Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 27 of 132
Found at i:7523388 original size:3 final size:3
Alignment explanation
Indices: 7523380--7523408 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7523370 AAATTAAAAT
7523380 GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7523409 ATTGGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7523461 original size:31 final size:30
Alignment explanation
Indices: 7523426--7523527 Score: 138
Period size: 29 Copynumber: 3.4 Consensus size: 30
7523416 ATTAAAATTA
*
7523426 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTATTATTT-TAAAAAATAAT
*
7523457 TTTAATAATTTTA-TATTTTTAAAAATAA-
1 TTTAATAATTTTATTATTTTAAAAAATAAT
*
7523485 TTTAA-AATTTTTTCTATTTTAAAAAATAAT
1 TTTAATAATTTTAT-TATTTTAAAAAATAAT
7523515 TTTAATAATTTTA
1 TTTAATAATTTTA
7523528 AAATCATTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 6 0.10
28 5 0.08
29 22 0.35
30 10 0.16
31 19 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAATAATTTTATTATTTTAAAAAATAAT
Found at i:7526157 original size:17 final size:17
Alignment explanation
Indices: 7526120--7526162 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7526110 CTGTTGAAAA
7526120 TTTCAATCAATTGAATAT
1 TTTCAA-CAATTGAATAT
* *
7526138 TTTCAACAATTTAATTT
1 TTTCAACAATTGAATAT
*
7526155 TTTAAACA
1 TTTCAACA
7526163 CCTTTGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTCAACAATTGAATAT
Found at i:7528756 original size:25 final size:26
Alignment explanation
Indices: 7528702--7528761 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
7528692 AAAATGTTTA
7528702 AATT-AAATTATCAATTTTTCAAAAT
1 AATTAAAATTATCAATTTTTCAAAAT
* *
7528727 GATTAAAATTAT-AATTTTTTC-AATT
1 AATTAAAATTATCAA-TTTTTCAAAAT
7528752 AATTAAAATT
1 AATTAAAATT
7528762 TAAAAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTAAAATTATCAATTTTTCAAAAT
Found at i:7535968 original size:228 final size:228
Alignment explanation
Indices: 7535749--7536641 Score: 1482
Period size: 228 Copynumber: 3.9 Consensus size: 228
7535739 AAGCCTCAAA
* * * * * ** *
7535749 ACAAGGTGAAGGGTCGATTCCTTCTGGATGTTATAATCAGCCAAGGTCCTCCCATCCTCAAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
* * * * * * * *
7535814 CTTCCCTGCAAAGATCAAACGTTGTTGGTCTGGTGGGATGCCTTCCTTGTCTTGGATTTTAGACT
66 TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* * *
7535879 TGACATTATCGATAGTGTCCGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
131 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
*
7535944 ACGAAGATCTGCATACCCCCACGAAGACGGAGC
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
*
7535977 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCGTCCTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
* *
7536042 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGTATGCCTTCCTTGTCTTGAATTTTAGACT
66 TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
7536107 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
131 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
7536172 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
7536205 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
*
7536270 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
66 TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
7536335 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
131 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
7536400 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
*
7536433 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCGTCCTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
* *
7536498 TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTATCTTGAATTTTAGCCT
66 TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* * * *
7536563 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGG-TAAGGGTTTT
131 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAA-GGTTTT
*
7536627 GACGAAGATCTGCAT
195 CACGAAGATCTGCAT
7536642 CTTTGGAGAG
Statistics
Matches: 630, Mismatches: 34, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
227 3 0.00
228 627 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (228 bp):
ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCCTCGAGCTG
TTTGCCGGCAAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTC
ACGAAGATCTGCATACCCCCACGAAGACGGAGG
Found at i:7537377 original size:22 final size:24
Alignment explanation
Indices: 7537329--7537381 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
7537319 CCCAATTATT
* * *
7537329 TAAAAGAATATAAATATTTTAATA
1 TAAAATAATATAAATATATTAAGA
7537353 TAAAATAAT-TAAATA-ATTAAGA
1 TAAAATAATATAAATATATTAAGA
7537375 TAAAATA
1 TAAAATA
7537382 TGTAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 6 0.23
24 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAAATAATATAAATATATTAAGA
Found at i:7538860 original size:18 final size:17
Alignment explanation
Indices: 7538828--7538869 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
7538818 TTTTAAGTTC
*
7538828 ATTATTCTTTATATTAT
1 ATTATTTTTTATATTAT
7538845 ATTATTTTTATATATTAT
1 ATTATTTTT-TATATTAT
*
7538863 ATAATTT
1 ATTATTT
7538870 AAAACACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTTTTTATATTAT
Found at i:7544898 original size:43 final size:42
Alignment explanation
Indices: 7544849--7545030 Score: 231
Period size: 42 Copynumber: 4.3 Consensus size: 42
7544839 TTATGCGAAA
* *
7544849 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCTCTTTTACAAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTT-CCAC
* ****
7544892 AAGCGCCGCTAAAGGCCATGTTATTTAGCGGCGCTTGAGGGA-
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTT-TTCCAC
* *
7544934 AAGCGCCGCTAAAGTCCATGTTCTTTAGCGACGCTTTTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCAC
* *
7544976 AAGCGCCACTAAAGGCCATGTTCTTTAGCGGCGCATTCTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGC-TTTTCCAC
7545019 AAGCGCCGCTAA
1 AAGCGCCGCTAA
7545031 TATAACAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 64 0.54
43 53 0.45
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCAC
Found at i:7545030 original size:85 final size:85
Alignment explanation
Indices: 7544848--7545009 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 85
7544838 TTTATGCGAA
* * *
7544848 AAAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCTCTTTTACAACAAGCGCCGCTAAAGGCCATGT
1 AAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTACAACAAGCGCCACTAAAGGCCATGT
**
7544913 TATTTAGCGGCGCTTGAGGG
66 TATTTAGCGGCGCTTGAGCC
* *
7544933 AAAGCGCCGCTAAAGTCCATGTTCTTTAGCGACGCTTTT-CCACAAGCGCCACTAAAGGCCATGT
1 AAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTACAACAAGCGCCACTAAAGGCCATGT
*
7544997 TCTTTAGCGGCGC
66 TATTTAGCGGCGC
7545010 ATTCTCCACA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 35 0.49
85 36 0.51
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTACAACAAGCGCCACTAAAGGCCATGT
TATTTAGCGGCGCTTGAGCC
Found at i:7545337 original size:11 final size:11
Alignment explanation
Indices: 7545321--7545358 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7545311 TTCCTTCGCT
7545321 TGCCTCGCTGC
1 TGCCTCGCTGC
7545332 TGCCTC-C-GC
1 TGCCTCGCTGC
7545341 TTGCCTCGCTGC
1 -TGCCTCGCTGC
7545353 TGCCTC
1 TGCCTC
7545359 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:7545354 original size:24 final size:21
Alignment explanation
Indices: 7545307--7545359 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
7545297 CTTGTAGTCT
* *
7545307 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
7545328 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
7545349 CTGCTGCCTCC
1 CTGCTGCCTCC
7545360 ACTTTAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:7545460 original size:66 final size:66
Alignment explanation
Indices: 7545349--7545502 Score: 238
Period size: 66 Copynumber: 2.3 Consensus size: 66
7545339 GCTTGCCTCG
* * * *
7545349 CTGCTGCCTCCACTTTAAGTTGTAAGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTTTAAGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
7545414 A
66 A
*
7545415 CTGCAGCCTCCTCTTTAAGTTTT-AGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCT
1 CTGCAGCCTCCTCTTTAAGTTTTAAG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCT
*
7545479 CG
65 CA
7545481 CTGCAGCCTCCTCTTTAAGTTT
1 CTGCAGCCTCCTCTTTAAGTTT
7545503 AGCAATTTGC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
65 2 0.02
66 79 0.98
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (66 bp):
CTGCAGCCTCCTCTTTAAGTTTTAAGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
A
Found at i:7547104 original size:30 final size:30
Alignment explanation
Indices: 7547070--7547143 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
7547060 TTTAACTATT
7547070 AAATATTTAATTATATATAACTAAATAATA
1 AAATATTTAATTATATATAACTAAATAATA
7547100 AAATATTTAATTATATATAACTAAATAATA
1 AAATATTTAATTATATATAACTAAATAATA
7547130 AAATATTTAATTAT
1 AAATATTTAATTAT
7547144 TAAATATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATATTTAATTATATATAACTAAATAATA
Found at i:7547208 original size:8 final size:8
Alignment explanation
Indices: 7547186--7547269 Score: 60
Period size: 8 Copynumber: 10.1 Consensus size: 8
7547176 GGTTATTTTT
7547186 AATAATTAA
1 AATAATT-A
7547195 ATATAATTA
1 A-ATAATTA
7547204 AATAATTA
1 AATAATTA
*
7547212 ACTAATTA
1 AATAATTA
*
7547220 AATATTTGA
1 AATAATT-A
* ** *
7547229 ATTTTTTT
1 AATAATTA
7547237 AATAATTA
1 AATAATTA
*
7547245 AATTATTA
1 AATAATTA
*
7547253 AATATTTA
1 AATAATTA
*
7547261 AATATTTA
1 AATAATTA
7547269 A
1 A
7547270 TTAGTAATAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
8 45 0.75
9 9 0.15
10 6 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
AATAATTA
Found at i:7550249 original size:41 final size:42
Alignment explanation
Indices: 7550170--7550249 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
7550160 ATTTATTATT
7550170 TGACTTTTAGCGGCGCTTTTAACATAAGCGCCGCTAATGATC
1 TGACTTTTAGCGGCGCTTTTAACATAAGCGCCGCTAATGATC
*
7550212 TGACTTTTAGCGGCGCTTTT-TCATAAGCGCCGCTAATG
1 TGACTTTTAGCGGCGCTTTTAACATAAGCGCCGCTAATG
7550250 CTCTTTTCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 17 0.46
42 20 0.54
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (42 bp):
TGACTTTTAGCGGCGCTTTTAACATAAGCGCCGCTAATGATC
Found at i:7551699 original size:41 final size:40
Alignment explanation
Indices: 7551655--7551931 Score: 288
Period size: 41 Copynumber: 6.8 Consensus size: 40
7551645 GCTTATGGGA
* * *
7551655 AAGCGCCGCTATTGCTCCGACCTTTAACGGCGCTTCCCGAA
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTCCC-AT
* *
7551696 AAGCGCCGCTGTTGCTTCGACCTTTAGCGGCGCTTGCACAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTT-CCCAT
* * *
7551737 AAGCGTCGCTGTTGCTCCGACCTTTAGTGGCGCCTGCCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCG-CTTCCCAT
* ***
