Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 66 of 218
Found at i:19930628 original size:45 final size:44
Alignment explanation
Indices: 19930540--19930634 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
19930530 TTCAAGCTGT
* *
19930540 AGTGTAGCAGACTGAAGCCACCAACCTTATATCCCTGAAGTTGC
1 AGTGGAGCAGACTGAAGACACCAACCTTATATCCCTGAAGTTGC
* * * **
19930584 AGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGGGTTGC
1 AGTGGAGCAGACTGAAGACA-CCAACCTTATATCCCTGAAGTTGC
19930629 AGTGGA
1 AGTGGA
19930635 ACAAATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGGAGCAGACTGAAGACACCAACCTTATATCCCTGAAGTTGC
Found at i:19931204 original size:20 final size:18
Alignment explanation
Indices: 19931164--19931206 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
19931154 CTAGGCCCAA
*
19931164 CAAAATAAATTACAAAGC
1 CAAAATAAATTACAAACC
*
19931182 CAAAATAAACATTAGAAACC
1 CAAAAT-AA-ATTACAAACC
19931202 CAAAA
1 CAAAA
19931207 ATTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.63, C:0.19, G:0.05, T:0.14
Consensus pattern (18 bp):
CAAAATAAATTACAAACC
Found at i:19936865 original size:94 final size:94
Alignment explanation
Indices: 19936702--19936879 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
19936692 ACCACAAATC
* *
19936702 CTATACCCCTGAAGTTACAATAGGATGGATTGAAGCCATCATGACGAATCTTATCTCCCTAAAGT
1 CTATACCCCTAAAGTTACAATAGGATGGATTGAAGCCATCATGACGAATCTTATCTCCCTAAAGA
19936767 TGCAGTGAAGCAGATTAAAGCAACTAATT
66 TGCAGTGAAGCAGATTAAAGCAACTAATT
* * * * * *
19936796 CTATACCCCTAAAGTTGCAGTGGGATGGATTGAAGTCATCATGGCGAATCTTATCTCCCTGAAGA
1 CTATACCCCTAAAGTTACAATAGGATGGATTGAAGCCATCATGACGAATCTTATCTCCCTAAAGA
*
19936861 TGCAGTGAAGTAGATTAAA
66 TGCAGTGAAGCAGATTAAA
19936880 ACCACCAGCC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (94 bp):
CTATACCCCTAAAGTTACAATAGGATGGATTGAAGCCATCATGACGAATCTTATCTCCCTAAAGA
TGCAGTGAAGCAGATTAAAGCAACTAATT
Found at i:19937236 original size:18 final size:20
Alignment explanation
Indices: 19937213--19937255 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19937203 CTAGGCCTAA
*
19937213 CAAAAT-AA-ATTACAAAGC
1 CAAAATAAACATTACAAACC
19937231 CAAAATAAACATTACAAACC
1 CAAAATAAACATTACAAACC
19937251 CAAAA
1 CAAAA
19937256 ATTAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 14 0.64
ACGTcount: A:0.63, C:0.21, G:0.02, T:0.14
Consensus pattern (20 bp):
CAAAATAAACATTACAAACC
Found at i:19937432 original size:15 final size:16
Alignment explanation
Indices: 19937403--19937432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19937393 AGACACGCAA
19937403 AGTAGCAACAGAGAAC
1 AGTAGCAACAGAGAAC
19937419 AGTAGCAA-AGAGAA
1 AGTAGCAACAGAGAA
19937433 ATAATAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.13, G:0.27, T:0.07
Consensus pattern (16 bp):
AGTAGCAACAGAGAAC
Found at i:19939740 original size:21 final size:21
Alignment explanation
Indices: 19939715--19939756 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19939705 ATATACATGG
19939715 ATTGCCACGTAGATGACAGGT
1 ATTGCCACGTAGATGACAGGT
19939736 ATTGCCACGTAGATGACAGGT
1 ATTGCCACGTAGATGACAGGT
19939757 CAACATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
ATTGCCACGTAGATGACAGGT
Found at i:19944091 original size:9 final size:9
Alignment explanation
Indices: 19944079--19944108 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19944069 ATAATTATTG
19944079 TTATTACTA
1 TTATTACTA
*
19944088 TTATTAATA
1 TTATTACTA
19944097 TTATTACTA
1 TTATTACTA
19944106 TTA
1 TTA
19944109 CCGCTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATTACTA
Found at i:19944464 original size:29 final size:29
Alignment explanation
Indices: 19944432--19944487 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
19944422 TTTAACATCT
*
19944432 TTAATTCATTTCAACTTATTTTAATATAG
1 TTAATTCATTTAAACTTATTTTAATATAG
* * *
19944461 TTAATTTATTTAAATTTGTTTTAATAT
1 TTAATTCATTTAAACTTATTTTAATAT
19944488 TTTAATTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (29 bp):
TTAATTCATTTAAACTTATTTTAATATAG
Found at i:19947363 original size:113 final size:113
Alignment explanation
Indices: 19947138--19947369 Score: 369
Period size: 113 Copynumber: 2.1 Consensus size: 113
19947128 TCCCAATATT
* *
19947138 AATAATATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGAT
1 AATATTATGTAATACAAGAGGAACTAATGACTTTAGGTCAATAATATGAACCTGATATATTAGAT
* *
19947203 GAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCTGAGAG
66 GAGCAACTGATAAAAGTGCCGGGTAATATGTTTAGGTGATGCAGAGAG
* *
19947251 AATATTATGTAATACAAGAGGAACTAATGACTTTAGGTC-ATGATATGAATCTGATATATTAGAT
1 AATATTATGTAATACAAGAGGAACTAATGACTTTAGGTCAATAATATGAACCTGATATATTAGAT
*
19947315 GAGCAACTGAT-AAAGTGCCGGGTAATATTTTTAGGTGATGCCGAGAGAG
66 GAGCAACTGATAAAAGTGCCGGGTAATATGTTTAGGTGATG-C-AGAGAG
19947364 AATATT
1 AATATT
19947370 GGAGTTTACT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
111 27 0.25
112 35 0.32
113 48 0.44
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.31
Consensus pattern (113 bp):
AATATTATGTAATACAAGAGGAACTAATGACTTTAGGTCAATAATATGAACCTGATATATTAGAT
GAGCAACTGATAAAAGTGCCGGGTAATATGTTTAGGTGATGCAGAGAG
Found at i:19948126 original size:18 final size:17
Alignment explanation
Indices: 19948105--19948157 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
19948095 AAAAATTATG
*
19948105 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
19948123 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
19948140 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
19948158 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:19949443 original size:25 final size:25
Alignment explanation
Indices: 19949374--19949444 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
19949364 AATTTTCTCG
* *
19949374 AAATTTTACCGATGGTAAAATCGTCA
1 AAATTTTATCGGT-GTAAAATCGTCA
* *
19949400 AAATTTTACTAGG-GGAAAATCGTCA
1 AAATTTTA-TCGGTGTAAAATCGTCA
19949425 AAATTTTATCGGTGTAAAAT
1 AAATTTTATCGGTGTAAAAT
19949445 TGTGATGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 25 0.68
26 8 0.22
27 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (25 bp):
AAATTTTATCGGTGTAAAATCGTCA
Found at i:19951794 original size:19 final size:22
Alignment explanation
Indices: 19951758--19951800 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
19951748 GTTGACTCTC
19951758 AACCTTTGTCAATAATAT-CAA
1 AACCTTTGTCAATAATATACAA
*
19951779 AACC-TTGTTAAT-ATATACAA
1 AACCTTTGTCAATAATATACAA
19951799 AA
1 AA
19951801 ATATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (22 bp):
AACCTTTGTCAATAATATACAA
Found at i:19955538 original size:125 final size:124
Alignment explanation
Indices: 19955294--19955859 Score: 740
Period size: 124 Copynumber: 4.5 Consensus size: 124
19955284 GATAAAATCA
* * * * * * *
19955294 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCTG-CCACGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGC-GCCCACGTGGACGCGCTTTTGCTACAG
* **
19955358 TAGGTCCTAGAAAAATAATTTCAACTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
* * *
19955418 AAGCAGGATGCTTTATGAGAAGAATTTGTGAATTCGCGCCCTCGTGGAAGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
19955483 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
* * * *
19955543 AAGCAGGATGATTTATAAGAAGAATTTGAGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
19955608 GGGTCCTGAAAAAATAATTTTGAGTTGACGTTCTTGAGCAAATAGTATAAAATAACGCTGC
66 AGGTCCTGGAAAAATAATTTTGACTTGACGTTTTTGAGCAAATAGT-TTAAA-AACGCTTC
* * *
19955669 AAGCAGCATGCTATT-TGAGAAGAGTTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * *
19955733 TAGGTCTTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATCACTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
* * * *
19955793 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACACGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
19955858 AG
66 AG
19955860 CATGTTTAGG
Statistics
Matches: 386, Mismatches: 50, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
123 3 0.01
124 159 0.41
125 120 0.31
126 102 0.26
127 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTTTGAGCAAATAGTTTAAAAACGCTTC
Found at i:19959066 original size:22 final size:22
Alignment explanation
Indices: 19959025--19959457 Score: 517
Period size: 22 Copynumber: 20.0 Consensus size: 22
19959015 TCAAATTATA
19959025 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
19959046 TTTAATTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959068 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959089 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959110 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
* *
19959132 TTTAATTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959154 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959176 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
19959198 TTAAAGTTAAAGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
19959219 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
19959241 TTTAAGTTAAGGGGTTAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959263 TTTAAGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959284 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
19959306 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* ** *
19959327 TTTAGGTTAATAGTTT-GTGGGT
1 TTTAAGTTAAGGGTTTAG-GGTT
*
19959349 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
19959371 TTTAGGTTAA-TGTGTTAAGGTT
1 TTTAAGTTAAGGGT-TTAGGGTT
*
19959393 TTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
19959415 TTTAGGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
19959437 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
19959458 AGGGTTTTTA
Statistics
Matches: 355, Mismatches: 46, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
21 119 0.34
22 232 0.65
23 4 0.01
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:19959085 original size:43 final size:43
Alignment explanation
Indices: 19959025--19959457 Score: 480
Period size: 43 Copynumber: 10.0 Consensus size: 43
19959015 TCAAATTATA
* * *
19959025 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* *
19959068 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* *
19959110 TTTAGGTTAAGGGTTTATGGG-TTTTAATTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGGGTTAGGGTT
* * *
