Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 134 of 190
Found at i:21583956 original size:22 final size:22
Alignment explanation
Indices: 21583926--21583980 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
21583916 CTTTAATATT
* *
21583926 AATA-ATATTTGAATTTATTTA
1 AATATATATTTAAATTTATTAA
* *
21583947 AATATTTATTTAAATTTGTTAA
1 AATATATATTTAAATTTATTAA
21583969 AATATATATTTA
1 AATATATATTTA
21583981 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AATATATATTTAAATTTATTAA
Found at i:21585620 original size:19 final size:20
Alignment explanation
Indices: 21585572--21585620 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21585562 AACATGTTAG
*
21585572 AAAATATTTTTTTCTATCCA
1 AAAATATTATTTTCTATCCA
*
21585592 AAAA-ATTTATTTTCTAT-TA
1 AAAATA-TTATTTTCTATCCA
21585611 AAAATATTAT
1 AAAATATTAT
21585621 ATATCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATATTATTTTCTATCCA
Found at i:21585698 original size:21 final size:21
Alignment explanation
Indices: 21585664--21585704 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21585654 TTATAAAGAA
*
21585664 AAAAATGAAAAAAGTAAAAAT
1 AAAAATGAAAAAAGGAAAAAT
**
21585685 AAAAATGATGAAAGGAAAAA
1 AAAAATGAAAAAAGGAAAAA
21585705 GACCTTTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAAAGGAAAAAT
Found at i:21585826 original size:17 final size:17
Alignment explanation
Indices: 21585804--21585837 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21585794 TCCTTTGAAT
21585804 ATAAAATATAATTAAAA
1 ATAAAATATAATTAAAA
*
21585821 ATAAAATATAGTTAAAA
1 ATAAAATATAATTAAAA
21585838 TTTTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAAAATATAATTAAAA
Found at i:21585887 original size:22 final size:22
Alignment explanation
Indices: 21585873--21585917 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21585863 AATTTTTTAT
21585873 ATAAGTTTAAAAAATTAAATAA
1 ATAAGTTTAAAAAATTAAATAA
21585895 ATAAGTTTAAAAAATTAAATAA
1 ATAAGTTTAAAAAATTAAATAA
21585917 A
1 A
21585918 AAACTCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAAGTTTAAAAAATTAAATAA
Found at i:21585942 original size:30 final size:30
Alignment explanation
Indices: 21585908--21585966 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
21585898 AGTTTAAAAA
21585908 ATTAAATAAAAAAC-TCCATATCATTTTAAT
1 ATTAAAT-AAAAACTTCCATATCATTTTAAT
* **
21585938 ATTAACTAAAAACTTTTATATCATTTTAA
1 ATTAAATAAAAACTTCCATATCATTTTAA
21585967 AAAATAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTAAATAAAAACTTCCATATCATTTTAAT
Found at i:21595169 original size:3 final size:3
Alignment explanation
Indices: 21595161--21595210 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
21595151 CCCAAAATTT
21595161 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21595209 AT
1 AT
21595211 TCCCATCCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21597933 original size:41 final size:42
Alignment explanation
Indices: 21597855--21597978 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
21597845 TTTTTTATTA
*
21597855 CAATGATGACATTTTTCATGAACAAAACATTGTAATTGCTAC
1 CAATGATGACGTTTTTCATGAACAAAACATTGTAATTGCTAC
** *
21597897 CAATGATGACGTTTTTCATG-ACAAAATGTTGTAATTGCTAT
1 CAATGATGACGTTTTTCATGAACAAAACATTGTAATTGCTAC
* * * *
21597938 CAACT-ACGATGTTTTTCATGAACAAAACATCGTAGTTGCTA
1 CAA-TGATGACGTTTTTCATGAACAAAACATTGTAATTGCTA
21597979 TAGTACAATT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 34 0.49
42 36 0.51
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (42 bp):
CAATGATGACGTTTTTCATGAACAAAACATTGTAATTGCTAC
Found at i:21601565 original size:14 final size:14
Alignment explanation
Indices: 21601546--21601573 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21601536 CCACTTTAAA
21601546 CAATTGAATAAGGG
1 CAATTGAATAAGGG
21601560 CAATTGAATAAGGG
1 CAATTGAATAAGGG
21601574 TAAGAAAAAG
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:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (14 bp):
CAATTGAATAAGGG
Found at i:21605731 original size:22 final size:22
Alignment explanation
Indices: 21605701--21605784 Score: 136
Period size: 22 Copynumber: 3.9 Consensus size: 22
21605691 AGTTGTTTGG
21605701 TTTC-ATTTTCTTAGCATTTCC
1 TTTCAATTTTCTTAGCATTTCC
*
21605722 TTTCAATTTTCTTAGCGTTTCC
1 TTTCAATTTTCTTAGCATTTCC
*
21605744 TTTCAATTTTCTTAGCGTTTCC
1 TTTCAATTTTCTTAGCATTTCC
21605766 TTTCAATTTTC-TAGCATTT
1 TTTCAATTTTCTTAGCATTT
21605785 ATTGTTCTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 11 0.18
22 49 0.82
ACGTcount: A:0.15, C:0.21, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTCAATTTTCTTAGCATTTCC
Found at i:21607416 original size:18 final size:18
Alignment explanation
Indices: 21607393--21607427 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21607383 CCTGATCCAC
21607393 CACAATA-TCATCATTCAT
1 CACAATACT-ATCATTCAT
21607411 CACAATACTATCATTCA
1 CACAATACTATCATTCA
21607428 CCATAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (18 bp):
CACAATACTATCATTCAT
Found at i:21608796 original size:20 final size:19
Alignment explanation
Indices: 21608751--21608800 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
21608741 GGGTATTGAG
*
21608751 AAATTTTATGCCAAAATTTTC
1 AAATTTT-T-CCAAAATTTTA
*
21608772 CAATTTTTCCAAAATTTTTA
1 AAATTTTTCCAAAA-TTTTA
21608792 AAATTTTTC
1 AAATTTTTC
21608801 ATGGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (19 bp):
AAATTTTTCCAAAATTTTA
Found at i:21614606 original size:12 final size:12
Alignment explanation
Indices: 21614589--21614617 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21614579 AAAGGAGAAG
21614589 AAATCAAAAGTT
1 AAATCAAAAGTT
21614601 AAATC-AAAGTT
1 AAATCAAAAGTT
21614612 AAATCA
1 AAATCA
21614618 TTATTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (12 bp):
AAATCAAAAGTT
Found at i:21615088 original size:15 final size:16
Alignment explanation
Indices: 21615062--21615091 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21615052 ATTGGATCTT
21615062 TATAATATTATTGTTA
1 TATAATATTATTGTTA
21615078 TATAA-ATTATTGTT
1 TATAATATTATTGTT
21615092 TTTATGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
TATAATATTATTGTTA
Found at i:21619518 original size:46 final size:45
Alignment explanation
Indices: 21619379--21619526 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 45
21619369 AAGCATCGAG
* ** *
21619379 TATAAGTAATGAAATATAACCAAGACATAAGTGATAAAACAAGGC
1 TATAAGTAATGAAATATAGCCAAGACATAAGCAATAAAATAAGGC
* * * * *
21619424 TATAAGTAATGAAATATAGTC-A-A-A-AA-CTATAAAGCTACGAC
1 TATAAGTAATGAAATATAGCCAAGACATAAGCAATAAA-ATAAGGC
* **
21619465 TACAAGTAATGAAATATAGCCAAGACATAAGCAATAAAATTGTGGC
1 TATAAGTAATGAAATATAGCCAAGACATAAGCAATAAAA-TAAGGC
21619511 TATAAGTAATGAAATA
1 TATAAGTAATGAAATA
21619527 CAACCAAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
40 5 0.06
41 24 0.30
42 2 0.03
43 2 0.03
44 2 0.03
45 21 0.26
46 24 0.30
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (45 bp):
TATAAGTAATGAAATATAGCCAAGACATAAGCAATAAAATAAGGC
Found at i:21625783 original size:5 final size:5
Alignment explanation
Indices: 21625774--21625806 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
21625764 TCCAATTCCT
21625774 TAAAA -AAAA -AAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
21625807 AAACCTGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
TAAAA
Found at i:21626740 original size:18 final size:18
Alignment explanation
Indices: 21626717--21626752 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21626707 CGAAATAAGT
21626717 AATTTTTAAATTTAATTA
1 AATTTTTAAATTTAATTA
*
21626735 AATTTTTATATTTAATTA
1 AATTTTTAAATTTAATTA
21626753 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTTAAATTTAATTA
Found at i:21631317 original size:9 final size:9
Alignment explanation
Indices: 21631303--21631336 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
21631293 AATTTTTGCT
21631303 TAAAATATA
1 TAAAATATA
21631312 TAAAATATA
1 TAAAATATA
21631321 TTAATAATATA
1 -TAA-AATATA
21631332 TAAAA
1 TAAAA
21631337 AAGATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.48
10 6 0.26
11 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATA
Found at i:21631635 original size:255 final size:249
Alignment explanation
Indices: 21630954--21631642 Score: 997
Period size: 255 Copynumber: 2.7 Consensus size: 249
21630944 CAAAATTCAC
* *
21630954 AATTATAATAACAAAAAATGTTATAATAAAAGCATGTAACATATAATAAGCAAATACTCACATAA
1 AATTATAATAAGAACAAATGTTAT-A-AAAA-CATGTAACATATAATAAGCAAATACTCACATAA
21631019 AATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATAT-TTAATAATATATATAAAA
63 AATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTAAT-A-ATATAT--AA
* *
21631083 AAAAGATTTTTAGGTGCAATATATAAAAACAAAATTTAAAATTATAATAAGAAAAAAATGTTATA
124 AAAAGATTTTTAGGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAAATATTATA
*
21631148 ATAAGAACATGTAACATATAATAAAAAAAATTGGTTGAAAAAAATGTTATTTATAATTGTG
189 ATAAGAACATGTAACATATAATAAAAAAAATTGGCTGAAAAAAATGTTATTTATAATTGTG
21631209 AATTATAATAAGAACAAATGTTATAATTACAACATGTAACATATAATAAGCAAATACTCACATAA
1 AATTATAATAAGAACAAATGTTATAA--A-AACATGTAACATATAATAAGCAAATACTCACATAA
*
21631274 AATAATTATTTATAATAATAATTTTTGCTTAAAATATATAAAATATATTAATAATATATAAAAAA
63 AATAATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTAATAATATATAAAAAA
* * *
21631339 GATTTTTAGGTGAAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAACTATTATAATAG
128 GATTTTTAGGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAAATATTATAATAA
21631404 GAACATGTAACATATAATAAGAAAAAATATTTGGCTGAAAAAAATGTTATTTATAATTGTG
193 GAACATGTAACATATAAT-A-AAAAAA-A-TTGGCTGAAAAAAATGTTATTTATAATTGTG
* ** * * * * *
21631465 AATTTTTTTTA-TA-TATTGCATCTATAAAAACATGTAACATATAATAAGCAAATGCTCACATAA
1 AATTATAATAAGAACAAATG--T-TATAAAAACATGTAACATATAATAAGCAAATACTCACATAA
* *
21631528 AATAATTATTTATAATAATAATTTTTTTCTTAAAATATATAAATTATATTAATAGTATATAAAAA
63 AATAATTATTTATAATAATAA-TTTTTTCTTAAAATATATAAAATATATTAATAATATATAAAAA
* * *
21631593 AGATTTTTAAGTGCAATATACAAAAATAAAATTCAAAATTATAATAAGAA
127 AGATTTTTAGGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAA
21631643 CATGTAACAT
Statistics
Matches: 398, Mismatches: 24, Indels: 24
0.89 0.05 0.05
Matches are distributed among these distances:
252 84 0.21
253 2 0.01
254 71 0.18
255 191 0.48
256 45 0.11
257 5 0.01
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.35
Consensus pattern (249 bp):
AATTATAATAAGAACAAATGTTATAAAAACATGTAACATATAATAAGCAAATACTCACATAAAAT
AATTATTTATAATAATAATTTTTTCTTAAAATATATAAAATATATTAATAATATATAAAAAAGAT
TTTTAGGTGCAATATATAAAAACAAAATTCAAAATTATAATAAGAAAAAAATATTATAATAAGAA
CATGTAACATATAATAAAAAAAATTGGCTGAAAAAAATGTTATTTATAATTGTG
Found at i:21631760 original size:9 final size:9
Alignment explanation
Indices: 21631733--21631766 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
21631723 TAAAAATCTT
21631733 TTTTATATA
1 TTTTATATA
21631742 TTATTAATATA
1 TT-TT-ATATA
21631753 TTTTATATA
1 TTTTATATA
21631762 TTTTA
1 TTTTA
21631767 AGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:21636682 original size:25 final size:26
Alignment explanation
Indices: 21636649--21636697 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
21636639 CTCTTTTAGG
*
21636649 TAGCTTTA-TCTCTTTCTCCCTTTCGA
1 TAGCTTTATTC-CCTTCTCCCTTTCGA
21636675 TAGC-TTATTCCCTTCTCCCTTTC
1 TAGCTTTATTCCCTTCTCCCTTTC
21636698 AACAATTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.10, C:0.35, G:0.06, T:0.49
Consensus pattern (26 bp):
TAGCTTTATTCCCTTCTCCCTTTCGA
Found at i:21637476 original size:136 final size:136
Alignment explanation
Indices: 21637224--21637488 Score: 343
Period size: 136 Copynumber: 1.9 Consensus size: 136
21637214 TGAAAAGGTC
* * * * * *
21637224 AAATTATGAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTCTCAAGGTACTGCTGTGA
1 AAATTATAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTCTCAAGGTACTACTGTGA
* *
21637289 TTTTAAATGCATCAAAAAGCAAGAAATATTATGAAATTAAGATCTAGAAAGTTTCATCAAAATTT
66 TTTCAAATGCATCAAAAAGCAAGAAATATTATGAAATTAAGATATAGAAAGTTTCATCAAAATTT
21637354 AAGGCT
131 AAGGCT
* * * * * *
21637360 AAATTATAAAAATACCTTTATAAGGATATTTTAGTAATTTCATAATTTTTACGGTACTATTGTGA
1 AAATTATAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTCTCAAGGTACTACTGTGA
* * * * *
21637425 TTTCAAATGCATTAAAAATCATGAAATATTATGAAATTCAGATAT-GAAAAGTTTCATGAAAATT
66 TTTCAAATGCATCAAAAAGCAAGAAATATTATGAAATTAAGATATAG-AAAGTTTCATCAAAATT
21637489 CCAACTCAGG
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
135 1 0.01
136 108 0.99
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (136 bp):
AAATTATAAAAATACCCTTATAAGGATATTTTAGTAATTTCACAATTCTCAAGGTACTACTGTGA
TTTCAAATGCATCAAAAAGCAAGAAATATTATGAAATTAAGATATAGAAAGTTTCATCAAAATTT
AAGGCT
Found at i:21638255 original size:74 final size:74
Alignment explanation
Indices: 21638119--21638270 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 74
21638109 AAAGGCTATG
* * * **
21638119 AAAATGGCTCCCCCTCAACAAAGGCTTTGAAACTTCAAAGATGGCTCTCCTTAAACTGAGGCTTT
1 AAAATAGCTCCCCCTAAACAAAGGCTTTGAAACTTCAAAGATGGCTCTACTTAAACAAAGGCTTT
21638184 GAAACTTTT
66 GAAACTTTT
* * * *
21638193 AAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAA-ATGGCTCCTAC-TATACAAAGGCT
1 AAAATAGCTCCCCCTAAACAAAGGCTTTGAAAC-TTCAAAGATGGCT-CTACTTAAACAAAGGCT
21638256 TTGAAACTTTT
64 TTGAAACTTTT
21638267 AAAA
1 AAAA
21638271 ATAAAATCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 59 0.88
75 8 0.12
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (74 bp):
AAAATAGCTCCCCCTAAACAAAGGCTTTGAAACTTCAAAGATGGCTCTACTTAAACAAAGGCTTT
GAAACTTTT
Found at i:21638265 original size:37 final size:37
Alignment explanation
Indices: 21638117--21638270 Score: 166
Period size: 37 Copynumber: 4.2 Consensus size: 37
21638107 ACAAAGGCTA
*
21638117 TGAAAATGGCTCCCCCTCAACAAAGGCTTTGAAAC-T
1 TGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
* * * **
21638153 TCAAAGATGGCTCTCCTTAAACTGAGGCTTTGAAACTT
1 TGAAA-ATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
* * * *
21638191 TTAAAATAGCTCCCCCTAAATAGAGGCTTTGAAACTT
1 TGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
** *
21638228 TGAAAATGGCTCCTACTATACAAAGGCTTTGAAACTT
1 TGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
*
21638265 TTAAAA
1 TGAAAA
21638271 ATAAAATCTT
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
36 4 0.04
37 87 0.91
38 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (37 bp):
TGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
Found at i:21639462 original size:33 final size:33
Alignment explanation
Indices: 21639395--21639603 Score: 158
Period size: 33 Copynumber: 6.3 Consensus size: 33
21639385 AGTTAAGTTG
* * *
21639395 GGCTTAAAAATTCATTGAGG-ACCAGATAAACTA
1 GGCTTAAAATTTCATT-AGGTGCTAGATAAACTA
* *
21639428 GGCTTAAAATTTCATTAGGTGCTAGCTAAGCTA
1 GGCTTAAAATTTCATTAGGTGCTAGATAAACTA
* ** *
21639461 GGCTTAAACTTTCA-CCGGTGCTAGGTAAACTA
1 GGCTTAAAATTTCATTAGGTGCTAGATAAACTA
*
21639493 GGCTTAAAATTTTCATCAAGG-G-TCAGATAAACT-
1 GGCTTAAAA-TTTCAT-TAGGTGCT-AGATAAACTA
* * * * * *
21639526 GGACTTAAATTTTCATTGGGAGCCAGTTAAGCTA
1 GG-CTTAAAATTTCATTAGGTGCTAGATAAACTA
* *
21639560 GGCTTTAAAATCTTCATTAGGTGCTTGGTAAACTA
1 GGC-TTAAAAT-TTCATTAGGTGCTAGATAAACTA
21639595 GGCTTAAAA
1 GGCTTAAAA
21639604 ATCTTTCTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
32 27 0.20
33 60 0.43
34 29 0.21
35 22 0.16
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (33 bp):
GGCTTAAAATTTCATTAGGTGCTAGATAAACTA
Found at i:21639468 original size:66 final size:65
Alignment explanation
Indices: 21639395--21639605 Score: 178
Period size: 66 Copynumber: 3.2 Consensus size: 65
21639385 AGTTAAGTTG
* *
21639395 GGCTTAAAAATTCATTGAGGACCAGATAAACTAGGCTTAAAATTTCATTAGGTGCTAGCTAAGCT
1 GGCTTAAAAATTCATTG-GGACCAGATAAACTAGGCTTAAAATTTCATTAGGTGCTAGATAAACT
21639460 A
65 A
** ** * * *
21639461 GGCTTAAACTTTCACCGGTG-CTAGGTAAACTAGGCTTAAAATTTTCATCAAGG-G-TCAGATAA
1 GGCTTAAAAATTCATTGG-GACCAGATAAACTAGGCTTAAAA-TTTCAT-TAGGTGCT-AGATAA
21639523 ACT-
62 ACTA
** * * * *
21639526 GGACTTAAATTTTCATTGGGAGCCAGTTAAGCTAGGCTTTAAAATCTTCATTAGGTGCTTGGTAA
1 GG-CTTAAAAATTCATTGGGA-CCAGATAAACTAGGC-TTAAAAT-TTCATTAGGTGCTAGATAA
21639591 ACTA
62 ACTA
21639595 GGCTTAAAAAT
1 GGCTTAAAAAT
21639606 CTTTCTTTAG