7551778 AAGCGCCGCTGTTGCTCCGACCTTTAGCAGCGCTTATGGGA-
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGC-T-TCCCAT
* * * *
7551819 AAGCGCCACTGTTGCTCCGACATTTAGCGGCGCTTTACCGT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGC-TTCCCAT
* *
7551860 AAGCGTCGCTGTTGCTCCGACCTTTAGCGGCGCTTTTCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGC-TTCCCAT
* * *
7551901 AAGCGCCGCTATTGCT-CTACCTTTTGCGGCG
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCG
7551932 TTTTCTTTCC
Statistics
Matches: 198, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
40 15 0.08
41 178 0.90
42 5 0.03
ACGTcount: A:0.15, C:0.32, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTCCCAT
Found at i:7551741 original size:82 final size:82
Alignment explanation
Indices: 7551655--7551931 Score: 321
Period size: 82 Copynumber: 3.4 Consensus size: 82
7551645 GCTTATGGGA
* * *
7551655 AAGCGCCGCTATTGCTCCGACCTTTAACGGCGCTTCCCGAAAAGCGCCGCTGTTGCTTCGACCTT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCCCGATAAGCGCCGCTGTTGCTCCGACCTT
7551720 TAGCGGCGC-TTGCACAT
66 TAGCGGCGCTTTGC-CAT
* * * *
7551737 AAGCGTCGCTGTTGCTCCGACCTTTAGTGGCGCCTGCCC-ATAAGCGCCGCTGTTGCTCCGACCT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCG-CTTCCCGATAAGCGCCGCTGTTGCTCCGACCT
* **
7551801 TTAGCAGCGCTTATGGGA-
65 TTAGCGGCGCTT-TGCCAT
* * * * *
7551819 AAGCGCCACTGTTGCTCCGACATTTAGCGGCGCTTTACCG-TAAGCGTCGCTGTTGCTCCGACCT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGC-TTCCCGATAAGCGCCGCTGTTGCTCCGACCT
*
7551883 TTAGCGGCGCTTTTCCAT
65 TTAGCGGCGCTTTGCCAT
* *
7551901 AAGCGCCGCTATTGCT-CTACCTTTTGCGGCG
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCG
7551932 TTTTCTTTCC
Statistics
Matches: 163, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
81 15 0.09
82 139 0.85
83 7 0.04
84 2 0.01
ACGTcount: A:0.15, C:0.32, G:0.26, T:0.27
Consensus pattern (82 bp):
AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCCCGATAAGCGCCGCTGTTGCTCCGACCTT
TAGCGGCGCTTTGCCAT
Found at i:7551863 original size:123 final size:123
Alignment explanation
Indices: 7551655--7551917 Score: 366
Period size: 123 Copynumber: 2.1 Consensus size: 123
7551645 GCTTATGGGA
* * * * *
7551655 AAGCGCCGCTATTGCTCCGACCTTTAACGGCGCTTCCCGAAAAGCGCCGCTGTTGCTTCGACCTT
1 AAGCGCCGCTATTGCTCCGACCTTTAACAGCGCTTACCGAAAAGCGCCACTGTTGCTCCGACATT
* *
7551720 TAGCGGCGCTTGCACATAAGCGTCGCTGTTGCTCCGACCTTTAGTGGCGCCTGCCCAT
66 TAGCGGCGCTTACACATAAGCGTCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCAT
* * ** *
7551778 AAGCGCCGCTGTTGCTCCGACCTTTAGCAGCGCTTATGGGAAAGCGCCACTGTTGCTCCGACATT
1 AAGCGCCGCTATTGCTCCGACCTTTAACAGCGCTTACCGAAAAGCGCCACTGTTGCTCCGACATT
* * **
7551843 TAGCGGCGCTTTAC-CGTAAGCGTCGCTGTTGCTCCGACCTTTAGCGGCGCTTTTCCAT
66 TAGCGGCGC-TTACACATAAGCGTCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCAT
7551901 AAGCGCCGCTATTGCTC
1 AAGCGCCGCTATTGCTC
7551918 TACCTTTTGC
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
123 119 0.98
124 3 0.02
ACGTcount: A:0.16, C:0.33, G:0.25, T:0.26
Consensus pattern (123 bp):
AAGCGCCGCTATTGCTCCGACCTTTAACAGCGCTTACCGAAAAGCGCCACTGTTGCTCCGACATT
TAGCGGCGCTTACACATAAGCGTCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCAT
Found at i:7553626 original size:4 final size:4
Alignment explanation
Indices: 7553619--7553648 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7553609 TTAACTATAT
*
7553619 ATAG ATAG ATAG AGAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
7553649 CACAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (4 bp):
ATAG
Found at i:7555183 original size:3 final size:3
Alignment explanation
Indices: 7555175--7555224 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
7555165 GAGGCTAGAG
7555175 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7555223 AT
1 AT
7555225 TGTGAAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7560537 original size:4 final size:4
Alignment explanation
Indices: 7560528--7560577 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
7560518 TTTTACGATG
* * * *
7560528 TAAA TAAA TAAA TAAG TAAA TAAA TAAC TCAA TAAA TAAA TAAC TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
7560576 TA
1 TA
7560578 TATATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:7560577 original size:16 final size:16
Alignment explanation
Indices: 7560528--7560577 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
7560518 TTTTACGATG
* *
7560528 TAAATAAATAAATAAG
1 TAAATAAATAACTAAA
*
7560544 TAAATAAATAACTCAA
1 TAAATAAATAACTAAA
7560560 TAAATAAATAACTAAA
1 TAAATAAATAACTAAA
7560576 TA
1 TA
7560578 TATATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAATAAATAACTAAA
Found at i:7570906 original size:32 final size:32
Alignment explanation
Indices: 7570846--7570932 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
7570836 GGTTTTTGGG
*
7570846 TTTGGGGATTTT---AATTTAGGTTTTAAAAT
1 TTTGGGGATTTTCGGAATTTAGGTTTCAAAAT
* **
7570875 TTTGGGGATTTTTGGGTTTTAGGTTTCAAAAT
1 TTTGGGGATTTTCGGAATTTAGGTTTCAAAAT
*
7570907 TTTTGGGATTTTCGGAATTTAGGTTT
1 TTTGGGGATTTTCGGAATTTAGGTTT
7570933 GGAGATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 12 0.25
32 36 0.75
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.52
Consensus pattern (32 bp):
TTTGGGGATTTTCGGAATTTAGGTTTCAAAAT
Found at i:7571918 original size:20 final size:21
Alignment explanation
Indices: 7571893--7571933 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7571883 AAATAATTTT
7571893 AATAATTTT-ATATTTTAAAA
1 AATAATTTTAATATTTTAAAA
7571913 AATAATTTTAATATTTTAAAA
1 AATAATTTTAATATTTTAAAA
7571934 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTTTAATATTTTAAAA
Found at i:7571922 original size:29 final size:31
Alignment explanation
Indices: 7571859--7571930 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
7571849 ATTAAAATTA
7571859 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
*
7571890 TTTAATAATTTTA-TATTT-TAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
7571919 TTTAAT-ATTTTA
1 TTTAATAATTTTA
7571931 AAATCATTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 6 0.15
29 16 0.40
30 5 0.12
31 13 0.32
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTCAAAAAAATAAT
Found at i:7573150 original size:17 final size:17
Alignment explanation
Indices: 7573128--7573161 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7573118 CCTATCTACA
7573128 TCAATGGCTGACCGACC
1 TCAATGGCTGACCGACC
7573145 TCAATGGCTGACCGACC
1 TCAATGGCTGACCGACC
7573162 GACTTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.18
Consensus pattern (17 bp):
TCAATGGCTGACCGACC
Found at i:7576139 original size:19 final size:20
Alignment explanation
Indices: 7576101--7576154 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
7576091 ACCCCAAATC
7576101 TTTAAACATTAAATCTCAAA
1 TTTAAACATTAAATCTCAAA
7576121 TTTAAA-ATTCAAA-CTCAAA
1 TTTAAACATT-AAATCTCAAA
*
7576140 CTCTAAACATTAAAT
1 -TTTAAACATTAAAT
7576155 TTCGAATCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 9 0.31
20 17 0.59
21 3 0.10
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTAAACATTAAATCTCAAA
Found at i:7577779 original size:3 final size:3
Alignment explanation
Indices: 7577771--7577809 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7577761 GATATTTAGT
7577771 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7577810 GTGAATATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7581553 original size:22 final size:22
Alignment explanation
Indices: 7581528--7581578 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7581518 GAATAGTTAA
*
7581528 ATTCTCTGACATGAACAATGAT
1 ATTCTCTGACATGAACAATGAG
* * *
7581550 ATTCTCTGTCATGAATATTGAG
1 ATTCTCTGACATGAACAATGAG
7581572 ATTCTCT
1 ATTCTCT
7581579 AACAAGATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (22 bp):
ATTCTCTGACATGAACAATGAG
Found at i:7581868 original size:14 final size:14
Alignment explanation
Indices: 7581828--7581868 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
7581818 TCTCAAAATT
7581828 AAATTTAAGTTTTA
1 AAATTTAAGTTTTA
* *
7581842 AAATTCAAATTTTA
1 AAATTTAAGTTTTA
7581856 AAATTTAAGTTTT
1 AAATTTAAGTTTT
7581869 CAAGTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTTAAGTTTTA
Found at i:7582874 original size:17 final size:16
Alignment explanation
Indices: 7582822--7582879 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
7582812 TTAAATGGGT
*
7582822 TTTAAATTTATTTTAA
1 TTTAAATTTACTTTAA
*
7582838 TTTTAAATTTAC--TCA
1 -TTTAAATTTACTTTAA
7582853 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTT-AA
*
7582870 TTTAAGTTTA
1 TTTAAATTTA
7582880 ATCAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.32
15 2 0.06
16 1 0.03
17 20 0.59
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAAATTTACTTTAA
Found at i:7583113 original size:26 final size:26
Alignment explanation
Indices: 7583084--7583135 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
7583074 ATGGGAGTTC
7583084 GCCACA-TCAGCAGCCAACTTGCTCCT
1 GCCACAGTCAGCAGCCAAC-TGCTCCT
* *
7583110 GCCACAGTCGGCTGCCAACTGCTCCT
1 GCCACAGTCAGCAGCCAACTGCTCCT
7583136 AACCGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (26 bp):
GCCACAGTCAGCAGCCAACTGCTCCT
Found at i:7584044 original size:15 final size:14
Alignment explanation
Indices: 7584024--7584054 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7584014 GTAAAAGATC
7584024 AAAAGAAAAGAATAA
1 AAAAGAAAAGAA-AA
7584039 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
7584053 AA
1 AA
7584055 GGGTGGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Found at i:7584850 original size:29 final size:30
Alignment explanation
Indices: 7584811--7584968 Score: 130
Period size: 29 Copynumber: 5.4 Consensus size: 30
7584801 TCCAAAATCT
7584811 CATTTTAACCCCGATTTTATCAAAAATTAC
1 CATTTTAACCCCGATTTTATCAAAAATTAC
* ** *
7584841 CATTTT-ACCCCTAAACTT-TCCAAAATT-C
1 CATTTTAACCCC-GATTTTATCAAAAATTAC
* * *
7584869 CATTTTAACCTCGGTTTCATCAAAAATTAC
1 CATTTTAACCCCGATTTTATCAAAAATTAC
* ** *
7584899 CATTTTACCCCCGAACTT-TCCAAAATT-C
1 CATTTTAACCCCGATTTTATCAAAAATTAC
* * *
7584927 TATTATTAACCCTGATTTCATCAAAAATTAC
1 CATT-TTAACCCCGATTTTATCAAAAATTAC
7584958 CATTTT-ACCCC
1 CATTTTAACCCC
7584969 TGAACTTTCC
Statistics
Matches: 94, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
28 12 0.13
29 46 0.49
30 32 0.34
31 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (30 bp):
CATTTTAACCCCGATTTTATCAAAAATTAC
Found at i:7584965 original size:59 final size:58
Alignment explanation
Indices: 7584774--7585028 Score: 341
Period size: 58 Copynumber: 4.3 Consensus size: 58
7584764 TAGACTATCT
* *
7584774 AAAAATTACCATTTTACCCATAAACTTTCCAAAA-TCTCATTTTAACCCCGATTTTATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTC-CATTTTAACCCCGATTTCATC
* *
7584832 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCTCGGTTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCATC
** * *
7584890 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTATTAACCCTGATTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATT-TTAACCCCGATTTCATC
* * * *
7584949 AAAAATTACCATTTTACCCCTGAACTTTCCAAGATTCCATTTTTTAACCCCAATTTCGTC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA--TTTTAACCCCGATTTCATC
* *
7585009 TAAAATTACCATTTTGCCCC
1 AAAAATTACCATTTTACCCC
7585029 GCGCGTCTAA
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
58 89 0.51
59 52 0.30
60 32 0.18
61 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCATC
Found at i:7584970 original size:30 final size:30
Alignment explanation
Indices: 7584811--7584971 Score: 126
Period size: 30 Copynumber: 5.5 Consensus size: 30
7584801 TCCAAAATCT
*
7584811 CATTTTAACCCC-GATTTTATCAAAAATTAC
1 CATTTT-ACCCCTGATTTCATCAAAAATTAC
*
7584841 CATTTTACCCCTAAACTTTC--C-AAAATT-C
1 CATTTTACCCCT-GA-TTTCATCAAAAATTAC
* *
7584869 CATTTTA-ACCTCGGTTTCATCAAAAATTAC
1 CATTTTACCCCT-GATTTCATCAAAAATTAC
*
7584899 CATTTTACCCCCGAACTTTC--C-AAAATT-C
1 CATTTTACCCCTG-A-TTTCATCAAAAATTAC
* *
7584927 TATTATTAACCCTGATTTCATCAAAAATTAC
1 CATT-TTACCCCTGATTTCATCAAAAATTAC
7584958 CATTTTACCCCTGA
1 CATTTTACCCCTGA
7584972 ACTTTCCAAG
Statistics
Matches: 102, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
26 4 0.04
27 7 0.07
28 14 0.14
29 31 0.30
30 32 0.31
31 7 0.07
32 7 0.07
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (30 bp):
CATTTTACCCCTGATTTCATCAAAAATTAC
Found at i:7584979 original size:117 final size:117
Alignment explanation
Indices: 7584774--7585028 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 117
7584764 TAGACTATCT
** *
7584774 AAAAATTACCATTTTACCCATAAACTTTCCAAAATCTCATTTTAACCCCGATTTTATCAAAAATT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCTCATTTTAACCCCGATTTCATCAAAAATT
* **
7584839 ACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCTCGGTTTCATC
66 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
* *
7584890 AAAAATTACCATTTTACCCCCGAACTTTCCAAAAT-TCTATTATTAACCCTGATTTCATCAAAAA
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCTC-ATT-TTAACCCCGATTTCATCAAAAA
* * *
7584954 TTACCATTTTACCCCTGAACTTTCCAAGATTCCATTTTTTAACCCCAATTTCGTC
64 TTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTTAACCCCAATTTCATC
* *
7585009 TAAAATTACCATTTTGCCCC
1 AAAAATTACCATTTTACCCC
7585029 GCGCGTCTAA
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
115 2 0.02
116 35 0.29
117 52 0.43
119 33 0.27
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCTCATTTTAACCCCGATTTCATCAAAAATT
ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
Found at i:7584992 original size:29 final size:29
Alignment explanation
Indices: 7584775--7584992 Score: 116
Period size: 29 Copynumber: 7.5 Consensus size: 29
7584765 AGACTATCTA
* *
7584775 AAAATTACCA-TTTTACCCATAAACTTTCC
1 AAAATT-CCATTTTTACCCCTGAACTTTCC
* ** *
7584804 AAAA-TCTCATTTTAACCCC-GATTTTATCA
1 AAAATTC-CATTTTTACCCCTGAACTT-TCC
*
7584833 AAAATTACCA-TTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTTACCCCTGAACTTTCC
* * *
7584862 AAAATTCCATTTTAACCTC-G--GTTTCATC
1 AAAATTCCATTTTTACCCCTGAACTTTC--C
*
7584890 AAAAATTACCA-TTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTTACCCCTGAACTTTCC
* * *
7584920 AAAATTCTATTATTAACCCTG-A-TTTCATC
1 AAAATTCCATTTTTACCCCTGAACTTTC--C
7584949 AAAAATTACCA-TTTTACCCCTGAACTTTCC
1 -AAAATT-CCATTTTTACCCCTGAACTTTCC
*
7584979 AAGATTCCATTTTT
1 AAAATTCCATTTTT
7584993 TAACCCCAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 44
0.67 0.12 0.21
Matches are distributed among these distances:
26 4 0.03
27 5 0.04
28 16 0.11
29 77 0.55
30 27 0.19
31 4 0.03
32 8 0.06
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCTGAACTTTCC
Found at i:7588533 original size:26 final size:26
Alignment explanation
Indices: 7588504--7588562 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
7588494 GATTATTACT
7588504 TATGAGAACTGAACTTTCTCTTTCAA
1 TATGAGAACTGAACTTTCTCTTTCAA
7588530 TATGAGAACTGAACTTTCTCTTTCAA
1 TATGAGAACTGAACTTTCTCTTTCAA
*
7588556 CATGAGA
1 TATGAGA
7588563 TTATGTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (26 bp):
TATGAGAACTGAACTTTCTCTTTCAA
Found at i:7590751 original size:29 final size:33
Alignment explanation
Indices: 7590711--7590775 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 33
7590701 TACATTAAAT
*
7590711 AACAAATCAA-TTAAAA-ATTAAAT-TAAACAA
1 AACAAATCAATTTAAAATAATAAATATAAACAA
7590741 AACAAAT-AATTTAAAATAATAAATACTAAACAA
1 AACAAATCAATTTAAAATAATAAATA-TAAACAA
7590774 AA
1 AA
7590776 TATAACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.07
30 13 0.43
31 6 0.20
33 9 0.30
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (33 bp):
AACAAATCAATTTAAAATAATAAATATAAACAA
Found at i:7591008 original size:4 final size:4
Alignment explanation
Indices: 7590987--7591029 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
7590977 TTCTCTCATT
* *
7590987 TTTC CTTC TTTC TATC TTTC TTTC TTTC TTTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TT
7591030 CTCTAGTGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:7591021 original size:13 final size:13
Alignment explanation
Indices: 7590992--7591029 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7590982 TCATTTTTCC
*
7590992 TTCTTTCTATC-T
1 TTCTTTCTTTCTT
7591004 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
7591017 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
7591030 CTCTAGTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTCTTTCTT
Found at i:7591859 original size:17 final size:17
Alignment explanation
Indices: 7591837--7591871 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7591827 AATATGAAAA
7591837 GTAATCTTAA-AAGATTT
1 GTAATC-TAATAAGATTT
7591854 GTAATCTAATAAGATTT
1 GTAATCTAATAAGATTT
7591871 G
1 G
7591872 ATTTTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (17 bp):
GTAATCTAATAAGATTT
Found at i:7592826 original size:53 final size:54
Alignment explanation
Indices: 7592713--7592858 Score: 163
Period size: 53 Copynumber: 2.7 Consensus size: 54
7592703 GTGTCGCCCG
*** **
7592713 TGCCATGGCCGAACA-CCCTTTTATCTGATAAACAAATATTTTTTTGGGTGTTGCTTA
1 TGCCATGGCC-AACACCCCTTTTATCTGATAAA-AAA-A-AAATTTGGGTGTCACTTA
7592770 TGCCATGGCCAAACACCCCTTTT-T-TGATAAAAAAAAAATTTGGGTGTCACTTA
1 TGCCATGGCC-AACACCCCTTTTATCTGATAAAAAAAAAATTTGGGTGTCACTTA
* *
7592823 TGCCATGGCCGACACCCCTTTTATCTGGTAAAAAAA
1 TGCCATGGCCAACACCCCTTTTATCTGATAAAAAAA
7592859 TATTTTTTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
52 11 0.14
53 24 0.31
54 11 0.14
55 3 0.04
56 7 0.09
57 15 0.19
58 7 0.09
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (54 bp):
TGCCATGGCCAACACCCCTTTTATCTGATAAAAAAAAAATTTGGGTGTCACTTA
Found at i:7592917 original size:29 final size:28
Alignment explanation
Indices: 7592853--7592909 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
7592843 TTATCTGGTA
* *
7592853 AAAAAATATTTTTTTGGGTGTCGACGAT
1 AAAAAATATTTTTTTAGGTGTCGACCAT
*
7592881 AAAAAATATTTTCTTTAGGTGTCGGCCAT
1 AAAAAATATTTT-TTTAGGTGTCGACCAT
7592910 GAATAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATATTTTTTTAGGTGTCGACCAT
Found at i:7593890 original size:30 final size:30
Alignment explanation
Indices: 7593856--7593946 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
7593846 AAAAAATAAT
*
7593856 AATTAGAAATTAAAATTAAAATATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
7593886 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
* * * *
7593916 ATTTACAAACTATATTTAAAA-ATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
7593945 AA
1 AA
7593947 AAATCAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
29 9 0.16
30 46 0.84
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (30 bp):
AATTAGAAATTAAATTTAAAATATAAACGA
Found at i:7595124 original size:30 final size:30
Alignment explanation
Indices: 7595090--7595147 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7595080 AAAATTTCAT
* *
7595090 TTTGAAGATATAAAAAATATTTTAAAAAAA
1 TTTGAAAAGATAAAAAATATTTTAAAAAAA
* *
7595120 TTTGAAAAGCTAAAAAATATTTTGAAAA
1 TTTGAAAAGATAAAAAATATTTTAAAAA
7595148 TATAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (30 bp):
TTTGAAAAGATAAAAAATATTTTAAAAAAA
Found at i:7595153 original size:20 final size:20
Alignment explanation
Indices: 7595112--7595160 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7595102 AAAAATATTT
*
7595112 TAAAAAA-A-TTTGAAAAGC
1 TAAAAAATATTTTGAAAAGA
*
7595130 TAAAAAATATTTTGAAAATA
1 TAAAAAATATTTTGAAAAGA
7595150 TAAAAATATAT
1 TAAAAA-ATAT
7595161 GTAAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 14 0.54
21 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
TAAAAAATATTTTGAAAAGA
Found at i:7595211 original size:19 final size:18
Alignment explanation
Indices: 7595189--7595236 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
7595179 AATATAATTT
*
7595189 TAAAAAAAAATTGAAAATA
1 TAAAAAAAAATTCAAAA-A
* *
7595208 TAAAAAATATTTCAAAAA
1 TAAAAAAAAATTCAAAAA
*
7595226 TAGAAAAAAAT
1 TAAAAAAAAAT
7595237 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAAAAATTCAAAAA
Found at i:7595212 original size:78 final size:75
Alignment explanation
Indices: 7595101--7595246 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 75
7595091 TTGAAGATAT
* * ** * *
7595101 AAAAAATATTTTAAAAAAATTTGAAAAGCTAAAAAATATTTTGAAAATATAAAAATATATGTAAA
1 AAAAAATATTTTAAAAAAAATTGAAAAGATAAAAAATATTTCAAAAATAGAAAAAAATATGTAAA
7595166 AAAAGATTTC
66 AAAAGATTTC
* *
7595176 AAAAATATAATTTTAAAAAAAAATTGAAAATATAAAAAATATTTCAAAAATAGAAAAAAATATTT
1 AAAAA-AT-ATTTT-AAAAAAAATTGAAAAGATAAAAAATATTTCAAAAATAGAAAAAAATATGT
7595241 AAAAAA
63 AAAAAA
7595247 TTCGAAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
75 5 0.08
76 2 0.03
77 5 0.08
78 48 0.80
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (75 bp):
AAAAAATATTTTAAAAAAAATTGAAAAGATAAAAAATATTTCAAAAATAGAAAAAAATATGTAAA
AAAAGATTTC
Found at i:7595399 original size:26 final size:25
Alignment explanation
Indices: 7595354--7595403 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
7595344 TTTTTTTCGT
7595354 TTATTTTTTAACATTAATTTTAATTA
1 TTATTTTTTAACATTAA-TTTAATTA
*
7595380 TTATTTTTTAATA-TATATTTAATT
1 TTATTTTTTAACATTA-ATTTAATT
7595404 TGTCGATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTTTTAACATTAATTTAATTA
Found at i:7596298 original size:54 final size:56
Alignment explanation
Indices: 7596212--7596377 Score: 176
Period size: 57 Copynumber: 3.0 Consensus size: 56
7596202 AGGAAAAATT
*
7596212 GGTGTCGACCATGGCATGGGCGACACCC-AAAAAATA-TTTTTTATCAGATAAAAG
1 GGTGTCGACCATGGCATGGGCGACACCCAAAAAAATATTTTTTTATCAAATAAAAG
** * *
7596266 GGTGTCGGTCATGGTATGGGCGACACCTAAAAAAATATTTTTTTATCAAAT-AAAG
1 GGTGTCGACCATGGCATGGGCGACACCCAAAAAAATATTTTTTTATCAAATAAAAG
* * ** * * *
7596321 GAAGTGTCTACCATAGCATAAGAGACTCCCAAAAAAATAATTTTTTTATCAGATAAA
