Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 92 of 129
Found at i:14932504 original size:129 final size:126
Alignment explanation
Indices: 14932347--14932631 Score: 308
Period size: 129 Copynumber: 2.2 Consensus size: 126
14932337 TTAATATATG
* * *
14932347 TTAT-TTAATATTTTAT-TAGTAATTTAATAAGGGTATTAAAGTAAATTTAAAAT-AAATTTCCA
1 TTATGTTAAAATTTTATAT-GTAATTTAATAAGAGTATTAAAGTAAATTTAAAATAAAATGT-CA
* * * * *
14932409 CAAATCAAACTTTTATGAAACAAAGTTA-AGGGTATTTTAGTATTTTAATATGTGAGTAATTTTA
64 CAAATCAAACTTTTAT-AAACAAA-TGACAGGATATTTTAATAATTT-A-ATGTGAGTAATTTCA
14932473 TA
125 TA
* *
14932475 TTATGTTAAAATTTTATATGTAATTTAATAAGAGTATTACAGTAAATTTTAAATAAAATGTCACA
1 TTATGTTAAAATTTTATATGTAATTTAATAAGAGTATTAAAGTAAATTTAAAATAAAATGTCACA
** * ** * *
14932540 TTTCAAATTTTTATAAAGTAATGACGATGATATTTTAATAATTTAATGTGATTAATTTCATA
66 AATCAAACTTTTATAAACAAATGAC-AGGATATTTTAATAATTTAATGTGAGTAATTTCATA
* *
14932602 TTATGTTAAAATTTAATATATAATTTAATA
1 TTATGTTAAAATTTTATATGTAATTTAATA
14932632 GAATTATTAG
Statistics
Matches: 133, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
127 45 0.34
128 10 0.08
129 72 0.54
130 6 0.05
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (126 bp):
TTATGTTAAAATTTTATATGTAATTTAATAAGAGTATTAAAGTAAATTTAAAATAAAATGTCACA
AATCAAACTTTTATAAACAAATGACAGGATATTTTAATAATTTAATGTGAGTAATTTCATA
Found at i:14932681 original size:127 final size:127
Alignment explanation
Indices: 14932458--14932686 Score: 309
Period size: 127 Copynumber: 1.8 Consensus size: 127
14932448 GTATTTTAAT
* * *
14932458 ATGTGAGTAATTTTATATTATGTTAAAATTTTATATGTAATTTAATAAGAGTATTACAGTAAATT
1 ATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAATAAGAGTATTACAGTAAATT
* ** *
14932523 TTAAATAAAATGTCACATTTCAAATTTTTATAAAGTAATGACGATGATATTTTAATAATTTA
66 TTAAACAAAATGTCACATGACAAATTCTTATAAAGTAATGACGATGATATTTTAATAATTTA
* * **
14932585 ATGTGATTAATTTCATATTATGTTAAAATTTAATATATAATTTAAT-AGAATTATTAGGGT-AAT
1 ATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAATAAG-AGTATTACAGTAAAT
* *
14932648 TTTGAAACAAAATGTCACGTGACAACTTCTTATAAAGTA
65 TTT-AAACAAAATGTCACATGACAAATTCTTATAAAGTA
14932687 TTCATAAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
126 8 0.09
127 79 0.91
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (127 bp):
ATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAATAAGAGTATTACAGTAAATT
TTAAACAAAATGTCACATGACAAATTCTTATAAAGTAATGACGATGATATTTTAATAATTTA
Found at i:14932701 original size:127 final size:128
Alignment explanation
Indices: 14932440--14932709 Score: 287
Period size: 127 Copynumber: 2.1 Consensus size: 128
14932430 AAAGTTAAGG
* * * * *
14932440 GTATTTTAGTATTTTAATATGTGAGTAATTTTATATTATGTTAAAATTTTATATGTAATTTAATA
1 GTATTTTAATAATTTAATATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAATA
* ** * * ** *
14932505 AGAGTATTACAGTAAATTTTAAATAAAATGTCACATTTCAAATTTTTATAAAGTAATGACGAT
66 AGAGTATTACAGTAAATTTTAAACAAAATGTCACATGACAAATTCTTATAAAGTAATCAAAAA
*
14932568 GATATTTTAATAATTT-A-ATGTGATTAATTTCATATTATGTTAAAATTTAATATATAATTTAAT
1 G-TATTTTAATAATTTAATATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAAT
* ** * * *
14932631 -AGAATTATTAGGGT-AATTTTGAAACAAAATGTCACGTGACAACTTCTTATAAAGTATTCATAA
65 AAG-AGTATTACAGTAAATTTT-AAACAAAATGTCACATGACAAATTCTTATAAAGTAATCA-AA
14932694 AA
127 AA
*
14932696 GTATTTTCATAATT
1 GTATTTTAATAATT
14932710 ATGATATAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
126 8 0.07
127 93 0.79
128 4 0.03
129 12 0.10
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (128 bp):
GTATTTTAATAATTTAATATGTGAGTAATTTCATATTATGTTAAAATTTAATATATAATTTAATA
AGAGTATTACAGTAAATTTTAAACAAAATGTCACATGACAAATTCTTATAAAGTAATCAAAAA
Found at i:14947953 original size:12 final size:12
Alignment explanation
Indices: 14947936--14947961 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14947926 CTTTAATTCA
14947936 TTAATGATTTTG
1 TTAATGATTTTG
14947948 TTAATGATTTTG
1 TTAATGATTTTG
14947960 TT
1 TT
14947962 TCGAATCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTAATGATTTTG
Found at i:14948581 original size:23 final size:23
Alignment explanation
Indices: 14948538--14948581 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
14948528 ATGAGATATT
*
14948538 TTTTGTAAAATAAAATCATAAAA
1 TTTTGTAAAATAAAATAATAAAA
*
14948561 TTTT-TAAATTAAAATGAATAA
1 TTTTGTAAAATAAAAT-AATAA
14948582 TATCTCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
TTTTGTAAAATAAAATAATAAAA
Found at i:14957044 original size:62 final size:60
Alignment explanation
Indices: 14956946--14957072 Score: 157
Period size: 62 Copynumber: 2.1 Consensus size: 60
14956936 TATTTTTATT
** * *
14956946 ATAATTATTGAAATACCCCATATTATAATTGATCAAAGTTACTAAAATGCCTCTTTTAGCC
1 ATAATTATAAAAATACCCCATATTATAATTGATCAAAATTACTAAAATGCCTCTCTTA-CC
* * *
14957007 ATAATTATAAAAATACCTTCCAT-TTATAATTGATCAAAATTATTATAATGTCTCTCTTACC
1 ATAATTATAAAAATACC--CCATATTATAATTGATCAAAATTACTAAAATGCCTCTCTTACC
14957068 ATAAT
1 ATAAT
14957073 AAAATTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 22 0.39
62 31 0.54
63 4 0.07
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (60 bp):
ATAATTATAAAAATACCCCATATTATAATTGATCAAAATTACTAAAATGCCTCTCTTACC
Found at i:14957727 original size:13 final size:13
Alignment explanation
Indices: 14957689--14957721 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14957679 TTGTTAAATA
*
14957689 AAAATTTTATA-T
1 AAAATTTAATATT
14957701 AAAATTTAATATT
1 AAAATTTAATATT
14957714 AAAATTTA
1 AAAATTTA
14957722 TCATTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAAATTTAATATT
Found at i:14961190 original size:21 final size:21
Alignment explanation
Indices: 14961166--14961208 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14961156 TCTTCATCTG
14961166 AATTCATACTCTTTCTCTAAA
1 AATTCATACTCTTTCTCTAAA
* ** *
14961187 AATTTATTTTCTTTCTTTAAA
1 AATTCATACTCTTTCTCTAAA
14961208 A
1 A
14961209 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTCATACTCTTTCTCTAAA
Found at i:14961223 original size:23 final size:23
Alignment explanation
Indices: 14961195--14961241 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
14961185 AAAATTTATT
*
14961195 TTCTTTCTTTAAAACCAAACCAA
1 TTCTTTCTCTAAAACCAAACCAA
* *
14961218 TTCTTTCTCTAAACCCAGACCAA
1 TTCTTTCTCTAAAACCAAACCAA
14961241 T
1 T
14961242 CCATAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (23 bp):
TTCTTTCTCTAAAACCAAACCAA
Found at i:14962347 original size:21 final size:23
Alignment explanation
Indices: 14962303--14962351 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
14962293 TATTGTTTAT
14962303 GAATTGATCTAGATTTAGAGAGA
1 GAATTGATCTAGATTTAGAGAGA
*
14962326 GAATTGAT-TTGATTTTAGAGAGA
1 GAATTGATCTAGA-TTTAGAGAGA
14962349 GAA
1 GAA
14962352 AATAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.33
Consensus pattern (23 bp):
GAATTGATCTAGATTTAGAGAGA
Found at i:14962700 original size:27 final size:27
Alignment explanation
Indices: 14962638--14962691 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14962628 ATTTTTATTA
* **
14962638 AAATCATATTTTATATTTTAATAGTTAG
1 AAATAATA-TTTATATTTTAATAAATAG
14962666 AAATAATATTTATATTTTAATAAATA
1 AAATAATATTTATATTTTAATAAATA
14962692 TGATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:14962830 original size:29 final size:31
Alignment explanation
Indices: 14962793--14962862 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
14962783 AATCTTTATG
*
14962793 TAATAAAAAAGAA-ATATCTATATAT-AAAAT
1 TAAT-AAAAAGAATATATATATATATGAAAAT
* *
14962823 TAATAAAAA-AATTTATATTTATATGAAAAT
1 TAATAAAAAGAATATATATATATATGAAAAT
*
14962853 TAGTAAAAAG
1 TAATAAAAAG
14962863 GAGATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 2 0.06
29 14 0.42
30 17 0.52
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (31 bp):
TAATAAAAAGAATATATATATATATGAAAAT
Found at i:14962975 original size:16 final size:17
Alignment explanation
Indices: 14962946--14962979 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
14962936 TAATTAATCA
14962946 TTTTTATTAAAATTTTAT
1 TTTTTATT-AAATTTTAT
14962964 TTTTTATT-AATTTTAT
1 TTTTTATTAAATTTTAT
14962980 ATATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATTAAATTTTAT
Found at i:14963003 original size:12 final size:13
Alignment explanation
Indices: 14962968--14963002 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
14962958 TTTTATTTTT
14962968 TATTAATTTTATA
1 TATTAATTTTATA
14962981 TATTAATTTTATA
1 TATTAATTTTATA
14962994 -ATTATATTT
1 TATTA-ATTT
14963003 AATTATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTAATTTTATA