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
65 24 0.21
66 41 0.36
67 19 0.17
68 26 0.23
69 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (65 bp):
GGCTTAAAAATTCATTGGGACCAGATAAACTAGGCTTAAAATTTCATTAGGTGCTAGATAAACTA
Found at i:21639521 original size:99 final size:102
Alignment explanation
Indices: 21639417--21639603 Score: 256
Period size: 99 Copynumber: 1.9 Consensus size: 102
21639407 CATTGAGGAC
* * * *
21639417 CAGATAAACTAGG-CTTAAAATTTCATTAGGTGCTAGCTAAGCTAGGC-TTAAACT-TTCA-CCG
1 CAGATAAACT-GGACTTAAAATTTCATTAGGAGCCAGCTAAGCTAGGCTTTAAAATCTTCATCAG
21639478 GTGCTAGGTAAACTAGGCTTAAAATTTTCATCAAGGGT
65 GTGCTAGGTAAACTAGGCTTAAAATTTTCATCAAGGGT
* * * *
21639516 CAGATAAACTGGACTTAAATTTTCATTGGGAGCCAGTTAAGCTAGGCTTTAAAATCTTCATTAGG
1 CAGATAAACTGGACTTAAAATTTCATTAGGAGCCAGCTAAGCTAGGCTTTAAAATCTTCATCAGG
*
21639581 TGCTTGGTAAACTAGGCTTAAAA
66 TGCTAGGTAAACTAGGCTTAAAA
21639604 ATCTTTCTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.03
99 39 0.52
100 6 0.08
101 4 0.05
102 24 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (102 bp):
CAGATAAACTGGACTTAAAATTTCATTAGGAGCCAGCTAAGCTAGGCTTTAAAATCTTCATCAGG
TGCTAGGTAAACTAGGCTTAAAATTTTCATCAAGGGT
Found at i:21639690 original size:179 final size:178
Alignment explanation
Indices: 21639485--21639819 Score: 442
Period size: 179 Copynumber: 1.9 Consensus size: 178
21639475 CCGGTGCTAG
* * *
21639485 GTAAACTAGGCTTAAAATTTTCATC-AAGGGTCAGATAAACTG-GACTTAAATTTTCATTGGGAG
1 GTAAACTAGGCTTAAAATTTTCATCAAAGGCT-AAATAAACTGTG-CTTAAATTTTCACTGGGAG
** ** *** *
21639548 CCAGTTAAGCTAGGCTTTAAAATCTTCATTAGGTGCTTGGTAAACTAGGCTTAAAAATCTTTCTT
64 CCAACTAAGCTAGGCTTTAAAATCTTCATTAGACGCCAAGTAAACTAAGCTT-AAAATCTTTCTT
* * *
21639613 TAGTGTAAGATAAATTGGGCTTGAAATTTCATTGGGTTTCATTAGTGCCAA
128 TAGTGTAAGATAAACTAGGCTTAAAATTTCATTGGGTTTCATTAGTGCCAA
*
21639664 GTAAACT-GAGCTTAAAATTTTCATCAAAGGCTAAATAAATTGTGCTTAAATTTTCACTGGGAGC
1 GTAAACTAG-GCTTAAAATTTTCATCAAAGGCTAAATAAACTGTGCTTAAATTTTCACTGGGAGC
* * *
21639728 TAACTAAGCTGGGCTTTAAAATCTTCATTAGACGCCAAGTAAACTAAGCTTAAAATCTTTCTTTG
65 CAACTAAGCTAGGCTTTAAAATCTTCATTAGACGCCAAGTAAACTAAGCTTAAAATCTTTCTTTA
*
21639793 GTGTTAGATAAACTAGGCTTAAAATTT
130 GTGTAAGATAAACTAGGCTTAAAATTT
21639820 TTATTAGTAC
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
178 37 0.28
179 91 0.68
180 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (178 bp):
GTAAACTAGGCTTAAAATTTTCATCAAAGGCTAAATAAACTGTGCTTAAATTTTCACTGGGAGCC
AACTAAGCTAGGCTTTAAAATCTTCATTAGACGCCAAGTAAACTAAGCTTAAAATCTTTCTTTAG
TGTAAGATAAACTAGGCTTAAAATTTCATTGGGTTTCATTAGTGCCAA
Found at i:21640295 original size:22 final size:22
Alignment explanation
Indices: 21640270--21640311 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21640260 ATGCTTTTTT
21640270 AACTAATCCGGGCTTATGTGCC
1 AACTAATCCGGGCTTATGTGCC
**
21640292 AACTAATTTGGGCTTATGTG
1 AACTAATCCGGGCTTATGTG
21640312 TCAGTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (22 bp):
AACTAATCCGGGCTTATGTGCC
Found at i:21640350 original size:22 final size:22
Alignment explanation
Indices: 21640280--21640351 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
21640270 AACTAATCCG
* * * *
21640280 GGCTTATGTGCCAACTAATTTG
1 GGCTTATGTGCTAGCTAATCTA
* *
21640302 GGCTTATGTG-TCAGTTAAATCGA
1 GGCTTATGTGCT-AGCT-AATCTA
21640325 -GCTTATGTGCTAGCTAATCTA
1 GGCTTATGTGCTAGCTAATCTA
21640346 GGCTTA
1 GGCTTA
21640352 AGACTTCATT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
21 5 0.13
22 29 0.76
23 4 0.11
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (22 bp):
GGCTTATGTGCTAGCTAATCTA
Found at i:21645882 original size:30 final size:30
Alignment explanation
Indices: 21645843--21645912 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
21645833 TGTGCATAAA
*
21645843 ATAGGATGCATGTACTATCCATTGATGTGG
1 ATAGGATGCATGTACTATCCATTGATATGG
* *
21645873 ATGGGATGCATGTACTATTCATTGATATGG
1 ATAGGATGCATGTACTATCCATTGATATGG
21645903 ATAGGATGCA
1 ATAGGATGCA
21645913 ATGCATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (30 bp):
ATAGGATGCATGTACTATCCATTGATATGG
Found at i:21650451 original size:145 final size:145
Alignment explanation
Indices: 21650183--21650523 Score: 400
Period size: 145 Copynumber: 2.3 Consensus size: 145
21650173 TTAAAACACC
* * * * * * **
21650183 AAAAATCATGAAATATTATAAGATTGAGATTTGAAAAGTTTCATAAAAATTCGAACTCGGTAAGA
1 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAAAAGA
* * * *
21650248 TCAAATTATAAAAATACCCTTTATGGGATATTTTGGTAATTCTACACTTTTCAAGGTACTGCTAT
66 TCAAATTACAAAAATACCCTTTATGGGACATTTTGATAATTCTACACTTTTCAAGGTACTACTAT
21650313 GATTTAAAATCCATA
131 GATTTAAAATCCATA
*
21650328 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCGAAAATG
1 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAAAA-G
* * * ***
21650393 A-CAAATTACAAAAATA-TCTTTATAGGGGCATTTTGATAATT-TCATACTTTTTGGGGTACTAC
65 ATCAAATTACAAAAATACCCTTTAT-GGGACATTTTGATAATTCT-ACACTTTTCAAGGTACTAC
* * * *
21650455 TGTGATTTCAAATGCATC
128 TATGATTTAAAATCCATA
* *
21650473 AAAAATCATGAAATATTTATGAAATTAAGATCTGAAAAGTTTTATGAAAAT
1 AAAAATCATGAAATA-TTATAAAATTAAGATCTGAAAAGTTTCATGAAAAT
21650524 TTGAGCTCAA
Statistics
Matches: 166, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
144 7 0.04
145 125 0.75
146 34 0.20
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAAAAGA
TCAAATTACAAAAATACCCTTTATGGGACATTTTGATAATTCTACACTTTTCAAGGTACTACTAT
GATTTAAAATCCATA
Found at i:21650587 original size:145 final size:145
Alignment explanation
Indices: 21650183--21650579 Score: 354
Period size: 145 Copynumber: 2.7 Consensus size: 145
21650173 TTAAAACACC
* * * * * * * ***
21650183 AAAAATCATGAAATATTATAAGATTGAGATTTGAAAAGTTTCATAAAAATTCGAACTCGGTAA-G
1 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCAAAAAGG
* * * * * * * *** *
21650247 ATCAAATTATAAAAATACC-CTTTATGGGATATTTTGGTAA-TTCTACACTTTTCAAGGTACTGC
66 A-CAAATTACAAAAATACCTCTATAAGAG-CATTTTGATAATTTC-ATACTTTTTGGGGTACTAC
21650310 TATGATTTAAAATCCATA
128 TATGATTTAAAATCCATA
* *
21650328 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCGAAAATG
1 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCAAAAAGG
* * * * *
21650393 ACAAATTACAAAAATATCTTTATAGGGGCATTTTGATAATTTCATACTTTTTGGGGTACTACTGT
66 ACAAATTACAAAAATACCTCTATAAGAGCATTTTGATAATTTCATACTTTTTGGGGTACTACTAT
* * *
21650458 GATTTCAAATGCATC
131 GATTTAAAATCCATA
* * * *** *
21650473 AAAAATCATGAAATATTTATGAAATTAAGATCTGAAAAGTTTTATGAAAATTTGAGCTCAAAAAG
1 AAAAATCATGAAATA-TTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCAAAAAG
* *
21650538 GCCAAATTACGAAAATACCTCTA-AAGAGCATTTT-AGTAATTT
65 GACAAATTACAAAAATACCTCTATAAGAGCATTTTGA-TAATTT
21650580 TGTACTTTCC
Statistics
Matches: 207, Mismatches: 40, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
144 1 0.00
145 136 0.66
146 70 0.34
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAACTCAAAAAGG
ACAAATTACAAAAATACCTCTATAAGAGCATTTTGATAATTTCATACTTTTTGGGGTACTACTAT
GATTTAAAATCCATA
Found at i:21651699 original size:128 final size:130
Alignment explanation
Indices: 21651514--21651750 Score: 352
Period size: 128 Copynumber: 1.8 Consensus size: 130
21651504 GCAATTTTGA
*
21651514 TACCAATTATTAGTTATTTTGTTCACAACTTTCAAGGATAACAATATATTTCAAGCATCTAAAAA
1 TACCAATTATTAGTTATTTTGTTCACAA---T-AAGGATAACAATATATTTCAAGCATATAAAAA
*
21651579 GTACAATCAATACATGCATAATAGCATTCTTTCATAAGCATATCTTTTAGCAATTTTGATATCAA
62 GTACAAACAATACATGCATAATAGCATTCTTTCATAAGCATATCTTTTAGCAATTTTGATATCAA
21651644 TTGT
127 TTGT
* * * * *
21651648 TACCAATTGTTAGTTATTTTGTTCAC-A-AAGGATCATAATATATTTCAAGCATATGAAAAGTTC
1 TACCAATTATTAGTTATTTTGTTCACAATAAGGATAACAATATATTTCAAGCATATAAAAAGTAC
*
21651711 AAACAATACATGCATAATAGCATTCTTTCATCAGCATATC
66 AAACAATACATGCATAATAGCATTCTTTCATAAGCATATC
21651751 CTATCCAAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
128 69 0.73
133 1 0.01
134 25 0.26
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (130 bp):
TACCAATTATTAGTTATTTTGTTCACAATAAGGATAACAATATATTTCAAGCATATAAAAAGTAC
AAACAATACATGCATAATAGCATTCTTTCATAAGCATATCTTTTAGCAATTTTGATATCAATTGT
Found at i:21659242 original size:11 final size:12
Alignment explanation
