Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 37 of 187
Found at i:10737576 original size:37 final size:38
Alignment explanation
Indices: 10737482--10737579 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 38
10737472 TTTAATAGAT
10737482 TTAATATTTAATTTAATTTAAT-TTAATAATCATTTTA
1 TTAATATTTAATTTAATTTAATATTAATAATCATTTTA
* * * * * *
10737519 ATAGTATTTTA-TTAATTTAATATTAA-AGTGATTTTC
1 TTAATATTTAATTTAATTTAATATTAATAATCATTTTA
*
10737555 TTAATATTAAATTTAATTTAATATT
1 TTAATATTTAATTTAATTTAATATT
10737580 TCTTTTGTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 24 0.49
37 25 0.51
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (38 bp):
TTAATATTTAATTTAATTTAATATTAATAATCATTTTA
Found at i:10746807 original size:29 final size:30
Alignment explanation
Indices: 10746748--10746805 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10746738 TCCGAGCCTT
*
10746748 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10746778 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10746806 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10747035 original size:13 final size:13
Alignment explanation
Indices: 10747017--10747048 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10747007 TTTCCAGCAA
10747017 TTATGAATTTATT
1 TTATGAATTTATT
10747030 TTATGAATTTATT
1 TTATGAATTTATT
*
10747043 TGATGA
1 TTATGA
10747049 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10747256 original size:50 final size:50
Alignment explanation
Indices: 10747143--10747384 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10747133 ATTTGGGTAA
* * *
10747143 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10747199 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10747249 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10747299 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10747349 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10747385 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10747332 original size:100 final size:103
Alignment explanation
Indices: 10747143--10747392 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10747133 ATTTGGGTAA
10747143 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10747208 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10747249 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10747311 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10747349 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10747393 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10754401 original size:29 final size:30
Alignment explanation
Indices: 10754342--10754399 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10754332 TCCGAGCCTT
*
10754342 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10754372 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10754400 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10754629 original size:13 final size:13
Alignment explanation
Indices: 10754611--10754642 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10754601 TTTCCAGCAA
10754611 TTATGAATTTATT
1 TTATGAATTTATT
10754624 TTATGAATTTATT
1 TTATGAATTTATT
*
10754637 TGATGA
1 TTATGA
10754643 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10754850 original size:50 final size:50
Alignment explanation
Indices: 10754737--10754978 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10754727 ATTTGGGTAA
* * *
10754737 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10754793 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10754843 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10754893 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10754943 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10754979 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10754926 original size:100 final size:103
Alignment explanation
Indices: 10754737--10754986 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10754727 ATTTGGGTAA
10754737 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10754802 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10754843 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10754905 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10754943 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10754987 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10776000 original size:69 final size:69
Alignment explanation
Indices: 10775886--10776114 Score: 262
Period size: 69 Copynumber: 3.3 Consensus size: 69
10775876 TTACCCGAAC
* *
10775886 CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAATTGTAACATTAAGGTTCACAGGCGAAGAG-C
1 CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAATATTAAGGTTCACAGGCGAAGAGTC
*
10775950 TATAA
66 -ACAA
* * * * *
10775955 CCTCCAAAGCAGTTAGCGAGAACAAAGTTCCCAGCTGTAATATTAAGGTTCGCAGGCGAAGAGTC
1 CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAATATTAAGGTTCACAGGCGAAGAGTC
*
10776020 GCAA
66 ACAA
* * * ** * *
10776024 CCTCCAAAATAGTTAGCGAGAGCAAAGCTCCTAACTATAATATTAAGGTTCGTAGACGAAGAGCC
1 CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAATATTAAGGTTCACAGGCGAAGAGTC
*
10776089 GCAA
66 ACAA
* * *
10776093 CCTCCAAGACAATTAACGAGAG
1 CCTCCAAAACAGTTAGCGAGAG
10776115 AAAAACTCTC
Statistics
Matches: 136, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
69 135 0.99
70 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (69 bp):
CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAATATTAAGGTTCACAGGCGAAGAGTC
ACAA
Found at i:10798581 original size:877 final size:877
Alignment explanation
Indices: 10796888--10798643 Score: 3512
Period size: 877 Copynumber: 2.0 Consensus size: 877
10796878 AGAATGAAGA
10796888 ATAGAATGTTGCCGTCATAGTTTGTGTAAAAGTTCTGTAATTTTTAGAGTTACTTTCAAATCTCT
1 ATAGAATGTTGCCGTCATAGTTTGTGTAAAAGTTCTGTAATTTTTAGAGTTACTTTCAAATCTCT
10796953 CAAGAACTTTTCCCTCTGCCTTCTCTCTAAGAAAAATGGGTTTCCCTTCGCCTCCGGCGCGGCCA
66 CAAGAACTTTTCCCTCTGCCTTCTCTCTAAGAAAAATGGGTTTCCCTTCGCCTCCGGCGCGGCCA
10797018 ATGCGGGCTGCTCTAACTTATCTTTTTCTATTTCCTTTCGTTCTTTGGCGTAATAACCTCGAGAA
131 ATGCGGGCTGCTCTAACTTATCTTTTTCTATTTCCTTTCGTTCTTTGGCGTAATAACCTCGAGAA
10797083 CATCCCCCATCTCCTTTTGGCCTTTGAACGACGAAATCATGGGCGGTCGGTTTCTCGACGTCACC
196 CATCCCCCATCTCCTTTTGGCCTTTGAACGACGAAATCATGGGCGGTCGGTTTCTCGACGTCACC
10797148 ATAGATCTTTCTCACGTTTTCCTTGGAGCTTGTCTCCTTTCTCCAACGGAGGGCCGCCTCGGTCT
261 ATAGATCTTTCTCACGTTTTCCTTGGAGCTTGTCTCCTTTCTCCAACGGAGGGCCGCCTCGGTCT
10797213 TGTTTTCTTATCTCTCTCGCTCCGGTAAGGCCCTTTTGCGCTGTTGGAGCGTCGTTGCTGCTTTA
326 TGTTTTCTTATCTCTCTCGCTCCGGTAAGGCCCTTTTGCGCTGTTGGAGCGTCGTTGCTGCTTTA
10797278 ACCTCCGATGGCTCGTGCTTGATGGTTCCTGATTTCATCGCACCAGATCTGAGTTGTTTCTCGGT
391 ACCTCCGATGGCTCGTGCTTGATGGTTCCTGATTTCATCGCACCAGATCTGAGTTGTTTCTCGGT
10797343 GGTAGTGGGTCCCTCTCTTTCGAGAGTTTCCACTGGGTCCAAGGTGGCGTTAAAGCTTCGTTTTT
456 GGTAGTGGGTCCCTCTCTTTCGAGAGTTTCCACTGGGTCCAAGGTGGCGTTAAAGCTTCGTTTTT
10797408 AGGCTTTCCCACAGCATAGCCTCTCCGTTGGTGGGGAGCATACCGGCGGTGGGTACAATAGCCTT
521 AGGCTTTCCCACAGCATAGCCTCTCCGTTGGTGGGGAGCATACCGGCGGTGGGTACAATAGCCTT
10797473 GTTCCTGGACTACCTAGCTCTCCTCTATCGTTCACAGCGGTGGCTGGGTGGGTCAGTGAAGGCTA
586 GTTCCTGGACTACCTAGCTCTCCTCTATCGTTCACAGCGGTGGCTGGGTGGGTCAGTGAAGGCTA
10797538 GGATTTGTCCTCTATTGGTTGTATTTTTCGTGGTTTTCTTTTTGGGCCTGGGCTTGTATGCCCTT
651 GGATTTGTCCTCTATTGGTTGTATTTTTCGTGGTTTTCTTTTTGGGCCTGGGCTTGTATGCCCTT
10797603 CCATTGGAATGAAATTTCACTTTAAAAAATTGGTTATCTTTTAACAACTAAATGAATCCATTTGC
716 CCATTGGAATGAAATTTCACTTTAAAAAATTGGTTATCTTTTAACAACTAAATGAATCCATTTGC
10797668 GGAAATAATCACAACTGGAGTTGGAGTAATACAGTTGTTAAATCTTGGTATCAAATTCTAGGGTT
781 GGAAATAATCACAACTGGAGTTGGAGTAATACAGTTGTTAAATCTTGGTATCAAATTCTAGGGTT
10797733 CAACCCCCATCCTTTTTCTCAAATATGTAATG
846 CAACCCCCATCCTTTTTCTCAAATATGTAATG
10797765 ATAGAATGTTGCCGTCATAGTTTGTGTAAAAGTTCTGTAATTTTTAGAGTTACTTTCAAATCTCT
1 ATAGAATGTTGCCGTCATAGTTTGTGTAAAAGTTCTGTAATTTTTAGAGTTACTTTCAAATCTCT
10797830 CAAGAACTTTTCCCTCTGCCTTCTCTCTAAGAAAAATGGGTTTCCCTTCGCCTCCGGCGCGGCCA
66 CAAGAACTTTTCCCTCTGCCTTCTCTCTAAGAAAAATGGGTTTCCCTTCGCCTCCGGCGCGGCCA
10797895 ATGCGGGCTGCTCTAACTTATCTTTTTCTATTTCCTTTCGTTCTTTGGCGTAATAACCTCGAGAA
131 ATGCGGGCTGCTCTAACTTATCTTTTTCTATTTCCTTTCGTTCTTTGGCGTAATAACCTCGAGAA
10797960 CATCCCCCATCTCCTTTTGGCCTTTGAACGACGAAATCATGGGCGGTCGGTTTCTCGACGTCACC
196 CATCCCCCATCTCCTTTTGGCCTTTGAACGACGAAATCATGGGCGGTCGGTTTCTCGACGTCACC
10798025 ATAGATCTTTCTCACGTTTTCCTTGGAGCTTGTCTCCTTTCTCCAACGGAGGGCCGCCTCGGTCT
261 ATAGATCTTTCTCACGTTTTCCTTGGAGCTTGTCTCCTTTCTCCAACGGAGGGCCGCCTCGGTCT
10798090 TGTTTTCTTATCTCTCTCGCTCCGGTAAGGCCCTTTTGCGCTGTTGGAGCGTCGTTGCTGCTTTA
326 TGTTTTCTTATCTCTCTCGCTCCGGTAAGGCCCTTTTGCGCTGTTGGAGCGTCGTTGCTGCTTTA
10798155 ACCTCCGATGGCTCGTGCTTGATGGTTCCTGATTTCATCGCACCAGATCTGAGTTGTTTCTCGGT
391 ACCTCCGATGGCTCGTGCTTGATGGTTCCTGATTTCATCGCACCAGATCTGAGTTGTTTCTCGGT
10798220 GGTAGTGGGTCCCTCTCTTTCGAGAGTTTCCACTGGGTCCAAGGTGGCGTTAAAGCTTCGTTTTT
456 GGTAGTGGGTCCCTCTCTTTCGAGAGTTTCCACTGGGTCCAAGGTGGCGTTAAAGCTTCGTTTTT
10798285 AGGCTTTCCCACAGCATAGCCTCTCCGTTGGTGGGGAGCATACCGGCGGTGGGTACAATAGCCTT
521 AGGCTTTCCCACAGCATAGCCTCTCCGTTGGTGGGGAGCATACCGGCGGTGGGTACAATAGCCTT
10798350 GTTCCTGGACTACCTAGCTCTCCTCTATCGTTCACAGCGGTGGCTGGGTGGGTCAGTGAAGGCTA
586 GTTCCTGGACTACCTAGCTCTCCTCTATCGTTCACAGCGGTGGCTGGGTGGGTCAGTGAAGGCTA
10798415 GGATTTGTCCTCTATTGGTTGTATTTTTCGTGGTTTTCTTTTTGGGCCTGGGCTTGTATGCCCTT
651 GGATTTGTCCTCTATTGGTTGTATTTTTCGTGGTTTTCTTTTTGGGCCTGGGCTTGTATGCCCTT