Found at i:14963946 original size:16 final size:16
Alignment explanation
Indices: 14963912--14963960 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14963902 ATACCATAAT
* * *
14963912 TAAAAATAATAATATA
1 TAAAATTAATAAAAAA
14963928 TAAAATTAATAAAAAA
1 TAAAATTAATAAAAAA
14963944 TAAAATGTTAATAAAAA
1 TAAAA--TTAATAAAAA
14963961 TATTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
18 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
TAAAATTAATAAAAAA
Found at i:14964175 original size:21 final size:20
Alignment explanation
Indices: 14964145--14964187 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
14964135 ACAAAGATTA
14964145 ATTATTATATATTAATAAAT
1 ATTATTATATATTAATAAAT
*
14964165 ATTATTTATATTTTAATAAAT
1 ATTA-TTATATATTAATAAAT
14964186 AT
1 AT
14964188 AAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTATATATTAATAAAT
Found at i:14964245 original size:27 final size:26
Alignment explanation
Indices: 14964159--14964247 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 26
14964149 TTATATATTA
*
14964159 ATAAATATTATTTATATT-TTAATAAAT
1 ATAAATATTATTTAT-TTATTAA-ATAT
* * *
14964186 ATAAATAATAATTATTTATT-ACT-T
1 ATAAATATTATTTATTTATTAAATAT
*
14964210 AT-TAT-TTATTATATTTATTAAATAT
1 ATAAATATTATT-TATTTATTAAATAT
14964235 ATAAATATTATTT
1 ATAAATATTATTT
14964248 CTAACTATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
22 3 0.06
23 10 0.21
24 5 0.11
25 3 0.06
26 6 0.13
27 20 0.43
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAAATATTATTTATTTATTAAATAT
Found at i:14964366 original size:26 final size:27
Alignment explanation
Indices: 14964332--14964385 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
14964322 TTATGAATTT
*
14964332 TATATTTTAAAATTTATA-ATTTATGA
1 TATACTTTAAAATTTATAGATTTATGA
*
14964358 TATACTTTAAAATTTATAGTTTTATGA
1 TATACTTTAAAATTTATAGATTTATGA
14964385 T
1 T
14964386 TGAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (27 bp):
TATACTTTAAAATTTATAGATTTATGA
Found at i:14965181 original size:21 final size:21
Alignment explanation
Indices: 14965134--14965182 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14965124 TTTAATTAGT
* *
14965134 TTTTTATTGAAAGAGACAGGG
1 TTTTTGTTGAAAGAAACAGGG
*
14965155 TTTTTGTTGAGAGAAACAGGG
1 TTTTTGTTGAAAGAAACAGGG
14965176 TTTTTGT
1 TTTTTGT
14965183 CATGGCAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.41
Consensus pattern (21 bp):
TTTTTGTTGAAAGAAACAGGG
Found at i:14969755 original size:104 final size:101
Alignment explanation
Indices: 14969589--14969794 Score: 333
Period size: 104 Copynumber: 2.0 Consensus size: 101
14969579 GGTTAGTCGA
14969589 ATTTGCTTGAATTTAGTTTTTTTTTTTCAATTATTATTAATGTGGATTGCTTATTGATTTATAAA
1 ATTTGCTTGAATTTAGTTTTTTTTTTTCAATTATTATTAATGTGGATTGCTTATTGATTTATAAA
*
14969654 TGGATGGTTGATTTAAAAATTGTTAGATAAACGTTG
66 TAGATGGTTGATTTAAAAATTGTTAGATAAACGTTG
*
14969690 ATTTGCTTGAATTTAGTTTTTTTTGTTTCAATTATTATTATAATGTGGATTGTTTATTGGA-TTA
1 ATTTGCTTGAATTTAGTTTTTTTT-TTTCAATTATTA-T-TAATGTGGATTGCTTATT-GATTTA
* *
14969754 TAAATAGATGGTTGATTTAAAATTTGTTAGATAAATGTTG
62 TAAATAGATGGTTGATTTAAAAATTGTTAGATAAACGTTG
14969794 A
1 A
14969795 GTATAGTGGA
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
101 24 0.25
102 12 0.12
103 1 0.01
104 58 0.60
105 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (101 bp):
ATTTGCTTGAATTTAGTTTTTTTTTTTCAATTATTATTAATGTGGATTGCTTATTGATTTATAAA
TAGATGGTTGATTTAAAAATTGTTAGATAAACGTTG
Found at i:14985935 original size:7 final size:7
Alignment explanation
Indices: 14985923--14985948 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14985913 AATGCAAGTA
14985923 ATGAAAC
1 ATGAAAC
14985930 ATGAAAC
1 ATGAAAC
14985937 ATGAAAC
1 ATGAAAC
14985944 ATGAA
1 ATGAA
14985949 TCCAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAC
Found at i:14993485 original size:33 final size:32
Alignment explanation
Indices: 14993420--14993485 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
14993410 AAAGGCGAAC
**
14993420 ATAAAAATAATTAAATTAAATTTAGATAAAAA
1 ATAAAAATAATTAAATTAAATCAAGATAAAAA
* * *
14993452 ATAAAAGTGAATTAGATTAAATCAAGATCAAAA
1 ATAAAAAT-AATTAAATTAAATCAAGATAAAAA
14993485 A
1 A
14993486 CAATGATGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (32 bp):
ATAAAAATAATTAAATTAAATCAAGATAAAAA
Found at i:14993566 original size:64 final size:64
Alignment explanation
Indices: 14993445--14993589 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
14993435 TTAAATTTAG
**
14993445 ATAAAAAATAAAAGTGAATTAGATTAAATCAAGATCAAAAACAATGATGATCAAATTGAATTAAA
1 ATAAAAAATAAAAGT-AATTAGACAAAATCAAGATCAAAAACAATGATGATCAAATTGAATTAAA
* * * * *
14993510 ATTAAAAATAAAAGTAATCTA-ACAAAATTAAGATTAAAAATAA-GAGTGATCGAATTGAATTAA
1 ATAAAAAATAAAAGTAAT-TAGACAAAATCAAGATCAAAAACAATGA-TGATCAAATTGAATTAA
14993573 A
64 A
14993574 ATAAAAAATAAAAGTA
1 ATAAAAAATAAAAGTA
14993590 TTTGAATTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.03
64 52 0.74
65 16 0.23
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (64 bp):
ATAAAAAATAAAAGTAATTAGACAAAATCAAGATCAAAAACAATGATGATCAAATTGAATTAAA
Found at i:14993597 original size:32 final size:32
Alignment explanation
Indices: 14993498--14993643 Score: 118
Period size: 32 Copynumber: 4.5 Consensus size: 32
14993488 ATGATGATCA
*
14993498 AATTGAATTAAAATTAAAAATAAAAGTAATCT-
1 AATTGAATTAAAATTAAAAATAAAAGT-ATTTG
*** * * *
14993530 AACAAAATTAAGATTAAAAATAAGAGTGA-TCG
1 AATTGAATTAAAATTAAAAATAAAAGT-ATTTG
*
14993562 AATTGAATTAAAATAAAAAATAAAAGTATTTG
1 AATTGAATTAAAATTAAAAATAAAAGTATTTG
* * * * *
14993594 AATTTAAATTAAAATCAAATATAAAAGAAATT-
1 AA-TTGAATTAAAATTAAAAATAAAAGTATTTG
14993626 AGATTGAATTAAAATTAA
1 A-ATTGAATTAAAATTAA
14993644 TGATAAAGAT
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
31 1 0.01
32 62 0.70
33 25 0.28
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (32 bp):
AATTGAATTAAAATTAAAAATAAAAGTATTTG
Found at i:14993737 original size:32 final size:31
Alignment explanation
Indices: 14993563--14993751 Score: 91
Period size: 32 Copynumber: 5.8 Consensus size: 31
14993553 GAGTGATCGA
* *
14993563 ATTGAATTAAAATAAAAAATAAAAGT-ATTTG
1 ATTGAATTAAAAT-TAAAATAAAAATGATTTG
* * * *
14993594 AATTTAAATTAAAATCAAATATAAAAGA-AATTAG
1 -A-TTGAATTAAAATTAAA-ATAAAA-ATGATTTG
* *
14993628 ATTGAATTAAAATTAATGATAAAGATGA-TTG
1 ATTGAATTAAAATTAA-AATAAAAATGATTTG
* **
14993659 AATTGAGTCAATTAAAA--AAAATAAAAATTATCAG
1 -ATT--G--AATTAAAATTAAAATAAAAATGATTTG
* *
14993693 ATTAAATCAAAATTAAAATTAAAAATGATTTG
1 ATTGAATTAAAATTAAAA-TAAAAATGATTTG
*
14993725 ATTGAATTAAAATAAAAAAATAAAAAT
1 ATTGAATTAAAAT--TAAAATAAAAAT
14993752 AATCAGAGCG
Statistics
Matches: 117, Mismatches: 23, Indels: 33
0.68 0.13 0.19
Matches are distributed among these distances:
29 7 0.06
31 7 0.06
32 47 0.40
33 36 0.31
34 12 0.10
36 8 0.07
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (31 bp):
ATTGAATTAAAATTAAAATAAAAATGATTTG
Found at i:14995980 original size:12 final size:12
Alignment explanation
Indices: 14995963--14995988 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14995953 TGCTTTTATC
14995963 AATGGAAGCAAA
1 AATGGAAGCAAA
14995975 AATGGAAGCAAA
1 AATGGAAGCAAA
14995987 AA
1 AA
14995989 GAGGGTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.23, T:0.08
Consensus pattern (12 bp):
AATGGAAGCAAA
Found at i:14996482 original size:12 final size:11
Alignment explanation
Indices: 14996462--14996500 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
14996452 TGTAAATTCA
14996462 ATTTTTTATAT
1 ATTTTTTATAT
14996473 ATTATTTTATAT
1 ATT-TTTTATAT
*
14996485 GATTTTTAATAT
1 -ATTTTTTATAT
14996497 ATTT
1 ATTT
14996501 AAATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 15 0.60
13 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:14997650 original size:1 final size:1
Alignment explanation
Indices: 14997644--14997670 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
14997634 AAAATAAGGC
14997644 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
14997671 CAAAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14998085 original size:15 final size:15
Alignment explanation
Indices: 14998060--14998100 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
14998050 TAATTTATGA
14998060 ATAAT-AAATAAATT
1 ATAATCAAATAAATT
14998074 ATAATCAAATAAATT
1 ATAATCAAATAAATT
*
14998089 -TAAACAAATAAA
1 ATAATCAAATAAA
14998101 CTTTAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATCAAATAAATT
Found at i:14998105 original size:15 final size:14
Alignment explanation