Indices: 21659221--21659260 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
21659211 TTATTTATAT
21659221 TTTAATTTTTTAG
1 TTTAA-TTTTTAG
*
21659234 TTTAATTTTTGG
1 TTTAATTTTTAG
21659246 TTTAATTTTT-G
1 TTTAATTTTTAG
21659257 TTTA
1 TTTA
21659261 TTTAGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:21659881 original size:20 final size:19
Alignment explanation
Indices: 21659853--21659935 Score: 88
Period size: 20 Copynumber: 4.6 Consensus size: 19
21659843 TTTTGCATGA
*
21659853 ATTTTCATGACTAATATTAT
1 ATTTGCATGA-TAATATTAT
21659873 ATTTGCATGATTAATATTAT
1 ATTTGCATGA-TAATATTAT
21659893 ATTTGCATGAT-A-ATT-T
1 ATTTGCATGATAATATTAT
*
21659909 ATTTGC-T--TAATATTTT
1 ATTTGCATGATAATATTAT
21659925 ATTTGCATGAT
1 ATTTGCATGAT
21659936 TAGTATATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 4 0.07
16 14 0.25
17 4 0.07
18 1 0.02
19 2 0.04
20 28 0.51
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (19 bp):
ATTTGCATGATAATATTAT
Found at i:21659913 original size:16 final size:16
Alignment explanation
Indices: 21659872--21659935 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
21659862 ACTAATATTA
21659872 TATTTGCATGATTAATATT
1 TATTTGCATGA-T-A-ATT
21659891 ATATTTGCATGATAATT
1 -TATTTGCATGATAATT
* * *
21659908 TATTTGCTTAATATTT
1 TATTTGCATGATAATT
21659924 TATTTGCATGAT
1 TATTTGCATGAT
21659936 TAGTATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 23 0.59
17 3 0.08
18 1 0.03
19 1 0.03
20 11 0.28
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (16 bp):
TATTTGCATGATAATT
Found at i:21659998 original size:20 final size:20
Alignment explanation
Indices: 21659955--21660012 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
21659945 TGTGTGATTT
* **
21659955 ATTAATATATTTGCATTACT
1 ATTAATATATTTGCATGAAA
*
21659975 ATTAATATGTTTGCATGAAA
1 ATTAATATATTTGCATGAAA
* *
21659995 ATTAATTTATTTCCATGA
1 ATTAATATATTTGCATGA
21660013 TTGGCAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTAATATATTTGCATGAAA
Found at i:21660129 original size:41 final size:43
Alignment explanation
Indices: 21660067--21660157 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 43
21660057 ATTTAATTGC
* * *
21660067 ATATTTATTTGTATGA-CT-TATATTGCTATTTGCATGATTAT
1 ATATTTATTTGCATGATCTATATATTGCTATTTGAATGAATAT
* * **
21660108 ATATTTATTTGCATGGTTTATATATTTTTATTTGAATGAATAT
1 ATATTTATTTGCATGATCTATATATTGCTATTTGAATGAATAT
21660151 ATATTTA
1 ATATTTA
21660158 ATTACATGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 14 0.34
42 1 0.02
43 26 0.63
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (43 bp):
ATATTTATTTGCATGATCTATATATTGCTATTTGAATGAATAT
Found at i:21660137 original size:23 final size:20
Alignment explanation
Indices: 21660067--21660157 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 20
21660057 ATTTAATTGC
*
21660067 ATATTTATTTGTATGACTTAT
1 ATATTTATTTGCATGA-TTAT
*
21660088 AT-TGCTATTTGCATGATTAT
1 ATAT-TTATTTGCATGATTAT
*
21660108 ATATTTATTTGCATGGTTTAT
1 ATATTTATTTGCAT-GATTAT
* *
21660129 ATATTTTTATTTGAATGAATAT
1 ATA--TTTATTTGCATGATTAT
21660151 ATATTTA
1 ATATTTA
21660158 ATTACATGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
20 20 0.34
21 21 0.36
22 7 0.12
23 10 0.17
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (20 bp):
ATATTTATTTGCATGATTAT
Found at i:21660487 original size:20 final size:20
Alignment explanation
Indices: 21660464--21660506 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21660454 GATTATATAT
*
21660464 TTGCACAGTATTTTATATTA
1 TTGCACAGCATTTTATATTA
***
21660484 TTGCTTGGCATTTTATATTA
1 TTGCACAGCATTTTATATTA
21660504 TTG
1 TTG
21660507 GATGATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (20 bp):
TTGCACAGCATTTTATATTA
Found at i:21660550 original size:38 final size:37
Alignment explanation
Indices: 21660508--21660580 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
21660498 ATATTATTGG
21660508 ATGATAATTAATATATTTGCATAAT-ATT-ATATATTTAA
1 ATGATAATT-AT-TA-TTGCATAATAATTAATATATTTAA
**
21660546 ATGATTGTTATTATTGCATAATAATTAATATATTT
1 ATGATAATTATTATTGCATAATAATTAATATATTT
21660581 GCATGACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 9 0.29
36 5 0.16
37 10 0.32
38 7 0.23
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (37 bp):
ATGATAATTATTATTGCATAATAATTAATATATTTAA
Found at i:21660584 original size:20 final size:20
Alignment explanation
Indices: 21660511--21660584 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
21660501 TTATTGGATG
21660511 ATAATTAATATATTTGCATA
1 ATAATTAATATATTTGCATA
21660531 AT-ATT-ATATATTT--A-A
1 ATAATTAATATATTTGCATA
* **
21660546 ATGATTGTTAT-TATTGCATA
1 ATAATTAATATAT-TTGCATA
21660566 ATAATTAATATATTTGCAT
1 ATAATTAATATATTTGCAT
21660585 GACATTCTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
15 3 0.07
16 5 0.12
17 5 0.12
18 8 0.19
19 4 0.09
20 17 0.40
21 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (20 bp):
ATAATTAATATATTTGCATA
Found at i:21660807 original size:39 final size:39
Alignment explanation
Indices: 21660758--21660837 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
21660748 TTGTAAATAA
21660758 ATAAAAAATTTAGAATTGATTTATTTGCATAATAAAACT
1 ATAAAAAATTTAGAATTGATTTATTTGCATAATAAAACT
21660797 ATAAAAAATTTAGAATTGATTTATTTGCATAATAAAACT
1 ATAAAAAATTTAGAATTGATTTATTTGCATAATAAAACT
21660836 AT
1 AT
21660838 CTTTGATAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (39 bp):
ATAAAAAATTTAGAATTGATTTATTTGCATAATAAAACT
Found at i:21662108 original size:22 final size:22
Alignment explanation
Indices: 21662083--21662124 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21662073 AAGTTTGAGG
21662083 ACCTTGCACTACTTCTTTCAAA
1 ACCTTGCACTACTTCTTTCAAA
** *
21662105 ACCTTTTATTACTTCTTTCA
1 ACCTTGCACTACTTCTTTCA
21662125 GTTCTTGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (22 bp):
ACCTTGCACTACTTCTTTCAAA
Found at i:21666309 original size:24 final size:25
Alignment explanation
Indices: 21666273--21666327 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
21666263 GATCTTTCCT
* *
21666273 AAAAA-ATGATGAA-AAATGTAAATA
1 AAAAAGATGATGAAGAAAAG-AAAAA
21666297 AAAAAGATG-TGAAGAAAAGAAAAA
1 AAAAAGATGATGAAGAAAAGAAAAA
21666321 AAAAAGA
1 AAAAAGA
21666328 AAAAAAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (25 bp):
AAAAAGATGATGAAGAAAAGAAAAA
Found at i:21668177 original size:43 final size:43
Alignment explanation
Indices: 21668107--21668218 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
21668097 ATGATCTCAC
* * * * *
21668107 TTTATTTTCCAAAACTTTCAAAACCTCAATTGTTGGGGAGCATT
1 TTTATTTTTCAAAAGTTTCAAAGCCTCAATTATAGGGGAGCA-T
21668151 TTTATTTTTC-AAAGTTTCAAAGCCTCAATTATAGGGGAGCAT
1 TTTATTTTTCAAAAGTTTCAAAGCCTCAATTATAGGGGAGCAT
21668193 TTTATTTTTCAAAAGTTTCAAAGCCT
1 TTTATTTTTCAAAAGTTTCAAAGCCT
21668219 TGTGGAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 11 0.18
43 42 0.68
44 9 0.15
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (43 bp):
TTTATTTTTCAAAAGTTTCAAAGCCTCAATTATAGGGGAGCAT
Found at i:21668564 original size:14 final size:14
Alignment explanation
Indices: 21668545--21668585 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
21668535 TTATTTATAT
21668545 TTTAATTTTTTTAG
1 TTTAATTTTTTTAG
*
21668559 TTTAA-TTTTTCA-
1 TTTAATTTTTTTAG
21668571 TTTAATTTTTTTAG
1 TTTAATTTTTTTAG
21668585 T
1 T
21668586 AAAAAAAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTAATTTTTTTAG
Found at i:21669385 original size:20 final size:20
Alignment explanation
Indices: 21669194--21669387 Score: 108
Period size: 20 Copynumber: 10.2 Consensus size: 20
21669184 TTTTACATGA
* *
21669194 ATTTGCATGACTAAT-ATTAT
1 ATTTGCATGATTATTAATT-T
*
21669214 ATTTGCATGATTAAT-ATTAT
1 ATTTGCATGATTATTAATT-T
21669234 ATTTGCATG---A-TAATTT
1 ATTTGCATGATTATTAATTT
* *
21669250 ATTTGC----TTAATATTTT
1 ATTTGCATGATTATTAATTT
* *
21669266 ATTTGTATGATTAGT-A--T
1 ATTTGCATGATTATTAATTT
** *
21669283 ATTTGTGTGATTTATTAATAT
1 ATTTGCATGA-TTATTAATTT
* * *
21669304 GTTTGCATGATTGTTAATAT
1 ATTTGCATGATTATTAATTT
*
21669324 GTTTGCATGATTATTAATTT
1 ATTTGCATGATTATTAATTT
* * *
21669344 ATCTACATGATTATTAAGTT
1 ATTTGCATGATTATTAATTT
*
21669364 ATTTGCATGATTATCAATTT