10798480 CCATTGGAATGAAATTTCACTTTAAAAAATTGGTTATCTTTTAACAACTAAATGAATCCATTTGC
716 CCATTGGAATGAAATTTCACTTTAAAAAATTGGTTATCTTTTAACAACTAAATGAATCCATTTGC
10798545 GGAAATAATCACAACTGGAGTTGGAGTAATACAGTTGTTAAATCTTGGTATCAAATTCTAGGGTT
781 GGAAATAATCACAACTGGAGTTGGAGTAATACAGTTGTTAAATCTTGGTATCAAATTCTAGGGTT
10798610 CAACCCCCATCCTTTTTCTCAAATATGTAATG
846 CAACCCCCATCCTTTTTCTCAAATATGTAATG
10798642 AT
1 AT
10798644 TAAGCAAAAT
Statistics
Matches: 879, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
877 879 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (877 bp):
ATAGAATGTTGCCGTCATAGTTTGTGTAAAAGTTCTGTAATTTTTAGAGTTACTTTCAAATCTCT
CAAGAACTTTTCCCTCTGCCTTCTCTCTAAGAAAAATGGGTTTCCCTTCGCCTCCGGCGCGGCCA
ATGCGGGCTGCTCTAACTTATCTTTTTCTATTTCCTTTCGTTCTTTGGCGTAATAACCTCGAGAA
CATCCCCCATCTCCTTTTGGCCTTTGAACGACGAAATCATGGGCGGTCGGTTTCTCGACGTCACC
ATAGATCTTTCTCACGTTTTCCTTGGAGCTTGTCTCCTTTCTCCAACGGAGGGCCGCCTCGGTCT
TGTTTTCTTATCTCTCTCGCTCCGGTAAGGCCCTTTTGCGCTGTTGGAGCGTCGTTGCTGCTTTA
ACCTCCGATGGCTCGTGCTTGATGGTTCCTGATTTCATCGCACCAGATCTGAGTTGTTTCTCGGT
GGTAGTGGGTCCCTCTCTTTCGAGAGTTTCCACTGGGTCCAAGGTGGCGTTAAAGCTTCGTTTTT
AGGCTTTCCCACAGCATAGCCTCTCCGTTGGTGGGGAGCATACCGGCGGTGGGTACAATAGCCTT
GTTCCTGGACTACCTAGCTCTCCTCTATCGTTCACAGCGGTGGCTGGGTGGGTCAGTGAAGGCTA
GGATTTGTCCTCTATTGGTTGTATTTTTCGTGGTTTTCTTTTTGGGCCTGGGCTTGTATGCCCTT
CCATTGGAATGAAATTTCACTTTAAAAAATTGGTTATCTTTTAACAACTAAATGAATCCATTTGC
GGAAATAATCACAACTGGAGTTGGAGTAATACAGTTGTTAAATCTTGGTATCAAATTCTAGGGTT
CAACCCCCATCCTTTTTCTCAAATATGTAATG
Found at i:10807780 original size:17 final size:17
Alignment explanation
Indices: 10807752--10807799 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
10807742 CGAAAGAATT
10807752 AATTATTAATTAGATTGA
1 AATTATTAATTA-ATTGA
10807770 AATTA-TAATTAATTGA
1 AATTATTAATTAATTGA
10807786 CACATTATTTAATT
1 -A-ATTA-TTAATT
10807800 GGTGCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 9 0.35
20 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (17 bp):
AATTATTAATTAATTGA
Found at i:10809559 original size:63 final size:63
Alignment explanation
Indices: 10809480--10809605 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
10809470 GTTGACCCTT
* *
10809480 TTAGCATTTAGGATACCACTGAACCATTTCTTTACCTAGGGTATCATAGAAAGGACGAGGAAG
1 TTAGCACTTAGGATACCACTGAACCATTTCTTTACCTAGGGTATCATAGAAAGAACGAGGAAG
* * *
10809543 TTAGCACTTAGGATACCACTTAACCATTTCTTTACCTAGGGTATCGTAGAAAGAATGAGGAAG
1 TTAGCACTTAGGATACCACTGAACCATTTCTTTACCTAGGGTATCATAGAAAGAACGAGGAAG
10809606 AGTTCAGATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (63 bp):
TTAGCACTTAGGATACCACTGAACCATTTCTTTACCTAGGGTATCATAGAAAGAACGAGGAAG
Found at i:10810358 original size:31 final size:32
Alignment explanation
Indices: 10810276--10810364 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
10810266 GAAATTATAA
*
10810276 AAATATATAAAA-ATAATCTAAAAACATACGT
1 AAATATATAAAATAAAATCTAAAAACATACGT
* *
10810307 AAA-ATAATTAAATATAAAATCTAAATACATTC-T
1 AAATAT-A-TAAA-ATAAAATCTAAAAACATACGT
10810340 AAATATATAAAATAAAATCTAAAAA
1 AAATATATAAAATAAAATCTAAAAA
10810365 AATGATCACC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
30 2 0.04
31 17 0.35
32 8 0.16
33 6 0.12
34 16 0.33
ACGTcount: A:0.63, C:0.08, G:0.01, T:0.28
Consensus pattern (32 bp):
AAATATATAAAATAAAATCTAAAAACATACGT
Found at i:10811323 original size:18 final size:18
Alignment explanation
Indices: 10811296--10811388 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
10811286 TACGACCGTT
10811296 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10811314 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10811332 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10811350 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10811368 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
10811386 TAC
1 TAC
10811389 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:10817143 original size:6 final size:7
Alignment explanation
Indices: 10817126--10817156 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10817116 AAATTTACCG
*
10817126 TTTTTTG
1 TTTTTTA
10817133 TTTTTTA
1 TTTTTTA
10817140 TTTTTTA
1 TTTTTTA
10817147 TTTTTTA
1 TTTTTTA
10817154 TTT
1 TTT
10817157 CTAAAGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:10821892 original size:43 final size:43
Alignment explanation
Indices: 10821809--10821892 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
10821799 AAGACACACG
*
10821809 AATCATTGTATTAAATTATTAAGCATCTAGATTTCAATTTTGA
1 AATCATTGTATTAAATTATAAAGCATCTAGATTTCAATTTTGA
* *
10821852 AATCATTTTATTAAATTAATAAAGGATCTAGATTTC-ATTTT
1 AATCATTGTATTAAATT-ATAAAGCATCTAGATTTCAATTTT
10821893 CAGACCTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 21 0.57
44 16 0.43
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (43 bp):
AATCATTGTATTAAATTATAAAGCATCTAGATTTCAATTTTGA
Found at i:10822954 original size:27 final size:28
Alignment explanation
Indices: 10822920--10822984 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
10822910 ATAAAAAATA
10822920 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
*
10822947 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
10822975 ACCAAAATAT
1 ACCAAAATAT
10822985 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:10823066 original size:27 final size:27
Alignment explanation
Indices: 10823027--10823085 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
10823017 GCCTGATCAG
*
10823027 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATCACATTGGAGGCACCAAAGCT
* * * *
10823054 GCCAATGAGATTGGCGGCACCAATGCT
1 GCCAATCACATTGGAGGCACCAAAGCT
10823081 GCCAA
1 GCCAA
10823086 AGGACTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.15
Consensus pattern (27 bp):
GCCAATCACATTGGAGGCACCAAAGCT
Found at i:10823665 original size:19 final size:19
Alignment explanation
Indices: 10823641--10823697 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
10823631 TCTAATTAAG
10823641 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
10823660 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
10823678 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
10823697 T
1 T
10823698 TAAAAAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:10824014 original size:18 final size:19
Alignment explanation
Indices: 10823953--10824009 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
10823943 AATTTTTTCA
10823953 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
10823972 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
10823990 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
10824009 A
1 A
10824010 CTTAATTAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:10825109 original size:37 final size:38
Alignment explanation
Indices: 10825054--10825125 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 38
10825044 CCGAATATAA
*
10825054 TAAATATATATTTTTTATTTTTTAATTTTAAAATACTT
1 TAAAAATATATTTTTTATTTTTTAATTTTAAAATACTT
*
10825092 TAAAAATAT-TTTTTTATTTTTTATTTTTAAAATA
1 TAAAAATATATTTTTTATTTTTTAATTTTAAAATA
10825126 TTTTTTTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 24 0.75
38 8 0.25
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
TAAAAATATATTTTTTATTTTTTAATTTTAAAATACTT
Found at i:10827231 original size:20 final size:20
Alignment explanation
Indices: 10827203--10827241 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10827193 GTAAAATGAC
*
10827203 TTCTATAAAATGTTTTACTT
1 TTCTATAAAATGATTTACTT
*
10827223 TTCTGTAAAATGATTTACT
1 TTCTATAAAATGATTTACT
10827242 GAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
TTCTATAAAATGATTTACTT
Found at i:10827371 original size:20 final size:19
Alignment explanation
Indices: 10827346--10827392 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10827336 ACATATATTA
10827346 ATATATATTAATAAATTTTT
1 ATATATATTAAT-AATTTTT
* *
10827366 ATATAT-TAAATTATTTTT
1 ATATATATTAATAATTTTT
*
10827384 ACATATATT
1 ATATATATT
10827393 GCAATGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
20 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATATTAATAATTTTT
Found at i:10834218 original size:44 final size:43
Alignment explanation
Indices: 10834171--10834270 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
10834161 GTTTATGTGA
10834171 AAAAACGCCGCTATAAAACATGA-CTTGTAACA-GCG-TTTCTCAC
1 AAAAACGCCGCTATAAAACATGACCTT-TAACAGGCGCTTTC-C-C
* * * *
10834214 AAAAATGCCACTATAGAACATGACCTTTAGCAGGCGCTTTCCCC
1 AAAAACGCCGCTATAAAACATGACCTTTAACAGGCGCTTT-CCC
10834258 AAAAACGCCGCTA
1 AAAAACGCCGCTA
10834271 AAGACCATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
43 24 0.51
44 18 0.38
45 4 0.09
46 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTATAAAACATGACCTTTAACAGGCGCTTTCCC
Found at i:10834802 original size:33 final size:33
Alignment explanation
Indices: 10834740--10834807 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
10834730 TGAAGAAAAT
*
10834740 AATAAGGGATTTGGGGAAATTTTTAGGGGA-AA
1 AATAAGGAATTTGGGGAAATTTTTAGGGGATAA
*
10834772 AATAAGGAATTTTGGGAAATTGATTT-GGGGATAA
1 AATAAGGAATTTGGGGAAATT--TTTAGGGGATAA
10834806 AA
1 AA
10834808 CTAAACCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 19 0.61
33 5 0.16
34 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (33 bp):
AATAAGGAATTTGGGGAAATTTTTAGGGGATAA
Found at i:10834907 original size:39 final size:41
Alignment explanation
Indices: 10834853--10834937 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 41
10834843 TAAAATGATA
* * * *
