final size:11
Alignment explanation
Indices: 886541--886609 Score: 95
Period size: 11 Copynumber: 6.4 Consensus size: 11
886531 TGTTAGAGTA
886541 TTATTAGTTTG
1 TTATTAGTTTG
886552 TTATTAGTTTG
1 TTATTAGTTTG
886563 TTATTAGTTTG
1 TTATTAGTTTG
* *
886574 TTA-TGGGTTG
1 TTATTAGTTTG
* *
886584 TTATTAGCTGG
1 TTATTAGTTTG
886595 TTATTAGTTTG
1 TTATTAGTTTG
886606 TTAT
1 TTAT
886610 GTTGGTTACT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
10 8 0.16
11 42 0.84
ACGTcount: A:0.17, C:0.01, G:0.22, T:0.59
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:886585 original size:32 final size:32
Alignment explanation
Indices: 886549--886610 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
886539 TATTATTAGT
* *
886549 TTGTTATTAGTTTGTTATTAGTTTGTTATGGG
1 TTGTTATTAGCTGGTTATTAGTTTGTTATGGG
886581 TTGTTATTAGCTGGTTATTAGTTTGTTATG
1 TTGTTATTAGCTGGTTATTAGTTTGTTATG
886611 TTGGTTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.16, C:0.02, G:0.24, T:0.58
Consensus pattern (32 bp):
TTGTTATTAGCTGGTTATTAGTTTGTTATGGG
Found at i:890364 original size:16 final size:16
Alignment explanation
Indices: 890326--890371 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
890316 CTCCATTAAC
*
890326 ATTCTTATCGCTCTCT
1 ATTCTTATCTCTCTCT
*
890342 ACGTTCTTCTCTCTCTCT
1 A--TTCTTATCTCTCTCT
890360 ATTCTTATCTCT
1 ATTCTTATCTCT
890372 ACATTTATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.11, C:0.33, G:0.04, T:0.52
Consensus pattern (16 bp):
ATTCTTATCTCTCTCT
Found at i:892828 original size:57 final size:56
Alignment explanation
Indices: 892737--892852 Score: 196
Period size: 57 Copynumber: 2.1 Consensus size: 56
892727 GAATTTGAGA
892737 TTAAAGGCCTAAGCATTTTTACATGTTCACCTAATGTTAAACTTACCAGTCTTGAC
1 TTAAAGGCCTAAGCATTTTTACATGTTCACCTAATGTTAAACTTACCAGTCTTGAC
* * *
892793 TTAAAGGCCTAAGCATTTTTTACATGTTCACCTAATGTTAAACTTATCGGTTTTGAC
1 TTAAAGGCCTAAGCA-TTTTTACATGTTCACCTAATGTTAAACTTACCAGTCTTGAC
892850 TTA
1 TTA
892853 CTACTAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 15 0.27
57 41 0.73
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (56 bp):
TTAAAGGCCTAAGCATTTTTACATGTTCACCTAATGTTAAACTTACCAGTCTTGAC
Found at i:894717 original size:30 final size:30
Alignment explanation
Indices: 894681--894748 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
894671 TCTTATGTTA
* *
894681 ATAAAATTATTTTATATTAATGGTAAATTT
1 ATAAAATTATTTTATATCAATGATAAATTT
*
894711 ATAAAATTATTTTATGTCAATGATAAATTT
1 ATAAAATTATTTTATATCAATGATAAATTT
894741 ATAAAATT
1 ATAAAATT
894749 TTGAAGAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (30 bp):
ATAAAATTATTTTATATCAATGATAAATTT
Found at i:896645 original size:2 final size:2
Alignment explanation
Indices: 896640--896673 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
896630 TCTCTCTTTC
896640 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
896674 CTCTAGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:900607 original size:18 final size:18
Alignment explanation
Indices: 900586--900625 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
900576 GAGGGAGGAA
900586 AAAAAT-AATAAATAAAAT
1 AAAAATGAATAAAT-AAAT
*
900604 AAAAATGGATAAATAAAT
1 AAAAATGAATAAATAAAT
900622 AAAA
1 AAAA
900626 TAAAAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAATGAATAAATAAAT
Found at i:900607 original size:19 final size:21
Alignment explanation
Indices: 900584--900631 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
900574 AAGAGGGAGG
*
900584 AAAAAAAT-AATAAATAAAAT
1 AAAAAGATAAATAAATAAAAT
900604 AAAAATGGATAAATAAATAAAAT
1 AAAAA--GATAAATAAATAAAAT
900627 AAAAA
1 AAAAA
900632 TGGAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
22 2 0.08
23 17 0.71
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAAGATAAATAAATAAAAT
Found at i:900622 original size:23 final size:24
Alignment explanation
Indices: 900592--900643 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
900582 GGAAAAAAAT
900592 AATAAATAAAATAAAAATGG-ATA
1 AATAAATAAAATAAAAATGGAATA
900615 AATAAATAAAATAAAAATGGAATA
1 AATAAATAAAATAAAAATGGAATA
900639 AATAA
1 AATAA
900644 TTAATGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (24 bp):
AATAAATAAAATAAAAATGGAATA
Found at i:901600 original size:28 final size:29
Alignment explanation
Indices: 901566--901626 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
901556 GGTTGGAGGT
901566 TGTGACTATTTCGGGTTGTTGGAGTTCC-
1 TGTGACTATTTCGGGTTGTTGGAGTTCCA
*
901594 TGTGACTATTTTGGGTTGTTGGAGTTCCA
1 TGTGACTATTTCGGGTTGTTGGAGTTCCA
901623 TGTG
1 TGTG
901627 TTTACGTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.11, C:0.11, G:0.33, T:0.44
Consensus pattern (29 bp):
TGTGACTATTTCGGGTTGTTGGAGTTCCA
Found at i:901965 original size:2 final size:2
Alignment explanation
Indices: 901955--901999 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
901945 TAAAAAAATA
* *
901955 AT AT TT AT AT A- AT AT AT AT AT AT AT AT AT AT A- AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
901994 AT AT AT
1 AT AT AT
902000 GGTCATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:902586 original size:99 final size:101
Alignment explanation
Indices: 902452--902632 Score: 296
Period size: 99 Copynumber: 1.8 Consensus size: 101
902442 GAGATTATTT
902452 GTTGACAGTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGAG-TC-CAATAT-CC
1 GTTGACAGTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGAGTTCACAAT-TCCC
*
902514 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
65 TTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
* * *
902551 GTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGTGTTCACGATTCCCT
1 GTTGACAGTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGAGTTCACAATTCCCT
902616 TCGTCGTGAAGTTGAAA
66 TCGTCGTGAAGTTGAAA
902633 CCGCGGGTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
99 50 0.67
100 3 0.04
101 22 0.29
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (101 bp):
GTTGACAGTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGAGTTCACAATTCCCT
TCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
Found at i:903694 original size:5 final size:5
Alignment explanation
Indices: 903684--903758 Score: 55
Period size: 5 Copynumber: 15.0 Consensus size: 5
903674 ACCCACCTTA
* * * *
903684 TTTTC TTTTC TTTT- TTTTG TTTTT TTTTC TCTT- TTCTC TTTTC TTTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
* * *
903733 TTTTG TTTTT TTTTC TCTTTT TTTTC
1 TTTTC TTTTC TTTTC T-TTTC TTTTC
903759 AACTTATGAC
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
4 6 0.11
5 40 0.73
6 9 0.16
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:903718 original size:7 final size:7
Alignment explanation
Indices: 903687--903753 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
903677 CACCTTATTT
903687 TCTTTTC
1 TCTTTTC
* *
903694 TTTTTTT
1 TCTTTTC
*
903701 TGTTTT-
1 TCTTTTC
903707 T-TTTTC
1 TCTTTTC
903713 TCTTTTC
1 TCTTTTC
903720 TCTTTTC
1 TCTTTTC
903727 T-TTTTC
1 TCTTTTC
* *
903733 TTTTGTTT
1 TCTT-TTC
*
903741 TTTTTTC
1 TCTTTTC
903748 TCTTTT
1 TCTTTT
903754 TTTTCAACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 4 0.08
6 8 0.16
7 32 0.64
8 6 0.12
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (7 bp):
TCTTTTC
Found at i:903725 original size:33 final size:35
Alignment explanation
Indices: 903687--903753 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
903677 CACCTTATTT
903687 TCTTTTC-TTTT-TTTTGTTTTTTTTTCTCTTTTC
1 TCTTTTCTTTTTCTTTTGTTTTTTTTTCTCTTTTC
903720 TCTTTTCTTTTTCTTTTGTTTTTTTTTCTCTTTT
1 TCTTTTCTTTTTCTTTTGTTTTTTTTTCTCTTTT
903754 TTTTCAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 7 0.22
34 4 0.12
35 21 0.66
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (35 bp):
TCTTTTCTTTTTCTTTTGTTTTTTTTTCTCTTTTC
Found at i:905421 original size:21 final size:21
Alignment explanation
Indices: 905395--905434 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
905385 TGATTTATGG
*
905395 TCAAGGGGAATCGGTACCCAT
1 TCAAGGGGAATCGATACCCAT
905416 TCAAGGGGAATCGATACCC
1 TCAAGGGGAATCGATACCC
905435 CCTCAAGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (21 bp):
TCAAGGGGAATCGATACCCAT
Found at i:905440 original size:21 final size:21
Alignment explanation
Indices: 905395--905441 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
905385 TGATTTATGG
* *
905395 TCAAGGGGAATCGGTACCCAT
1 TCAAGGGGAATCGATACCCAC
*
905416 TCAAGGGGAATCGATACCCCC
1 TCAAGGGGAATCGATACCCAC
905437 TCAAG
1 TCAAG