1 ATTTGCATGATTATTAATTT
21669384 ATTT
1 ATTT
21669388 ATTTGTGTAA
Statistics
Matches: 141, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
15 1 0.01
16 18 0.13
17 14 0.10
18 4 0.03
19 1 0.01
20 95 0.67
21 8 0.06
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTGCATGATTATTAATTT
Found at i:21669480 original size:53 final size:52
Alignment explanation
Indices: 21669411--21669599 Score: 159
Period size: 53 Copynumber: 3.5 Consensus size: 52
21669401 CATGATTATT
* * * *
21669411 ATTATATAATTGATTGCATGTTTATTGGCATGATTTATATTACTATTTACATG
1 ATTATATATTTAATTGCATGTTTATT-GCATGATTTATATTAATATTTGCATG
*
21669464 ATTATATATTTAATTGCATAG-TTATTTACATTG-TTTATATATATATATTTTTGCATG
1 ATTATATATTTAATTGCAT-GTTTA-TTGCA-TGATTTATAT-TA-ATA--TTTGCATG
* * * *
21669521 ATTATATATTTAATTGCATGTTTATCTGTA-GTATTTATATTATTAATTGTATG
1 ATTATATATTTAATTGCATGTTTAT-TGCATG-ATTTATATTAATATTTGCATG
* * *
21669574 ATTATATACTTAATTACATGATTATT
1 ATTATATATTTAATTGCATGTTTATT
21669600 AATTTATTTA
Statistics
Matches: 112, Mismatches: 13, Indels: 23
0.76 0.09 0.16
Matches are distributed among these distances:
52 1 0.01
53 57 0.51
54 7 0.06
55 5 0.04
56 4 0.04
57 38 0.34
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (52 bp):
ATTATATATTTAATTGCATGTTTATTGCATGATTTATATTAATATTTGCATG
Found at i:21669537 original size:20 final size:20
Alignment explanation
Indices: 21669438--21669545 Score: 61
Period size: 20 Copynumber: 5.5 Consensus size: 20
21669428 ATGTTTATTG
*
21669438 GCATGATT-TATATTACTATTT
1 GCATGATTATATATT--TAATT
*
21669459 ACATGATTATATATTTAATT
1 GCATGATTATATATTTAATT
*
21669479 GCAT-A--GT-TATTTACATT
1 GCATGATTATATATTTA-ATT
*
21669496 GTTTAT-ATATATATATTT--TT
1 G--CATGAT-TATATATTTAATT
21669516 GCATGATTATATATTTAATT
1 GCATGATTATATATTTAATT
*
21669536 GCATGTTTAT
1 GCATGATTAT
21669546 CTGTAGTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
16 6 0.09
17 5 0.07
18 11 0.16
19 6 0.09
20 21 0.31
21 7 0.10
22 7 0.10
23 5 0.07
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (20 bp):
GCATGATTATATATTTAATT
Found at i:21669558 original size:57 final size:52
Alignment explanation
Indices: 21669443--21669598 Score: 141
Period size: 57 Copynumber: 2.9 Consensus size: 52
21669433 TATTGGCATG
* * * * *
21669443 ATTTATATTACTATTTACATGATTATATATTTAATTGCATAGTTATTTACATT
1 ATTTATATTATTAATTGCATGATTATATATTTAATTGCAT-GTTATCTACAGT
* * **
21669496 GTTTATATATATATATTTTTGCATGATTATATATTTAATTGCATGTTTATCTGTAGT
1 ATTTATAT-TAT-TA--ATTGCATGATTATATATTTAATTGCATG-TTATCTACAGT
* * *
21669553 ATTTATATTATTAATTGTATGATTATATACTTAATTACATGATTAT
1 ATTTATATTATTAATTGCATGATTATATATTTAATTGCATG-TTAT
21669599 TAATTTATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 35 0.41
54 2 0.02
55 4 0.05
56 4 0.05
57 40 0.47
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (52 bp):
ATTTATATTATTAATTGCATGATTATATATTTAATTGCATGTTATCTACAGT
Found at i:21669704 original size:24 final size:24
Alignment explanation
Indices: 21669677--21669738 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
21669667 TTATTATTAC
*
21669677 ATGATTTTATATTTATTACATGAT
1 ATGATATTATATTTATTACATGAT
*
21669701 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTACATGAT
*
21669726 -TAATATTATATTT
1 ATGATATTATATTT
21669739 GAATGATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTACATGAT
Found at i:21669707 original size:19 final size:19
Alignment explanation
Indices: 21669661--21669708 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
21669651 TTATATATTT
21669661 ATATGAT-TATTATTACATG
1 ATATGATAT-TTATTACATG
* *
21669680 ATTTTATATTTATTACATG
1 ATATGATATTTATTACATG
21669699 ATATGATATT
1 ATATGATATT
21669709 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (19 bp):
ATATGATATTTATTACATG
Found at i:21669855 original size:20 final size:20
Alignment explanation
Indices: 21669832--21669917 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
21669822 GATTTCATAA
21669832 TTATATATTTGCATGATATT
1 TTATATATTTGCATGATATT
*
21669852 TTATAT-TATTGCATGACATT
1 TTATATAT-TTGCATGATATT
* *
21669872 TTATATTATTAG-ATGATAAT
1 TTATA-TATTTGCATGATATT
* *
21669892 TAATATATTTGCATAATATT
1 TTATATATTTGCATGATATT
*
21669912 ATATAT
1 TTATAT
21669918 TTACATTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
19 6 0.12
20 42 0.81
21 3 0.06
22 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATATATTTGCATGATATT
Found at i:21671397 original size:31 final size:33
Alignment explanation
Indices: 21671348--21671409 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
21671338 CACACTTTTT
*
21671348 TTTTTGTTTTTTGTTTTCTT-GTTTATATTTTGG
1 TTTTTGTTTTTAGTTTTCTTGGTTT-TATTTTGG
21671381 TTTTT-TTTTTAG-TTTCTTGGTTTTATTTT
1 TTTTTGTTTTTAGTTTTCTTGGTTTTATTTT
21671410 ATTTTTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 12 0.44
32 10 0.37
33 5 0.19
ACGTcount: A:0.06, C:0.03, G:0.13, T:0.77
Consensus pattern (33 bp):
TTTTTGTTTTTAGTTTTCTTGGTTTTATTTTGG
Found at i:21671400 original size:20 final size:20
Alignment explanation
Indices: 21671343--21671409 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
21671333 AGTTTCACAC
*
21671343 TTTT-TTTTTT-GTTTTTTG
1 TTTTATTTTTTAGTTTTTGG
* *
21671361 TTTTCTTGTTTA-TATTTTGG
1 TTTTATTTTTTAGT-TTTTGG
21671381 TTTT-TTTTTTAGTTTCTTGG
1 TTTTATTTTTTAGTTT-TTGG
21671401 TTTTATTTT
1 TTTTATTTT
21671410 ATTTTTTCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.10
19 14 0.35
20 18 0.45
21 4 0.10
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTAGTTTTTGG
Found at i:21671411 original size:38 final size:38
Alignment explanation
Indices: 21671343--21671416 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
21671333 AGTTTCACAC
* *
21671343 TTTTTTTTTTGTTTTTTGTTTTCTTGTTTATATTTTGG
1 TTTTTTTTTTGTTTTTGGTTTTCATGTTTATATTTTGG
*
21671381 TTTTTTTTTTAGTTTCTTGGTTTT-AT-TTTATTTTTT
1 TTTTTTTTTT-GTTT-TTGGTTTTCATGTTTATATTTT
21671417 CTACTAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 19 0.61
39 5 0.16
40 7 0.23
ACGTcount: A:0.07, C:0.03, G:0.11, T:0.80
Consensus pattern (38 bp):
TTTTTTTTTTGTTTTTGGTTTTCATGTTTATATTTTGG
Found at i:21671416 original size:31 final size:32
Alignment explanation
Indices: 21671343--21671416 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
21671333 AGTTTCACAC
*
21671343 TTTTTTTTTTGTTTTTTGTTTTCTTGTTTATA
1 TTTTTTTTTTGTTTTTAGTTTTCTTGTTTATA
*
21671375 TTTTGGTTTTT-TTTTTAG-TTTCTTGGTTT-TA
1 TTTT-TTTTTTGTTTTTAGTTTTCTT-GTTTATA
21671406 TTTTATTTTTT
1 TTTT-TTTTTT
21671417 CTACTAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 17 0.47
32 14 0.39
33 5 0.14
ACGTcount: A:0.07, C:0.03, G:0.11, T:0.80
Consensus pattern (32 bp):
TTTTTTTTTTGTTTTTAGTTTTCTTGTTTATA
Found at i:21671917 original size:26 final size:26
Alignment explanation
Indices: 21671868--21671918 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21671858 TTTGAGAATT
*
21671868 TTTTAATAAAATAAAATTTTACTTGC
1 TTTTAATAAAATAAAATTTAACTTGC
*
21671894 TTTTCATAAAAT-AAATTTGAACTTG
1 TTTTAATAAAATAAAATTT-AACTTG
21671919 ATTTAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (26 bp):
TTTTAATAAAATAAAATTTAACTTGC
Found at i:21672331 original size:22 final size:23
Alignment explanation
Indices: 21672282--21672337 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
21672272 AGAAAAATAA
*
21672282 AGAAAA-AAATAGGGAGAGAGAG
1 AGAAAAGAAAGAGGGAGAGAGAG
21672304 AGAAAAGGAAAGAGGGAGAGAG-G
1 AGAAAA-GAAAGAGGGAGAGAGAG
21672327 A-AAAAGAAAGA
1 AGAAAAGAAAGA
21672338 AAAATAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 6 0.19
22 10 0.32
23 2 0.06
24 13 0.42
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.02
Consensus pattern (23 bp):
AGAAAAGAAAGAGGGAGAGAGAG
Found at i:21672473 original size:25 final size:24
Alignment explanation
Indices: 21672418--21672473 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
21672408 TATTTTTTAA
* *
21672418 AATTAATTTTTGTTAATTAGTTAT
1 AATTAATTTTTATTAATTAATTAT
* *
21672442 GACTAATTTTATATTAATTAATTAT
1 AATTAATTTT-TATTAATTAATTAT
21672467 AATTAAT
1 AATTAAT
21672474 AATTACTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (24 bp):
