Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 53 of 62
Found at i:12617718 original size:13 final size:12
Alignment explanation
Indices: 12617586--12617718 Score: 50
Period size: 13 Copynumber: 11.0 Consensus size: 12
12617576 CACGCCTATA
12617586 TCATCACCATAGT
1 TCATCACCATA-T
*
12617599 CCATCACCAT-T
1 TCATCACCATAT
*
12617610 ATCAT-GCC-TAT
1 -TCATCACCATAT
*
12617621 ATCATCATCATAGT
1 -TCATCACCATA-T
*
12617635 CCATCACC--AT
1 TCATCACCATAT
*
12617645 T-ATCACGCCTAT
1 TCATCAC-CATAT
12617657 ATCATCACCATAGT
1 -TCATCACCATA-T
*
12617671 CCATCACC--AT
1 TCATCACCATAT
*
12617681 T-ATCACGCCTAT
1 TCATCAC-CATAT
12617693 ATCATCACCATAT
1 -TCATCACCATAT
12617706 TCCATCACCATAT
1 T-CATCACCATAT
12617719 CACGCCTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 34
0.66 0.09 0.25
Matches are distributed among these distances:
9 10 0.11
10 5 0.05
11 11 0.12
12 9 0.10
13 44 0.48
14 12 0.13
ACGTcount: A:0.31, C:0.35, G:0.05, T:0.30
Consensus pattern (12 bp):
TCATCACCATAT
Found at i:12618141 original size:12 final size:11
Alignment explanation
Indices: 12618110--12618157 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
12618100 AAAGTACTAC
12618110 AAAA-AAAAAG
1 AAAAGAAAAAG
12618120 CAACAAGAAAGAAG
1 -AA-AAGAAA-AAG
12618134 AAAAGAAAAGAG
1 AAAAGAAAA-AG
12618146 AAAAGAAAAAG
1 AAAAGAAAAAG
12618157 A
1 A
12618158 CTCCTACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.18
12 19 0.58
13 5 0.15
14 3 0.09
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:12618204 original size:14 final size:15
Alignment explanation
Indices: 12618181--12618225 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
12618171 TTTGGAGTGC
12618181 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
12618196 AAAAG-AAGAAAATA
1 AAAAGAAAGAAAAGA
12618210 AAAAGCAAAAGAAAAG
1 AAAAG--AAAGAAAAG
12618226 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.52
15 5 0.20
17 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:12621714 original size:13 final size:12
Alignment explanation
Indices: 12621698--12621829 Score: 60
Period size: 13 Copynumber: 10.8 Consensus size: 12
12621688 ATACTATTTC
12621698 CATCACCATAAT
1 CATCACCATAAT
* *
12621710 CCATCTTCCATTAT
1 -CATC-ACCATAAT
*
12621724 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12621735 CATCACCATAGT
1 CATCACCATAAT
*
12621747 CCATCACCATTAT
1 -CATCACCATAAT
*
12621760 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12621771 CATCACCATAGT
1 CATCACCATAAT
*
12621783 CCATCACCATTAT
1 -CATCACCATAAT
*
12621796 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12621807 CATCACCATATT
1 CATCACCATAAT
12621819 CCATCACCATA
1 -CATCACCATA
12621830 TCACGCCTAT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
10 3 0.03
11 20 0.23
12 17 0.19
13 42 0.48
14 6 0.07
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (12 bp):
CATCACCATAAT
Found at i:12621743 original size:23 final size:23
Alignment explanation
Indices: 12621698--12621832 Score: 75
Period size: 23 Copynumber: 5.6 Consensus size: 23
12621688 ATACTATTTC
*
12621698 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCATTAT
*
12621724 CA-CGCCTATATCATCACCA-TAGT
1 CATCACC-ATATCATCACCATTA-T
*
12621747 CCATCACCAT-T-ATCACGCCTATAT
1 -CATCACCATATCATCAC-CAT-TAT
12621771 CATCACCATAGTCCATCACCATTAT
1 CATCACCATA-T-CATCACCATTAT
*
12621796 CA-CGCCTATATCATCACCA-TATT
1 CATCACC-ATATCATCACCATTA-T
12621819 CCATCACCATATCA
1 -CATCACCATATCA
12621833 CGCCTATATT
Statistics
Matches: 87, Mismatches: 7, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
22 9 0.10
23 24 0.28
24 21 0.24
25 22 0.25
26 6 0.07
27 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (23 bp):
CATCACCATATCATCACCATTAT
Found at i:12621764 original size:36 final size:36
Alignment explanation
Indices: 12621698--12621849 Score: 252
Period size: 36 Copynumber: 4.2 Consensus size: 36
12621688 ATACTATTTC
* *
12621698 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAGTCCATC-ACCATTATCACGCCTATAT
12621735 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
12621771 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
12621807 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
12621842 TATCACCA
1 CATCACCA
12621850 ACTTATAAAT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 21 0.19
36 74 0.67
37 16 0.14
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACGCCTATAT
Found at i:12622324 original size:14 final size:15
Alignment explanation
Indices: 12622290--12622336 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
12622280 AATTTGGAGT
12622290 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
12622305 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
12622319 TCAAAAGTAAAAGAAAA
1 GCAAAAG--AAAGAAAA
12622336 G
1 G
12622337 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.04
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:12622531 original size:24 final size:25
Alignment explanation
Indices: 12622487--12622536 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
12622477 TTACAATTTC
*
12622487 ATTTCATTTTCTTTCATCTTTTCTT
1 ATTTCATTTACTTTCATCTTTTCTT
12622512 ATTTCA-TTACTTT-ATCCTTTTCTT
1 ATTTCATTTACTTTCAT-CTTTTCTT
12622536 A
1 A
12622537 ACCTTTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 15 0.65
25 6 0.26
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTCATTTACTTTCATCTTTTCTT
Found at i:12623642 original size:24 final size:23
Alignment explanation
Indices: 12623615--12623681 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
12623605 TTAAAGATAA
12623615 CGTCGTTTGAAGTTCCAAGAGAAG
1 CGTCG-TTGAAGTTCCAAGAGAAG
* * **
12623639 CGTCACTTGAAGTGCCAAGAGTTG
1 CGTC-GTTGAAGTTCCAAGAGAAG
*
12623663 CGTTCGTTGAAATTCCAAG
1 CG-TCGTTGAAGTTCCAAG
12623682 TGCATTGCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (23 bp):
CGTCGTTGAAGTTCCAAGAGAAG
Found at i:12625824 original size:13 final size:12
Alignment explanation
Indices: 12625808--12625939 Score: 60
Period size: 13 Copynumber: 10.8 Consensus size: 12
12625798 ATACTATTTC
12625808 CATCACCATAAT
1 CATCACCATAAT
* *
12625820 CCATCTTCCATTAT
1 -CATC-ACCATAAT
*
12625834 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12625845 CATCACCATAGT
1 CATCACCATAAT
*
12625857 CCATCACCATTAT
1 -CATCACCATAAT
*
12625870 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12625881 CATCACCATAGT
1 CATCACCATAAT
*
12625893 CCATCACCATTAT
1 -CATCACCATAAT
*
12625906 CA-CGCC-TATAT
1 CATCACCATA-AT
*
12625917 CATCACCATATT
1 CATCACCATAAT
12625929 CCATCACCATA
1 -CATCACCATA
12625940 TCACGCCTAT
Statistics
Matches: 88, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
10 3 0.03
11 20 0.23
12 17 0.19
13 42 0.48
14 6 0.07
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (12 bp):
CATCACCATAAT
Found at i:12625853 original size:23 final size:23
Alignment explanation
Indices: 12625808--12625942 Score: 75
Period size: 23 Copynumber: 5.6 Consensus size: 23
12625798 ATACTATTTC
*
12625808 CATCACCATAATCCATCTTCCATTAT
1 CATCACCAT-AT-CATC-ACCATTAT
*
12625834 CA-CGCCTATATCATCACCA-TAGT
1 CATCACC-ATATCATCACCATTA-T
*
12625857 CCATCACCAT-T-ATCACGCCTATAT
1 -CATCACCATATCATCAC-CAT-TAT
12625881 CATCACCATAGTCCATCACCATTAT
1 CATCACCATA-T-CATCACCATTAT
*
12625906 CA-CGCCTATATCATCACCA-TATT
1 CATCACC-ATATCATCACCATTA-T
12625929 CCATCACCATATCA
1 -CATCACCATATCA
12625943 CGCCTATATT
Statistics
Matches: 87, Mismatches: 7, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
22 9 0.10
23 24 0.28
24 21 0.24
25 22 0.25
26 6 0.07
27 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (23 bp):
CATCACCATATCATCACCATTAT
Found at i:12625874 original size:36 final size:36
Alignment explanation
Indices: 12625808--12625959 Score: 252
Period size: 36 Copynumber: 4.2 Consensus size: 36
12625798 ATACTATTTC
* *
12625808 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAGTCCATC-ACCATTATCACGCCTATAT
12625845 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
12625881 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
12625917 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATAGTCCATCACCATTATCACGCCTATAT
*
12625952 TATCACCA
1 CATCACCA
12625960 ACTTATAAAT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 21 0.19
36 74 0.67
37 16 0.14
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACGCCTATAT
Found at i:12628503 original size:23 final size:23
Alignment explanation
Indices: 12628477--12628525 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
12628467 CATTGAAAAG
12628477 AAACCACCCTTCGATTTGAGGAC
1 AAACCACCCTTCGATTTGAGGAC
12628500 AAACCACCCTTCGATTTGAGGAC
1 AAACCACCCTTCGATTTGAGGAC
12628523 AAA
1 AAA
12628526 TCACTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (23 bp):
AAACCACCCTTCGATTTGAGGAC
Found at i:12634841 original size:18 final size:17
Alignment explanation
Indices: 12634813--12634854 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
12634803 TATTATTTTA
12634813 ATTTAAATTGCTTTTATTT
1 ATTT-AATTGCTTTTA-TT
12634832 ATTTAATTGCTTTTATT
1 ATTTAATTGCTTTTATT
12634849 ATTTAA
1 ATTTAA
12634855 ATATCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTTAATTGCTTTTATT
Found at i:12635582 original size:11 final size:11
Alignment explanation
Indices: 12635566--12635595 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12635556 TTAGATTATT
12635566 GGATTTGGGTC
1 GGATTTGGGTC
12635577 GGATTTGGGTC
1 GGATTTGGGTC
*
12635588 AGATTTGG
1 GGATTTGG
12635596 ATCTGGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.07, G:0.43, T:0.37
Consensus pattern (11 bp):
GGATTTGGGTC
Found at i:12640126 original size:18 final size:17
Alignment explanation
Indices: 12640103--12640149 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
12640093 ACTCATTTTT
12640103 GGTATCAATACTCT-TAGG
1 GGTATCAATACT-TGTA-G
*
12640121 GGTATCGATACTTGTAG
1 GGTATCAATACTTGTAG
12640138 GGTATCAATACT
1 GGTATCAATACT
12640150 GCAAGTAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (17 bp):
GGTATCAATACTTGTAG
Found at i:12642203 original size:25 final size:25
Alignment explanation
Indices: 12642175--12642231 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
12642165 ATAATCATCT
* *
12642175 CATAAGAACCTTATGAGTAAGATTC
1 CATAAGAACATTATAAGTAAGATTC
*
12642200 CATAAGAACATTATAATTAAGATTC
1 CATAAGAACATTATAAGTAAGATTC
12642225 CATAAGA
1 CATAAGA
12642232 CATATGCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (25 bp):
CATAAGAACATTATAAGTAAGATTC
Found at i:12643184 original size:26 final size:26
Alignment explanation
Indices: 12643134--12643197 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
12643124 CAAACATATT
* * *
12643134 CATAGTCTGAATCAACCAATAATAAC
1 CATAATCTGAATCAAACAATAATAAA
12643160 CATAATCTGAATCAAACAA-AGATAAA
1 CATAATCTGAATCAAACAATA-ATAAA
*
12643186 CATAATTTGAAT
1 CATAATCTGAAT
12643198 ATTATGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (26 bp):
CATAATCTGAATCAAACAATAATAAA
Found at i:12647346 original size:65 final size:63
Alignment explanation
Indices: 12647230--12647375 Score: 168
Period size: 65 Copynumber: 2.3 Consensus size: 63
12647220 TTGAATGTAT
* * * *
12647230 TTTATGCACCGGTGCACAACCACACATCGATGCACTTAGGATTTTATTGAAACATCGAATGCA
1 TTTATGCATCGATGCACAACCACACATCGATGCACTTAGGATTGTATTGAAACATCGAATGAA
** * *
12647293 TCTTATGCATCGATGCACAGACCATGCATCGATGCACTCTTGGCTTGT-TTGAAACATCGAATGT
1 T-TTATGCATCGATGCACA-ACCACACATCGATGCACT-TAGGATTGTATTGAAACATCGAATG-
12647357 AA
62 AA
*
12647359 TTAATGCATCGATGCAC
1 TTTATGCATCGATGCAC
12647376 CCCTAGTGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
63 1 0.01
64 15 0.21
65 46 0.66
66 8 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (63 bp):
TTTATGCATCGATGCACAACCACACATCGATGCACTTAGGATTGTATTGAAACATCGAATGAA
Found at i:12656012 original size:65 final size:64
Alignment explanation
Indices: 12655878--12656033 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
