Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 74 of 135
Found at i:24646606 original size:67 final size:67
Alignment explanation
Indices: 24646498--24646629 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
24646488 AAAATGGGAG
* * *
24646498 ATTGTTAAATTAAGACTTATTGGATAATATGTTTAGATATAACAAATTAAAGTGTTTTTGAATAA
1 ATTGTTAAACTAAGACCTATTGGATAATATATTTAGATATAACAAATTAAAGTGTTTTTGAATAA
24646563 CA
66 CA
* *
24646565 ATTGTTAAACTAAGCCCTATTGGATAATATATTTTGATATAACAAATTAAAGTGTTTTTGAATAA
1 ATTGTTAAACTAAGACCTATTGGATAATATATTTAGATATAACAAATTAAAGTGTTTTTGAATAA
24646630 AAGTAAGGCA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (67 bp):
ATTGTTAAACTAAGACCTATTGGATAATATATTTAGATATAACAAATTAAAGTGTTTTTGAATAA
CA
Found at i:24646896 original size:11 final size:11
Alignment explanation
Indices: 24646880--24646905 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24646870 TCAGCAAATG
24646880 ATTTAAAATTA
1 ATTTAAAATTA
24646891 ATTTAAAATTA
1 ATTTAAAATTA
24646902 ATTT
1 ATTT
24646906 TTTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAAAATTA
Found at i:24647965 original size:38 final size:37
Alignment explanation
Indices: 24647914--24647993 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 37
24647904 AGATGAGATT
* *
24647914 AAAATTATTTAATAATTTTAATAATTTTATATTTCACA
1 AAAATAATATAATAATTTTAATAATTTTATATTTCA-A
*
24647952 AAAATAATATAATAATTTTAATAATTTTATATTTTAA
1 AAAATAATATAATAATTTTAATAATTTTATATTTCAA
24647989 AAAAT
1 AAAAT
24647994 TAATTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 6 0.15
38 33 0.85
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (37 bp):
AAAATAATATAATAATTTTAATAATTTTATATTTCAA
Found at i:24648434 original size:21 final size:21
Alignment explanation
Indices: 24648408--24648470 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
24648398 CAAACAATTA
24648408 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
* *
24648429 CAAAAAGTATTGATCCCTTTT
1 CAAAAAGTATCGATACCTTTT
*
24648450 CAAAAAGTACCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
24648471 ATCAAGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:24652724 original size:40 final size:40
Alignment explanation
Indices: 24652664--24652909 Score: 267
Period size: 40 Copynumber: 6.1 Consensus size: 40
24652654 TCTTACCATT
** * * *
24652664 TCACCGGCTTATAGCTTGCTAAGCCGGAGCTTGTATTTTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTTTA
* * * *
24652704 ACACCGACTCGTAGCCTGCTAAGTCGTAGCTTGTATTTTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTTTA
* * * *
24652744 ACACCGGCTGGTAGCTTGCTAAGCCGTAGCTTGTATTTTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTTTA
* * * *
24652784 TCACTGGCTTGTAGCCTGCTAAGCCATAACTTGAATTTCTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTT-TA
* * *
24652825 TCACCGGCACGTAGCCTACTAAGCTGTAGCTTGAATTTCTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTT-TA
* *
24652866 TCACCGGCACATAGCCTGCTAAGCCGTAGCTTGAATTTCTA
1 TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTT-TA
24652907 TCA
1 TCA
24652910 ATATAACTTA
Statistics
Matches: 177, Mismatches: 28, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
40 100 0.56
41 77 0.44
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (40 bp):
TCACCGGCTCGTAGCCTGCTAAGCCGTAGCTTGAATTTTA
Found at i:24655208 original size:22 final size:21
Alignment explanation
Indices: 24655176--24655261 Score: 109
Period size: 22 Copynumber: 4.0 Consensus size: 21
24655166 CAAATAATGA
24655176 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
* *
24655197 CAAAAATTTATCTATACCTTTT
1 CAAAAA-GTATCGATACCTTTT
*
24655219 ACAAAAAGTGTCGATACCTTTT
1 -CAAAAAGTATCGATACCTTTT
* *
24655241 CAAAAAGTATCAATACGTTTT
1 CAAAAAGTATCGATACCTTTT
24655262 ATCAGGTATC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.44
22 25 0.45
23 6 0.11
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:24669902 original size:14 final size:15
Alignment explanation
Indices: 24669883--24669915 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24669873 ACGCATTTCT
24669883 TTATTT-ACTTTCAG
1 TTATTTCACTTTCAG
*
24669897 TTATTTCACTTTTAG
1 TTATTTCACTTTCAG
24669912 TTAT
1 TTAT
24669916 GTTGTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (15 bp):
TTATTTCACTTTCAG
Found at i:24672213 original size:17 final size:18
Alignment explanation
Indices: 24672193--24672232 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24672183 TAAGTTTTAA
24672193 TGCATTTT-TATTATCAC
1 TGCATTTTATATTATCAC
* *
24672210 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTATCAC
24672228 TGCAT
1 TGCAT
24672233 CATTTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (18 bp):
TGCATTTTATATTATCAC
Found at i:24674684 original size:45 final size:44
Alignment explanation
Indices: 24674613--24674731 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 44
24674603 GCCCAATGCA
* * *
24674613 AAAAATGAGTAAAACCATTGTAGAAAGATGCTACGATATCATGAT
1 AAAAATGAGTAAGACCATAGT-GAAAGATGCTACGACATCATGAT
* * *
24674658 AAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGAT
1 AAAAATGAGTAAGACCATAG-TGAAAGATGCTACGACATCATGAT
* *
24674703 AGAAGATGAGTAAGACTATAGATGAAAGA
1 A-AAAATGAGTAAGACCATAG-TGAAAGA
24674732 CATTATGGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 38 0.60
46 25 0.40
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (44 bp):
AAAAATGAGTAAGACCATAGTGAAAGATGCTACGACATCATGAT
Found at i:24674729 original size:46 final size:45
Alignment explanation
Indices: 24674650--24674742 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 45
24674640 ATGCTACGAT
* **
24674650 ATCATGATAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGC
1 ATCATGATAAAAATGAGTAAGACCATAGATGAAAGACATTATGGC
* *
24674695 ATCATGATAGAAGATGAGTAAGACTATAGATGAAAGACATTATGGC
1 ATCATGATA-AAAATGAGTAAGACCATAGATGAAAGACATTATGGC
24674741 AT
1 AT
24674743 TAGGTGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 9 0.21
46 33 0.79
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (45 bp):
ATCATGATAAAAATGAGTAAGACCATAGATGAAAGACATTATGGC
Found at i:24674974 original size:183 final size:183
Alignment explanation
Indices: 24674666--24675070 Score: 756
Period size: 183 Copynumber: 2.2 Consensus size: 183
24674656 ATAAAAATGA
*
24674666 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGATAGAAGATGAGTAAGACTATAGATGAAAG
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGATAGAAGATGAGTAAGACCATAGATGAAAG
24674731 ACATTATGGCATTAGGTGAAAACACACCATAATAGTTAATTAGGACTAAGACCATCGCTGAAAGA
66 ACATTATGGCATTAGGTGAAAACACACCATAATAGTTAATTAGGACTAAGACCATCGCTGAAAGA
*
24674796 CGCTATGGCATCCTTTGGTATTCCGTCGAGATGGTAAATATGGGTTATACTGT
131 CGCTATGGCATCCTTTGGTATTCCGTCGAGATGGTAAATATGGGTTATACTAT
*
24674849 GTAAGACCATAGTTGAAAGATGTTATGGCATCATGATAGAAGATGAGTAAGACCATAGATGAAAG
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCATGATAGAAGATGAGTAAGACCATAGATGAAAG
24674914 ACATTATGGCATTAGGTGAAAACACACCATAATAGTTAATTAGGACTAAGACCATCGCTGAAAGA
66 ACATTATGGCATTAGGTGAAAACACACCATAATAGTTAATTAGGACTAAGACCATCGCTGAAAGA
24674979 CGCTATGGCATCCTTTGGTATTCCGTCGAGATGGTAAATATGGGTTATACTAT
131 CGCTATGGCATCCTTTGGTATTCCGTCGAGATGGTAAATATGGGTTATACTAT
* *
24675032 GTAAGACCATAGCTCAAAGACGTTATGGCATCATAGATA
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCAT-GATA
24675071 ATTTGTCGGG
Statistics
Matches: 215, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 211 0.98
184 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (183 bp):
GTAAGACCATAGCTGAAAGATGTTATGGCATCATGATAGAAGATGAGTAAGACCATAGATGAAAG
ACATTATGGCATTAGGTGAAAACACACCATAATAGTTAATTAGGACTAAGACCATCGCTGAAAGA
CGCTATGGCATCCTTTGGTATTCCGTCGAGATGGTAAATATGGGTTATACTAT
Found at i:24682231 original size:18 final size:18
Alignment explanation
Indices: 24682200--24682261 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
24682190 TTCTATAGGA
* *
24682200 TCTTCCTCAGGATCTTCT
1 TCTTCTTCAAGATCTTCT
24682218 TCTTCTTCAAGATCTTCT
1 TCTTCTTCAAGATCTTCT
*
24682236 TTTTCTTC-AGTATCTTCT
1 TCTTCTTCAAG-ATCTTCT
24682254 TCTTCTTC
1 TCTTCTTC
24682262 TTCTTCAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.11, C:0.29, G:0.06, T:0.53
Consensus pattern (18 bp):
TCTTCTTCAAGATCTTCT
Found at i:24683120 original size:8 final size:7
Alignment explanation
Indices: 24683106--24683156 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
24683096 AATTTAAAAT
24683106 AAATTAA
1 AAATTAA
24683113 AAAGTTAA
1 AAA-TTAA
24683121 TAAATTAAA
1 -AAATT-AA
24683130 TAAATTAA
1 -AAATTAA
24683138 AAATTAGA
1 AAATTA-A
24683146 AAA-TAA
1 AAATTAA
24683152 AAATT
1 AAATT
24683157 TCTTACCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.10
7 12 0.31
8 12 0.31
9 11 0.28
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:24683120 original size:26 final size:25
Alignment explanation
Indices: 24683091--24683140 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24683081 GTATAAAATA
*
24683091 TTAACAATTTAAAATAAATTAAAAAG
1 TTAACAAATT-AAATAAATTAAAAAG
*
24683117 TTAATAAATTAAATAAATTAAAAA
1 TTAACAAATTAAATAAATTAAAAA
24683141 TTAGAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
TTAACAAATTAAATAAATTAAAAAG
Found at i:24683122 original size:16 final size:16
Alignment explanation
Indices: 24683103--24683149 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
24683093 AACAATTTAA
*
24683103 AATAAATTAAAAAGTT
1 AATAAATTAAAAAATT
24683119 AATAAATTAAATAAATT
1 AATAAATTAAA-AAATT
*
24683136 AA-AAATTAGAAAAT
1 AATAAATTAAAAAAT
24683150 AAAAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAAATTAAAAAATT
Found at i:24683133 original size:9 final size:9
Alignment explanation
Indices: 24683102--24683138 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
24683092 TAACAATTTA
24683102 AAATAAATT
1 AAATAAATT
*
24683111 AAA-AAGTT
1 AAATAAATT
24683119 -AATAAATT
1 AAATAAATT
24683127 AAATAAATT
1 AAATAAATT
24683136 AAA
1 AAA
24683139 AATTAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 8 0.33
9 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:24683155 original size:25 final size:25
Alignment explanation
Indices: 24683100--24683153 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
24683090 ATTAACAATT
24683100 TAAAATAAATTAAAAAGTTAATAAA
1 TAAAATAAATTAAAAAGTTAATAAA
*
24683125 TTAAATAAATTAAAAA-TTAGA-AAA
1 TAAAATAAATTAAAAAGTTA-ATAAA
24683149 TAAAA
1 TAAAA
24683154 ATTTCTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (25 bp):
TAAAATAAATTAAAAAGTTAATAAA
Found at i:24683940 original size:29 final size:29
Alignment explanation
Indices: 24683881--24683937 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
24683871 GCTGTTTAAA
*
24683881 AATATTTACAGAAAAAGACAACTAATTTT
1 AATATTTACAGAAAAAGACAACCAATTTT
*
24683910 AATATTTACA-AAAATA-ACAACCACTTTT
1 AATATTTACAGAAAA-AGACAACCAATTTT
24683938 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.32
Consensus pattern (29 bp):
AATATTTACAGAAAAAGACAACCAATTTT
Found at i:24686734 original size:30 final size:29
Alignment explanation
Indices: 24686662--24686734 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
24686652 ATTAAATTTT
* *
24686662 TTAAAAAATATTTTTTAAAATATAAAATTA
1 TTAAATAAT-TTTTTTAAAAAATAAAATTA
*
24686692 TTAAAATTATTTTTTTGAAAAAATAAAATTA
1 TT-AAATAATTTTTTT-AAAAAATAAAATTA
24686723 TTAAATAATTTT
1 TTAAATAATTTT
24686735 AATTTACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTAAATAATTTTTTTAAAAAATAAAATTA
Found at i:24687504 original size:14 final size:14
Alignment explanation
Indices: 24687485--24687511 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24687475 GGGGAACAGA
24687485 AAAAAAAAACCCAG
1 AAAAAAAAACCCAG
24687499 AAAAAAAAACCCA
1 AAAAAAAAACCCA
24687512 TCGGAAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.22, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACCCAG
Found at i:24687581 original size:60 final size:62
Alignment explanation
Indices: 24687450--24687604 Score: 215
Period size: 60 Copynumber: 2.5 Consensus size: 62
24687440 ACAAATAAGA
* *
24687450 AAAAGGAAAATAAAAAGAAGGGGAAGGGGAACAGAAAAAAAAAACCCAGAAAAAAAAACCCATC
1 AAAAGGAAAATAAGAAGAAGGGGAAGGGGAACAG--AAAAAAAACCCAGAAAAAAAAACCCACC
** * *
24687514 GGAAGGAAAATAAGATGAAGGGGAAGGGGAACAG-AAAAAAATCCA-AAAAAAAAACCCACC
1 AAAAGGAAAATAAGAAGAAGGGGAAGGGGAACAGAAAAAAAACCCAGAAAAAAAAACCCACC
*
24687574 AAAAGGAAAATAAGAAGAAGGGGAAGAGGAA
1 AAAAGGAAAATAAGAAGAAGGGGAAGGGGAA
24687605 GGAGAAGGGG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 41 0.51
61 10 0.12
64 30 0.37
ACGTcount: A:0.61, C:0.10, G:0.25, T:0.04
Consensus pattern (62 bp):
AAAAGGAAAATAAGAAGAAGGGGAAGGGGAACAGAAAAAAAACCCAGAAAAAAAAACCCACC
Found at i:24687678 original size:11 final size:10
Alignment explanation