1 G--GTGTCGACCATGGCATGGGCGACACCCAAAAAAAT-ATTTTTTTATCAAATAAA
7596378 GGGCCATGGC
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
54 24 0.27
55 13 0.14
56 12 0.13
57 25 0.28
58 14 0.16
59 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (56 bp):
GGTGTCGACCATGGCATGGGCGACACCCAAAAAAATATTTTTTTATCAAATAAAAG
Found at i:7601869 original size:27 final size:27
Alignment explanation
Indices: 7601824--7601899 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
7601814 ATTTTTTTCA
* *
7601824 ATAAAGAATAATATAAATTTTAAAAATAT
1 ATAAA-AA-AATAAAAATTTTAAAAAGAT
* *
7601853 GTAAAAAAATAAAAATTTTCAAAACGAT
1 ATAAAAAAATAAAAATTTT-AAAAAGAT
*
7601881 ATAATAAAAT-AAAATTTTA
1 ATAAAAAAATAAAAATTTTA
7601900 TATTAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 19 0.47
28 16 0.40
29 4 0.10
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (27 bp):
ATAAAAAAATAAAAATTTTAAAAAGAT
Found at i:7601871 original size:53 final size:53
Alignment explanation
Indices: 7601765--7601887 Score: 125
Period size: 53 Copynumber: 2.4 Consensus size: 53
7601755 TACATAAATA
* *
7601765 TTTTCAAAACGATATAATAATAAATTTAAAAAAATTAGAAGAAAAAAATATTT
1 TTTTCAAAAAGATATAATAATAAATTTAAAAAAATTAGAAGAAAAAAAAATTT
*
7601818 TTTTCAATAAAGA-ATAAT-ATAAATTTTAAAAATATGTA-AA-AAAATAAAAA---
1 TTTTCAA-AAAGATATAATAATAAA-TTTAAAAAAAT-TAGAAGAAAA-AAAAATTT
*
7601868 TTTTCAAAACGATATAATAA
1 TTTTCAAAAAGATATAATAA
7601888 AATAAAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
49 4 0.07
50 12 0.20
51 1 0.02
52 9 0.15
53 28 0.47
54 6 0.10
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.33
Consensus pattern (53 bp):
TTTTCAAAAAGATATAATAATAAATTTAAAAAAATTAGAAGAAAAAAAAATTT
Found at i:7601949 original size:5 final size:6
Alignment explanation
Indices: 7601923--7601952 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
7601913 TAAAAACAAT
7601923 CCCTCC ACCCTCC CCCTCC CCCTCC CCCTC
1 CCCTCC -CCCTCC CCCTCC CCCTCC CCCTC
7601953 TAGACCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.03, C:0.80, G:0.00, T:0.17
Consensus pattern (6 bp):
CCCTCC
Found at i:7605300 original size:14 final size:14
Alignment explanation
Indices: 7605283--7605309 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7605273 ATTACTCTCT
7605283 TTTCTTTTTATTTA
1 TTTCTTTTTATTTA
7605297 TTTCTTTTTATTT
1 TTTCTTTTTATTT
7605310 TAGTGTGGGT
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:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTTTATTTA
Found at i:7607988 original size:20 final size:20
Alignment explanation
Indices: 7607949--7607988 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7607939 GCTTGGAGGT
*
7607949 GCTCTGTTCTCTTTTTCAAA
1 GCTCTGTTCTCTTTTCCAAA
7607969 GCTCTGTTCT-TTTGTCCAAA
1 GCTCTGTTCTCTTT-TCCAAA
7607989 CAATTTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.47
Consensus pattern (20 bp):
GCTCTGTTCTCTTTTCCAAA
Found at i:7610461 original size:18 final size:18
Alignment explanation
Indices: 7610438--7610478 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7610428 TAATAGCTTT
7610438 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
7610456 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAATTTAAA
7610474 TTAAT
1 TTAAT
7610479 CACATTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:7625733 original size:20 final size:19
Alignment explanation
Indices: 7625708--7625757 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
7625698 AATATAAAAT
*
7625708 AATTCAAAATAATTTCCAAA
1 AATTCAAAAT-ATTTACAAA
*
7625728 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTACAAA
7625747 AATTCTAAAAT
1 AATTC-AAAAT
7625758 TTATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTCAAAATATTTACAAA
Found at i:7625759 original size:18 final size:19
Alignment explanation
Indices: 7625708--7625762 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
7625698 AATATAAAAT
**
7625708 AATTCAAAATAATTTCCAAA
1 AATTCAAAAT-ATTTATAAA
7625728 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
7625747 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
7625763 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 7 0.22
19 15 0.47
20 10 0.31
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:7626968 original size:29 final size:29
Alignment explanation
Indices: 7626936--7626994 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7626926 GGTCTGAAGA
7626936 AAACTTCATTTCATTCATCCATGCATGCC
1 AAACTTCATTTCATTCATCCATGCATGCC
7626965 AAACTTCATTTCATTCATCCATGCATGCC
1 AAACTTCATTTCATTCATCCATGCATGCC
7626994 A
1 A
7626995 CCCTTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (29 bp):
AAACTTCATTTCATTCATCCATGCATGCC
Found at i:7629699 original size:50 final size:50
Alignment explanation
Indices: 7629624--7629726 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
7629614 TGTCTATTTG
*
7629624 CTTAACTTCACACATTCTATATGTGAACACTTAAAAATATGTGATCTTTA
1 CTTAACTTCACACATTCTATATGTGAACACTTAAAAATATGTGATCTTGA
7629674 CTTAACTTCACACATTCTATATGTGAACACTTAAAAATATGTGATCTTGA
1 CTTAACTTCACACATTCTATATGTGAACACTTAAAAATATGTGATCTTGA
7629724 CTT
1 CTT
7629727 GTGAACTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (50 bp):
CTTAACTTCACACATTCTATATGTGAACACTTAAAAATATGTGATCTTGA
Found at i:7631457 original size:26 final size:26
Alignment explanation
Indices: 7631428--7631477 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7631418 TTAGTATTAC
7631428 TTTTAACAAA-TATTTTTAAAAAATAA
1 TTTTAA-AAAGTATTTTTAAAAAATAA
*
7631454 TTTTAAAAAGTATTTTTGAAAAAT
1 TTTTAAAAAGTATTTTTAAAAAAT
7631478 TTGATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
TTTTAAAAAGTATTTTTAAAAAATAA
Found at i:7631475 original size:14 final size:13
Alignment explanation
Indices: 7631428--7631477 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
7631418 TTAGTATTAC
*
7631428 TTTTAACAAATAT
1 TTTTAAAAAATAT
*
7631441 TTTTAAAAAATAA
1 TTTTAAAAAATAT
*
7631454 TTTTAAAAAGTAT
1 TTTTAAAAAATAT
*
7631467 TTTTGAAAAAT
1 TTTTAAAAAAT
7631478 TTGATTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:7635958 original size:3 final size:3
Alignment explanation
Indices: 7635952--7635983 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7635942 ATCATCATCG
7635952 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7635984 CTTTTAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7636574 original size:52 final size:50
Alignment explanation
Indices: 7636432--7636900 Score: 175
Period size: 52 Copynumber: 9.3 Consensus size: 50
7636422 ATTTCAAAAT
* **
7636432 AAAAGTTTTAAATTTTTTAAACAAAATAGTGA-TTTTTT--TT-TTAAAAAGA
1 AAAAG-TTTAAA-TTTTT-AACAAAATATTGATTTTTTTAATTATTTTAAAGA
* * * * * *
7636481 GAAAGTTTAGA-TTTAAAAAAAAAATCTG-TTTTTTTAGTTATTTTAAAGAA
1 AAAAGTTTAAATTTTTAACAAAATAT-TGATTTTTTTAATTATTTTAAAG-A
* * * *
7636531 AAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTCTAATTATTTCGAAA-T
1 AAAAGTTTAAATTTTTAACAAAATATTGATTTTTT-TAATTATTT-TAAAGA
* *
7636582 AAAAGTTTGAATTTTTAAGCAAAATAGTGATTTTCTTTAA--A----AAAGA
1 AAAAGTTTAAATTTTTAA-CAAAATATTGATTTT-TTTAATTATTTTAAAGA
* * *** *
7636628 GAAAGTTTAGATTTTTAA-AAAATAAAAATCTATTTTTTAGTTATTTTAAAGA
1 AAAAGTTTAAATTTTTAACAAAATATTGA--T-TTTTTTAATTATTTTAAAGA
* * * * * * *
7636680 AAAATTTTAAATTTTTAATAAAGTTTTGATTTTTTCTAACTATTTCGAAA-T
1 AAAAGTTTAAATTTTTAACAAAATATTGATTTTTT-TAATTATTT-TAAAGA
** * * ****
7636731 AAAAGTTTGGATTTTTAAGTAAAATAATGATTTTCTTTAA--AAAAAAAAGA
1 AAAAGTTTAAATTTTTAA-CAAAATATTGATTTT-TTTAATTATTTTAAAGA
* * *** * *
7636781 GAAAA-TTTAGATTTTTAAAAAAATAAAAATTTGTTTTTTAGTTCTTTTAAAGA
1 -AAAAGTTTAAATTTTTAACAAAATATTGA--T-TTTTTTAATTATTTTAAAGA
* * * *
7636834 AAAAGTTTAAATTTTTAACCAAATTTTGATTTTTTTAACTATTTCAAA-A
1 AAAAGTTTAAATTTTTAACAAAATATTGATTTTTTTAATTATTTTAAAGA
**
7636883 TAAAAGTTTTGATTTTTA
1 -AAAAGTTTAAATTTTTA
7636901 TGTAAAGTGG
Statistics
Matches: 308, Mismatches: 76, Indels: 71
0.68 0.17 0.16
Matches are distributed among these distances:
44 7 0.02
45 10 0.03
46 31 0.10
47 3 0.01
48 8 0.03
49 22 0.07
50 60 0.19
51 65 0.21
52 68 0.22
53 34 0.11
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (50 bp):
AAAAGTTTAAATTTTTAACAAAATATTGATTTTTTTAATTATTTTAAAGA
Found at i:7636809 original size:24 final size:24
Alignment explanation
Indices: 7636772--7636820 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
7636762 TTTCTTTAAA
7636772 AAAAAAAGAGAAAATTTAGATTTTT
1 AAAAAAAGAGAAAATTT-GATTTTT
* *
7636797 AAAAAAATA-AAAATTTGTTTTTT
1 AAAAAAAGAGAAAATTTGATTTTT
7636820 A
1 A
7636821 GTTCTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (24 bp):
AAAAAAAGAGAAAATTTGATTTTT
Found at i:7636897 original size:153 final size:149
Alignment explanation
Indices: 7636422--7636900 Score: 657
Period size: 149 Copynumber: 3.2 Consensus size: 149
7636412 TTTTTAAACA
* * * *
7636422 ATTTCAAAATAAAAGTTTTAAATTTTTTAAACAAAATAGTGATTTTTTTTTTAAAAAGAGAAAGT
1 ATTTCAAAATAAAAGTTTT-GA-TTTTTAAGCAAAATAGTGA-TTTTCTTTAAAAAAGAGAAAGT
7636487 TTAGA--TTT-AAAAA-AAAAATCTGTTTTTTTAGTTATTTTAAAGAAAAAAGTTTAAATTTTTA
63 TTAGATTTTTAAAAAATAAAAATCTG-TTTTTTAGTTATTTTAAAG-AAAAAGTTTAAATTTTTA
*
7636548 ACAAAGTTTTGATTTTTTCTAATT
126 ACAAAGTTTTGATTTTTTCTAACT
*
7636572 ATTTCGAAATAAAAG-TTTGAATTTTTAAGCAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTT
1 ATTTCAAAATAAAAGTTTTG-ATTTTTAAGCAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTT
* * *
7636636 AGATTTTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTTAATAA
65 AGATTTTTAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAA
7636701 AGTTTTGATTTTTTCTAACT
130 AGTTTTGATTTTTTCTAACT
* * * * *
7636721 ATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAATGATTTTCTTTAAAAAAAAAAGAGAAAA
1 ATTTCAAAATAAAAGTTTTGATTTTTAAGCAAAATAGTGATTTTCTTT----AAAAAAGAGAAAG
* *
7636786 TTTAGATTTTTAAAAAAATAAAAATTTGTTTTTTAGTTCTTTTAAAGAAAAAGTTTAAATTTTTA
62 TTTAGATTTTT-AAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTA
7636851 ACCAAA-TTTTGATTTTTT-TAACT
126 A-CAAAGTTTTGATTTTTTCTAACT
7636874 ATTTCAAAATAAAAGTTTTGATTTTTA
1 ATTTCAAAATAAAAGTTTTGATTTTTA
7636901 TGTAAAGTGG
Statistics
Matches: 297, Mismatches: 20, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
147 25 0.08
148 18 0.06
149 87 0.29
150 41 0.14
151 8 0.03
153 53 0.18
154 62 0.21
155 3 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (149 bp):
ATTTCAAAATAAAAGTTTTGATTTTTAAGCAAAATAGTGATTTTCTTTAAAAAAGAGAAAGTTTA
GATTTTTAAAAAATAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAA
GTTTTGATTTTTTCTAACT
Found at i:7645797 original size:23 final size:24
Alignment explanation
Indices: 7645754--7645799 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
7645744 AATTTATTTT
*
7645754 ATTTTATGATTTTTTAAAAATATA
1 ATTTTATGAATTTTTAAAAATATA
*
7645778 ATTTTA-GAATTTTTATAAATAT
1 ATTTTATGAATTTTTAAAAATAT
7645800 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTATGAATTTTTAAAAATATA
Found at i:7645808 original size:19 final size:20
Alignment explanation
Indices: 7645764--7645828 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 20
7645754 ATTTTATGAT
7645764 TTTTTAAAAATATAATTTTAGAA
1 TTTTT-AAAA-ATAATTTT-GAA
*
7645787 TTTTTATAAAT-ATTTTGAA
1 TTTTTAAAAATAATTTTGAA
7645806 -TTTTAAAAATAATTTT-AA
1 TTTTTAAAAATAATTTTGAA
7645824 TTTTT
1 TTTTT
7645829 TTTTATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 11 0.29
19 12 0.32
20 5 0.13
21 2 0.05
22 3 0.08
23 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATAATTTTGAA
Found at i:7645815 original size:18 final size:19
Alignment explanation
Indices: 7645765--7645827 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 19
7645755 TTTTATGATT
7645765 TTTTAAAAATATAATTTTAGAA
1 TTTT-AAAA-ATAATTTT-GAA
*
7645787 TTTTTATAAAT-ATTTTGAA
1 -TTTTAAAAATAATTTTGAA
7645806 TTTTAAAAATAATTTT-AA
1 TTTTAAAAATAATTTTGAA
7645824 TTTT
1 TTTT
7645828 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 15 0.41
19 8 0.22
20 5 0.14
21 2 0.05
22 3 0.08
23 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATAATTTTGAA
Found at i:7645978 original size:23 final size:23
Alignment explanation
Indices: 7645947--7646002 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
7645937 TTCAACTCGA
* *
7645947 AACTCGAATTACTT-ATTCAAATT
1 AACTTGAATTACTTGAGTC-AATT
* *
7645970 AACTTGAATAACTTGAGTCGATT
1 AACTTGAATTACTTGAGTCAATT
7645993 AACTTGAATT
1 AACTTGAATT
7646003 TCGAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (23 bp):
AACTTGAATTACTTGAGTCAATT
Found at i:7658180 original size:54 final size:54
Alignment explanation
Indices: 7658122--7658227 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
7658112 TTATTTTCAA
*
7658122 TTTGTTCAAAAATATTTATTTTAATGTTTTTAGTGTCTTTGATGTATTATATTT
1 TTTGTTCAAAAATATTTATTTTAATGTTTTTAGTGTATTTGATGTATTATATTT
* *
7658176 TTTGTTCTAAAATATTTATTTTAATGTTTTTAGTGTATTTGGTGTATTATAT
1 TTTGTTCAAAAATATTTATTTTAATGTTTTTAGTGTATTTGATGTATTATAT
7658228 ATATTTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (54 bp):
TTTGTTCAAAAATATTTATTTTAATGTTTTTAGTGTATTTGATGTATTATATTT
Found at i:7663355 original size:27 final size:28
Alignment explanation
Indices: 7663307--7663360 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
7663297 TTAGACGAGT
7663307 TTTTTAATTCTTTCATACATTTATATAA
1 TTTTTAATTCTTTCATACATTTATATAA
*
7663335 TTTTTAATT-TTTTATTA-ATTTATATA
1 TTTTTAATTCTTTCA-TACATTTATATA
7663361 TTATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTAATTCTTTCATACATTTATATAA
Found at i:7663390 original size:33 final size:32
Alignment explanation
Indices: 7663327--7663402 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
7663317 TTTCATACAT
* *
7663327 TTATATAATTTTTAATTTTTTATTAATTTATATA
1 TTATAT-ATTTTTAATTTTATATT-ATTTATAAA
7663361 TTATATATTTTTAATTGTATATATT-TTTATAAA
1 TTATATATTTTTAATT-T-TATATTATTTATAAA
7663394 TT-TATATTT
1 TTATATATTT
7663403 ACATTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 7 0.18
33 19 0.50
34 7 0.18
35 5 0.13
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (32 bp):
TTATATATTTTTAATTTTATATTATTTATAAA
Found at i:7663400 original size:18 final size:15
Alignment explanation
Indices: 7663325--7663389 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 15
7663315 TCTTTCATAC
7663325 ATTTATATAATTTTTA
1 ATTTATAT-ATTTTTA
*
7663341 ATTT-TTTATTAATTTA
1 ATTTATATATT--TTTA
7663357 TATATTATATATTTTTA
1 -AT-TTATATATTTTTA
7663374 ATTGTATATATTTTTA
1 ATT-TATATATTTTTA
7663390 TAAATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
14 3 0.07
15 3 0.07
16 22 0.54
17 6 0.15
18 2 0.05
19 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:7664548 original size:7 final size:7
Alignment explanation
Indices: 7664536--7664569 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
7664526 TTTAAATATA
*
7664536 TATAAAC
1 TATAAAT
7664543 TATAAAT
1 TATAAAT
*
7664550 TACAAAT
1 TATAAAT
7664557 TATAAAT
1 TATAAAT
7664564 TATAAA
1 TATAAA
7664570 AATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (7 bp):
TATAAAT
Found at i:7679665 original size:2 final size:2
Alignment explanation
Indices: 7679658--7679690 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7679648 GTTGTATTTC
7679658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7679691 TAAATCACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7679832 original size:39 final size:40
Alignment explanation
Indices: 7679787--7679868 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
7679777 AAAATTTTAC
* * *
7679787 AATAAAATATTCGTTACATTTAT-TTGTGTTTTTTAATAT
1 AATAAAATATTCATTACATTTATATAGTATTTTTTAATAT
* *
7679826 AATAAAATATTTATTATATTTATGATAGTATTTTTTAATAT
1 AATAAAATATTCATTACATTTAT-ATAGTATTTTTTAATAT
7679867 AA
1 AA
7679869 ATGTTTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 20 0.56
41 16 0.44
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.52
Consensus pattern (40 bp):
AATAAAATATTCATTACATTTATATAGTATTTTTTAATAT
Found at i:7682351 original size:17 final size:17
Alignment explanation
Indices: 7682323--7682363 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7682313 TGATTTTTAA
*
7682323 TTAAAGTTTAAATTAATT
1 TTAAA-TTTAAATTAATC
*
7682341 TTAAATTTAAATTTATC
1 TTAAATTTAAATTAATC
7682358 TTAAAT
1 TTAAAT
7682364 ACAAAGTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTAATC
Found at i:7683079 original size:16 final size:17
Alignment explanation
Indices: 7683053--7683098 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
7683043 GGGCTTTAGC
*
7683053 ATTATTAATAATACT-TT
1 ATTAATAATAATA-TATT
7683070 A-TAATAATAA-ATATT
1 ATTAATAATAATATATT
7683085 ATTAATAATAATAT
1 ATTAATAATAATAT
7683099 TACTAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 1 0.04
15 4 0.16
16 17 0.68
17 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAATAATAATATATT
Found at i:7684547 original size:30 final size:30
Alignment explanation
Indices: 7684453--7684643 Score: 130
Period size: 29 Copynumber: 6.6 Consensus size: 30
7684443 TATATATTTC
* * * * *
7684453 CCAAAATTTCCATTTTTAACCTCGAAATTT
1 CCAAAAATTACATTTTTACCCTCAAAACTT
* *
7684483 TCAAAAATTACA--TTTACCCT--AAATTT
1 CCAAAAATTACATTTTTACCCTCAAAACTT
7684509 CCAAAAATT-CTACTTTTTA-CCTCAAAACTT
1 CCAAAAATTAC-A-TTTTTACCCTCAAAACTT
* *
7684539 CCCAAAATTACATTTTTACCCTC-AAACTA
1 CCAAAAATTACATTTTTACCCTCAAAACTT
* *
7684568 CCAAAAATTTCATTTTTGACCCT-AAAATTT
1 CCAAAAATTACATTTTT-ACCCTCAAAACTT
** * *
7684598 CTTAAAATTACGTTTTTACCC-CCAAACTT
1 CCAAAAATTACATTTTTACCCTCAAAACTT
* **
7684627 CTAAAAATCCCATTTTT
1 CCAAAAATTACATTTTT
7684644 TTATCTCGAT
Statistics
Matches: 128, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.01
26 15 0.12
28 10 0.08
29 52 0.41
30 49 0.38
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
CCAAAAATTACATTTTTACCCTCAAAACTT
Found at i:7692213 original size:25 final size:24
Alignment explanation
Indices: 7692179--7692225 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7692169 AGCTCAGATA
7692179 CAATAAAAAAATAAAAAGAAAAAAT
1 CAATAAAAAAA-AAAAAGAAAAAAT
* *
7692204 CAATCAAAAAAAATAAGAAAAA
1 CAATAAAAAAAAAAAAGAAAAA
7692226 GGAGAGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (24 bp):
CAATAAAAAAAAAAAAGAAAAAAT
Found at i:7693983 original size:92 final size:92
Alignment explanation
Indices: 7693750--7695394 Score: 2858
Period size: 92 Copynumber: 18.0 Consensus size: 92
7693740 AGATTTAAAT
7693750 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7693815 TTGAAGTAAGAGCTAGATAAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7693841 AACATCATTTCCTATCCTCATGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7693906 TTGAAGTAAGAG-TCAGGTGAAGCATCA
66 TTGAAGTAAGAGCT-AGATGAAGCATCA
7693933 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7693998 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694025 AACATCATTTCCTATCCTCTTGAAGATGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694090 TTGAAGTAAGAGCTAGATGAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694116 AATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7694181 TTGAAGTAAGAGCTATATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694208 AACATCATTTCCTATCCTCTTGAAGTTATAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694273 TTGAAGTAAGAGCTAGATGAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694299 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTCATCTTTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694364 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* * *
7694391 AACATCATTTCCTATCCCCTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* *
7694456 TTGAAGTAAGAGTTAGGTGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694483 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTTTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694548 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694575 AATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7694640 TTGAAGTAAGAGCTAGATGAAGTATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694666 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTAGATAGCAAGTATTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694731 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694758 AACATCATTTCCTATCCTTTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694823 TTGAAGTAAGAGCTAGATGAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694849 AACATCATTTCTTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694914 TTGAAGTAAGAGCTAGATGAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
*
7694940 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTTTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* *
7695005 TTGAAATACGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
7695032 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7695097 TTGAAGTAAGAGTTAGATGAAGCATC-
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7695123 AACATCATTTGCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7695188 TTGAAGTAAGAGCTAGATGAAGGATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
* *
7695215 AACATCATTTCCTATCCACTTGAAGTTGTAGTAAAGCTGGATAGCAAGTTTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7695280 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATGAAGCATCA
** * * * *
7695307 AACGCCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7695372 TTGTAA-TAAGAGCAAGATGAAGC
66 TTG-AAGTAAGAGCTAGATGAAGC
7695395 CTCGACATCA
Statistics
Matches: 1475, Mismatches: 70, Indels: 17
0.94 0.04 0.01
Matches are distributed among these distances:
90 1 0.00
91 609 0.41
92 862 0.58
93 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (92 bp):
AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
TTGAAGTAAGAGCTAGATGAAGCATCA
Found at i:7694125 original size:183 final size:184
Alignment explanation
Indices: 7693750--7695394 Score: 2858