905442 CGAACCAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.17
Consensus pattern (21 bp):
TCAAGGGGAATCGATACCCAC
Found at i:905513 original size:23 final size:22
Alignment explanation
Indices: 905465--905513 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
905455 ACAGAATGTC
905465 AAGG-GGGAACAGATACCCCCA
1 AAGGAGGGAACAGATACCCCCA
* * *
905486 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACAGATACCCCC-A
905509 AAGGA
1 AAGGA
905514 AAATTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.35, C:0.29, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACAGATACCCCCA
Found at i:906484 original size:31 final size:31
Alignment explanation
Indices: 906299--906472 Score: 294
Period size: 31 Copynumber: 5.6 Consensus size: 31
906289 AGGGTTGAGG
*
906299 GTTTATCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
906330 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
906361 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
906392 GTTTACCTATGTTTTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
906423 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
906454 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
906473 AATCTATGGA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:914131 original size:21 final size:21
Alignment explanation
Indices: 914105--914144 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
914095 CCCCCTTTGA
*
914105 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
914126 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
914145 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:917382 original size:23 final size:22
Alignment explanation
Indices: 917339--917383 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
917329 ATGTCAAGGG
*
917339 GGAACCGATACCCCCACAGGAA
1 GGAACCGATACCCCCAAAGGAA
* *
917361 GGAATCGATTCCCCCTAAAGGAA
1 GGAACCGATACCCCC-AAAGGAA
917384 AATTGTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (22 bp):
GGAACCGATACCCCCAAAGGAA
Found at i:918206 original size:31 final size:31
Alignment explanation
Indices: 918168--918323 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
918158 AGGGTCGAGG
*
918168 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
918199 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
918230 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
918261 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
918292 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
918323 G
1 G
918324 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:919698 original size:11 final size:11
Alignment explanation
Indices: 919682--919707 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
919672 AAATTTTAAA
919682 TAAAAAAATAT
1 TAAAAAAATAT
919693 TAAAAAAATAT
1 TAAAAAAATAT
919704 TAAA
1 TAAA
919708 TACATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAAAATAT
Found at i:919699 original size:10 final size:9
Alignment explanation
Indices: 919679--919750 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 9
919669 CAAAAATTTT
919679 AAATA-AAA
1 AAATATAAA
919687 AAATATTAAAA
1 AAATA-T-AAA
919698 AAATATTAAA
1 AAATA-TAAA
*
919708 TACATA-AAA
1 -AAATATAAA
*
919717 AAACATAAA
1 AAATATAAA
919726 AAA-ATAAA
1 AAATATAAA
919734 AAA-ATAAA
1 AAATATAAA
919742 AAATA-AAA
1 AAATATAAA
919750 A
1 A
919751 TAAAATAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
8 28 0.51
9 10 0.18
10 3 0.05
11 14 0.25
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATATAAA
Found at i:919725 original size:18 final size:19
Alignment explanation
Indices: 919679--919744 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
919669 CAAAAATTTT
*
919679 AAATAAAAAAATATTAAAA
1 AAATAAAAAAACATTAAAA
* *
919698 AAATATTAAATACA-TAAAA
1 AAATA-AAAAAACATTAAAA
*
919717 AAACATAAAAAA-A-TAAAA
1 AAATA-AAAAAACATTAAAA
919735 AAATAAAAAA
1 AAATAAAAAA
919745 TAAAAATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 19 0.49
20 5 0.13
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAAAAAACATTAAAA
Found at i:919726 original size:8 final size:8
Alignment explanation
Indices: 919714--919791 Score: 63
Period size: 8 Copynumber: 9.6 Consensus size: 8
919704 TAAATACATA
919714 AAAAAACAT
1 AAAAAA-AT
919723 AAAAAAAT
1 AAAAAAAT
919731 AAAAAAAT
1 AAAAAAAT
919739 -AAAAAAT
1 AAAAAAAT
919746 --AAAAAT
1 AAAAAAAT
*
919752 AAAATAAT
1 AAAAAAAT
*
919760 AAATCAAAAG
1 AAA--AAAAT
* *
919770 GAAAAAGT
1 AAAAAAAT
919778 AAAAATAAT
1 AAAAA-AAT
919787 AAAAA
1 AAAAA
919792 TAAACAAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
6 6 0.11
7 7 0.12
8 25 0.45
9 13 0.23
10 5 0.09
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:919755 original size:18 final size:17
Alignment explanation
Indices: 919679--919800 Score: 70
Period size: 16 Copynumber: 6.6 Consensus size: 17
919669 CAAAAATTTT
919679 AAATAAAAAAATATTAAAAA
1 AAAT-AAAAAATA--AAAAA
*
919699 AATATTAAATACATAAAAAA
1 AA-A-TAAA-AAATAAAAAA
* *
919719 ACATAAAAAA-ATAAAA
1 AAATAAAAAATAAAAAA
919735 AAATAAAAAATAAAAATA
1 AAATAAAAAATAAAAA-A
*
919753 AAATAATAAATCAAAAGGAA
1 AAATAAAAAAT-AAAA--AA
*
919773 AAAGT-AAAAAT-AATAA
1 AAA-TAAAAAATAAAAAA
919789 AAATAAACAAAT
1 AAATAAA-AAAT
919801 CAAAGGGAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 25
0.71 0.08 0.22
Matches are distributed among these distances:
15 1 0.01
16 21 0.26
17 10 0.12
18 17 0.21
19 5 0.06
20 17 0.21
21 6 0.07
22 5 0.06
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAAAAAATAAAAAA
Found at i:919775 original size:32 final size:32
Alignment explanation
Indices: 919716--919799 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
919706 AATACATAAA
*
919716 AAAACATAA-AAAAATAAA-AAAA-TAAAAAAT
1 AAAA-ATAATAAAAATAAACAAAAGGAAAAAAT
* *
919746 AAAAATAA-AATAATAAATCAAAAGGAAAAAGT
1 AAAAATAATAAAAATAAA-CAAAAGGAAAAAAT
919778 AAAAATAATAAAAATAAACAAA
1 AAAAATAATAAAAATAAACAAA
919800 TCAAAGGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 12 0.26
30 4 0.09
31 4 0.09
32 18 0.39
33 8 0.17
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (32 bp):
AAAAATAATAAAAATAAACAAAAGGAAAAAAT
Found at i:922297 original size:22 final size:21
Alignment explanation
Indices: 922247--922298 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
922237 TCAACCTATC
*
922247 CTTTAAAGATCAAAACATTTT
1 CTTTAAAAATCAAAACATTTT
*
922268 CTTTAAAAATCAAAACGTTTT
1 CTTTAAAAATCAAAACATTTT
922289 CTTTTAAAAA
1 C-TTTAAAAA
922299 GTCGACGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (21 bp):
CTTTAAAAATCAAAACATTTT
Found at i:924302 original size:16 final size:15
Alignment explanation
Indices: 924277--924308 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
924267 TTGATTAATC
924277 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
924292 TTTTATATTTTTATTT
1 TTTT-TATTTTTATTT
924308 T
1 T
924309 AATTTGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:925305 original size:29 final size:29
Alignment explanation
Indices: 925270--925351 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
925260 AAACTAAATT
*
925270 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
925299 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
925328 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
925352 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:930062 original size:29 final size:29
Alignment explanation
Indices: 930027--930108 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
930017 AAACTAAATT
*
930027 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
930056 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
930085 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
930109 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:934662 original size:29 final size:29
Alignment explanation
Indices: 934599--934682 Score: 132
Period size: 29 Copynumber: 2.8 Consensus size: 29
934589 CAAACTAAAT
*
934599 TGATGTCATTACTTACATCATTTTAATTAA
1 TGATGTCATTGCTTACATCA-TTTAATTAA
*
934629 AGATGTCATTGCTTACATCATTTAATTAA
1 TGATGTCATTGCTTACATCATTTAATTAA
934658 TGATGTCATTGCTTACATCAATTTA
1 TGATGTCATTGCTTACATC-ATTTA
934683 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 27 0.54
30 23 0.46
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (29 bp):
TGATGTCATTGCTTACATCATTTAATTAA
Found at i:955335 original size:19 final size:20
Alignment explanation
Indices: 955313--955356 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
955303 AACTTTTATT
955313 TTTTTAAT-ATTTTTGATAA-
1 TTTTTAATGATTTTT-ATAAG