19959154 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* * * *
19959198 TTAAAGTTAAAGGTTAGTGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* *
19959241 TTTAAGTTAAGGGGTTAGGTTTTTTAAGTTAA-GGGTTAGGATT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
19959284 TTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* ** * * * *
19959327 TTTAGGTTAATAGTTTGTGGGTTTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTAG-GGTTTTTAAGTTAAGGGGTTAGGGTT
* * * * *
19959371 TTTAGGTTAATGTGTTAAGGTTTTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
* * *
19959415 TTTAGGTTAAGGGTTTAGGATTTTTAATTTAA-GGGTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
19959458 AGGGTTTTTA
Statistics
Matches: 338, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
42 24 0.07
43 166 0.49
44 145 0.43
45 3 0.01
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
Found at i:19959167 original size:65 final size:63
Alignment explanation
Indices: 19959025--19959457 Score: 492
Period size: 65 Copynumber: 6.7 Consensus size: 63
19959015 TCAAATTATA
* *
19959025 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAATGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT-AAGTTAAGGGTTAGGGTT
* * *
19959089 TTTAAGTTAAGGGTTAAGGTTTTTAGGTTAAGGGTTTATGGGTTTTAATTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTTTTAAGTTAA-GGGTTAGGGTT
* * * *
19959154 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTAAAGTTAAAGGTTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT-AAGTTAAGGGTTAGGGTT
* * *
19959219 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGTTTTTTAAGTTAAGGGTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGG-GTTTTAAGTTAAGGGTTAGGGTT
* ** * *
19959284 TTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAATAGTTTGTGGG
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTTAAGTTAAGGGTTAG-GGT
19959348 T
63 T
* * * * * *
19959349 TTTAAGTTAAGGGTTTATGGTTTTTAGGTTAATGTGTTAAGGTTTTTAAATTAAGGGTTTAGGGT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAA-GGGTTTAGGGTTTTAAGTTAAGGG-TTAGGGT
19959414 T
63 T
* * *
19959415 TTTAGGTTAAGGGTTTAGGATTTTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
19959458 AGGGTTTTTA
Statistics
Matches: 312, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
64 68 0.22
65 160 0.51
66 77 0.25
67 7 0.02
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (63 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGGTTAGGGTT
Found at i:19960914 original size:20 final size:20
Alignment explanation
Indices: 19960877--19960914 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19960867 TTTATTTTTA
*
19960877 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
19960897 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
19960915 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:19961842 original size:16 final size:16
Alignment explanation
Indices: 19961817--19961850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19961807 GTTTAAAAAA
19961817 TTTTTAAAAAAAATAT
1 TTTTTAAAAAAAATAT
* *
19961833 TTTTTTAAAAATATAT
1 TTTTTAAAAAAAATAT
19961849 TT
1 TT
19961851 AAGAGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAAAAAATAT
Found at i:19961912 original size:11 final size:11
Alignment explanation
Indices: 19961898--19961963 Score: 66
Period size: 12 Copynumber: 5.9 Consensus size: 11
19961888 ATAAATATGG
19961898 ATTTGAGAGAA
1 ATTTGAGAGAA
*
19961909 ATTTTGA-AGGA
1 A-TTTGAGAGAA
19961920 ATTTGAGAGGAA
1 ATTTGAGA-GAA
19961932 ATTT-AGAAGAA
1 ATTTGAG-AGAA
19961943 A-TTGAGAGAAA
1 ATTTGAGAG-AA
19961954 ATTTGAGAGA
1 ATTTGAGAGA
19961964 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.20
11 18 0.39
12 19 0.41
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:19961923 original size:22 final size:21
Alignment explanation
Indices: 19961898--19961959 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
19961888 ATAAATATGG
19961898 ATTTGAGAGAAATTTTGAAGGA
1 ATTTGAGAGAAATTTTGAA-GA
*
19961920 ATTTGAGAGGAAATTTAGAAGA
1 ATTTGAGA-GAAATTTTGAAGA
* *
19961942 AATTGAGAGAAAATTTGA
1 ATTTGAGAGAAATTTTGA
19961960 GAGAGGATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (21 bp):
ATTTGAGAGAAATTTTGAAGA
Found at i:19970092 original size:3 final size:3
Alignment explanation
Indices: 19970084--19970125 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
19970074 AACTTGATGT
19970084 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
19970126 GTTAGTGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19975001 original size:16 final size:16
Alignment explanation
Indices: 19974980--19975011 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19974970 ACATGCTTTT
19974980 TTTAATGTTTTTTTAA
1 TTTAATGTTTTTTTAA
*
19974996 TTTAATTTTTTTTTAA
1 TTTAATGTTTTTTTAA
19975012 AAAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTAATGTTTTTTTAA
Found at i:19975778 original size:15 final size:15
Alignment explanation
Indices: 19975759--19975809 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
19975749 TCCACCAAAT
*
19975759 AAAATATTATTTTTT
1 AAAATATTATTTTTA
* ** *
19975774 AAAATTTTAAATTAA
1 AAAATATTATTTTTA
19975789 AAAATATTATTTTTA
1 AAAATATTATTTTTA
19975804 AAAATA
1 AAAATA
19975810 AAAAACACAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATATTATTTTTA
Found at i:19977380 original size:15 final size:14
Alignment explanation
Indices: 19977359--19977394 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19977349 ATAATCCTTA
*
19977359 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19977373 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19977388 ATAATTA
1 ATAATTA
19977395 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:19981362 original size:36 final size:33
Alignment explanation
Indices: 19981286--19981368 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 33
19981276 AGTTTGTTCC
* *
19981286 AAGTTTGTTGCAATGAATCTAATTTAAGTTACA
1 AAGTTTGTTCCAATGAATCTAATTTAAGATACA
*
19981319 AAATTTGTTCCAATGAATCTCAATTAAATAA-ATACA
1 AAGTTTGTTCCAATGAATCT-AATT---TAAGATACA
19981355 AAGTTTGTTCCAAT
1 AAGTTTGTTCCAAT
19981369 TTTGTTCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 18 0.43
34 4 0.10
36 17 0.40
37 3 0.07
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (33 bp):
AAGTTTGTTCCAATGAATCTAATTTAAGATACA
Found at i:19984848 original size:19 final size:19
Alignment explanation
Indices: 19984820--19984932 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
19984810 AATTTTTGAG
*
19984820 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
**
19984839 GATATACAATCCAAGATAT
1 GATATACAATCTTAGATAT
*
19984858 GATATATGCAATCCTAGATAT
1 GATATA--CAATCTTAGATAT
*
19984879 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19984898 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19984917 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
19984933 ATATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:19984865 original size:40 final size:40
Alignment explanation
Indices: 19984821--19984927 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
19984811 ATTTTTGAGG
*
19984821 ATATGCAATCTTAGATATGATATACAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
* **
19984861 ATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19984901 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19984928 TTAGAATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 22 0.35
40 40 0.65
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:19985754 original size:12 final size:12
Alignment explanation
Indices: 19985739--19985765 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19985729 TTTTAAAGAA
19985739 TATTTTCATATT
1 TATTTTCATATT
19985751 TATTTTCATATT
1 TATTTTCATATT
19985763 TAT
1 TAT
19985766 ATGTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTCATATT
Found at i:19985756 original size:25 final size:24
Alignment explanation
Indices: 19985697--19985756 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
19985687 ATGTACATGT
*
19985697 ATATTTTTTTTAACGAATATTTTC
1 ATATTTTTTTTAAAGAATATTTTC
*
19985721 CTATATTTTTTTAAAGAATATTTTC
1 ATAT-TTTTTTTAAAGAATATTTTC
*
19985746 ATATTTATTTT
1 ATATTTTTTTT
19985757 CATATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (24 bp):
ATATTTTTTTTAAAGAATATTTTC
Found at i:19986550 original size:98 final size:98
Alignment explanation
Indices: 19986429--19986625 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
19986419 TAAAAAATAA
* *
19986429 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGAGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
19986494 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * * * *
19986527 TAAATGAAATATTCGGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGTGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
19986592 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
19986625 T
1 T
19986626 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:19992970 original size:44 final size:44
Alignment explanation
Indices: 19992922--19993238 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
19992912 AAGATTGTAG
*
19992922 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * * *
19992966 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCATATTTAA-ATC-ACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGA-CGACGA
* * * * * ** * * *
19993009 AGCCTTGTCTCCGTCAGCAGCAACGGAGAAGGTTGAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* *
19993054 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
** * * *
19993098 ATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * * *
19993141 AGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTAAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
19993186 ATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
19993230 ATCTTATCT
1 ATCTTATCT
19993239 TTCCAAGATA
Statistics
Matches: 189, Mismatches: 61, Indels: 46
0.64 0.21 0.16
Matches are distributed among these distances:
42 8 0.04
43 21 0.11
44 141 0.75
45 13 0.07
46 4 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
Found at i:19993392 original size:264 final size:264
Alignment explanation
Indices: 19992809--19993393 Score: 800
Period size: 264 Copynumber: 2.2 Consensus size: 264
19992799 CCTGCATTGA