Period size: 183 Copynumber: 9.0 Consensus size: 184
7693740 AGATTTAAAT
7693750 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* * *
7693815 TTGAAGTAAGAGCTAGATAAAGCATC-AACATCATTTCCTATCCTCATGAAGTTGTAGTAAAGTT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
*
7693879 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAG-TCAGGTGAAGCATCA
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCT-AGATGAAGCATCA
7693933 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7693998 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGATGTAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
7694063 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATC-
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
*
7694116 AATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* *
7694181 TTGAAGTAAGAGCTATATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTATAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
7694246 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATC-
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694299 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTCATCTTTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* * *
7694364 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCCCTTAAAGTTGTAGTAAAGTT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* *
7694429 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGTTAGGTGAAGCATCA
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
*
7694483 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTTTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7694548 TTGAAGTAAGAGCTAGATGAAGCATCAAATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
*
7694613 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGTATC-
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694666 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTAGATAGCAAGTATTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
*
7694731 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTTTTGAAGTTGTAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
7694796 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATC-
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
* *
7694849 AACATCATTTCTTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694914 TTGAAGTAAGAGCTAGATGAAGCATC-AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* * *
7694978 GGATAGCAAGTCTTTATCTCTTTGAAATTGAAATACGAGCTAGATGAAGCATCA
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
7695032 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* * *
7695097 TTGAAGTAAGAGTTAGATGAAGCATC-AACATCATTTGCTATCCTCTTGAAGTTGTAGTAAAGTT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
*
7695161 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGGATCA
131 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
* *
7695215 AACATCATTTCCTATCCACTTGAAGTTGTAGTAAAGCTGGATAGCAAGTTTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
** * * *
7695280 TTGAAGTAAGAGCTAGATGAAGCATCAAACGCCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTT
66 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* *
7695345 GGATAGCAAGTCTTTATCTCTCTGAAGTTGTAA-TAAGAGCAAGATGAAGC
131 GGATAGCAAGTCTTTATCTCTCTGAAATTG-AAGTAAGAGCTAGATGAAGC
7695395 CTCGACATCA
Statistics
Matches: 1393, Mismatches: 63, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
182 87 0.06
183 968 0.69
184 335 0.24
185 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (184 bp):
AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCA
Found at i:7694242 original size:275 final size:274
Alignment explanation
Indices: 7693750--7695404 Score: 2873
Period size: 275 Copynumber: 6.0 Consensus size: 274
7693740 AGATTTAAAT
7693750 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* * *
7693815 TTGAAGTAAGAGCTAGATAAAGCATCAACATCATTTCCTATCCTCATGAAGTTGTAGTAAAGTTG
66 TTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTG
*
7693880 GATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAG-TCAGGTGAAGCATCAAACATCATTTC
131 GATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCT-AGATGAAGCATCAAACATCATTTC
7693944 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
195 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
7694009 GCTAGATGAAGCATC
260 GCTAGATGAAGCATC
*
7694024 AAACATCATTTCCTATCCTCTTGAAGATGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAA
1 -AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAA
*
7694089 ATTGAAGTAAGAGCTAGATGAAGCATCAATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
65 ATTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
*
7694154 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTATATGAAGCATCAAACATCATTTC
130 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTC
*
7694219 CTATCCTCTTGAAGTTATAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
195 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
7694284 GCTAGATGAAGCATC
260 GCTAGATGAAGCATC
* *
7694299 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTCATCTTTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* * *
7694364 TTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCCTATCCCCTTAAAGTTGTAGTAAAGTT
66 TTGAAGTAAGAGCTAGATGAAGCATC-AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* *
7694429 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGTTAGGTGAAGCATCAAACATCATTTC
130 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTC
*
7694494 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTTTGAAATTGAAGTAAGA
195 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
7694559 GCTAGATGAAGCATC
260 GCTAGATGAAGCATC
*
7694574 AAATATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAA
1 -AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAA
*
7694639 ATTGAAGTAAGAGCTAGATGAAGTATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
65 ATTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* *
7694704 AGATAGCAAGTATTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTC
130 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTC
*
7694769 CTATCCTTTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
195 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGA
7694834 GCTAGATGAAGCATC
260 GCTAGATGAAGCATC
* *
7694849 AACATCATTTCTTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
7694914 TTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTG
66 TTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTG
* * *
7694979 GATAGCAAGTCTTTATCTCTTTGAAATTGAAATACGAGCTAGATGAAGCATCAAACATCATTTCC
131 GATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCC
7695044 TATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAG
196 TATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAG
*
7695109 TTAGATGAAGCATC
261 CTAGATGAAGCATC
* *
7695123 AACATCATTTGCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
* *
7695188 TTGAAGTAAGAGCTAGATGAAGGATCAAACATCATTTCCTATCCACTTGAAGTTGTAGTAAAGCT
66 TTGAAGTAAGAGCTAGATGAAGCATC-AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCT
* ** * *
7695253 GGATAGCAAGTTTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACGCCAATCC
130 GGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTC
* *
7695318 CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTGTAA-TAAG
195 CTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTG-AAGTAAG
* *
7695382 AGCAAGATGAAGCCTC
259 AGCTAGATGAAGCATC
*
7695398 GACATCA
1 AACATCA
7695405 AACCCTACTT
Statistics
Matches: 1313, Mismatches: 62, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
274 439 0.33
275 784 0.60
276 90 0.07
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (274 bp):
AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAA
TTGAAGTAAGAGCTAGATGAAGCATCAACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGCTG
GATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCATCAAACATCATTTCC
TATCCTCTTGAAGTTGTAGTAAAGCTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAG
CTAGATGAAGCATC
Found at i:7695676 original size:11 final size:11
Alignment explanation
Indices: 7695648--7695691 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
7695638 TGGGCTCTTG
*
7695648 ATTTTTAATTAA
1 ATTTTAAATT-A
*
7695660 AGTTTAAATTA
1 ATTTTAAATTA
*
7695671 ATTTTAAATTT
1 ATTTTAAATTA
7695682 ATTTTAAATT
1 ATTTTAAATT
7695692 TAAATTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:7695682 original size:6 final size:6
Alignment explanation
Indices: 7695656--7695726 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
7695646 TGATTTTTAA
* * *
7695656 TTAAAGT TTAAA- TTAATT TTAAAT TT-ATT TTAAAT TTAAAT TTACTTAT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTA--AAT
*
7695705 TTAAAT TT-ACT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAA
7695727 ATAATCTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
5 12 0.24
6 29 0.57
7 5 0.10
8 5 0.10
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:7695692 original size:11 final size:11
Alignment explanation
Indices: 7695662--7695724 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
7695652 TTAATTAAAG
*
7695662 TTTAAATTAAT
1 TTTAAATTTAT
7695673 TTTAAATTTAT
1 TTTAAATTTAT
*
7695684 TTTAAATTTAAA
1 TTTAAATTT-AT
*
7695696 TTT--ACTTA-
1 TTTAAATTTAT
*
7695704 TTTAAATTTAC
1 TTTAAATTTAT
7695715 TTTAAATTTA
1 TTTAAATTTA
7695725 AAATAATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.07
9 1 0.02
10 7 0.16
11 29 0.66
12 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:7695708 original size:14 final size:14
Alignment explanation
Indices: 7695689--7695716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7695679 TTTATTTTAA
7695689 ATTTAAATTTACTT
1 ATTTAAATTTACTT
7695703 ATTTAAATTTACTT
1 ATTTAAATTTACTT
7695717 TAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:7697832 original size:30 final size:28
Alignment explanation
Indices: 7697757--7697944 Score: 164
Period size: 30 Copynumber: 6.5 Consensus size: 28
7697747 CAGAAATTGT
* *
7697757 ATTTTAACCTCGAAACTTCCAAAAATTAC
1 ATTTTTACC-CGAAATTTCCAAAAATTAC
* *
7697786 ATTTTTTCCC-AAATTTCCAAAAATTCC
1 ATTTTTACCCGAAATTTCCAAAAATTAC
7697813 ATTTTTGACCTCGAAATTTCCAAAAATTAC
1 ATTTTT-ACC-CGAAATTTCCAAAAATTAC
* *
7697843 ATTTTT-CCCCAAATTTCCAAAAATTCC
1 ATTTTTACCCGAAATTTCCAAAAATTAC
* * *
7697870 ATTTTTGACCCTAAAATTTCCCAAAATAAC
1 ATTTTT-ACCC-GAAATTTCCAAAAATTAC
* * * * *
7697900 ATTTGTACCCCCAAACTTCTAAAAATTCC
1 ATTTTTA-CCCGAAATTTCCAAAAATTAC
7697929 ATTTTTGACCTCGAAA
1 ATTTTT-ACC-CGAAA
7697945 CTCCCGAAAT
Statistics
Matches: 129, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
27 44 0.34
28 5 0.04
29 31 0.24
30 49 0.38
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
ATTTTTACCCGAAATTTCCAAAAATTAC
Found at i:7697837 original size:57 final size:58
Alignment explanation