*
955332 TTTTAAATGATTTTTATAAG
1 TTTTTAATGATTTTTATAAG
955352 TTTTT
1 TTTTT
955357 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTAATGATTTTTATAAG
Found at i:957426 original size:27 final size:27
Alignment explanation
Indices: 957395--957454 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
957385 GATTGTACAG
*
957395 ATTCCATACTAT-GGTATAATGCATAAT
1 ATTCCATACT-TCGGGATAATGCATAAT
* * *
957422 ATTCCATCCTTCGGGATGATGCATAGT
1 ATTCCATACTTCGGGATAATGCATAAT
957449 ATTCCA
1 ATTCCA
957455 CCTTTTAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTCCATACTTCGGGATAATGCATAAT
Found at i:957468 original size:27 final size:27
Alignment explanation
Indices: 957438--957514 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
957428 TCCTTCGGGA
*
957438 TGATGCATAGTATTCCACCTTTTAAGG
1 TGATGCATAGTATTACACCTTTTAAGG
* * *
957465 TGATGCATATTATTACATCC-TTCAGGG
1 TGATGCATAGTATTACA-CCTTTTAAGG
* * *
957492 TGATACATAGTATTTCATCTTTT
1 TGATGCATAGTATTACACCTTTT
957515 GAAATGATGT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.92
28 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (27 bp):
TGATGCATAGTATTACACCTTTTAAGG
Found at i:957523 original size:54 final size:54
Alignment explanation
Indices: 957413--957523 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
957403 CTATGGTATA
* * *
957413 ATGCATAATATTCCATCCTTCGGGATGATGCATAGTATTCCACCTTTTAAGGTG
1 ATGCATAATATTACATCCTTCGGGATGATACATAGTATTCCACCTTTTAAGATG
* * *
957467 ATGCATATTATTACATCCTTCAGGG-TGATACATAGTATTTCATCTTTTGAA-ATG
1 ATGCATAATATTACATCCTTC-GGGATGATACATAGTATTCCACCTTTT-AAGATG
957521 ATG
1 ATG
957524 TACAATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (54 bp):
ATGCATAATATTACATCCTTCGGGATGATACATAGTATTCCACCTTTTAAGATG
Found at i:963236 original size:59 final size:59
Alignment explanation
Indices: 963103--963245 Score: 200
Period size: 59 Copynumber: 2.4 Consensus size: 59
963093 TAGTATATAC
* *
963103 TTATAGTTTGGGATGAAATTGTAATGTTCAAAAAGTTTGGGGACCAATTTAAAATGAAGG
1 TTATAGTTTGGGATGAAATTG-AATGTTCAAAAACTTTGAGGACCAATTTAAAATGAAGG
* *
963163 TTATAGTTTGGGGATGAAATTGAATGTTC-AAAACTTTGAGGACTAATTTAGAATGATA-G
1 TTATAGTTT-GGGATGAAATTGAATGTTCAAAAACTTTGAGGACCAATTTAAAATGA-AGG
963222 TTATAGTTTAGGGATGAAATTGAA
1 TTATAGTTT-GGGATGAAATTGAA
963246 ACATTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
59 47 0.62
60 17 0.22
61 12 0.16
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
TTATAGTTTGGGATGAAATTGAATGTTCAAAAACTTTGAGGACCAATTTAAAATGAAGG
Found at i:981854 original size:21 final size:22
Alignment explanation
Indices: 981819--981863 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
981809 GGAATTGAAG
*
981819 AAAAAGAAGAAGAACTGGA-GA
1 AAAAAGAAGAAGAACGGGATGA
981840 AAAAAGAA-AAGGAACGGGATGA
1 AAAAAGAAGAA-GAACGGGATGA
981862 AA
1 AA
981864 GAGAAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.62, C:0.04, G:0.29, T:0.04
Consensus pattern (22 bp):
AAAAAGAAGAAGAACGGGATGA
Found at i:982538 original size:327 final size:324
Alignment explanation
Indices: 981938--982573 Score: 970
Period size: 327 Copynumber: 2.0 Consensus size: 324
981928 CTACGAGTGT
* *
981938 GGAGATTAATGAAAGAGAGGAGGAACTGATCGATGATGAAACTCACGCTCCGAAGCTGGCGAGTG
1 GGAGATTAATGAAAGAGAGGAGGAACTGATCGATAATGAAACTCACGCTCCGAAGCTGGAGAGTG
* * *
982003 CTGAGGAAGTAAATGTTGACGCGAGAAGGGAGCCACGACCGAGGATCATCCGTAGAACCTATTGC
66 CTGAGGAAGTAAATGTTGACGCGAGAAGGGAGCCACGACCGAGGATCACCCGTAGAACCCATGGC
* ** **
982068 CCTAAGTCGGAGATTGGACGGAAGTTTCGGGCAATGTCGATGGATTGCGAGATTATCACAGGGGT
131 CCTAAGGCGGAGATTGGACGGAAGTTTCAAGCAATGTCGATGGAAGGCGAGATTATCACAGGGGT
* * *
982133 CCACGCTCCGAAGCTGGCGAGTGTCAAGGAAGAGAACTTTGAGGCGAGAATGGAGTCACAACCAA
196 CCACGCTCCGAAGCTGGCGAGTGTCAAGGAAGAGAACGTTGAGGCGAAAATGGAATCACAACCAA
* * * *
982198 GGATTAATCCGAAAACCCATGGTCGTACGGCGGAGATTGGACGGAAATTAATGAAAAGGGGTGA
261 GGATCAATCCGAAAACACATGGCCATACGGCGGAGATTGGACGGAAATTAATGAAAAGGGGTGA
* * *
982262 GGAGATTAATGAAAGGGCGGAGGAACTGATCGGA-AATGAAGCTCACGCTCCGAAGCTGGAGAGT
1 GGAGATTAATGAAAGAGAGGAGGAACTGATC-GATAATGAAACTCACGCTCCGAAGCTGGAGAGT
*
982326 GCTGAGGAAGTAAATGTTGACGACGCGAGAAGGGAGCCACTACCGAGGATCACCCGTAGAACCCA
65 GCTGAGGAAGTAAATGTT---GACGCGAGAAGGGAGCCACGACCGAGGATCACCCGTAGAACCCA
982391 TGGCCCTAAGGCGGAGATTGGACGGAAGTTTCAAGCAATGTCGATGGAAGGCGAGATTA-CAACA
127 TGGCCCTAAGGCGGAGATTGGACGGAAGTTTCAAGCAATGTCGATGGAAGGCGAGATTATC-ACA
* * *
982455 GGGGTCCATGCTCCGAAGCTGGCGAGTGTCGAGGAAGAGAAGGTTGAGGCGAAAATGGAATCACA
191 GGGGTCCACGCTCCGAAGCTGGCGAGTGTCAAGGAAGAGAACGTTGAGGCGAAAATGGAATCACA
* * *
982520 ACCGAGGATCATTCCGAAAACACATGGCCATACGTCGGAGATTGGACGGAAATT
256 ACCAAGGATCAATCCGAAAACACATGGCCATACGGCGGAGATTGGACGGAAATT
982574 CCAGGCGATG
Statistics
Matches: 280, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
324 74 0.26
325 2 0.01
326 1 0.00
327 203 0.73
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (324 bp):
GGAGATTAATGAAAGAGAGGAGGAACTGATCGATAATGAAACTCACGCTCCGAAGCTGGAGAGTG
CTGAGGAAGTAAATGTTGACGCGAGAAGGGAGCCACGACCGAGGATCACCCGTAGAACCCATGGC
CCTAAGGCGGAGATTGGACGGAAGTTTCAAGCAATGTCGATGGAAGGCGAGATTATCACAGGGGT
CCACGCTCCGAAGCTGGCGAGTGTCAAGGAAGAGAACGTTGAGGCGAAAATGGAATCACAACCAA
GGATCAATCCGAAAACACATGGCCATACGGCGGAGATTGGACGGAAATTAATGAAAAGGGGTGA
Found at i:994361 original size:14 final size:14
Alignment explanation
Indices: 994342--994377 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
994332 AACTTAAAAC
*
994342 TACATATATATATA
1 TACATATATACATA
994356 TACATATATACATA
1 TACATATATACATA
994370 TACATATA
1 TACATATA
994378 AGAAGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (14 bp):
TACATATATACATA
Found at i:1004094 original size:87 final size:87
Alignment explanation
Indices: 1003948--1004110 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
1003938 TATGTTATAT
* * * *
1003948 TATTTAGCCCGAAATATTATCAAGTATAATAACATATTATGTAATGCTTATATAATGTAATAGAT
1 TATTTAACCCGAAATATTATCAAGTAAAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1004013 AACGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
* * *
1004035 TATTTAACCGGAAATATTATCAAGTAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCCGAAATATTATCAAGTAAAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1004100 AACGCTTATAT
66 AACGCTTATAT
1004111 TGACTTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (87 bp):
TATTTAACCCGAAATATTATCAAGTAAAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AACGCTTATATAATAAAATAGG
Found at i:1004553 original size:182 final size:182
Alignment explanation
Indices: 1004246--1005082 Score: 1376
Period size: 182 Copynumber: 4.6 Consensus size: 182
1004236 TGCATTCACC
** * * *
1004246 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGAATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
1004311 TTTATAAAGTATCGACACTTTATTGGCGCTATTATTTCTTCTCTTTTAAATTTCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
1004376 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
1004428 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
1004493 TTTATAAAATATCGATACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
1004558 TACTTATAATAAATTATCGACACTTTCAATATAACCAGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
1004610 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
1004675 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
1004737 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
1004790 TTTTGTCATTTCGAGATCGCTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1004855 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * * * *
1004919 TTCATATAATAAATTATCGACACTTTCAACATAACTGGTAGTGCTTTACTTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
1004971 TTTTATCATTTCGAGACCGGTTTTGTCATATTTTAACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
1005036 TTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTTTTTT
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTT
1005083 TAAAAATGTA
Statistics
Matches: 613, Mismatches: 37, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
178 2 0.00
179 19 0.03
180 152 0.25
181 146 0.24
182 292 0.48
183 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:1005071 original size:361 final size:363
Alignment explanation
Indices: 1004259--1005082 Score: 1375
Period size: 361 Copynumber: 2.3 Consensus size: 363
1004249 TGTCATTTAT
* * *
1004259 AGACCGGTTTTATCATATTTTTACATGTTATATTATTATGAATCGATACATTTTTATAAAGTATC
1 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
* * *
1004324 GACACTTTATTGGCGCTATTATTTCTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATAATAAA
66 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG-GTCGATACTTATAATAAA
*
1004389 TTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGT
130 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGT
* *
1004454 CATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTATAAAATATCGATACTTTATTGG
195 CATATTTTTACATGTTATATTGTTATGAATCGATACATTTTTATAAAATATCGACACTTTATTGG
*
1004519 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
260 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACATATAATAAATTATCGACACTTT
* *
1004584 CAATATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCG
325 CAACATAACCAGTAGCGCTTTACCTGTTTTATCATTTCG
1004623 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
1 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
*
1004688 GACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA-GTCGATACTTATAATAAA
66 GACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGGTCGATACTTATAATAAA
* *
1004751 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGATCGCTTTTGT
130 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGT
* *
1004816 CATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
195 CATATTTTTACATGTTATATTGTTATGAATCGATACATTTTTATAAAATATCGACACTTTATTGG
*
1004881 CGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGATTCATATAATAAATTATCGACACTTT
260 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACATATAATAAATTATCGACACTTT
** * *
1004945 CAACATAACTGGTAGTGCTTTACTTGTTTTATCATTTCG
325 CAACATAACCAGTAGCGCTTTACCTGTTTTATCATTTCG
*
1004984 AGACCGGTTTTGTCATATTTTAACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
1 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
* * *
1005049 GACACTTTATTGACGATATAACTTCTTCTTTTTT
66 GACACTTTATTGGCGCTATAACTTCTTCTCTTTT
1005083 TAAAAATGTA
Statistics
Matches: 432, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
360 2 0.00
361 178 0.41
362 150 0.35
364 100 0.23
365 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (363 bp):
AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGGTCGATACTTATAATAAAT
TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGATTTTGTC
ATATTTTTACATGTTATATTGTTATGAATCGATACATTTTTATAAAATATCGACACTTTATTGGC
GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACATATAATAAATTATCGACACTTTC
AACATAACCAGTAGCGCTTTACCTGTTTTATCATTTCG
Found at i:1006119 original size:17 final size:18
Alignment explanation
Indices: 1006097--1006139 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1006087 ATATATCCGG
1006097 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1006114 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1006134 TATCAT
1 TATCAT
1006140 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1006157 original size:20 final size:19
Alignment explanation
Indices: 1006102--1006148 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1006092 TCCGGTATCA
1006102 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1006121 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1006142 TTTTACC
1 TTTTACC
1006149 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1006394 original size:182 final size:182
Alignment explanation
Indices: 1006069--1006543 Score: 673
Period size: 182 Copynumber: 2.6 Consensus size: 182
1006059 CGTACTTACG
* * * *
1006069 AAAGTATCGAGACTTTTAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1006134 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTTAAAGTATCGACACTTTA
* *
1006199 TAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTGTA-T
130 TAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * * * * *
1006251 AAAGTTTCGACACTTTCAATATATCCGATAGCGTTTTACTGGTTTCATCATTTTGATACCAGTCT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1006316 TATCATATTTTTACTTGTTATATCGTTGTTGATCGATATATTTTTTTGAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTT-AAAGTATCGACACTTTA
* * *
1006381 TAGGCGTTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
130 TAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * ** *
1006434 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
1006499 TGTCATAGTTTTACCTGTTATATCGTTGTCGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
1006544 AATTTGGATC
Statistics
Matches: 255, Mismatches: 36, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
181 18 0.07
182 145 0.57
183 92 0.36
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTTAAAGTATCGACACTTTAT
AGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:1008335 original size:12 final size:14
Alignment explanation
Indices: 1008310--1008353 Score: 70
Period size: 15 Copynumber: 3.0 Consensus size: 14
1008300 ATACATATAA
1008310 ATTTTTATATTATT
1 ATTTTTATATTATT
1008324 ATTTTTAATATTATT
1 ATTTTT-ATATTATT
1008339 ATTTTTATAATTATT
1 ATTTTTAT-ATTATT
1008354 CAAGTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTATATTATT
Found at i:1010153 original size:249 final size:246
Alignment explanation
Indices: 1009698--1010195 Score: 802
Period size: 249 Copynumber: 2.0 Consensus size: 246
1009688 CCTGATAGAA
* *
1009698 TTCAATTCCCATGTTGGAGGGAATTGAAATTTGACCATACTACTCTCATCAATCCTTTGGTAACT
1 TTCAATTCCCATGTTGGAGGGAATTGAAATTTGACCATACTACCCTCATCAATCATTTGGTAACT
1009763 TATTCATATATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCG
66 TATTCATATATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATT--
* *
1009828 GGTCGGGTCGGGTGAAACTTTATTTTAGTCGGGTCGGATCAGGTTTTTTAATTGTGATATTCGGG
129 -GTCGGGTCGGGTGAAACTTTATTTTAGTCGGGTCAGATCAGGTTTTTTAAGTGTGATATTCGGG
**
1009893 TCAGATTCGGGTTTAGGGTGAAAAAAACCGGACCGGTCCGAAAATATATATAAT
193 TCAGATTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAAT
* *
1009947 TTCAATTCCCTTGTTGGAGGGAATTGAAATTTGACCATATTACCCTCATCAATCATTTGGTAACT
1 TTCAATTCCCATGTTGGAGGGAATTGAAATTTGACCATACTACCCTCATCAATCATTTGGTAACT
1010012 TATTCATATATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATA-T-T
66 TATTCATATATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTGT
* *
1010075 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCAGATCGGGTTTTTTAAGTGTGATATTCGGGTCA
131 CGGGTCGGGTGAAACTTTATTTTAGTCGGGTCAGATCAGGTTTTTTAAGTGTGATATTCGGGTCA
* *
1010140 GGTCGGGTTCGGGTTTAGGGTGAAAAAAATCGGACCGACCCGAAAATATATATAAT
196 -----GATTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAAT
1010196 CCATGTCGGG
Statistics
Matches: 232, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
244 62 0.27
248 1 0.00
249 169 0.73
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (246 bp):
TTCAATTCCCATGTTGGAGGGAATTGAAATTTGACCATACTACCCTCATCAATCATTTGGTAACT
TATTCATATATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTGT
CGGGTCGGGTGAAACTTTATTTTAGTCGGGTCAGATCAGGTTTTTTAAGTGTGATATTCGGGTCA
GATTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAAT
Found at i:1010372 original size:33 final size:32
Alignment explanation
Indices: 1010326--1010387 Score: 115
Period size: 33 Copynumber: 1.9 Consensus size: 32
1010316 TTGTTCGGGT
1010326 CGGGTTTTTTAAGTGTGATATTCGGGTCGAAC
1 CGGGTTTTTTAAGTGTGATATTCGGGTCGAAC
1010358 CGGGTTTTTTTAAGTGTGATATTCGGGTCG
1 CGGG-TTTTTTAAGTGTGATATTCGGGTCG
1010388 GGTCGAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.40
Consensus pattern (32 bp):
CGGGTTTTTTAAGTGTGATATTCGGGTCGAAC
Found at i:1010541 original size:243 final size:251
Alignment explanation
Indices: 1010111--1010681 Score: 787
Period size: 248 Copynumber: 2.3 Consensus size: 251
1010101 CGGGTCAGAT
* * * * *
1010111 CGGG-TTTTTTAAGTGTGATATTCGGGTCAGGTCGGGTTCGGGTTTAGGGTGAAAAAAATCGGAC
1 CGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAAAACCGAAC
1010175 CGACCCGAAAATATATATAATCCATGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAAT
66 CGACCCGAAAATATATATAA--CATGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAAT
*
1010240 ATTTTGTTTTATTTCAGGTCGGGTCGGGTTAGATTTCTAATTCATATATTCGGGTCGGGTCGGAT
129 ATTTTGTTTTATTTCAGGTCGGGTCGGGTCAGATTTCTAATTCATATATTCGGGTCGGGTCGGAT
*
1010305 GAAACTTTA-TT-TT-GTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA-AC-
194 GAAACTTTACTTGTTCGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAGACG
*
1010358 CGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTATAGTG-AAAAAACCGAAC
1 CGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAAAACCGAAC
*
1010422 CGACCCGAAAATATATAT-A-AT-TCGGGTCGGATTAAGTCATTGTTTTTATTAAATAAAAATAG
66 CGACCCGAAAATATATATAACATGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATA-
* * * *
1010484 TTTT-TTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTTGGGTCGGGTCGTAT
130 TTTTGTT-TTATTTCAGGTCGGGTCGGGTCAGATTTCTAATTCATATATTCGGGTCGGGTCGGAT
* *
1010548 GAAACTTTACTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTGGAGTCGGG
194 GAAACTTTAC-TTGTTC-GGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAGAC--G
* * *
1010610 TCGGGTTTTTTTAAGTGTGATATTCGGGTC--G--G-GTTCGGATTTAGGGTGAAAAAAACCGGA
1 -CGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAAAACCGAA
1010670 CCGACCCGAAAA
65 CCGACCCGAAAA
1010682 AAAAATATAA
Statistics
Matches: 291, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
242 41 0.14
243 67 0.23
245 2 0.01
246 3 0.01
247 32 0.11
248 92 0.32
249 24 0.08
251 1 0.00
253 29 0.10
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.36
Consensus pattern (251 bp):
CGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAAAACCGAAC
CGACCCGAAAATATATATAACATGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAT
TTTGTTTTATTTCAGGTCGGGTCGGGTCAGATTTCTAATTCATATATTCGGGTCGGGTCGGATGA
AACTTTACTTGTTCGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAGACG
Found at i:1010612 original size:37 final size:38
Alignment explanation
Indices: 1010567--1010638 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
1010557 CTTTGTTCGG
1010567 GTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTGGA
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTGGA
1010604 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGT
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGT
1010639 CGGGTTCGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.12, C:0.08, G:0.39, T:0.40
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTGGA
Found at i:1012106 original size:2 final size:2
Alignment explanation
Indices: 1012099--1012140 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1012089 AACTCGAACA
1012099 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
1012141 GAACAGATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1012680 original size:14 final size:14
Alignment explanation
Indices: 1012663--1012698 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1012653 GAACGTTCAT
1012663 TTATGTTCGTTCGA
1 TTATGTTCGTTCGA
* *
1012677 TTATGTTCGTTTGG
1 TTATGTTCGTTCGA
1012691 TTATGTTC
1 TTATGTTC
1012699 ATTTATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (14 bp):
TTATGTTCGTTCGA
Found at i:1013750 original size:16 final size:16
Alignment explanation
Indices: 1013731--1013795 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
1013721 CCAACGTTTA
*
1013731 TGTTCGTTTACGTTCG
1 TGTTCGTTTATGTTCG
*
1013747 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
1013763 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
1013779 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1013795 T
1 T
1013796 TTATTTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1013776 original size:26 final size:26
Alignment explanation
Indices: 1013727--1013776 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1013717 GTCTCCAACG
*
1013727 TTTATGTTCGTTTACGTTCGTGTTCA
1 TTTATGTTCGTTTACGTTCATGTTCA
*
1013753 TTTATGTTCGTGTT-CGTTTATGTT
1 TTTATGTTCGT-TTACGTTCATGTT
1013777 TGTGTTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (26 bp):
TTTATGTTCGTTTACGTTCATGTTCA
Found at i:1019672 original size:53 final size:53
Alignment explanation
Indices: 1019503--1020399 Score: 1310
Period size: 53 Copynumber: 16.6 Consensus size: 53
1019493 CGGATAACAT
* * * *
1019503 GTCTGCTCCCTA-TTCTTCAGAGAGTATAATACTCGAACAATCTTCAATGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGC
* *
1019557 GTCTACCCCCTATTTCTTCAGAGAGTATAAAACCCAAACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCAACGATCGC
*
1019612 GTCTGCCCTCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1019665 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1019718 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
* * * *
1019771 GTCTGCCCTCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCAC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
*
1019824 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGC
* * *
1019879 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
* * * *
1019932 GTATGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGC
* * *
1019987 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGC
*
1020042 ATCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAAACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCAACGATCGC
*
1020097 GTCTGCCCCCTATTTCTTTAGAGAGTATAAGACCCACAATCTTCAACGATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
* *
1020150 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
* *
1020203 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGC
* *
1020258 GTCTGCCCCTCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGC
1 GTCTGCCCC-CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
* ** * *
1020312 GTCTGCCCCCTCTTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATCGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC--CCACAATCTTCAACGATCGC
*
1020367 GTCTGCCCCCTATTTCTTCAAAGAGTATAAGAC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC
1020400 TCGAATAATC
Statistics
Matches: 779, Mismatches: 50, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
53 375 0.48
54 40 0.05
55 340 0.44
56 24 0.03
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (53 bp):
GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
Found at i:1019677 original size:108 final size:106
Alignment explanation
Indices: 1019503--1020399 Score: 1310
Period size: 108 Copynumber: 8.3 Consensus size: 106
1019493 CGGATAACAT
* * * * *
1019503 GTCTGCTCCCTA-TTCTTCAGAGAGTATAATACTCGAACAATCTTCAATGATCGCGTCTACCCCC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGCGTCTGCCCCC
* *
1019567 TATTTCTTCAGAGAGTATAAAACCCAAACAATCTTCAACGATCGC
64 TATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCAACAATCGC
*
1019612 GTCTGCCCTCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTA
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTA
*
1019677 TTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGC
66 TTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCGC
*
1019718 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCTCTA
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTA
* *
1019783 TTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCAC
66 TTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCGC
*
1019824 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGCGTCTGCCCCC
* *
1019889 TATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGT
64 TATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCGC
* * * *
1019932 GTATGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGCGTCTGCCCCC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATCGCGTCTGCCCCC
* *
1019997 TATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGC
64 TATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACAATCGC
*
1020042 ATCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAAACAATCTTCAACGATCGCGTCTGCCCCC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCAACGATCGCGTCTGCCCCC
* *
1020107 TATTTCTTTAGAGAGTATAAGACCCACAATCTTCAACGATCGC
64 TATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCGC
* *
1020150 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTA
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTA
* * *
1020215 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGT
66 TTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACAATCGC
* *
1020258 GTCTGCCCCTCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCT
1 GTCTGCCCC-CTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCT
* ** *
1020323 CTTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATCGT
65 ATTTCTTCAGAGAGTATAAGAC--CCACAATCTTCAACAATCGC
*
1020367 GTCTGCCCCCTATTTCTTCAAAGAGTATAAGAC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC
1020400 TCGAATAATC
Statistics
Matches: 737, Mismatches: 40, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
106 200 0.27
107 2 0.00
108 302 0.41
109 117 0.16
110 116 0.16
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (106 bp):
GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTA
TTTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCGC
Found at i:1023428 original size:5 final size:5
Alignment explanation
Indices: 1023418--1023469 Score: 50
Period size: 5 Copynumber: 9.2 Consensus size: 5
1023408 CATTTTCAAT
1023418 TTTTC TTTTC TTTTTTC TTTTC TTTTTTC TTTTC TTTTCC TTTTC TCTTTC