Indices: 24687655--24687696 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
24687645 ATATTTTAAA
*
24687655 AAATAATTCT
1 AAATAATTTT
24687665 AAATTAATTTT
1 AAA-TAATTTT
24687676 AAAATAATTTT
1 -AAATAATTTT
24687687 -AATAATTTT
1 AAATAATTTT
24687696 A
1 A
24687697 TACTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 9 0.32
10 3 0.11
11 13 0.46
12 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATAATTTT
Found at i:24687682 original size:22 final size:20
Alignment explanation
Indices: 24687654--24687696 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
24687644 TATATTTTAA
24687654 AAAATAATTCTAAATTAATTTT
1 AAAATAATT-TAAA-TAATTTT
*
24687676 AAAATAATTTTAATAATTTT
1 AAAATAATTTAAATAATTTT
24687696 A
1 A
24687697 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATAATTTAAATAATTTT
Found at i:24687694 original size:20 final size:20
Alignment explanation
Indices: 24687636--24687696 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
24687626 TGATGATTTT
24687636 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTT--AA
*
24687656 AATAATTCTAAATTAATTTTAA
1 AATAATT-TTAA-TAATTTTAA
24687678 AATAATTTTAATAATTTTA
1 AATAATTTTAATAATTTTA
24687697 TACTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 15 0.43
21 4 0.11
22 10 0.29
23 1 0.03
24 5 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATTTTAATAATTTTAA
Found at i:24691490 original size:15 final size:15
Alignment explanation
Indices: 24691447--24691483 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
24691437 TGTGAAGGAT
*
24691447 ATTAATCTAAAGT--
1 ATTAATCTAAACTAA
24691460 ATTAATCTAAACTAA
1 ATTAATCTAAACTAA
24691475 ATTAATCTA
1 ATTAATCTA
24691484 TATTAAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (15 bp):
ATTAATCTAAACTAA
Found at i:24694220 original size:216 final size:216
Alignment explanation
Indices: 24693699--24697082 Score: 4208
Period size: 216 Copynumber: 15.7 Consensus size: 216
24693689 TTCTCGTAAA
* * * * *
24693699 AATGGACCGTCTTGAATACTTTAAGGAACTGAAGTTAAAAAAGAACACATAAAAGTTTGTA-AAG
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTG-ACAAG
* * * * * *
24693763 TTTGAAACTTCGGCCAAGAACCAAGAGAAAAACAATTCTCACGTAAAAAAGCTTTTAATTCAAAG
65 TTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * * * * * *
24693828 ACCAAAAGTTGTTTACGAAATGACAAAATATTTAAACGAAATCATACAATTTCCCAAGCATGGAA
130 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
24693893 -GATT-GGAAAATTGCTCGAAGG
195 TG-TTCGAAAAATTGCTCGAAGG
* * * * *
24693914 AATGGATCGTCTTCAATACTTTAAGGAATCGAAGTTATAAAATAACTTGTAAAAGTTTGATAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * **
24693979 TTGAAAGTTCGGTCAAGAACCAAGAGAGATACAATTCTCATGTAAATAAAATTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * *
24694044 CCAGAAGTTGTTTACAAAATTACAAATTATTTAGACCAAATGATGTGATTTCCCAAGCTTGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * *
24694109 GTTCGAAAAATTGTTTGAAAG
196 GTTCGAAAAATTGCTCGAAGG
* *
24694130 AATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAATTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * *
24694195 TCGGAAGTTCAGCCAAGAACCAAGAGGGAAAAAATTCTCAAGTAACTAAGTTTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * *
24694260 CCAAAAGTTGATTACAAAATGACAAACTATTTAAACCAAATGATGCGATTTCCCAAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * ** *
24694325 GTTTGGAAAATAACTCAAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * *
24694346 AATGGATCGTCTTGAATAGTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAATTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * ** *
24694411 TCAGAAGTTCGACCAAGAACCAAGAGAGAAAC-ATTCTCGTGTAAAAAAGTTTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * * *
24694475 CC-AAAGTTTTTTACAAAATAACAAATTATTTAGACCAAATGTTGCAATTTCTCGAGCATAGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* *
24694539 GTTTGGAAAATTGCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * ** * * * * *
24694560 AATAGATCGTCATGAATACTTTAAGGAATTGAAGTTAAAAAAGAAATCGTAGAAGTCTGAAAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
** * * * *
24694625 TTAGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTTATTCAACGT
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * *
24694690 CAAAAAGTTGTTTTCGAAATGACAAACTATTTAGAACAAATGATGCGATTTCCTGAGCATCGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
24694755 GTTCGAAAAATTGCTCGAAAG
196 GTTCGAAAAATTGCTCGAAGG
* * ** *
24694776 AATGGATTGTCTTGAATACTTTAAGGAGCTAAAGTTATAAAAGAACTCGTAAAAGTTTGAGAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * *
24694841 TTGGAAGTTAGACCATGAACCAAGAGTGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
24694906 CCAAAAGCTGTTTACAAAATGACAAACTATTTAAACCAAATGATGCGATTTCTCAAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* *
24694971 GCTCGAAAAATTGCTTGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * *
24694992 AATGGATCATCTTGAATACTTTAAGGAACTGAACTTATAAAAGAACTCGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * *
24695057 TCGGAAGTTCGACCAAGAACCAAGAGGGAAAAAATTCTCATGTAAATAAGTTTTTAGTTGAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
24695122 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
24695187 GTTTGAAAAATTGCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
*
24695208 AATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * *
24695273 TCAGAAGTTCGGCCAAGAACC-A-AGAGAAACAATTCTCATGCAAATAAGATTTTAATTCATAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
*
24695336 CCAAAAGTTGTTTACAAAATAACAAACTATTTAGACCAAATGAT--G------C-A--AT--AAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
24695388 GTTCGAAAAATTTCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * * * * *
24695409 AATGAATCGTCCTGAATACTTTAAGGAATCGAAGTTATAAAAGAAATCGTAAAAGTCTGAAAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * *
24695474 TCGAAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAACAAGTTTTTTATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * *
24695539 CCAAAAGTTGTTTACAAAATGAGAACCTATTTAGACCAAATAATGCTATTTTCCGAGCATCGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
24695604 GTTCGAAAAATTGCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * * * * *
24695625 AATAGATCATCTAGAATACTTTGAGGAATCGAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * *
24695690 TCGGAAGTTCGGTCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAACTTTTTAAATCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* **
24695755 CCAAAAGTTGTTTACAAAATGACAAACTATTTACACCAAATGATGCGATTTCTTGAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
24695820 GTTCCAAAAATTGCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * * *
24695841 AATGGATTGTCTTGAATACTTTAAGGAACTGGAGTTATAAAAGAACTTGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * *
24695906 TTGGAAGTTCAGCCAAGAACCAAGAGAGAAACAATTCTCCCGTAAGTAAGTTTTTAATTCATAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * *
24695971 CTAAAAGTTGTTTATAAAATGGA-AAACTATTTAGACTAAATGATGTGATATCCTGAGCATGGAA
131 CCAAAAGTTGTTTACAAAAT-GACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
* *
24696035 TGTTCAAAAAATTGCTCAAAGG
195 TGTTCGAAAAATTGCTCGAAGG
* * * * *
24696057 AATGAATCGCCTTGAATTCTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * *
24696122 TCGGAAGTTCAGCCAAGAACCAAAAGAGAAAAAATTCTCACGTAAATAAGGTTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* ** * * *
24696187 CCAAAAGTAGAATACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCTCTAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
24696252 GTTCGGAAAAA-TGCTCGAAGG
196 GTTC-GAAAAATTGCTCGAAGG
* * * * * * * *
24696273 AATAGATAGTTTTCAATTCTTTAAGGAACCGGAGTTATAAAAGAACTCGTAAAGGTTTGACATGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * *
24696338 TCGGATGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
24696403 CCAATAGTTGTTTACAAAATGATAAGCTATTTAGACCGAATGATGCGATTTCCCGAGCATGGAAT
131 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* *
24696468 GTTTGGAAAATTGCTCGAAGG
196 GTTCGAAAAATTGCTCGAAGG
* * * *
24696489 AATGGATCGTCTTGAATACTTTAAGGATCCAAAGTTATAAAAGAACTCGTAAAAGTTTGGCATGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * ** * * * *
24696554 TCGTAAATTTGACCAAGAACTTAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAAATCAAAAA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
24696619 CCAAAGGTTGTTTACAAAATGAGAATCTATTTAAGACCGAATGATGCGATTTCCCGAGCATGGAA
131 CCAAAAGTTGTTTACAAAATGACAAACTATTT-AGACCAAATGATGCGATTTCCCGAGCATGGAA
*
24696684 TGTTCGAAAAATTGCTCGATGG
195 TGTTCGAAAAATTGCTCGAAGG
* * * * *
24696706 AATGG-GCTGTCTTGAATACTTTAAAGAACCGAAGTTATAAAAGAACACATAAAAGTTTGACAAT
1 AATGGATC-GTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
** * * *
24696770 TTCAAAAGTTCGACCAAGAACCAAGAGAGAAA-ATATTCTCACGTAAATAAGTGTTTAATTCAGA
65 TTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAA
** * * * * ***
24696834 GAAAAAAAGTTTTTTACAAACTGGCAAACTATTTAGACCAAATGATGCGATTTCCTGAGCACAAA
129 GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGA
24696899 ATGTTC-AGAAAATTGCTCGAAGG
194 ATGTTCGA-AAAATTGCTCGAAGG
*
24696922 AATGGATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
1 AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
** * * * **
24696987 TCAAAAGTTCGACCAAGAGCCAAGAGAGAAACAATTCTCACGCAAATAAAATTTTAATTCAAAGA
66 TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* *
24697052 CCAAAAGTTGTTAACAAAATAACAAACTATT
131 CCAAAAGTTGTTTACAAAATGACAAACTATT
24697083 AGTACATCCT
Statistics
Matches: 2724, Mismatches: 415, Indels: 59
0.85 0.13 0.02
Matches are distributed among these distances:
201 99 0.04
202 1 0.00
203 77 0.03
205 1 0.00
206 1 0.00
211 1 0.00
212 2 0.00
214 233 0.09
215 232 0.09
216 1888 0.69
217 189 0.07
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (216 bp):
AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
TCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
GTTCGAAAAATTGCTCGAAGG
Found at i:24695816 original size:849 final size:850
Alignment explanation
Indices: 24693706--24697082 Score: 4234
Period size: 849 Copynumber: 3.9 Consensus size: 850
24693696 AAAAATGGAC
* * * *
24693706 CGTCTTGAATACTTTAAGGAA-CTGAAGTTAAAAAAGAACA-CATAAAAGTTTGTAAAGTTTGAA
1 CGTCTTGAATACTTTAAGGAATC-GAAGTTAAAAAAGAA-ATCGTAAAAGTCTGAAAAGTTCGAA
* * * * *
24693769 ACTTCGGCCAAGAACCAAGAGAAAAACAATTCTCACGTAAAAAAGCTTTTAATTCAAAGACCAAA
64 AGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * * * * * *
24693834 AGTTGTTTACGAAATGACAAAATATTTAAACGAAATCATACAATTTCCCAAGCATGGAA-GATT-
129 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATCGAATG-TTC
* * * * *
24693897 GGAAAATTGCTCGAAGGAATGGATCGTCTTCAATACTTTAAGGAATCGAAGTTATAAAATAACTT
193 GAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG-ATCAAAGTTATAAAAGAACTC
* * * ** *
24693962 GTAAAAGTTTGATAAGTTTGAAAGTTCGGTCAAGAACCAAGAGAGATACAATTCTCATGTAAATA
257 GTAAAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCATGTAAATA
** * * * * *
24694027 AAATTTTAATTCAAAGACCAGAAGTTGTTTACAAAATTACAAATTATTTAGACCAAATGATGTGA
322 AGTTTTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * *
24694092 TTTCCCAAGCTTGGAATGTTCGAAAAATTGTTTGAAAGAATGGATCGTCTTGAATACTTTAAGGA
387 TTTCCCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * *
24694157 ACCAAAGTTATAAAAGAACTCGTAAAAATTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGG
452 ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGA
* * *
24694222 GAAAAAATTCTCAAGTAACTAAGTTTTTAATTCAAAGACCAAAAGTTGATTACAAAATGACAAAC
517 GAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
* * * **
24694287 TATTTAAACCAAATGATGCGATTTCCCAAGCATGGAATGTTTGGAAAATAACTCAAAGGAATGGA
582 TATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGA
* *
24694352 TCGTCTTGAATAGTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAATTTGACAAGTTCAGAA
647 TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAGAA
** * * *
24694417 GTTCGACCAAGAACCAAGAGAGAAAC-ATTCTCGTGTAAAAAAGTTTTTAATTCAAAGACC-AAA
712 GTTCGACCAAGAACCAA-AGAGAAACAATTCTCACGCAAATAAGATTTTAATTCAAAGACCAAAA
* * * * *
24694480 GTTTTTTACAAAATAACAAATTATTTAGACCAAATGTTGCAATTTCTCGAGCATAGAATGTTTGG
776 GTTGTTTACAAAATAACAAACTATTTAGACCAAA---TG--A--T-GC-A-CAT--AATGTTCGA
24694545 AAAATTGCTCGAAGGAATAGAT
829 AAAATTGCTCGAAGGAATAGAT
* * * *
24694567 CGTCATGAATACTTTAAGGAATTGAAGTTAAAAAAGAAATCGTAGAAGTCTGAAAAGTT-TAGAA
1 CGTCTTGAATACTTTAAGGAATCGAAGTTAAAAAAGAAATCGTAAAAGTCTGAAAAGTTCGA-AA
* * * *
24694631 GTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTTATTCAACGTCAAAAA
65 GTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * * *
24694696 GTTGTTTTCGAAATGACAAACTATTTAGAACAAATGATGCGATTTCCTGAGCATCGAATGTTCGA
130 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATCGAATGTTCGA
* * *
24694761 AAAATTGCTCGAAAGAATGGATTGTCTTGAATACTTTAAGGAGCTAAAGTTATAAAAGAACTCGT
195 AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGATC-AAAGTTATAAAAGAACTCGT
* * * * * **
24694826 AAAAGTTTGAGAAGTTTGGAAGTTAGACCATGAACCAAGAGTGAAACAATTCTCACATAAATAAG
259 AAAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAG
* * *
24694891 TTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAACTATTTAAACCAAATGATGCGATT
324 TTTTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
* * * *
24694956 TCTCAAGCATGGAATGCTCGAAAAATTGCTTGAAGGAATGGATCATCTTGAATACTTTAAGGAAC
389 TCCCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * *
24695021 TGAACTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTC-GACCAAGAACCAAGAGGG
454 CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAG-CCAAGAACCAAGAGAG
* * *
24695085 AAAAAATTCTCATGTAAATAAGTTTTTAGTTGAAAGACCAAAAGTTGTTTACAAAATGACAAACT
518 AAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT
*
24695150 ATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGAT
583 ATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGAT
* *
24695215 TGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAG
648 CGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAGAAG
* * *
24695280 TTCGGCCAAGAACC-AAGAGAAACAATTCTCATGCAAATAAGATTTTAATTCATAGACCAAAAGT
713 TTCGACCAAGAACCAAAGAGAAACAATTCTCACGCAAATAAGATTTTAATTCAAAGACCAAAAGT
*
24695344 TGTTTACAAAATAACAAACTATTTAGACCAAATGATGCA-ATAATGTTCGAAAAATTTCTCGAAG
778 TGTTTACAAAATAACAAACTATTTAGACCAAATGATGCACATAATGTTCGAAAAATTGCTCGAAG
24695408 GAAT-GAAT
843 GAATAG-AT
* *
24695416 CGTCCTGAATACTTTAAGGAATCGAAGTTATAAAAGAAATCGTAAAAGTCTGAAAAGTTCGAAAG
1 CGTCTTGAATACTTTAAGGAATCGAAGTTAAAAAAGAAATCGTAAAAGTCTGAAAAGTTCGAAAG
* *
24695481 TTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAACAAGTTTTTTATTCAAAGACCAAAAG
66 TTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAG
* * * * *
24695546 TTGTTTACAAAATGAGAACCTATTTAGACCAAATAATGCTATTTTCCGAGCATCGAATGTTCGAA
131 TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATCGAATGTTCGAA
* * * * * *
24695611 AAATTGCTCGAAGGAATAGATCATCTAGAATACTTTGAGGAATCGAAGTTATAAAAGAATTCGTA
196 AAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG-ATCAAAGTTATAAAAGAACTCGTA
** *
24695676 AAAGTTTGACAAGTTCGGAAGTTCGGTCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAACT
260 AAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGT
*
24695741 TTTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTACACCAAATGATGCGATTT
325 TTTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT
*** * * *
24695806 CTTGAGCATGGAATGTTCCAAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAACT
390 CCCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC
* * *
24695871 GGAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTTTGGAAGTTCAGCCAAGAACCAAGAGAGAA
455 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGAGAA
* * * * * *
24695936 ACAATTCTCCCGTAAGTAAGTTTTTAATTCATAGACTAAAAGTTGTTTATAAAATGGA-AAACTA
520 AAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT-GACAAACTA
* * * * ** *
24696000 TTTAGACTAAATGATGTGATATCCTGAGCATGGAATGTTCAAAAAATTGCTCAAAGGAATGAATC
584 TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGATC
* * * *
24696065 GCCTTGAATTCTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGGAAGT
649 GTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAGAAGT
* * *
24696130 TC-AGCCAAGAACCAAAAGAGAAAAAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAAAG
714 TCGA-CCAAGAACC-AAAGAGAAACAATTCTCACGCAAATAAGATTTTAATTCAAAGACCAAAAG
* ** *
24696194 TAGAATACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCTCTAGCATGGAATGTTCGGA
777 TTGTTTACAAAATAACAAACTATTTAGACCAAATGATG--------C-A-CAT--AATGTTC-GA
24696259 AAAA-TGCTCGAAGGAATAGAT
829 AAAATTGCTCGAAGGAATAGAT
* * * * * * * * * * * * * *
24696280 AGTTTTCAATTCTTTAAGGAACCGGAGTTATAAAAGAACTCGTAAAGGTTTGACATGTTCGGATG
1 CGTCTTGAATACTTTAAGGAATCGAAGTTAAAAAAGAAATCGTAAAAGTCTGAAAAGTTCGAAAG
* *
24696345 TTCGGCCAAGAACCAAGAGAGAAACAATTCTCACA-TAAATAAGTTTTTAACTCAAAGACCAATA
66 TTCGGCCAAGAACCAAGAGAGAAACAATTCTCA-AGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * * * * *
24696409 GTTGTTTACAAAATGATAAGCTATTTAGACCGAATGATGCGATTTCCCGAGCATGGAATGTTTGG
130 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATCGAATGTTCGA
24696474 AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGATCCAAAGTTATAAAAGAACTCGT
195 AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAT-CAAAGTTATAAAAGAACTCGT
* * * * * ** *
24696539 AAAAGTTTGGCATGTTCGTAAATTTGACCAAGAACTTAGAAAGAAACAATTCTCATGTAAATAAG
259 AAAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAG
* * * * *
24696604 TTTTTAAATCAAAAACCAAAGGTTGTTTACAAAATGAGAATCTATTTAAGACCGAATGATGCGAT
324 TTTTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-AGACCAAATGATGCGAT
* * * *
24696669 TTCCCGAGCATGGAATGTTCGAAAAATTGCTCGATGGAATGG-GCTGTCTTGAATACTTTAAAGA
388 TTCCCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATC-GTCTTGAATACTTTAAGGA
* * * **
24696733 ACCGAAGTTATAAAAGAACACATAAAAGTTTGACAATTTCAAAAGTTC-GACCAAGAACCAAGAG
452 ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAG-CCAAGAACCAAGAG
* * * ** * * *
24696797 AGAAAATATTCTCACGTAAATAAGTGTTTAATTCAGAGAAAAAAAGTTTTTTACAAACTGGCAAA
516 AGAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* *** * *
24696862 CTATTTAGACCAAATGATGCGATTTCCTGAGCACAAAATG-TTCAGAAAATTGCTCGAAGGAATG
581 CTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGA-AAAATTGCTCAAAGGAATG
* * *
24696926 GATCGTCTTAAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAA
645 GATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAG
* *
24696991 AAGTTCGACCAAGAGCCAAGAGAGAAACAATTCTCACGCAAATAAAATTTTAATTCAAAGACCAA
710 AAGTTCGACCAAGAACCAA-AGAGAAACAATTCTCACGCAAATAAGATTTTAATTCAAAGACCAA
*
24697056 AAGTTGTTAACAAAATAACAAACTATT
774 AAGTTGTTTACAAAATAACAAACTATT
24697083 AGTACATCCT
Statistics
Matches: 2194, Mismatches: 281, Indels: 78
0.86 0.11 0.03
Matches are distributed among these distances:
848 1 0.00
849 666 0.30
850 6 0.00
851 80 0.04
853 1 0.00
854 1 0.00
855 1 0.00
857 1 0.00
859 3 0.00
860 11 0.01
861 190 0.09
862 516 0.24
863 2 0.00
864 345 0.16
865 369 0.17
866 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (850 bp):
CGTCTTGAATACTTTAAGGAATCGAAGTTAAAAAAGAAATCGTAAAAGTCTGAAAAGTTCGAAAG
TTCGGCCAAGAACCAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAAG
TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATCGAATGTTCGAA
AAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGATCAAAGTTATAAAAGAACTCGTAA
AAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTT
TTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
CCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCG
AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGAGAAA
AAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATT
TAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGATCGT
CTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAGAAGTTC
GACCAAGAACCAAAGAGAAACAATTCTCACGCAAATAAGATTTTAATTCAAAGACCAAAAGTTGT
TTACAAAATAACAAACTATTTAGACCAAATGATGCACATAATGTTCGAAAAATTGCTCGAAGGAA
TAGAT
Found at i:24703576 original size:24 final size:23
Alignment explanation
Indices: 24703521--24703591 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
24703511 CCATTTAACT
*
24703521 TAATCGAACATGTTCACGAGCAA
1 TAATCGAACATGTTCACGAACAA
* *
24703544 TAAACGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACA-A
* *
24703568 TAATTGAACATATTCACGAACAA
1 TAATCGAACATGTTCACGAACAA
24703591 T
1 T
24703592 GTTAATGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (23 bp):
TAATCGAACATGTTCACGAACAA
Found at i:24704291 original size:20 final size:21
Alignment explanation
Indices: 24704252--24704291 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24704242 AGATCTTCGG
*
24704252 CTTTCCTCGTCGCTTCTCCCA
1 CTTTCCTCGTCGCATCTCCCA
*
24704273 CTTTCTTCGTC-CATCTCCC
1 CTTTCCTCGTCGCATCTCCC
24704292 TAAGACATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.05, C:0.47, G:0.07, T:0.40
Consensus pattern (21 bp):
CTTTCCTCGTCGCATCTCCCA
Found at i:24705478 original size:31 final size:29
Alignment explanation
Indices: 24705442--24705509 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
24705432 GATTAAATCA
*
24705442 AAATTAATGTTTCAAGTATACATTTGAACC
1 AAATTAA-GTTTCAAGTATACAATTGAACC
* * *
24705472 ACAATTAGAGTTTCACGTATATAATTGCACC
1 A-AATTA-AGTTTCAAGTATACAATTGAACC
24705503 AAATTAA
1 AAATTAA
24705510 AGCTCATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.03
30 6 0.19
31 24 0.75
32 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (29 bp):
AAATTAAGTTTCAAGTATACAATTGAACC
Found at i:24706154 original size:15 final size:16
Alignment explanation
Indices: 24706136--24706173 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
24706126 TTATCAATTC
24706136 AAATATT-ATAATAAA
1 AAATATTAATAATAAA
24706151 AAATATTCAAATAATAAA
1 AAATATT--AATAATAAA
24706169 AAATA
1 AAATA
24706174 CATTTCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
18 13 0.65
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATTAATAATAAA
Found at i:24710271 original size:152 final size:151
Alignment explanation
Indices: 24710005--24710293 Score: 470
Period size: 152 Copynumber: 1.9 Consensus size: 151
24709995 ATTTTTCTCT
* * * * *
24710005 AATCAACTAGTCATTACCCCAGTTGGATCTCTCGATTTTTTTCCAGCATAGCAAGACGATAGAGA
1 AATCAACTAGTCACTACCACAGTTGGATCTCTCAATCTTTTGCCAGCATAGCAAGACGATAGAGA
*
24710070 CTACTTATCGCTAGATGTCACACTCTAAATCGGTTTAGGGAAAAGGTTTTCACGGATGGGCAATA
66 CTACTTATCGCTAGATGTCACACTCTAAATCGATTTAGGGAAAAGGTTTTCACGGAT-GGCAATA
*
24710135 CTAATTTTTAGGATTTTCCTTC
130 CCAATTTTTAGGATTTTCCTTC
* *
24710157 AATCAACTAGTCACTATCATAGTTGGATCTCTCAATCTTTTGCCAGCATAGCAAGACGATAGAGA
1 AATCAACTAGTCACTACCACAGTTGGATCTCTCAATCTTTTGCCAGCATAGCAAGACGATAGAGA
* *
24710222 TTACTTATCGCTAGATGTCACACTCTAAATCGATTTGGGGAAAAGGTTTTCACGGATGGCAATAC
66 CTACTTATCGCTAGATGTCACACTCTAAATCGATTTAGGGAAAAGGTTTTCACGGATGGCAATAC
24710287 CAATTTT
131 CAATTTT
24710294 GGGTTCATTC
Statistics
Matches: 126, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
151 14 0.11
152 112 0.89
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (151 bp):
AATCAACTAGTCACTACCACAGTTGGATCTCTCAATCTTTTGCCAGCATAGCAAGACGATAGAGA
CTACTTATCGCTAGATGTCACACTCTAAATCGATTTAGGGAAAAGGTTTTCACGGATGGCAATAC
CAATTTTTAGGATTTTCCTTC
Found at i:24711061 original size:22 final size:21
Alignment explanation
Indices: 24711022--24711062 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24711012 TATTTAAAAG
**
24711022 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGAAAAATCT
24711043 ATAAAAACATAAGGAAAAAT
1 ATAAAAAC-TAAGGAAAAAT
24711063 ACTTGATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGAAAAATCT
Found at i:24711671 original size:21 final size:22
Alignment explanation
Indices: 24711647--24711688 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24711637 TCCCATTCCA
*
24711647 TCTCACCCCTT-TATTTCTCTT
1 TCTCACACCTTCTATTTCTCTT
*
24711668 TCTCACACCTTCTTTTTCTCT
1 TCTCACACCTTCTATTTCTCT
24711689 CCTTTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (22 bp):
TCTCACACCTTCTATTTCTCTT
Found at i:24736851 original size:17 final size:17
Alignment explanation
Indices: 24736812--24736856 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
24736802 TGATATATGG
**
24736812 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
24736829 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
24736846 AAATGCAATGA
1 AAATGCAATGA
24736857 GAAAGGAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:24741022 original size:37 final size:37
Alignment explanation
Indices: 24740967--24741039 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
24740957 TAATGTAGCT
* **
24740967 ACATGAGCACTTCTAGATTGTGCCCAAAACTGTCGCC
1 ACATGAGCACTTCCAGATTGCACCCAAAACTGTCGCC
24741004 ACATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
1 ACATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
24741040 TATAGGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
ACATGAGCACTTCCAGATTGCACCCAAAACTGTCGCC
Found at i:24741087 original size:37 final size:38
Alignment explanation
Indices: 24741015--24741128 Score: 103
Period size: 38 Copynumber: 3.0 Consensus size: 38
24741005 CATGAGCACT
* * *
24741015 TCCAGATTGCACCCAAAACTGTCGCT--ATAGGAATATT-
1 TCCAAATTGCACCCAGAACTATCGCTGCATA--AATATTC
24741052 TCCGAAA-TGCACCCA-AGACTATCGCTGCATAAATATTC
1 TCC-AAATTGCACCCAGA-ACTATCGCTGCATAAATATTC
* * *
24741090 TTCAAATTGCATCCAGAACTATCGCTGCATAAGTATTC
1 TCCAAATTGCACCCAGAACTATCGCTGCATAAATATTC
24741128 T
1 T