12655868 ACACCCCATT
* * * *
12655878 TCGAATGCATTTTATGCA-CTGATGCATAGACATGCATCGATGCACTCAGGATTTTATTAAAACA
1 TCGAATGCATTTTATGCATC-GATGCACAGACATGCATCAATACACTCAGGATTGTATTAAAACA
* * * *
12655942 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCAATACACTCTTGGCTTGT-TTGAAAC
1 TCGAATGCATTTTATGCATCGATGCACAGA-CATGCATCAATACACTC-AGGATTGTATTAAAAC
12656006 A
64 A
* * *
12656007 TCGAATGTAATTAATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
12656034 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 26 0.33
65 47 0.60
66 5 0.06
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACAGACATGCATCAATACACTCAGGATTGTATTAAAACA
Found at i:12658025 original size:17 final size:17
Alignment explanation
Indices: 12658003--12658055 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
12657993 AATTAAGAGT
* *
12658003 TAGTTTGATTAATGCAC
1 TAGTTTAATTAATGAAC
* *
12658020 TAGTTTAATGATTGAAC
1 TAGTTTAATTAATGAAC
*
12658037 TAGTTTAATTAATTAAC
1 TAGTTTAATTAATGAAC
12658054 TA
1 TA
12658056 ACTTTATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:12658118 original size:17 final size:17
Alignment explanation
Indices: 12658098--12658160 Score: 72
Period size: 17 Copynumber: 3.7 Consensus size: 17
12658088 TAGTTTATTT
**
12658098 AATGAACTAGATGTATA
1 AATGAACTAGATACATA
12658115 AATGAACTAGATACATA
1 AATGAACTAGATACATA
** * *
12658132 AATGAACTACTTCCCTA
1 AATGAACTAGATACATA
12658149 AATGAACTAGAT
1 AATGAACTAGAT
12658161 GCTCAACTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (17 bp):
AATGAACTAGATACATA
Found at i:12659554 original size:134 final size:136
Alignment explanation
Indices: 12659312--12659578 Score: 439
Period size: 134 Copynumber: 2.0 Consensus size: 136
12659302 TGCATAAAGC
*
12659312 TTTCTAAAATGTTATGCATTTGAAAAAAATCGATACCAATTGTTAAAGAGATATAATTTGCAATA
1 TTTCTAAAATGTTATGCATTTGAAAAAAATCGATACCAATTGTTAAAGAGATATAATTTGAAATA
* *
12659377 AAAAGTGCATGCATAAACGTTTAAGTTTAAGGTCAAAAATAAAAGTTTGTAAAAACAAAACATTA
66 AAAAGTACATGCATAAACATTTAAGTTTAAGGTCAAAAATAAAAGTTTGTAAAAACAAAACATTA
12659442 AAACCA
131 AAACCA
* * * *
12659448 TTTCTAAAATGTTATGCATTTG-AAAAAAT-GATATCAATTGTTAGAGATATATCATTTGAAATA
1 TTTCTAAAATGTTATGCATTTGAAAAAAATCGATACCAATTGTTAAAGAGATATAATTTGAAATA
* *
12659511 AAATGTACATGCATAAACATTTAAGTTTAAGGTCAAAAATAAAAGTTTGTAAAAACAAAATATTA
66 AAAAGTACATGCATAAACATTTAAGTTTAAGGTCAAAAATAAAAGTTTGTAAAAACAAAACATTA
12659576 AAA
131 AAA
12659579 GCATATTTGA
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
134 93 0.76
135 7 0.06
136 22 0.18
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (136 bp):
TTTCTAAAATGTTATGCATTTGAAAAAAATCGATACCAATTGTTAAAGAGATATAATTTGAAATA
AAAAGTACATGCATAAACATTTAAGTTTAAGGTCAAAAATAAAAGTTTGTAAAAACAAAACATTA
AAACCA
Found at i:12660172 original size:18 final size:19
Alignment explanation
Indices: 12660151--12660188 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12660141 TCAAAATTTC
*
12660151 ATTTATT-TTTGAAAATCA
1 ATTTATTCTTTCAAAATCA
*
12660169 ATTTTTTCTTTCAAAATCA
1 ATTTATTCTTTCAAAATCA
12660188 A
1 A
12660189 ATCATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTATTCTTTCAAAATCA
Found at i:12676007 original size:20 final size:20
Alignment explanation
Indices: 12675921--12676014 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
12675911 CAAGCGATGT
* *
12675921 GGTATCGATACCATGGTAAT
1 GGTATCGATACCATGGTGAG
*
12675941 GGTATCGATACCTAAGG-G-G
1 GGTATCGATACC-ATGGTGAG
* * **
12675960 GGTATTGGTACCATAACAT-AG
1 GGTATCGATACCAT--GGTGAG
12675981 TGGTATCGATACCATGGTGAG
1 -GGTATCGATACCATGGTGAG
12676002 GGTATCGATACCA
1 GGTATCGATACCA
12676015 GACTACATCG
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
18 1 0.02
19 10 0.18
20 26 0.47
21 6 0.11
22 12 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (20 bp):
GGTATCGATACCATGGTGAG
Found at i:12676106 original size:20 final size:20
Alignment explanation
Indices: 12676051--12676106 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 20
12676041 TCATACTAGA
12676051 AGGGGTATCGATACCATAGT
1 AGGGGTATCGATACCATAGT
* *
12676071 AGGGTAGTATCAATACCATGGT
1 AGGG--GTATCGATACCATAGT
12676093 AGGGGTATCGATAC
1 AGGGGTATCGATAC
12676107 TGAAAGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (20 bp):
AGGGGTATCGATACCATAGT
Found at i:12676629 original size:79 final size:79
Alignment explanation
Indices: 12676489--12676959 Score: 663
Period size: 79 Copynumber: 6.0 Consensus size: 79
12676479 AAACAAATTA
* * * *
12676489 ATAAAAGAATAATGTATATGGGTGCATTAGTGGCATGAAAGGGTACCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
12676554 GGTACATTATCGGC
66 GGTACATTATCGGC
* * * * *
12676568 ATAACAGAGTAATGAATATGGGTGTATTAGTGGTATGTAAGGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* *
12676633 GGTACATTACCGCC
66 GGTACATTATCGGC
* *
12676647 ATAACAGAATAATGCATATGGGTACATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
12676712 GGTACATTATCGGC
66 GGTACATTATCGGC
* * * ** *
12676726 ATAATAGAATAATGCATGTGGGTACATTAGTGGCATGAAAGGATGAATTAGTTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
12676791 GGTACATTATCGGC
66 GGTACATTATCGGC
* * *
12676805 ATAAAAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGTCTTAGCCGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
*
12676870 GGTACATTATCGGT
66 GGTACATTATCGGC
* * ** * * *
12676884 ATAACGGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGTTGAAATATATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
*
12676949 GGTGCATTATC
66 GGTACATTATC
12676960 AACATAAAAG
Statistics
Matches: 348, Mismatches: 44, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 348 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (79 bp):
ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
GGTACATTATCGGC
Found at i:12677524 original size:81 final size:81
Alignment explanation
Indices: 12677382--12677535 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
12677372 AATGGCCTAG
* * ** *
12677382 CTGTGCAATTGACAGAAAGGTGTCAATTATGCTAGATAGATGAAATGTTAAGTACCGTTGAGTAA
1 CTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGATAGATGAAAGGTTAAACACCATTGAGTAA
12677447 AAGAATAATGGTTTAA
66 AAGAATAATGGTTTAA
* * * *
12677463 CTGTGCAATT-AGCAGAAATGTGTCAATTATGCCAGTTAGATGAAGGGTTAAACACTATTGAGTA
1 CTGTGCAATTGA-CAGAAAGGTGTCAATTATGCCAGATAGATGAAAGGTTAAACACCATTGAGTA
*
12677527 AGAGAATAA
65 AAAGAATAA
12677536 AGGAATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (81 bp):
CTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGATAGATGAAAGGTTAAACACCATTGAGTAA
AAGAATAATGGTTTAA
Found at i:12677690 original size:45 final size:45
Alignment explanation
Indices: 12677644--12677732 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
12677634 ACAGAACATA
* *
12677644 AAAGGTATGAAAGTATGTCAAAAAT-GAAAT-GTATAATAGTGTAT
1 AAAGGCATGAAAGGATG-CAAAAATGGAAATGGTATAATAGTGTAT
* * *
12677688 AAAGGCATGAAAGGATGCCATAATGGAAATGGTATAATGGTGTAT
1 AAAGGCATGAAAGGATGCAAAAATGGAAATGGTATAATAGTGTAT
12677733 TATAAGCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
43 5 0.13
44 20 0.53
45 13 0.34
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (45 bp):
AAAGGCATGAAAGGATGCAAAAATGGAAATGGTATAATAGTGTAT
Found at i:12681216 original size:34 final size:34
Alignment explanation
Indices: 12681173--12681242 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
12681163 AATGGATAGT
*
12681173 TTACTCTTGGTAGTGGGGTTTTATTGAAATCAAA
1 TTACTCTTGGGAGTGGGGTTTTATTGAAATCAAA
12681207 TTACTCTTGGGAGTGGGGTTTTATTGAAATCAAA
1 TTACTCTTGGGAGTGGGGTTTTATTGAAATCAAA
12681241 TT
1 TT
12681243 CTTGATCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (34 bp):
TTACTCTTGGGAGTGGGGTTTTATTGAAATCAAA
Found at i:12683914 original size:59 final size:56
Alignment explanation
Indices: 12683807--12683931 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 56
12683797 CAGCATGTTG
* * * * *
12683807 CATATTTGGGATTGCACTAAAGTATTAGTGCATATGGTGGGCATGACCTTATGTGT
1 CATATTCGGGACTGCACTAAAGTATTAGTGCAGATGGTGGGCACGACCTTATATGT
12683863 CATATTCGGGACTGCACTAAAGTATAACTAGTGCAGATGGTGGGCACGACCTTATATGT
1 CATATTCGGGACTGCACTAAAGTAT---TAGTGCAGATGGTGGGCACGACCTTATATGT
*
12683922 CATACTCGGG
1 CATATTCGGG
12683932 TTAGCACTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 23 0.38
59 37 0.62
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (56 bp):
CATATTCGGGACTGCACTAAAGTATTAGTGCAGATGGTGGGCACGACCTTATATGT
Found at i:12690268 original size:59 final size:56
Alignment explanation
Indices: 12690097--12690286 Score: 238
Period size: 56 Copynumber: 3.3 Consensus size: 56
12690087 CAGCAAGCTG
* *
12690097 CATATTCGGGATTGCACTAAAGTATTAGTGCATATGGTGGGCACGACCTTATGTGT
1 CATACTCGGGATTACACTAAAGTATTAGTGCATATGGTGGGCACGACCTTATGTGT
* * * *
12690153 CATACTCTGGATTTCACTAAAGTATTAGTGCATATGGTGGACACAACCTTATGTGT
1 CATACTCGGGATTACACTAAAGTATTAGTGCATATGGTGGGCACGACCTTATGTGT
* * * * *
12690209 CATATTCGGGACTACACTAAAGTATAACTAGTGTAGATGGTGGGCATGACCTTATGTGT
1 CATACTCGGGATTACACTAAAGTAT---TAGTGCATATGGTGGGCACGACCTTATGTGT
12690268 CATACTCGGG-TTAGCACTA
1 CATACTCGGGATTA-CACTA
12690287 CGGTGGATAT
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
56 72 0.63
58 2 0.02
59 40 0.35
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
CATACTCGGGATTACACTAAAGTATTAGTGCATATGGTGGGCACGACCTTATGTGT
Found at i:12692702 original size:19 final size:19
Alignment explanation
Indices: 12692651--12692707 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
12692641 TTGGACTCTC
* *
12692651 AGTGCATCAATGCACTAAG
1 AGTGCATCGATGCACCAAG
* * *
12692670 AGTGCGTTGGTGCACCAAG
1 AGTGCATCGATGCACCAAG
*
12692689 AGTGCATCGATGCATCAAG
1 AGTGCATCGATGCACCAAG
12692708 TGCATTTGAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCACCAAG
Found at i:12692826 original size:65 final size:65
Alignment explanation
Indices: 12692690--12692849 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
12692680 TGCACCAAGA
* * * *
12692690 GTGCATCGATGCATCAAGTGCATTTGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATAGCTG
* * *
12692754 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATAG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATAGCT
*
12692817 AT
65 -G
* *
12692819 GTTCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
12692850 CAATTTAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 28 0.34
65 52 0.63
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATAGCTG
Found at i:12692891 original size:65 final size:63
Alignment explanation
Indices: 12692690--12692899 Score: 187
Period size: 65 Copynumber: 3.3 Consensus size: 63
12692680 TGCACCAAGA
* * * *
12692690 GTGCATCGATGCATCAAGTGCATTTGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
12692753 G
63 G
* *
12692754 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATAGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
12692819 -
63 G
* * ** *
12692819 GTTCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCCTGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
12692882 TG
62 TG
*
12692884 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
12692900 CTCTGAAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 46 0.38
65 62 0.52
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:12693950 original size:21 final size:21
Alignment explanation
Indices: 12693899--12693950 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
12693889 AGGAGCACGA
*
12693899 GAAGAGCTAAGAGCAGCTAGT
1 GAAGAGCTAGGAGCAGCTAGT
* *
12693920 GAAGAGCTAGGAGCATCTTGT
1 GAAGAGCTAGGAGCAGCTAGT
12693941 GAAGAGCTAG
1 GAAGAGCTAG
12693951 CTCCCGGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.35, T:0.17
Consensus pattern (21 bp):
GAAGAGCTAGGAGCAGCTAGT
Found at i:12695822 original size:2 final size:2
Alignment explanation
Indices: 12695815--12695840 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12695805 CATTATAAGC
12695815 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