1 TTTTC TTTTC --TTTTC TTTTC --TTTTC TTTTC TTTT-C TTTTC T-TTTC
1023469 T
1 T
1023470 ACATTTCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
5 21 0.51
6 10 0.24
7 10 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:1023434 original size:12 final size:12
Alignment explanation
Indices: 1023417--1023455 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
1023407 TCATTTTCAA
1023417 TTTTTCTTTTCT
1 TTTTTCTTTTCT
1023429 TTTTTCTTTTCT
1 TTTTTCTTTTCT
1023441 TTTTTCTTTTCT
1 TTTTTCTTTTCT
1023453 TTT
1 TTT
1023456 CCTTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:1023438 original size:17 final size:18
Alignment explanation
Indices: 1023418--1023467 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
1023408 CATTTTCAAT
1023418 TTTTCTTTTCTT-TTTTC
1 TTTTCTTTTCTTCTTTTC
1023435 TTTTCTTTT-TTCTTTTC
1 TTTTCTTTTCTTCTTTTC
1023452 TTTTCCTTTTC-TCTTT
1 TTTT-CTTTTCTTCTTT
1023468 CTACATTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.07
17 18 0.60
18 10 0.33
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTCTTCTTTTC
Found at i:1023468 original size:12 final size:12
Alignment explanation
Indices: 1023417--1023468 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
1023407 TCATTTTCAA
1023417 TTTTT-CTTTTC
1 TTTTTCCTTTTC
*
1023428 TTTTTTCTTTTC
1 TTTTTCCTTTTC
*
1023440 TTTTTTCTTTTC
1 TTTTTCCTTTTC
1023452 -TTTTCCTTTTC
1 TTTTTCCTTTTC
*
1023463 TCTTTC
1 TTTTTC
1023469 TACATTTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 15 0.41
12 22 0.59
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:1026059 original size:20 final size:21
Alignment explanation
Indices: 1026034--1026088 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
1026024 CATGCGATGT
1026034 GGTCTTCTCGTCTTTACGAA-
1 GGTCTTCTCGTCTTTACGAAG
*
1026054 GGTCTTCTCGTCTTTATGAAG
1 GGTCTTCTCGTCTTTACGAAG
1026075 GGTCTTCTCGTCTT
1 GGTCTTCTCGTCTT
1026089 GATGAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.44
Consensus pattern (21 bp):
GGTCTTCTCGTCTTTACGAAG
Found at i:1026080 original size:21 final size:20
Alignment explanation
Indices: 1026034--1026149 Score: 126
Period size: 21 Copynumber: 5.6 Consensus size: 20
1026024 CATGCGATGT
* *
1026034 GGTCTTCTCGTCTTTACGAA
1 GGTCTTCTCGTCTTGATGAA
*
1026054 GGTCTTCTCGTCTTTATGAA
1 GGTCTTCTCGTCTTGATGAA
1026074 GGGTCTTCTCGTCTTGATGAA
1 -GGTCTTCTCGTCTTGATGAA
1026095 TGG-CATTCTCGTCTTGATGAA
1 -GGTC-TTCTCGTCTTGATGAA
* *
1026116 TGACATTCTCGTCTTGATGAA
1 GGTC-TTCTCGTCTTGATGAA
*
1026137 TGCTCTTCTCGTC
1 -GGTCTTCTCGTC
1026150 CTTGGTACGA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.25
21 63 0.74
22 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
GGTCTTCTCGTCTTGATGAA
Found at i:1037109 original size:60 final size:60
Alignment explanation
Indices: 1037029--1037148 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
1037019 TATAATCCTA
* * * * * *
1037029 ATTTTAAACTGGTCCTTAAACTTTTAAATACTCTAATTTCATCCTCAAATTATGACTCTC
1 ATTTTAAACTAGTCCATAAACTTTTAAACACTCCAATTTCATCCCCAAACTATGACTCTC
* * * *
1037089 ATTTTAAATTAGTCCATAAACTTTTGAACATTCCAATTTCATCCCCAAACTATGATTCTC
1 ATTTTAAACTAGTCCATAAACTTTTAAACACTCCAATTTCATCCCCAAACTATGACTCTC
1037149 TCCAAACTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (60 bp):
ATTTTAAACTAGTCCATAAACTTTTAAACACTCCAATTTCATCCCCAAACTATGACTCTC
Found at i:1038020 original size:31 final size:30
Alignment explanation
Indices: 1037982--1038039 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
1037972 TCTAAAAATT
* * *
1037982 ATAAAACAATTATTGATATTATGTGTTTGTA
1 ATAAAACAATCATTCAT-TTATCTGTTTGTA
1038013 ATAAAACAATCATTCATTTATCTGTTT
1 ATAAAACAATCATTCATTTATCTGTTT
1038040 TCACCAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (30 bp):
ATAAAACAATCATTCATTTATCTGTTTGTA
Found at i:1049878 original size:26 final size:26
Alignment explanation
Indices: 1049849--1049910 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
1049839 AATATTCAAT
1049849 TTGAATTTAAATATAAATAGCCCAAC
1 TTGAATTTAAATATAAATAGCCCAAC
1049875 TTGAATTTAAATATAAATAGCCCAAC
1 TTGAATTTAAATATAAATAGCCCAAC
1049901 TTGAATTTAA
1 TTGAATTTAA
1049911 GCATGGGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (26 bp):
TTGAATTTAAATATAAATAGCCCAAC
Found at i:1052599 original size:24 final size:24
Alignment explanation
Indices: 1052550--1052634 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 24
1052540 TAAGTATGTA
*
1052550 ATTTAATT--ATATTATATATTTATT
1 ATTTAATTAAATATTA-AAATTT-TT
1052574 ATTTAATTAAATATTAAAATTTTT
1 ATTTAATTAAATATTAAAATTTTT
*
1052598 ATTAAAATTATAA-ATTAAAA--TTT
1 ATT-TAATTA-AATATTAAAATTTTT
1052621 ATTTAATTAAATAT
1 ATTTAATTAAATAT
1052635 AAATATTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
21 2 0.04
22 7 0.13
23 6 0.11
24 13 0.25
25 17 0.32
26 8 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTAATTAAATATTAAAATTTTT
Found at i:1052600 original size:12 final size:12
Alignment explanation
Indices: 1052584--1052626 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1052574 ATTTAATTAA
1052584 ATATTAAAATTT
1 ATATTAAAATTT
*
1052596 TTATTAAAATTAT
1 ATATTAAAATT-T
*
1052609 AAATTAAAATTT
1 ATATTAAAATTT
1052621 AT-TTAA
1 ATATTAA
1052627 TTAAATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTAAAATTT
Found at i:1052642 original size:28 final size:25
Alignment explanation
Indices: 1052578--1052644 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
1052568 TTTATTATTT
1052578 AATTAAATATTAAAATTTTTATTAA
1 AATTAAATATTAAAATTTTTATTAA
1052603 AATTATAA-ATTAAAATTTATTTAATT-A
1 AATTA-AATATTAAAA-TT-TTT-ATTAA
1052630 AATATAAATATTAAA
1 AAT-TAAATATTAAA
1052645 TGAATAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 12 0.33
26 4 0.11
27 9 0.25
28 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTAAATATTAAAATTTTTATTAA
Found at i:1059973 original size:30 final size:33
Alignment explanation
Indices: 1059939--1059999 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1059929 ATATTATATC
*
1059939 AATTTAATC-TT-AAAT-TAAAATAATTCATTA
1 AATTTAATCTTTCAAATCTAAAAAAATTCATTA
1059969 AATTTAATCTTTCAAATCTAAAAAAATTCAT
1 AATTTAATCTTTCAAATCTAAAAAAATTCAT
1060000 CAATCTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.33
31 2 0.07
32 4 0.15
33 12 0.44
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTAATCTTTCAAATCTAAAAAAATTCATTA
Found at i:1060146 original size:26 final size:26
Alignment explanation
Indices: 1060111--1060162 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1060101 GGAGACTAAA
1060111 ATTATTGTTATTATATTAGGTCACGT
1 ATTATTGTTATTATATTAGGTCACGT
*
1060137 ATTATTGTTATTATGTTAGGTCACGT
1 ATTATTGTTATTATATTAGGTCACGT
1060163 TAGACTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (26 bp):
ATTATTGTTATTATATTAGGTCACGT
Found at i:1064286 original size:22 final size:23
Alignment explanation
Indices: 1064258--1064301 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1064248 ATTTTATTTG
1064258 AGCAAAAGAACA-AAAAAGGGTA
1 AGCAAAAGAACATAAAAAGGGTA
*
1064280 AGCAAAAGAACATAATAAGGGT
1 AGCAAAAGAACATAAAAAGGGT
1064302 GAGATGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.59, C:0.09, G:0.23, T:0.09
Consensus pattern (23 bp):
AGCAAAAGAACATAAAAAGGGTA
Found at i:1071230 original size:34 final size:34
Alignment explanation
Indices: 1071137--1071239 Score: 134
Period size: 34 Copynumber: 3.0 Consensus size: 34
1071127 TATTAATTAA
* * *
1071137 CCTGAATTACATAAGATACAAAATGCACTCAAAC
1 CCTGAATTACATAAGATACAAATTACACTCTAAC
*
1071171 CCTGAATTACATAAGATACACATTACACTCTAAC
1 CCTGAATTACATAAGATACAAATTACACTCTAAC
* * * *
1071205 CCTGAAATACATAAGATATAGATTACACTATAAC
1 CCTGAATTACATAAGATACAAATTACACTCTAAC
1071239 C
1 C
1071240 TTCCTTGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (34 bp):
CCTGAATTACATAAGATACAAATTACACTCTAAC
Found at i:1081240 original size:6 final size:6
Alignment explanation
Indices: 1081229--1081254 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1081219 AGATGAGGGG
1081229 GATGAC GATGAC GATGAC GATGAC GA
1 GATGAC GATGAC GATGAC GATGAC GA
1081255 AGATGAGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAC
Found at i:1081358 original size:15 final size:15
Alignment explanation
Indices: 1081322--1081359 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1081312 TACTGATCAA
*
1081322 GATGATCATGAGATT
1 GATGATGATGAGATT
1081337 GATGATGATGA-ATTT
1 GATGATGATGAGA-TT
1081352 GATGATGA
1 GATGATGA
1081360 AGTATTGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (15 bp):
GATGATGATGAGATT
Found at i:1087245 original size:2 final size:2