Indices: 14998065--14998111 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 14
14998055 TATGAATAAT
*
14998065 AAATAAATTATAATC
1 AAATAAATT-TAAAC
14998080 AAATAAATTTAAAC
1 AAATAAATTTAAAC
14998094 AAATAAACTTTAAAC
1 AAATAAA-TTTAAAC
14998109 AAA
1 AAA
14998112 CTCAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAATTTAAAC
Found at i:14998205 original size:11 final size:11
Alignment explanation
Indices: 14998184--14998217 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14998174 TAATATTATT
14998184 ACAAACAAATA
1 ACAAACAAATA
* *
14998195 ATAAACGAATA
1 ACAAACAAATA
14998206 ACAAACAAATA
1 ACAAACAAATA
14998217 A
1 A
14998218 ATTTTAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (11 bp):
ACAAACAAATA
Found at i:14999203 original size:21 final size:21
Alignment explanation
Indices: 14999173--14999227 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
14999163 TTAAATTTAA
14999173 TTTTAA-ATTAATAAAATATT
1 TTTTAATATTAATAAAATATT
* *
14999193 TTTTAATATTAA-ATATTATT
1 TTTTAATATTAATAAAATATT
*
14999213 TTATTAATATAAATA
1 TT-TTAATATTAATA
14999228 TATTAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.48
21 14 0.48
22 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAATATTAATAAAATATT
Found at i:14999205 original size:18 final size:19
Alignment explanation
Indices: 14999183--14999231 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
14999173 TTTTAAATTA
14999183 ATAAA-ATATTTT-TTAAT
1 ATAAATATATTTTATTAAT
14999200 ATTAAATATTATTTTATTAAT
1 A-TAAATA-TATTTTATTAAT
14999221 ATAAATATATT
1 ATAAATATATT
14999232 AATATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 4 0.14
19 5 0.18
20 12 0.43
21 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAAATATATTTTATTAAT
Found at i:14999386 original size:36 final size:36
Alignment explanation
Indices: 14999336--14999414 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
14999326 ATTTTTTTTT
**
14999336 AAAAAAAATTTTTAAC-CTAACTCAAAACTCAATAAA
1 AAAAAAAAAATTTAACTC-AACTCAAAACTCAATAAA
* * *
14999372 AAAAAAAAAATTTAACTCAATTCAAAACTCGATTAA
1 AAAAAAAAAATTTAACTCAACTCAAAACTCAATAAA
14999408 AAAAAAA
1 AAAAAAA
14999415 TTAATCTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.62, C:0.14, G:0.01, T:0.23
Consensus pattern (36 bp):
AAAAAAAAAATTTAACTCAACTCAAAACTCAATAAA
Found at i:15006370 original size:15 final size:15
Alignment explanation
Indices: 15006347--15006378 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15006337 TTAAAAAATT
*
15006347 ATTTTATTTATTTAA
1 ATTTGATTTATTTAA
15006362 ATTTGATTTATTTAA
1 ATTTGATTTATTTAA
15006377 AT
1 AT
15006379 GATAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTGATTTATTTAA
Found at i:15006504 original size:14 final size:14
Alignment explanation
Indices: 15006487--15006539 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
15006477 AAATCATAAT
15006487 TAAATAAAATTTAA
1 TAAATAAAATTTAA
*
15006501 TAAATAAAA---AT
1 TAAATAAAATTTAA
15006512 TAAATAAAATTTAA
1 TAAATAAAATTTAA
* *
15006526 TAATTAAAAATTAA
1 TAAATAAAATTTAA
15006540 ATATAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.31
14 22 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAATAAAATTTAA
Found at i:15006504 original size:25 final size:25
Alignment explanation
Indices: 15006474--15006547 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
15006464 ATTAATAACA
* *
15006474 AATAAATCATAATTAAATAAAATTT
1 AATAAATAAAAATTAAATAAAATTT
15006499 AATAAATAAAAATTAAATAAAATTT
1 AATAAATAAAAATTAAATAAAATTT
* *
15006524 AATAATTAAAAATTAAATATAATT
1 AATAAATAAAAATTAAATAAAATT
15006548 GTAAATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAAATAAAAATTAAATAAAATTT
Found at i:15007746 original size:18 final size:18
Alignment explanation
Indices: 15007690--15007756 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
15007680 GTTCAAAATT
*
15007690 AAATATATATTATTTTAA
1 AAATATAAATTATTTTAA
* *
15007708 AAAT-TAAA--AATTCAA
1 AAATATAAATTATTTTAA
15007723 TTAAATATAAATTATTTTAA
1 --AAATATAAATTATTTTAA
15007743 AAATCA-AAATTATT
1 AAAT-ATAAATTATT
15007757 GTACCATGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 5 0.13
17 7 0.18
18 20 0.53
19 1 0.03
20 5 0.13
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATAAATTATTTTAA
Found at i:15013660 original size:24 final size:24
Alignment explanation
Indices: 15013618--15013665 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15013608 TATATAAAAT
15013618 TAAAAAAAACTATTATTAAATATA
1 TAAAAAAAACTATTATTAAATATA
*
15013642 TAAAAATAAACT-TTTTTAAATATA
1 TAAAAA-AAACTATTATTAAATATA
15013666 ATTTAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAAAAACTATTATTAAATATA
Found at i:15013664 original size:22 final size:23
Alignment explanation
Indices: 15013607--15013666 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
15013597 GTTTTCAAAC
15013607 TTATATAAAAT-TAAAAAAAACTA
1 TTAT-TAAAATATAAAAAAAACTA
15013630 TTATTAAATATATAAAAATAAACT-
1 TTATTAAA-ATATAAAAA-AAACTA
*
15013654 TT-TTTAAATATAA
1 TTATTAAAATATAA
15013667 TTTAAATCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 10 0.30
23 10 0.30
24 8 0.24
25 5 0.15
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
TTATTAAAATATAAAAAAAACTA
Found at i:15013945 original size:3 final size:3
Alignment explanation
Indices: 15013939--15013968 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15013929 TTATTTTGTC
*
15013939 AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15013969 GGGTTGATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:15014251 original size:17 final size:17
Alignment explanation
Indices: 15014229--15014263 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15014219 ATCATATTAT
* *
15014229 ATTTTATATTAAATATA
1 ATTTTAAATAAAATATA
15014246 ATTTTAAATAAAATATA
1 ATTTTAAATAAAATATA
15014263 A
1 A
15014264 ATAATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTAAATAAAATATA
Found at i:15014269 original size:21 final size:21
Alignment explanation
Indices: 15014243--15014288 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15014233 TATATTAAAT
15014243 ATAATTTTAA-ATAAAATATAA
1 ATAATTTTAATA-AAAATATAA
*
15014264 ATAATTTTGATAAAAATATAA
1 ATAATTTTAATAAAAATATAA
15014285 ATAA
1 ATAA
15014289 ATATTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATTTTAATAAAAATATAA
Found at i:15014297 original size:21 final size:21
Alignment explanation
Indices: 15014255--15014298 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15014245 AATTTTAAAT
*
15014255 AAAATATAAATAATTTTGATA
1 AAAATATAAATAATATTGATA
15014276 AAAATATAAATAAATATT-ATA
1 AAAATATAAAT-AATATTGATA
15014297 AA
1 AA
15014299 TTTATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATATAAATAATATTGATA
Found at i:15016857 original size:30 final size:30
Alignment explanation
Indices: 15016798--15016857 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15016788 AAATTTTGAA
* **
15016798 CTTTAATTTACATTAAAATAAACTTTTAAT
1 CTTTAATTTACATCAAAATAAACCCTTAAT
**
15016828 CTTTAATTTGTATCAAAATAAACCCTTAAT
1 CTTTAATTTACATCAAAATAAACCCTTAAT
15016858 ATATATCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.43
Consensus pattern (30 bp):
CTTTAATTTACATCAAAATAAACCCTTAAT
Found at i:15022601 original size:3 final size:3
Alignment explanation
Indices: 15022593--15022632 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
15022583 CCAACATCTC
*
15022593 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15022633 CTACGATGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:15032081 original size:21 final size:21
Alignment explanation
Indices: 15032057--15032100 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15032047 AATAATCATG
15032057 TTTT-ATTGATAAA-ATATTAAA
1 TTTTAATT-ATAAACAT-TTAAA
15032078 TTTTAATTATAAACATTTAAA
1 TTTTAATTATAAACATTTAAA
15032099 TT
1 TT
15032101 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTAATTATAAACATTTAAA
Found at i:15032109 original size:14 final size:14
Alignment explanation
Indices: 15032075--15032109 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
15032065 ATAAAATATT
*
15032075 AAATTTTAATTATA
1 AAATTTAAATTATA
15032089 AACATTTAAATTATA
1 AA-ATTTAAATTATA
15032104 AAATTT
1 AAATTT
15032110 TTAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTTAAATTATA
Found at i:15040333 original size:19 final size:17
Alignment explanation
Indices: 15040283--15040356 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 17
15040273 TATCATGTAT
*
15040283 TTATATCTTATA-AAATA
1 TTATAT-TTATATAAAAA
15040300 TTAATAATTTATATATTAAAA
1 TT-AT-ATTTATATA--AAAA