10834853 TTTTGTGGCGTTTATGA-AAAAACGTCGCTATTGC-TTACC
1 TTTTGTGCCATTTATGAGAAAAACGCCGCTACTGCTTTACC
10834892 TTTTGTGCCATTTATGAGAAAAACGCCGCTACTGCTTTACC
1 TTTTGTGCCATTTATGAGAAAAACGCCGCTACTGCTTTACC
10834933 TTTTG
1 TTTTG
10834938 CGGCGTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.38
40 15 0.38
41 10 0.25
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (41 bp):
TTTTGTGCCATTTATGAGAAAAACGCCGCTACTGCTTTACC
Found at i:10836044 original size:19 final size:20
Alignment explanation
Indices: 10836022--10836060 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10836012 GTTTTTTATT
*
10836022 AATTTTT-AATTTTTTTTGA
1 AATTTTTGAATTTTATTTGA
10836041 AATTTTTGAATTTTATTTGA
1 AATTTTTGAATTTTATTTGA
10836061 TACTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (20 bp):
AATTTTTGAATTTTATTTGA
Found at i:10836067 original size:20 final size:20
Alignment explanation
Indices: 10836024--10836067 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
10836014 TTTTTATTAA
* * *
10836024 TTTTTAATTTTTTTTGAAAT
1 TTTTGAATTTTATTTGAAAC
*
10836044 TTTTGAATTTTATTTGATAC
1 TTTTGAATTTTATTTGAAAC
10836064 TTTT
1 TTTT
10836068 ATAAATGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTGAATTTTATTTGAAAC
Found at i:10836103 original size:10 final size:10
Alignment explanation
Indices: 10836064--10836113 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
10836054 TATTTGATAC
10836064 TTTTAT-AAA
1 TTTTATAAAA
**
10836073 TGTTTATAATG
1 T-TTTATAAAA
10836084 TTTT-TAAAA
1 TTTTATAAAA
10836093 TTTTATAAAA
1 TTTTATAAAA
*
10836103 TTTTAAAAAA
1 TTTTATAAAA
10836113 T
1 T
10836114 ATTTTTCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 8 0.24
10 23 0.70
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:10836106 original size:19 final size:19
Alignment explanation
Indices: 10836064--10836110 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
10836054 TATTTGATAC
**
10836064 TTTTATAAATGTTTATAATGT
1 TTTTA-AAATGTTTATAA-AA
10836085 TTTTAAAAT-TTTATAAAA
1 TTTTAAAATGTTTATAAAA
10836103 TTTTAAAA
1 TTTTAAAA
10836111 AATATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 7 0.29
20 4 0.17
21 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTAAAATGTTTATAAAA
Found at i:10836111 original size:19 final size:20
Alignment explanation
Indices: 10836064--10836111 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
10836054 TATTTGATAC
* **
10836064 TTTTATAAATGTTTATAATG
1 TTTTAAAAATGTTTATAAAA
*
10836084 TTTTTAAAAT-TTTATAAAA
1 TTTTAAAAATGTTTATAAAA
10836103 TTTTAAAAA
1 TTTTAAAAA
10836112 ATATTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATGTTTATAAAA
Found at i:10836563 original size:14 final size:14
Alignment explanation
Indices: 10836544--10836591 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
10836534 TGTTCATTAT
10836544 TTTAAAATATTTAA
1 TTTAAAATATTTAA
*
10836558 TTT-AAATATATAA
1 TTTAAAATATTTAA
*
10836571 TTTATAATATATTTAT
1 TTTA-AA-ATATTTAA
10836587 TTTAA
1 TTTAA
10836592 GTTGCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 12 0.43
14 3 0.11
15 3 0.11
16 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAAAATATTTAA
Found at i:10839811 original size:20 final size:20
Alignment explanation
Indices: 10839783--10839820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10839773 TGTTATTTTA
*
10839783 TTAATAAAATAAAGAAAAGG
1 TTAAAAAAATAAAGAAAAGG
*
10839803 TTAAAAAAATGAAGAAAA
1 TTAAAAAAATAAAGAAAA
10839821 CATGATAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (20 bp):
TTAAAAAAATAAAGAAAAGG
Found at i:10855449 original size:14 final size:13
Alignment explanation
Indices: 10855422--10855455 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10855412 TAAAAGATTC
10855422 AAAAATTTTATAA
1 AAAAATTTTATAA
*
10855435 AAAAATATTTTTAA
1 AAAAAT-TTTATAA
10855449 AAAAATT
1 AAAAATT
10855456 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATTTTATAA
Found at i:10862769 original size:30 final size:31
Alignment explanation
Indices: 10862715--10862774 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
10862705 TAATTAAATC
10862715 AAATCAAAATTTTATGTATAAAATTGCACAA
1 AAATCAAAATTTTATGTATAAAATTGCACAA
*
10862746 AAATCAAAATTTT-TGTGTAAAATTGCACA
1 AAATCAAAATTTTATGTATAAAATTGCACA
10862775 TGAAACCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (31 bp):
AAATCAAAATTTTATGTATAAAATTGCACAA
Found at i:10865320 original size:46 final size:44
Alignment explanation
Indices: 10865237--10865324 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 44
10865227 TTATTTCATG
10865237 TAAAAATTTGTGATTTAATTTAATTATATTGGATTTTTATTTTTT
1 TAAAAATTTGTGATTTAATTTAATTATATTGGATTTTT-TTTTTT
*
10865282 TAAAAATTT-T-ATTATAGATTCTAATTATATAT-GCTTTTTTTTT
1 TAAAAATTTGTGATT-TA-ATT-TAATTATAT-TGGATTTTTTTTT
10865325 GACACAATGC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
43 3 0.08
44 3 0.08
45 16 0.42
46 15 0.39
47 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (44 bp):
TAAAAATTTGTGATTTAATTTAATTATATTGGATTTTTTTTTTT
Found at i:10880527 original size:24 final size:23
Alignment explanation
Indices: 10880479--10880537 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
10880469 CTTTGATACT
* **
10880479 TTATTTTATAATTTTTTAATGTA
1 TTATTTTATAATTTTTGAAAATA
10880502 TTATTTTATAACTTTTTGAAAATA
1 TTATTTTATAA-TTTTTGAAAATA
10880526 TTAGATTTTATA
1 TT--ATTTTATA
10880538 TTAAATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.37
24 11 0.37
26 8 0.27
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TTATTTTATAATTTTTGAAAATA
Found at i:10891291 original size:3 final size:3
Alignment explanation
Indices: 10891283--10891326 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
10891273 ATTACATCCA
10891283 AAT AAT AAT AAT CAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10891327 AACATGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10891296 original size:72 final size:72
Alignment explanation
Indices: 10891099--10891282 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
10891089 ACAACTTGAC
*
10891099 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10891164 ACTAACA
66 ACTAACA
10891171 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10891236 ACTAACA
66 ACTAACA
10891243 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
10891283 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:10895661 original size:72 final size:72
Alignment explanation
Indices: 10895540--10895871 Score: 639
Period size: 72 Copynumber: 4.6 Consensus size: 72
10895530 GCTTACAACT
*
10895540 TAAC-AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
10895604 ACTACAC
66 ACTACAC
10895611 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
10895676 ACTACAC
66 ACTACAC
*
10895683 TAACAAACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
10895748 ACTACAC
66 ACTACAC
10895755 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
10895820 ACTACAC
66 ACTACAC
10895827 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
10895872 AATAATAATA
Statistics
Matches: 257, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
71 4 0.02
72 253 0.98
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACAC
Found at i:10895880 original size:3 final size:3
Alignment explanation
Indices: 10895872--10895924 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10895862 ATTACATCCA
10895872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10895920 AAT AA
1 AAT AA
10895925 AACATGTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10896346 original size:12 final size:11
Alignment explanation
Indices: 10896319--10896384 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
10896309 TTTTTTAAAA
10896319 TTTTAAAATAT
1 TTTTAAAATAT
10896330 TTTTAAAATACT
1 TTTTAAAATA-T
10896342 TTTT--AAT-T
1 TTTTAAAATAT
* *
10896350 TTTT---TTAA
1 TTTTAAAATAT
10896358 TTTTAAAATAT
1 TTTTAAAATAT
10896369 TTTTAAAATAAT
1 TTTTAAAAT-AT
10896381 TTTT
1 TTTT
10896385 TTTAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.02
8 9 0.20
10 3 0.07
11 21 0.47
12 11 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:10896363 original size:39 final size:39
Alignment explanation
Indices: 10896296--10896384 Score: 144
Period size: 39 Copynumber: 2.2 Consensus size: 39
10896286 CCAAACATAG
10896296 AATATTTTTAATTTTTTTTAAAATTTTAAAATATTTTTAA
1 AATATTTTTAATTTTTTTT-AAATTTTAAAATATTTTTAA
10896336 AATACTTTTTAATTTTTTTT-AATTTTAAAATATTTTTAA
1 AATA-TTTTTAATTTTTTTTAAATTTTAAAATATTTTTAA
10896375 AATAATTTTT
1 AAT-ATTTTT
10896385 TTTAATTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
39 27 0.57
40 5 0.11
41 15 0.32
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (39 bp):
AATATTTTTAATTTTTTTTAAATTTTAAAATATTTTTAA
Found at i:10896372 original size:11 final size:12
Alignment explanation
Indices: 10896358--10896407 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
10896348 TTTTTTTTAA
10896358 TTTTAAAAT-AT
1 TTTTAAAATAAT
10896369 TTTTAAAATAAT
1 TTTTAAAATAAT
**
10896381 TTTT--TTTAAT
1 TTTTAAAATAAT
10896391 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
10896404 TTTT
1 TTTT
10896408 GGTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:10896414 original size:22 final size:21
Alignment explanation
Indices: 10896366--10896414 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
10896356 AATTTTAAAA
**
10896366 TATTTTTAAAATAATTTTTTT
1 TATTTTTAAAATAATTTTTGG
10896387 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