* * * * * ** *
19992809 CAGTGAAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCTAAGATAGCAGAAAGCAGATTTAAGCCA
* *
19992874 CCAAGACTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGC
66 CCAAGACTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGA
* *
19992939 AGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAAT
131 AGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAAC
* * *
19993004 CACCAAGCCTTGTCTCCGTCAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
196 CACCAAGCCTTGTCTCCCTCAGCAGCAACGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAA
19993069 GCAG
261 GCAG
* * * * ** *
19993073 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCA
1 CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCTAAGATAGCAGAAAGCAGATTTAAGCCA
* *
19993138 CCAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGA
66 CCAAGACTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGA
* *
19993203 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
131 AGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAAC
* *
19993268 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTGA
196 CACCAAGCCTTGTCTCCCTCAGCAGCAACGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCT-A
*
19993333 AGTTA-
260 AG-CAG
** * * *
19993338 CAGTGGAGTGGAT-TAAAACCTC-AGATCTTATCTCTCTGAAGTTA-CAGAAAGCAGAT
1 CAGTGGAGCAGATCGAAAACCGCGA-ATCTTATCTCTCT-AAGATAGCAGAAAGCAGAT
19993394 CGCATCTAGT
Statistics
Matches: 288, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
263 1 0.00
264 268 0.93
265 18 0.06
266 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (264 bp):
CAGTGGAGCAGATCGAAAACCGCGAATCTTATCTCTCTAAGATAGCAGAAAGCAGATTTAAGCCA
CCAAGACTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGA
AGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAAC
CACCAAGCCTTGTCTCCCTCAGCAGCAACGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCTAA
GCAG
Found at i:19993393 original size:132 final size:132
Alignment explanation
Indices: 19992810--19993330 Score: 889
Period size: 132 Copynumber: 3.9 Consensus size: 132
19992800 CTGCATTGAC
*
19992810 AGTGAAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19992875 CAAGACTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19992940 GT
131 GT
* * **
19992942 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAATCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
19993007 CAAGCCTTGTCTCCGTCAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19993072 GT
131 GT
*
19993074 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19993139 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGAA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19993204 GT
131 GT
19993206 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
19993271 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCT
19993331 GAAGTTACAG
Statistics
Matches: 363, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 363 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:19993452 original size:44 final size:43
Alignment explanation
Indices: 19993401--19993923 Score: 462
Period size: 44 Copynumber: 11.9 Consensus size: 43
19993391 GATCGCATCT
*
19993401 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
19993445 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
* *
19993490 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * * *
19993533 TAATCCTATCTCCCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
19993574 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
19993618 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGAATGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
* *
19993663 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * *
19993706 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTC
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
19993750 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
19993795 AGTCCTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAA-ATTGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA--AGCA
* * *
19993840 AGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATAAGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
19993884 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA
19993924 TGGCACTAAT
Statistics
Matches: 393, Mismatches: 55, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
40 22 0.06
41 9 0.02
42 6 0.02
43 22 0.06
44 214 0.54
45 113 0.29
46 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:19993508 original size:173 final size:172
Alignment explanation
Indices: 19993322--19993877 Score: 828
Period size: 173 Copynumber: 3.2 Consensus size: 172
19993312 TTGTAAATCC
* ** * * * *
19993322 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACC-TCAGATCTTATCTCTCTGAAGTTACAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT-A-ATCCTATCTCCCTGAAGTTGCAGA
* *
19993386 AAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCAAGTCTT
64 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
19993451 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCT
129 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCT
*
19993495 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCCTATCTCCCTGAAGTTGCAGAG
19993560 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
65 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
*
19993625 TCCTCCTGAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCT
130 TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCT
* *
19993668 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCCTATCTCCCTGAAGTTGCAG-A
* *** *
19993733 GAGCGGATTAAAACCTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
64 GAGCAGA-TCGCATCT-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
19993798 CCTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAA-ATTGGCAAGTCT
126 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGA-TGGCAAGTCT
* *
19993845 TATCTCCCTGAAGTTGCACTGGAGCAGACTAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
19993878 TAAGTAAGTC
Statistics
Matches: 352, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
173 219 0.62
174 7 0.02
175 5 0.01
176 3 0.01
177 118 0.34
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (172 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCCTATCTCCCTGAAGTTGCAGAGA
GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCT
Found at i:19993509 original size:89 final size:89
Alignment explanation
Indices: 19993401--19993928 Score: 604
Period size: 89 Copynumber: 6.0 Consensus size: 89
19993391 GATCGCATCT
* *
19993401 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
19993466 CAGTGGGGCAGACTGAAGATGGCA
66 CAGTGGGGCAGACTGAAGATGGCA
* * *
19993490 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA--AAGCCGATAATCCTAT-CTCCCTGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AGTCCTATCCT-CCTGAA
* * * *
19993551 GTTGCAG-AGAGCAGA-TCG--CAT--CT
62 GTTGCAGTGGGGCAGACT-GAAGATGGCA
*
19993574 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
*
19993639 CAGTGGGGCAGAATGAAGATGGCA
66 CAGTGGGGCAGACTGAAGATGGCA
* * *
19993663 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTA--AAGCCGATAATCCTAT-CTCCCTGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AGTCCTATCCT-CCTGAA
* * * * ***
19993724 GTTGCAGTGGAGCGGA-TTAAAACCTC-
62 GTTGCAGTGGGGCAGACTGAAGATGGCA
19993750 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTT
19993815 GCAGTGGGGCAGACTGAA-ATTGGCA
65 GCAGTGGGGCAGACTGAAGA-TGGCA
* * * *
19993840 AGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATAAGTAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
*
19993905 CAGTGAGGCAGACTGAAGATGGCA
66 CAGTGGGGCAGACTGAAGATGGCA
19993929 CTAATTCCTA
Statistics
Matches: 369, Mismatches: 42, Indels: 56
0.79 0.09 0.12
Matches are distributed among these distances:
84 52 0.14
85 12 0.03
86 10 0.03
87 10 0.03
88 80 0.22
89 198 0.54
90 4 0.01
91 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
CAGTGGGGCAGACTGAAGATGGCA
Found at i:19994118 original size:19 final size:19
Alignment explanation
Indices: 19994094--19994206 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
19994084 AATTTTTGAA
19994094 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19994113 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
19994132 GATATATGCAATCCTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
19994153 GATATGCAAACTTAAATAT
1 GATATGCAATCTTAGATAT
**
19994172 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19994191 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19994207 ATATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 62 0.77
21 18 0.22
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19994139 original size:40 final size:40
Alignment explanation
Indices: 19994095--19994202 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
19994085 ATTTTTGAAG
19994095 ATATGCAATCTTAGATATGATATGCAATC-CAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTCAA-ATATGAT
* * *
19994135 ATATGCAATCCTAGATATGATATGCAAACTTAAATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTCAAATATGAT
19994175 ATAT--AATCTTAGATATGATATGCAATCT
1 ATATGCAATCTTAGATATGATATGCAATCT
19994203 TAGAATATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 22 0.35
40 38 0.61
41 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTCAAATATGAT
Found at i:19995016 original size:23 final size:25
Alignment explanation
Indices: 19994962--19995010 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
19994952 TATGTACATG
*
19994962 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
19994987 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
19995011 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:19995805 original size:98 final size:98
Alignment explanation
Indices: 19995689--19995879 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
19995679 ATAATAAAGG
* *
19995689 AAATATTCCGAGTTTGGGATTTTAAAGGAATTGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
19995754 CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
66 CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
* * * *
19995787 AAATATTCGGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGTGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