*
15040321 TTATATTTTTATAAAAA
1 TTATATTTATATAAAAA
* *
15040338 TTATGTATCATATAAAAA
1 TTATAT-TTATATAAAAA
15040356 T
1 T
15040357 ATAAAATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
17 11 0.24
18 17 0.37
19 11 0.24
20 2 0.04
21 5 0.11
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (17 bp):
TTATATTTATATAAAAA
Found at i:15044309 original size:22 final size:22
Alignment explanation
Indices: 15044274--15044329 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
15044264 TTTTTTTGTT
*
15044274 TTTAT-TATATTATTTTAATAATA
1 TTTATATATA-TATTTAAATAA-A
*
15044297 TTTTTA-ATATATTTAAATAAA
1 TTTATATATATATTTAAATAAA
15044318 TTTATATATATA
1 TTTATATATATA
15044330 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.21
22 15 0.54
23 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATATATATTTAAATAAA
Found at i:15044312 original size:21 final size:21
Alignment explanation
Indices: 15044287--15044342 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
15044277 ATTATATTAT
15044287 TTTAATAATATTTTTAATATA
1 TTTAATAATATTTTTAATATA
15044308 TTTAAATAA-A--TTT-ATATA
1 TTT-AATAATATTTTTAATATA
*
15044326 TATAATAATTATTTTTA
1 TTTAATAA-TATTTTTA
15044343 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 11
0.70 0.03 0.28
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 4 0.14
21 7 0.25
22 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATAATATTTTTAATATA
Found at i:15047086 original size:19 final size:20
Alignment explanation
Indices: 15047054--15047111 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
15047044 TGAACTGAAT
* *
15047054 TTTTTGTAAGTTTAATTAAA
1 TTTTTATAATTTTAATTAAA
*
15047074 TTTTTA-AATTTTAA-TATA
1 TTTTTATAATTTTAATTAAA
*
15047092 TTTTTATTATTTTAATTAAA
1 TTTTTATAATTTTAATTAAA
15047112 AATATTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 9 0.29
19 14 0.45
20 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTTATAATTTTAATTAAA
Found at i:15049832 original size:26 final size:26
Alignment explanation
Indices: 15049785--15049835 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15049775 AATCTACTTA
* *
15049785 AATATACTAAAAATTTATATTAAAAC
1 AATATACTAAAAATTAAAATTAAAAC
15049811 AATATA-TAAAAATTAAAAATTAAAA
1 AATATACTAAAAATT-AAAATTAAAA
15049836 ACCGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
AATATACTAAAAATTAAAATTAAAAC
Found at i:15050171 original size:42 final size:42
Alignment explanation
Indices: 15050112--15050192 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
15050102 TATTTATTTA
* * *
15050112 ATTTTATATTTATATATT-ATATTAATAAAATTATTATATAAT
1 ATTTTATATTTAGATATTAAT-TTAATAAAAATACTATATAAT
15050154 ATTTTA-ATTTAAGATATTAATTTAATAAAAATACTATAT
1 ATTTTATATTT-AGATATTAATTTAATAAAAATACTATAT
15050193 TTATGTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 28 0.82
43 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (42 bp):
ATTTTATATTTAGATATTAATTTAATAAAAATACTATATAAT
Found at i:15054056 original size:18 final size:19
Alignment explanation
Indices: 15054033--15054070 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15054023 GGGAATGACA
*
15054033 AAAATTAT-ATGAAAATTT
1 AAAATTATAATAAAAATTT
*
15054051 AAAATTTTAATAAAAATTT
1 AAAATTATAATAAAAATTT
15054070 A
1 A
15054071 TATGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATTATAATAAAAATTT
Found at i:15054119 original size:19 final size:20
Alignment explanation
Indices: 15054097--15054136 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15054087 GGAAAAATTT
15054097 ATAATTTAAAAT-TTTGATA
1 ATAATTTAAAATATTTGATA
* *
15054116 ATAATTTTATATATTTGATA
1 ATAATTTAAAATATTTGATA
15054136 A
1 A
15054137 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAATTTAAAATATTTGATA
Found at i:15054141 original size:53 final size:52
Alignment explanation
Indices: 15054046--15054211 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 52
15054036 ATTATATGAA
* * * *
15054046 AATTTAAAATTTTAATAAAAATTTATATGAATTTAAT-GAAAGGAAAAATTTAT
1 AATTTAAAATTTTGATAAAATTTTATAT--ATTTAATAAAAAGGAAAAAATTAT
* *
15054099 AATTTAAAATTTTGATAATAATTTTATATATTTGATAAAAAGGAAAAAAAGTAT
1 AATTTAAAATTTTGATAA-AATTTTATATATTTAATAAAAAGG-AAAAAATTAT
* * * *
15054153 GATTT-AAATTTATGATAAAATATATATAAATTTAATAAAAA-TAAAAACATTAT
1 AATTTAAAATTT-TGATAAAAT-TTTATATATTTAATAAAAAGGAAAAA-ATTAT
15054206 AATTTA
1 AATTTA
15054212 TATTATATAT
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
52 11 0.12
53 39 0.42
54 43 0.46
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.39
Consensus pattern (52 bp):
AATTTAAAATTTTGATAAAATTTTATATATTTAATAAAAAGGAAAAAATTAT
Found at i:15066209 original size:25 final size:25
Alignment explanation
Indices: 15066171--15066227 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15066161 TTTATATATT
* * *
15066171 TATATTATATTTTATATAAAAATTA
1 TATATAATAATTTATATAAAAATAA
*
15066196 TATATAATAATTTATATTAAAATAA
1 TATATAATAATTTATATAAAAATAA
*
15066221 AATATAA
1 TATATAA
15066228 AAATATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATAATAATTTATATAAAAATAA
Found at i:15066226 original size:29 final size:30
Alignment explanation
Indices: 15066189--15066245 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
15066179 ATTTTATATA
*
15066189 AAAATTATATATAATA-ATTTATATTAAAAT
1 AAAATTATA-AAAATATATTTATATTAAAAT
*
15066219 AAAA-TATAAAAATATATTTTTATTAAA
1 AAAATTATAAAAATATATTTATATTAAA
15066246 TTTATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 15 0.62
30 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATTATAAAAATATATTTATATTAAAAT
Found at i:15067026 original size:106 final size:106
Alignment explanation
Indices: 15066915--15067111 Score: 279
Period size: 106 Copynumber: 1.9 Consensus size: 106
15066905 GTTGATAAAA
* * * ** * *
15066915 ATTTATTAAAATTATTTTGAATGTATAATTTATAATTATTTATCTTAAATTATTTAATAT-GATT
1 ATTTATTAAAATTATTTTAAATATATAATTTATAATTATTTATCTTAAAATATCAAATATAAAAT
*
15066979 CATTTTATTTTAACTTAAAAAATTAAAAAAATATTTATTTTT
66 -ATTTTAATTTAACTTAAAAAATTAAAAAAATATTTATTTTT
* *
15067021 ATTTATTAAAATTATTTTAAATATGTAATTTATAATTATTTATTTTAAAATATCAAATATAAAAT
1 ATTTATTAAAATTATTTTAAATATATAATTTATAATTATTTATCTTAAAATATCAAATATAAAAT
*
15067086 ATTTTAATTTAATTTAAAAAATTAAA
66 ATTTTAATTTAACTTAAAAAATTAAA
15067112 TAACCTATCT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 77 0.97
107 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (106 bp):
ATTTATTAAAATTATTTTAAATATATAATTTATAATTATTTATCTTAAAATATCAAATATAAAAT
ATTTTAATTTAACTTAAAAAATTAAAAAAATATTTATTTTT
Found at i:15067590 original size:33 final size:33
Alignment explanation
Indices: 15067548--15067623 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
15067538 ATTTAATTTG
** *
15067548 AAATT-AATAAAATAT-TATTTTTATATAAATA
1 AAATTAAATAAAATATATAAATATATATAAATA
15067579 TAAATTAAAT-AAATATATAAATATATATAAATA
1 -AAATTAAATAAAATATATAAATATATATAAATA
15067612 AATATTAAATAA
1 AA-ATTAAATAA
15067624 TTAATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 13 0.35
33 23 0.62
34 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
AAATTAAATAAAATATATAAATATATATAAATA
Found at i:15067598 original size:8 final size:8
Alignment explanation
Indices: 15067569--15067622 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
15067559 ATATTATTTT
15067569 TATATAAA
1 TATATAAA
*
15067577 TATA-AAT
1 TATATAAA
*
15067584 TAAATAAA
1 TATATAAA
15067592 TATATAAA
1 TATATAAA
15067600 TATAT--A
1 TATATAAA
*
15067606 TAAATAAA
1 TATATAAA
15067614 TAT-TAAA
1 TATATAAA
15067621 TA
1 TA
15067623 ATTAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
6 5 0.14
7 11 0.30
8 21 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TATATAAA
Found at i:15068130 original size:20 final size:19
Alignment explanation
Indices: 15068088--15068131 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
15068078 TTAATACATA
15068088 TAAATTAAATATAATTTCAT
1 TAAATTAAATATAATTT-AT
15068108 TAAATTAAATTATATATTT-T
1 TAAATTAAA-TATA-ATTTAT
15068128 TAAA
1 TAAA
15068132 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATTAAATATAATTTAT
Found at i:15069889 original size:23 final size:24
Alignment explanation
Indices: 15069862--15069921 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
15069852 TATTCTTAAA
*
15069862 TAAAAAATTTAAA-AAATATTTTT
1 TAAAAAATTTAAAGAAATAATTTT
*
15069885 TAAAAAAATTTAAAGGAATAATTTT
1 T-AAAAAATTTAAAGAAATAATTTT
*
15069910 T-AAATATTTAAA
1 TAAAAAATTTAAA
15069922 TTAAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.34
24 12 0.38
25 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