10896410 TATTT
1 TATTT
10896415 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:10896575 original size:6 final size:5
Alignment explanation
Indices: 10896527--10896589 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
10896517 TTTTTTTCTG
* **
10896527 GGCCC GGCCC GAACCC GGCCC GGCCC GGCCC ATGAGCAT GGCCC GGGCCC
1 GGCCC GGCCC G-GCCC GGCCC GGCCC GGCCC --G-GCCC GGCCC -GGCCC
10896577 GGCCC GGCCC GGC
1 GGCCC GGCCC GGC
10896590 TCGAATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 34 0.72
6 10 0.21
7 1 0.02
8 2 0.04
ACGTcount: A:0.08, C:0.51, G:0.38, T:0.03
Consensus pattern (5 bp):
GGCCC
Found at i:10896635 original size:11 final size:11
Alignment explanation
Indices: 10896619--10896643 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10896609 TATTTTTTTA
10896619 TTTTAAAATAC
1 TTTTAAAATAC
10896630 TTTTAAAATAC
1 TTTTAAAATAC
10896641 TTT
1 TTT
10896644 ATTTTTAATT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:10896717 original size:11 final size:12
Alignment explanation
Indices: 10896703--10896752 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
10896693 TTTTTTTTAA
10896703 TTTTAAAAT-AT
1 TTTTAAAATAAT
10896714 TTTTAAAATAAT
1 TTTTAAAATAAT
**
10896726 TTTT--TTTAAT
1 TTTTAAAATAAT
10896736 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
10896749 TTTT
1 TTTT
10896753 GGTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:10896739 original size:39 final size:39
Alignment explanation
Indices: 10896606--10896741 Score: 150
Period size: 39 Copynumber: 3.3 Consensus size: 39
10896596 ATAATAAATA
* * *
10896606 TTTTATTTTTTTATTTTAAAATACTTTTAAAATACTTTAT
1 TTTTAATTTTTAATTTTAAAATATTTTTAAAATACTTT-T
10896646 TTTTAATTTTTTTTAAAATTTTAAAATATTTTTAAAATACTTTT
1 TTTTAA---TTTTT--AATTTTAAAATATTTTTAAAATACTTTT
*
10896690 TAATTT--TTTTTAATTTTAAAATATTTTTAAAATAATTTT
1 T--TTTAATTTTTAATTTTAAAATATTTTTAAAATACTTTT
10896729 TTTTAATTTTTAA
1 TTTTAATTTTTAA
10896742 AATAAATTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
37 3 0.04
39 35 0.42
40 5 0.06
41 5 0.06
43 5 0.06
44 2 0.02
45 25 0.30
46 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTAATTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:10896759 original size:22 final size:21
Alignment explanation
Indices: 10896711--10896759 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
10896701 AATTTTAAAA
**
10896711 TATTTTTAAAATAATTTTTTT
1 TATTTTTAAAATAATTTTTGG
10896732 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
10896755 TATTT
1 TATTT
10896760 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:10899336 original size:33 final size:33
Alignment explanation
Indices: 10899290--10899356 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10899280 AAAAAAACTG
10899290 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
1 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
*
10899323 AGACGTTATTTTCAAGGTAATTTTCGAGAGAGA
1 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
10899356 A
1 A
10899357 CTTTCAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (33 bp):
AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
Found at i:10904146 original size:33 final size:33
Alignment explanation
Indices: 10904100--10904166 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10904090 AAAAAAACTG
10904100 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
1 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
*
10904133 AGACGTTATTTTCAAGGTAATTTTCGAGAGAGA
1 AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
10904166 A
1 A
10904167 CTTTCAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (33 bp):
AGACGTTACTTTCAAGGTAATTTTCGAGAGAGA
Found at i:10918098 original size:2 final size:2
Alignment explanation
Indices: 10918091--10918117 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10918081 AGTTTGTTTC
10918091 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10918118 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10919122 original size:41 final size:41
Alignment explanation
Indices: 10919064--10919172 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
10919054 CTTAATTTAA
*
10919064 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
10919106 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
10919147 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
10919173 ACGTATAGTC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 61 0.94
42 4 0.06
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:10920298 original size:18 final size:18
Alignment explanation
Indices: 10920275--10920311 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10920265 TCTCATTCGA
*
10920275 TTTATATACTTTTAATTT
1 TTTATATACTTATAATTT
10920293 TTTATATACTTATAATTT
1 TTTATATACTTATAATTT
10920311 T
1 T
10920312 AACTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATACTTATAATTT
Found at i:10928041 original size:3 final size:3
Alignment explanation
Indices: 10928033--10928083 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
10928023 AAATAAAGCC
* * *
10928033 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10928079 AAT AA
1 AAT AA
10928084 CACTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10929854 original size:50 final size:50
Alignment explanation
Indices: 10929788--10930067 Score: 171
Period size: 50 Copynumber: 5.6 Consensus size: 50
10929778 GCAATGTCGG
* * *
10929788 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTATTTCGCTGCATCGCTAA
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTATTTCGTTGCATCGCTAA
* * * * ** * *
10929838 GTAAGTAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGCAAT-GTTAG
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTATTTCGTTGC-ATCGCTAA
* * * * *
10929887 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAA
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTATTTCGTTGCATCGCTAA
* * * * * * **
10929937 TGATGTGAGA-CTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAAT-GTTGG
1 GGAAGTAAGATC-CGCCGTTGTAGCTTCAATCTATTTCG-TTGC-ATCGCTAA
* * * *
10929987 GGAAGTGAGA-CTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCT--
1 GGAAGTAAGATC-CGCCGTTGTAGCTTCAATCTATTTCGTTGCATCG-CTAA
* * *
10930036 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCT
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCT
10930068 TTTAAATTGC
Statistics
Matches: 175, Mismatches: 45, Indels: 21
0.73 0.19 0.09
Matches are distributed among these distances:
49 66 0.38
50 105 0.60
51 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (50 bp):
GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTATTTCGTTGCATCGCTAA
Found at i:10930119 original size:96 final size:96
Alignment explanation
Indices: 10929490--10930527 Score: 1193
Period size: 96 Copynumber: 10.6 Consensus size: 96
10929480 TAAAATGTCA
* * * ** * * * * *
10929490 GGGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCATTGTACCTGCTTAGGAA-TAAGATTT
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC-GCCT-GAAAGTAAGATTC
* *
10929554 GCCATTGTGGCCTCAATCTTTT-AATTGCAATG
64 GCCGTTGTGGCTTCAATCTTTTAAATTGCAATG
* ** * * * *
10929586 TCAGCGG-AGTGAGATTCGCTATTGTAGCTTCAATCTGTTACGCTGCATTGCTTGGAAGTAAGA-
1 ---G-GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGAT
* * *
10929649 TCTGTCGTCGTGGCCTCAATCTTTTAAATTGCAATG
62 TC-GCCGTTGTGGCTTCAATCTTTTAAATTGCAATG
* * * * * * *
10929685 TCGAGGGAGTGAGA-TCCGCCATTGTAGCTTCAATCTATTCCTCTAG-ATTGCTTGGAAGTAAGA
1 --G-GGAAGTGAGACT-CGCCGTTGTAGCTTCAATCTGTTCCGCT-GCATCGCCTGAAAGTAAGA
* * *
10929748 TCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCG
61 TTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAA--T-G
* * * * *
10929787 GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTATTTCGCTGCATCG-CTAAGTAAGTAAGATCC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT--GAAAGTAAGATTC
* *
10929851 GCCGTCGTGGCCTCAATCTTTT-AATTGCAATG
64 GCCGTTGTGGCTTCAATCTTTTAAATTGCAATG
* * * * * *
10929883 TTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAATG-ATGTGAGA
1 ---GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGAAAGTAAGA
* * * * *
10929947 CTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAATGTTG
61 TTCGCCGTTGTGGCTTCAATCT-TTTAAATTGCAA---TG
* * *
10929986 GGGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCGC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
*
10930051 CGTTGTGGCTTCGATCTTTTAAATTGCAATG
66 CGTTGTGGCTTCAATCTTTTAAATTGCAATG
* *
10930082 GGGAAGTGAGACTCGCCATTGTAGCTTCAATTTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
*
10930147 CGTTGTGGCTTCGATCTTTTAAATTGCAATG
66 CGTTGTGGCTTCAATCTTTTAAATTGCAATG
*
10930178 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTTGC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
10930243 CGTTGTGGCTTCGAA-CTTTTAAATTGCAATG
66 CGTTGTGGCTTC-AATCTTTTAAATTGCAATG
*
10930274 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTTGC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
10930339 CGTTGTGGCTTCGAA-CTTTTAAATTGCAATG
66 CGTTGTGGCTTC-AATCTTTTAAATTGCAATG
10930370 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
10930435 CGTTGTGGCTTCGAA-CTTTTAAATTGCAATG
66 CGTTGTGGCTTC-AATCTTTTAAATTGCAATG
10930466 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATT
1 GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATT
10930528 NCTTCGATCT
Statistics
Matches: 848, Mismatches: 63, Indels: 59