19995852 CTTGGATAAGTGGATGTTCTTTTAAAGT
66 CTTGGATAAGTGGATGTTCTTTTAAAGT
19995880 TTTATTGTAC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
Found at i:19997104 original size:3 final size:3
Alignment explanation
Indices: 19997098--19997157 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
19997088 CGTCGTCATC
19997098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
19997146 ATT ATT GTT ATT
1 ATT ATT ATT ATT
19997158 CACGTTATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19997638 original size:7 final size:7
Alignment explanation
Indices: 19997598--19997624 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19997588 ATATATTGCC
19997598 ACTATTT
1 ACTATTT
19997605 ACTATTT
1 ACTATTT
19997612 ACTATTT
1 ACTATTT
19997619 ACTATT
1 ACTATT
19997625 CAATTTTCTA
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:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
ACTATTT
Found at i:19997687 original size:18 final size:20
Alignment explanation
Indices: 19997653--19997690 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
19997643 ATAGTCAATA
19997653 AATTAATCATAATAATTTAT
1 AATTAATCATAATAATTTAT
19997673 AATTAAT-AT-ATAATTTAT
1 AATTAATCATAATAATTTAT
19997691 TTATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAATCATAATAATTTAT
Found at i:19998384 original size:23 final size:23
Alignment explanation
Indices: 19998355--19998398 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19998345 TGTATATATT
* *
19998355 TGTTGAGGAAAAATTATATTTCA
1 TGTTGAGCAAAAATAATATTTCA
*
19998378 TGTTGAGCTAAAATAATATTT
1 TGTTGAGCAAAAATAATATTT
19998399 TGCATCGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTGAGCAAAAATAATATTTCA
Found at i:20005952 original size:16 final size:16
Alignment explanation
Indices: 20005909--20005954 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
20005899 AAGTGCCTTG
20005909 GAAAACACATTTTTTC
1 GAAAACACATTTTTTC
20005925 GAAAA-ACATTTTTTAC
1 GAAAACACATTTTTT-C
*
20005941 -AAAACACGTTTTTT
1 GAAAACACATTTTTT
20005955 GTTAACTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (16 bp):
GAAAACACATTTTTTC
Found at i:20006524 original size:28 final size:27
Alignment explanation
Indices: 20006493--20006552 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
20006483 GTTTTTGCTT
* * * *
20006493 TTAATTAATAAATTTTTATTTATATAGA
1 TTAAATAATAAATATGTAATTATAT-GA
*
20006521 TTAAATATTAAATATGTAATTATATGA
1 TTAAATAATAAATATGTAATTATATGA
20006548 TTAAA
1 TTAAA
20006553 ATATATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAAATAATAAATATGTAATTATATGA
Found at i:20006567 original size:32 final size:32
Alignment explanation
Indices: 20006525--20006594 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
20006515 TATAGATTAA
*
20006525 ATATTAAATATGTAAT-TAT-ATGATTAAAATAT
1 ATATTTAATATGTAATGTATAAT-ATT-AAATAT
*
20006557 ATATTTAATATTTAATGTATAATATTAAATAT
1 ATATTTAATATGTAATGTATAATATTAAATAT
20006589 AT-TTTA
1 ATATTTA
20006595 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.12
32 22 0.65
33 6 0.18
34 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (32 bp):
ATATTTAATATGTAATGTATAATATTAAATAT
Found at i:20006684 original size:16 final size:17
Alignment explanation
Indices: 20006663--20006695 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20006653 TTAATTCATG
20006663 TTTTTAATTA-ATAAAT
1 TTTTTAATTATATAAAT
*
20006679 TTTTTATTTATATAAAT
1 TTTTTAATTATATAAAT
20006696 AAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATTATATAAAT
Found at i:20007060 original size:14 final size:13
Alignment explanation
Indices: 20007043--20007079 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
20007033 ATAATAAATT
20007043 AAAAGAAAAAAAGG
1 AAAAGAAAAAAA-G
20007057 AAAAGAATAAAAAG
1 AAAAGAA-AAAAAG
20007071 AAAAGAAAA
1 AAAAGAAAA
20007080 TTGCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 15 0.68
15 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:20007980 original size:27 final size:27
Alignment explanation
Indices: 20007948--20008017 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
20007938 TTTAACGGCG
20007948 CTTTTACAAGCGCCGCAAAAAGCGCCA
1 CTTTTACAAGCGCCGCAAAAAGCGCCA
*
20007975 CTTTTACAAGCGCCGCAAAAAGCGCCG
1 CTTTTACAAGCGCCGCAAAAAGCGCCA
*
20008002 CTATTGACAA-CGCCGC
1 CT-TTTACAAGCGCCGC
20008018 TTTATGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (27 bp):
CTTTTACAAGCGCCGCAAAAAGCGCCA
Found at i:20008077 original size:43 final size:43
Alignment explanation
Indices: 20008029--20008120 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
20008019 TTATGTGAAA
*
20008029 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGCCAC
*
20008072 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGCCAC
20008115 AAACGC
1 AAACGC
20008121 TTTAGATACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGCCAC
Found at i:20013791 original size:34 final size:34
Alignment explanation
Indices: 20013744--20013811 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
20013734 ATTTCTAAAC
* * * **
20013744 CCTAAATCACTAACTCTTAACTTTTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
*
20013778 CCTAAACCCCTAACCCCTAACTACTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
20013812 ACCTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (34 bp):
CCTAAACCACTAACCCCTAACTACTAACCCCTAA
Found at i:20013793 original size:20 final size:20
Alignment explanation
Indices: 20013768--20013811 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
20013758 TCTTAACTTT
20013768 TAACCCCTAACCTA-AACCCC
1 TAACCCCTAA-CTACAACCCC
20013788 TAACCCCTAACTACTAACCCC
1 TAACCCCTAACTAC-AACCCC
20013809 TAA
1 TAA
20013812 ACCTTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (20 bp):
TAACCCCTAACTACAACCCC
Found at i:20013875 original size:70 final size:69
Alignment explanation
Indices: 20013792--20013924 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 69
20013782 AACCCCTAAC
* *
20013792 CCCTAACTACTAACCCCTAAACCTTATCTAATATATAAATTCAAAA-ACATTAATTAATCTAAAC
1 CCCTAACTACTAACCCCTAAACCTTATCTAATA-AAAAATT-AAAACACACTAATTAATCTAAAC
20013856 TCGAAT
64 TCGAAT
* * *
20013862 CCCTAACCT-CTAACCCCTAAACTTTATTTCATAAAAAATTAAAACACACTAATTAATCTAAAC
1 CCCTAA-CTACTAACCCCTAAACCTTATCTAATAAAAAATTAAAACACACTAATTAATCTAAAC
20013925 CCTAAAGCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
68 4 0.07
69 23 0.41
70 27 0.48
71 2 0.04
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (69 bp):
CCCTAACTACTAACCCCTAAACCTTATCTAATAAAAAATTAAAACACACTAATTAATCTAAACTC
GAAT
Found at i:20013936 original size:69 final size:71
Alignment explanation
Indices: 20013779--20013939 Score: 186
Period size: 69 Copynumber: 2.3 Consensus size: 71
20013769 AACCCCTAAC
* * *
20013779 CTAAACCCCTAACCCCTAA-CTACTAACCCCTAAACCTTATCTAATATATAAATTCAAAAACATT
1 CTAAA-CCCTAAACCCTAACCTACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAACACT
20013843 AATTAAT
65 AATTAAT
* * * * * *
20013850 CTAAACTCGAATCCCTAACCT-CTAACCCCTAAACTTTATTTCATA-AAAAATT-AAAACACACT
1 CTAAACCCTAAACCCTAACCTACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAA-ACACT
20013912 AATTAAT
65 AATTAAT
*
20013919 CTAAACCCTAAAGCCTAACCT
1 CTAAACCCTAAACCCTAACCT
20013940 GACATCGAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
68 4 0.05
69 34 0.45
70 31 0.41
71 7 0.09
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.27
Consensus pattern (71 bp):
CTAAACCCTAAACCCTAACCTACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAACACTA
ATTAAT
Found at i:20014420 original size:19 final size:19
Alignment explanation
Indices: 20014380--20014422 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20014370 AATTTTAATT
*
20014380 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
20014399 AATAGTAAAT-AACAGATAA
1 AATA-TAAATAAACAAATAA
20014418 AATAT
1 AATAT
20014423 TTTTGCGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:20014488 original size:41 final size:41
Alignment explanation
Indices: 20014431--20014625 Score: 309
Period size: 41 Copynumber: 4.8 Consensus size: 41
20014421 ATTTTTGCGA
* * *
20014431 CGCTTTCTCAAAAACGCCGCTAAAGCTCTAAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
20014472 CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* *
20014513 TGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGC
1 CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* *
20014554 CGCTTTTTTAAAAACGCTGCTAAAGATCTGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* *
20014595 CGCTTTTTTAAAAACGCCGCTAAAGACCTGA
1 CGCTTTTTCAAAAACGCCGCTAAAGATCTGA
20014626 TAGGTCAAAA
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (41 bp):
CGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
Found at i:20018180 original size:9 final size:9
Alignment explanation
Indices: 20018166--20018191 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20018156 AATTGAAAAC
20018166 AAAATTAAA
1 AAAATTAAA
20018175 AAAATTAAA
1 AAAATTAAA
20018184 AAAATTAA
1 AAAATTAA
20018192 GATCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATTAAA
Found at i:20018535 original size:40 final size:40
Alignment explanation
Indices: 20018471--20018575 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
20018461 GCGGCATTTT
*
20018471 AAACGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTTCAA
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCCCTTTTTCAA
* **
20018510 AAATCGCCGCTAAAGATCCAA-CATTAGCGGCCCTTTTTGGA
1 AAA-CGCCGCTAAAAAT-CAAGCATTAGCGGCCCTTTTTCAA
*
20018551 AAACGCCGCTAAAAAT-GAGCATTAG
1 AAACGCCGCTAAAAATCAAGCATTAG
20018576 TGGCGTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.16
40 35 0.62
41 11 0.20
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (40 bp):
AAACGCCGCTAAAAATCAAGCATTAGCGGCCCTTTTTCAA
Found at i:20018787 original size:41 final size:41
Alignment explanation
Indices: 20018643--20018774 Score: 210
Period size: 41 Copynumber: 3.2 Consensus size: 41
20018633 CCATTAGAGG
* * *
20018643 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAAC
1 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
* * *
20018684 CTTTACCGGCGTTTATGGAAAAGTGCCGCTAATGCTCAGAG
1 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
20018725 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
20018766 CTTTAGCGG
1 CTTTAGCGG