AATTAATTTTTATTAATTAATTAT
Found at i:21672978 original size:38 final size:36
Alignment explanation
Indices: 21672907--21672987 Score: 92
Period size: 39 Copynumber: 2.2 Consensus size: 36
21672897 TTAGTATTAA
21672907 AAAAATTCTAAAATAGTTTTAAAAATTATTGAAAAATTT
1 AAAAA-TCTAAAATAGTTTTAAAAATTATTG-AAAA-TT
* **
21672946 AAAAATCTAAAATATTTTTTTTAAATTA-TGAAAATT
1 AAAAATCTAAAATA-GTTTTAAAAATTATTGAAAATT
21672982 AAAAAT
1 AAAAAT
21672988 AAAAAATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 8 0.21
37 4 0.11
38 11 0.29
39 15 0.39
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAAATCTAAAATAGTTTTAAAAATTATTGAAAATT
Found at i:21673059 original size:24 final size:24
Alignment explanation
Indices: 21673032--21673081 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
21673022 TTTCTAAAAT
21673032 AATTTTTAAAAATT-AAAAAAATAA
1 AATTTTT-AAAATTCAAAAAAATAA
*
21673056 AATTTTTAAAATTCTAAAAAATAA
1 AATTTTTAAAATTCAAAAAAATAA
21673080 AA
1 AA
21673082 AACATCCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTTTTAAAATTCAAAAAAATAA
Found at i:21673061 original size:23 final size:24
Alignment explanation
Indices: 21673027--21673081 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
21673017 AAAAATTTCT
*
21673027 AAAAT-AATTTTTAAAAATT-AAA
1 AAAATAAAATTTTAAAAATTCAAA
* *
21673049 AAAATAAAATTTTTAAAATTCTAA
1 AAAATAAAATTTTAAAAATTCAAA
21673073 AAAATAAAA
1 AAAATAAAA
21673082 AACATCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.18
23 12 0.43
24 11 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATAAAATTTTAAAAATTCAAA
Found at i:21673197 original size:17 final size:17
Alignment explanation
Indices: 21673166--21673208 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
21673156 AAAAGAAAAC
21673166 TAAAACATTTTAAAA-TT
1 TAAAA-ATTTTAAAATTT
21673183 TAAAAATTTTCAAAATTT
1 TAAAAATTTT-AAAATTT
21673201 TAAAAATT
1 TAAAAATT
21673209 AGAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAATTTTAAAATTT
Found at i:21673199 original size:9 final size:9
Alignment explanation
Indices: 21673166--21673208 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
21673156 AAAAGAAAAC
21673166 TAAAACATTT
1 TAAAA-ATTT
21673176 T-AAAA-TT
1 TAAAAATTT
21673183 TAAAAATTT
1 TAAAAATTT
*
21673192 TCAAAATTT
1 TAAAAATTT
21673201 TAAAAATT
1 TAAAAATT
21673209 AGAAAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 3 0.10
8 5 0.17
9 20 0.69
10 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:21673491 original size:23 final size:24
Alignment explanation
Indices: 21673465--21673541 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
21673455 TTTTCTTGGA
21673465 TTTAGTATT-AAATTTTTATG-ATT
1 TTTA-TATTAAAATTTTTATGAATT
* *
21673488 TTTATTTTAAAATTTTTTTGAATT
1 TTTATATTAAAATTTTTATGAATT
* *
21673512 TTTATTTTAATAATTTTT-TGCATT
1 TTTATATTAA-AATTTTTATGAATT
21673536 TTTATA
1 TTTATA
21673542 ATGCTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.06
23 14 0.30
24 23 0.49
25 7 0.15
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTATATTAAAATTTTTATGAATT
Found at i:21673512 original size:24 final size:23
Alignment explanation
Indices: 21673474--21673540 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
21673464 ATTTAGTATT
*
21673474 AAATTTTTATGATTTTTATTTTA
1 AAATTTTTTTGATTTTTATTTTA
21673497 AAATTTTTTTGAATTTTTATTTTA
1 AAATTTTTTTG-ATTTTTATTTTA
21673521 ATAA-TTTTTTGCATTTTTAT
1 A-AATTTTTTTG-ATTTTTAT
21673541 AATGCTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.25
24 28 0.70
25 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (23 bp):
AAATTTTTTTGATTTTTATTTTA
Found at i:21673651 original size:28 final size:27
Alignment explanation
Indices: 21673612--21673681 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 27
21673602 TTTCATATAT
21673612 ATTTTTTTAATTTTTAAAATATTTAAG
1 ATTTTTTTAATTTTTAAAATATTTAAG
* *
21673639 ATTTTTTTGAATTTTTAAAATTTTTTAG
1 ATTTTTTT-AATTTTTAAAATATTTAAG
**
21673667 ATTTTTAAAATTTTT
1 ATTTTTTTAATTTTT
21673682 TGAATTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTTTTAATTTTTAAAATATTTAAG
Found at i:21673655 original size:19 final size:18
Alignment explanation
Indices: 21673633--21673687 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
21673623 TTTTAAAATA
21673633 TTTAAGATTTTTTTGAATT
1 TTTAA-ATTTTTTTGAATT
*
21673652 TTTAAAATTTTTT-AGATT
1 TTTAAATTTTTTTGA-ATT
*
21673670 TTTAAAATTTTTTGAATT
1 TTTAAATTTTTTTGAATT
21673688 GTTTGTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 1 0.03
18 26 0.79
19 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTAAATTTTTTTGAATT
Found at i:21673662 original size:18 final size:18
Alignment explanation
Indices: 21673641--21673687 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
21673631 TATTTAAGAT
21673641 TTTTTTGAATTTTTAAAA
1 TTTTTTGAATTTTTAAAA
21673659 TTTTTT-AGATTTTTAAAA
1 TTTTTTGA-ATTTTTAAAA
21673677 TTTTTTGAATT
1 TTTTTTGAATT
21673688 GTTTGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTTGAATTTTTAAAA
Found at i:21674782 original size:19 final size:18
Alignment explanation
Indices: 21674744--21674791 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
21674734 ACATGTTTTA
*
21674744 TTTTTATATTTAAGTATT
1 TTTTTATTTTTAAGTATT
21674762 TTTTTATTTTTAAGTATTT
1 TTTTTATTTTTAAGTA-TT
21674781 TTTTTATTTTT
1 TTTTTATTTTT
21674792 TAAATATACC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTTTATTTTTAAGTATT
Found at i:21685207 original size:12 final size:12
Alignment explanation
Indices: 21685190--21685225 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
21685180 TCACTTAAGT
21685190 TTTAGGATTTCA
1 TTTAGGATTTCA
21685202 TTTAGGATTTCA
1 TTTAGGATTTCA
21685214 TTTAGGATTTCA
1 TTTAGGATTTCA
21685226 AGTCTCACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (12 bp):
TTTAGGATTTCA
Found at i:21685305 original size:19 final size:19
Alignment explanation
Indices: 21685263--21685306 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21685253 TTAAGGTTTT
* *
21685263 AGGTTTCAGGTTTCGCCTA
1 AGGTTTCAAGTTTCACCTA
* *
21685282 GGGTTTCAAGTTTCACTTA
1 AGGTTTCAAGTTTCACCTA
21685301 AGGTTT
1 AGGTTT
21685307 GAGATTTTAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (19 bp):
AGGTTTCAAGTTTCACCTA
Found at i:21685347 original size:26 final size:26
Alignment explanation
Indices: 21685308--21685361 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
21685298 TTAAGGTTTG
21685308 AGATTTTACATTAGGGTTTCATTTTA
1 AGATTTTACATTAGGGTTTCATTTTA
* *
21685334 AGATTTTGCTTTAGGGTTTCATTTTA
1 AGATTTTACATTAGGGTTTCATTTTA
21685360 AG
1 AG
21685362 GTTTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (26 bp):
AGATTTTACATTAGGGTTTCATTTTA
Found at i:21685404 original size:19 final size:20
Alignment explanation
Indices: 21685367--21685404 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21685357 TTAAGGTTTC
*
21685367 AAAAATTTATGAACCTCTAT
1 AAAAATTTATGAACATCTAT
*
21685387 AAAAATTTCT-AACATCTA
1 AAAAATTTATGAACATCTA
21685405 AATAGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATTTATGAACATCTAT
Found at i:21687565 original size:18 final size:17
Alignment explanation
Indices: 21687542--21687628 Score: 77
Period size: 18 Copynumber: 4.8 Consensus size: 17
21687532 TTTTGTTGGT
21687542 TTTTTTATTTATTTATTG
1 TTTTTTATTTA-TTATTG
21687560 TTTTTTATATTATTATTTG
1 TTTTTTAT-TTATTA-TTG
* * *
21687579 TTCTTTATTAATTATTA
1 TTTTTTATTTATTATTG
21687596 TTATTATTA-TTATTATTG
1 TT-TT-TTATTTATTATTG
21687614 TTGTTATTATTTATT
1 TT-TT-TTATTTATT
21687629 TTTTAATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
17 4 0.07
18 32 0.56
19 21 0.37
ACGTcount: A:0.23, C:0.01, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTTATTTATTATTG
Found at i:21687595 original size:3 final size:3
Alignment explanation
Indices: 21687583--21687624 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
21687573 TATTTGTTCT
* *
21687583 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21687625 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21698710 original size:27 final size:28
Alignment explanation