0.87 0.06 0.06
Matches are distributed among these distances:
96 437 0.52
97 7 0.01
98 39 0.05
99 262 0.31
100 98 0.12
101 1 0.00
102 2 0.00
103 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (96 bp):
GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGC
CGTTGTGGCTTCAATCTTTTAAATTGCAATG
Found at i:10942505 original size:3 final size:3
Alignment explanation
Indices: 10942497--10942547 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
10942487 AAATAAAGCC
* * *
10942497 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10942543 AAT AA
1 AAT AA
10942548 CACTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10944727 original size:21 final size:21
Alignment explanation
Indices: 10944663--10944738 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 21
10944653 TGAAAAAACA
* **
10944663 TTAAAAATTATAAATCATT-T
1 TTAAAAATTCTAAAAAATTAT
* *
10944683 TTTAAAATTC--AAAAAGTAT
1 TTAAAAATTCTAAAAAATTAT
*
10944702 GTAAAAATTCTAAAAAATTAT
1 TTAAAAATTCTAAAAAATTAT
10944723 TT-AAAATT-TAAAAAAT
1 TTAAAAATTCTAAAAAAT
10944739 ATAAAAAAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.09
19 17 0.39
20 14 0.32
21 9 0.20
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAAAATTCTAAAAAATTAT
Found at i:10947919 original size:18 final size:18
Alignment explanation
Indices: 10947886--10947935 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
10947876 TATTTTATTA
*
10947886 AATTTTTTATATAATTT-T
1 AATTTTTTA-AAAATTTAT
10947904 AGATTTTTTAAAAATTTAT
1 A-ATTTTTTAAAAATTTAT
10947923 AATTTTTTAAAAA
1 AATTTTTTAAAAA
10947936 AATATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTTTTAAAAATTTAT
Found at i:10947941 original size:18 final size:19
Alignment explanation
Indices: 10947906--10947947 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10947896 ATAATTTTAG
**
10947906 ATTTTTTAAAAATTTAT-A
1 ATTTTTTAAAAAAATATAA
10947924 ATTTTTTAAAAAAATATAA
1 ATTTTTTAAAAAAATATAA
10947943 ATTTT
1 ATTTT
10947948 AGAATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTTAAAAAAATATAA
Found at i:10947975 original size:44 final size:44
Alignment explanation
Indices: 10947893--10947979 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
10947883 TTAAATTTTT
*
10947893 TATATAATTTTAGATTTTTTAAAAATTTATAATTTTTTAAAAAAA
1 TATATAATTTTAGATTTTATAAAAATTTATAA-TTTTTAAAAAAA
* *
10947938 TATA-AATTTTAGAATTTCTATAAATATTTCTAA-TTTTAAAAA
1 TATATAATTTTAG-ATTT-TATAAAAATTTATAATTTTTAAAAA
10947980 TTATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 17 0.46
45 8 0.22
46 12 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (44 bp):
TATATAATTTTAGATTTTATAAAAATTTATAATTTTTAAAAAAA
Found at i:10950950 original size:12 final size:12
Alignment explanation
Indices: 10950925--10950968 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
10950915 CTAAGAAAAT
10950925 AAAAT-AAACATA
1 AAAATAAAAC-TA
10950937 AAAATAAAACTA
1 AAAATAAAACTA
*
10950949 AAACTAAAACTA
1 AAAATAAAACTA
10950961 AAAA-AAAA
1 AAAATAAAA
10950969 AGACAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 4 0.14
12 21 0.72
13 4 0.14
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAACTA
Found at i:10950956 original size:18 final size:17
Alignment explanation
Indices: 10950920--10950984 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
10950910 TAAGTCTAAG
10950920 AAAATAAAATAAACATA
1 AAAATAAAATAAACATA
10950937 AAAATAAAACTAAA-ACTA
1 AAAATAAAA-TAAACA-TA
* * * *
10950955 AAACTAAAAAAAAAAGA
1 AAAATAAAATAAACATA
*
10950972 CAAATAAAATAAA
1 AAAATAAAATAAA
10950985 TGATCTTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 24 0.62
18 15 0.38
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAACATA
Found at i:10952670 original size:3 final size:3
Alignment explanation
Indices: 10952662--10952714 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10952652 TTATCATCTT
10952662 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10952710 TTA TT
1 TTA TT
10952715 TTAATTACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10952818 original size:4 final size:4
Alignment explanation
Indices: 10952794--10952835 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
10952784 ATTATTATCC
*
10952794 TTAT TTCAT TTAT GT-T TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
10952836 TTCTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:10959257 original size:6 final size:6
Alignment explanation
Indices: 10959243--10959275 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10959233 GTTCAGATTC
*
10959243 AAAA-A AAAATT AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
10959276 AAACAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10959312 original size:19 final size:19
Alignment explanation
Indices: 10959284--10959326 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
10959274 AAAAACAAAG
10959284 AAAGAAAAGAGAAA-AATC
1 AAAGAAAAGAGAAACAATC
10959302 AAAGAAAAAGAGAAATCAATC
1 AAAG-AAAAGAGAAA-CAATC
10959323 AAAG
1 AAAG
10959327 TCAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
21 8 0.36
ACGTcount: A:0.70, C:0.07, G:0.16, T:0.07
Consensus pattern (19 bp):
AAAGAAAAGAGAAACAATC
Found at i:10961118 original size:87 final size:87
Alignment explanation
Indices: 10960962--10961556 Score: 1001
Period size: 87 Copynumber: 6.8 Consensus size: 87
10960952 ACAGATCAGT
*
10960962 GAAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
* *
10961027 GCCTTCCTGCGTTAACAGCTAA
66 GCCTTCCTGCATTAACAGCGAA
* * * *
10961049 GCAGATTGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTC
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
10961114 GCCTTCCTGCATTAACAGCGAA
66 GCCTTCCTGCATTAACAGCGAA
*
10961136 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTC
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
10961201 GCCTTCCTGCATTAACAGCGAA
66 GCCTTCCTGCATTAACAGCGAA
*
10961223 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTC
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
10961288 GCCTTCCTGCATTAACAGCGAA
66 GCCTTCCTGCATTAACAGCGAA
*
10961310 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTT
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
*
10961375 GTCTTCCTGCATTAACAGCGAA
66 GCCTTCCTGCATTAACAGCGAA
* * * * *
10961397 GCAGATCAAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATTTT
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
*
10961462 GTCTTCCTGCATTAACAGCGAA
66 GCCTTCCTGCATTAACAGCGAA
* * * *
10961484 GCAGATCAAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTT
1 GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
10961549 GCCTTCCT
66 GCCTTCCT
10961557 AAGCACTAGC
Statistics
Matches: 487, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 487 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
GAAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
GCCTTCCTGCATTAACAGCGAA
Found at i:10961744 original size:44 final size:44
Alignment explanation
Indices: 10961696--10961838 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
10961686 CTGAAGTCAC
* * * *
10961696 AGTGGGGCAGACTGAAGAAGCA-AATCTTATCTCCCTGAGGTTGT
1 AGTGGAGCAGACTAAAGAAG-ATAATCCTATCTCCCTGAAGTTGT
* **
10961740 AGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGACTAAAGAAGATAATCCTATCTCCCTGAAGTTGT
* * * * * *
10961784 AGTGGAGCGGATTAAAGTA-ATAGATCTTATCTCTCTGAAGTTGC
1 AGTGGAGCAGACTAAAGAAGATA-ATCCTATCTCCCTGAAGTTGT
*
10961828 AGTAGAGCAGA
1 AGTGGAGCAGA
10961839 TCGCATCAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 4 0.05
44 79 0.95
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGACTAAAGAAGATAATCCTATCTCCCTGAAGTTGT
Found at i:10963175 original size:31 final size:31
Alignment explanation
Indices: 10963110--10963173 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10963100 TCTTGTCTTC
* * *
10963110 TTTATTTCGATTTCGTCCCCTTTTGTTGGCT
1 TTTACTTCGATTTAGTCCCCTTTTGTTAGCT
10963141 TTTACTTCGATTTAGT-CCCTTTT-TTAGCAT
1 TTTACTTCGATTTAGTCCCCTTTTGTTAGC-T
10963171 TTT
1 TTT
10963174 TATTATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 11 0.38
31 14 0.48
ACGTcount: A:0.11, C:0.20, G:0.12, T:0.56
Consensus pattern (31 bp):
TTTACTTCGATTTAGTCCCCTTTTGTTAGCT
Found at i:10963219 original size:3 final size:3
Alignment explanation
Indices: 10963211--10963236 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10963201 TTATCATCTT
10963211 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10963237 TTAATTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10963522 original size:23 final size:22
Alignment explanation
Indices: 10963495--10963542 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
10963485 TGTTTTTTAT
10963495 ATTATAATTAATTTACATATGCA
1 ATTATAA-TAATTTACATATGCA
10963518 A-T-T-ATAATTTACATATGCA
1 ATTATAATAATTTACATATGCA
10963537 ATTATA
1 ATTATA
10963543 TATATCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
19 16 0.73
20 2 0.09
21 2 0.09
22 1 0.05
23 1 0.05
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTATAATAATTTACATATGCA
Found at i:10963527 original size:19 final size:19
Alignment explanation
Indices: 10963503--10963542 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10963493 ATATTATAAT
10963503 TAATTTACATATGCAATTA
1 TAATTTACATATGCAATTA
10963522 TAATTTACATATGCAATTA
1 TAATTTACATATGCAATTA
10963541 TA
1 TA
10963543 TATATCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (19 bp):
TAATTTACATATGCAATTA