20018775 TTTTTTTTGA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (41 bp):
CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
Found at i:20019226 original size:14 final size:15
Alignment explanation
Indices: 20019198--20019230 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
20019188 AAGGTTTATA
20019198 GATTATGGAATTAGG
1 GATTATGGAATTAGG
20019213 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
20019227 GATT
1 GATT
20019231 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:20019973 original size:50 final size:50
Alignment explanation
Indices: 20019918--20020019 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
20019908 AAAACGGCAT
*
20019918 CGTTTTGTTCAAAATGAAATACTTTTTTGTGGCATTTTTTGAAAAAACGC
1 CGTTTTGTTCAAAATGAAATACTTTTTTATGGCATTTTTTGAAAAAACGC
20019968 CGTTTTGTTCAAAATGAAATACTTTTTTATGGCATTTTTTGAAAAAACGC
1 CGTTTTGTTCAAAATGAAATACTTTTTTATGGCATTTTTTGAAAAAACGC
20020018 CG
1 CG
20020020 CAAAAGATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (50 bp):
CGTTTTGTTCAAAATGAAATACTTTTTTATGGCATTTTTTGAAAAAACGC
Found at i:20023128 original size:39 final size:39
Alignment explanation
Indices: 20023051--20023128 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
20023041 CACTAAAGTT
* * *
20023051 TGAGCAATAGCGGCGTTTTTTAAAAAATGCAGCTAAAAA
1 TGAGCAATAGCGGCGTTTTTCAAAAAACGCAGCAAAAAA
*
20023090 TGAGCATTAGCGGCGTTTTTCAAAAAACGTC-GCAAAAAA
1 TGAGCAATAGCGGCGTTTTTCAAAAAACG-CAGCAAAAAA
20023129 CCTAAGCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.97
40 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (39 bp):
TGAGCAATAGCGGCGTTTTTCAAAAAACGCAGCAAAAAA
Found at i:20023237 original size:41 final size:41
Alignment explanation
Indices: 20023163--20023528 Score: 475
Period size: 41 Copynumber: 9.0 Consensus size: 41
20023153 GGACCTTTCG
* * *
20023163 TGGTCTTTAGCGGC-ATTTTGGAAAAGCGCCGCTACTGCTT
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
20023203 TGGTCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTT
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
20023244 TGGTCTTTCGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * *
20023285 TGGTATTTAGCGGCGTTTTCGGAAAAGAGCCGCGAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * *
20023326 TAGTCTTTAGCGGCGTTTGTGTAAAAGCGCCGCTAATGCTT
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
20023367 TGGTCTTTAGCGGCGTTTTTGGCAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* ** *
20023408 TAGTCTTTAATGGAG-TTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
** *
20023448 TGCCCTTTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC
* **
20023490 TGGTCTTTAGCGGCGTTTTTGCAAAAGCGCAACTAATGC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
20023529 AAAATACTAT
Statistics
Matches: 279, Mismatches: 44, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
40 47 0.17
41 195 0.70
42 37 0.13
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (41 bp):
TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:20023777 original size:14 final size:15
Alignment explanation
Indices: 20023738--20023784 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
20023728 TATTTTAAGG
* *
20023738 TTTAGGGAGTATGAA
1 TTTAGGGATTATGGA
*
20023753 TTTAAGGATTATGGA
1 TTTAGGGATTATGGA
20023768 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
20023781 TTTA
1 TTTA
20023785 AAGGTTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:20023813 original size:7 final size:7
Alignment explanation
Indices: 20023803--20023861 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
20023793 AATTTAAGGT
20023803 TTAGGGG
1 TTAGGGG
20023810 TTAGGGG
1 TTAGGGG
*
20023817 TTAAGGG
1 TTAGGGG
*
20023824 TTAGAGG
1 TTAGGGG
20023831 TTATGGGG
1 TTA-GGGG
* *
20023839 TTAAGAG
1 TTAGGGG
*
20023846 TTAGGGAT
1 TTAGGG-G
20023854 TTAGGGG
1 TTAGGGG
20023861 T
1 T
20023862 CGGTTAGGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 28 0.70
8 12 0.30
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:20023826 original size:14 final size:14
Alignment explanation
Indices: 20023796--20023851 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
20023786 AGGTTGGAAT
*
20023796 TTAAGGTTTAGGGG
1 TTAAGGGTTAGGGG
* *
20023810 TTAGGGGTTAAGGG
1 TTAAGGGTTAGGGG
20023824 TT-AGAGGTTATGGGG
1 TTAAG-GGTTA-GGGG
*
20023839 TTAAGAGTTAGGG
1 TTAAGGGTTAGGG
20023852 ATTTAGGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
13 1 0.03
14 21 0.64
15 9 0.27
16 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:20023832 original size:42 final size:42
Alignment explanation
Indices: 20023750--20023832 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
20023740 TAGGGAGTAT
* * *
20023750 GAATTTAAGGATTATGGATTAGGGATTATGGTTTAAAGGTTG
1 GAATTTAAGGATTAGGGATTAGGGATTAAGGGTTAAAGGTTG
* * * *
20023792 GAATTTAAGGTTTAGGGGTTAGGGGTTAAGGGTTAGAGGTT
1 GAATTTAAGGATTAGGGATTAGGGATTAAGGGTTAAAGGTT
20023833 ATGGGGTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (42 bp):
GAATTTAAGGATTAGGGATTAGGGATTAAGGGTTAAAGGTTG
Found at i:20023838 original size:22 final size:21
Alignment explanation
Indices: 20023796--20023849 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
20023786 AGGTTGGAAT
* *
20023796 TTAAGGTTTAGGGGTTAGGGG
1 TTAAGGGTTAGAGGTTAGGGG
20023817 TTAAGGGTTAGAGGTTATGGGG
1 TTAAGGGTTAGAGGTTA-GGGG
*
20023839 TTAAGAGTTAG
1 TTAAGGGTTAG
20023850 GGATTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTAGAGGTTAGGGG
Found at i:20023861 original size:22 final size:21
Alignment explanation
Indices: 20023803--20023849 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
20023793 AATTTAAGGT
* *
20023803 TTAGGGGTTAGGGGTTAAGGG
1 TTAGAGGTTAGGGGTTAAGAG
20023824 TTAGAGGTTATGGGGTTAAGAG
1 TTAGAGGTTA-GGGGTTAAGAG
20023846 TTAG
1 TTAG
20023850 GGATTTAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (21 bp):
TTAGAGGTTAGGGGTTAAGAG
Found at i:20024068 original size:14 final size:15
Alignment explanation
Indices: 20024033--20024069 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20024023 TATTTTAAGG
20024033 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
20024048 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
20024063 -TTAGGGA
1 TTTAGGGA
20024070 ACATGGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:20024600 original size:19 final size:19
Alignment explanation
Indices: 20024553--20024598 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
20024543 AAATTATAAG
* *
20024553 AAATAAAATTAAAATACAA
1 AAATAAAAATGAAATACAA
20024572 AAATAAAAATGAAATA-AA
1 AAATAAAAATGAAATACAA
20024590 AAATAAAAA
1 AAATAAAAA
20024599 ATATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:20028523 original size:43 final size:43
Alignment explanation
Indices: 20028415--20028771 Score: 377
Period size: 43 Copynumber: 8.4 Consensus size: 43
20028405 ATGATATGTT
* ** * * * *
20028415 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT--TTGTT
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* *
20028456 TTATAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCATGAG-C
1 TT-TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATG-GTC
* *
20028500 TTTAGTGGCGTTTGTGATAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* * *
20028543 TTTAGCGGCGTTTGTTACAAAAGCGCAGCTAAAGGTCATGAG-C
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATG-GTC
*
20028586 TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20028629 TTTAACTGCG-TTGTGA-AAAAGCGCCGTTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
20028670 TTTAGCGGCGTTTGTTGGT-AAAGCACCACTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTG-TGATAAAAGCGCCGCTAAAGGTCATGGTC
* ** * *
20028713 TATAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
20028756 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
20028772 GGTAAAAACG
Statistics
Matches: 270, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
41 32 0.12
42 42 0.16
43 191 0.71
44 4 0.01
45 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:20028702 original size:127 final size:130
Alignment explanation
Indices: 20028457--20028771 Score: 378
Period size: 127 Copynumber: 2.5 Consensus size: 130
20028447 AGGTTTGTTT
* * *
20028457 TATAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCATGAG-CTTT-AGTGGCGTTTGTGATAA
1 TATAGCGGCGTTTGTGACAAAAGCGCAGCTAAAGGTCATG-GTCTTTAACTGGCGTTTGTGATAA
* *
20028520 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGCGCAGCTAAAGGTCATGAG
65 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGCCCAGCTAAAGGTCATG-G
20028585 -C
129 TC
* *
20028586 TTTAGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATGGTCTTTAACT-GCG-TTGTGA-AAA
1 TATAGCGGCGTTTGTGACAAAAGCGCAGCTAAAGGTCATGGTCTTTAACTGGCGTTTGTGATAAA
* * *** *
20028648 AGCGCCGTTAAAGGTCGTGGTCTTTAGCGGCGTTTGTTGGTAAAGCACCA-CTAAAGGTCGTGGT
66 AGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGC-CCAGCTAAAGGTCATGGT
20028712 C
130 C
** * *
20028713 TATAGCGGCGTTTGTGGGAAAAGCGCCA-CTAAAGGTCCTGGTCTTTAGC-GGCGTTTGTG
1 TATAGCGGCGTTTGTGACAAAAGCG-CAGCTAAAGGTCATGGTCTTTAACTGGCGTTTGTG
20028772 GGTAAAAACG
Statistics
Matches: 161, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
126 1 0.01
127 99 0.61
128 16 0.10
129 43 0.27
130 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (130 bp):
TATAGCGGCGTTTGTGACAAAAGCGCAGCTAAAGGTCATGGTCTTTAACTGGCGTTTGTGATAAA
AGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGCCCAGCTAAAGGTCATGGTC
Found at i:20030137 original size:43 final size:43
Alignment explanation
Indices: 20030076--20030174 Score: 180
Period size: 43 Copynumber: 2.3 Consensus size: 43
20030066 AAGTCATGTT
*
20030076 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTATTGGTC
*
20030119 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTATTGGTC
20030162 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
20030175 TTAGAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTATTGGTC
Found at i:20033173 original size:8 final size:8
Alignment explanation
Indices: 20033160--20033185 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20033150 ATTTGTGTGT
20033160 TCAATTTC
1 TCAATTTC
20033168 TCAATTTC
1 TCAATTTC
20033176 TCAATTTC
1 TCAATTTC
20033184 TC
1 TC
20033186 CTACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (8 bp):