24741129 TCAATTGGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
36 1 0.02
37 28 0.43
38 32 0.49
39 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (38 bp):
TCCAAATTGCACCCAGAACTATCGCTGCATAAATATTC
Found at i:24741187 original size:26 final size:26
Alignment explanation
Indices: 24741131--24741188 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
24741121 AGTATTCTTC
*
24741131 AATTGGTCGCTGCATGAACATGTACAG
1 AATT-GTCGCTGCATGAACATGTACAA
* *
24741158 AATTGTCGCTGCATGAACGTGTCCAA
1 AATTGTCGCTGCATGAACATGTACAA
24741184 AATTG
1 AATTG
24741189 CGCCTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (26 bp):
AATTGTCGCTGCATGAACATGTACAA
Found at i:24743594 original size:12 final size:12
Alignment explanation
Indices: 24743577--24743601 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24743567 TCTTGTGGAG
24743577 GAAGAAAAAGAT
1 GAAGAAAAAGAT
24743589 GAAGAAAAAGAT
1 GAAGAAAAAGAT
24743601 G
1 G
24743602 TCGAGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (12 bp):
GAAGAAAAAGAT
Found at i:24744583 original size:22 final size:20
Alignment explanation
Indices: 24744546--24744586 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
24744536 TCAATCACAT
24744546 AAAAAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAAAAGAAAAG
*
24744566 AAAAGAAAAAGAACAAGAAAA
1 AAAA-AAAAA-AAAAAGAAAA
24744587 ATATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAGAAAAG
Found at i:24749492 original size:88 final size:88
Alignment explanation
Indices: 24749309--24749494 Score: 268
Period size: 89 Copynumber: 2.1 Consensus size: 88
24749299 AAAAAATCGG
* * * *
24749309 GGGCTTAATTTCTTTTTTTGAAAAAGTTTGAGGGTTTTTTATGCATTTTGAAAGTTTAAGTACCC
1 GGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGATTTTTTATACATTTTGAAAGTTCAAGTACCC
*
24749374 AATTGAGTGCAAAATAAAAGCAA
66 AAGTGAGTGCAAAATAAAAGCAA
*
24749397 TGGCTTAATTAC-TTTTTTGAAAAAGTTTGAGGATATTTTTTATACATTTTGAAAGTTCAAGTAC
1 GGGCTTAATTACTTTTTTTGAAAAAGTTTGAGG--ATTTTTTATACATTTTGAAAGTTCAAGTAC
* *
24749461 CCAAGTGAGTGCAAGA-AAAAGTAA
64 CCAAGTGAGTGCAAAATAAAAGCAA
24749485 GGGCTTAATT
1 GGGCTTAATT
24749495 TTTTTGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 20 0.23
88 26 0.30
89 41 0.47
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (88 bp):
GGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGATTTTTTATACATTTTGAAAGTTCAAGTACCC
AAGTGAGTGCAAAATAAAAGCAA
Found at i:24750248 original size:58 final size:57
Alignment explanation
Indices: 24750157--24750319 Score: 164
Period size: 58 Copynumber: 2.8 Consensus size: 57
24750147 AAATACGAAT
* * *
24750157 AAAAATTATTTTTTTGGATGTTGGTCAAGCCATGGTTGACACCCAATTTTTCAGATACC
1 AAAAA-TATTTTTTTGGGTGTT-GCCAACCCATGGTTGACACCCAATTTTTCAGATACC
* ** * * *
24750216 AAAAATATTTTTTTGGGTGTCTGCCAACCCATGATTGACACCCTCTTTTTCGGGTCCC
1 AAAAATATTTTTTTGGGTGT-TGCCAACCCATGGTTGACACCCAATTTTTCAGATACC
* * **
24750274 AAAAATATTTTTTTCGGGTGTTTGCTAACTCATGGCCGACACCCAA
1 AAAAATATTTTTTT-GGGTG-TTGCCAACCCATGGTTGACACCCAA
24750320 AATGAAATTG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 56 0.66
59 28 0.33
60 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (57 bp):
AAAAATATTTTTTTGGGTGTTGCCAACCCATGGTTGACACCCAATTTTTCAGATACC
Found at i:24750507 original size:59 final size:59
Alignment explanation
Indices: 24750365--24750528 Score: 168
Period size: 59 Copynumber: 2.7 Consensus size: 59
24750355 TTCAAGTCCC
** * * * * *
24750365 AAAAATATATTTTTTATAAGTGTTTGTCAACCCATGGCCGACATCCAGCCAAAATATGAAT
1 AAAAA-ATATTTTTT-TTGGTGTTTGACAACCAATGGCCGACACCCAGCAAAAATACGAAT
* * *
24750426 AAAAAATTAATTTTTTTGGTGTTTGACAACCAATGGTCGACACCCA-TAAAAATACGAATT
1 AAAAAA-TATTTTTTTTGGTGTTTGACAACCAATGGCCGACACCCAGCAAAAATACGAA-T
** *
24750486 AAAAAATATTTTTTTTGGTGTTTGGTAACCAATGACCGACACC
1 AAAAAATATTTTTTTTGGTGTTTGACAACCAATGGCCGACACC
24750529 AAATTTCTCT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
59 41 0.48
60 33 0.38
61 12 0.14
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (59 bp):
AAAAAATATTTTTTTTGGTGTTTGACAACCAATGGCCGACACCCAGCAAAAATACGAAT
Found at i:24752320 original size:18 final size:19
Alignment explanation
Indices: 24752279--24752324 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
24752269 TTTATTTTTA
24752279 AAAAAATATTTCGAAAATG
1 AAAAAATATTTCGAAAATG
*
24752298 TAAAAATATTTCGAAAAT-
1 AAAAAATATTTCGAAAATG
24752316 AAAAAATAT
1 AAAAAATAT
24752325 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (19 bp):
AAAAAATATTTCGAAAATG
Found at i:24752343 original size:31 final size:30
Alignment explanation
Indices: 24752298--24752423 Score: 81
Period size: 31 Copynumber: 4.3 Consensus size: 30
24752288 TTCGAAAATG
24752298 TAAAAATATTTCGAAAATAAAAAATATATATTT
1 TAAAAA-A-TTCGAAAAT-AAAAATATATATTT
*
24752331 TAAAAAATTCGAAGATGTAAAAA-A-ATA-TT
1 TAAAAAATTCGAA-A-ATAAAAATATATATTT
*
24752360 TAGAAAA-T-----ATAAAAATATATATATT
1 TAAAAAATTCGAAAATAAAAATATATAT-TT
* *
24752385 TAAAAAATTTGAAAATATAAATATATATTT
1 TAAAAAATTCGAAAATAAAAATATATATTT
*
24752415 CAGAAAAAT
1 TA-AAAAAT
24752424 ATATTTAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
21 6 0.08
22 1 0.01
23 3 0.04
25 8 0.11
26 1 0.01
28 1 0.01
29 8 0.11
30 6 0.08
31 26 0.35
32 7 0.09
33 7 0.09
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (30 bp):
TAAAAAATTCGAAAATAAAAATATATATTT
Found at i:24752373 original size:54 final size:55
Alignment explanation
Indices: 24752299--24752426 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 55
24752289 TCGAAAATGT
* * *
24752299 AAAAATATTTCG-AAA-ATAAAAAATATATAT-TTTAAAAAATTCGAAGATGTAA
1 AAAAATATTTAGAAAATATAAAAAATATATATATTTAAAAAATTCGAAAATATAA
*
24752351 AAAAATATTTAGAAAATAT-AAAAATATATATATTTAAAAAATTTGAAAATATAA
1 AAAAATATTTAGAAAATATAAAAAATATATATATTTAAAAAATTCGAAAATATAA
* *
24752405 ATATATATTTCAGAAAAATATA
1 AAAAATATTT-AG-AAAATATA
24752427 TTTAAAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
52 11 0.17
53 15 0.23
54 29 0.45
55 2 0.03
56 7 0.11
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.33
Consensus pattern (55 bp):
AAAAATATTTAGAAAATATAAAAAATATATATATTTAAAAAATTCGAAAATATAA
Found at i:24752383 original size:25 final size:27
Alignment explanation
Indices: 24752355--24752426 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 27
24752345 ATGTAAAAAA
24752355 ATATTTAGAAAATATAAAA-AT-ATAT
1 ATATTTAGAAAATATAAAATATAATAT
* *
24752380 ATATTTAAAAAATTTGAAAATATAAATAT
1 ATATTTAGAAAATAT-AAAATAT-AATAT
24752409 ATATTTCAGAAAAATATA
1 ATATTT-AG-AAAATATA
24752427 TTTAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 13 0.35
26 4 0.11
27 2 0.05
29 10 0.27
30 2 0.05
31 6 0.16
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (27 bp):
ATATTTAGAAAATATAAAATATAATAT
Found at i:24753782 original size:25 final size:25
Alignment explanation
Indices: 24753744--24753792 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
24753734 TAAATATAAT
24753744 TTGAAATATGTTAATTTAAAAAAAA
1 TTGAAATATGTTAATTTAAAAAAAA
* *
24753769 TTGAAATATTTTAATTTTAAAAAA
1 TTGAAATATGTTAATTTAAAAAAA
24753793 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (25 bp):
TTGAAATATGTTAATTTAAAAAAAA
Found at i:24753842 original size:18 final size:18
Alignment explanation
Indices: 24753772--24753842 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
24753762 AAAAAAATTG
*
24753772 AAATA-TTTTAATTTTAAA
1 AAATATTTTTAA-TTTAAT
**
24753790 AAATTATTTTTAATCATTTTT
1 AAA-TATTTTTAAT--TTAAT
**
24753811 AAATATTTAAAATTTAAT
1 AAATATTTTTAATTTAAT
24753829 AAATATTTTTAATT
1 AAATATTTTTAATT
24753843 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
18 18 0.45
19 3 0.08
20 14 0.35
21 5 0.12
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATTTTTAATTTAAT
Found at i:24753857 original size:37 final size:37
Alignment explanation
Indices: 24753772--24753885 Score: 120
Period size: 37 Copynumber: 3.0 Consensus size: 37
24753762 AAAAAAATTG
* * * *
24753772 AAATATTTTAATTTTAAAAAATTATTTTTAATCATTTTT
1 AAATATTTAAAATTTAATAAA-TATTTTTAATTA-TTTT
24753811 AAATATTTAAAATTTAATAAATATTTTTAATTATTTT
1 AAATATTTAAAATTTAATAAATATTTTTAATTATTTT
* * * * *
24753848 AATTATTTAAAATCTAATTATTATTTATTAAATATTTT
1 AAATATTTAAAATTTAATAAATATTT-TTAATTATTTT
24753886 TTTATTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 26 0.40
38 21 0.32
39 18 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (37 bp):
AAATATTTAAAATTTAATAAATATTTTTAATTATTTT
Found at i:24753991 original size:32 final size:33
Alignment explanation
Indices: 24753950--24754012 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
24753940 ACACGCTTAT
* *
24753950 TGCATGGCCGAGACCCA-CTACCACATGCCCTC
1 TGCATGGCCGACACCCATCTACCACACGCCCTC
*
24753982 TGCATGGCCGACACCCATCTGCCACACGCCC
1 TGCATGGCCGACACCCATCTACCACACGCCC
24754013 ACATGTTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.21, C:0.46, G:0.19, T:0.14
Consensus pattern (33 bp):
TGCATGGCCGACACCCATCTACCACACGCCCTC
Found at i:24754188 original size:11 final size:11
Alignment explanation
Indices: 24754158--24754217 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
24754148 TTTATGCAAT
*
24754158 TTTAAATTTTAA
1 TTTAAA-TTTCA
*
24754170 TTTTAATTTCA
1 TTTAAATTTCA
*
24754181 TTTCAATTTCA
1 TTTAAATTTCA
*
24754192 TTTAAATTTAAA
1 TTTAAATTT-CA
24754204 TTTAAATTTCA
1 TTTAAATTTCA
24754215 TTT
1 TTT
24754218 TATAAGCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
11 26 0.63
12 15 0.37
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAAATTTCA
Found at i:24754300 original size:16 final size:16
Alignment explanation
Indices: 24754279--24754357 Score: 63
Period size: 16 Copynumber: 4.7 Consensus size: 16
24754269 TAATTTAAAG
24754279 TTTAAATTGAATTTCA
1 TTTAAATTGAATTTCA
*
24754295 TTTAAATT-AATTT-T
1 TTTAAATTGAATTTCA
* *
24754309 TTTAAACTTTATTAATTTAAA
1 TTTAAA---T-TGAATTT-CA
24754330 GTTTAAATTGAATTTCA
1 -TTTAAATTGAATTTCA
24754347 TTTAAATTGAA
1 TTTAAATTGAA
24754358 AATTAAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
14 6 0.12
15 5 0.10
16 19 0.37
17 2 0.04
18 7 0.14
19 6 0.12
22 6 0.12
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (16 bp):
TTTAAATTGAATTTCA
Found at i:24754309 original size:52 final size:52
Alignment explanation
Indices: 24754243--24754354 Score: 224
Period size: 52 Copynumber: 2.2 Consensus size: 52
24754233 TTTACTTAAT
24754243 TTTAAATTAATTTTTTTAAACTTTATTAATTTAAAGTTTAAATTGAATTTCA
1 TTTAAATTAATTTTTTTAAACTTTATTAATTTAAAGTTTAAATTGAATTTCA
24754295 TTTAAATTAATTTTTTTAAACTTTATTAATTTAAAGTTTAAATTGAATTTCA
1 TTTAAATTAATTTTTTTAAACTTTATTAATTTAAAGTTTAAATTGAATTTCA
24754347 TTTAAATT
1 TTTAAATT
24754355 GAAAATTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (52 bp):
TTTAAATTAATTTTTTTAAACTTTATTAATTTAAAGTTTAAATTGAATTTCA
Found at i:24754488 original size:11 final size:11
Alignment explanation
Indices: 24754464--24754522 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
24754454 TTTTTATTAA
*
24754464 TTAATTTTGAAT
1 TTAATTTT-CAT
24754476 TTAATTTTCAT
1 TTAATTTTCAT
* *
24754487 TTAAACTTTAAT
1 TT-AATTTTCAT
24754499 TTCAA-TTTCAT
1 TT-AATTTTCAT
24754510 TTAATTTTCAT
1 TTAATTTTCAT
24754521 TT
1 TT
24754523 CAACTTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 2 0.05
11 19 0.47
12 19 0.47
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (11 bp):
TTAATTTTCAT
Found at i:24754498 original size:34 final size:34
Alignment explanation
Indices: 24754466--24754545 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 34
24754456 TTTATTAATT
24754466 AATTTTGAATTTAATTTTCATTTAAACTTTAATTTC
1 AATTTT-AATTTAATTTTCATTTAAAC-TTAATTTC
* *
24754502 AA-TTTCATTTAATTTTCATTTCAACTTAATTTC
1 AATTTTAATTTAATTTTCATTTAAACTTAATTTC
24754535 AATTTTAATTT
1 AATTTTAATTT
24754546 CAAATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.25
34 25 0.62
35 3 0.08
36 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (34 bp):
AATTTTAATTTAATTTTCATTTAAACTTAATTTC
Found at i:24754500 original size:12 final size:11
Alignment explanation
Indices: 24754493--24754554 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
24754483 TCATTTAAAC
24754493 TTTAATTTCAA
1 TTTAATTTCAA
*
24754504 TTTCATTT-AA
1 TTTAATTTCAA
*
24754514 TTTTCATTTCAA
1 -TTTAATTTCAA
*
24754526 CTTAATTTCAA
1 TTTAATTTCAA
24754537 TTTTAATTTCAAA
1 -TTTAATTTC-AA
24754550 TTTAA
1 TTTAA
24754555 ACTATAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 2 0.05
11 24 0.56
12 15 0.35
13 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAATTTCAA
Found at i:24754514 original size:16 final size:17
Alignment explanation
Indices: 24754473--24754545 Score: 71
Period size: 17 Copynumber: 4.3 Consensus size: 17
24754463 ATTAATTTTG
*
24754473 AATTTAATTTTC-ATTTA
1 AATTTAA-TTTCAATTTC