Found at i:10963811 original size:20 final size:21
Alignment explanation
Indices: 10963775--10963828 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
10963765 CTTGATTCAT
*
10963775 TTATTCATTTACTCATT-TAC
1 TTATTTATTTACTCATTATAC
*
10963795 TTATTTATTTA-TCCATTATAT
1 TTATTTATTTACT-CATTATAC
10963816 TTA-TT-TTTACTCA
1 TTATTTATTTACTCA
10963829 GATTCTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 7 0.24
20 17 0.59
21 5 0.17
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTATTTACTCATTATAC
Found at i:10965704 original size:10 final size:10
Alignment explanation
Indices: 10965683--10965715 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10965673 AATAACTAGA
10965683 AAAATAAAAAT
1 AAAAT-AAAAT
10965694 AAAATAAAAT
1 AAAATAAAAT
10965704 AAAAT-AAAT
1 AAAATAAAAT
10965713 AAA
1 AAA
10965716 TAATTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.32
10 10 0.45
11 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:10965707 original size:15 final size:15
Alignment explanation
Indices: 10965646--10965715 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
10965636 TAATGATACG
*
10965646 AAATAAAATAATAAT
1 AAATAAAATAAAAAT
*
10965661 AATACTAAAAATAATAACT
1 AA-A-T-AAAATAA-AAAT
*
10965680 AGA-AAAATAAAAAT
1 AAATAAAATAAAAAT
10965694 AAAATAAAAT-AAAAT
1 -AAATAAAATAAAAAT
10965709 AAATAAA
1 AAATAAA
10965716 TAATTAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
14 10 0.23
15 16 0.36
16 6 0.14
17 1 0.02
18 8 0.18
19 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:10965707 original size:21 final size:21
Alignment explanation
Indices: 10965646--10965711 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
10965636 TAATGATACG
*
10965646 AAATAAAATAATAATAATACTAA
1 AAATAAAATAA-AATAA-AATAA
*
10965669 AAATAATAACT-AGA-AAAATAA
1 AAATAA-AA-TAAAATAAAATAA
10965690 AAATAAAATAAAATAAAATAA
1 AAATAAAATAAAATAAAATAA
10965711 A
1 A
10965712 TAAATAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 18 0.50
22 2 0.06
23 7 0.19
24 3 0.08
25 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATAAAATAAAATAAAATAA
Found at i:10965718 original size:18 final size:18
Alignment explanation
Indices: 10965646--10965718 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 18
10965636 TAATGATACG
10965646 AAATAAAATAATAAT-AAT
1 AAATAAAATAA-AATAAAT
* * *
10965664 -ACTAAAA-ATAATAACT
1 AAATAAAATAAAATAAAT
* *
10965680 AGA-AAAATAAAA-ATA-
1 AAATAAAATAAAATAAAT
10965695 AAATAAAATAAAATAAAT
1 AAATAAAATAAAATAAAT
10965713 AAATAA
1 AAATAA
10965719 TTAATTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
15 5 0.13
16 17 0.44
17 11 0.28
18 6 0.15
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (18 bp):
AAATAAAATAAAATAAAT
Found at i:10965907 original size:17 final size:16
Alignment explanation
Indices: 10965859--10965901 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
10965849 TTGTTCGGTA
10965859 AGGGGGAAGGAAAAAG
1 AGGGGGAAGGAAAAAG
*
10965875 TGGGGGAAGGAAAAAG
1 AGGGGGAAGGAAAAAG
10965891 AGGGGGAAGGA
1 AGGGGGAAGGA
10965902 GGAAAGGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.02
Consensus pattern (16 bp):
AGGGGGAAGGAAAAAG
Found at i:10967064 original size:19 final size:19
Alignment explanation
Indices: 10967027--10967064 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10967017 CTAATTAATT
*
10967027 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
10967046 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
10967065 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:10969953 original size:14 final size:14
Alignment explanation
Indices: 10969934--10969963 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10969924 TAATTAAAAC
10969934 AATAAAGTAAATAA
1 AATAAAGTAAATAA
10969948 AATAAAGTAAATAA
1 AATAAAGTAAATAA
10969962 AA
1 AA
10969964 GAAACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAAGTAAATAA
Found at i:10970945 original size:23 final size:23
Alignment explanation
Indices: 10970918--10970995 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
10970908 TGCCTTGCCG
10970918 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
10970941 ATCAGGTACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
10970964 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
*
10970987 TTCAGGCAC
1 ATCAGGCAC
10970996 CACGTGTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:10971004 original size:46 final size:46
Alignment explanation
Indices: 10970918--10971010 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
10970908 TGCCTTGCCG
* * ***
10970918 ATCAGGCACTTTATGTGTCGTATATCAGGTACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATATATCAGGCACCACATGTGTCGTAT
* *
10970964 ATCAGGCACTTTATGTGTCATATTTCAGGCACCACGTGTGTCGTAT
1 ATCAGGCACTTTATGTGTCATATATCAGGCACCACATGTGTCGTAT
10971010 A
1 A
10971011 CTAATCAGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (46 bp):
ATCAGGCACTTTATGTGTCATATATCAGGCACCACATGTGTCGTAT
Found at i:10975817 original size:29 final size:29
Alignment explanation
Indices: 10975728--10975804 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
10975718 ATTAACGCTG
* *
10975728 AGTGACTAAAATGTTGCAACATGA-TAACGTA
1 AGTGACTAAAATG-T--AACATGACAAACATA
**
10975759 AGTGACTAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATGACAAACATA
10975788 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
10975805 CTGAGACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.12
29 22 0.54
30 1 0.02
31 13 0.32
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGACAAACATA
Found at i:10978304 original size:15 final size:14
Alignment explanation
Indices: 10978265--10978310 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
10978255 ACAACCAACA
10978265 AGGAAAGGGAGAGG
1 AGGAAAGGGAGAGG
*
10978279 AGGAAATGGAG-GG
1 AGGAAAGGGAGAGG
10978292 AGAAGAAAGGGAGAGG
1 AG--GAAAGGGAGAGG
10978308 AGG
1 AGG
10978311 GGTAAATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 8 0.30
16 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.54, T:0.02
Consensus pattern (14 bp):
AGGAAAGGGAGAGG
Found at i:10990762 original size:72 final size:70
Alignment explanation
Indices: 10990681--10990827 Score: 179
Period size: 71 Copynumber: 2.1 Consensus size: 70
10990671 ACCAAAATAC
* * *
10990681 TACTCAGTTAATCAC-TTAACCGATGAATTAAAATTAACTCGAACGCTTCAAATCAGTTTGCTTA
1 TACTCAGTTAATCACATTAACCGAT---TGAAAATTAACCCCAACGCTTCAAATCAGTTTGCTTA
10990745 CGAGGTAG
63 CGAGGTAG
* * * * *
10990753 TACTCAGTTAATCACTATTGAGCGATTGAAACTTACCCCCAACGCTTCAAATCGGTTTGCTTACG
1 TACTCAGTTAATCAC-ATTAACCGATTGAAAATTAACCCCAACGCTTCAAATCAGTTTGCTTACG
10990818 AGGTAG
65 AGGTAG
10990824 TACT
1 TACT
10990828 AGAAGAGTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
71 43 0.66
72 15 0.23
74 7 0.11
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (70 bp):
TACTCAGTTAATCACATTAACCGATTGAAAATTAACCCCAACGCTTCAAATCAGTTTGCTTACGA
GGTAG
Found at i:10994979 original size:3 final size:3
Alignment explanation
Indices: 10994971--10994995 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10994961 TAAGCTCACC
10994971 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
10994996 GATTTGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:10998555 original size:47 final size:47
Alignment explanation
Indices: 10998456--10998806 Score: 483
Period size: 47 Copynumber: 7.5 Consensus size: 47
10998446 CAACCCTGTT
* * * * *
10998456 TTGGACAGCAATTATTCATCAAATTGGACAGCAAT-AATAT-GTTCTAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACTT-AAAA
** * * * *
10998504 -TGGACAGCATTATACATCGAATTAGACAGCTTAAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
* * *
10998550 TTGGACAACTTTATACATTAGAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
* *
10998597 TTGGACAGCATTATACATTAAAATGGACAGCATCTATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
10998644 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
* *
10998691 TTTGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
10998738 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
*
10998785 TTTGACAGCATTATACATTAAA
1 TTGGACAGCATTATACATTAAA
10998807 TTTATAACAC
Statistics
Matches: 273, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 27 0.10
47 245 0.90
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTTAAAA
Found at i:10999802 original size:28 final size:27
Alignment explanation
Indices: 10999743--10999840 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 27
10999733 TAATAAGTAT
* *
10999743 GCACACTTAGTGCTTAAT-AATCAAACTT
1 GCACACTTAGTGCTT--TCAATTAAACTC
** *
10999771 GCACACTTAGTGCTTTACCCTTATACTC
1 GCACACTTAGTGCTTT-CAATTAAACTC
10999799 GCACACTTAGTGCATTTCAATTAAACTC
1 GCACACTTAGTGC-TTTCAATTAAACTC
10999827 GCACACTTAGTGCT
1 GCACACTTAGTGCT
10999841 AATCTCATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (27 bp):
GCACACTTAGTGCTTTCAATTAAACTC
Found at i:11000487 original size:77 final size:77
Alignment explanation
Indices: 11000401--11000554 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
11000391 TGTTAATCTT
11000401 TCACATATCTTTCATATTTCATCATCAACTATCACAAAGCTCAAGCATTCATCAATGGCATTTCT
1 TCACATATCTTTCATATTTCATCATCAACTATCACAAAGCTCAAGCATTCATCAATGGCATTTCT
11000466 CAAATCATCAAC
66 CAAATCATCAAC
11000478 TCACATATCTTTCATATTTCATCATCAACTATCACAAAGCTCAAGCATTCATCAATGGCATTTCT
1 TCACATATCTTTCATATTTCATCATCAACTATCACAAAGCTCAAGCATTCATCAATGGCATTTCT
*
11000543 CAAATCCTCAAC
66 CAAATCATCAAC