12695841 TATTTATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12700891 original size:8 final size:8
Alignment explanation
Indices: 12700880--12700906 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12700870 CATACCCTAG
12700880 GTGCATCA
1 GTGCATCA
12700888 GTGCATCA
1 GTGCATCA
12700896 GTGCATCA
1 GTGCATCA
12700904 GTG
1 GTG
12700907 TAAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (8 bp):
GTGCATCA
Found at i:12705355 original size:18 final size:18
Alignment explanation
Indices: 12705332--12705366 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12705322 TAATGGAAAT
*
12705332 AAAACATATTTAAAATAG
1 AAAACATACTTAAAATAG
12705350 AAAACATACTTAAAATA
1 AAAACATACTTAAAATA
12705367 TTACGAGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAACATACTTAAAATAG
Found at i:12710765 original size:22 final size:22
Alignment explanation
Indices: 12710723--12710765 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12710713 CACTGGTTAT
* *
12710723 TATATGGTGTTTATCATGAATA
1 TATATGATGTTTATCACGAATA
*
12710745 TATATGATGTTTATTACGAAT
1 TATATGATGTTTATCACGAAT
12710766 GTTATTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (22 bp):
TATATGATGTTTATCACGAATA
Found at i:12724697 original size:31 final size:31
Alignment explanation
Indices: 12724612--12724686 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
12724602 CAAAATTTTG
*
12724612 ATAAATTTAATGATTATTTTATAACAGTTCA
1 ATAAATTTAATGATAATTTTATAACAGTTCA
* *
12724643 ATAAAGTTAATGATAATTTTATAACAGTTTA
1 ATAAATTTAATGATAATTTTATAACAGTTCA
12724674 ATAAATTTAATGA
1 ATAAATTTAATGA
12724687 CCATATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (31 bp):
ATAAATTTAATGATAATTTTATAACAGTTCA
Found at i:12727326 original size:20 final size:20
Alignment explanation
Indices: 12727305--12727375 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
12727295 GTAAGGGTAT
*
12727305 CGATACTGATAGAACAGTAT
1 CGATACTGATAGAACAGTAC
12727325 CGATACTGATAGAACAGTAC
1 CGATACTGATAGAACAGTAC
*
12727345 CGATACTGATAGAACAATAC
1 CGATACTGATAGAACAGTAC
12727365 CGATACT-ATAG
1 CGATACTGATAG
12727376 GCTTAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 4 0.08
20 45 0.92
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (20 bp):
CGATACTGATAGAACAGTAC
Found at i:12727460 original size:19 final size:20
Alignment explanation
Indices: 12727425--12727471 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
12727415 GATGTATGTA
*
12727425 GTATCGATACCGAGAGG-GG
1 GTATCGATACCGAGAGGAAG
*
12727444 GTATCGATA-CTATGAGGAAG
1 GTATCGATACCGA-GAGGAAG
12727464 GTATCGAT
1 GTATCGAT
12727472 GCCATTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (20 bp):
GTATCGATACCGAGAGGAAG
Found at i:12727521 original size:19 final size:21
Alignment explanation
Indices: 12727496--12727549 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
12727486 AATGCAAAAA
12727496 TAGTATCGATACCGTA-ATAG
1 TAGTATCGATACCGTAGATAG
12727516 -AGTATC-AGTACCGTAGTATAG
1 TAGTATCGA-TACCGTAG-ATAG
*
12727537 TAGTTTCGATACC
1 TAGTATCGATACC
12727550 ATGGTAGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
21 4 0.14
22 9 0.32
23 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (21 bp):
TAGTATCGATACCGTAGATAG
Found at i:12727980 original size:27 final size:27
Alignment explanation
Indices: 12727950--12728035 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
12727940 GTATGGGCAC
12727950 TATGTGTGCAACTCACGGAATTCATCA
1 TATGTGTGCAACTCACGGAATTCATCA
* * **
12727977 TATGTTGATG-AAC-AATC-G-TTTCAGAA
1 TATG-TG-TGCAACTCA-CGGAATTCATCA
12728003 CTATGTGTGCAACTCACGGAATTCATCA
1 -TATGTGTGCAACTCACGGAATTCATCA
12728031 TATGT
1 TATGT
12728036 TCATGAACAA
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 17 0.40
28 11 0.26
29 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
TATGTGTGCAACTCACGGAATTCATCA
Found at i:12728088 original size:27 final size:27
Alignment explanation
Indices: 12728058--12728143 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 27
12728048 GTTTAGGCAC
12728058 TATGTGTGCAACTCACAGAATTCATCA
1 TATGTGTGCAACTCACAGAATTCATCA
* * *
12728085 TATGCTGATG-AAC-AACCG-TTTCGA-CA
1 TATG-TG-TGCAACTCACAGAATTC-ATCA
* *
12728111 CTATGTGTGCAACTCACGGAATTAATCA
1 -TATGTGTGCAACTCACAGAATTCATCA
12728139 TATGT
1 TATGT
12728144 TGATGAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 2 0.05
26 10 0.23
27 21 0.48
28 9 0.20
29 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (27 bp):
TATGTGTGCAACTCACAGAATTCATCA
Found at i:12728217 original size:54 final size:54
Alignment explanation
Indices: 12727893--12728229 Score: 433
Period size: 54 Copynumber: 6.2 Consensus size: 54
12727883 TAATAAATGG
* ** * * * * *
12727893 CACTATGTGTGCAACTCACGAAATTTGTCATATGTTGATAAACAACTGTATGGG
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
*
12727947 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAATCGTTTCAGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTT-AGA
* *
12728002 -ACTATGTGTGCAACTCACGGAATTCATCATATGTTCATGAACAACCGTTTAGG
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
* * *
12728055 CACTATGTGTGCAACTCACAGAATTCATCATATGCTGATGAACAACCGTTTCGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
* * *
12728109 CACTATGTGTGCAACTCACGGAATTAATCATATGTTGATGAAAAACCATTTAGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
* * * * * * *
12728163 CACTATGTGTGCAACCCATGGAATTCATAATATGTTTATTAACGACCGTATAGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
*
12728217 CACTACGTGTGCA
1 CACTATGTGTGCA
12728230 TCGAAACGAA
Statistics
Matches: 247, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.01
54 244 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (54 bp):
CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTAGA
Found at i:12733954 original size:18 final size:18
Alignment explanation
Indices: 12733931--12733971 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
12733921 GACTTGTCAA
12733931 AGAAGTAAATGAGAGATT
1 AGAAGTAAATGAGAGATT
12733949 AGAAGTAAATGAGAGATT
1 AGAAGTAAATGAGAGATT
12733967 AGAAG
1 AGAAG
12733972 CATTGGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (18 bp):
AGAAGTAAATGAGAGATT
Found at i:12734347 original size:19 final size:21
Alignment explanation
Indices: 12734323--12734376 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
12734313 TGCAAAAATG
12734323 GTATCGATACCATA-ATAG-A
1 GTATCGATACCATAGATAGTA
* *
12734342 GTATCGGTATCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
12734364 GTATCGATACCAT
1 GTATCGATACCAT
12734377 GGTAGGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:12734780 original size:54 final size:54
Alignment explanation
Indices: 12734721--12735053 Score: 468
Period size: 54 Copynumber: 6.2 Consensus size: 54
12734711 AAATGACACA
* *
12734721 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACTGTATGGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
* * * *
12734775 ATGTGTACAACTCACGGAATTCATCATATGTAGATGAATAACCGTTTCGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
** *
12734829 ATGTGTGCAACTCAATGAATTCATCATATGTTGATGAACAACCGTTTAGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
* * *
12734883 ATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACATCCGTTTTGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
* *
12734937 ATGTGTGCAAGTCACGGAATTCATCATATGTTGATGAACAACCGTTTTGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
* * * ** * *
12734991 ATGTGTGCAACCCACGGAATTCATAATATGTTTATGAATGACCATATGGGCACT
1 ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
*
12735045 ACGTGTGCA
1 ATGTGTGCA
12735054 TCGCAACGAA
Statistics
Matches: 250, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 250 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (54 bp):
ATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTGGGCACT
Found at i:12744412 original size:154 final size:155
Alignment explanation
Indices: 12744132--12744440 Score: 611
Period size: 154 Copynumber: 2.0 Consensus size: 155
12744122 GAGAAAGAAG
12744132 GAGACAACAACAATCAAATTCATAATCAAGTTCAGGCGAATCCATTAATACATAATCAAATCTAA
1 GAGACAACAACAATCAAATTCATAATCAAGTTCAGGCGAATCCATTAATACATAATCAAATCTAA
12744197 TGGCCAATCCCACTATCAGAGAGTAAGTCGCATCTCCTATTGAACAAGAACCTTTATACATTGA-
66 TGGCCAATCCCACTATCAGAGAGTAAGTCGCATCTCCTATTGAACAAGAACCTTTATACATTGAT
12744261 TTTCTCCAAGTTAAAGCTCCATACC
131 TTTCTCCAAGTTAAAGCTCCATACC
12744286 GAGACAACAACAATCAAATTCATAATCAAGTTCAGGCGAATCCATTAATACATAATCAAATCTAA
1 GAGACAACAACAATCAAATTCATAATCAAGTTCAGGCGAATCCATTAATACATAATCAAATCTAA
12744351 TGGCCAATCCCACTATCAGAGAGTAAGTCGCATCTCCTATTGAACAAGAACCTTTATACATTGAT
66 TGGCCAATCCCACTATCAGAGAGTAAGTCGCATCTCCTATTGAACAAGAACCTTTATACATTGAT
12744416 TTTCTCCAAGTTAAAGCTCCATACC
131 TTTCTCCAAGTTAAAGCTCCATACC
12744441 AGTTAAAAAC
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 129 0.84
155 25 0.16
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (155 bp):
GAGACAACAACAATCAAATTCATAATCAAGTTCAGGCGAATCCATTAATACATAATCAAATCTAA
TGGCCAATCCCACTATCAGAGAGTAAGTCGCATCTCCTATTGAACAAGAACCTTTATACATTGAT
TTTCTCCAAGTTAAAGCTCCATACC
Found at i:12746453 original size:30 final size:30
Alignment explanation
Indices: 12746419--12746487 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
12746409 TTGATCTATG
12746419 CAGGGAGTTAGAAGATCATGATGAGGAAAT
1 CAGGGAGTTAGAAGATCATGATGAGGAAAT
12746449 CAGGGAGTTAGAAGATCATGATGAGGAAAT
1 CAGGGAGTTAGAAGATCATGATGAGGAAAT
12746479 CAGGGAGTT
1 CAGGGAGTT
12746488 GGAAAACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (30 bp):
CAGGGAGTTAGAAGATCATGATGAGGAAAT
Found at i:12762530 original size:39 final size:39
Alignment explanation
Indices: 12762476--12762550 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
12762466 TCTTCGAGCC
12762476 TGGTTGCTTTTCTTACTTTGCCTTTGCCTTTGTTGTTCT
1 TGGTTGCTTTTCTTACTTTGCCTTTGCCTTTGTTGTTCT
*
12762515 TGGTTTCTTTTCTTACTTTGCCTTTGCCTTTGTTGT
1 TGGTTGCTTTTCTTACTTTGCCTTTGCCTTTGTTGT
12762551 GCTTTCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.03, C:0.20, G:0.17, T:0.60
Consensus pattern (39 bp):
TGGTTGCTTTTCTTACTTTGCCTTTGCCTTTGTTGTTCT
Found at i:12772402 original size:21 final size:21
Alignment explanation
Indices: 12772378--12772425 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
12772368 TCTTCGCCAG
12772378 CCTCCAGGAAGACAAAGTCAT
1 CCTCCAGGAAGACAAAGTCAT
*
12772399 CCTCCAGGAAGATAAAGTCAT
1 CCTCCAGGAAGACAAAGTCAT
12772420 CCTCCA
1 CCTCCA
12772426 AATAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (21 bp):
CCTCCAGGAAGACAAAGTCAT
Found at i:12787146 original size:80 final size:77
Alignment explanation
Indices: 12787002--12787157 Score: 174
Period size: 80 Copynumber: 2.0 Consensus size: 77
12786992 ATTAATAAAT
12787002 AAAATATTATTTAATTAATTAAATTAAATATACATTAAAGACTTATAATCTGAAATACAATC-TT
1 AAAATATTATTTAATTAATTAAATTAAATATACATTAAAGACTTATAATCTGAAATACAATCTTT
*
12787066 TAATGTTTATTA
66 TAATGCTTATTA
* * * * *
12787078 AAAATCTTATTTAATT-ATTCCGAATTATATATACCAATTAAAAGACTTGTAATCT-AGATTACA
1 AAAATATTATTTAATTAATT--AAATTAAATATA-C-ATT-AAAGACTTATAATCTGA-AATACA
*
12787141 TTCTTTTAATGCTTATT
60 ATCTTTTAATGCTTATT
12787158 TACTATATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
75 3 0.05
76 15 0.23
77 10 0.15
78 1 0.02
79 4 0.06
80 21 0.32
81 12 0.18
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (77 bp):
AAAATATTATTTAATTAATTAAATTAAATATACATTAAAGACTTATAATCTGAAATACAATCTTT
TAATGCTTATTA
Found at i:12790750 original size:51 final size:51
Alignment explanation
Indices: 12790680--12790784 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
12790670 AAGAAGATGA
12790680 GAAGATTTAGAAGTTCTAAGAGGTCAATAAAAGGTAGGACTCCAAGAGAAC
1 GAAGATTTAGAAGTTCTAAGAGGTCAATAAAAGGTAGGACTCCAAGAGAAC
12790731 GAAGATTTAGAAGTTCTAAGAGGTCAATAAAAGGTAGGACTCCAAGAGAAC
1 GAAGATTTAGAAGTTCTAAGAGGTCAATAAAAGGTAGGACTCCAAGAGAAC
12790782 GAA
1 GAA