TCAATTTC
Found at i:20038850 original size:32 final size:32
Alignment explanation
Indices: 20038813--20038878 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
20038803 TGTTTTAGAC
20038813 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
1 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
20038845 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
1 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
20038877 TT
1 TT
20038879 GTCTATTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (32 bp):
TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
Found at i:20039662 original size:30 final size:28
Alignment explanation
Indices: 20039628--20039707 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
20039618 TTTTTTAAAT
*
20039628 TACATTTTGACCTTTAAAATTTCAAAAAAG
1 TACATTTTGACC-CTAAAATTTC-AAAAAG
* * *
20039658 TACATTTTGACCCCTAAACTTTCTAAAAT
1 TACATTTTGA-CCCTAAAATTTCAAAAAG
20039687 TACATTTTGACCCTAAAATTT
1 TACATTTTGACCCTAAAATTT
20039708 TGAAAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
28 10 0.23
29 14 0.32
30 18 0.41
31 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (28 bp):
TACATTTTGACCCTAAAATTTCAAAAAG
Found at i:20039694 original size:29 final size:30
Alignment explanation
Indices: 20039624--20039719 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 30
20039614 TATTTTTTTT
**
20039624 AAATTACATTTTGACCTTTAAAATTTCAAA
1 AAATTACATTTTGACCCCTAAAATTTCAAA
* * *
20039654 AAAGTACATTTTGACCCCTAAACTTTC-TA
1 AAATTACATTTTGACCCCTAAAATTTCAAA
**
20039683 AAATTACATTTTGA-CCCTAAAATTTTGAA
1 AAATTACATTTTGACCCCTAAAATTTCAAA
20039712 AAATTACA
1 AAATTACA
20039720 CTTTAGCCCT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
28 10 0.18
29 23 0.41
30 23 0.41
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAAATTTCAAA
Found at i:20039729 original size:29 final size:30
Alignment explanation
Indices: 20039624--20039739 Score: 78
Period size: 29 Copynumber: 3.9 Consensus size: 30
20039614 TATTTTTTTT
* * **
20039624 AAATTACATTTTGA-CCTTTAAAATTTCAAA
1 AAATTACATTTAGACCCTAT-AAATTTTGAA
* * * * **
20039654 AAAGTACATTTTGACCC-CTAAACTTTCTA
1 AAATTACATTTAGACCCTATAAATTTTGAA
*
20039683 AAATTACATTTTGACCCTA-AAATTTTGAA
1 AAATTACATTTAGACCCTATAAATTTTGAA
*
20039712 AAATTACACTTTAG-CCCTATAAGTTTTG
1 AAATTACA-TTTAGACCCTATAAATTTTG
20039740 CTACATTTAC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
29 42 0.61
30 25 0.36
31 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTACATTTAGACCCTATAAATTTTGAA
Found at i:20040108 original size:10 final size:10
Alignment explanation
Indices: 20040090--20040145 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
20040080 TAGAGCAAGG
20040090 AGAAAGAAGA
1 AGAAAGAAGA
*
20040100 AGAATGAAGGA
1 AGAAAGAA-GA
*
20040111 AAAAAGAAGA
1 AGAAAGAAGA
20040121 AGAAAGAAGA
1 AGAAAGAAGA
20040131 AGGAAAGAA-A
1 A-GAAAGAAGA
20040141 AGAAA
1 AGAAA
20040146 AAAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.10
10 21 0.52
11 15 0.38
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (10 bp):
AGAAAGAAGA
Found at i:20040132 original size:24 final size:23
Alignment explanation
Indices: 20040092--20040144 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
20040082 GAGCAAGGAG
20040092 AAAGAAGAAGAATGAAGGAAAAA
1 AAAGAAGAAGAATGAAGGAAAAA
*
20040115 AGAAGAAGAAAGAA-GAAGGAAAGA
1 A-AAGAAG-AAGAATGAAGGAAAAA
20040139 AAAGAA
1 AAAGAA
20040145 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 16 0.59
25 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (23 bp):
AAAGAAGAAGAATGAAGGAAAAA
Found at i:20040137 original size:21 final size:21
Alignment explanation
Indices: 20040086--20040145 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
20040076 AAACTAGAGC
*
20040086 AAGG-AGAAAGAAGAAGAATG
1 AAGGAAGAAAGAAGAAGAAAG
*
20040106 AAGGAAAAAAGAAGAAGAAAG
1 AAGGAAGAAAGAAGAAGAAAG
20040127 AA-GAAGGAAAGAA-AAGAAA
1 AAGGAA-GAAAGAAGAAGAAA
20040146 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (21 bp):
AAGGAAGAAAGAAGAAGAAAG
Found at i:20040138 original size:18 final size:17
Alignment explanation
Indices: 20040090--20040139 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
20040080 TAGAGCAAGG
*
20040090 AGAAAGAAGAAGAATGA
1 AGAAAGAAGAAGAAAGA
*
20040107 AGGAA-AA-AAG-AAGA
1 AGAAAGAAGAAGAAAGA
20040121 AGAAAGAAGAAGGAAAGA
1 AGAAAGAAGAA-GAAAGA
20040139 A
1 A
20040140 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 4 0.15
17 5 0.19
18 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (17 bp):
AGAAAGAAGAAGAAAGA
Found at i:20041443 original size:15 final size:15
Alignment explanation
Indices: 20041423--20041453 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20041413 CTGCATCATG
20041423 TTGTAAATATTTTTC
1 TTGTAAATATTTTTC
20041438 TTGTAAATATTTTTC
1 TTGTAAATATTTTTC
20041453 T
1 T
20041454 AACTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTGTAAATATTTTTC
Found at i:20049780 original size:78 final size:77
Alignment explanation
Indices: 20049497--20050625 Score: 1241
Period size: 78 Copynumber: 14.6 Consensus size: 77
20049487 TCTTTTTATG
*
20049497 TTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
20049562 TTCAATTTCTATTT
65 TTCAATTTCTA-TT
* * *
20049576 TTTTTCAAAACTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCGCACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
20049641 TTTAATTTCTA--
65 TTCAATTTCTATT
* * **
20049652 TTTTTCAAAAATCAACTCATAATGCGAGAGATCAGTTGAGCCTCGGGTCACACGTCGAACTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
20049717 TTCAATTTCTATT
65 TTCAATTTCTATT
* * * * * *
20049730 TTTTTTAAAACTCAACTCATAATGCCAGAGGTGAGTTGAGCCACGAGTCACACGCTGATGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
20049795 TTCAA-TT-TATG
65 TTCAATTTCTATT
* * * *
20049806 TTTTTCAAAAAAATCAACACATAATGCGAGAGGTGAGTTGAGACTAGGGTCACACGCTAAGGTAT
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTAT
*
20049871 TTTTCAATTTCTATA
63 TTTTCAATTTCTATT
* * *
20049886 TTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTAGGGTCACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
20049951 TTCAATTTCTGTT
65 TTCAATTTCTATT
*
20049964 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
20050029 TTCAA-TT-TATG
65 TTCAATTTCTATT
* * *
20050040 TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCCCAGGTAT
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTAT
20050105 TTTTCAA-TT-TATGT
63 TTTTCAATTTCTAT-T
* * * * *
20050119 TTTTTCAAAAAAAATCAATTCATAATGCGAGATGTAAGTTGAGCCTCGAGTTACACGTCGAGGTA
1 TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTA
* *
20050184 TTTTTGAA-TT-TATG
62 TTTTTCAATTTCTATT
* *
20050198 TTTTTCAAAAATATCAACTCATAATGCGAGAGGTGAGTT-ATGCCTCGGGTCGCACGTTGAGGTA
1 TTTTTC-AAAA-ATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACACG-CGAGGTA
*
20050262 TTTTTCAATTTC--TG
62 TTTTTCAATTTCTATT
* *
20050276 TTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
*
20050340 TTCAATTTCCA-T
65 TTCAATTTCTATT
** * * *
20050352 TTTTTCAAAAATCAACTCATAATATGATAGGTGAGTTGAGCCTCGGG-CAAATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
*
20050416 TTCAA-TT-TATG
65 TTCAATTTCTATT
* * *
20050427 TTTTTCAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG-A-
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTAT
*
20050490 TTTTCAA-TTC--TG
63 TTTTCAATTTCTATT
* * * * * * *
20050502 TTCTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCGCGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
20050567 TT-AATTTC--TG
65 TTCAATTTCTATT
* *
20050577 TTTTTCAAAGATCAACTCATAAT-CTGAGAGGTGAGTTGAGCTTCGGGTC
1 TTTTTCAAAAATCAACTCATAATGC-GAGAGGTGAGTTGAGCCTCGGGTC
20050626 GTACCCTGAG
Statistics
Matches: 924, Mismatches: 95, Indels: 66
0.85 0.09 0.06
Matches are distributed among these distances:
73 51 0.06
74 5 0.01
75 91 0.10
76 189 0.20
77 57 0.06
78 375 0.41
79 86 0.09
80 70 0.08
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (77 bp):
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCGAGGTATTTT
TCAATTTCTATT
Found at i:20049890 original size:156 final size:154
Alignment explanation
Indices: 20049491--20050662 Score: 1403
Period size: 156 Copynumber: 7.6 Consensus size: 154
20049481 ACCATTTCTT
* *
20049491 TTTATGTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
* *
20049556 GTATTTTTCAATTTCTATTTTTTTTCAAAACTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
66 GTATTTTTCAATTTCTA-TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* *
20049621 GATCGCACGCTGAGGTATTTTTTAA
130 GGTCGCACGCTGAGGTATTTTTCAA
* * * *
20049646 TTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGATCAGTTGAGCCTCGGGTCACACG-TCGA
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GA
** * * * * *
20049710 ACTATTTTTCAATTTCTATTTTTTTTAAAACTCAACTCATAATGCCAGAGGTGAGTTGAGCCACG
65 GGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* * *
20049775 AGTCACACGCTGATGTATTTTTCAA
130 GGTCGCACGCTGAGGTATTTTTCAA
* * * *
20049800 TTTATGTTTTTCAAAAAAATCAACACATAATGCGAGAGGTGAGTTGAGACTAGGGTCACACGCTA
1 TTTATGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* * * *
20049865 AGGTATTTTTCAATTTCTATATTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTA
64 AGGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
*
20049930 GGGTCACACGCTGAGGTATTTTTCAA
129 GGGTCGCACGCTGAGGTATTTTTCAA
* *
20049956 TTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG
1 TTTATG--TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
*
20050021 AGGTATTTTTCAA-TT-TATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCC
64 AGGTATTTTTCAATTTCTATGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC
**
20050084 TCGGGTCGCACGCCCAGGTATTTTTCAA
127 TCGGGTCGCACGCTGAGGTATTTTTCAA
* * * * *
20050112 TTTATGTTTTTTCAAAAAAAATCAATTCATAATGCGAGATGTAAGTTGAGCCTCGAGTTACACG-
1 TTTATG-TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
*
20050176 TCGAGGTATTTTTGAA-TT-TATGTTTTTCAAAAATATCAACTCATAATGCGAGAGGTGAGTT-A
62 T-GAGGTATTTTTCAATTTCTATGTTTTTC-AAAA-ATCAACTCATAATGCGAGAGGTGAGTTGA
*
20050238 TGCCTCGGGTCGCACGTTGAGGTATTTTTCAA
124 -GCCTCGGGTCGCACGCTGAGGTATTTTTCAA
* * * *
20050270 TTTCTGTTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGAG
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
* ** *