24754490 AACTTTAATTTCAATTTC
1 AA-TTTAATTTCAATTTC
24754508 -ATTTAATTTTC-ATTTC
1 AATTTAA-TTTCAATTTC
* *
24754524 AACTTAATTTCAATTTT
1 AATTTAATTTCAATTTC
24754541 AATTT
1 AATTT
24754546 CAAATTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
16 14 0.30
17 24 0.51
18 9 0.19
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATTTCAATTTC
Found at i:24754562 original size:19 final size:19
Alignment explanation
Indices: 24754540--24754577 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24754530 ATTTCAATTT
24754540 TAATTTCAAATTT-AAACTA
1 TAATTT-AAATTTCAAACTA
*
24754559 TAATTTTAATTTCAAACTA
1 TAATTTAAATTTCAAACTA
24754578 GTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTTAAATTTCAAACTA
Found at i:24754570 original size:6 final size:6
Alignment explanation
Indices: 24754464--24754570 Score: 51
Period size: 6 Copynumber: 18.2 Consensus size: 6
24754454 TTTTTATTAA
* * * * *
24754464 TTAATT TTGAA-T TTAATT TTCATT TAAACT TTAATT TCAA-T TTCA-T
1 TTAATT TT-AATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
* * * * * * *
24754510 TTAATT TTCATT TCAA-C TTAATT TCAATT TTAATT TCAAATT TAAACT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT T-TAATT TTAATT
*
24754558 ATAATT TTAATT T
1 TTAATT TTAATT T
24754571 CAAACTAGTA
Statistics
Matches: 72, Mismatches: 24, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
5 12 0.17
6 53 0.74
7 7 0.10
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.55
Consensus pattern (6 bp):
TTAATT
Found at i:24754588 original size:18 final size:19
Alignment explanation
Indices: 24754548--24754593 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24754538 TTTAATTTCA
24754548 AATTT-AAACTATAATTTT
1 AATTTCAAACTATAATTTT
24754566 AATTTCAAACTAGT-ATTTT
1 AATTTCAAACTA-TAATTTT
*
24754585 ATTTTCAAA
1 AATTTCAAA
24754594 TTCAATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 19 0.76
20 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTCAAACTATAATTTT
Found at i:24754653 original size:23 final size:23
Alignment explanation
Indices: 24754622--24754665 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24754612 TTAATTTTGG
24754622 ATTTAAATTTCAACTTAATTTCA
1 ATTTAAATTTCAACTTAATTTCA
* **
24754645 ATTTCAATTTGTACTTAATTT
1 ATTTAAATTTCAACTTAATTT
24754666 AAAGTATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTCAACTTAATTTCA
Found at i:24754734 original size:17 final size:17
Alignment explanation
Indices: 24754712--24754753 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
24754702 ACTTTGTATG
24754712 TTAATTTCATTTCAACC
1 TTAATTTCATTTCAACC
*
24754729 TTAATTTCATTTCAACT
1 TTAATTTCATTTCAACC
24754746 TTAATTTC
1 TTAATTTC
24754754 GAACTCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAATTTCATTTCAACC
Found at i:24754812 original size:17 final size:18
Alignment explanation
Indices: 24754792--24754834 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
24754782 AAACTATAAA
*
24754792 TTAA-TTTAAATTCCATT
1 TTAATTTTAAACTCCATT
24754809 TTAATTTTAAACTCCA--
1 TTAATTTTAAACTCCATT
24754825 TTAATTTTAA
1 TTAATTTTAA
24754835 TTTTAAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
18 10 0.42
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTTTAAACTCCATT
Found at i:24754831 original size:22 final size:22
Alignment explanation
Indices: 24754806--24754860 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
24754796 TTTAAATTCC
24754806 ATTTTAATTTTAAACTCCATTA
1 ATTTTAATTTTAAACTCCATTA
*
24754828 ATTTTAATTTTAAACTCTATTA
1 ATTTTAATTTTAAACTCCATTA
24754850 ATTTTAATTTT
1 ATTTTAATTTT
24754861 GTATTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTTAATTTTAAACTCCATTA
Found at i:24754851 original size:85 final size:85
Alignment explanation
Indices: 24754745--24754903 Score: 255
Period size: 85 Copynumber: 1.9 Consensus size: 85
24754735 TCATTTCAAC
*
24754745 TTTAATTTCGAACTCTATTAATTTTAATTTCGAATTTAAACTATAAATTAATTTAAATTCCATTT
1 TTTAATTTCAAACTCTATTAATTTTAATTTCGAATTTAAACTATAAATTAATTTAAATTCCATTT
* *
24754810 TAATTTTAAACTCCATTAAT
66 CAACTTTAAACTCCATTAAT
* * * *
24754830 TTTAATTTTAAACTCTATTAATTTTAATTTTGTATTTAAATTATAAATTAATTTAAATTCCATTT
1 TTTAATTTCAAACTCTATTAATTTTAATTTCGAATTTAAACTATAAATTAATTTAAATTCCATTT
24754895 CAACTTTAA
66 CAACTTTAA
24754904 TTTCATTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (85 bp):
TTTAATTTCAAACTCTATTAATTTTAATTTCGAATTTAAACTATAAATTAATTTAAATTCCATTT
CAACTTTAAACTCCATTAAT
Found at i:24754867 original size:28 final size:28
Alignment explanation
Indices: 24754755--24754869 Score: 71
Period size: 22 Copynumber: 4.1 Consensus size: 28
24754745 TTTAATTTCG
* *
24754755 AACTCTATTAATTTTAATTTCGAATTTA
1 AACTCTATTAATTTTAATTTTGTATTTA
* * *
24754783 AACTATAAATTAATTTAAATTCCATTTTAATTTTA
1 AACTCT--ATTAATTTTAATT---TTGT-A-TTTA
*
24754818 AACTCCATTAATTTTAA-----T-TTTA
1 AACTCTATTAATTTTAATTTTGTATTTA
24754840 AACTCTATTAATTTTAATTTTGTATTTA
1 AACTCTATTAATTTTAATTTTGTATTTA
24754868 AA
1 AA
24754870 TTATAAATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 26
0.65 0.09 0.26
Matches are distributed among these distances:
22 20 0.31
25 1 0.02
27 1 0.02
28 11 0.17
30 12 0.18
33 11 0.17
34 1 0.02
35 8 0.12
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (28 bp):
AACTCTATTAATTTTAATTTTGTATTTA
Found at i:24757722 original size:21 final size:21
Alignment explanation
Indices: 24757698--24757744 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24757688 GATCAGCGAT
24757698 CAACGATCAACTATCAAAGGC
1 CAACGATCAACTATCAAAGGC
* * *
24757719 CAACGATCAACTGTCAATGGT
1 CAACGATCAACTATCAAAGGC
24757740 CAACG
1 CAACG
24757745 GTTTGACTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (21 bp):
CAACGATCAACTATCAAAGGC
Found at i:24757810 original size:22 final size:22
Alignment explanation
Indices: 24757764--24757814 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
24757754 GGTTCAATTA
24757764 GGTTATTGGGTCAAATGGGTTTG
1 GGTTATTGGGTCAAAT-GGTTTG
*
24757787 GGTTATTGGGTTTAAAT-GTTTG
1 GGTTATTGGG-TCAAATGGTTTG
24757809 GGTTAT
1 GGTTAT
24757815 GTTAGCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 10 0.38
24 5 0.19
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (22 bp):
GGTTATTGGGTCAAATGGTTTG
Found at i:24763622 original size:19 final size:21
Alignment explanation
Indices: 24763584--24763624 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
24763574 TTACAAAAAT
24763584 AAATACAAATATAAATAATTA
1 AAATACAAATATAAATAATTA
*
24763605 AAATA-AAATA-ACATAATTA
1 AAATACAAATATAAATAATTA
24763624 A
1 A
24763625 TATCTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATACAAATATAAATAATTA
Found at i:24764805 original size:7 final size:7
Alignment explanation
Indices: 24764793--24764844 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
24764783 TTCGGAAAAA
24764793 GTCAACG
1 GTCAACG
24764800 GTCAACG
1 GTCAACG
* *
24764807 ATCAACT
1 GTCAACG
*
24764814 GTCAAAG
1 GTCAACG
*
24764821 GTCAACA
1 GTCAACG
24764828 GTCAACG
1 GTCAACG
*
24764835 GTCAATG
1 GTCAACG
24764842 GTC
1 GTC
24764845 GGTCAACGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:24766887 original size:2 final size:2
Alignment explanation
Indices: 24766880--24766904 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24766870 AGTAGAAAAG
24766880 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
24766905 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24767149 original size:112 final size:110
Alignment explanation
Indices: 24766973--24767229 Score: 264
Period size: 112 Copynumber: 2.3 Consensus size: 110
24766963 AAAGGTAGTA
* * * *
24766973 TCGGCCATGAGTTGGCAAATACCAAAAAAAAATTTGGGGACCTAAAAAAGGGGGTGTCAACCATG
1 TCGGCCATGAGTTGGCAAACACCAAAAAAAAATTTGGAGACCCAAAAAAGGAGGTGTCAACCATG
* * *
24767038 GTTTGGCAGACACCC-AAAAAATAATTTTTAATTCATTTTGAGTG
66 GCTTAGCAGAAACCCAAAAAAATAATTTTTAATTCATTTTGAGTG
* * * * **
24767082 TCGGCCATGGGTTGGCAAACATCCGAAAAAAATATTTTTGAGACCCGAAAAAGGAGGTGTCGGCC
1 TCGGCCATGAGTTGGCAAACA-CC-AAAAAAA-AATTTGGAGACCCAAAAAAGGAGGTGTCAACC
* *
24767147 ATGGCTTAGCAGAAACCCAGAAAAAATAATTTTTTATTCGTATTTTTTAGGTG
63 ATGGCTTAGCAGAAACCCA-AAAAAATAATTTTTAATTC--A-TTTTGA-GTG
* * * *
24767200 TCGGCCCTGACTTGACAAACACCCAAAAAA
1 TCGGCCATGAGTTGGCAAACACCAAAAAAA
24767230 GTATTTTTTA
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
109 19 0.16
110 2 0.02
111 7 0.06
112 39 0.33
114 18 0.15
116 7 0.06
117 7 0.06
118 20 0.17
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (110 bp):
TCGGCCATGAGTTGGCAAACACCAAAAAAAAATTTGGAGACCCAAAAAAGGAGGTGTCAACCATG
GCTTAGCAGAAACCCAAAAAAATAATTTTTAATTCATTTTGAGTG
Found at i:24767712 original size:20 final size:19
Alignment explanation
Indices: 24767674--24767712 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24767664 ATATAATCAT
*
24767674 ATTTTATTTCTAAGTATAA
1 ATTTTATTTCTAAGAATAA
*
24767693 ATTTTATTTTCTAGGAATAA
1 ATTTTA-TTTCTAAGAATAA
24767713 CAATTCTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (19 bp):
ATTTTATTTCTAAGAATAA
Found at i:24776344 original size:20 final size:20
Alignment explanation
Indices: 24776304--24776359 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
24776294 AGAAGCATAC
*
24776304 TTGTATCAGTAGAACTAAAG
1 TTGTATCAGTAGAAGTAAAG
* *
24776324 TTGTATCTGTAGAAGTGAAG
1 TTGTATCAGTAGAAGTAAAG
* * *
24776344 TTTTACCGGTAGAAGT
1 TTGTATCAGTAGAAGT
24776360 CCCAGGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGTATCAGTAGAAGTAAAG
Found at i:24781222 original size:78 final size:81
Alignment explanation
Indices: 24781074--24781222 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
24781064 TTAATATAAC
* * * * *
24781074 ATTTGGTACCTGAACTTGACATTTTTTTTTCTAATCTAGTACCTAAACTTTTTTTGGGTCCAATT
1 ATTTAGTACCTAAACTTGACACTCTTTTTTCTAATCTAGTACCTAAACTTTTTTTGGATCCAATT
24781139 TGGTACTCAAACTCTA
66 TGGTACTCAAACTCTA
*
24781155 ATTTAGTACCTAAACTTGACACTCTTTTTT-TAAGT-T-GTACTTAAAC-TTTTTTGGATCCAAT
1 ATTTAGTACCTAAACTTGACACTCTTTTTTCTAA-TCTAGTACCTAAACTTTTTTTGGATCCAAT
24781216 TTGGTAC
65 TTGGTAC
24781223 CTGAACTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 21 0.34
79 9 0.15
80 4 0.07
81 27 0.44
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (81 bp):
ATTTAGTACCTAAACTTGACACTCTTTTTTCTAATCTAGTACCTAAACTTTTTTTGGATCCAATT
TGGTACTCAAACTCTA
Found at i:24783466 original size:18 final size:18
Alignment explanation
Indices: 24783440--24783474 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24783430 AAAGTATATT
24783440 TATTATTATATTTTTTTG
1 TATTATTATATTTTTTTG
*
24783458 TATTTTTATATTTTTTT
1 TATTATTATATTTTTTT
24783475 TGAGTATTTT
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:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TATTATTATATTTTTTTG
Found at i:24785312 original size:66 final size:66
Alignment explanation
Indices: 24785213--24785340 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
24785203 CTCCCATGCA
* * *
24785213 GGTTCAAATTATTCAAATTTTGGATGCATTCTTTAAACGGCGCAATTGATTTTATCAGGCCATGT
1 GGTTCAAATTATTCAAATTTTGGACGCATTCTTTAAACGGCCCAATTGATTTAATCAGGCCATGT
24785278 G
66 G
* * * *
24785279 GGTTGAAATTATTCAAATTTTGGACGTATTCTTTAAACGGCCCGATTGATTTAATCATGCCA
1 GGTTCAAATTATTCAAATTTTGGACGCATTCTTTAAACGGCCCAATTGATTTAATCAGGCCA
24785341 ATTTTAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (66 bp):
GGTTCAAATTATTCAAATTTTGGACGCATTCTTTAAACGGCCCAATTGATTTAATCAGGCCATGT
G
Found at i:24786647 original size:59 final size:60
Alignment explanation
Indices: 24786506--24786708 Score: 199
Period size: 59 Copynumber: 3.4 Consensus size: 60
24786496 GAAAATGCAG
* * *
24786506 TTTTGA-AGAGTTTG-GGGTTAAAATGCAA-TTTTGGAAAGTTTTAAGGGTAAAAATGTGAT
1 TTTTGAGA-AGTTTGAGGGTTAAAATGCAATTTTTGGAAAG-TTTAGGGGCAAAAATGTAAT
* *** *
24786565 TTTT-AGAAGTTTAAGGACAAAAATACAATTTTTGG-AAGTTTAGGGGCAAAAATGTAAT
1 TTTTGAGAAGTTTGAGGGTTAAAATGCAATTTTTGGAAAGTTTAGGGGCAAAAATGTAAT
* *
24786623 TTTTGAGAAGTTTGAGGGTTAAAATGTAATTTTTGGAAAAGATT-GGGGTC-AAAATGTAAT
1 TTTTGAGAAGTTTGAGGGTTAAAATGCAATTTTTGG-AAAGTTTAGGGG-CAAAAATGTAAT
24786683 TTTTG-GAAAGTTT-AGGGGTTAAAATG
1 TTTTGAG-AAGTTTGA-GGGTTAAAATG
24786709 TGATTTTTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
58 27 0.22
59 45 0.38
60 42 0.35
61 6 0.05
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (60 bp):
TTTTGAGAAGTTTGAGGGTTAAAATGCAATTTTTGGAAAGTTTAGGGGCAAAAATGTAAT
Found at i:24786716 original size:30 final size:30
Alignment explanation
Indices: 24786506--24786716 Score: 177
Period size: 30 Copynumber: 7.1 Consensus size: 30
24786496 GAAAATGCAG
* *
24786506 TTTT-GAAGAGTTT-GGGGTTAAAATGCAA-
1 TTTTGGAA-AGTTTAGGGGTAAAAATGTAAT
* *
24786534 TTTTGGAAAGTTTTAAGGGTAAAAATGTGAT
1 TTTTGGAAAG-TTTAGGGGTAAAAATGTAAT
* * ** **