12790785 AATGCAAGGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.19
Consensus pattern (51 bp):
GAAGATTTAGAAGTTCTAAGAGGTCAATAAAAGGTAGGACTCCAAGAGAAC
Found at i:12791683 original size:24 final size:24
Alignment explanation
Indices: 12791656--12791705 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12791646 AGATTAGGAA
12791656 AAAGA-AAACAAGGGTAATAAATTT
1 AAAGAGAAACAAGGGTAAT-AATTT
*
12791680 AAAGAGAAACCAGGGTAATAATTT
1 AAAGAGAAACAAGGGTAATAATTT
12791704 AA
1 AA
12791706 GACAAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (24 bp):
AAAGAGAAACAAGGGTAATAATTT
Found at i:12804392 original size:266 final size:265
Alignment explanation
Indices: 12803858--12804392 Score: 989
Period size: 265 Copynumber: 2.0 Consensus size: 265
12803848 TTGAGGAGAA
* * *
12803858 AAGGGAGTAGCTATAGTATTGGTGGGGATGTTGATGGTGGTGGTGCTAACGGTGGATCTGGCGGC
1 AAGGGAGTAGCTATAGTATTGGTGGGGATGCTGATGGTGGTGGTGCTAAAGGTGGATCTGGCGAC
*
12803923 TGTGGAGTATTTGACCTGATGCCAGTATCCAAATATTACTTGTCCAGATGGATCAAACCCGGGTT
66 TGTGGAGTATTTGACCTGATGCCAATATCCAAATATTACTTGTCCAGATGGATCAAACCCGGGTT
*
12803988 TCAACGCAGAGATCTAAAAATAGAAGGTACTCAACTTACTATCCATTAATACAGAAATTTGTATA
131 TCAACACAGAGATCTAAAAATAGAAGGTACTCAACTTACTATCCATTAATACAGAAATTTGTATA
*
12804053 CATGGATTATAAATCTTCTGCAATCATGTTATCCTAAAGGATTAATCATCAAGCTTATAAAACTC
196 CATGGATTATAAATCTTCTGCAATCATGTCATCCTAAAGGATTAATCATCAAGCTTATAAAACTC
12804118 CTGTT
261 CTGTT
*
12804123 AAGGGAGTAGCTGTAGTATTGGTGGGGATGCTGATGGTGGTGGTGCTAAAGGTGGATCTGGCGAC
1 AAGGGAGTAGCTATAGTATTGGTGGGGATGCTGATGGTGGTGGTGCTAAAGGTGGATCTGGCGAC
12804188 TGTGGAGTATTTGACCTGATGCCAATATCCAAATATTACTTGTCCAGATGGATCAAACCCGGGTT
66 TGTGGAGTATTTGACCTGATGCCAATATCCAAATATTACTTGTCCAGATGGATCAAACCCGGGTT
*
12804253 TCAACACAAGAGATCTAAAAATAGCAGGTACTCAACTTACTATCCATTAATACAGAAATTTGTAT
131 TCAACAC-AGAGATCTAAAAATAGAAGGTACTCAACTTACTATCCATTAATACAGAAATTTGTAT
12804318 ACATGGATTATAAATCTTCTGCAATCATGTCATCCTAAAGGATTAATCATCAAGCTTATAAAACT
195 ACATGGATTATAAATCTTCTGCAATCATGTCATCCTAAAGGATTAATCATCAAGCTTATAAAACT
12804383 CCTGTT
260 CCTGTT
12804389 AAGG
1 AAGG
12804393 CCATCTCTCA
Statistics
Matches: 261, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
265 131 0.50
266 130 0.50
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (265 bp):
AAGGGAGTAGCTATAGTATTGGTGGGGATGCTGATGGTGGTGGTGCTAAAGGTGGATCTGGCGAC
TGTGGAGTATTTGACCTGATGCCAATATCCAAATATTACTTGTCCAGATGGATCAAACCCGGGTT
TCAACACAGAGATCTAAAAATAGAAGGTACTCAACTTACTATCCATTAATACAGAAATTTGTATA
CATGGATTATAAATCTTCTGCAATCATGTCATCCTAAAGGATTAATCATCAAGCTTATAAAACTC
CTGTT
Found at i:12804896 original size:23 final size:23
Alignment explanation
Indices: 12804870--12804917 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12804860 ATAAAGTACA
*
12804870 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
12804893 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
12804916 AT
1 AT
12804918 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:12805423 original size:23 final size:23
Alignment explanation
Indices: 12805390--12805462 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
12805380 ATACTTTACA
*
12805390 ATATAAGCACTACATATTACATT
1 ATATAAGCACTACCTATTACATT
*
12805413 ATATAAACACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
12805436 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
12805459 ATAT
1 ATAT
12805463 TTTTATCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:12805848 original size:23 final size:23
Alignment explanation
Indices: 12805822--12805884 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
12805812 ATATAACCAC
*
12805822 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
12805845 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
12805868 TACCTATTACATCATAT
1 TACCTATTACATTATAT
12805885 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:12806263 original size:21 final size:21
Alignment explanation
Indices: 12806233--12806302 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
12806223 GATAGATACT
*
12806233 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
**
12806254 TTACATTATAAATGA-TACCTA
1 TTACATTAT-AACCACTACCTA
* * *
12806275 TTACTTATATAAGCGCTACCTA
1 TTACAT-TATAACCACTACCTA
12806297 TTACAT
1 TTACAT
12806303 CATATTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:12806294 original size:22 final size:22
Alignment explanation
Indices: 12806238--12806307 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
12806228 ATACTTTACA
*
12806238 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
12806261 ATA-AATGATACCTATTAC-TT
1 ATATAACGCTACCTATTACATT
*
12806281 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
12806304 ATAT
1 ATAT
12806308 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.13
21 12 0.32
22 13 0.34
23 8 0.21
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:12806676 original size:419 final size:429
Alignment explanation
Indices: 12805228--12806928 Score: 2914
Period size: 422 Copynumber: 4.0 Consensus size: 429
12805218 ATGTTTATTG
*
12805228 TTTTTAATTTAATAATAATATATATCGTAACGT-AAAAA-TAATCATTAGACGCCTATAA-TACT
1 TTTTTAATTTAATAAT-ATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
*
12805290 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
12805354 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACATTATATAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* *
12805419 A-CACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGAAA
195 ATGA-TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
* *
12805483 GTGTCCATATTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTCAAT
259 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATG-TTTCAA-
* *
12805548 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT-TTTTGCACAAAA
322 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
12805612 AATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
387 AATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
*
12805655 TTTTTAATTTAAT-A-ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTTAATTTAATAATATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTA
12805718 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG-
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
*
12805782 -T----ACTTTTATAAAAAAGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAA
131 ATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAA
12805842 TGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
196 TGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
12805907 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
261 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
*
12805972 TTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAA-TTCATTTGCACAAAAAATT
326 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
12806035 ATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
391 ATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
12806074 TTTTTAATTTATATAATATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTA-ATAATATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
*
12806139 -AA-TAATATCTTAAAAATCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
65 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
12806202 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-T-TATAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
12806265 ATGATACCTATTAC-TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
195 ATGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
12806329 TGTCCATACTTTTTAT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
260 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
12806393 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
325 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
12806458 TATTTGATTG-TTTGATATTTGATAAAAT-A-ATTTAGAA
390 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
12806495 TTTTTAATTTAATAATA-ATATATCGTAACGT-AAAAAGAAATCATTAGAC-CCTATAATTACTA
1 TTTTTAATTTAATAATATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTA
12806557 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGACAAAAA-
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA-AAAAAG
12806621 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
130 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* *
12806686 ACGATACCGATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
195 ATGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
12806751 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAAAT
260 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTC-AAT
12806815 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTT-A-AATTTCATTTACACAAAAA
323 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
12806878 ATTATTTGATTGTTTTGATATTTTAT-AAATAATA-TTAGAA
388 ATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
*
12806918 -TTTAAATTTAA
1 TTTTTAATTTAA
12806929 CAACATTAAC
Statistics
Matches: 1226, Mismatches: 19, Indels: 63
0.94 0.01 0.05
Matches are distributed among these distances:
417 12 0.01
418 22 0.02
419 217 0.18
420 95 0.08
421 45 0.04
422 397 0.32
423 173 0.14
424 109 0.09
425 6 0.00
426 70 0.06
427 41 0.03
428 39 0.03
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (429 bp):
TTTTTAATTTAATAATATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAA
TGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
ATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
Found at i:12806693 original size:23 final size:23
Alignment explanation
Indices: 12806667--12806729 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
12806657 ATATAACCAC
12806667 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
12806690 TACCGATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
12806713 TACCTATTACATCATAT
1 TACCTATTACATTATAT
12806730 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:12806792 original size:845 final size:845
Alignment explanation
Indices: 12805228--12806928 Score: 2925
Period size: 845 Copynumber: 2.0 Consensus size: 845
12805218 ATGTTTATTG
*
12805228 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAATAATCATTAGACGCCTATAATACTAAA
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATACTAAA
* * *
12805293 TTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATG
66 TTAATATCTTAAAAATCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATA
*
12805358 GACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACATTATATAAACAC
131 GACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACATATTACATTATATAAACAC
*
12805423 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTATCTATTATATTGAAAGTGTC
196 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
* *
12805488 CATATTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTCAATTTTTT
261 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTCAATTTTTT
* *
12805553 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTTTTGCACAAAAAATTAT
326 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTATTTACACAAAAAATTAT
12805618 TTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAAC
391 TTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAAC
*
12805683 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
456 GTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
*
12805748 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTACTTTTATAAAAAAGATAGATACTTTACAA
521 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGCACTTTTATAAAAAAGATAGATACTTTACAA
* *
12805813 TATAACCACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGCGCTACCTATTAC
586 TATAACCACTACCTATTACATTATATAAACGATACCGATTACATTATATAAGCGCTACCTATTAC
12805878 ATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTT
651 ATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTT
12805943 TAAAGTTATGTAATTTATGTTTC-AATTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATT
716 TAAAGTTATGTAATTTATGTTTCAAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT
*
12806006 AATTTAATAATTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTGATAAAATAATATTTA
781 AATTTAA-AATTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTGAT-AAATAATA-TTA
12806071 GAA
843 GAA
12806074 TTTTTAATTTATATAAT-ATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTAC
1 TTTTTAATTTA-ATAATAATATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAA-TAC
12806138 T-AA-TAATATCTTAAAAATCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
62 TAAATTAATATCTTAAAAATCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
*
12806201 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATA-A
126 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACATATTACATTATATA
**
12806265 ATGA-TACCTATTAC-TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
191 AACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
12806328 GTGTCCATACTTTTTAT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATG-TTTCAA-
256 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTCAAT
12806390 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
321 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT-ATTTACACAAAA
12806455 AATTATTTGATTG-TTTGATATTTGATAAAAT-A-ATTTAGAATTTTTAATTTAATAATAATATA
385 AATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAAT-ATATA
12806517 TCGTAACGT-AAAAAGAAATCATTAGAC-CCTATAATTACTAAATTAATATCTTAAAACTCACTC
449 TCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
12806580 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGACAAAAATATAGACACTTTTATAAAAAGGAT
514 AAAAGATAACCTTAAATTAATGTTTTCCACAGTG---AAAA-A-AG-CACTTTTATAAAAAAGAT
12806645 AGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCGATTACATTATATAAG
573 AGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCGATTACATTATATAAG
12806710 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
638 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
12806775 TCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTTAATAGTGTTTCATGTTTT
703 TCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAAATTTTTTTAATAGTGTTTCATGTTTT
* *
12806839 CCACCTACAATATTAATTTAAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTAT
767 CCACCTACAATATTAATTTAAAATTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTGAT
12806904 AAATAATATTAGAA
832 AAATAATATTAGAA
*
12806918 -TTTAAATTTAA
1 TTTTTAATTTAA
12806929 CAACATTAAC
Statistics
Matches: 817, Mismatches: 22, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
839 70 0.09
840 41 0.05
841 15 0.02
842 75 0.09
843 39 0.05
844 47 0.06
845 250 0.31
846 101 0.12
847 56 0.07
848 119 0.15
849 4 0.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (845 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATACTAAA
TTAATATCTTAAAAATCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATA
GACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACATATTACATTATATAAACAC
TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTCAATTTTTT
TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTATTTACACAAAAAATTAT
TTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAAC
GTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGCACTTTTATAAAAAAGATAGATACTTTACAA
TATAACCACTACCTATTACATTATATAAACGATACCGATTACATTATATAAGCGCTACCTATTAC
ATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTT
TAAAGTTATGTAATTTATGTTTCAAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT
AATTTAAAATTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTGATAAATAATATTAGAA
Found at i:12807763 original size:26 final size:26
Alignment explanation
Indices: 12807734--12807788 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
12807724 AGAGTCGGTG
12807734 TTTGGCACGTCACAAGTAATGAACTA
1 TTTGGCACGTCACAAGTAATGAACTA
12807760 TTTGGCACGTCACAAGTAATGAACTA
1 TTTGGCACGTCACAAGTAATGAACTA
12807786 TTT
1 TTT
12807789 AACGCAGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
TTTGGCACGTCACAAGTAATGAACTA
Found at i:12809848 original size:183 final size:183
Alignment explanation
Indices: 12809540--12810027 Score: 839
Period size: 183 Copynumber: 2.7 Consensus size: 183
12809530 TTAAAATTAC
* *
12809540 CGACACTTTTTTA-AATGGTATCGACACATATTTCTTCCAATCTGGACATAAAGTACTGACACAA
1 CGACACTTTTTGACAAT-GTATCGACACATATTTCTTCCAATCTGGACATAAAGTACCGACACAA
12809604 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
*
12809669 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGCGTAAATGT
12809723 CGACACTTTTTGACAATGTATCGACACATATTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTGACAATGTATCGACACATATTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
12809788 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
12809853 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGCGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGCGTAAATGT
*
12809906 CGACACTTTTTGACAATGTATCG--ACATTTTTCTTCC-ATCTGGACAT-AAGTACCGACACAAT
1 CGACACTTTTTGACAATGTATCGACACATATTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
12809967 ATTA-AAAGTGTCGATATAGGTTG-AGACCTATTCGCGCTCAT-AAACTGGTATATTTATACCG
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATT--CGCTCATAAAACCGGTATATTTATACCG
12810028 ATAGCATTGC
Statistics
Matches: 295, Mismatches: 7, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
177 9 0.03
178 37 0.13
179 26 0.09
180 10 0.03
181 12 0.04
183 198 0.67
184 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTGACAATGTATCGACACATATTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGCGTAAATGT
Found at i:12810418 original size:21 final size:21
Alignment explanation
Indices: 12810393--12810462 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
12810383 AGGATATACT
12810393 TTACAATATAACCACTACCTA
1 TTACAATATAACCACTACCTA
* **
12810414 TTACATTATAAATGA-TACCTA
1 TTACAATAT-AACCACTACCTA
* *
12810435 TTACATTATATAAGCGCTACCTA
1 TTACA--ATATAACCACTACCTA
12810458 TTACA
1 TTACA
12810463 TCATATTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
21 19 0.50
22 5 0.13
23 14 0.37
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACAATATAACCACTACCTA
Found at i:12810455 original size:23 final size:22
Alignment explanation
Indices: 12810398--12810468 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
12810388 ATACTTTACA
*
12810398 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
12810421 ATA-AATGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
12810442 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
12810465 ATAT
1 ATAT
12810469 TTACCTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.40
22 4 0.10
23 20 0.50
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:12812009 original size:3 final size:3
Alignment explanation
Indices: 12812001--12812163 Score: 116
Period size: 3 Copynumber: 55.0 Consensus size: 3
12811991 TACTTGTTGG
* * * * *
12812001 ATC ATC ATC TTC ATC ATC ATA ATC ATC ATC GTC ATC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * *
12812049 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC -TC AGCC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A-TC ATC ATC
* * * * * *
12812094 TTC ATC ATC ATA ATC ATC ATC GTC A-C ATC TTC ATC GTC AGC -TC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
12812140 GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
12812164 GTCAGCTTCA
Statistics
Matches: 116, Mismatches: 40, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
2 5 0.04
3 109 0.94
4 2 0.02
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:12812018 original size:12 final size:12
Alignment explanation
Indices: 12812001--12812167 Score: 142
Period size: 12 Copynumber: 14.1 Consensus size: 12
12811991 TACTTGTTGG
*
12812001 ATCATCATCTTC
1 ATCATCATCGTC
**
12812013 ATCATCATAATC
1 ATCATCATCGTC
* *
12812025 ATCATCGTCATC
1 ATCATCATCGTC
*
12812037 ATCTTCATCGTC
1 ATCATCATCGTC
* *
12812049 AGCTTCATCGTC
1 ATCATCATCGTC
12812061 ATCATCATCGTC
1 ATCATCATCGTC
*
12812073 ATCTTCATC-TC
1 ATCATCATCGTC
* *
12812084 AGCCATCATCTTC
1 A-TCATCATCGTC
**
12812097 ATCATCATAATC
1 ATCATCATCGTC
* *
12812109 ATCATCGTC-AC
1 ATCATCATCGTC
*
12812120 ATCTTCATCGTC
1 ATCATCATCGTC
*
12812132 AGC-TCATCGTC
1 ATCATCATCGTC
12812143 ATCATCATCGTC
1 ATCATCATCGTC
*
12812155 ATCTTCATCGTC
1 ATCATCATCGTC
12812167 A
1 A
12812168 GCTTCATCTT
Statistics
Matches: 126, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
11 21 0.17
12 102 0.81
13 3 0.02
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.35
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:12812189 original size:18 final size:18
Alignment explanation
Indices: 12812119--12812180 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
12812109 ATCATCGTCA
*
12812119 CATCTTCATCGTCAGC-T
1 CATCTTCATCGACAGCTT
* * *
12812136 CATCGTCATC-ATCATCGT
1 CATCTTCATCGA-CAGCTT
*
12812154 CATCTTCATCGTCAGCTT
1 CATCTTCATCGACAGCTT
12812172 CATCTTCAT
1 CATCTTCAT
12812181 TGACCGCTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 12 0.34
18 23 0.66
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (18 bp):
CATCTTCATCGACAGCTT
Found at i:12813965 original size:197 final size:199
Alignment explanation
Indices: 12813382--12814332 Score: 1579
Period size: 197 Copynumber: 4.9 Consensus size: 199
12813372 TTTAAATTAG
12813382 TATCGACACAAACT-AAAAAGTGTCG--ACATTATTTAGACATA-T-TCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
12813442 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTAGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
*
12813505 TCGACACTTTTATATATGGATCGACACTTTATGGTTG--CCCTGTTTTCCA-TCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
12813567 AAAA
196 AAAA
12813571 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
12813634 CTTGTACCGGTTAGATTGAAAAATTACATATTAGATTATACTTTTGGG-TTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
* *
12813697 TCGACTCTTTTTATATATGGATCGACACTTTATGGTTGCACCCTG-TTTCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
12813761 AAAAA
195 AAAAA
12813766 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
12813830 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTTGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
12813895 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
12813959 AAAA
196 AAAA
*
12813963 TATCGACACAAACTAAAAAAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * * *
12814027 CTTGTACCGGTTAGATTGAAAAATTAAATATTACATCATACTTTTGGGTTTTGATGTTTTAGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
*
12814092 TCGACACTGTTTATATATGGATCGACACTTTATGGTTGCACACTG-TTTCCATTCATTCTGGAAC
131 TCGACACT-TTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
12814156 AAAAA
195 AAAAA
12814161 TATCGACA-AAACTAAAAAAGTGTCGACACATTATTTAG--ATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12814223 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
* *
12814287 TCGACACTTTTTATATATGGTTCGACATTTTATGGTTGCACCCTGT
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGT
12814333 GGTCATATTG
Statistics
Matches: 720, Mismatches: 22, Indels: 33
0.93 0.03 0.04
Matches are distributed among these distances:
189 25 0.03
190 2 0.00
191 14 0.02
192 37 0.05
193 77 0.11
194 6 0.01
195 118 0.16
196 143 0.20
197 215 0.30
198 83 0.12
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:12814218 original size:393 final size:391
Alignment explanation
Indices: 12813382--12814332 Score: 1586
Period size: 393 Copynumber: 2.4 Consensus size: 391
12813372 TTTAAATTAG
*
12813382 TATCGACACAAACT-AAAAAGTGTCG--ACATTATTTAGACATAT-TCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGATAT-TCTCTCATAAAACCGGTATAC
*
12813443 TTGT-ACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTAGGGAT
65 TTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGAT
*
12813506 CGACACTTTTATATATGGATCGACACTTTATGGTTG--CCCTGTTTTCCATCATTCTGGACCAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATCATTCTGGAACAAA
12813569 AATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACTATTCTCTCATAAAACCGGTATA
195 AATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACTATTCTCTCATAAAACCGGTATA
* * *
12813634 CTTGTACCGGTTAGATTGAAAAATTACATATTAGATTATACTTTTGGGTTCGATGTTTTGGGATC
260 CTTGTACCGGTTAGATTGAAAAATTAAATATTACATCATACTTTTGGGTTCGATGTTTTGGGATC
* * * *
12813699 GACTCTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTCCATTCATTCTGGACCAAA
325 GACACTGTTTATATATGGATCGACACTTTATGGTTGCACACTGTTTCCATTCATTCTGGAACAAA
12813764 AA
390 AA
12813766 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAG--ATATTCTCTCATAAAACCGGTATA
*
12813830 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTTGATGTTTTTGGGA
64 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
12813895 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
129 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCA-TCATTCTGGAACA
*
12813959 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACTGG
193 AAAATATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGG
*
12814023 TATACTTGTACCGGTTAGATTGAAAAATTAAATATTACATCATACTTTTGGGTTTTGATGTTTTA
256 TATACTTGTACCGGTTAGATTGAAAAATTAAATATTACATCATACTTTTGGG-TTCGATGTTTT-
12814088 GGGATCGACACTGTTTATATATGGATCGACACTTTATGGTTGCACACTGTTTCCATTCATTCTGG
319 GGGATCGACACTGTTTATATATGGATCGACACTTTATGGTTGCACACTGTTTCCATTCATTCTGG
12814153 AACAAAAA
384 AACAAAAA
12814161 TATCGACA-AAACTAAAAAAGTGTCGACACATTATTTAGATATTCTCTCATAAAACCGGTATACT
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGATATTCTCTCATAAAACCGGTATACT
*
12814225 TGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATC
66 TGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATC
* *
12814289 GACACTTTTTATATATGGTTCGACATTTTATGGTTGCACCCTGT
131 GACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGT
12814333 GGTCATATTG
Statistics
Matches: 533, Mismatches: 17, Indels: 25
0.93 0.03 0.04
Matches are distributed among these distances:
384 14 0.03
385 11 0.02
387 11 0.02
388 17 0.03
389 51 0.10
390 51 0.10
392 100 0.19
393 161 0.30
394 40 0.08
395 77 0.14
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (391 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGATATTCTCTCATAAAACCGGTATACT
TGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATCATTCTGGAACAAAA
ATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACTATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTAAATATTACATCATACTTTTGGGTTCGATGTTTTGGGATCG
ACACTGTTTATATATGGATCGACACTTTATGGTTGCACACTGTTTCCATTCATTCTGGAACAAAA
A
Found at i:12814478 original size:19 final size:19
Alignment explanation
Indices: 12814451--12814495 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
12814441 ATATTCACAT
*
12814451 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
12814470 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
12814489 AAAATTA
1 AAAATTA
12814496 ACCCTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:12816292 original size:33 final size:33
Alignment explanation
Indices: 12816249--12816311 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
12816239 ATCTTAATAT
*
12816249 CCCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
12816282 CCCCTCAACACCTCTACTTCTTTCACCACT
1 CCCCTCAACACCCCAACTTCTTTCACCACT
12816312 CCATCTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.49, G:0.00, T:0.29
Consensus pattern (33 bp):
CCCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:12816370 original size:21 final size:21
Alignment explanation
Indices: 12816345--12816388 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12816335 TCCCTTATGC
12816345 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
12816366 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
12816387 CT
1 CT
12816389 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:12818624 original size:17 final size:18
Alignment explanation
Indices: 12818602--12818644 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
12818592 ATATATCCGG
12818602 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
12818619 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
12818639 TATCAT
1 TATCAT
12818645 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:12818662 original size:20 final size:19
Alignment explanation
Indices: 12818607--12818653 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
12818597 TCCGGTATCA
12818607 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
12818626 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
12818647 TTTTACC
1 TTTTACC
12818654 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:12818835 original size:20 final size:19
Alignment explanation
Indices: 12818789--12818835 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
12818779 TCCGGTAACC
*
12818789 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
12818808 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
12818829 TTTTACC
1 TTTTACC
12818836 TGGTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:12818943 original size:182 final size:181
Alignment explanation
Indices: 12818574--12819047 Score: 709
Period size: 182 Copynumber: 2.6 Consensus size: 181
12818564 CGTACTTACG
* * *
12818574 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
12818639 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTTAAAGTATCGACACATTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTTAAAAGTATCGACACATTA
* *
12818704 TAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
12818756 AAAGTATCGACACTTTTAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
12818821 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
12818886 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * *
12818938 AAAGTACCGACACTTTAAATGTATCCGGTAGCGC-TTTACCGGTTTTATCATTTCT-ATACCGGT
1 AAAGTATCGACACTTTAAATATATCCGGTAAC-CTTTTACCGGTTTTATCATTT-TGATACCGGT
* * *
12819001 TTTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
64 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
12819048 AATTTGGATC
Statistics
Matches: 266, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
181 68 0.26
182 196 0.74
183 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:12819644 original size:11 final size:11
Alignment explanation
Indices: 12819628--12819652 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12819618 ATCCGATACT
12819628 ACCGTATATTA
1 ACCGTATATTA
12819639 ACCGTATATTA
1 ACCGTATATTA
12819650 ACC
1 ACC
12819653 CGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:12823640 original size:24 final size:24
Alignment explanation
Indices: 12823541--12823660 Score: 92
Period size: 24 Copynumber: 5.2 Consensus size: 24
12823531 TATGATTATG
* * * *
12823541 TATTTATTATATGGTGTAACATGCA
1 TATTTATTATATAGTAT-ATATTCA
* *
12823566 TATATATTATAT--TATATAGTACA
1 TATTTATTATATAGTATATA-TTCA
12823589 TATGTTATTATATAGT-TATA-T-A
1 TAT-TTATTATATAGTATATATTCA
*
12823611 TTTTTATTATATAGTATATATTCA
1 TATTTATTATATAGTATATATTCA
*
12823635 TATTTATTACATAGTATAT-TT-A
1 TATTTATTATATAGTATATATTCA
12823657 TATT
1 TATT
12823661 ATATAGTACA
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
21 12 0.15
22 14 0.18
23 11 0.14
24 26 0.33
25 15 0.19
26 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (24 bp):
TATTTATTATATAGTATATATTCA
Found at i:12823666 original size:42 final size:44
Alignment explanation
Indices: 12823568--12823674 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 44
12823558 AACATGCATA
*
12823568 TATATTATAT--TATATAGTACATATGTTATTATATAGTTATATATT
1 TATATTATATAGTATATA-TACATATGTTATTACATAG-T-TATATT
* *
12823613 TTTATTATATAGTATATATTCATAT-TTATTACATAG-TATATT
1 TATATTATATAGTATATATACATATGTTATTACATAGTTATATT
*
12823655 TATATTATATAGTACATATA
1 TATATTATATAGTATATATA
12823675 TTATACCATT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 23 0.43
45 19 0.35
46 6 0.11
47 6 0.11
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (44 bp):
TATATTATATAGTATATATACATATGTTATTACATAGTTATATT
Found at i:12823695 original size:10 final size:10
Alignment explanation
Indices: 12823682--12823726 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
12823672 ATATTATACC
12823682 ATTATATATT
1 ATTATATATT
12823692 A-T-TATATT
1 ATTATATATT
12823700 ATTATATATT
1 ATTATATATT
*
12823710 ACTAT-TATT
1 ATTATATATT
*
12823719 ATTTTATA
1 ATTATATA
12823727 ATTCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.24
9 9 0.31
10 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATATATT
Found at i:12823696 original size:18 final size:18
Alignment explanation
Indices: 12823673--12823710 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12823663 ATAGTACATA
12823673 TATTATACCATTATATAT
1 TATTATACCATTATATAT
**
12823691 TATTATATTATTATATAT
1 TATTATACCATTATATAT
12823709 TA
1 TA
12823711 CTATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATACCATTATATAT
Found at i:12827818 original size:26 final size:26
Alignment explanation
Indices: 12827777--12827839 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
12827767 ATGTACTTAA
*
12827777 ACATAG-CTACATGAGAAAATGTTTC
1 ACATAGTCTACAGGAGAAAATGTTTC
12827802 ACATAGTCTACAGGAGAAAATGTTTC
1 ACATAGTCTACAGGAGAAAATGTTTC
12827828 ACATAGTCTACA
1 ACATAGTCTACA
12827840 CCATGAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 6 0.17
26 30 0.83
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (26 bp):
ACATAGTCTACAGGAGAAAATGTTTC
Found at i:12834534 original size:90 final size:88
Alignment explanation
Indices: 12834382--12834551 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
12834372 ACACACCCTT
12834382 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
12834447 ATTAATTAGAATTTAATAATCATC
66 ATTAATT-GAAATTAATAATCATC
*
12834471 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
12834536 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
12834552 ATATTCAGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCATC
Found at i:12835782 original size:15 final size:15
Alignment explanation
Indices: 12835762--12835798 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
12835752 TAGATCCTAC
12835762 CCCACATGATATCTA
1 CCCACATGATATCTA
12835777 CCCACATGATATCTA
1 CCCACATGATATCTA
12835792 CCCACAT
1 CCCACAT
12835799 ACTTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.24
Consensus pattern (15 bp):
CCCACATGATATCTA
Found at i:12842152 original size:21 final size:20
Alignment explanation
Indices: 12842091--12842156 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
12842081 TATAACATGC
*
12842091 ATATATA-TTATAT-TATAT
1 ATATATAGTTATATATTTAT
*
12842109 -TATATAG-TACATATGTTAT
1 ATATATAGTTATATAT-TTAT
12842128 -TATATAGTTATATATTTAT
1 ATATATAGTTATATATTTAT
12842147 ACTATATAGT
1 A-TATATAGT
12842157 ATCTATACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 10 0.26
18 1 0.03
19 14 0.36
20 6 0.15
21 8 0.21
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (20 bp):
ATATATAGTTATATATTTAT
Found at i:12842196 original size:42 final size:45
Alignment explanation
Indices: 12842092--12842199 Score: 127
Period size: 45 Copynumber: 2.4 Consensus size: 45
12842082 ATAACATGCA
*
12842092 TATATATTATATTATAT--TATATAGTACATATGTTATTATATAGTT
1 TATAT-TTATATTATATAGTATATAGTACATATGTTATTACATAG-T
* *
12842137 ATATATTTATACTATATAGTATCTA-TACATAT-TTATTACATAG-
1 -TATATTTATATTATATAGTATATAGTACATATGTTATTACATAGT
12842180 TATATTTATATTATATAGTA
1 TATATTTATATTATATAGTA
12842200 CATATATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
42 19 0.34
45 20 0.36
46 12 0.21
47 5 0.09
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.51
Consensus pattern (45 bp):
TATATTTATATTATATAGTATATAGTACATATGTTATTACATAGT
Found at i:12842205 original size:16 final size:16
Alignment explanation
Indices: 12842104--12842210 Score: 62
Period size: 18 Copynumber: 6.6 Consensus size: 16
12842094 TATATTATAT
12842104 TATATTATATAGTACA