11000555 AATTCACAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.32
Consensus pattern (77 bp):
TCACATATCTTTCATATTTCATCATCAACTATCACAAAGCTCAAGCATTCATCAATGGCATTTCT
CAAATCATCAAC
Found at i:11004076 original size:31 final size:31
Alignment explanation
Indices: 11004038--11004099 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11004028 CTTACCGAAC
11004038 TTCGAATGTTAATTTACAAATATGTAATTCA
1 TTCGAATGTTAATTTACAAATATGTAATTCA
*
11004069 TTCGAATGTTAATTTACAAATATGTCATTCA
1 TTCGAATGTTAATTTACAAATATGTAATTCA
11004100 CTAACACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (31 bp):
TTCGAATGTTAATTTACAAATATGTAATTCA
Found at i:11018201 original size:33 final size:34
Alignment explanation
Indices: 11018153--11018221 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
11018143 ATACAACATG
* *
11018153 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCAATACAGTAA
* *
11018187 CAGT-ACAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCAATACAGTAA
11018220 CA
1 CA
11018222 ATGTGGGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGCCCAATACAGTAA
Found at i:11018228 original size:28 final size:27
Alignment explanation
Indices: 11018186--11018243 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
11018176 CTATTCAGTA
*
11018186 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAATGTGGGCCTTAGCCCAAT
11018213 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGT-ACAATGTGGGCCTTAGCCCAAT
11018241 ACA
1 ACA
11018244 ATATCGATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (27 bp):
ACAGTACAATGTGGGCCTTAGCCCAAT
Found at i:11018382 original size:26 final size:26
Alignment explanation
Indices: 11018353--11018407 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
11018343 AACACACCAA
*
11018353 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAACAAAGCTGCCAGTAACAG
* *
11018379 TATCGTAACAAAGCTGTCAGTAACAG
1 TATCGCAACAAAGCTGCCAGTAACAG
11018405 TAT
1 TAT
11018408 ACTTCCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAGTAACAG
Found at i:11018603 original size:27 final size:27
Alignment explanation
Indices: 11018573--11018981 Score: 412
Period size: 27 Copynumber: 15.3 Consensus size: 27
11018563 GGGTAAAATA
* *
11018573 GTCATTTTATCCTATAGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
11018600 GTCATTTTACCCTATGGGGGTAATTCA
1 GTCATTTTACCCTATGGGGGTAATTCG
* **
11018627 GTCATTTTACCCTAT-AGGGTAATTTA
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
11018653 GTCATTTTACCCTGT-GGGGTAATCCT
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
11018679 ATCATTTTACCCTATAGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
11018706 GTCATTTTACCTTGTGGGGGTAATTTG
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
11018733 GTCATTTTACCCT-CGGAGGGTAATTCA
1 GTCATTTTACCCTATGG-GGGTAATTCG
* *
11018760 ATCATTTGACCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* ** * * *
11018787 ATCATTTTAGGCTATAGGAGTAATACG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * * *
11018814 GTCATTTTACCCTGTGAGGGCAATACG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
11018841 ATTATTTTACCCTATGGGGGTAATACG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
11018868 GTCATTTTACCCTGTGGGGGTAATACT
1 GTCATTTTACCCTATGGGGGTAATTCG
* **
11018895 ATCATTTTACCCTATGGGGGTAATTTA
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
11018922 GTCATTTTACCCTGTGAGGATAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
11018949 GTCATTTTACCCTAT-GGGGTAATTCA
1 GTCATTTTACCCTATGGGGGTAATTCG
11018975 GTCATTT
1 GTCATTT
11018982 ATTGACCCCA
Statistics
Matches: 314, Mismatches: 65, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
26 60 0.19
27 252 0.80
28 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTAATTCG
Found at i:11026811 original size:22 final size:22
Alignment explanation
Indices: 11026767--11026811 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11026757 TTGATATTTT
* *
11026767 AAAAATTAAAATTGTACATATG
1 AAAAATTAAAATTGAACAAATG
*
11026789 AAAAATTAAAATTGAATAAATG
1 AAAAATTAAAATTGAACAAATG
11026811 A
1 A
11026812 GATGCATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
AAAAATTAAAATTGAACAAATG
Found at i:11031231 original size:22 final size:22
Alignment explanation
Indices: 11031188--11031232 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11031178 TTGTTTTATT
* *
11031188 ATTATTAAAGGTTATAATTAAA
1 ATTATAAAAGGTTATAAATAAA
11031210 ATTATAAAAGG-TATAAAATAAA
1 ATTATAAAAGGTTAT-AAATAAA
11031232 A
1 A
11031233 CAAACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATTATAAAAGGTTATAAATAAA
Found at i:11032230 original size:43 final size:43
Alignment explanation
Indices: 11032196--11032327 Score: 174
Period size: 43 Copynumber: 3.1 Consensus size: 43
11032186 TGATGTAGTC
* * *
11032196 TGTGTGCCAGTATAATTACTTCGACTTGTTCGATGATGCACTG
1 TGTGTGCTAGTATAATTAATTCGACTTGTTCGATGATGCACTA
* * * *
11032239 TGGGTGCTAGTATAATTAATTCGATTTTTTCGATAATGCACTA
1 TGTGTGCTAGTATAATTAATTCGACTTGTTCGATGATGCACTA
* * *
11032282 TGTGTGTTAGTATAATTATTTCGACTTGTCCGATGATGCACTA
1 TGTGTGCTAGTATAATTAATTCGACTTGTTCGATGATGCACTA
11032325 TGT
1 TGT
11032328 ATACCAGTAT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (43 bp):
TGTGTGCTAGTATAATTAATTCGACTTGTTCGATGATGCACTA
Found at i:11032364 original size:86 final size:86
Alignment explanation
Indices: 11032169--11032450 Score: 278
Period size: 86 Copynumber: 3.3 Consensus size: 86
11032159 GTACATGTTA
* * * * * *
11032169 TACTTCGGTTTATCCGATGATGTAGTCTGTGTGCCAGTATAATTACTTCGACTTGTTCGATGATG
1 TACTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATAATTATTTCGACTTGTCCGATGATG
** * *
11032234 CACTGTGGGTGCTAGTATAAT
66 CACTGTGTATGCCAGTATATT
* * * * **
11032255 TAATTCGATTTTTTCGATAATGCACTATGTGTGTTAGTATAATTATTTCGACTTGTCCGATGATG
1 TACTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATAATTATTTCGACTTGTCCGATGATG
* *
11032320 CACTATGTATACCAGTATATT
66 CACTGTGTATGCCAGTATATT
* * * * * * * *
11032341 TTCTTTGGTTTATCCAATGATGCACTACGCGTGCCAGTACAATTGTTTC-AGCTTGTCCGATGAT
1 TACTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATAATTATTTCGA-CTTGTCCGATGAT
* *
11032405 GAACTGTGTATGCCATTATATT
65 GCACTGTGTATGCCAGTATATT
* *
11032427 TCCTTCGATTTATCTGATGATGCA
1 TACTTCGATTTATCCGATGATGCA
11032451 TTACAGTGCT
Statistics
Matches: 154, Mismatches: 41, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
85 1 0.01
86 153 0.99
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (86 bp):
TACTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATAATTATTTCGACTTGTCCGATGATG
CACTGTGTATGCCAGTATATT
Found at i:11033180 original size:136 final size:136
Alignment explanation
Indices: 11033005--11033260 Score: 485
Period size: 136 Copynumber: 1.9 Consensus size: 136
11032995 TAGGTAGGTG
*
11033005 TTGATTACTAAGTCTATGTTAAAATTTGGTATACTAATTAGTTGAAAAATATATTTGAATTGATT
1 TTGATTACTAAGACTATGTTAAAATTTGGTATACTAATTAGTTGAAAAATATATTTGAATTGATT
11033070 ATTTGCATTTGAATAACATTTACATTATATTGAATTATAAAAATACCACTGAGTTGAAATAACCA
66 ATTTGCATTTGAATAACATTTACATTATATTGAATTATAAAAATACCACTGAGTTGAAATAACCA
11033135 AATGAA
131 AATGAA
* *
11033141 TTGATTACTAAGACTATGTTAAAATTTGGTGTATTAATTAGTTGAAAAATATATTTGAATTGATT
1 TTGATTACTAAGACTATGTTAAAATTTGGTATACTAATTAGTTGAAAAATATATTTGAATTGATT
11033206 ATTTGCATTTGAATAACATTTACATTATATTGAATTATAAAAATACCACTGAGTT
66 ATTTGCATTTGAATAACATTTACATTATATTGAATTATAAAAATACCACTGAGTT
11033261 TTATCACTCA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
136 117 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (136 bp):
TTGATTACTAAGACTATGTTAAAATTTGGTATACTAATTAGTTGAAAAATATATTTGAATTGATT
ATTTGCATTTGAATAACATTTACATTATATTGAATTATAAAAATACCACTGAGTTGAAATAACCA
AATGAA
Found at i:11043793 original size:31 final size:30
Alignment explanation
Indices: 11043697--11043798 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 30
11043687 TATGTGCCTA
* * *
11043697 AGGATCAAATTGATAGAATCTATAAATGTGG
1 AGGATCAAATTGATAGAAT-TATAAGTATTG
* * * * * *
11043728 AGGGTTAAATTTATTGAATTATTTAGAATT-
1 AGGATCAAATTGATAGAATTA-TAAGTATTG
11043758 AGGATCAAATTGATAGAATGTATAAGTATTG
1 AGGATCAAATTGATAGAAT-TATAAGTATTG
*
11043789 AGGATTAAAT
1 AGGATCAAAT
11043799 GTGTTACTAT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
30 23 0.44
31 29 0.56
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (30 bp):
AGGATCAAATTGATAGAATTATAAGTATTG
Found at i:11044069 original size:24 final size:24
Alignment explanation
Indices: 11044041--11044107 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
11044031 AAATTTTACC
*
11044041 AAATAATATCTAAAAGTC-ATATTA
1 AAATAA-ATCTAAAAATCTATATTA
*
11044065 AAATAAGTCTAAAAATCTATATTCCA
1 AAATAAATCTAAAAATCTATATT--A
* *
11044091 AAATCAATATAAAAATC
1 AAATAAATCTAAAAATC
11044108 GAGAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 9 0.26
24 11 0.31
26 15 0.43
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAAATCTAAAAATCTATATTA
Found at i:11044946 original size:17 final size:16
Alignment explanation
Indices: 11044923--11044970 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
11044913 TTAGGATTAA
11044923 GGTTTTATAGGTTTTAG
1 GGTTTTATAGG-TTTAG
*
11044940 TGTTTTAT-GGTTTAG
1 GGTTTTATAGGTTTAG
11044955 GGTTTTATAGGGTTTA
1 GGTTTTATA-GGTTTA
11044971 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 13 0.48
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (16 bp):
GGTTTTATAGGTTTAG
Found at i:11044959 original size:15 final size:17