TAAAAAATTTAAAGAAATAATTTT
Found at i:15069891 original size:25 final size:25
Alignment explanation
Indices: 15069863--15069913 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
15069853 ATTCTTAAAT
*
15069863 AAAAAATTTAAA-AAATATTTTTTA
1 AAAAAATTTAAAGAAATAATTTTTA
*
15069887 AAAAAATTTAAAGGAATAATTTTTA
1 AAAAAATTTAAAGAAATAATTTTTA
15069912 AA
1 AA
15069914 TATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
AAAAAATTTAAAGAAATAATTTTTA
Found at i:15071252 original size:20 final size:21
Alignment explanation
Indices: 15071227--15071267 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15071217 AATTTTTTAT
*
15071227 TAAAAATGAGTAAA-TAAAAA
1 TAAAAATGAATAAATTAAAAA
*
15071247 TAAAAATTAATAAATTAAAAA
1 TAAAAATGAATAAATTAAAAA
15071268 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAAAATGAATAAATTAAAAA
Found at i:15071389 original size:29 final size:27
Alignment explanation
Indices: 15071348--15071414 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
15071338 GATATTTTTA
* **
15071348 ATAAA-AATATTGATGAAATTTTTATT
1 ATAAATAATATTGATCAAATTTAAATT
15071374 ATTAAATAAGTATTGATCAAATTTAAATT
1 A-TAAATAA-TATTGATCAAATTTAAATT
15071403 ATAAATAATATT
1 ATAAATAATATT
15071415 TTTAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.03
27 8 0.23
28 9 0.26
29 17 0.49
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (27 bp):
ATAAATAATATTGATCAAATTTAAATT
Found at i:15072887 original size:17 final size:16
Alignment explanation
Indices: 15072859--15072890 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15072849 GCAAACTGTA
15072859 ATTATTGAATTAATTC
1 ATTATTGAATTAATTC
15072875 ATTATTAGAATTAATT
1 ATTATT-GAATTAATT
15072891 TTCAAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATTGAATTAATTC
Found at i:15074801 original size:15 final size:15
Alignment explanation
Indices: 15074781--15074811 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15074771 CCTTTTGTAG
15074781 TGATAATATTTTTTA
1 TGATAATATTTTTTA
15074796 TGATAATATTTTTTA
1 TGATAATATTTTTTA
15074811 T
1 T
15074812 ATTGAAAAAA
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:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TGATAATATTTTTTA
Found at i:15076106 original size:22 final size:22
Alignment explanation
Indices: 15076078--15076124 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15076068 ACTTGATTAA
* * *
15076078 TTAATTAATTATTAAATTAATT
1 TTAATTAATAAATAAAATAATT
15076100 TTAATTAATAAATAAAATAATT
1 TTAATTAATAAATAAAATAATT
15076122 TTA
1 TTA
15076125 CAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATTAATAAATAAAATAATT
Found at i:15076208 original size:12 final size:13
Alignment explanation
Indices: 15076188--15076219 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15076178 TCAAAATTTT
15076188 AATTAAAATATAA
1 AATTAAAATATAA
15076201 AATT-AAATATAA
1 AATTAAAATATAA
15076213 AA-TAAAA
1 AATTAAAA
15076220 AAATATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 13 0.72
13 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAAATATAA
Found at i:15077499 original size:58 final size:58
Alignment explanation
Indices: 15077436--15077619 Score: 183
Period size: 58 Copynumber: 3.1 Consensus size: 58
15077426 AAAGTTTGAA
15077436 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
** ** * *
15077494 AAATCAGTGTTGATAAAGGCTATGTAA-A-AAAAATCCAAATGATATAACCCCAAACAAAGTTTG
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGC--ATGATATAA---C--A-AATG-CTG
*
15077557 AA
57 AC
* * *
15077559 AAATCAGTATTGATAAAGGCTATGTAAGATGTAAAGGGATGATCTAACAAATGCTGAC
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
15077617 AAA
1 AAA
15077620 GAAAACACCC
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 42 0.43
59 3 0.03
60 1 0.01
61 1 0.01
62 1 0.01
63 1 0.01
64 3 0.03
65 37 0.38
66 1 0.01
67 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (58 bp):
AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
Found at i:15090642 original size:34 final size:34
Alignment explanation
Indices: 15090549--15090644 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
15090539 GTTTTCTATC
* *
15090549 AAATGCCGCTATATTAACGGTGTTTATATATGAA
1 AAATGCCGTTATATTAACGGTGTTTGTATATGAA
* ** *
15090583 AAATGCCGTTGTATTAAAAGTGTTTGTATCTGAA
1 AAATGCCGTTATATTAACGGTGTTTGTATATGAA
* *
15090617 AAATGCTGTTATATTAGCGGTGTTTGTA
1 AAATGCCGTTATATTAACGGTGTTTGTA
15090645 CATTTACCAC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (34 bp):
AAATGCCGTTATATTAACGGTGTTTGTATATGAA
Found at i:15098920 original size:185 final size:184
Alignment explanation
Indices: 15098632--15099136 Score: 651
Period size: 185 Copynumber: 2.7 Consensus size: 184
15098622 AGTGAACGTA
* * *
15098632 TTTTTGAGAACAAACGCATTCAATAATTTTCTTTTAAAATTTTTAAGATTATTAAAGGTGTCTTC
1 TTTTTGAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGATGTCTTC
* * * * * *
15098697 CAGTGAAAAACGCCTTCAATATTTCACGACTCAAATTTTAAGATGATTAGTGAATGCGTTTATTC
66 TAGTGAAAAACACCTTAAATTTTTCACAACTCAAATTTTAAGATGATTAGTGAAGGCGTTTATTC
15098762 TAGAAAACACATTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTG
131 TAGAAAACACATTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTG
* *
15098816 TCTTTTGAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTAAAATTATTAAAGACGTCTT
1 T-TTTTGAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGATGTCTT
* * * **
15098881 CTAGTGAAAAATACCTTAAATTTTTCACAACTTAAATTTTAAGATGATTATTGAAGGTATTTATT
65 CTAGTGAAAAACACCTTAAATTTTTCACAACTCAAATTTTAAGATGATTAGTGAAGGCGTTTATT
* ** * * * *
15098946 CTAGAAAAATACATTCACTAATTTTTTCTAATTTACGTATATAATTATTGAATGTG
130 CTAG-AAAACACATTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTG
* * * * *
15099002 TTTTTAGAGAATAAACACCTTTAATAA--TT-TCTTAAAATTTTTGAGATTATTAAATATGT-TT
1 TTTTT-GAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGATGTCTT
* * *
15099063 TTCAGTGAAAAACACCTTTAATTTTTCACAACTCAAATTTTAAGA-CAGTTAGTGAAGGCGTTTA
65 CT-AGTGAAAAACACCTTAAATTTTTCACAACTCAAATTTTAAGATGA-TTAGTGAAGGCGTTTA
15099127 TTCTAGAAAA
128 TTCTAGAAAA
15099137 ATGCTTTCAC
Statistics
Matches: 278, Mismatches: 38, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
182 8 0.03
183 84 0.30
184 3 0.01
185 120 0.43
186 63 0.23
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (184 bp):
TTTTTGAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGATGTCTTC
TAGTGAAAAACACCTTAAATTTTTCACAACTCAAATTTTAAGATGATTAGTGAAGGCGTTTATTC
TAGAAAACACATTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTG
Found at i:15099165 original size:124 final size:124
Alignment explanation
Indices: 15099029--15099275 Score: 388
Period size: 124 Copynumber: 2.0 Consensus size: 124
15099019 CCTTTAATAA
* * *
15099029 TTTCTTAAAATTTTTGAGATTATTAAATATGTTTTTCAGTGAAAAACACCTTTAATTTTTCACAA
1 TTTCTTAAAATTTTTGAGATTATTAAATATATTTTTCAGTGAAAAACACCTTCAAATTTTCACAA
* * * *
15099094 CTCAAATTTTAAGACAGTTAGTGAAGGCGTTTATTCTAGAAAAA-TGCTTTCACTAATTT
66 CTCAAATTTTAAGA-AGGTACTGAAGGCATTTATTCTAGAAAAATTGCCTTCACTAATTT
* **
15099153 TTTCTTAAAATTTTTGAGATTATTAAATGTATTTTTCAGTGAAAAATGCCTTCAAATTTTCACAA
1 TTTCTTAAAATTTTTGAGATTATTAAATATATTTTTCAGTGAAAAACACCTTCAAATTTTCACAA
15099218 CTCAAATTTTAAGAAGGTACTGAAGGCATTTATTCTAGAAAAATTGCCTTCACTAATT
66 CTCAAATTTTAAGAAGGTACTGAAGGCATTTATTCTAGAAAAATTGCCTTCACTAATT
15099276 CCTTCTAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 26 0.23
124 86 0.77
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (124 bp):
TTTCTTAAAATTTTTGAGATTATTAAATATATTTTTCAGTGAAAAACACCTTCAAATTTTCACAA
CTCAAATTTTAAGAAGGTACTGAAGGCATTTATTCTAGAAAAATTGCCTTCACTAATTT
Found at i:15099225 original size:61 final size:61
Alignment explanation
Indices: 15099036--15099227 Score: 149
Period size: 61 Copynumber: 3.1 Consensus size: 61
15099026 TAATTTCTTA
* ** * *
15099036 AAATTTTTGAGATTATTAAATATGTTTTTCAGTGAAAAACACCTTTAATTTTTCACAACTC
1 AAATTTTTGAGATTATTAAATGTGTTTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
* * * * * * * ** *
15099097 AAATTTTAAGACAGTTAGTGAAGGCGTTTATTC--TAGAAAAATGCTTTCACTAATTTTTTC--T
1 AAATTTT-TGAGA-TTATTAAATGTGTTT-TTCAGT-GAAAAATGCCTTCA--AATTTTCACAAC
*
15099158 TA
60 TC
*
15099160 AAATTTTTGAGATTATTAAATGTATTTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
1 AAATTTTTGAGATTATTAAATGTGTTTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
15099221 AAATTTT
1 AAATTTT
15099228 AAGAAGGTAC
Statistics
Matches: 93, Mismatches: 28, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
59 7 0.08
60 3 0.03
61 38 0.41
62 8 0.09
63 28 0.30
64 3 0.03
65 6 0.06