1 TATATTATATAGTACA
*
12842120 TATGTTATTATATAGT-TA
1 TA---TATTATATAGTACA
*
12842138 TATATT-TATACT--A
1 TATATTATATAGTACA
* *
12842151 TATAGTATCTA-TACA
1 TATATTATATAGTACA
* *
12842166 TATTTATTACATAGTATA
1 TA--TATTATATAGTACA
12842184 TTTATATTATATAGTACA
1 --TATATTATATAGTACA
12842202 TATATTATA
1 TATATTATA
12842211 CCATTATATA
Statistics
Matches: 70, Mismatches: 10, Indels: 22
0.69 0.10 0.22
Matches are distributed among these distances:
13 7 0.10
14 8 0.11
15 7 0.10
16 11 0.16
17 6 0.09
18 18 0.26
19 11 0.16
20 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATTATATAGTACA
Found at i:12842226 original size:10 final size:10
Alignment explanation
Indices: 12842213--12842257 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
12842203 ATATTATACC
12842213 ATTATATATT
1 ATTATATATT
12842223 A-T-TATATT
1 ATTATATATT
12842231 ATTATATATT
1 ATTATATATT
*
12842241 ACTAT-TATT
1 ATTATATATT
*
12842250 ATTTTATA
1 ATTATATA
12842258 ATTCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.24
9 9 0.31
10 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATATATT
Found at i:12842227 original size:18 final size:18
Alignment explanation
Indices: 12842204--12842241 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12842194 ATAGTACATA
12842204 TATTATACCATTATATAT
1 TATTATACCATTATATAT
**
12842222 TATTATATTATTATATAT
1 TATTATACCATTATATAT
12842240 TA
1 TA
12842242 CTATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATACCATTATATAT
Found at i:12842228 original size:8 final size:8
Alignment explanation
Indices: 12842213--12842256 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
12842203 ATATTATACC
12842213 ATTA-TAT
1 ATTATTAT
12842220 ATTATTAT
1 ATTATTAT
12842228 ATTATTAT
1 ATTATTAT
12842236 A-TATTACT
1 ATTATTA-T
12842244 ATTATTAT
1 ATTATTAT
*
12842252 TTTAT
1 ATTAT
12842257 AATTCTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 9 0.27
8 19 0.58
9 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTATTAT
Found at i:12844683 original size:21 final size:21
Alignment explanation
Indices: 12844657--12844712 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
12844647 AAATGAACTA
* *
12844657 CACATCATCATCATGGACTGT
1 CACATCATCATCATGAAATGT
* *
12844678 TACATCAGCA-CTATGAAATGT
1 CACATCATCATC-ATGAAATGT
12844699 CACATCATCATCAT
1 CACATCATCATCAT
12844713 AATGATCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (21 bp):
CACATCATCATCATGAAATGT
Found at i:12849305 original size:20 final size:21
Alignment explanation
Indices: 12849271--12849322 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
12849261 CTTTAAATGA
* * *
12849271 GTATCAATACTAAGGGTC-TG
1 GTATCAAGACCAAGGGGCTTG
*
12849291 GTATCGAGACCAAGGGGCTTG
1 GTATCAAGACCAAGGGGCTTG
12849312 GTATCAAGACC
1 GTATCAAGACC
12849323 GGGAATCCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (21 bp):
GTATCAAGACCAAGGGGCTTG
Found at i:12858514 original size:20 final size:20
Alignment explanation
Indices: 12858491--12858540 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12858481 CTTTAACAGG
12858491 GTATCAATACTA-AAGAGTGA
1 GTATCAATACTACAAGA-TGA
* *
12858511 GTATCCATACTACAAGATTA
1 GTATCAATACTACAAGATGA
*
12858531 GTATCGATAC
1 GTATCAATAC
12858541 CAAGGTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (20 bp):
GTATCAATACTACAAGATGA
Found at i:12861989 original size:3 final size:3
Alignment explanation
Indices: 12861981--12862060 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
12861971 TTTTTATCCA
12861981 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
12862029 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12862061 AATATACATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12864237 original size:28 final size:27
Alignment explanation
Indices: 12864206--12864259 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
12864196 TAATTCTTTC
* *
12864206 TTTTTAAAATTTTTATATATATTTATTA
1 TTTTCAAAATATTTATATAT-TTTATTA
* *
12864234 TTTTCATAATATTTATATGTTTTATT
1 TTTTCAAAATATTTATATATTTTATT
12864260 TTATTTGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATTTTATTA
Found at i:12864245 original size:18 final size:19
Alignment explanation
Indices: 12864214--12864249 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12864204 TCTTTTTAAA
*
12864214 ATTTTTATATATATTTATT
1 ATTTTCATATATATTTATT
12864233 ATTTTCATA-ATATTTAT
1 ATTTTCATATATATTTAT
12864250 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTCATATATATTTATT
Found at i:12874885 original size:7 final size:6
Alignment explanation
Indices: 12874852--12874898 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
12874842 TGAAGAAAAG
**
12874852 AAAGAA AAAGAA AAA-AA AGGGAAA AAAGAGA AAAGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGA-A AAAGAA AAAGAA AAAG
12874899 GAGGGTCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 3 0.09
6 21 0.62
7 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:12874894 original size:11 final size:10
Alignment explanation
Indices: 12874847--12874897 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
12874837 ATGCTTGAAG
*
12874847 AAAAGAAAGA
1 AAAAGAAAAA
12874857 AAAAGAAAAA
1 AAAAGAAAAA
* *
12874867 AAAGGGAAAA
1 AAAAGAAAAA
*
12874877 AAGAGAAAAGA
1 AAAAGAAAA-A
12874888 AAAAGAAAAA
1 AAAAGAAAAA
12874898 GGAGGGTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:12875232 original size:16 final size:16
Alignment explanation
Indices: 12875206--12875250 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
12875196 TTTGAATACA
*
12875206 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
12875223 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
12875238 ATTCAATTTATTT
1 ATTCAATTTATTT
12875251 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:12876249 original size:250 final size:250
Alignment explanation
Indices: 12875805--12876305 Score: 929
Period size: 250 Copynumber: 2.0 Consensus size: 250
12875795 TTGGCAGAAT
12875805 TAAGATATAGCCCTTTTTAGTGTAGCAGCATGGAAATGCTTCGAATCTACAAATTCTGGCTTTAC
1 TAAGATATAGCCCTTTTTAGTGTAGCAGCATGGAAATGCTTCGAATCTACAAATTCTGGCTTTAC
12875870 ATCGAATAAGTACTGTGATATCCCAGTCCAAACATTAAATAGAACAAAATTTGCCAATAGCATCT
66 ATCGAATAAGTACTGTGA-ATCCCAGTCCAAACATTAAATAGAACAAAATTTGCCAATAGCATCT
12875935 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTACAGAATCAAGCATTGAATTTGGAAGATG
130 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTACAGAATCAAGCATTGAATTTGGAAGATG
12876000 -ATTTGCCAATAGCA-CTTCTGG-AATGTTCTTTGAGTTATCTGACCTGGTTTAGC
195 AATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGC
12876053 TAAGAATATAGCCCTTTTTAGTGTAGCAGCATGGAAATGCTTCGAATCTACAAATTCTGGCTTTA
1 TAAG-ATATAGCCCTTTTTAGTGTAGCAGCATGGAAATGCTTCGAATCTACAAATTCTGGCTTTA
12876118 CATCGAATAAGTACTGTG-ATCCCAGTCCAAACATTAAATAGAACAAATGAATTTGCCAATAGCA
65 CATCGAATAAGTACTGTGAATCCCAGTCCAAACATTAAATAGAAC-AA--AATTTGCCAATAGCA
12876182 TCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTACAGAATCAAGCATTGAATTTGGAAG
127 TCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTACAGAATCAAGCATTGAATTTGGAAG
12876247 ATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGC
192 ATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGC
12876306 AGAACAATCA
Statistics
Matches: 246, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
247 26 0.11
248 6 0.02
249 78 0.32
250 83 0.34
251 14 0.06
252 7 0.03
253 32 0.13
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (250 bp):
TAAGATATAGCCCTTTTTAGTGTAGCAGCATGGAAATGCTTCGAATCTACAAATTCTGGCTTTAC
ATCGAATAAGTACTGTGAATCCCAGTCCAAACATTAAATAGAACAAAATTTGCCAATAGCATCTT
CTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTACAGAATCAAGCATTGAATTTGGAAGATGA
ATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGC
Found at i:12876362 original size:82 final size:83
Alignment explanation
Indices: 12876164--12876590 Score: 603
Period size: 82 Copynumber: 5.1 Consensus size: 83
12876154 AATAGAACAA
* *
12876164 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTA-CAGAAT
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCAGAAC
* *
12876228 CAAGCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
* *
12876247 ATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
*
12876311 AATCATTGAATATAGAAG
66 AATCATTGAATTTAGAAG
* *
12876329 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGACCTGGTTTAGCAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
*
12876393 ATTCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* * * *
12876411 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGGTTTGGTATGAACCCAAA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-T-TA-GC--A
*
12876476 AAACCAATCATTGAATTTAGAAG
61 GAACCAATCATTGAATTTAGAAG
*
12876499 ATGAA-TTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAGAAC
*
12876562 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
12876581 ATGAATTTGC
1 ATGAATTTGC
12876591 TCATAGTAGA
Statistics
Matches: 310, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
82 173 0.56
83 62 0.20
84 2 0.01
85 2 0.01
87 48 0.15
88 23 0.07
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (83 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
AATCATTGAATTTAGAAG
Found at i:12877569 original size:113 final size:113
Alignment explanation
Indices: 12877371--12878141 Score: 1174
Period size: 113 Copynumber: 6.8 Consensus size: 113
12877361 GATTCAAATC
** * *
12877371 CATCACTTGATGGAGCATTTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * *
12877436 AGAAGAAGTTCGTAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
*
12877484 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
12877549 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTA-CTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATC-TGAATT
*
12877597 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
12877662 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
* * *
12877710 CATCAAATTGATGGATTAGCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAG
1 CATC-ACTTGATGGATTA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAG
*
12877774 GAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
61 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
*
12877827 CATCATTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
12877891 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
12877939 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
12878004 AGAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTT-TGGTCAAAT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-CTGAATT
* * ** *
12878052 CTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
1 C-ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
12878117 AAG-AGAGAGTTCATAATGAGAAGAA
65 AAGAAGA-AGTTCATAATGAGAAGAA
12878142 CTCATCAAAA
Statistics
Matches: 612, Mismatches: 34, Indels: 23
0.91 0.05 0.03
Matches are distributed among these distances:
112 90 0.15
113 297 0.49
114 115 0.19
115 26 0.04
116 19 0.03
117 65 0.11
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (113 bp):
CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
Found at i:12878000 original size:342 final size:340
Alignment explanation
Indices: 12877390--12878143 Score: 1210
Period size: 342 Copynumber: 2.2 Consensus size: 340
12877380 ATGGAGCATT
*
12877390 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCGTAATGAG
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * *
12877455 AAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
66 AAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
12877520 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
131 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
*
12877585 TTTACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAATAACTCA
196 TTTACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCA
* *
12877650 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC-ATC