20050334 GTATTTTTCAATTTCCAT-TTTTTCAAAAATCAACTCATAATATGATAGGTGAGTTGAGCCTCGG
66 GTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
** * *
20050398 G-CAAATGCCGAGGTATTTTTCAA
131 GTCGCACGCTGAGGTATTTTTCAA
* * *
20050421 TTTATGTTTTTCAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCGCGCTG
1 TTTATGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* * * * *
20050486 AGG-A-TTTTCAA-TTC--TGTTCTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTT
64 AGGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
*
20050546 GGGTCGCGCGCTGAGGTATTTTT-AA
129 GGGTCGCACGCTGAGGTATTTTTCAA
* * * ** *
20050571 TTTCTGTTTTTCAAAGATCAACTCATAAT-CTGAGAGGTGAGTTGAGCTTCGGGTCGTACCCTGA
1 TTTATGTTTTTCAAAAATCAACTCATAATGC-GAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
* *
20050635 GCTATTTTT-GATTTC--TGTTTTTCAAAAA
65 GGTATTTTTCAATTTCTATGTTTTTCAAAAA
20050663 AAAATTTAGA
Statistics
Matches: 881, Mismatches: 109, Indels: 59
0.84 0.10 0.06
Matches are distributed among these distances:
147 1 0.00
148 46 0.05
149 3 0.00
150 71 0.08
151 45 0.05
152 39 0.04
153 62 0.07
154 135 0.15
155 84 0.10
156 248 0.28
157 14 0.02
158 133 0.15
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (154 bp):
TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
GTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
GTCGCACGCTGAGGTATTTTTCAA
Found at i:20050938 original size:58 final size:59
Alignment explanation
Indices: 20050793--20050942 Score: 171
Period size: 58 Copynumber: 2.6 Consensus size: 59
20050783 TTTTTATAAT
* * * *
20050793 TACATTTTGACCCCTAAATTTTCCTAAAATTA-GTTTTAACCCTTAAACTTTCCTAAAAT
1 TACATTTT-AACCATAAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAAAAC
* * * * *
20050852 TGCATTTTGACCTTGAAA-CTTCCTAAAATTACATTTTAACCCTTAAAC-TTCTTAAAAC
1 TACATTTTAACCAT-AAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAAAAC
*
20050910 TACATTTTAACCATAAATTTTCCAAAAATTACA
1 TACATTTTAACCATAAATTTTCCTAAAATTACA
20050943 CTTTGGCACC
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
57 3 0.04
58 47 0.63
59 25 0.33
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (59 bp):
TACATTTTAACCATAAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAAAAC
Found at i:20050942 original size:29 final size:28
Alignment explanation
Indices: 20050790--20050942 Score: 137
Period size: 29 Copynumber: 5.2 Consensus size: 28
20050780 ATTTTTTTAT
* *
20050790 AATTACATTTTGACCCCTAAATTTTCCTAA
1 AATTACATTTT-AACCTTAAA-TTTCCTAA
*
20050820 AATTA-GTTTTAACCCTTAAACTTTCCTAA
1 AATTACATTTTAA-CCTTAAA-TTTCCTAA
* * *
20050849 AATTGCATTTTGACCTTGAAACTTCCTAA
1 AATTACATTTTAACCTT-AAATTTCCTAA
* *
20050878 AATTACATTTTAACCCTTAAACTTCTTAA
1 AATTACATTTTAA-CCTTAAATTTCCTAA
* * *
20050907 AACTACATTTTAACCATAAATTTTCCAAA
1 AATTACATTTTAACCTTAAA-TTTCCTAA
20050936 AATTACA
1 AATTACA
20050943 CTTTGGCACC
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
28 7 0.07
29 77 0.76
30 17 0.17
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (28 bp):
AATTACATTTTAACCTTAAATTTCCTAA
Found at i:20051336 original size:19 final size:20
Alignment explanation
Indices: 20051292--20051339 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
20051282 CTAGGGCTAG
*
20051292 GAAAAAGAAGAAGAAGGAAG
1 GAAAAAGAAGAAGAAGGAAA
*
20051312 GGAAAA-AAGAAGAAGGAAA
1 GAAAAAGAAGAAGAAGGAAA
20051331 GAAAAAGAA
1 GAAAAAGAA
20051340 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAGAAGAAGGAAA
Found at i:20051612 original size:28 final size:28
Alignment explanation
Indices: 20051576--20051629 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
20051566 AGCCCAAACT
20051576 AGCAAGCCAGCACCTGGCCCAACAGCAC
1 AGCAAGCCAGCACCTGGCCCAACAGCAC
* *
20051604 AGCAGGCCAGCACTTGGCCCAACAGC
1 AGCAAGCCAGCACCTGGCCCAACAGC
20051630 TAGCAACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.41, G:0.24, T:0.06
Consensus pattern (28 bp):
AGCAAGCCAGCACCTGGCCCAACAGCAC
Found at i:20056616 original size:41 final size:41
Alignment explanation
Indices: 20056549--20056645 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
20056539 AATACACCTA
* * *
20056549 CATTAAACCTGCTAGACGTAAGGTCTGAAATATTTCACCGG
1 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
*
20056590 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACTGG
1 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
20056631 CATTAAGCCTGCTAG
1 CATTAAGCCTGCTAG
20056646 GCACAAAGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
Found at i:20056659 original size:41 final size:41
Alignment explanation
Indices: 20056549--20056660 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
20056539 AATACACCTA
* * * * *
20056549 CATTAAACCTGCTAGACGTAAGGTCTGAAATATTTCACCGG
1 CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
* * *
20056590 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACTGG
1 CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
*
20056631 CATTAAGCCTGCTAGGCA-CAAAGCCTGAAA
1 CATTAAGCCTGCTA-GAAGCAAAGCCTGAAA
20056661 ATCTCATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 61 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (41 bp):
CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
Found at i:20056949 original size:71 final size:65
Alignment explanation
Indices: 20056803--20056964 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 65
20056793 AATTCACGAC
* * *
20056803 TTTAACTTCAGCTCAAGGAATTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
1 TTTAAATTCAGCTCAAGAAACTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
* *
20056868 TTAAAATTCAGCTCAAGAAACTTGTAACCT-ATATTCGAACCATATATATATGTATATATGAAAT
1 TTTAAATTCAGCTCAAGAAACTTGTAA-CTAATATTCGAACC---T-CATATGTATATA--AAAT
20056932 TCATA-A
59 TCATACA
* *
20056938 TATTAAGTTCAGCTCAATAAACTTGTA
1 T-TTAAATTCAGCTCAAGAAACTTGTA
20056965 TCATACATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
65 34 0.42
66 2 0.02
68 1 0.01
69 11 0.14
70 2 0.02
71 31 0.38
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (65 bp):
TTTAAATTCAGCTCAAGAAACTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
Found at i:20056975 original size:71 final size:69
Alignment explanation
Indices: 20056846--20056977 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 69
20056836 TTCGAACCTC
* *
20056846 ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACCTATATTCGAACCAT
1 ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAACCAT
20056911 ATAT
66 ATAT
* * * *
20056915 ATATGTATATATGAAATTCATA-ATATTAAGTTCAGCTCAATAAACTTGTATCATACATTCGAA
1 ATATGTATATA--AAATTCATACAT-TAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAA
20056978 ATTTAACCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
69 11 0.20
70 2 0.04
71 41 0.76
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (69 bp):
ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAACCAT
ATAT
Found at i:20063948 original size:17 final size:16
Alignment explanation
Indices: 20063927--20063970 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
20063917 AAGAAATGTG
20063927 AAAGAAGAAAAGAA-AA
1 AAAGAA-AAAAGAAGAA
20063943 AGAAGAACAAAAGAAGAA
1 A-AAGAA-AAAAGAAGAA
20063961 AAAGAAAAAA
1 AAAGAAAAAA
20063971 CGTTAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 3 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGAAGAA
Found at i:20065305 original size:17 final size:16
Alignment explanation
Indices: 20065284--20065327 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
20065274 AAGAAATGTG
20065284 AAAGAAGAAAAGAA-AA
1 AAAGAA-AAAAGAAGAA
20065300 AGAAGAACAAAAGAAGAA
1 A-AAGAA-AAAAGAAGAA
20065318 AAAGAAAAAA
1 AAAGAAAAAA
20065328 CGTTAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 3 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGAAGAA
Found at i:20066559 original size:138 final size:138
Alignment explanation
Indices: 20066308--20066578 Score: 413
Period size: 138 Copynumber: 2.0 Consensus size: 138
20066298 TAACAAGTTT
* *
20066308 ACTAGAAGGACATTGTCCAATTGGAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
1 ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
* *
20066373 AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAGGGCTTCAAGTAAAGAC-ATAGAGTGGACTA
66 AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAAGGCTACAAGTAAAGACAAT-GAGTGGACTA
20066437 TGATGAAGG
130 TGATGAAGG
* * *
20066446 ACTAGAAGGACATAGTCCAATTGAAGTCAAAT-GAGTGTACAAGACAAATACTAACAAAGAAGGA
1 ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGA-TGTACAAGACAAAGACCAACAAAAAAGGA
* *
20066510 AAATTGGAGAAATACAAAGCAAGACT-AGTTGCAAAAGGCTACAATTAAAGACAATGAGTGGACT
65 AAAGTGGAGAAATACAAAGCAAGACTGA-TTGCAAAAGGCTACAAGTAAAGACAATGAGTGGACT
20066574 ATGAT
129 ATGAT
20066579 TGAGTATTTA
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
137 3 0.02
138 116 0.96
139 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (138 bp):
ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAAGGCTACAAGTAAAGACAATGAGTGGACTAT
GATGAAGG
Found at i:20078289 original size:15 final size:15
Alignment explanation
Indices: 20078269--20078303 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20078259 ATCAATACGG
20078269 CCCAATTAGCCTAAA
1 CCCAATTAGCCTAAA
* *
20078284 CCCAATTAGCTTTAA
1 CCCAATTAGCCTAAA
20078299 CCCAA
1 CCCAA
20078304 ACTCTAGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:20086162 original size:75 final size:75
Alignment explanation
Indices: 20086069--20086215 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 75
20086059 TCTTAATTTA
*
20086069 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCGTACCAAATCGTAAAACGCTC
1 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
20086134 GATCGCTTTC
66 GATCGCTTTC
** * *
20086144 TAGTAGGATTTTCAAGAGTTGAATTAAAACTGGAAAATTCGCGCATACCAAATCGTAAAGCGCTC
1 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
20086209 GATCGCT
66 GATCGCT
20086216 CGTTCGATGC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (75 bp):
TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
GATCGCTTTC
Found at i:20087523 original size:14 final size:14
Alignment explanation
Indices: 20087506--20087533 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20087496 TCTTTTTATT
20087506 TTATTTTCTTTTAA
1 TTATTTTCTTTTAA
20087520 TTATTTTCTTTTAA
1 TTATTTTCTTTTAA
20087534 CTTTCATTTT