Alignment explanation
Indices: 1087238--1087262 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1087228 TTATTTGTCC
1087238 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 A
1087263 CTTAGCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1093976 original size:5 final size:5
Alignment explanation
Indices: 1093966--1093991 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1093956 ATAAAGTTTC
1093966 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
1093992 ATATATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:1094211 original size:28 final size:29
Alignment explanation
Indices: 1094179--1094240 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
1094169 ACCCGAACAT
* *
1094179 GACCCAAAAATCACGCTTAAAAAAA-TCC
1 GACCCAAAAATCACACTTAAAAAAACCCC
* * *
1094207 GACCCGAATATCATACTTAAAAAAACCCC
1 GACCCAAAAATCACACTTAAAAAAACCCC
1094236 GACCC
1 GACCC
1094241 GACCCTGACC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15
Consensus pattern (29 bp):
GACCCAAAAATCACACTTAAAAAAACCCC
Found at i:1094280 original size:39 final size:40
Alignment explanation
Indices: 1094207--1094283 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
1094197 AAAAAAATCC
*
1094207 GACCCGAATATCATACTTAAAAAAACCCCGACCCGACCCT
1 GACCCGAATATCAAACTTAAAAAAACCCCGACCCGACCCT
1094247 GACCCGAATATCAAACTTAAAAAAA-CCCGACCCGACC
1 GACCCGAATATCAAACTTAAAAAAACCCCGACCCGACC
1094284 TGAATATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 12 0.33
40 24 0.67
ACGTcount: A:0.40, C:0.36, G:0.10, T:0.13
Consensus pattern (40 bp):
GACCCGAATATCAAACTTAAAAAAACCCCGACCCGACCCT
Found at i:1094293 original size:33 final size:33
Alignment explanation
Indices: 1094205--1094311 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 33
1094195 TTAAAAAAAT
* *
1094205 CCGACCCGAATATCATACTTAAAAAAACCCCGAC
1 CCGACCTGAATATCAAACTTAAAAAAA-CCCGAC
1094239 CCGACCCTGACCCGAATATCAAACTTAAAAAAACCCGAC
1 CCGA-CCT-----GAATATCAAACTTAAAAAAACCCGAC
* *
1094278 CCGACCTGAATATCAAGCTTAAAAAACCCCGAC
1 CCGACCTGAATATCAAACTTAAAAAAACCCGAC
1094311 C
1 C
1094312 TGAACCCGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
33 25 0.40
34 4 0.06
35 2 0.03
38 3 0.05
39 10 0.16
40 19 0.30
ACGTcount: A:0.40, C:0.36, G:0.10, T:0.14
Consensus pattern (33 bp):
CCGACCTGAATATCAAACTTAAAAAAACCCGAC
Found at i:1097660 original size:23 final size:23
Alignment explanation
Indices: 1097634--1097682 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1097624 CAATAGTTAG
* *
1097634 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACATAATAGGTAGCGCCTA
*
1097657 TTTAACATAATAGGTAGTGCCTA
1 TTTAACATAATAGGTAGCGCCTA
1097680 TTT
1 TTT
1097683 TATTTTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (23 bp):
TTTAACATAATAGGTAGCGCCTA
Found at i:1097742 original size:74 final size:74
Alignment explanation
Indices: 1097657--1097830 Score: 204
Period size: 74 Copynumber: 2.4 Consensus size: 74
1097647 GTAGCGCTTA
* * ** * * *
1097657 TTTAACATAATAGGTAGTGCCTATTTTATTTTACTGTTTATATTATTAGTAACCTTAAACAAACC
1 TTTAACATAATAGGTAGCGCATATTTTATTTTACCATTTACATTATTAGTAACATTAAAAAAACC
* *
1097722 AGTATGTAT
66 AGTAGGTAG
* * * * *
1097731 TTTAACGTAATAGATAACGCATATTTTATTTTACCATTTACATTATTAGTAATATTAAAAAAATC
1 TTTAACATAATAGGTAGCGCATATTTTATTTTACCATTTACATTATTAGTAACATTAAAAAAACC
*
1097796 GGTAGGTAG
66 AGTAGGTAG
*
1097805 TTTAACATAATAGGTAGCGCTTATTT
1 TTTAACATAATAGGTAGCGCATATTT
1097831 AATGTAATAG
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (74 bp):
TTTAACATAATAGGTAGCGCATATTTTATTTTACCATTTACATTATTAGTAACATTAAAAAAACC
AGTAGGTAG
Found at i:1097838 original size:97 final size:97
Alignment explanation
Indices: 1097731--1097928 Score: 263
Period size: 97 Copynumber: 2.0 Consensus size: 97
1097721 CAGTATGTAT
*
1097731 TTTAACGTAATAGATAACGCATATTTTATTTTACCATTTACATTATTAGTAA-TATTAAAAAAAT
1 TTTAACGTAATAGATAACACATATTTTATTTTACCATTTACATTATTAGTAACT-TTAAAAAAAT
* *
1097795 CGGTAGGTAGTTTAACATAATAGGTAGCGCTTA
65 CGGTAGGTAGTTTAACATAATAGGTAACGCCTA
* * * * *
1097828 TTTAATGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAT
1 TTTAACGTAATAGATAACACATATTTTATTTTACCATTTACATTATTAGTAA-CTTTAAAAAAAT
* * * *
1097893 CGGTATGTATTTTAACGTAATATGTAACGCCTA
65 CGGTAGGTAGTTTAACATAATAGGTAACGCCTA
1097926 TTT
1 TTT
1097929 TATTTTACCG
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
97 47 0.54
98 39 0.45
99 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (97 bp):
TTTAACGTAATAGATAACACATATTTTATTTTACCATTTACATTATTAGTAACTTTAAAAAAATC
GGTAGGTAGTTTAACATAATAGGTAACGCCTA
Found at i:1097914 original size:75 final size:75
Alignment explanation
Indices: 1097828--1097992 Score: 235
Period size: 75 Copynumber: 2.2 Consensus size: 75
1097818 GTAGCGCTTA
* *
1097828 TTTAATGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAA-
1 TTTAACGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
*
1097892 TCGGTATG-TAT
66 T-GGTA-GATAG
* * *
1097903 TTTAACGTAATATGTAACGCCTATTTTATTTTACCGTTTACCTTATTAGTAACCTTCAAACAAAC
1 TTTAACGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
1097968 TGGTAGATAG
66 TGGTAGATAG
*
1097978 TTTAACATAATAGGT
1 TTTAACGTAATAGGT
1097993 GATGCTTATT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
74 1 0.01
75 78 0.98
76 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.41
Consensus pattern (75 bp):
TTTAACGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
TGGTAGATAG
Found at i:1098024 original size:98 final size:98
Alignment explanation
Indices: 1097903--1098087 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 98
1097893 CGGTATGTAT
* * * * *
1097903 TTTAACGTAATATGTAACGCCTATTTTATTTTACCGTTTACCTTATTAGTAACCTTCAAACAAAC
1 TTTAACGTAACAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAATAACATTCAAACAAAC
1097968 TGGTAGATAGTTTAACATAATAGGTGATGCTTA
66 TGGTAGATAGTTTAACATAATAGGTGATGCTTA
* * *
1098001 TTTAACGTAACAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAATAACATTTAAACAAAC
1 TTTAACGTAACAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAATAACATTCAAACAAAC
* *
1098066 TGGTAGATATTTTAACGTAATA
66 TGGTAGATAGTTTAACATAATA
1098088 AGTAACGCCT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (98 bp):
TTTAACGTAACAGGTAACGCCTATTTTATTTTACCGTTTACATTATTAATAACATTCAAACAAAC
TGGTAGATAGTTTAACATAATAGGTGATGCTTA
Found at i:1098048 original size:173 final size:171
Alignment explanation
Indices: 1097585--1098162 Score: 700
Period size: 173 Copynumber: 3.4 Consensus size: 171
1097575 AAATTTTATA
* * * * * ** * *
1097585 TATTTTATCGTTTACATTATTATTAACATTTAAATAAA-TCAATAGTTAGTTTAACGTAATAGGT
1 TATTTTACCATTTACATTATTAGTAACATTCAAACAAACT-GGTAGATAGTTTAACATAATAGGT
* * *
1097649 AGCGCTTATTTAACATAATAGGTAGTGCCTATTTTATTTTACTGTTTATATTATTAGTAACC-TT
65 AGCGCTTATTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAGTAACCTTT
* *
1097713 AAACAAACCAGTATGTATTTTAACGTAATAGATAACGCATATTT
130 AAACAAA-CGGTATGTATTTTAACGTAATAG-TAACGCCTATTT
* * *
1097757 TATTTTACCATTTACATTATTAGTAATATT-AAA-AAAATCGGTAGGTAGTTTAACATAATAGGT
1 TATTTTACCATTTACATTATTAGTAACATTCAAACAAACT-GGTAGATAGTTTAACATAATAGGT
* * * *
1097820 AGCGCTTATTTAATGTAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTT
65 AGCGCTTATTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAGTAACCTTT
1097885 AAACAAATCGGTATGTATTTTAACGTAATATGTAACGCCTATTT
130 AAACAAA-CGGTATGTATTTTAACGTAATA-GTAACGCCTATTT
* * *
1097929 TATTTTACCGTTTACCTTATTAGTAACCTTCAAACAAACTGGTAGATAGTTTAACATAATAGGT-
1 TATTTTACCATTTACATTATTAGTAACATTCAAACAAACTGGTAGATAGTTTAACATAATAGGTA
* * * *
1097993 GATGCTTATTTAACGTAACAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAATAACATTT
66 G-CGCTTATTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAGTAACCTTT
1098058 AAACAAACTGGTA-GATATTTTAACGTAATAAGTAACGCCTATTT
130 AAACAAAC-GGTATG-TATTTTAACGTAAT-AGTAACGCCTATTT
* ** * * ** *
1098102 GATTTTATTATTTACATTATTAATAGCATTCAAACAAACCAGTAAATAGTTTAACATAATA
1 TATTTTACCATTTACATTATTAGTAACATTCAAACAAACTGGTAGATAGTTTAACATAATA
1098163 TATAATACCT
Statistics
Matches: 354, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
170 3 0.01
171 80 0.23
172 96 0.27
173 170 0.48
174 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (171 bp):
TATTTTACCATTTACATTATTAGTAACATTCAAACAAACTGGTAGATAGTTTAACATAATAGGTA
GCGCTTATTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAGTAACCTTTA
AACAAACGGTATGTATTTTAACGTAATAGTAACGCCTATTT
Found at i:1098098 original size:75 final size:75
Alignment explanation
Indices: 1098001--1098181 Score: 193
Period size: 75 Copynumber: 2.4 Consensus size: 75
1097991 GTGATGCTTA