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (61 bp):
AAATTTTTGAGATTATTAAATGTGTTTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
Found at i:15105018 original size:17 final size:16
Alignment explanation
Indices: 15104992--15105024 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
15104982 ATATATATTT
15104992 TATTTTATTAAACTCA
1 TATTTTATTAAACTCA
15105008 TATTATTATTAAACTCA
1 TATT-TTATTAAACTCA
15105025 AATATATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTTATTAAACTCA
Found at i:15106759 original size:13 final size:13
Alignment explanation
Indices: 15106743--15106781 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
15106733 AATGAGTAAA
15106743 TAAAAATTAAAAT
1 TAAAAATTAAAAT
*
15106756 TAAAAATCAAAAT
1 TAAAAATTAAAAT
15106769 TAAAAAATTAAAA
1 T-AAAAATTAAAA
15106782 AATTTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:15106993 original size:12 final size:12
Alignment explanation
Indices: 15106976--15107001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15106966 ATTTATCGAT
15106976 TTAAATATTTTA
1 TTAAATATTTTA
15106988 TTAAATATTTTA
1 TTAAATATTTTA
15107000 TT
1 TT
15107002 TATTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:15108401 original size:19 final size:16
Alignment explanation
Indices: 15108366--15108397 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15108356 TGCAAACGTA
15108366 ATTATTAAATTAATTC
1 ATTATTAAATTAATTC
15108382 ATTATTAGAATTAATT
1 ATTATTA-AATTAATT
15108398 TTCAAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTATTAAATTAATTC
Found at i:15110097 original size:25 final size:26
Alignment explanation
Indices: 15110037--15110104 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
15110027 TTTTTATAAA
* * *
15110037 ATTTTAAATTATATTATTTATATTAT
1 ATTTTAAATTATTTTATTCATATCAT
**
15110063 -TTTTTTATTATTTTA-TCATATCAT
1 ATTTTAAATTATTTTATTCATATCAT
*
15110087 ATTTTAAATTATTATATT
1 ATTTTAAATTATTTTATT
15110105 TAATTATTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
24 7 0.22
25 24 0.75
26 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTTTAAATTATTTTATTCATATCAT
Found at i:15111860 original size:16 final size:16
Alignment explanation
Indices: 15111832--15111865 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15111822 GAAAAACTAA
15111832 TAATTTAAAATATGATT
1 TAATTTAAAATAT-ATT
15111849 TAATTT-AAATATATT
1 TAATTTAAAATATATT
15111864 TA
1 TA
15111866 TTATTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAATTTAAAATATATT
Found at i:15115662 original size:14 final size:14
Alignment explanation
Indices: 15115643--15115671 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15115633 ATTCTGTCCC
15115643 ATCATAGTTTGAAA
1 ATCATAGTTTGAAA
15115657 ATCATAGTTTGAAA
1 ATCATAGTTTGAAA
15115671 A
1 A
15115672 GCAATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ATCATAGTTTGAAA
Found at i:15115897 original size:58 final size:58
Alignment explanation
Indices: 15115834--15116017 Score: 183
Period size: 58 Copynumber: 3.1 Consensus size: 58
15115824 AAAGTTTGAA
15115834 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
** ** * *
15115892 AAATCAGTGTTGATAAAGGCTATGTAA-A-AAAAATCCAAATGATATAACCCCAAACAAAGTTTG
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGC--ATGATATAA---C--A-AATG-CTG
*
15115955 AA
57 AC
* * *
15115957 AAATCAGTATTGATAAAGGCTATGTAAGATGTAAAGGGATGATCTAACAAATGCTGAC
1 AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
15116015 AAA
1 AAA
15116018 GAAAACACCC
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 42 0.43
59 3 0.03
60 1 0.01
61 1 0.01
62 1 0.01
63 1 0.01
64 3 0.03
65 37 0.38
66 1 0.01
67 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (58 bp):
AAATCAGTGTTGATAAAGGCTATGTAAGATGTAAAGGCATGATATAACAAATGCTGAC
Found at i:15135503 original size:1 final size:1
Alignment explanation
Indices: 15135455--15135485 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
15135445 ACTAGAGGGG
*
15135455 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15135486 ACATTTGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:15135633 original size:34 final size:34
Alignment explanation
Indices: 15135595--15135688 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 34
15135585 CATTTTCTAT
*
15135595 AAAATGCCGCTATATTAACGGTGTTTATATATGA
1 AAAATGCTGCTATATTAACGGTGTTTATATATGA
* * * ** * * *
15135629 AAAATGTTGTTGTATTAAAAGCGTTTGTATTTGA
1 AAAATGCTGCTATATTAACGGTGTTTATATATGA
* *
15135663 AAAACGCTGCTATATTAGCGGTGTTT
1 AAAATGCTGCTATATTAACGGTGTTT
15135689 GTACATTTGC
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (34 bp):
AAAATGCTGCTATATTAACGGTGTTTATATATGA
Found at i:15143762 original size:120 final size:122
Alignment explanation
Indices: 15143588--15143811 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 122
15143578 TTGAAAAAAT
* * * ** * *
15143588 TTATTGAAGGCGTCTTCTAGTGAAAAATACATTCAATGTTCCATTACTCCAA-TTTAGGATAG-T
1 TTATTAAAGGCGTCTTCCAGTGAAAAATACATTCAATATTCCACAACTCAAATTTTAAGA-AGAT
15143651 TAGTGAAGGCATTT-TT-TAGAATAAACACATTCAATAATTTTCTTTTAAATTTTAGGA
65 TAGTGAAGGCATTTATTCTAGAA-AAACACATTCAATAATTTTCTTTTAAATTTTAGGA
* * *
15143708 TTATTAAAGGTGTCTTCCAGTGAAAAATACATTCAATATTTCACAACTCAAATTTTAAGACGATT
1 TTATTAAAGGCGTCTTCCAGTGAAAAATACATTCAATATTCCACAACTCAAATTTTAAGAAGATT
* * *
15143773 AGTGAAGGCATTTATTCTAGAAAAATATATTCACTAATT
66 AGTGAAGGCATTTATTCTAGAAAAACACATTCAATAATT
15143812 CCTTCAAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
120 45 0.52
121 21 0.24
122 16 0.18
123 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (122 bp):
TTATTAAAGGCGTCTTCCAGTGAAAAATACATTCAATATTCCACAACTCAAATTTTAAGAAGATT
AGTGAAGGCATTTATTCTAGAAAAACACATTCAATAATTTTCTTTTAAATTTTAGGA
Found at i:15143900 original size:186 final size:185
Alignment explanation
Indices: 15143663--15144184 Score: 647
Period size: 186 Copynumber: 2.8 Consensus size: 185
15143653 GTGAAGGCAT
* * * *
15143663 TTTTTAGAATAAACACATTCAATAATTTTCTTTT-AAA-TTTTAGGATTATTAAAGGTGTCTTCC
1 TTTTGAGAAAAAACACCTTCAATAATTTT-TTTTAAAATTTTTAAGATTATTAAAGGTGTCTTCC
* *
15143726 AGTGAAAAATACATTCAATATTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCT
65 AGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCT
*
15143791 AGAAAAATATATTCACTAATTCCTTCAAATTTACATAGATAATAATTGAAGGT-GTC
130 AGAAAAATAT-TTCACTAATTCCTTCAAATTTACATACATAATAATTGAAGGTAGTC
* * **
15143847 TTTTGAGAAAAAACGCCTTCAATAATTTTTTCTTAAAATTTTTAAAATTATTAAAGGCATCTTCC
1 TTTTGAGAAAAAACACCTTCAATAATTTTTT-TTAAAATTTTTAAGATTATTAAAGGTGTCTTCC
* * * *
15143912 AGTGAAAAACACATTTAATTTTTTACAACTTAAATTTTAAGATGATTAGTGAAGGCATTTATTCT
65 AGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCT
** * * * * * *
15143977 AGAAAAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGTATTT
130 AGAAAAAT-ATTTCACTAATTCCTTCAAATTTACATACATAATAATTGAAGGTAGTC
* * * * * **
15144034 TTTTTAGAACAAACACCTTTAATAATTTCTTTTTAAAATTTTTGAGATTATTAAATGTGTCTTTT
1 TTTTGAGAAAAAACACCTTCAATAATTT-TTTTTAAAATTTTTAAGATTATTAAAGGTGTCTTCC
* **
15144099 AGTGAAAAATACCTTTAATTTTTCACAACTCAAATTTTAAGAC-AGTTAGTGAAGGTGTTTATTC
65 AGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGACGA-TTAGTGAAGGCATTTATTC
*
15144163 TAGAAAAATGCTTTCACTAATT
129 TAGAAAAAT-ATTTCACTAATT
15144185 TTCTCTTAAA
Statistics
Matches: 289, Mismatches: 42, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
183 2 0.01
184 27 0.09
185 3 0.01
186 127 0.44
187 127 0.44
188 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (185 bp):
TTTTGAGAAAAAACACCTTCAATAATTTTTTTTAAAATTTTTAAGATTATTAAAGGTGTCTTCCA
GTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTCTA
GAAAAATATTTCACTAATTCCTTCAAATTTACATACATAATAATTGAAGGTAGTC
Found at i:15144139 original size:187 final size:184
Alignment explanation
Indices: 15143662--15144185 Score: 665
Period size: 187 Copynumber: 2.8 Consensus size: 184
15143652 AGTGAAGGCA
* * *
15143662 TTTTTTAGAATAAACACATTCAATAATTTTCTTTT-AAATTTTAG-GATTATTAAAGGTGTCTTC
1 TTTTTTAGAAAAAACACCTTCAATAATTTT-TTTTAAAATTTTTGAGATTATTAAAGGTGTCTTC
* *
15143725 CAGTGAAAAATACATTCAATATTTCACAACTCAAATTTTAAGACGATTAGTGAAGGCATTTATTC
65 CAGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGA-GATTAGTGAAGGCATTTATTC
** * *
15143790 TAGAAAAATATATTCACTAATTCCTTCAAATTTACATAGATAATAATTGAAGGTGT
129 TAGAAAAATGCATTCACTAATTTCTTCAAATTTACATACATAATAATTGAAGGTGT
* * * * * **
15143846 CTTTTGAGAAAAAACGCCTTCAATAATTTTTTCTTAAAATTTTTAAAATTATTAAAGGCATCTTC
1 TTTTTTAGAAAAAACACCTTCAATAATTTTTT-TTAAAATTTTTGAGATTATTAAAGGTGTCTTC
* * *
15143911 CAGTGAAAAACACATTTAATTTTTTACAACTTAAATTTTAAGATGATTAGTGAAGGCATTTATTC