24786565 TTTTAG-AAGTTTAAGGACAAAAATACAAT
1 TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
*
24786594 TTTTGG-AAGTTTAGGGGCAAAAATGTAAT
1 TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
*
24786623 TTTT-GAGAAGTTT-GAGGGTTAAAATGTAAT
1 TTTTGGA-AAGTTTAG-GGGTAAAAATGTAAT
* *
24786653 TTTTGGAAAAGATT-GGGGTCAAAATGTAAT
1 TTTTGG-AAAGTTTAGGGGTAAAAATGTAAT
* *
24786683 TTTTGGAAAGTTTAGGGGTTAAAATGTGAT
1 TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
24786713 TTTT
1 TTTT
24786717 ATACAGTTTA
Statistics
Matches: 151, Mismatches: 22, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
28 7 0.05
29 56 0.37
30 75 0.50
31 12 0.08
32 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
Found at i:24788411 original size:6 final size:6
Alignment explanation
Indices: 24788400--24788484 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
24788390 TAATTTAGAA
** * *
24788400 TAAATT TAAATT TAAAAA TAAATT TAAACT TAAA-T TAATTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
24788447 TAAA-A TAAATT TAAACT TAAA-A TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
24788485 ATAAATCTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
5 12 0.19
6 52 0.81
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:24788413 original size:17 final size:17
Alignment explanation
Indices: 24788386--24788490 Score: 147
Period size: 17 Copynumber: 6.1 Consensus size: 17
24788376 TTTGGACTAT
*
24788386 TTTATAATTTAGAATAAA
1 TTTA-AATTTAAAATAAA
24788404 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
* * *
24788422 TTTAAACTTAAATTAAT
1 TTTAAATTTAAAATAAA
24788439 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
24788456 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
24788473 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
24788490 T
1 T
24788491 CTAACATGGG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
17 58 0.75
18 19 0.25
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:24788911 original size:39 final size:39
Alignment explanation
Indices: 24788855--24789834 Score: 403
Period size: 39 Copynumber: 25.1 Consensus size: 39
24788845 GCGAAAGGGT
* *
24788855 TGCAATCTGCCCCAGGCTTGGGGTAAGAGATCGAATGGC
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* *
24788894 TGCAATCTACCCTAGGCTCGGGGTAAGAGATCGACTGG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* ** * * *
24788932 TG-ATGATCTGCCCTAAGCTTTGGGTAAGAGATTGAACGAC
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * * *
24788972 TACAATCTGCCCCAGGCTTGGGGTAAGAGATTGGCA-GG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGA-TCGAATGGC
* * *
24789010 TG-ATGATCTACCCTAGGCTCGGGGTAGGAGATCGAATGAC
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * ** *
24789050 TGCAATCTGCTCTAGGCTCGGGGTAAGAGATTGGCT-GA
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * * *
24789088 TG-ATGATTTGCCCCAAGCTCGGGGTAGGAGATC-AGACGGC
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGA-ATGGC
* * * * * **
24789128 TGCAATTTTCCCCAGGCTCGAGGTAAGAGATTGGCTGG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* *
24789166 TGATAATCTG-CCTCAGGCTTGGGGTAAGAGATCGAATGGC
1 TG-CAATCTGCCCT-AGGCTCGGGGTAAGAGATCGAATGGC
* * * * *
24789206 TGCAATCTGCCCCAAGCTCAGGGTAAGAGATTGACTGG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* *
24789244 TG-ATGATCTGCCCTAAGCTCGGGGTAAGAGATCGAACGGC
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* ** * **
24789284 TGTAAT-TTACCTCAGGCTCGGGGTAAGAGATTGGCTGG-
1 TGCAATCTGCCCT-AGGCTCGGGGTAAGAGATCGAATGGC
** * **
24789322 TG-ATGATCTGCCCCGGGCTCGGGGTAAGAGATTGGCTGG-
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * *
24789361 TG-ATGATCTGTCCC-AAGCTCGGGGTAAGAGATCGAACGGT
1 TGCA--ATCTG-CCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * ** *
24789401 TACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * *
24789439 TG-ATGATCTGTCCC-AGGCTCGGGGTAAAAGATTGAACGAC
1 TGCA--ATCTG-CCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * * * **
24789479 TACAATCTGTCCC-AAGCTCAGGGCAAGAGATTGGTTGG-
1 TGCAATCTG-CCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * ** * *
24789517 TGATAATCTGCCCCAAGCTCATGGTAAAAGATCGAACGGC
1 TG-CAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * * **
24789557 TGCAATCTGCCCTAAGCTCAGGGCAAGAGATTGGCTGG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* *
24789595 TG-ATGATCTG-CCTCAGGCTCGGGGTAAGAGATCGAACGGT
1 TGCA--ATCTGCCCT-AGGCTCGGGGTAAGAGATCGAATGGC
* * * **
24789635 TGTAATCTGCCCTAGGCTCAGGGTAAGAGATTGGCTGG-
1 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* *
24789673 TG-ATGATCTACCCTAGGCTCGGGGTAAGAGATCGACTGG-
1 TGCA--ATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
* * * ** * *
24789712 T-AATGATTTGCCCCCA-GCTAAGGGTAAGAGATCGAACGAC
1 TGCA--ATCTG-CCCTAGGCTCGGGGTAAGAGATCGAATGGC
*
24789752 TGCAATCTG-CCTCAAGCTCGGGGTAAGAGATC-AATTGG-
1 TGCAATCTGCCCT-AGGCTCGGGGTAAGAGATCGAA-TGGC
* * * *
24789790 TG-ATGATCTG-CCTCAAGCTCGAGGTAAGAGATCGAGTTGC
1 TGCA--ATCTGCCCT-AGGCTCGGGGTAAGAGATCGAATGGC
24789830 TGCAA
1 TGCAA
24789835 CCTTCTTGAG
Statistics
Matches: 715, Mismatches: 166, Indels: 120
0.71 0.17 0.12
Matches are distributed among these distances:
37 11 0.02
38 40 0.06
39 614 0.86
40 41 0.06
41 9 0.01
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
TGCAATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGC
Found at i:24788989 original size:78 final size:77
Alignment explanation
Indices: 24788859--24789821 Score: 513
Period size: 78 Copynumber: 12.4 Consensus size: 77
24788849 AAGGGTTGCA
* * * * * * * *
24788859 ATCTGCCCCAGGCTTGGGGTAAGAGATCGAATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAA-CGCTACAATCTGCCCCAGGCTCGGGGTAAGAGA
24788924 TCGACTGGTGATG
65 TCGACTGGTGATG
** *
24788937 ATCTGCCCTAAGCTTTGGGTAAGAGATTGAACGACTACAATCTGCCCCAGGCTTGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAACG-CTACAATCTGCCCCAGGCTCGGGGTAAGAGA
* * *
24789002 TTGGCAGGTGATG
65 TCGACTGGTGATG
* * * * * * * *
24789015 ATCTACCCTAGGCTCGGGGTAGGAGATCGAATGACTGCAATCTGCTCTAGGCTCGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAACG-CTACAATCTGCCCCAGGCTCGGGGTAAGAGA
* * *
24789080 TTGGCTGATGATG
65 TCGACTGGTGATG
* * * * * * * *
24789093 ATTTGCCCCAAGCTCGGGGTAGGAGA-TCAGACGGCTGCAATTTTCCCCAGGCTCGAGGTAAGAG
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGA-AC-GCTACAATCTGCCCCAGGCTCGGGGTAAGAG
* * *
24789157 ATTGGCTGGTGATA
64 ATCGACTGGTGATG
* * * * * * *
24789171 ATCTG-CCTCAGGCTTGGGGTAAGAGATCGAATGGCTGCAATCTGCCCCAAGCTCAGGGTAAGAG
1 ATCTGCCCT-AAGCTCGGGGTAAGAGATTGAA-CGCTACAATCTGCCCCAGGCTCGGGGTAAGAG
*
24789235 ATTGACTGGTGATG
64 ATCGACTGGTGATG
* ** * * *
24789249 ATCTGCCCTAAGCTCGGGGTAAGAGATCGAACGGCTGTAATTTACCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAAC-GCTACAATCTGCCCCAGGCTCGGGGTAAGAGA
* *
24789314 TTGGCTGGTGATG
65 TCGACTGGTGATG
*** * * ** * *
24789327 ATCTGCCCCGGGCTCGGGGTAAGAGATTG-GCTGGTGATGATCTGTCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAAC-GCT-ACAATCTGCCCCAGGCTCGGGGTAAGAG
* **
24789391 ATCGAAC-GGTTACA
64 ATCG-ACTGGTGATG
* * * * *
24789405 ATCTGCCCCAGGCTCGGGGTAAGAGATTG---GCTAGTGATGATCTGTCCCAGGCTCGGGGTAAA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAACGCTA--CA--ATCTGCCCCAGGCTCGGGGTAAG
* * **
24789467 AGATTGAAC-GACT-ACA
62 AGATCG-ACTG-GTGATG
* * *** * * * ** *
24789483 ATCTGTCCC-AAGCTCAGGGCAAGAGATTGGTTGGTGATAATCTGCCCCAAGCTCATGGTAAAAG
1 ATCTG-CCCTAAGCTCGGGGTAAGAGATTGAACGCT-ACAATCTGCCCCAGGCTCGGGGTAAGAG
24789547 ATCGAAC-GGCTGCA--
64 ATCG-ACTGG-TG-ATG
* * * * ** *
24789561 ATCTGCCCTAAGCTCAGGGCAAGAGATTG-GCTGGTGATGATCTGCCTCAGGCTCGGGGTAAGAG
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAAC-GCT-ACAATCTGCCCCAGGCTCGGGGTAAGAG
*
24789625 ATCGAAC-GGTTG-TA
64 ATCG-ACTGG-TGATG
* * * * ** * *
24789639 ATCTGCCCTAGGCTCAGGGTAAGAGATTG-GCTGGTGATGATCTACCCTAGGCTCGGGGTAAGAG
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAAC-GCT-ACAATCTGCCCCAGGCTCGGGGTAAGAG
*
24789703 ATCGACTGGTAATG
64 ATCGACTGGTGATG
* ** ** * * * *
24789717 ATTTGCCCCCAGCTAAGGGTAAGAGATCGAACGACTGCAATCTGCCTCAAGCTCGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGGGGTAAGAGATTGAACG-CTACAATCTGCCCCAGGCTCGGGGTAAGAGA
* *
24789782 TCAATTGGTGATG
65 TCGACTGGTGATG
*
24789795 ATCTG-CCTCAAGCTCGAGGTAAGAGAT
1 ATCTGCCCT-AAGCTCGGGGTAAGAGAT
24789822 CGAGTTGCTG
Statistics
Matches: 711, Mismatches: 142, Indels: 64
0.78 0.15 0.07
Matches are distributed among these distances:
74 1 0.00
75 2 0.00
77 15 0.02
78 676 0.95
79 12 0.02
80 2 0.00
81 2 0.00
82 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (77 bp):
ATCTGCCCTAAGCTCGGGGTAAGAGATTGAACGCTACAATCTGCCCCAGGCTCGGGGTAAGAGAT
CGACTGGTGATG
Found at i:24789783 original size:156 final size:155
Alignment explanation
Indices: 24788858--24789782 Score: 695
Period size: 156 Copynumber: 5.9 Consensus size: 155
24788848 AAAGGGTTGC
* * * * * *
24788858 AATCTGCCCCAGGCTTGGGGTAAGAGATCGAATGGCTGCA-ATCTACCCTAGGCTCGGGGTAAGA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGG-TG-ATATCTGCCCTAAGCTCGGGGTAAGA
* ** * * *
24788922 GATCGACTGGTGATGATCTGCCCTAAGCTTTGGGTAAGAGATTGAACGACTACAATCTGCCCCAG
64 GATCGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGACTGCAATCTGCCTCAG
* *
24788987 GCTTGGGGTAAGAGATTGGCAGGTGAT
129 GCTCGGGGTAAGAGATTGGCTGGTGAT
* * * * * * * *
24789014 GATCTACCCTAGGCTCGGGGTAGGAGATCGAATGACTGCA-ATCTGCTCTAGGCTCGGGGTAAGA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATG-GTG-ATATCTGCCCTAAGCTCGGGGTAAGA
* * * * * * * * *
24789078 GATTGGCTGATGATGATTTGCCCCAAGCTCGGGGTAGGAGATC-AGACGGCTGCAATTTTCCCCA
64 GATCGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGA-ACGACTGCAATCTGCCTCA
*
24789142 GGCTCGAGGTAAGAGATTGGCTGGTGAT
128 GGCTCGGGGTAAGAGATTGGCTGGTGAT
* * * * *
24789170 AATCTG-CCTCAGGCTTGGGGTAAGAGATCGAATGGCTGCA-ATCTGCCCCAAGCTCAGGGTAAG
1 AATCTGCCCT-AGGCTCGGGGTAAGAGATTGGATGG-TG-ATATCTGCCCTAAGCTCGGGGTAAG
* * * * * *
24789233 AGATTGACTGGTGATGATCTGCCCTAAGCTCGGGGTAAGAGATCGAACGGCTGTAATTTACCTCA
63 AGATCGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGACTGCAATCTGCCTCA
24789298 GGCTCGGGGTAAGAGATTGGCTGGTGAT
128 GGCTCGGGGTAAGAGATTGGCTGGTGAT
* ** *
24789326 GATCTGCCCCGGGCTCGGGGTAAGAGATTGGCTGGTGATGATCTGTCCC-AAGCTCGGGGTAAGA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGGTGAT-ATCTG-CCCTAAGCTCGGGGTAAGA
* ** * * * * *
24789390 GATCGAAC-GGTTACAATCTGCCCCAGGCTCGGGGTAAGAGATTG-GCTAGTG-ATGATCTGTCC
64 GATCG-ACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGACTGCA--ATCTG-CC
* * * *
24789452 -CAGGCTCGGGGTAAAAGATTGAAC-GACT-AC
125 TCAGGCTCGGGGTAAGAGATTG-GCTG-GTGAT
* * * * * ** *
24789482 AATCTGTCCC-AAGCTCAGGGCAAGAGATTGGTTGGTGATAATCTGCCCCAAGCTCATGGTAAAA
1 AATCTG-CCCTAGGCTCGGGGTAAGAGATTGGATGGTGAT-ATCTGCCCTAAGCTCGGGGTAAGA
* * * * * *
24789546 GATCGAAC-GGCTGCA--ATCTGCCCTAAGCTCAGGGCAAGAGATTG-GCTG-GTG-ATGATCTG
64 GATCG-ACTGG-TG-ATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GACTGCA--ATCTG
* *
24789605 CCTCAGGCTCGGGGTAAGAGATCGAAC-GGTTG-T
123 CCTCAGGCTCGGGGTAAGAGATTG-GCTGG-TGAT
* * * *
24789638 AATCTGCCCTAGGCTCAGGGTAAGAGATTGGCTGGTGATGATCTACCCTAGGCTCGGGGTAAGAG
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGGTGAT-ATCTGCCCTAAGCTCGGGGTAAGAG
* * * ** *
24789703 ATCGACTGGTAATGATTTGCCCCCAGCTAAGGGTAAGAGATCGAACGACTGCAATCTGCCTCAAG
65 ATCGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGACTGCAATCTGCCTCAGG
24789768 CTCGGGGTAAGAGAT
130 CTCGGGGTAAGAGAT
24789783 CAATTGGTGA
Statistics
Matches: 632, Mismatches: 107, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
154 3 0.00
155 20 0.03
156 588 0.93
157 19 0.03
158 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (155 bp):
AATCTGCCCTAGGCTCGGGGTAAGAGATTGGATGGTGATATCTGCCCTAAGCTCGGGGTAAGAGA
TCGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGACTGCAATCTGCCTCAGGC
TCGGGGTAAGAGATTGGCTGGTGAT
Found at i:24789824 original size:117 final size:116
Alignment explanation
Indices: 24788993--24789821 Score: 560
Period size: 117 Copynumber: 7.1 Consensus size: 116
24788983 CCAGGCTTGG
* * * * * * * * *
24788993 GGTAAGAGATTGGCAGGTGATGATCTACCCTAGGCTCGGGGTAGGAGATCGAATGACTGCAATCT
1 GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATCT
*** * * *
24789058 G-CTCTAGGCTCGGGGTAAGAGATTGGCTGATGATGATTTGCCCCAAGCTCGG
66 GCCTC-AGGCTCGGGGTAAGAGATCAACTGGTGATGATCTG-CCCAAGCTCGA
* * * * * * * *
24789110 GGTAGGAGATCAGAC-GGCTGCA--ATTTTCCCCAGGCTCGAGGTAAGAGATTG-GCTGG-TGAT
1 GGTAAGAGAT-TGACTGG-TG-ATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GGCTG-T
*
24789170 AATCTGCCTCAGGCTTGGGGTAAGAGATCGAA-TGGCTGCA--ATCTGCCCCAAGCTC-A
61 AATCTGCCTCAGGCTCGGGGTAAGAGATC-AACTGG-TG-ATGATCTG-CCCAAGCTCGA
* *