261 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATCTAT-
12877714 AAATTGATGGATTAGC
325 AAATTGATGGATTAGC
*
12877730 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAAGAAGTTCATAAT
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* *
12877795 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCATTTGATGGATTATTTTTGCCAGAGAA-G
63 GAGAAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGG
*
12877859 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
128 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
*
12877924 CCTTTT-GTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAA
193 CCTTTTACT-TGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAA
* ***
12877988 CTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTTGGTCAAATC
257 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATC
* * * **
12878053 TATTACTTGATGGGTTATT
322 TATAAATTGATGGATTAGC
* * *
12878072 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AGAGAGTTCATAATGA
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGA
12878136 GAAGAACT
65 GAAGAACT
12878144 CATCAAAAGC
Statistics
Matches: 382, Mismatches: 26, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
338 3 0.01
339 34 0.09
340 31 0.08
341 1 0.00
342 224 0.59
343 89 0.23
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (340 bp):
TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
TTTACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCA
TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATCTATA
AATTGATGGATTAGC
Found at i:12878403 original size:3 final size:3
Alignment explanation
Indices: 12878395--12878459 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
12878385 TTTTTATCCA
*
12878395 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12878443 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
12878460 AATATACATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12879809 original size:16 final size:18
Alignment explanation
Indices: 12879788--12879820 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
12879778 GAATTAGATT
12879788 TAATTTA-TT-TTTATTA
1 TAATTTAGTTATTTATTA
12879804 TAATTTAGTTATTTATT
1 TAATTTAGTTATTTATT
12879821 TTATATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TAATTTAGTTATTTATTA
Found at i:12879909 original size:20 final size:21
Alignment explanation
Indices: 12879872--12879912 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12879862 TGATATTTTA
**
12879872 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
12879893 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
12879913 ACATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:12880637 original size:18 final size:19
Alignment explanation
Indices: 12880606--12880641 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12880596 TTTTTTTAAA
*
12880606 ATTTTTATATATATTTATT
1 ATTTTCATATATATTTATT
12880625 ATTTTCATA-ATATTTAT
1 ATTTTCATATATATTTAT
12880642 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTCATATATATTTATT
Found at i:12891315 original size:16 final size:17
Alignment explanation
Indices: 12891273--12891334 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
12891263 CTTTGAATAC
* *
12891273 AATTCTATTTATTT-CA
1 AATTCAATTTATTTGGA
*
12891289 AGTTC-ATTTATTT-GA
1 AATTCAATTTATTTGGA
*
12891304 GATTCAATTTATTTTGGA
1 AATTCAATTTA-TTTGGA
12891322 AATTCAATTTATT
1 AATTCAATTTATT
12891335 CTTTTCTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 12 0.32
16 9 0.24
17 5 0.13
18 12 0.32
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (17 bp):
AATTCAATTTATTTGGA
Found at i:12892197 original size:82 final size:83
Alignment explanation
Indices: 12891999--12892426 Score: 621
Period size: 82 Copynumber: 5.1 Consensus size: 83
12891989 AATAGAACAA
* *
12891999 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTA-CAGAAT
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCAGAAC
* *
12892063 CAAGCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
* *
12892082 ATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
*
12892146 AATCATTGAATATAGAAG
66 AATCATTGAATTTAGAAG
*
12892164 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
*
12892228 ATTCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* * * *
12892246 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGGTTTGGTATGAACCCAAA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-T-TA-GC--A
*
12892311 AAACCAATCATTGAATTTAGAAG
61 GAACCAATCATTGAATTTAGAAG
*
12892334 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAGAAC
*
12892398 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
12892417 ATGAATTTGC
1 ATGAATTTGC
12892427 TCATAGTAGA
Statistics
Matches: 314, Mismatches: 23, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
82 148 0.47
83 90 0.29
84 1 0.00
85 2 0.01
86 1 0.00
87 3 0.01
88 69 0.22
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (83 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
AATCATTGAATTTAGAAG
Found at i:12892375 original size:170 final size:165
Alignment explanation
Indices: 12891999--12892426 Score: 628
Period size: 170 Copynumber: 2.6 Consensus size: 165
12891989 AATAGAACAA
* *
12891999 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGTA-CAGAAT
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCAGAAC
*
12892063 CAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCT
65 CAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCT
* * *
12892128 GACCTGGTTTAGCAGAACAATCATTGAATATAGAAG
130 GACCTGGTTAACCAAAACAATCATTGAATATAGAAG
*
12892164 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGCAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
* * *
12892228 ATTCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
66 AATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTG
*** *
12892293 GTTTGGTATGAACCCAAAAAACCAATCATTGAATTTAGAAG
131 ACCTGGT-T-AA-CC--AAAA-CAATCATTGAATATAGAAG
*
12892334 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAGAAC
12892398 CAATCATTGAATTTGGAAGATGAATTTGC
65 CAATCATTGAATTTGGAAGATGAATTTGC
12892427 TCATAGTAGA
Statistics
Matches: 237, Mismatches: 17, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
164 68 0.29
165 59 0.25
166 1 0.00
167 1 0.00
169 6 0.03
170 75 0.32
171 27 0.11
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (165 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACC
AATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTG
ACCTGGTTAACCAAAACAATCATTGAATATAGAAG
Found at i:12893838 original size:342 final size:338
Alignment explanation
Indices: 12893230--12893981 Score: 1197
Period size: 342 Copynumber: 2.2 Consensus size: 338
12893220 ATGGAGCATT
*
12893230 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCGTAATGAG
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * *
12893295 AAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
66 AAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
12893360 ATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAATTCATAATGAGAAGAATTTGTTCAACCTTT
131 ATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAATTCATAATGAGAAGAATTTGTTCAACCTTT
*
12893425 TACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAATAACTCATC
196 TACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATC
* *
12893490 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC-ATCAA
261 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATCTAT-AA
12893554 ATTGATGGATTAGC
325 ATTGATGGATTAGC
*
12893568 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAAGAAGTTCATAAT
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* *
12893633 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCATTTGATGGATTATTTTTGCCAGAGAA-G
63 GAGAAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGG
12893697 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
128 TTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAA-TTCATAATGAGAAGAATTTGTTCAA
*
12893762 CCTTTT-GTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAA
191 CCTTTTACT-TGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAA
* ***
12893826 CTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTTGGTCAAATC
255 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATC
* * * **
12893891 TATTACTTGATGGGTTATT
320 TATAAATTGATGGATTAGC
* * *
12893910 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AGAGAGTTCATAATGA
1 TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA-AGTTCATAATGA
12893974 GAAGAACT
65 GAAGAACT
12893982 CATCAAAAGC
Statistics
Matches: 381, Mismatches: 25, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
338 33 0.09
339 34 0.09
340 32 0.08
341 97 0.25
342 183 0.48
343 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (338 bp):
TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTTATCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTC
ATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAATTCATAATGAGAAGAATTTGTTCAACCTTT
TACTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATC
TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTCAAATCTATAAA
TTGATGGATTAGC
Found at i:12893879 original size:113 final size:113
Alignment explanation
Indices: 12893211--12893979 Score: 1158
Period size: 113 Copynumber: 6.8 Consensus size: 113
12893201 GATTCAAATC
** * *
12893211 CATCACTTGATGGAGCATTTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
12893276 AGAAGAAGTTCGTAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
*
12893324 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA-GA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
12893388 AGAAGAA-TTCATAATGAGAAGAATTTGTTCAACCTTTT-ACTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTC-TGAATT
*
12893435 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
12893500 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
* * *
12893548 CATCAAATTGATGGATTAGCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAG
1 CATC-ACTTGATGGATTA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTGAAG
* *
12893612 GAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATT
61 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
*
12893665 CATCATTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
12893729 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
12893777 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
12893842 AGAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTTGGTC--AAAT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTT-GTCTGAATT
* * ** *
12893890 CTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
1 C-ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
12893955 AAG-AGAGAGTTCATAATGAGAAGAA
65 AAGAAGA-AGTTCATAATGAGAAGAA
12893980 CTCATCAAAA
Statistics
Matches: 610, Mismatches: 31, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
111 94 0.15
112 107 0.18
113 177 0.29
114 119 0.20
115 29 0.05
116 19 0.03
117 65 0.11
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (113 bp):
CATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATT
Found at i:12895581 original size:20 final size:21
Alignment explanation
Indices: 12895544--12895584 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12895534 GATATTTTTA
**
12895544 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
12895565 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
12895585 ACATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:12903602 original size:17 final size:17
Alignment explanation
Indices: 12903580--12903617 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
12903570 ACAATAGAGA
12903580 GGCTATAAATTGTAAGT
1 GGCTATAAATTGTAAGT
12903597 GGCTATAAATTGTAAGT
1 GGCTATAAATTGTAAGT
12903614 GGCT
1 GGCT
12903618 TTTTAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (17 bp):
GGCTATAAATTGTAAGT
Done.