65 CAGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGA-GATTAGTGAAGGCATTTATTC
* * * * *
15143976 TAGAAAAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATTATTGAAGGTATT
129 TAGAAAAATGCATTCACTAATTTCTTCAAATTTACATACATAATAATTGAAGGT-GT
* * * *
15144033 TTTTTTAGAACAAACACCTTTAATAATTTCTTTTTAAAATTTTTGAGATTATTAAATGTGTCTTT
1 TTTTTTAGAAAAAACACCTTCAATAATTT-TTTTTAAAATTTTTGAGATTATTAAAGGTGTCTTC
* * * **
15144098 TAGTGAAAAATACCTTTAATTTTTCACAACTCAAATTTTAAGACAGTTAGTGAAGGTGTTTATTC
65 CAGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGAGA-TTAGTGAAGGCATTTATTC
*
15144163 TAGAAAAATGCTTTCACTAATTT
129 TAGAAAAATGCATTCACTAATTT
15144186 TCTCTTAAAA
Statistics
Matches: 289, Mismatches: 45, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
183 2 0.01
184 27 0.09
185 7 0.02
186 122 0.42
187 128 0.44
188 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (184 bp):
TTTTTTAGAAAAAACACCTTCAATAATTTTTTTTAAAATTTTTGAGATTATTAAAGGTGTCTTCC
AGTGAAAAATACATTTAATTTTTCACAACTCAAATTTTAAGAGATTAGTGAAGGCATTTATTCTA
GAAAAATGCATTCACTAATTTCTTCAAATTTACATACATAATAATTGAAGGTGT
Found at i:15144184 original size:124 final size:124
Alignment explanation
Indices: 15144066--15144308 Score: 371
Period size: 124 Copynumber: 2.0 Consensus size: 124
15144056 TAATTTCTTT
** * *
15144066 TTAAAATTTTTGAGATTATTAAATGTGTCTTTTAGTGAAAAATACCTTTAATTTTTCACAACTCA
1 TTAAAATTTTTGAGATTATTAAATGTGTCTTCCAGTGAAAAATACCTTCAAATTTTCACAACTCA
* ** * *
15144131 AATTTTAAGACA-GTTAGTGAAGGTGTTTATTCTAGAAAAATGCTTTCACTAATTTTCTC
66 AATTTTAAGA-AGGTTACTGAAGGCATTTATTCTAGAAAAATACCTTCACTAATTTTCTC
* *
15144190 TTAAAATTTTTGGGATTATTAAATGTGTCTTCCAGTGAAAAATGCCTTCAAATTTTCACAACTCA
1 TTAAAATTTTTGAGATTATTAAATGTGTCTTCCAGTGAAAAATACCTTCAAATTTTCACAACTCA
15144255 AATTTTAAGAAGGTTACTGAAGGCATTTATTCTAGAAAAATACCTTCACTAATT
66 AATTTTAAGAAGGTTACTGAAGGCATTTATTCTAGAAAAATACCTTCACTAATT
15144309 CCTTCTAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 1 0.01
124 106 0.99
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (124 bp):
TTAAAATTTTTGAGATTATTAAATGTGTCTTCCAGTGAAAAATACCTTCAAATTTTCACAACTCA
AATTTTAAGAAGGTTACTGAAGGCATTTATTCTAGAAAAATACCTTCACTAATTTTCTC
Found at i:15144258 original size:61 final size:61
Alignment explanation
Indices: 15144069--15144260 Score: 158
Period size: 61 Copynumber: 3.1 Consensus size: 61
15144059 TTTCTTTTTA
* * * *
15144069 AAATTTTTGAGATTATTAAATGTGTCTTTTAGTGAAAAATACCTTTAATTTTTCACAACTC
1 AAATTTTTGAGATTATTAAATGTGTCTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
* * * * * * * * *
15144130 AAATTTTAAGACAGTTAGTGAAGGTGTTTATTC--TAGAAAAATGCTTTCACTAATTTTCTC--T
1 AAATTTT-TGAGA-TTATTAAATGTGTCT-TTCAGT-GAAAAATGCCTTCA--AATTTTCACAAC
*
15144191 TA
60 TC
* *
15144193 AAATTTTTGGGATTATTAAATGTGTCTTCCAGTGAAAAATGCCTTCAAATTTTCACAACTC
1 AAATTTTTGAGATTATTAAATGTGTCTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
15144254 AAATTTT
1 AAATTTT
15144261 AAGAAGGTTA
Statistics
Matches: 95, Mismatches: 26, Indels: 20
0.67 0.18 0.14
Matches are distributed among these distances:
59 8 0.08
60 2 0.02
61 39 0.41
62 7 0.07
63 30 0.32
64 2 0.02
65 7 0.07
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (61 bp):
AAATTTTTGAGATTATTAAATGTGTCTTTCAGTGAAAAATGCCTTCAAATTTTCACAACTC
Found at i:15150064 original size:16 final size:16
Alignment explanation
Indices: 15150043--15150074 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15150033 ATATTTTTTT
15150043 TATTTTATTAAACTCA
1 TATTTTATTAAACTCA
15150059 TATTTTATTAAACTCA
1 TATTTTATTAAACTCA
15150075 AATATATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTTATTAAACTCA
Found at i:15151081 original size:24 final size:24
Alignment explanation
Indices: 15151054--15151117 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
15151044 TTTGCATTTA
*
15151054 AAAATTTTAATAAATTTATTTTTT
1 AAAATTTTAATAAATTTAATTTTT
* **
15151078 AAAA-TTTATTACTTTTTAATTTTT
1 AAAATTTTAATA-AATTTAATTTTT
*
15151102 AAAATATTAATAAATT
1 AAAATTTTAATAAATT
15151118 AATATTATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
23 6 0.20
24 19 0.63
25 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AAAATTTTAATAAATTTAATTTTT
Found at i:15153299 original size:22 final size:23
Alignment explanation
Indices: 15153271--15153314 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
15153261 GATTTAAAAT
*
15153271 TTTAAT-AATAATTATATATAGA
1 TTTAATAAATAAATATATATAGA
15153293 TTTAATAAAATAAATATATATA
1 TTTAAT-AAATAAATATATATA
15153315 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTAATAAATAAATATATATAGA
Found at i:15153317 original size:22 final size:22
Alignment explanation
Indices: 15153271--15153317 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15153261 GATTTAAAAT
*
15153271 TTTAATAATAATTATATATAGA
1 TTTAATAATAATAATATATAGA
*
15153293 TTTAATAA-AATAAATATATATA
1 TTTAATAATAAT-AATATATAGA
15153315 TTT
1 TTT
15153318 TATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAATAATAATAATATATAGA
Found at i:15154457 original size:19 final size:19
Alignment explanation
Indices: 15154435--15154473 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15154425 TGATTTTATT
15154435 TTTATTTTATCA-TATTTTA
1 TTTATTTT-TCATTATTTTA
15154454 TTTATTTTTCATTATTTTA
1 TTTATTTTTCATTATTTTA
15154473 T
1 T
15154474 ATCATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTTCATTATTTTA
Found at i:15154468 original size:29 final size:29
Alignment explanation
Indices: 15154436--15154492 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
15154426 GATTTTATTT
15154436 TTATTTTATCAT-ATTT-TATTTATTTTTCA
1 TTATTTTAT-ATCATTTAT-TTTATTTTTCA
15154465 TTATTTTATATCATTTATTTTATTTTTC
1 TTATTTTATATCATTTATTTTATTTTTC
15154493 TATCAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 2 0.08
29 23 0.88
30 1 0.04
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (29 bp):
TTATTTTATATCATTTATTTTATTTTTCA
Found at i:15154523 original size:11 final size:11
Alignment explanation
Indices: 15154505--15154569 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
15154495 TCAAAAGTTT
15154505 ATAAAAAAATA
1 ATAAAAAAATA
15154516 A-AATAAAAATA
1 ATAA-AAAAATA
*
15154527 ATAAAAAAATC
1 ATAAAAAAATA
*
15154538 ATAAATTAAATA
1 ATAAA-AAAATA
* * *
15154550 GTAGAAATAT-
1 ATAAAAAAATA
15154560 ATAAAAAAAT
1 ATAAAAAAAT
15154570 TTGAGCATAG
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
10 9 0.22
11 23 0.56
12 9 0.22
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (11 bp):
ATAAAAAAATA
Found at i:15155621 original size:16 final size:17
Alignment explanation
Indices: 15155593--15155632 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
15155583 CCACTTATGA
15155593 TTTT-ATTTCTATTT-T
1 TTTTCATTTCTATTTAT
*
15155608 TTTTCATTTTTATTTAT
1 TTTTCATTTCTATTTAT
15155625 TTTTCATT
1 TTTTCATT
15155633 ATTTTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCATTTCTATTTAT
Found at i:15155655 original size:31 final size:28
Alignment explanation
Indices: 15155592--15155660 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
15155582 ACCACTTATG
* *
15155592 ATTTTATTTCT-ATTTTTTTTCATTTTT
1 ATTTTATTTTTCATTTTTTTTCATATTT
15155619 A-TTTATTTTTCATTATTTTTTCAATCATTT
1 ATTTTATTTTTCATT-TTTTTTC-AT-ATTT
15155649 ATTTTATTTTTC
1 ATTTTATTTTTC
15155661 TATCAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 8 0.23
27 4 0.11
28 7 0.20
29 2 0.06
30 4 0.11
31 10 0.29
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (28 bp):
ATTTTATTTTTCATTTTTTTTCATATTT
Found at i:15155785 original size:30 final size:30
Alignment explanation
Indices: 15155712--15155785 Score: 71
Period size: 30 Copynumber: 2.4 Consensus size: 30
15155702 ATCATAAATT
* *
15155712 AAATAGTAAAAATATATAAAAATTTTGAGCAA
1 AAATA-TAAAAA-AGATAAAAATTATGAGCAA
*
15155744 AAA-AAATAAAAAGATAAAAAGTTATGA-CAA
1 AAATATA-AAAAAGATAAAAA-TTATGAGCAA
15155774 AAATATAAAAAA
1 AAATATAAAAAA
15155786 TGCCTTTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
30 20 0.57
31 12 0.34
32 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (30 bp):
AAATATAAAAAAGATAAAAATTATGAGCAA
Found at i:15158521 original size:11 final size:11
Alignment explanation
Indices: 15158507--15158572 Score: 82
Period size: 11 Copynumber: 5.9 Consensus size: 11
15158497 AAATTTTAAA
15158507 TTATATTATTT
1 TTATATTATTT
15158518 TTATA-T-TTT
1 TTATATTATTT
15158527 TTATATTATTT
1 TTATATTATTT
15158538 TTATATTATTT
1 TTATATTATTT
15158549 TATCATATTATATT
1 T-T-ATATTAT-TT
*
15158563 TTAAATTATT
1 TTATATTATT
15158573 ATATTTAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