24789226 GGGTAAGAGATTGACTGGTGATGATCTGCCCTAAGCTCGGGGTAAGAGATCGAACGGCTGTAATT
1 -GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATC
* *** ** *
24789291 TACCTCAGGCTCGGGGTAAGAGATTGGCTGGTGATGATCTGCCCCGGGCTCGG
65 TGCCTCAGGCTCGGGGTAAGAGATCAACTGGTGATGATCTG-CCCAAGCTCGA
* * * **
24789344 GGTAAGAGATTGGCTGGTGATGATCTGTCCCAAGCTCGGGGTAAGAGATCGAACGGTTACAATCT
1 GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATCT
* *** * * *
24789409 GCCCCAGGCTCGGGGTAAGAGATTGGCTAGTGATGATCTGTCCCAGGCTCGG
66 GCCTCAGGCTCGGGGTAAGAGATCAACTGGTGATGATCTG-CCCAAGCTCGA
* * ** * * * * ***
24789461 GGTAAAAGATTGAAC-GACT-ACAATCTGTCCCAAGCTCAGGGCAAGAGATTGGTTGG-TGATAA
1 GGTAAGAGATTG-ACTG-GTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTG-TAA
* * ** *
24789523 TCTGCCCCAAGCTCATGGTAAAAGATCGAAC-GGCTGCA--ATCTGCCCTAAGCTC-A
63 TCTGCCTCAGGCTCGGGGTAAGAGATC-AACTGG-TG-ATGATCTGCCC-AAGCTCGA
* * * * *
24789577 GGGCAAGAGATTGGCTGGTGATGATCTGCCTCAGGCTCGGGGTAAGAGATCGAACGGTTGTAATC
1 -GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATC
* *** * * *
24789642 TGCC-CTAGGCTCAGGGTAAGAGATTGGCTGGTGATGATCTACCCTAGGCTCGG
65 TGCCTC-AGGCTCGGGGTAAGAGATCAACTGGTGATGATCTGCCC-AAGCTCGA
* * * * ** * *
24789695 GGTAAGAGATCGACTGGTAATGATTTGCCCCCAGCTAAGGGTAAGAGATCGAACGACTGCAATCT
1 GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATCT
* *
24789760 GCCTCAAGCTCGGGGTAAGAGATCAATTGGTGATGATCTGCCTCAAGCTCGA
66 GCCTCAGGCTCGGGGTAAGAGATCAACTGGTGATGATCTGCC-CAAGCTCGA
24789812 GGTAAGAGAT
1 GGTAAGAGAT
24789822 CGAGTTGCTG
Statistics
Matches: 556, Mismatches: 119, Indels: 74
0.74 0.16 0.10
Matches are distributed among these distances:
115 3 0.01
116 19 0.03
117 510 0.92
118 21 0.04
119 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (116 bp):
GGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGTAATCT
GCCTCAGGCTCGGGGTAAGAGATCAACTGGTGATGATCTGCCCAAGCTCGA
Found at i:24792000 original size:3 final size:3
Alignment explanation
Indices: 24791992--24792030 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
24791982 GGTTATCCCT
*
24791992 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
24792031 GATATCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:24801368 original size:97 final size:97
Alignment explanation
Indices: 24801197--24801390 Score: 264
Period size: 97 Copynumber: 2.0 Consensus size: 97
24801187 AACCTTGAAA
* * * * *
24801197 AAGGGTATTCCATTATCTCGGTTTGAAGAAAAGTCGTGCCTAGTAAGATAAGGCACAAATTTTTA
1 AAGGGTATTCCATTATCTCGATTTGAAGAAAAATCGCGCCAAGTAAGATAAGGCACAAATTTTCA
* * *
24801262 AAACTTGAAATAAAGGAATATTGCCTCGATTT
66 AAACCTGAAAGAAAGAAATATTGCCTCGATTT
* * *
24801294 AAGGGTATTCGATTATC-CTGATTTGAAGAAAAATCGCGCCAAGTAAGTTAAGGCACGAATTTTC
1 AAGGGTATTCCATTATCTC-GATTTGAAGAAAAATCGCGCCAAGTAAGATAAGGCACAAATTTTC
*
24801358 AAAACCTGAAAGAAATAAATATTGCCTCGATTT
65 AAAACCTGAAAGAAAGAAATATTGCCTCGATTT
24801391 TAAATATTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 1 0.01
97 83 0.99
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (97 bp):
AAGGGTATTCCATTATCTCGATTTGAAGAAAAATCGCGCCAAGTAAGATAAGGCACAAATTTTCA
AAACCTGAAAGAAAGAAATATTGCCTCGATTT
Found at i:24801728 original size:29 final size:29
Alignment explanation
Indices: 24801688--24801764 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
24801678 TTTTAAGGGT
* *
24801688 AAAAATGAGATTTTTGGAAGTTTGGAGG-C
1 AAAAATGTGATTTTTGGAAG-TTCGAGGAC
24801717 AAAAATGTGATTTTTGGAAGTTCGAGGAC
1 AAAAATGTGATTTTTGGAAGTTCGAGGAC
*
24801746 AAAAATGTAATTTTTGGAA
1 AAAAATGTGATTTTTGGAA
24801765 AAGATTAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAAATGTGATTTTTGGAAGTTCGAGGAC
Found at i:24801810 original size:29 final size:30
Alignment explanation
Indices: 24801747--24801809 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
24801737 TTCGAGGACA
* *
24801747 AAAATGTAATTTTTGGAAAAGATTAGTGTC
1 AAAATATAATTTTTGGAAAAGATTAGGGTC
*
24801777 AAAATATAATTTTTGG-AAAGTTTATGGGTC
1 AAAATATAATTTTTGGAAAAGATTA-GGGTC
24801807 AAA
1 AAA
24801810 TCGTGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (30 bp):
AAAATATAATTTTTGGAAAAGATTAGGGTC
Found at i:24803411 original size:22 final size:22
Alignment explanation
Indices: 24803384--24803438 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
24803374 GGTAGTAAGT
*
24803384 TTTAGGGTTTGACTTAGGATGG
1 TTTAGGGTTTGACCTAGGATGG
*
24803406 TTTAGGGTTTGACCTAGGGTGG
1 TTTAGGGTTTGACCTAGGATGG
24803428 TTTAGGGTTTG
1 TTTAGGGTTTG
24803439 GACCAATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.05, G:0.38, T:0.42
Consensus pattern (22 bp):
TTTAGGGTTTGACCTAGGATGG
Found at i:24803581 original size:18 final size:18
Alignment explanation
Indices: 24803547--24803582 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24803537 TTTAATTTAG
**
24803547 AATAAATTTAATTTTAAA
1 AATAAATTTAAACTTAAA
24803565 AATAAATTTAAACTTAAA
1 AATAAATTTAAACTTAAA
24803583 TTATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAATTTAAACTTAAA
Found at i:24807601 original size:3 final size:3
Alignment explanation
Indices: 24807593--24807644 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
24807583 GTAGAAATAG
24807593 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
24807641 TAT T
1 TAT T
24807645 GTGTTTGAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24813907 original size:37 final size:37
Alignment explanation
Indices: 24813851--24814069 Score: 321
Period size: 37 Copynumber: 5.9 Consensus size: 37
24813841 GATTTCTTCA
*
24813851 ATGGAAGGGCTTACATCTCGGTTAGAGCGTAATGTTAT
1 ATGGAA-GGCTTACGTCTCGGTTAGAGCGTAATGTTAT
*
24813889 ATGGAAGGCTTACGTCTCGGTTAAAGCGTAATGTTAT
1 ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATGTTAT
* * *
24813926 ATGGAAGGCCTACATCTCGATTAGAGCGTAATGTTAT
1 ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATGTTAT
* * *
24813963 ATGGAAGGCTTATGTCTCGGTTAGAGCATAGTGTTAT
1 ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATGTTAT
*
24814000 ATGGAAGGCTTACGTCTCAGTTAGAGCGTAATGTTAT
1 ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATGTTAT
* * *
24814037 ATAGAAGGCTTACGTCTTGGTTAGAGCATAATG
1 ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATG
24814070 CTATGTGATT
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 155 0.96
38 6 0.04
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (37 bp):
ATGGAAGGCTTACGTCTCGGTTAGAGCGTAATGTTAT
Found at i:24817176 original size:22 final size:21
Alignment explanation
Indices: 24817146--24817191 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24817136 TAACAAAGGA
*
24817146 AAATGAAAAACGACTAAAACCT
1 AAATGAAAAA-GACTAAAAACT
* *
24817168 AAATTAAAAAGGCTAAAAACT
1 AAATGAAAAAGACTAAAAACT
24817189 AAA
1 AAA
24817192 CTAAGGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.63, C:0.13, G:0.09, T:0.15
Consensus pattern (21 bp):
AAATGAAAAAGACTAAAAACT
Found at i:24821321 original size:26 final size:28
Alignment explanation
Indices: 24821292--24821349 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
24821282 AACACAACTT
* *
24821292 AAAACTAATAATA-ATAAAATA-AAATA
1 AAAACTAACAACATATAAAATAGAAATA
24821318 AAAACTAACAACATATAAAATAGGAAATA
1 AAAACTAACAACATATAAAATA-GAAATA
24821347 AAA
1 AAA
24821350 GTTCTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 8 0.30
29 8 0.30
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (28 bp):
AAAACTAACAACATATAAAATAGAAATA
Found at i:24824921 original size:21 final size:23
Alignment explanation
Indices: 24824889--24824933 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
24824879 AAAATGAGCG
24824889 AGAAATAAAATAAAT-AGAGAAA
1 AGAAATAAAATAAATGAGAGAAA
*
24824911 AGAAA-AAAATAAATGGGAGAAA
1 AGAAATAAAATAAATGAGAGAAA
24824933 A
1 A
24824934 ATAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (23 bp):
AGAAATAAAATAAATGAGAGAAA
Found at i:24824969 original size:18 final size:16
Alignment explanation
Indices: 24824911--24824971 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
24824901 AATAGAGAAA
* *
24824911 AGAAAAAAATAAATGGG
1 AGAAAAAAA-AATTGAG
*
24824928 AGAAAAATAAATTGAAAG
1 AGAAAAAAAAATTG--AG
* *
24824946 AGAAAAAGAACTTGAG
1 AGAAAAAAAAATTGAG
24824962 AGAAAAAAAA
1 AGAAAAAAAA
24824972 GAGAAGAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 15 0.42
17 8 0.22
18 13 0.36
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (16 bp):
AGAAAAAAAAATTGAG
Found at i:24825097 original size:21 final size:21
Alignment explanation
Indices: 24825073--24825118 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
24825063 AAAAGAAGGT
*
24825073 GAAACAGAAAGAGAGCGTGAG
1 GAAAAAGAAAGAGAGCGTGAG
* *
24825094 GAAAAAGAAAGTGAGCGTGAT
1 GAAAAAGAAAGAGAGCGTGAG
24825115 GAAA
1 GAAA
24825119 GTGTGAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.35, T:0.09
Consensus pattern (21 bp):
GAAAAAGAAAGAGAGCGTGAG
Found at i:24826022 original size:244 final size:245
Alignment explanation
Indices: 24825731--24826456 Score: 1346
Period size: 244 Copynumber: 3.0 Consensus size: 245
24825721 CTTTCGAAAG
*
24825731 AAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGTATGTATAA
1 AAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGCATGTATAA
24825796 TTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAATC
66 TTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAATC
* *
24825861 CCGAAGATTTTTGTTTTATATCATTAAAGGGAATTGAGTGCCAAATTTTTACATCACTTAAATTC
131 CCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGCCAAATTTTTACATCACTTAAATTC
24825926 ATGAAATGCGTCCGATTAATCTATGTGTCACCATTGATTCATGCATTCC-
196 ATGAAATGCGTCCGATTAATCTATGTGTCACCATTGATTCATGCATTCCA
* *
24825975 AAGTTTGAGAGTTTTGTTTGTTTGAACATGAATTTGCTTATTTCTTCTTTGTTTAGCATGTATAA
1 AAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGCATGTATAA
24826040 TTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAATC
66 TTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAATC
*
24826105 CCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGTCAAATTTTTACATCACTTAAATTC
131 CCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGCCAAATTTTTACATCACTTAAATTC
*
24826170 ATGAAATACGTCCGATTAATCTATGTGTCACCATTGATTCATGCATTCCAAAA
196 ATGAAATGCGTCCGATTAATCTATGTGTCACCATTGATTCATGCATTCC---A
24826223 TAAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGCATGTATA
1 -AAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGCATGTATA
24826288 ATTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAAT
65 ATTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAAT
24826353 CCCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGCCAAATTTTTACATCACTTAAATT
130 CCCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGCCAAATTTTTACATCACTTAAATT
24826418 CATGAAATGCGTCCGATTAATCTATGTGTCACCATTGAT
195 CATGAAATGCGTCCGATTAATCTATGTGTCACCATTGAT
24826457 ATCAAAAGTG
Statistics
Matches: 466, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
244 237 0.51
249 229 0.49
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (245 bp):
AAGTTTGAGAGTTTTGTTTGTCTGAACATGAATTTGCTTAATTCTTCTTTGTTTAGCATGTATAA
TTTTCTCTTGAAAGAACGACATTTGATTCATTCCAAAATAAGTGATCCAAATCATGTTTTCAATC
CCGAAGATTGTTGTTTTATATCATTAAAGGGAATTGAGCGCCAAATTTTTACATCACTTAAATTC
ATGAAATGCGTCCGATTAATCTATGTGTCACCATTGATTCATGCATTCCA
Found at i:24833061 original size:37 final size:38
Alignment explanation
Indices: 24833020--24833117 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
24833010 GTACATGTTG
*
24833020 ATGCAGTGACATTCTTGGGTGCAA-TTGAAGAATACTT
1 ATGCAGTGACATTCTTGGATGCAATTTGAAGAATACTT
* *
24833057 ATGCAGTGATAGTT-TTGGATGCAATTTGAAGAATATTT
1 ATGCAGTGACA-TTCTTGGATGCAATTTGAAGAATACTT
** *
24833095 ATGCAACGACAGTCTTGGATGCA
1 ATGCAGTGACATTCTTGGATGCA
24833118 TTCCAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
37 20 0.39
38 31 0.61
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (38 bp):
ATGCAGTGACATTCTTGGATGCAATTTGAAGAATACTT
Found at i:24833097 original size:38 final size:37
Alignment explanation
Indices: 24833020--24833186 Score: 119
Period size: 37 Copynumber: 4.5 Consensus size: 37
24833010 GTACATGTTG
*
24833020 ATGCAGTGACA-TTCTTGGGTGCAATTGAAGAATACTT
1 ATGCAGTGACAGTT-TTGGATGCAATTGAAGAATACTT
* *
24833057 ATGCAGTGATAGTTTTGGATGCAATTTGAAGAATATTT
1 ATGCAGTGACAGTTTTGGATGCAA-TTGAAGAATACTT
** * * *
24833095 ATGCAACGACAGTCTTGGATGC-ATTCCAAAAATA-TT
1 ATGCAGTGACAGTTTTGGATGCAATT-GAAGAATACTT
* * * * *
24833131 CCTGCGGTGACAGTTTTGGGTGCAATCTG--GAAGTGCTC
1 -ATGCAGTGACAGTTTTGGATGCAAT-TGAAGAA-TACTT
*
24833169 ATGCAGCGACAGTTTTGG
1 ATGCAGTGACAGTTTTGG
24833187 GCGCAATCTA
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
36 6 0.06
37 58 0.58
38 35 0.35
39 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (37 bp):
ATGCAGTGACAGTTTTGGATGCAATTGAAGAATACTT