Indices: 21698657--21698731 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
21698647 TAGTCATCAA
21698657 ATCATAATGTCAAAACATTTCCAAAATC
1 ATCATAATGTCAAAACATTTCCAAAATC
* **
21698685 ATCATTATGTC-AAACATTTCGTAAATC
1 ATCATAATGTCAAAACATTTCCAAAATC
* *
21698712 ATAAATCAATATCAAAACAT
1 AT-CAT-AATGTCAAAACAT
21698732 GTCAATTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 16 0.42
28 12 0.32
29 4 0.11
30 6 0.16
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.31
Consensus pattern (28 bp):
ATCATAATGTCAAAACATTTCCAAAATC
Found at i:21704765 original size:22 final size:22
Alignment explanation
Indices: 21704740--21704870 Score: 90
Period size: 22 Copynumber: 6.0 Consensus size: 22
21704730 TTATGAATCT
21704740 TGCCCAGAAGAGC-TTGAAATTA
1 TGCCCAGAAGA-CTTTGAAATTA
*
21704762 TG-CCATGAGGACTTTGAAATTA
1 TGCCCA-GAAGACTTTGAAATTA
* *
21704784 TGCCCAGAAGACTTTTAAATTG
1 TGCCCAGAAGACTTTGAAATTA
* * * *
21704806 TACGC-GAAGGACTTTGCAATTG
1 TGCCCAGAA-GACTTTGAAATTA
** *
21704828 TG-CTTGAAGGACTTTGCAATTA
1 TGCCCAGAA-GACTTTGAAATTA
* *
21704850 TGCCTAAAAGACTTTGAAATT
1 TGCCCAGAAGACTTTGAAATT
21704871 GTGCTTGGAG
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.08
22 74 0.84
23 7 0.08
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (22 bp):
TGCCCAGAAGACTTTGAAATTA
Found at i:21704841 original size:44 final size:43
Alignment explanation
Indices: 21704771--21704938 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 43
21704761 ATGCCATGAG
* ** * *
21704771 GACTTTGAAATTATGCCCAGAA-GACTTTTAAATTGTACGCGAAG
1 GACTTTGAAATTGTG-CTTGAAGGACTTTGAAATTGTAC-CGAAA
* * * * *
21704815 GACTTTGCAATTGTGCTTGAAGGACTTTGCAATTATGCCTAAAA
1 GACTTTGAAATTGTGCTTGAAGGACTTTGAAATTGTACC-GAAA
* *
21704859 GACTTTGAAATTGTGCTTGGAGGACTTTGAAATTGTACTTGAAA
1 GACTTTGAAATTGTGCTTGAAGGACTTTGAAATTGTAC-CGAAA
* *
21704903 GACTTTGAAATTGTACTTGAAAGACTTTGAAATTGT
1 GACTTTGAAATTGTGCTTGAAGGACTTTGAAATTGT
21704939 GTTTATAGGA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
43 5 0.05
44 96 0.95
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (43 bp):
GACTTTGAAATTGTGCTTGAAGGACTTTGAAATTGTACCGAAA
Found at i:21704883 original size:66 final size:66
Alignment explanation
Indices: 21704769--21704939 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 66
21704759 TTATGCCATG
* * * * * *
21704769 AGGACTTTGAAATTATGCCCAGAAGACTTTTAAATTGTACGCGAAGGACTTTGCAATTGTGCTTG
1 AGGACTTTGAAATTATGCCTAAAAGACTTTGAAATTGTGCGCGAAGGACTTTGAAATTGTACTTG
21704834 A
66 A
* ** *
21704835 AGGACTTTGCAATTATGCCTAAAAGACTTTGAAATTGTGCTTGGAGGACTTTGAAATTGTACTTG
1 AGGACTTTGAAATTATGCCTAAAAGACTTTGAAATTGTGCGCGAAGGACTTTGAAATTGTACTTG
21704900 A
66 A
* * * * *
21704901 AAGACTTTGAAATTGTACTTGAAAGACTTTGAAATTGTG
1 AGGACTTTGAAATTATGCCTAAAAGACTTTGAAATTGTG
21704940 TTTATAGGAC
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 89 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (66 bp):
AGGACTTTGAAATTATGCCTAAAAGACTTTGAAATTGTGCGCGAAGGACTTTGAAATTGTACTTG
A
Found at i:21704884 original size:22 final size:22
Alignment explanation
Indices: 21704791--21704939 Score: 163
Period size: 22 Copynumber: 6.8 Consensus size: 22
21704781 TTATGCCCAG
* * **
21704791 AAGACTTTTAAATTGTACGCGA
1 AAGACTTTGAAATTGTGCTTGA
* *
21704813 AGGACTTTGCAATTGTGCTTGA
1 AAGACTTTGAAATTGTGCTTGA
* * * * *
21704835 AGGACTTTGCAATTATGCCTAA
1 AAGACTTTGAAATTGTGCTTGA
*
21704857 AAGACTTTGAAATTGTGCTTGG
1 AAGACTTTGAAATTGTGCTTGA
* *
21704879 AGGACTTTGAAATTGTACTTGA
1 AAGACTTTGAAATTGTGCTTGA
*
21704901 AAGACTTTGAAATTGTACTTGA
1 AAGACTTTGAAATTGTGCTTGA
21704923 AAGACTTTGAAATTGTG
1 AAGACTTTGAAATTGTG
21704940 TTTATAGGAC
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 107 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (22 bp):
AAGACTTTGAAATTGTGCTTGA
Found at i:21704902 original size:12 final size:12
Alignment explanation
Indices: 21704885--21704924 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21704875 TTGGAGGACT
21704885 TTGAAATTGTAC
1 TTGAAATTGTAC
21704897 TTGAAA--G-AC
1 TTGAAATTGTAC
21704906 TTTGAAATTGTAC
1 -TTGAAATTGTAC
21704919 TTGAAA
1 TTGAAA
21704925 GACTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
12 13 0.54
13 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (12 bp):
TTGAAATTGTAC
Found at i:21704949 original size:66 final size:66
Alignment explanation
Indices: 21704771--21704962 Score: 190
Period size: 66 Copynumber: 2.9 Consensus size: 66
21704761 ATGCCATGAG
* * * * * * *
21704771 GACTTTGAAATTATGCCCAGAAGACTTTTAAATTGTACGC-GA-AGGACTTTGCAATTGTGCTTG
1 GACTTTGAAATTATACCTAAAAGACTTTGAAATTGT--GCTTAGAGGACTTTGAAATTGTACTTG
*
21704834 AAG
64 AAA
* * *
21704837 GACTTTGCAATTATGCCTAAAAGACTTTGAAATTGTGCTTGGAGGACTTTGAAATTGTACTTGAA
1 GACTTTGAAATTATACCTAAAAGACTTTGAAATTGTGCTTAGAGGACTTTGAAATTGTACTTGAA
21704902 A
66 A
* * * * * * *
21704903 GACTTTGAAATTGTACTTGAAAGACTTTGAAATTGTGTTTATAGGACTTTCAAAGTGTAC
1 GACTTTGAAATTATACCTAAAAGACTTTGAAATTGTGCTTAGAGGACTTTGAAATTGTAC
21704963 CCAAAGGATT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 2 0.02
66 103 0.98
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (66 bp):
GACTTTGAAATTATACCTAAAAGACTTTGAAATTGTGCTTAGAGGACTTTGAAATTGTACTTGAA
A
Found at i:21704951 original size:44 final size:43
Alignment explanation
Indices: 21704815--21704962 Score: 143
Period size: 44 Copynumber: 3.4 Consensus size: 43
21704805 GTACGCGAAG
* * * * * *
21704815 GACTTTGCAATTGTGCTTGAAGGACTTTGCAATTATGCCTAAAA
1 GACTTTGAAATTGTACTTGAAGGACTTTGAAATTGTG-TTTAAA
* * * *
21704859 GACTTTGAAATTGTGCTTGGAGGACTTTGAAATTGTACTTGAAA
1 GACTTTGAAATTGTACTTGAAGGACTTTGAAATTGT-GTTTAAA
* *
21704903 GACTTTGAAATTGTACTTGAAAGACTTTGAAATTGTGTTTATAG
1 GACTTTGAAATTGTACTTGAAGGACTTTGAAATTGTGTTTA-AA
* *
21704947 GACTTTCAAAGTGTAC
1 GACTTTGAAATTGTAC
21704963 CCAAAGGATT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.03
44 84 0.97
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.36
Consensus pattern (43 bp):
GACTTTGAAATTGTACTTGAAGGACTTTGAAATTGTGTTTAAA
Found at i:21704976 original size:66 final size:66
Alignment explanation
Indices: 21704856--21704982 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
21704846 ATTATGCCTA
* * * **
21704856 AAAGACTTTGAAATTGTGCTTGGAGGACTTTGAAATTGTACTTGAAAGACTTTGAAATTGTACTT
1 AAAGACTTTGAAATTGTGCTTAGAGGACTTTCAAAGTGTACTCCAAAGACTTTGAAATTGTACTT
21704921 G
66 G
* * * *
21704922 AAAGACTTTGAAATTGTGTTTATAGGACTTTCAAAGTGTAC-CCAAAGGATTTTGAGATTGT
1 AAAGACTTTGAAATTGTGCTTAGAGGACTTTCAAAGTGTACTCCAAA-GACTTTGAAATTGT
21704983 TTAAAAATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 3 0.06
66 48 0.94
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (66 bp):
AAAGACTTTGAAATTGTGCTTAGAGGACTTTCAAAGTGTACTCCAAAGACTTTGAAATTGTACTT
G
Found at i:21705036 original size:40 final size:41
Alignment explanation
Indices: 21704985--21705194 Score: 141
Period size: 41 Copynumber: 5.2 Consensus size: 41
21704975 GAGATTGTTT
*
21704985 AAAAATATAAGGTTTTACCTTTA-A-GTC-TTGAAAATTTTTA
1 AAAAATTTAAGGTTTTA-C-TTAGAGGTCTTTGAAAATTTTTA
* *
21705025 AAAAATTTAAGGTTTTACTTAGAGGTCTTTGAAATTTTTTC
1 AAAAATTTAAGGTTTTACTTAGAGGTCTTTGAAAATTTTTA
** * * * *
21705066 AAAAATTTAAAATTTTGCCT-GAAGGTC-TTG-GAA--TTAA
1 AAAAATTTAAGGTTTTACTTAG-AGGTCTTTGAAAATTTTTA
*** * * * *
21705103 AAAAAAAAAAGGTTTT-GTTTGAAGGTCTTTGAAAATCTTTC
1 AAAAATTTAAGGTTTTACTTAG-AGGTCTTTGAAAATTTTTA
** * *
21705144 AAAAATTTAAAATTTTACTTAAAGGTCTTTGAAAATCTTTA
1 AAAAATTTAAGGTTTTACTTAGAGGTCTTTGAAAATTTTTA
21705185 AAAAATTTAA
1 AAAAATTTAA
21705195 AATTTTGTAT
Statistics
Matches: 130, Mismatches: 30, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
36 1 0.01
37 20 0.15
38 6 0.05
39 5 0.04
40 23 0.18
41 73 0.56
42 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (41 bp):
AAAAATTTAAGGTTTTACTTAGAGGTCTTTGAAAATTTTTA
Found at i:21705070 original size:41 final size:40
Alignment explanation
Indices: 21704972--21705075 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
21704962 CCCAAAGGAT
* * *
21704972 TTTGAGATTGTTTAAAAATATAAGGTTTTACCTTTAAGTC
1 TTTGAAATTTTTTAAAAATTTAAGGTTTTACCTTTAAGTC
*
21705012 -TTGAAAATTTTTAAAAAATTTAAGGTTTTA-C-TTAGAGGTC