9 8 0.16
10 2 0.04
11 21 0.43
12 7 0.14
13 8 0.16
14 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:15158532 original size:20 final size:21
Alignment explanation
Indices: 15158507--15158551 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
15158497 AAATTTTAAA
15158507 TTATATTATTTTTATATT-TT
1 TTATATTATTTTTATATTATT
15158527 TTATATTATTTTTATATTATT
1 TTATATTATTTTTATATTATT
15158548 TTAT
1 TTAT
15158552 CATATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATATTATTTTTATATTATT
Found at i:15158584 original size:13 final size:15
Alignment explanation
Indices: 15158554--15158588 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
15158544 TATTTTATCA
15158554 TATTATATTTTAAAT
1 TATTATATTTTAAAT
15158569 TATTATA-TTT-AAT
1 TATTATATTTTAAAT
15158582 TATTATA
1 TATTATA
15158589 AAATTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 3 0.15
15 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATATTTTAAAT
Found at i:15158595 original size:46 final size:45
Alignment explanation
Indices: 15158472--15158595 Score: 110
Period size: 46 Copynumber: 2.7 Consensus size: 45
15158462 TTTTATTTTA
* * *
15158472 TTAAA-TTCATATATAATTTTTATTAAAATTTTAAATTATATTATTT
1 TTAAATTTTATATTTAATTTTTA-TAAAATTTT-AATCATATTATTT
* * **
15158518 TTATATTTTTTATATT-ATTTTTATATTATTTT-ATCATATTATATT
1 TTAAATTTTATAT-TTAATTTTTATAAAATTTTAATCATATTAT-TT
*
15158563 TTAAATTATTATATTTAATTATTATAAAATTTT
1 TTAAATT-TTATATTTAATTTTTATAAAATTTT
15158596 CATTTTGCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
44 9 0.15
45 10 0.16
46 29 0.48
47 12 0.20
48 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (45 bp):
TTAAATTTTATATTTAATTTTTATAAAATTTTAATCATATTATTT
Found at i:15159814 original size:34 final size:33
Alignment explanation
Indices: 15159765--15159838 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
15159755 TTGATTTAAT
* * *
15159765 TTAA-TTTGATCAATTAATTAATTAATTATTATA
1 TTAATTTTGATCAATTAATAAAATAATT-TTAGA
*
15159798 TTAATTTTGATTAATTAATAAAATAATTTTAGA
1 TTAATTTTGATCAATTAATAAAATAATTTTAGA
*
15159831 ATAATTTT
1 TTAATTTT
15159839 AATTTTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 15 0.43
34 20 0.57
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (33 bp):
TTAATTTTGATCAATTAATAAAATAATTTTAGA
Found at i:15159824 original size:22 final size:23
Alignment explanation
Indices: 15159785--15159836 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15159775 CAATTAATTA
* * *
15159785 ATTAATTATTATATTAATTTT-G
1 ATTAATTAATAAAATAATTTTAG
15159807 ATTAATTAATAAAATAATTTTAG
1 ATTAATTAATAAAATAATTTTAG
*
15159830 AATAATT
1 ATTAATT
15159837 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
ATTAATTAATAAAATAATTTTAG
Found at i:15160424 original size:22 final size:22
Alignment explanation
Indices: 15160392--15160435 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15160382 ATACTTCATT
15160392 TTATTTGAAATTTTGAA-TAAAA
1 TTATTTGAAATTTT-AATTAAAA
*
15160414 TTATTTTAAATTTTAATTAAAA
1 TTATTTGAAATTTTAATTAAAA
15160436 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATTTGAAATTTTAATTAAAA
Found at i:15169123 original size:2 final size:2
Alignment explanation
Indices: 15169116--15169144 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15169106 GGAATATTGA
15169116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15169145 AAGACAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15169335 original size:2 final size:2
Alignment explanation
Indices: 15169322--15169357 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15169312 AGCTCGCTCT
* *
15169322 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15169358 CCATTAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15170207 original size:15 final size:14
Alignment explanation
Indices: 15170157--15170217 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
15170147 GATAAAATAC
15170157 TAAAATTAATGTATT
1 TAAAATT-ATGTATT
* * *
15170172 TATATATTTTTTATGT
1 TA-AAATTATGTAT-T
15170188 TAAAATTAATGTATT
1 TAAAATT-ATGTATT
15170203 TAAAATTATGTATT
1 TAAAATTATGTATT
15170217 T
1 T
15170218 TTATATCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
14 8 0.22
15 18 0.49
16 11 0.30
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (14 bp):
TAAAATTATGTATT
Found at i:15170263 original size:21 final size:22
Alignment explanation
Indices: 15170239--15170284 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
15170229 TAAAAATATA
* *
15170239 AAATATATTTTTAATT-TTATT
1 AAATATATATATAATTATTATT
*
15170260 AAATTTATATATAATTATTATT
1 AAATATATATATAATTATTATT
15170282 AAA
1 AAA
15170285 ATTTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATATATATATAATTATTATT
Found at i:15170311 original size:16 final size:15
Alignment explanation
Indices: 15170285--15170315 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
15170275 TATTATTAAA
15170285 ATTTTAAATTATATT
1 ATTTTAAATTATATT
15170300 ATTTTAATATTATATT
1 ATTTTAA-ATTATATT
15170316 TATATCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTAAATTATATT
Found at i:15194160 original size:29 final size:28
Alignment explanation
Indices: 15194090--15194160 Score: 65
Period size: 29 Copynumber: 2.4 Consensus size: 28
15194080 ATAATTATTT
15194090 AATTATTTAATATTTTATTCTTATTAATTA
1 AATTA-TTAAT-TTTTATTCTTATTAATTA
*
15194120 AGCTT-TTAAATTTTTATT-TTGATTCAATTA
1 A-ATTATT-AATTTTTATTCTT-ATT-AATTA
15194150 AATTATTAATT
1 AATTATTAATT
15194161 GAACAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
28 2 0.06
29 18 0.53
30 12 0.35
31 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (28 bp):
AATTATTAATTTTTATTCTTATTAATTA
Found at i:15199627 original size:20 final size:21
Alignment explanation
Indices: 15199594--15199633 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15199584 AATCCAAAAT
*
15199594 AAAATTTATATTATTAAATAA
1 AAAATTAATATTATTAAATAA
15199615 AAAATTAAT-TTATTAAATA
1 AAAATTAATATTATTAAATA
15199634 TATATAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTAATATTATTAAATAA
Found at i:15200829 original size:19 final size:18
Alignment explanation
Indices: 15200805--15200857 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
15200795 TGACCTTAAA
15200805 TTAATAAAATATTATTTTT
1 TTAATAAAATATTA-TTTT
15200824 TTAATATAAAAATATTATTTT
1 TT-A-AT-AAAATATTATTTT
15200845 TTAATATAAATAT
1 TTAATA-AAATAT
15200858 AAAATTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 10 0.33
20 2 0.07
21 8 0.27
22 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAAAATATTATTTT
Found at i:15200837 original size:22 final size:21
Alignment explanation
Indices: 15200810--15200854 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
15200800 TTAAATTAAT
15200810 AAAATATTATTTTTTTAATATA
1 AAAATATTA-TTTTTTAATATA
15200832 AAAATATTATTTTTTAATATA
1 AAAATATTATTTTTTAATATA
15200853 AA
1 AA
15200855 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATATTATTTTTTAATATA
Found at i:15201103 original size:24 final size:25
Alignment explanation
Indices: 15201076--15201139 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
15201066 CGATAAATAC
15201076 AATAACGTAAAAATAA-TATATAA-T
1 AATAACGTAAAAATAATTA-ATAATT
*
15201100 AATAAACTTATAATAATAATTAATAATT
1 AAT-AACGTA-AA-AATAATTAATAATT
15201128 AATAACGTAAAA
1 AATAACGTAAAA
15201140 GAAATAAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
24 3 0.09
25 6 0.18
26 4 0.12
27 14 0.42
28 6 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (25 bp):
AATAACGTAAAAATAATTAATAATT
Found at i:15214467 original size:16 final size:16
Alignment explanation
Indices: 15214446--15214489 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 16
15214436 TAAATTTTTT
15214446 ATTTAAAACTAATAAA
1 ATTTAAAACTAATAAA
15214462 ATTT-AAACT-A-AAA
1 ATTTAAAACTAATAAA
*
15214475 ATTTAATACTAATAA
1 ATTTAAAACTAATAA
15214490 CAAATCCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 6 0.25
16 6 0.25
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTAAAACTAATAAA
Found at i:15215308 original size:14 final size:15
Alignment explanation
Indices: 15215292--15215350 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
15215282 TGTTATGTAT
15215292 AATAAATAAATTAT-
1 AATAAATAAATTATA
15215306 AATCAAATAAATT-TA
1 AAT-AAATAAATTATA
* *
15215321 AACAAATAAATCATA
1 AATAAATAAATTATA
15215336 AATAATCATAAATTA
1 AATAA--ATAAATTA
15215351 ATTCAAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 12 0.33
15 17 0.47
17 7 0.19
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAATAAATTATA
Done.