Found at i:24833180 original size:37 final size:37
Alignment explanation
Indices: 24833139--24833209 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
24833129 TTCCTGCGGT
* * *
24833139 GACAGTTTTGGGTGCAATCTGGAAGTGCTCATGCAGC
1 GACAGTTTTGGGCGCAATCTAGAAGAGCTCATGCAGC
24833176 GACAGTTTTGGGCGCAATCTAGAAGAGCTCATGC
1 GACAGTTTTGGGCGCAATCTAGAAGAGCTCATGC
24833210 GGTGACATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
GACAGTTTTGGGCGCAATCTAGAAGAGCTCATGCAGC
Found at i:24833230 original size:37 final size:37
Alignment explanation
Indices: 24833139--24833230 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 37
24833129 TTCCTGCGGT
* * * *
24833139 GACAGTTTTGGGTGCAATCTGGAAGTGCTCATGCAGC
1 GACAGTTCTAGGTGCAATCTAGAAGAGCTCATGCAGC
* * * * *
24833176 GACAGTTTTGGGCGCAATCTAGAAGAGCTCATGCGGT
1 GACAGTTCTAGGTGCAATCTAGAAGAGCTCATGCAGC
24833213 GACA-TGTCTAGGTGCAAT
1 GACAGT-TCTAGGTGCAAT
24833231 TCTGGATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
GACAGTTCTAGGTGCAATCTAGAAGAGCTCATGCAGC
Found at i:24833919 original size:20 final size:20
Alignment explanation
Indices: 24833880--24833974 Score: 95
Period size: 20 Copynumber: 4.7 Consensus size: 20
24833870 TTTTGAAACA
*
24833880 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
24833902 ATTTTAAACAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * *
24833922 ATTTCAACCAAGTCAAAATC
1 ATTTTAAACAAGTCAAAATG
*
24833942 ATTTT-AGCACA-TCAAAATG
1 ATTTTAAACA-AGTCAAAATG
24833961 ATTTTTAAACAAGT
1 A-TTTTAAACAAGT
24833975 GAGAATTGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.18
20 38 0.62
21 7 0.11
22 5 0.08
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:24858182 original size:17 final size:17
Alignment explanation
Indices: 24858162--24858195 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24858152 CGTCGATAAA
24858162 TAAAATG-TAGTGACAAT
1 TAAAATGTTA-TGACAAT
24858179 TAAAATGTTATGACAAT
1 TAAAATGTTATGACAAT
24858196 GCAATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (17 bp):
TAAAATGTTATGACAAT
Found at i:24862343 original size:41 final size:41
Alignment explanation
Indices: 24862068--24862334 Score: 367
Period size: 41 Copynumber: 6.5 Consensus size: 41
24862058 ACTTGATGTA
*
24862068 TAAATGGAAGACTCATG--TCGAGATGAGCATGAGATTATAT
1 TAAA-GGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
* * * *
24862108 TAAGGGAAGACTCAAGTCTCGAGATGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
* * *
24862149 TAAAGGAAGACTCGTGACTTGAAATGAGCATGAAATTATAT
1 TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
* *
24862190 TAAAGGAAGACTCATGACTCGAAATGAGCAGGAGAGTATAT
1 TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
* *
24862231 TAAAGGAAGACTCATGACTCAAAATGAGCATCAGATTATAT
1 TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
* *
24862272 TAAAGGAAGACTCATGACTCGAGATGAGCATGAAATTATACT
1 TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATA-T
*
24862314 TAAAGGAAGACTTATGACTCG
1 TAAAGGAAGACTCATGACTCG
24862335 GTAGAGCATA
Statistics
Matches: 201, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.05
40 3 0.01
41 166 0.83
42 21 0.10
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (41 bp):
TAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATAT
Found at i:24863049 original size:21 final size:21
Alignment explanation
Indices: 24862999--24863049 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
24862989 GGAGTTTTTG
*
24862999 GTATCAGTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * *
24863020 GTTTTGGTAGAAGTCAT-ACTT
1 GTATCGGTAGAAG-CATGACAT
24863041 GTATCGGTA
1 GTATCGGTA
24863050 ATATTATCAC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:24877102 original size:12 final size:12
Alignment explanation
Indices: 24877085--24877110 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24877075 TTGATACCAA
24877085 ATGATATGCGAG
1 ATGATATGCGAG
24877097 ATGATATGCGAG
1 ATGATATGCGAG
24877109 AT
1 AT
24877111 ATGAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (12 bp):
ATGATATGCGAG
Found at i:24877732 original size:23 final size:25
Alignment explanation
Indices: 24877704--24877753 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24877694 AAAAAAGGGT
24877704 GGTGAGA-GAAG-GAGAAATAAAGG
1 GGTGAGATGAAGTGAGAAATAAAGG
* *
24877727 GGTGAGATGGAGTGAGACATAAAGG
1 GGTGAGATGAAGTGAGAAATAAAGG
24877752 GG
1 GG
24877754 AAGAATAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 3 0.13
25 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.46, T:0.12
Consensus pattern (25 bp):
GGTGAGATGAAGTGAGAAATAAAGG
Found at i:24885029 original size:52 final size:52
Alignment explanation
Indices: 24884945--24885177 Score: 267
Period size: 52 Copynumber: 4.5 Consensus size: 52
24884935 AAAAGGGTTC
*
24884945 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTTAAAGGTCT
1 GATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTTAAAGGTCT
* *
24884997 GATGACTAAGTGTCATCATGAG-ATATGAAATCCTTTATGGATTTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTATATG-AATCCTTTATGGATTTAAAGGTCT
* * *
24885049 AATGACTAAGTGTCATCGTGAGTATATGGATCCTTTACGGA-TTAAGAGGTCT
1 GATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTTAA-AGGTCT
** * * * ** *
24885101 GATGACTCTGTGTCATCGTCAGTATACGAATCCCTCGTGGA-TTATAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTTA-AAGGTCT
*
24885153 GATAACTATA-TGTCATCGTGAGTAT
1 GATGACTA-AGTGTCATCGTGAGTAT
24885178 TAAATGAAAT
Statistics
Matches: 153, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
51 8 0.05
52 139 0.91
53 6 0.04
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (52 bp):
GATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTTAAAGGTCT
Found at i:24890274 original size:31 final size:31
Alignment explanation
Indices: 24890239--24890303 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
24890229 AACATAATGA
24890239 AGAATGAACAATGTTAGATTGTATTGGACTT
1 AGAATGAACAATGTTAGATTGTATTGGACTT
*
24890270 AGAATGAACCATGTTAGATTGTATTGGACTT
1 AGAATGAACAATGTTAGATTGTATTGGACTT
24890301 AGA
1 AGA
24890304 GATATATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (31 bp):
AGAATGAACAATGTTAGATTGTATTGGACTT
Found at i:24891533 original size:130 final size:129
Alignment explanation
Indices: 24891267--24891527 Score: 443
Period size: 130 Copynumber: 2.0 Consensus size: 129
24891257 ATATATATGT
24891267 TAATATAAATTATATGTTAAAAATTATAAAGTTTGAGGATTGGAATTTATTAAATCCTTATTAGA
1 TAATATAAATTATATGTTAAAAATTATAAAGTTTGAGGATTGGAATTTATTAAATCCTTATTAGA
* * *
24891332 AGTAAAAAAAAATTAGAAGGATATAGAAGGGAAAAGAGATCACCCACCACCACATTGCTATATG
66 AGTAAAAAAAAATTAGAAGGATATAGAAGGGAAAAGAGATCACCCACCACCACATTGCCAAAAG
*
24891396 TTAATATAAATTATATGTTAAAATTTATAAAGTTTGAGGATTGGAATTTATTAAATCCTTATTAG
1 -TAATATAAATTATATGTTAAAAATTATAAAGTTTGAGGATTGGAATTTATTAAATCCTTATTAG
24891461 AAGTAAAAAAAAAAATTAGAAGGATATAGAA-GGAAAAGAGATCACCCACCACCACATTGCCACA
65 AAGT--AAAAAAAAATTAGAAGGATATAGAAGGGAAAAGAGATCACCCACCACCACATTGCCA-A
24891525 AAG
127 AAG
24891528 GATATATATT
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
130 67 0.54
131 30 0.24
132 27 0.22
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (129 bp):
TAATATAAATTATATGTTAAAAATTATAAAGTTTGAGGATTGGAATTTATTAAATCCTTATTAGA
AGTAAAAAAAAATTAGAAGGATATAGAAGGGAAAAGAGATCACCCACCACCACATTGCCAAAAG
Found at i:24895526 original size:93 final size:95
Alignment explanation
Indices: 24895418--24895610 Score: 257
Period size: 93 Copynumber: 2.0 Consensus size: 95
24895408 TATTTTGTCG
*
24895418 ATTTTTTTTCGCTTAAGAATGTATTGGCCTTTTTAACGCGAAATGGAATGACAACCCAAGCAACC
1 ATTTTTTTTC-CTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCAACC
*
24895483 CA-CCTTGGTTACTCAACCCAACACACT-CCA
65 CATCC-CGGTTACTCAACCCAACACACTCCCA
* * * * * *
24895513 ATTTTTTTT-CTTAAGAATGTATTGGCCCTTTTGATGTGAAATGGAATGACAATCCAAGCATCCT
1 ATTTTTTTTCCTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCAACCC
**
24895577 ATCCCGGTTACTCAGTCCAACACACTCCCA
66 ATCCCGGTTACTCAACCCAACACACTCCCA
24895607 ATTT
1 ATTT
24895611 AGTTTTTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
93 68 0.79
94 9 0.10
95 9 0.10
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (95 bp):
ATTTTTTTTCCTTAAGAATGTATTGGCCCTTTTAACGCGAAATGGAATGACAACCCAAGCAACCC
ATCCCGGTTACTCAACCCAACACACTCCCA
Found at i:24896365 original size:13 final size:13
Alignment explanation
Indices: 24896347--24896371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24896337 ACAAGCAAGA
24896347 AAATAAAAATAAT
1 AAATAAAAATAAT
24896360 AAATAAAAATAA
1 AAATAAAAATAA
24896372 AATTGGGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:24906150 original size:30 final size:31
Alignment explanation
Indices: 24906107--24906230 Score: 136
Period size: 30 Copynumber: 4.2 Consensus size: 31
24906097 GCTTTATTTT
24906107 AAAA-TAT-TTTTGACCCCTAAACTGTTC-A
1 AAAATTATATTTTGACCCCTAAACTGTTCTA
* *
24906135 AAAATTATATTTTGACCACC-AAACT-ATCCA
1 AAAATTATATTTTGACC-CCTAAACTGTTCTA
* *
24906165 AAAATTATATTTCGACCCCCAAACTG-TCTA
1 AAAATTATATTTTGACCCCTAAACTGTTCTA
* *
24906195 AAAATTATTTTTTAACCCCTAAACT-TTCTA
1 AAAATTATATTTTGACCCCTAAACTGTTCTA
24906225 AAAATT
1 AAAATT
24906231 TGAATTTGAC
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.05
29 7 0.09
30 69 0.84
31 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.35
Consensus pattern (31 bp):
AAAATTATATTTTGACCCCTAAACTGTTCTA
Found at i:24906242 original size:60 final size:59
Alignment explanation
Indices: 24906107--24906247 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 59
24906097 GCTTTATTTT
* * *
24906107 AAAA-TATTTTTGACCCCTAAACTGTTCAAAAATTATATTTTGACCACCAAACTATCCA
1 AAAATTATATTTGACCCCCAAACTGTTCAAAAATTATATTTTAACCACCAAACTATCCA
* * *
24906165 AAAATTATATTTCGACCCCCAAACTG-TCTAAAAATTATTTTTTAACC-CCTAAACTTTCTA
1 AAAATTATATTT-GACCCCCAAACTGTTC-AAAAATTATATTTTAACCACC-AAACTATCCA
*
24906225 AAAATT-TGAATTTGACCCTCAAA
1 AAAATTAT--ATTTGACCCCCAAA
24906248 TTTTCCAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
58 4 0.06
59 11 0.16
60 51 0.73
61 4 0.06
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (59 bp):
AAAATTATATTTGACCCCCAAACTGTTCAAAAATTATATTTTAACCACCAAACTATCCA
Found at i:24906292 original size:31 final size:30
Alignment explanation
Indices: 24906209--24906292 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 30
24906199 TTATTTTTTA
* * * **
24906209 ACCCCTAAACTTTCTAAAAATTTGAATTTG
1 ACCCCCAAATTTTCCAAAAATTCCAATTTG
*
24906239 ACCCTCAAATTTTCC-AAAATTCCAATTTG
1 ACCCCCAAATTTTCCAAAAATTCCAATTTG
24906268 ACCCCCAAATTTTCCAAAAAATTCC
1 ACCCCCAAATTTTCC-AAAAATTCC
24906293 GACTTGAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 26 0.58
30 11 0.24
31 8 0.18
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (30 bp):
ACCCCCAAATTTTCCAAAAATTCCAATTTG
Found at i:24910477 original size:22 final size:22
Alignment explanation
Indices: 24910451--24910496 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
24910441 ATCGTGAATC
24910451 AAAATAAAAA-AAAGATTAATTA
1 AAAATAAAAAGAAA-ATTAATTA
24910473 AAAATAAAAAGAAAATTAATTA
1 AAAATAAAAAGAAAATTAATTA
24910495 AA
1 AA
24910497 TTTTATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAATAAAAAGAAAATTAATTA
Found at i:24910615 original size:30 final size:29
Alignment explanation
Indices: 24910581--24910967 Score: 289
Period size: 30 Copynumber: 12.9 Consensus size: 29
24910571 TATTTTTAGA
*
24910581 AAAGTTTAGGGGTAAAAATGTAATTTTAGG
1 AAAGTTTAGGGGTTAAAATGTAATTTT-GG
* * *
24910611 AAAGTTTA-GGGTCAAAATATAATTTTGA
1 AAAGTTTAGGGGTTAAAATGTAATTTTGG
* * *
24910639 AAAGGTTT-GGAGGTCAAAATGTGATTTTAG
1 AAA-GTTTAGG-GGTTAAAATGTAATTTTGG
*
24910669 AGAAGTTTAAGGGTTAAAATGTAATTTTGG
1 A-AAGTTTAGGGGTTAAAATGTAATTTTGG
*
24910699 AATGGTTT-GGGGTTAAAATGTGATTATTTTGG
1 AA-AGTTTAGGGGTTAAAATGT-A--ATTTTGG
* *
24910731 AGAAGTTTGGGGGTTAAAATGTAATTTTAGA
1 A-AAGTTTAGGGGTTAAAATGTAATTTT-GG
** *
24910762 AAAGTTT-GAGGGTTAAAATGCCATTTTAGA
1 AAAGTTTAG-GGGTTAAAATGTAATTTT-GG
*** *
24910792 AAAGTTTAGCTATCAAAATGTAATTTTGG
1 AAAGTTTAGGGGTTAAAATGTAATTTTGG
* *
24910821 AAAAGTTTAAGGGTCAAAATGTAATTTTGGG
1 -AAAGTTTAGGGGTTAAAATGTAATTTT-GG
* * * *
24910852 TAAGTTTAAGGGTTAAAATATGATTTTGGG
1 AAAGTTTAGGGGTTAAAATGTAATTTT-GG
** * *
24910882 AAAGTTTATAGGTTAAAATATGATTTTGG
1 AAAGTTTAGGGGTTAAAATGTAATTTTGG
* * * *
24910911 AAAAGTTTAGGGGTCAAAATGTGATTTCGAA
1 -AAAGTTTAGGGGTTAAAATGTAATTTTG-G
*
24910942 AAAGTTT-GGGGTTAAAATGTGATTTT
1 AAAGTTTAGGGGTTAAAATGTAATTTT
24910968 TAAAGAAAAT
Statistics
Matches: 296, Mismatches: 43, Indels: 37
0.79 0.11 0.10
Matches are distributed among these distances:
28 4 0.01
29 55 0.19
30 202 0.68
31 8 0.03
32 13 0.04
33 14 0.05
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTGG
Done.