Alignment explanation
Indices: 11044923--11044970 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
11044913 TTAGGATTAA
11044923 GGTTTTATAGGTTTTAG
1 GGTTTTATAGGTTTTAG
*
11044940 TGTTTTAT-GG-TTTAG
1 GGTTTTATAGGTTTTAG
*
11044955 GGTTTTATAGGGTTTA
1 GGTTTTATAGGTTTTA
11044971 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 4 0.15
17 11 0.41
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (17 bp):
GGTTTTATAGGTTTTAG
Found at i:11045035 original size:21 final size:22
Alignment explanation
Indices: 11044985--11045035 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
11044975 TTTTTTGTAT
11044985 TTTTTAAG-TTTTTTTATATAA
1 TTTTTAAGATTTTTTTATATAA
** *
11045006 GATTT-AGATTTTTTTATA-AC
1 TTTTTAAGATTTTTTTATATAA
11045026 TTTTTAAGAT
1 TTTTTAAGAT
11045036 ATAAAGTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (22 bp):
TTTTTAAGATTTTTTTATATAA
Found at i:11045082 original size:15 final size:15
Alignment explanation
Indices: 11045062--11045094 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11045052 TTTAATTCGA
11045062 TATTTACACCAATCG
1 TATTTACACCAATCG
*
11045077 TATTTACACCAATTG
1 TATTTACACCAATCG
11045092 TAT
1 TAT
11045095 ATTCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (15 bp):
TATTTACACCAATCG
Found at i:11046713 original size:16 final size:16
Alignment explanation
Indices: 11046689--11046728 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11046679 ACTATTTAAA
11046689 TAGCCGTTGGGAGGGG
1 TAGCCGTTGGGAGGGG
*
11046705 TAGCTGTTGGGAGGGG
1 TAGCCGTTGGGAGGGG
*
11046721 TAACCGTT
1 TAGCCGTT
11046729 ATTAAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.47, T:0.25
Consensus pattern (16 bp):
TAGCCGTTGGGAGGGG
Found at i:11048215 original size:29 final size:29
Alignment explanation
Indices: 11048189--11048252 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
11048179 ATATAAATTA
11048189 TTAAATTTTAATAAAAAATACAAAAATAT
1 TTAAATTTTAATAAAAAATACAAAAATAT
* * * * *
11048218 TTAAGTTTTATTAAAAATTAGAAAAAAAT
1 TTAAATTTTAATAAAAAATACAAAAATAT
11048247 TATAAA
1 T-TAAA
11048253 AATTGCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAATTTTAATAAAAAATACAAAAATAT
Found at i:11048252 original size:20 final size:20
Alignment explanation
Indices: 11048229--11048279 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
11048219 TAAGTTTTAT
11048229 TAAAAATT-AGAAAAAAATTA
1 TAAAAATTGA-AAAAAAATTA
11048249 TAAAAATTGCAAAAAAAATTA
1 TAAAAATTG-AAAAAAAATTA
11048270 TAAAATATTG
1 TAAAA-ATTG
11048280 TAGAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.29
21 15 0.54
22 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
TAAAAATTGAAAAAAAATTA
Found at i:11048279 original size:22 final size:21
Alignment explanation
Indices: 11048239--11048279 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
11048229 TAAAAATTAG
11048239 AAAAAAATTATAAAAATTGCA
1 AAAAAAATTATAAAAATTGCA
11048260 AAAAAAATTATAAAATATTG
1 AAAAAAATTATAAAA-ATTG
11048280 TAGAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAAAATTATAAAAATTGCA
Found at i:11066858 original size:31 final size:28
Alignment explanation
Indices: 11066804--11066860 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
11066794 CTGCACCAGA
11066804 TTATTTTATTTTAAAAAAATTAAATTAC
1 TTATTTTATTTTAAAAAAATTAAATTAC
*
11066832 TTATTTTAATTTTATTAATAAATTAAATT
1 TTATTTT-ATTTTA--AAAAAATTAAATT
11066861 TCTATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 6 0.24
31 12 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATTTTATTTTAAAAAAATTAAATTAC
Found at i:11070340 original size:15 final size:15
Alignment explanation
Indices: 11070320--11070349 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11070310 CCTAAGCAGA
11070320 AAAGAAAATAAACCT
1 AAAGAAAATAAACCT
11070335 AAAGAAAATAAACCT
1 AAAGAAAATAAACCT
11070350 CTCCACTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAGAAAATAAACCT
Found at i:11078246 original size:556 final size:556
Alignment explanation
Indices: 11077194--11078307 Score: 2228
Period size: 556 Copynumber: 2.0 Consensus size: 556
11077184 AAGCAAATAC
11077194 CACGATATGCCAAATTTCTTAAAGAGCTTTGCACCAACAAGCGAAAATTAACAGGTAATGAAAGG
1 CACGATATGCCAAATTTCTTAAAGAGCTTTGCACCAACAAGCGAAAATTAACAGGTAATGAAAGG
11077259 GTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGCCAGTAAAATGCAAGGATAG
66 GTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGCCAGTAAAATGCAAGGATAG
11077324 GGGCATGTTTGCAATACCATGCAAAATAGGCCATCTAGGAATTAAGAAGGCTATATGTGATCTAG
131 GGGCATGTTTGCAATACCATGCAAAATAGGCCATCTAGGAATTAAGAAGGCTATATGTGATCTAG
11077389 GGGCTTCTATAAATGTAATGCCGTATTCTATTTATGAATCACTTAACGCAGGTTTTTTGACAAAA
196 GGGCTTCTATAAATGTAATGCCGTATTCTATTTATGAATCACTTAACGCAGGTTTTTTGACAAAA
11077454 ACAGGTGTTATAATTCAATTGGCGGACAGGTCTGTTGTGCATCCAGAAGGAGTTCTTGAGGATGT
261 ACAGGTGTTATAATTCAATTGGCGGACAGGTCTGTTGTGCATCCAGAAGGAGTTCTTGAGGATGT
11077519 TTTGGTAAAAGCTAACGAGCTTATTTTCCCTGTAGATTTTTATGTGATCAAAATGGAGGAGGATA
326 TTTGGTAAAAGCTAACGAGCTTATTTTCCCTGTAGATTTTTATGTGATCAAAATGGAGGAGGATA
11077584 GCACTCTTGGATCTTCAGATCTCCTGTTGGGTCGACCATTCCTTAGTACAGCAAGTACTAAAATT
391 GCACTCTTGGATCTTCAGATCTCCTGTTGGGTCGACCATTCCTTAGTACAGCAAGTACTAAAATT
11077649 GATGTTCGAAGTGGAACTCTTACGATGGAGTTTGATGGGGAGATCGTAAGTTTAATGTCTACAAC
456 GATGTTCGAAGTGGAACTCTTACGATGGAGTTTGATGGGGAGATCGTAAGTTTAATGTCTACAAC
11077714 GCCATTAGCCATCCAAGCGAAATCTTGAGCGTAAAT
521 GCCATTAGCCATCCAAGCGAAATCTTGAGCGTAAAT
11077750 CACGATATGCCAAATTTCTTAAAGAGCTTTGCACCAACAAGCGAAAATTAACAGGTAATGAAAGG
1 CACGATATGCCAAATTTCTTAAAGAGCTTTGCACCAACAAGCGAAAATTAACAGGTAATGAAAGG
11077815 GTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGCCAGTAAAATGCAAGGATAG
66 GTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGCCAGTAAAATGCAAGGATAG
11077880 GGGCATGTTTGCAATACCATGCAAAATAGGCCATCTAGGAATTAAGAAGGCTATATGTGATCTAG
131 GGGCATGTTTGCAATACCATGCAAAATAGGCCATCTAGGAATTAAGAAGGCTATATGTGATCTAG
11077945 GGGCTTCTATAAATGTAATGCCGTATTCTATTTATGAATCACTTAACGCAGGTTTTTTGACAAAA
196 GGGCTTCTATAAATGTAATGCCGTATTCTATTTATGAATCACTTAACGCAGGTTTTTTGACAAAA
11078010 ACAGGTGTTATAATTCAATTGGCGGACAGGTCTGTTGTGCATCCAGAAGGAGTTCTTGAGGATGT
261 ACAGGTGTTATAATTCAATTGGCGGACAGGTCTGTTGTGCATCCAGAAGGAGTTCTTGAGGATGT
11078075 TTTGGTAAAAGCTAACGAGCTTATTTTCCCTGTAGATTTTTATGTGATCAAAATGGAGGAGGATA
326 TTTGGTAAAAGCTAACGAGCTTATTTTCCCTGTAGATTTTTATGTGATCAAAATGGAGGAGGATA
11078140 GCACTCTTGGATCTTCAGATCTCCTGTTGGGTCGACCATTCCTTAGTACAGCAAGTACTAAAATT
391 GCACTCTTGGATCTTCAGATCTCCTGTTGGGTCGACCATTCCTTAGTACAGCAAGTACTAAAATT
11078205 GATGTTCGAAGTGGAACTCTTACGATGGAGTTTGATGGGGAGATCGTAAGTTTAATGTCTACAAC
456 GATGTTCGAAGTGGAACTCTTACGATGGAGTTTGATGGGGAGATCGTAAGTTTAATGTCTACAAC
11078270 GCCATTAGCCATCCAAGCGAAATCTTGAGCGTAAAT
521 GCCATTAGCCATCCAAGCGAAATCTTGAGCGTAAAT
11078306 CA
1 CA
11078308 TATTTACATA
Statistics
Matches: 558, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
556 558 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (556 bp):
CACGATATGCCAAATTTCTTAAAGAGCTTTGCACCAACAAGCGAAAATTAACAGGTAATGAAAGG
GTGAATGTTGGTGAGAATGTATCTGCAGTGTTACAGCGGAAAATGCCAGTAAAATGCAAGGATAG
GGGCATGTTTGCAATACCATGCAAAATAGGCCATCTAGGAATTAAGAAGGCTATATGTGATCTAG
GGGCTTCTATAAATGTAATGCCGTATTCTATTTATGAATCACTTAACGCAGGTTTTTTGACAAAA
ACAGGTGTTATAATTCAATTGGCGGACAGGTCTGTTGTGCATCCAGAAGGAGTTCTTGAGGATGT
TTTGGTAAAAGCTAACGAGCTTATTTTCCCTGTAGATTTTTATGTGATCAAAATGGAGGAGGATA
GCACTCTTGGATCTTCAGATCTCCTGTTGGGTCGACCATTCCTTAGTACAGCAAGTACTAAAATT
GATGTTCGAAGTGGAACTCTTACGATGGAGTTTGATGGGGAGATCGTAAGTTTAATGTCTACAAC
GCCATTAGCCATCCAAGCGAAATCTTGAGCGTAAAT
Found at i:11078913 original size:19 final size:21
Alignment explanation
Indices: 11078889--11078933 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
11078879 CAACCCAATT
11078889 TTTATTTTTA-TTT-TTTTAC
1 TTTATTTTTATTTTATTTTAC
11078908 TTTA-TTTTATTTTATTTTAC
1 TTTATTTTTATTTTATTTTAC
11078928 -TTATTT
1 TTTATTT
11078934 GGATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATTTTATTTTAC
Found at i:11084152 original size:23 final size:23
Alignment explanation
Indices: 11084102--11084162 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
11084092 TGTCACATTT
* *
11084102 TGTAACACCTTTGTAGAGTACTC
1 TGTAACGCCTTTGTGGAGTACTC
* * *
11084125 GGTAACGCCTTTGTGGCGTATTC
1 TGTAACGCCTTTGTGGAGTACTC
*
11084148 TGTAATGCCTTTGTG
1 TGTAACGCCTTTGTG
11084163 TGGCATATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (23 bp):
TGTAACGCCTTTGTGGAGTACTC
Found at i:11087056 original size:35 final size:36
Alignment explanation
Indices: 11086983--11087062 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
11086973 TGATGATTGT
* * *
11086983 TGTGAAAGTGAATATGTGGGTATGTTATTCATGCCA
1 TGTGATAGTAAATATGTGGGTATGTTATTCATACCA
11087019 TGTGATAGTAAATATGTGGGTATGTT-TTCATACCA
1 TGTGATAGTAAATATGTGGGTATGTTATTCATACCA
*
11087054 TGTAATAGT
1 TGTGATAGT
11087063 TATTATAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 16 0.40
36 24 0.60
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (36 bp):
TGTGATAGTAAATATGTGGGTATGTTATTCATACCA
Found at i:11087506 original size:26 final size:26
Alignment explanation
Indices: 11087469--11087529 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
11087459 TGTGACTGAA
11087469 TGTGAT-TAAATAGGATTTATATGTGT
1 TGTGATAT-AATAGGATTTATATGTGT
11087495 TGTGATATAATAGGATTTATATGTGT
1 TGTGATATAATAGGATTTATATGTGT
*
11087521 AGTGATATA
1 TGTGATATA
11087530 TGCTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (26 bp):
TGTGATATAATAGGATTTATATGTGT
Done.