Indices: 7697758--7698080 Score: 266
Period size: 57 Copynumber: 5.6 Consensus size: 58
7697748 AGAAATTGTA
* * **
7697758 TTTTAACCTCGAAACTTCCAAAAATTACATTTT-TTCCCAAATTTCCAAAAATTCCAT
1 TTTTGACCTCGAAATTTCCAAAAATTACATTTTACCCCCAAATTTCCAAAAATTCCAT
*
7697815 TTTTGACCTCGAAATTTCCAAAAATTACATTTT-TCCCCAAATTTCCAAAAATTCCAT
1 TTTTGACCTCGAAATTTCCAAAAATTACATTTTACCCCCAAATTTCCAAAAATTCCAT
* * * * *
7697872 TTTTGACC-CTAAAATTTCCCAAAATAACATTTGTACCCCCAAACTTCTAAAAATTCCAT
1 TTTTGACCTC-GAAATTTCCAAAAATTACATTT-TACCCCCAAATTTCCAAAAATTCCAT
* ** * * * * *
7697931 TTTTGACCTCGAAA-CTCCCGAAATTACCATTTTACTCCCAGATGTCTAAAAATCCCAT
1 TTTTGACCTCGAAATTTCCAAAAATTA-CATTTTACCCCCAAATTTCCAAAAATTCCAT
** * * * * *
7697989 TTTTGATCC-CGATTTTTTCCAAAAATTATCGTTTTACCCTCGAATATCTAAAATATT--AT
1 TTTTGA-CCTCGA-AATTTCCAAAAATTA-CATTTTACCCCCAAATTTCCAAAA-ATTCCAT
* * *
7698048 TTTTAACC-CCAAATTTCCCAAAATTACCATTTT
1 TTTTGACCTCGAAATTTCCAAAAATTA-CATTTT
7698081 GCCCTTAGAG
Statistics
Matches: 219, Mismatches: 38, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
56 1 0.00
57 98 0.45
58 44 0.20
59 46 0.21
60 28 0.13
61 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (58 bp):
TTTTGACCTCGAAATTTCCAAAAATTACATTTTACCCCCAAATTTCCAAAAATTCCAT
Found at i:7699105 original size:43 final size:42
Alignment explanation
Indices: 7699057--7699259 Score: 228
Period size: 43 Copynumber: 4.7 Consensus size: 42
7699047 GTTTATAAAA
* * * *
7699057 AAACGCCGCAAAAGAACATGGTCTTTAGCGGCGCTTTACCTAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC-TTATCTAC
* *
7699100 AAACGCCGGTAAAGACCATGTTCTTTAGCGGCGCTTATTCTAA
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-TCTAC
**
7699143 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGATAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTATCTAC
* * * * *
7699185 AAACGCCTCTAAAGAACATAG-TCTTTAGCGACGCTTTTTTCAAC
1 AAACGCCGCTAAAGACCAT-GTTCTTTAGCGGCGC--TTATCTAC
*
7699229 AAGCGCCGCTAAAGACCATGTTCTTTAGCGG
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGG
7699260 TGCATGGTCT
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
42 34 0.25
43 71 0.53
44 29 0.22
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTATCTAC
Found at i:7699236 original size:86 final size:86
Alignment explanation
Indices: 7699055--7699259 Score: 263
Period size: 86 Copynumber: 2.4 Consensus size: 86
7699045 ACGTTTATAA
* * * * * *
7699055 AAAAACGCCGCAAAAGAACATGGTCTTTAGCGGCGCTTTACCTACAAACGCCGGTAAAGACCATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTACATACAAACGCCGCTAAAGAACATG
*
7699120 TTCTTTAGCGGCGCTTATTCT
66 TTCTTTAGCGACGCTTATTCT
* *
7699141 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC-TTAGATACAAACGCCTCTAAAGAACATA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTACATACAAACGCCGCTAAAGAACAT-
*
7699205 G-TCTTTAGCGACGCTT-TTTT
65 GTTCTTTAGCGACGCTTATTCT
*
7699225 CAACAAGCGCCGCTAAAGACCATGTTCTTTAGCGG
1 -AA-AAACGCCGCTAAAGACCATGTTCTTTAGCGG
7699260 TGCATGGTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
84 3 0.03
85 38 0.36
86 64 0.61
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTACATACAAACGCCGCTAAAGAACATG
TTCTTTAGCGACGCTTATTCT
Found at i:7699270 original size:17 final size:17
Alignment explanation
Indices: 7699245--7699279 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7699235 CGCTAAAGAC
*
7699245 CATGTTCTTTAGCGGTG
1 CATGGTCTTTAGCGGTG
7699262 CATGGTCTTTAGCGGTG
1 CATGGTCTTTAGCGGTG
7699279 C
1 C
7699280 TTATTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.20, G:0.31, T:0.37
Consensus pattern (17 bp):
CATGGTCTTTAGCGGTG
Found at i:7699357 original size:43 final size:41
Alignment explanation
Indices: 7699266--7699389 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 41
7699256 GCGGTGCATG
* * * *
7699266 GTCTTTAGCGGTGCTTATTCTAAAAACGCCGCTAAAGAACATG
1 GTCTTTAGCGGCGCTTATTCCAAAAACGCCGCT-AA-AATATA
*
7699309 GTCTTTAGCGGCGCTTACTCCAAAAACGCCGCTATAAATAGTA
1 GTCTTTAGCGGCGCTTATTCCAAAAACGCCGCTA-AAATA-TA
* * *
7699352 TTCTTTAGCGGCG-TTTTTCCCACAAACGCCGCTAAAAT
1 GTCTTTAGCGGCGCTTATT-CCAAAAACGCCGCTAAAAT
7699390 TAACAGATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 11 0.16
43 58 0.84
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
GTCTTTAGCGGCGCTTATTCCAAAAACGCCGCTAAAATATA
Found at i:7699385 original size:146 final size:146
Alignment explanation
Indices: 7699116--7699387 Score: 370
Period size: 146 Copynumber: 1.9 Consensus size: 146
7699106 CGGTAAAGAC
* * *
7699116 CATGTTCTTTAGCGGCGCTTATTCTAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 CATGGTCTTTAGCGGCGCTTATTCTAAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAG
* * * *
7699181 ATACAAACGCCTCTAAAGAACATAGTCTTTAGCGACGCTTTTTTCAACAAGCGCCGCTAAAGACC
66 ATAAAAACGCCGCTAAAGAACATAGTCTTTAGCGACGCTTTTTCCAACAAACGCCGCTAAAGACC
7699246 ATGTTCTTTAGCGGTG
131 ATGTTCTTTAGCGGTG
*
7699262 CATGGTCTTTAGCGGTGCTTATTCTAAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTA-
1 CATGGTCTTTAGCGGCGCTTATTCTAAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAG
* * * * * *
7699326 CTCCAAAAACGCCGCTATA-AATAGTATTCTTTAGCGGCG-TTTTTCCCACAAACGCCGCTAAA
66 AT--AAAAACGCCGCTAAAGAACA-TAGTCTTTAGCGACGCTTTTTCCAACAAACGCCGCTAAA
7699388 ATTAACAGAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
145 1 0.01
146 83 0.76
147 25 0.23
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (146 bp):
CATGGTCTTTAGCGGCGCTTATTCTAAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAG
ATAAAAACGCCGCTAAAGAACATAGTCTTTAGCGACGCTTTTTCCAACAAACGCCGCTAAAGACC
ATGTTCTTTAGCGGTG
Found at i:7705469 original size:18 final size:18
Alignment explanation
Indices: 7705432--7705482 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
7705422 GGTTGTTTTT
7705432 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
*
7705452 AATAAGTAAATATAATTA
1 AATAATTAAATATAATTA
*
7705470 AATGATTAAATAT
1 AATAATTAAATAT
7705483 TTTGAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:7705566 original size:34 final size:34
Alignment explanation
Indices: 7705526--7705614 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
7705516 TAAATAAATA
*
7705526 AATAATTAATTAATTAATTAATTGGGTTG-ATTT
1 AATAATTAAATAATTAATTAATTGGGTTGTATTT
* * *
7705559 AACTAATTAAATAATTAAGTATTTGGGTTGTTTTT
1 AA-TAATTAAATAATTAATTAATTGGGTTGTATTT
*
7705594 AATAATTAAATATTTAATTAA
1 AATAATTAAATAATTAATTAA
7705615 ATAATTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
33 2 0.04
34 40 0.85
35 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (34 bp):
AATAATTAAATAATTAATTAATTGGGTTGTATTT
Found at i:7705619 original size:20 final size:18
Alignment explanation
Indices: 7705594--7705635 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
7705584 GGTTGTTTTT
7705594 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
7705614 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
7705632 AATA
1 AATA
7705636 TTTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:7705689 original size:154 final size:154
Alignment explanation
Indices: 7705474--7706076 Score: 1007
Period size: 154 Copynumber: 3.9 Consensus size: 154
7705464 TAATTAAATG
* *
7705474 ATTAAATATTTTGAATTAAATATTCGGGTTGTTTTTAATATTTAAATAAATAAATAATTAATTAA
1 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAA
7705539 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
66 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
7705604 TATTTAATTAAATAATTAAATATA
131 TATTTAATTAAATAATTAAATATA
* *
7705628 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTATATAAATAATTAGTTAATTAA
1 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAA
7705693 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
66 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
7705758 TATTTAATTAAATAATTAAATATA
131 TATTTAATTAAATAATTAAATATA
*
7705782 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTATATAAATAATTAATTAATTAA
1 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAA
7705847 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
66 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
7705912 TATTTAATTAAATAATTAAATATAATTAAATA
131 TATTTAATTAAATAA-T---TA-AA-T--ATA
*
7705944 ATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAAT--A-AA-TAATTAATTAA
1 ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAA
* * * *
7706005 TTAATTAATTGAGTTGATTTAAATAATTAAATAATTCAGTATTTGGGTTATTTTTAATAATTAAA
66 TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
*
7706070 TAATTAA
131 TATTTAA
7706077 ATATTTTGAA
Statistics
Matches: 429, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
154 294 0.69
155 1 0.00
158 80 0.19
159 4 0.01
160 2 0.00
162 48 0.11
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (154 bp):
ATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAA
TTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAA
TATTTAATTAAATAATTAAATATA
Found at i:7705739 original size:34 final size:34
Alignment explanation
Indices: 7705685--7705764 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
7705675 AAATAATTAG
* *
7705685 TTAATTAATTAATTAATTGGGTTG-ATTTAACTAA
1 TTAAATAATTAAGTAATTGGGTTGTATTTAA-TAA
* *
7705719 TTAAATAATTAAGTATTTGGGTTGTTTTTAATAA
1 TTAAATAATTAAGTAATTGGGTTGTATTTAATAA
*
7705753 TTAAATATTTAA
1 TTAAATAATTAA
7705765 TTAAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (34 bp):
TTAAATAATTAAGTAATTGGGTTGTATTTAATAA
Found at i:7705773 original size:20 final size:18
Alignment explanation
Indices: 7705748--7705789 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
7705738 GGTTGTTTTT
7705748 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
7705768 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
7705786 AATA
1 AATA
7705790 TTTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:7705839 original size:4 final size:4
Alignment explanation
Indices: 7705832--7705856 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7705822 TTTATATAAA
7705832 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
7705857 GGGTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:7705874 original size:34 final size:34
Alignment explanation
Indices: 7705836--7705922 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
7705826 TATAAATAAT
*
7705836 TAATTAATTAATTAATTAATTGGGTTG-ATTTAA
1 TAATTAAATAATTAATTAATTGGGTTGTATTTAA
* * *
7705869 CTAATTAAATAATTAAGTATTTGGGTTGTTTTTAA
1 -TAATTAAATAATTAATTAATTGGGTTGTATTTAA
*
7705904 TAATTAAATATTTAATTAA
1 TAATTAAATAATTAATTAA
7705923 ATAATTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 40 0.89
35 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.48
Consensus pattern (34 bp):
TAATTAAATAATTAATTAATTGGGTTGTATTTAA
Found at i:7705918 original size:8 final size:8
Alignment explanation
Indices: 7705916--7705951 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
7705906 ATTAAATATT
7705916 TAATTAAA
1 TAATTAAA