* * * * * *
1098001 TTTAACGTAACAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTAATAACATTTAAACAAAC
1 TTTAACGTAATAAGTAACGCCTATTTTATTTTACCATTTACATTATTAATAACATTCAAACAAAC
** * *
1098066 TGGTAGATAT
66 CAGTAAATAG
* ** *
1098076 TTTAACGTAATAAGTAACGCCTATTTGATTTTATTATTTACATTATTAATAGCATTCAAACAAAC
1 TTTAACGTAATAAGTAACGCCTATTTTATTTTACCATTTACATTATTAATAACATTCAAACAAAC
1098141 CAGTAAATAG
66 CAGTAAATAG
* **
1098151 TTTAACATAATATA-TAATACCTATTTTATTT
1 TTTAACGTAATA-AGTAACGCCTATTTTATTT
1098182 ATCCGATTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
75 86 0.99
76 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (75 bp):
TTTAACGTAATAAGTAACGCCTATTTTATTTTACCATTTACATTATTAATAACATTCAAACAAAC
CAGTAAATAG
Found at i:1098651 original size:23 final size:23
Alignment explanation
Indices: 1098623--1098669 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1098613 TTCACAGTAA
*
1098623 AATAAGTATGTATACTTATATAT
1 AATAAGTATGGATACTTATATAT
1098646 AATAAGTATGGATACTTATATAT
1 AATAAGTATGGATACTTATATAT
1098669 A
1 A
1098670 TGTATCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (23 bp):
AATAAGTATGGATACTTATATAT
Found at i:1102584 original size:23 final size:23
Alignment explanation
Indices: 1102558--1102610 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1102548 ATTGAACCTA
1102558 AGTGCCACGTAGAATTGCACCGG
1 AGTGCCACGTAGAATTGCACCGG
* * *
1102581 AGTGCCGCGTAGAATTGTACCGT
1 AGTGCCACGTAGAATTGCACCGG
1102604 AGTGCCA
1 AGTGCCA
1102611 TATAATAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCGG
Found at i:1102746 original size:103 final size:103
Alignment explanation
Indices: 1102626--1102946 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
1102616 TAATGTCCAT
1102626 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1102691 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1102729 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1102794 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1102832 AAGGGCCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1102897 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1102935 AAGGATCACATA
1 AAGGACCACATA
1102947 GACCCTCTAC
Statistics
Matches: 211, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 211 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1103466 original size:19 final size:20
Alignment explanation
Indices: 1103429--1103466 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1103419 TTTTTTATTA
*
1103429 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1103449 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1103467 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1103935 original size:110 final size:110
Alignment explanation
Indices: 1103806--1104027 Score: 444
Period size: 110 Copynumber: 2.0 Consensus size: 110
1103796 TCTTATTATG
1103806 AACTCTAATCTAAGATTTCACTTTTCTACTTCCTTTCTTTAATTCTTCATATACTTCTCCTCTTG
1 AACTCTAATCTAAGATTTCACTTTTCTACTTCCTTTCTTTAATTCTTCATATACTTCTCCTCTTG
1103871 AGGTTTTAAAATAATTTAAACTTCCTTTAAGCTTAACTATTGCCT
66 AGGTTTTAAAATAATTTAAACTTCCTTTAAGCTTAACTATTGCCT
1103916 AACTCTAATCTAAGATTTCACTTTTCTACTTCCTTTCTTTAATTCTTCATATACTTCTCCTCTTG
1 AACTCTAATCTAAGATTTCACTTTTCTACTTCCTTTCTTTAATTCTTCATATACTTCTCCTCTTG
1103981 AGGTTTTAAAATAATTTAAACTTCCTTTAAGCTTAACTATTGCCT
66 AGGTTTTAAAATAATTTAAACTTCCTTTAAGCTTAACTATTGCCT
1104026 AA
1 AA
1104028 TGGTCATGAA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (110 bp):
AACTCTAATCTAAGATTTCACTTTTCTACTTCCTTTCTTTAATTCTTCATATACTTCTCCTCTTG
AGGTTTTAAAATAATTTAAACTTCCTTTAAGCTTAACTATTGCCT
Found at i:1109705 original size:23 final size:23
Alignment explanation
Indices: 1109679--1109765 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
1109669 CAGCTCATAT
**
1109679 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCGGAGTGCCACGTAG
1109702 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACCGGAGTGCCACGTAG
*
1109725 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCACGTAG
*
1109748 AATTGCACCGTAGTGCCA
1 AATTGCACCGGAGTGCCA
1109766 TATAATAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
AATTGCACCGGAGTGCCACGTAG
Found at i:1109901 original size:103 final size:103
Alignment explanation
Indices: 1109773--1110099 Score: 552
Period size: 103 Copynumber: 3.2 Consensus size: 103
1109763 CCATATAATA
1109773 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1109837 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
1109876 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
*
1109941 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
* * *
1109979 ATGTCCCGAATGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
*
1110044 TCTCACTAGACTTCACACATGTTCCAAAGAATAC--AT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
* *
1110080 ATGTCCCGAAGGATCACATA
1 ATGTCCCAAAGGACCACATA
1110100 GACCCTCTAC
Statistics
Matches: 213, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
101 20 0.09
103 190 0.89
104 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:1110611 original size:18 final size:19
Alignment explanation
Indices: 1110574--1110610 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1110564 TTTTTTATTA
*
1110574 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
1110593 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1110611 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:1110662 original size:21 final size:21
Alignment explanation
Indices: 1110638--1110680 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1110628 TCATATTCGT
*
1110638 TTGAGGGGGTATCAATTCCCC
1 TTGAAGGGGTATCAATTCCCC
* *
1110659 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCAATTCCCC
1110680 T
1 T
1110681 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCAATTCCCC
Found at i:1119975 original size:6 final size:6
Alignment explanation
Indices: 1119959--1119990 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
1119949 TTTAATTGCG
1119959 AAAATT AAAAATT AAAATT AAAATT AAAATT A
1 AAAATT -AAAATT AAAATT AAAATT AAAATT A
1119991 TTCGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:1121051 original size:3 final size:3
Alignment explanation
Indices: 1121043--1121089 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
1121033 ATCCTGCAAA
*
1121043 AAT AAT AAT AAT AAA AATT AAT AAT AAT AAT ATAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT
1121089 A
1 A
1121090 TTTTTGTAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1121064 original size:16 final size:15
Alignment explanation
Indices: 1121040--1121084 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
1121030 AAAATCCTGC
1121040 AAAAATAATAATAAT
1 AAAAATAATAATAAT
1121055 AAAAATTAATAATAAT
1 AAAAA-TAATAATAAT
*
1121071 AATATATAATAATA
1 AA-AAATAATAATA
1121085 TAATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 20 0.74
17 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:1121066 original size:13 final size:16
Alignment explanation
Indices: 1121044--1121090 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
1121034 TCCTGCAAAA
*
1121044 ATAATAATAATAA-AA
1 ATAATAATAATAATAT
1121059 ATTAATAATAATAATAT
1 A-TAATAATAATAATAT
1121076 ATAATAAT-ATAATAT
1 ATAATAATAATAATAT
1121091 TTTTGTAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.28
16 19 0.66
17 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATAATAATAT
Found at i:1121792 original size:80 final size:80
Alignment explanation
Indices: 1121703--1121966 Score: 303
Period size: 80 Copynumber: 3.2 Consensus size: 80
1121693 TTGAATATAA
*
1121703 TCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATTTGCCT
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATTTGCCT
1121768 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
* * * * * * * *
1121783 TCGATCTCGAAGGCCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATA
1 TCGAACTCGAAGGTCTTTGG---CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGAT-TT
* * * * *
1121848 CCCTCGAAGCTGAGTGTAA
62 GCCTTGGAGCTGAGCGTAG
** * * * *
1121867 TCGAACTCGGGGGTCCTTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATTTGCCT
*
1121932 TGGAGCTGAGCATAG
66 TGGAGCTGAGCGTAG
1121947 TCGAACTCGAAGGTCTTTGG
1 TCGAACTCGAAGGTCTTTGG
1121967 TTGGCACGAT
Statistics
Matches: 143, Mismatches: 37, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
80 47 0.33
81 32 0.22
83 34 0.24
84 30 0.21
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (80 bp):
TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATTTGCCT
TGGAGCTGAGCGTAG
Done.