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:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTCTTTTAA
Found at i:20089703 original size:27 final size:27
Alignment explanation
Indices: 20089665--20089724 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
20089655 ACTGTGATAA
20089665 GTCCTACTGCTGAGGACTTCTAGGATT
1 GTCCTACTGCTGAGGACTTCTAGGATT
20089692 GTCCTACTGCTGAGGACTTCTAGGATT
1 GTCCTACTGCTGAGGACTTCTAGGATT
*
20089719 ATCCTA
1 GTCCTA
20089725 AGTAACTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCCTACTGCTGAGGACTTCTAGGATT
Found at i:20094942 original size:30 final size:31
Alignment explanation
Indices: 20094891--20094950 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20094881 AGGGAGGAGA
* *
20094891 TGGGAGAGAAGTAAAAGTTTTGGGGGAAAAG
1 TGGGAGAGAAGTAAAAATTTTGAGGGAAAAG
*
20094922 TGGGAGGGAA-TAAAAATTTTGAGGGAAAA
1 TGGGAGAGAAGTAAAAATTTTGAGGGAAAA
20094951 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAGAGAAGTAAAAATTTTGAGGGAAAAG
Found at i:20095186 original size:28 final size:27
Alignment explanation
Indices: 20095128--20095188 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
20095118 GAGTAAAAAT
*
20095128 TTTGAGGGAAAAATAAAAATGTTTAGGG
1 TTTGAGGGAAAAATAAAAATATTTA-GG
*
20095156 TTTGAGGTAAAAATATAAAATATTATA-G
1 TTTGAGGGAAAAATA-AAAATATT-TAGG
20095184 TTTGA
1 TTTGA
20095189 TATTCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 20 0.69
29 7 0.24
30 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTGAGGGAAAAATAAAAATATTTAGG
Found at i:20095466 original size:12 final size:12
Alignment explanation
Indices: 20095430--20095469 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20095420 AATTTCAAAA
*
20095430 TTTTAAATTTAT
1 TTTTAAAATTAT
20095442 TATTTATAAATTAT
1 T-TTTA-AAATTAT
20095456 TTTTAAAATTAT
1 TTTTAAAATTAT
20095468 TT
1 TT
20095470 ATCTGAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 10 0.40
13 8 0.32
14 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:20096914 original size:31 final size:31
Alignment explanation
Indices: 20096857--20096922 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
20096847 AATTTTCAAT
*
20096857 AAATAAAAAATGTATAAAATTATTAAATTTTA
1 AAATAAAAAA-GTATAAAATTATTAAAATTTA
*
20096889 AAATAAAAAA-TATAAATATTTTTAAAATTTA
1 AAATAAAAAAGTATAAA-ATTATTAAAATTTA
20096920 AAA
1 AAA
20096923 AATAATATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 6 0.19
31 15 0.48
32 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
AAATAAAAAAGTATAAAATTATTAAAATTTA
Found at i:20101329 original size:15 final size:15
Alignment explanation
Indices: 20101309--20101339 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20101299 CAAACATCAC
20101309 TCATAGCAACTTTAT
1 TCATAGCAACTTTAT
*
20101324 TCATAGCAATTTTAT
1 TCATAGCAACTTTAT
20101339 T
1 T
20101340 GAATTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (15 bp):
TCATAGCAACTTTAT
Found at i:20102329 original size:63 final size:63
Alignment explanation
Indices: 20102199--20102317 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
20102189 ATGAGTTTCT
20102199 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
1 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
* *
20102262 CCACCATTCGGGCCAATAGTATGTGGCCTATACTCATGATTTTCAACAATAGGCCT
1 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCT
20102318 GGGCCCACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (63 bp):
CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
Found at i:20102444 original size:21 final size:21
Alignment explanation
Indices: 20102398--20102448 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
20102388 ATTTCAAAAC
*
20102398 TATTTTGACCATAACCATAGT
1 TATTTTGACCAGAACCATAGT
* *
20102419 AATTTTGACCAGACGCCATA-T
1 TATTTTGACCAGA-ACCATAGT
20102440 TATTTTGAC
1 TATTTTGAC
20102449 TAGGGCCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
TATTTTGACCAGAACCATAGT
Found at i:20107957 original size:6 final size:6
Alignment explanation
Indices: 20107946--20107972 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20107936 CACTAGCAAC
20107946 AATACT AATACT AATACT AATACT AAT
1 AATACT AATACT AATACT AATACT AAT
20107973 TGAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
AATACT
Found at i:20108523 original size:25 final size:24
Alignment explanation
Indices: 20108493--20108545 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
20108483 GGTCTGAATA
20108493 AATTAGATGTAAATGTCGATTTTTT
1 AATTAGATGTAAATGTCG-TTTTTT
* * **
20108518 AATTAGGTTTTTATGTCGTTTTTT
1 AATTAGATGTAAATGTCGTTTTTT
20108542 AATT
1 AATT
20108546 TAGAGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
AATTAGATGTAAATGTCGTTTTTT
Found at i:20108712 original size:28 final size:28
Alignment explanation
Indices: 20108681--20108756 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 28
20108671 TTCTCTCTTC
*
20108681 TAGGGTTATGGTTTTAAATTTTTAAGGT
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
*
20108709 TA-GG--AT--TTTT-AATTTTTAGGGG
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
* *
20108731 TAGTGTTATGGGTTTAAATATTTTAA
1 TAGGGTTATGGTTTTAAAT-TTTTAA
20108757 AGTTTAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
25 4 0.11
27 5 0.14
28 5 0.14
29 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (28 bp):
TAGGGTTATGGTTTTAAATTTTTAAGGG
Found at i:20110497 original size:21 final size:21
Alignment explanation
Indices: 20110385--20110500 Score: 130
Period size: 21 Copynumber: 5.4 Consensus size: 21
20110375 TTTCTTTATT
*
20110385 TTTTTATAAAATTTTAAATGTA
1 TTTTT-TAAAATTTTAAATATA
* *
20110407 TATTTGAAAAGTTTTATAATATTA
1 TTTTTTAAAA-TTTTA-AATA-TA
20110431 TTTTTTAAAATTTTAAA-ATTA
1 TTTTTTAAAATTTTAAATA-TA
20110452 TTTTTTAAAA-TTTAAATAT-
1 TTTTTTAAAATTTTAAATATA
20110471 TATTTTTAAAATTTTAAATATA
1 T-TTTTTAAAATTTTAAATATA
20110493 TTTTTTAA
1 TTTTTTAA
20110501 TAAATAAAAC
Statistics
Matches: 82, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.01
20 16 0.20
21 35 0.43
22 12 0.15
23 8 0.10
24 10 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAATTTTAAATATA
Found at i:20110620 original size:19 final size:19
Alignment explanation
Indices: 20110584--20110628 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
20110574 ATATTTTAAA
*
20110584 TATTTTTTAATTTGTTTTT
1 TATTTTTTAATATGTTTTT
*
20110603 TATTTTTTAA-ATATTTTT
1 TATTTTTTAATATGTTTTT
*
20110621 AATTTTTT
1 TATTTTTT
20110629 TAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTTAATATGTTTTT
Found at i:20110628 original size:20 final size:20
Alignment explanation
Indices: 20110605--20110642 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20110595 TTGTTTTTTA
*
20110605 TTTTTT-AAATATTTTTAAT
1 TTTTTTAAAATATATTTAAT
20110624 TTTTTTAAAATATATTTAA
1 TTTTTTAAAATATATTTAA
20110643 AGATATGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAAAATATATTTAAT
Found at i:20110642 original size:30 final size:32
Alignment explanation
Indices: 20110564--20110643 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
20110554 TTTTATAATA
*
20110564 TTTTAAATGTATATTTTAAATATTTTTTAATTTG
1 TTTTAAA-ATATA-TTTAAATATTTTTTAATTTG
** *
20110598 TTTT-TTAT-TTTTTAAATA-TTTTTAATTT-
1 TTTTAAAATATATTTAAATATTTTTTAATTTG
20110626 TTTTAAAATATATTTAAA
1 TTTTAAAATATATTTAAA
20110644 GATATGGCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
28 4 0.11
29 12 0.32
30 15 0.41
31 1 0.03
32 1 0.03
34 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
TTTTAAAATATATTTAAATATTTTTTAATTTG
Found at i:20110727 original size:117 final size:114
Alignment explanation
Indices: 20110515--20110763 Score: 331
Period size: 117 Copynumber: 2.1 Consensus size: 114
20110505 TAAAACATTT
* **
20110515 AAATATTTTAAAGACATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGTATATTT
1 AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATTT
** * * *
20110580 TAAATATTTTTTAATTTGTTTTTTATTTTTTA-AATATTTTTAATTTTTTTA
66 TAAATATTTTTTAATTTGTAATATAATTTTTATAA-ATTATTAA--TTTTTA
* *
20110631 AAATATATTTAAAGATATGGCTTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATT
1 AAATAT-TTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATT
20110696 TTAAATATTTTTTAATTT-TAAATATAATTTTTATAAATTATTAATTTTTA
65 TTAAATATTTTTTAATTTGT-AATATAATTTTTATAAATTATTAATTTTTA
*
20110746 AATTATTTTTAAAGATAT
1 AAATA-TTTTAAAGATAT
20110764 TAAAATATTT
Statistics
Matches: 118, Mismatches: 11, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
115 21 0.18
116 8 0.07
117 87 0.74
118 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (114 bp):
AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATTT
TAAATATTTTTTAATTTGTAATATAATTTTTATAAATTATTAATTTTTA
Found at i:20110728 original size:30 final size:27
Alignment explanation
Indices: 20110680--20110766 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 27
20110670 GTTTTATAAT
* *
20110680 ATTTTAAACATATATTTTAAATATTTTTTA
1 ATTTTAAATATAT-TTTTAAA-A-TTATTA
20110710 ATTTTAAATATAATTTTTATAAATTATTA
1 ATTTTAAATAT-ATTTTTA-AAATTATTA
20110739 ATTTTTAAAT-TATTTTTAAAGA-TATTA
1 A-TTTTAAATATATTTTTAAA-ATTATTA
20110766 A
1 A
20110767 AATATTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
27 8 0.16
28 8 0.16
29 7 0.14
30 24 0.47
31 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
ATTTTAAATATATTTTTAAAATTATTA
Found at i:20110747 original size:15 final size:15
Alignment explanation
Indices: 20110707--20110752 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20110697 TAAATATTTT
20110707 TTAA-TTTTAAA-TA
1 TTAATTTTTAAATTA
20110720 -TAATTTTTATAAATTA
1 TTAA-TTTT-TAAATTA
20110736 TTAATTTTTAAATTA
1 TTAATTTTTAAATTA
20110751 TT
1 TT
20110753 TTTAAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.11
14 3 0.11
15 13 0.46
16 6 0.21
17 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTTTTAAATTA
Found at i:20110795 original size:22 final size:23
Alignment explanation
Indices: 20110760--20110810 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
20110750 ATTTTTAAAG
* *
20110760 ATATTAAAATATTTTTTAAAATT-
1 ATATTTAAATA-TTTTAAAAATTA
20110783 ATATTTAAA-ATTTTAAAAATTA
1 ATATTTAAATATTTTAAAAATTA
20110805 ATATTT
1 ATATTT
20110811 TATTTAGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 7 0.28
23 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTTAAATATTTTAAAAATTA
Done.