7705924 TAATTAAATA
1 TAATT-AA-A
7705934 TAATTAAA
1 TAATTAAA
7705942 TAATTAAA
1 TAATTAAA
7705950 TA
1 TA
7705952 TTTTGAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 16 0.62
9 4 0.15
10 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATTAAA
Found at i:7705960 original size:22 final size:20
Alignment explanation
Indices: 7705902--7705965 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 20
7705892 GGTTGTTTTT
7705902 AATAATTAAATATTTAATTA
1 AATAATTAAATATTTAATTA
7705922 AATAATTAAATA--TAATTA
1 AATAATTAAATATTTAATTA
7705940 AATAATTAAATATTTTGAATTA
1 AATAATTAAATA-TTT-AATTA
7705962 AATA
1 AATA
7705966 TTTGAGTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 18 0.45
20 12 0.30
21 1 0.03
22 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAATTAAATATTTAATTA
Found at i:7706077 original size:308 final size:292
Alignment explanation
Indices: 7705445--7706207 Score: 1055
Period size: 308 Copynumber: 2.6 Consensus size: 292
7705435 AATTAAATAT
* * *
7705445 TTAATTAAATAAGTAAATATAATTAAATGATTAAATATTTTGAATTAAATATTCGGGTTGTTTTT
1 TTAATTAAATAA-TTAA-ATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTT
*
7705510 AATATTTAAATAAATAAATAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATT
64 AATATTTAAATAAATAATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATT
7705575 AAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATATTTT
129 AAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATATTTT
* * *
7705640 GAATTAAATATTTGGGTTGTTTTTAATATTTATATAAATAATTAGTTAATTAATTAATTAATTGG
194 GAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAA-TAGTTAATTAATTAATTAATTGA
*
7705705 GTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTG
258 GTTGATTTAAATAATTAAATAATTAAGTATTT-GG--G
7705743 TTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATATTTTGAATTAAATATTTG
1 ----T--TAATT-AA-A--TAATTAAATAATT-AA-ATAATTAAATATTTTGAATTAAATATTTG
*
7705808 GGTTGTTTTTAATATTTATATAAATAATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAA
54 GGTTGTTTTTAATATTTAAATAAATAATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAA
7705873 TTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAAT
119 TTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAA-T---TA-AA-
7705938 TAAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAAT-A-A-TTA
178 T--ATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAATAGTTA
*
7706000 ATTAATTAATTAATTGAGTTGATTTAAATAATTAAATAATTCAGTATTTGGG
241 ATTAATTAATTAATTGAGTTGATTTAAATAATTAAATAATTAAGTATTTGGG
7706052 TT-ATT---T--TT-AATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA
1 TTAATTAAATAATTAAATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA
* * * *
7706110 TATTTAAATAATTAATTAATTAA-TAATTAATTAATTTGGTTGATTTAAGTAATTAAATAATGAA
66 TATTTAAATAAATAATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAA
**
7706174 GTATTTGGGTTGTTTTTTCTAATTTAAA-ATTTAA
131 GTATTTGGGTTGTTTTTAATAA-TTAAATATTTAA
7706208 AAAAATTCAA
Statistics
Matches: 427, Mismatches: 17, Indels: 47
0.87 0.03 0.10
Matches are distributed among these distances:
289 64 0.15
290 67 0.16
291 2 0.00
292 7 0.02
293 2 0.00
295 1 0.00
302 4 0.01
303 1 0.00
304 5 0.01
305 3 0.01
306 7 0.02
307 5 0.01
308 147 0.34
309 2 0.00
311 2 0.00
312 51 0.12
313 3 0.01
314 1 0.00
315 1 0.00
316 52 0.12
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (292 bp):
TTAATTAAATAATTAAATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA
TATTTAAATAAATAATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAA
GTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATATTTTGA
ATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAATAGTTAATTAATTAATTAATTGAGTT
GATTTAAATAATTAAATAATTAAGTATTTGGG
Found at i:7706082 original size:34 final size:34
Alignment explanation
Indices: 7705990--7706082 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
7705980 AATATTTAAA
* * *
7705990 TAAATAATTAATTAATTAATTAATTGAGTTGATT
1 TAAATAATTAAATAATTAAATATTTGAGTTGATT
* * *
7706024 TAAATAATTAAATAATTCAGTATTTGGGTT-ATTT
1 TAAATAATTAAATAATTAAATATTTGAGTTGA-TT
*
7706058 TTAATAATTAAATAATTAAATATTT
1 TAAATAATTAAATAATTAAATATTT
7706083 TGAATTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
33 1 0.02
34 49 0.98
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (34 bp):
TAAATAATTAAATAATTAAATATTTGAGTTGATT
Found at i:7706082 original size:128 final size:130
Alignment explanation
Indices: 7705933--7706190 Score: 423
Period size: 128 Copynumber: 2.0 Consensus size: 130
7705923 ATAATTAAAT
7705933 ATAATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAAT
1 ATAATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAAT
**
7705998 TAA-T-TAATTAATTAA-TTGAGTTGATTTAAATAATTAAATAATTCAGTATTTGGGTTATTTTT
66 TAATTATAATTAATTAATTTG-GTTGATTTAAATAATTAAATAATGAAGTATTTGGGTTATTTTT
7706060 A
130 A
* *
7706061 ATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAATTAAT
1 ATAATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAAT
* *
7706126 TAATTAATAATTAATTAATTTGGTTGATTTAAGTAATTAAATAATGAAGTATTTGGGTTGTTTTT
66 TAATT-ATAATTAATTAATTTGGTTGATTTAAATAATTAAATAATGAAGTATTTGGGTTATTTTT
7706191 TCTAATTTAA
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
128 66 0.55
129 1 0.01
131 50 0.42
132 3 0.03
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (130 bp):
ATAATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATAAT
TAATTATAATTAATTAATTTGGTTGATTTAAATAATTAAATAATGAAGTATTTGGGTTATTTTTA
Found at i:7706127 original size:4 final size:4
Alignment explanation
Indices: 7706113--7706145 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
7706103 TTTTTAATAT
*
7706113 TTAA ATAA TTAA TTAA TTAA -TAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
7706146 TGGTTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:7706134 original size:15 final size:15
Alignment explanation
Indices: 7706116--7706145 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7706106 TTAATATTTA
7706116 AATAATTAATTAATT
1 AATAATTAATTAATT
7706131 AATAATTAATTAATT
1 AATAATTAATTAATT
7706146 TGGTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAATTAATTAATT
Found at i:7706136 original size:11 final size:11
Alignment explanation
Indices: 7706106--7706144 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7706096 TGGGTTGTTT
*
7706106 TTAATATTTAA
1 TTAATAATTAA
*
7706117 ATAATTAATTAA
1 TTAA-TAATTAA
7706129 TTAATAATTAA
1 TTAATAATTAA
7706140 TTAAT
1 TTAAT
7706145 TTGGTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAATAATTAA
Found at i:7706166 original size:49 final size:48
Alignment explanation
Indices: 7706044--7706170 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 48
7706034 AATAATTCAG
* * *
7706044 TATTTGGGTTATTTTTAATAATTAAATAATTAAATATTTTGAATTAAA
1 TATTTGGGTTGTATTTAATAATTAAATAATTAAATATTATGAATTAAA
* * * *
7706092 TATTTGGGTTGTTTTTAATATTTAAATAATTAATTAATTAAT-AATTAAT
1 TATTTGGGTTGTATTTAATAATTAAATAATTAAAT-ATT-ATGAATTAAA
7706141 TAATTT-GGTTG-ATTTAAGTAATTAAATAAT
1 T-ATTTGGGTTGTATTTAA-TAATTAAATAAT
7706171 GAAGTATTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
48 37 0.54
49 26 0.38
50 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.50
Consensus pattern (48 bp):
TATTTGGGTTGTATTTAATAATTAAATAATTAAATATTATGAATTAAA
Found at i:7708542 original size:41 final size:41
Alignment explanation
Indices: 7708480--7708801 Score: 268
Period size: 41 Copynumber: 7.9 Consensus size: 41
7708470 AATGTAAAAA
7708480 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* *
7708521 TTTTCGCGGCGCTTTTCCATAAGCGCCGCAATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* *
7708562 TTTTACCGGCGC-TTTCCATAAGTGCCGCTATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* *
7708602 TTTTAGCGGCGCTTTTCCATATGCGCCGCTATTGATCTA-A-
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCT-TAGAC
* * * **
7708642 TCTTTAGCGGTG-TTTATCGGA-AAGCGCCGCTATTTCTCGGA-
1 T-TTTAGCGGCGCTTT-TC-CATAAGCGCCGCTATTGCTTAGAC
* * ** *
7708683 TCTTTAGCGGCGCTTTTGCAAAAGCGTTGCTAATT-CTCT-TAC
1 T-TTTAGCGGCGCTTTTCCATAAGCGCCGCT-ATTGCT-TAGAC
* * * * *
7708725 CTTTAGCGGCGCTTTTCAATAAACGCCACTAATT-CTCT-TAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCT-ATTGCT-TAGAC
* ** *
7708766 CTTTAGCGGCGCTTTTAAATAAACGCCGCTATTGCT
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCT
7708802 CTATCTTTTA
Statistics
Matches: 235, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
40 45 0.19
41 181 0.77
42 9 0.04
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
Found at i:7708589 original size:81 final size:82
Alignment explanation
Indices: 7708480--7708635 Score: 260
Period size: 81 Copynumber: 1.9 Consensus size: 82
7708470 AATGTAAAAA
* *
7708480 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGACTTTTCGCGGCGCTTTTCCATAAGC
1 TTTTACCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGACTTTTAGCGGCGCTTTTCCATAAGC
7708545 GCCGCAATTGCTTAGAC
66 GCCGCAATTGCTTAGAC
* *
7708562 TTTTACCGGCGC-TTTCCATAAGTGCCGCTATTGCTTAGACTTTTAGCGGCGCTTTTCCATATGC
1 TTTTACCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGACTTTTAGCGGCGCTTTTCCATAAGC
*
7708626 GCCGCTATTG
66 GCCGCAATTG
7708636 ATCTAATCTT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 58 0.84
82 11 0.16
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.35
Consensus pattern (82 bp):
TTTTACCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGACTTTTAGCGGCGCTTTTCCATAAGC
GCCGCAATTGCTTAGAC
Found at i:7712123 original size:3 final size:3
Alignment explanation
Indices: 7712117--7712149 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7712107 ATAATAAATA
7712117 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7712150 TATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:7714142 original size:7 final size:7
Alignment explanation
Indices: 7714132--7714158 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7714122 AATTTAGGAA
7714132 TTAAAAG
1 TTAAAAG
7714139 TTAAAAG
1 TTAAAAG
7714146 TTAAAAG
1 TTAAAAG
7714153 TTAAAA
1 TTAAAA
7714159 TTTTTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
TTAAAAG
Found at i:7718540 original size:19 final size:20
Alignment explanation
Indices: 7718502--7718542 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7718492 ATTTATTAAC
7718502 TATATATCTTTTACTATTAT
1 TATATATCTTTTACTATTAT
* *
7718522 TATATAT-TTTTCCTTTTAT
1 TATATATCTTTTACTATTAT
7718541 TA
1 TA
7718543 GAATTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATATCTTTTACTATTAT
Found at i:7719801 original size:25 final size:23
Alignment explanation
Indices: 7719760--7719805 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
7719750 TCAATTAGAG
7719760 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
7719783 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
7719806 TGAATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Done.