1 TTTG-AAATTTTTTAAAAATTTAAGGTTTTACCTTTA-A-GTC
21705052 TTTGAAATTTTTTCAAAAATTTAA
1 TTTGAAATTTTTT-AAAAATTTAA
21705076 AATTTTGCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
38 3 0.06
39 5 0.09
40 33 0.61
41 13 0.24
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (40 bp):
TTTGAAATTTTTTAAAAATTTAAGGTTTTACCTTTAAGTC
Found at i:21705092 original size:41 final size:41
Alignment explanation
Indices: 21705012--21705339 Score: 194
Period size: 41 Copynumber: 8.1 Consensus size: 41
21705002 CCTTTAAGTC
* * ** * *
21705012 TTGAAAATTTTTAAAAAATTTAAGGTTTT-ACTTAGAGGTCT
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGA-AGGTCT
* *
21705053 TTGAAATTTTTTCAAAAATTTAAAATTTTGCCTGAAGGTC-
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGAAGGTCT
* *** **
21705093 TTG-GAA---TT-AAAAAAAAAAAAGGTTTTGTTTGAAGGTCT
1 TTGAAAATCTTTCAAAAATTTAAAA--TTTTGCCTGAAGGTCT
* * *
21705131 TTGAAAATCTTTCAAAAATTTAAAATTTTACTTAAAGGTCT
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGAAGGTCT
* **
21705172 TTGAAAATCTTTAAAAAATTTAAAATTTTGTATGAAGGTCT
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGAAGGTCT
* * * * * *
21705213 TTG-AAATCATTCAAAGATTTAAGATTATGCTTGAAGGTTTT
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGAAGG-TCT
* * * ** * *
21705254 TTGAAATTATTT-AAAAATCTAAGGTTTTG-CTCGAAAG-CC
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCT-GAAGGTCT
* *
21705293 TTGAAAATCTTTCAAAATTTTAAGATTTTGCCT-AGAGGTCT
1 TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGA-AGGTCT
*
21705334 TAGAAA
1 TTGAAA
21705340 TCATGTATTC
Statistics
Matches: 219, Mismatches: 52, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
35 9 0.04
36 2 0.01
37 13 0.06
38 3 0.01
39 14 0.06
40 47 0.21
41 112 0.51
42 10 0.05
43 9 0.04
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (41 bp):
TTGAAAATCTTTCAAAAATTTAAAATTTTGCCTGAAGGTCT
Found at i:21705282 original size:81 final size:82
Alignment explanation
Indices: 21705012--21705282 Score: 207
Period size: 78 Copynumber: 3.4 Consensus size: 82
21705002 CCTTTAAGTC
* * * * **
21705012 TTGAAAATTTTTAAAAAATTTAAGG-TTT-TACTTAGAGGTCTTTGAAATTTTTTCAAAAATTTA
1 TTGAAAATATTTAAAAAATCTAAGGTTTTGTA-TGA-AGGTCTTTGAAAATCATTCAAAAATTTA
* * * *
21705075 AAATTTTGCCTGAAGGTC-
64 AAATTATACTTAAAGGTCT
* * *** * *
21705093 TTG--GA-ATTAAAAAAAAAAAAGGTTTTGTTTGAAGGTCTTTGAAAATCTTTCAAAAATTTAAA
1 TTGAAAATATTTAAAAAATCTAAGGTTTTGTATGAAGGTCTTTGAAAATCATTCAAAAATTTAAA
*
21705155 ATTTTACTTAAAGGTCT
66 ATTATACTTAAAGGTCT
* * ** * *
21705172 TTGAAAATCTTTAAAAAATTTAAAATTTTGTATGAAGGTCTTTG-AAATCATTCAAAGATTTAAG
1 TTGAAAATATTTAAAAAATCTAAGGTTTTGTATGAAGGTCTTTGAAAATCATTCAAAAATTTAAA
* * *
21705236 ATTATGCTTGAAGGTTTT
66 ATTATACTTAAAGG-TCT
*
21705254 TTGAAATTATTT-AAAAATCTAAGGTTTTG
1 TTGAAAATATTTAAAAAATCTAAGGTTTTG
21705283 CTCGAAAGCC
Statistics
Matches: 149, Mismatches: 34, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
78 53 0.36
79 9 0.06
80 1 0.01
81 46 0.31
82 40 0.27
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (82 bp):
TTGAAAATATTTAAAAAATCTAAGGTTTTGTATGAAGGTCTTTGAAAATCATTCAAAAATTTAAA
ATTATACTTAAAGGTCT
Found at i:21707280 original size:10 final size:10
Alignment explanation
Indices: 21707265--21707340 Score: 62
Period size: 10 Copynumber: 7.0 Consensus size: 10
21707255 AGTTATTCAA
21707265 TTTTTTTCTT
1 TTTTTTTCTT
*
21707275 TTTTTTCCCTT
1 TTTTTT-TCTT
*
21707286 TTGTTTTCTT
1 TTTTTTTCTT
*
21707296 TTGTTTTCTT
1 TTTTTTTCTT
*
21707306 TTGTTTTCTT
1 TTTTTTTCTT
21707316 TTGTTCTTATCTT
1 TT-TT-TT-TCTT
21707329 TTGTTCTTTCTT
1 TT-TT-TTTCTT
21707341 ACATTTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
10 31 0.53
11 9 0.16
12 6 0.10
13 12 0.21
ACGTcount: A:0.01, C:0.14, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:21707330 original size:13 final size:12
Alignment explanation
Indices: 21707290--21707340 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 12
21707280 TCCCTTTTGT
21707290 TTTCTTTTG-T-
1 TTTCTTTTGTTC
21707300 TTTCTTTTG-T-
1 TTTCTTTTGTTC
21707310 TTTCTTTTGTTC
1 TTTCTTTTGTTC
21707322 TTATCTTTTGTTC
1 TT-TCTTTTGTTC
21707335 TTTCTT
1 TTTCTT
21707341 ACATTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 19 0.50
11 1 0.03
12 6 0.16
13 12 0.32
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTCTTTTGTTC
Found at i:21707875 original size:9 final size:9
Alignment explanation
Indices: 21707863--21707887 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21707853 TTCTTTTCTT
21707863 TTTTTTTCA
1 TTTTTTTCA
21707872 TTTTTTTCA
1 TTTTTTTCA
21707881 TTTTTTT
1 TTTTTTT
21707888 ATTCTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:21708529 original size:20 final size:19
Alignment explanation
Indices: 21708504--21708551 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
21708494 AAAAACAACC
21708504 TTTTTTTCCCTTTCTTTTTA
1 TTTTTTTCCCTTT-TTTTTA
* *
21708524 TTTTTTTCTCTTTTTTTTT
1 TTTTTTTCCCTTTTTTTTA
21708543 TCTTTTTTC
1 T-TTTTTTC
21708552 AAGGCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTCCCTTTTTTTTA
Found at i:21708550 original size:21 final size:20
Alignment explanation
Indices: 21708503--21708550 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
21708493 AAAAAACAAC
21708503 CTTTTTTTCCCTTTCTTTTT
1 CTTTTTTTCCCTTTCTTTTT
* * *
21708523 ATTTTTTTCTCTTTTTTTTTT
1 CTTTTTTTC-CCTTTCTTTTT
21708544 CTTTTTT
1 CTTTTTT
21708551 CAAGGCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTTTTCCCTTTCTTTTT
Found at i:21711501 original size:23 final size:23
Alignment explanation
Indices: 21711462--21711506 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
21711452 TTTGGTGATT
21711462 TTTTGTTTTTAGATTTTCTTTTTC
1 TTTTGTTTTTAGATTTT-TTTTTC
*
21711486 TTTT-TTTTTAGTTTTTTTTTT
1 TTTTGTTTTTAGATTTTTTTTT
21711507 GTTTCCTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTGTTTTTAGATTTTTTTTTC
Found at i:21712163 original size:27 final size:28
Alignment explanation
Indices: 21712125--21712178 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
21712115 AATAAAAGAC
21712125 ATTTTCTTATTTTTT-ATTTTTTTCAAA
1 ATTTTCTTATTTTTTAATTTTTTTCAAA
21712152 ATTTT-TTAATTTTTTAATTTTTTTCAA
1 ATTTTCTT-ATTTTTTAATTTTTTTCAA
21712179 TTTTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.08
27 12 0.48
28 11 0.44
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (28 bp):
ATTTTCTTATTTTTTAATTTTTTTCAAA
Found at i:21712183 original size:27 final size:26
Alignment explanation
Indices: 21712125--21712191 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
21712115 AATAAAAGAC
* *
21712125 ATTTTCTTATTTTTTATTTTTTTCAAA
1 ATTTTTTTATTTTTTAATTTTTTC-AA
*
21712152 ATTTTTTAATTTTTTAATTTTTTTC-A
1 ATTTTTTTATTTTTTAA-TTTTTTCAA
*
21712178 A-TTTTTGATTTTTT
1 ATTTTTTTATTTTTT
21712192 TTAGGAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 12 0.34
26 2 0.06
27 14 0.40
28 7 0.20
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (26 bp):
ATTTTTTTATTTTTTAATTTTTTCAA
Found at i:21712190 original size:18 final size:17
Alignment explanation
Indices: 21712153--21712194 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21712143 TTTTTCAAAA
*
21712153 TTTTTTAATTTTTTAAT
1 TTTTTTAATTTTTGAAT
*
21712170 TTTTTTCAATTTTTGATT
1 TTTTTT-AATTTTTGAAT
21712188 TTTTTTA
1 TTTTTTA
21712195 GGAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTTAATTTTTGAAT
Found at i:21713174 original size:22 final size:22
Alignment explanation
Indices: 21713141--21713183 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21713131 TAAGGATTGG
21713141 TTTTAGGATTTAGGGTTTAGGA
1 TTTTAGGATTTAGGGTTTAGGA
21713163 TTTTA-GAGTTTAGGGTTTAGG
1 TTTTAGGA-TTTAGGGTTTAGG
21713184 GCCTTAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
TTTTAGGATTTAGGGTTTAGGA
Found at i:21713184 original size:7 final size:7
Alignment explanation
Indices: 21713142--21713202 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
21713132 AAGGATTGGT
*
21713142 TTTAGGA
1 TTTAGGG
21713149 TTTAGGG
1 TTTAGGG
*
21713156 TTTAGGAT
1 TTTAGG-G
*
21713164 TTTAGAG
1 TTTAGGG
21713171 TTTAGGG
1 TTTAGGG
21713178 TTTAGGG
1 TTTAGGG
*
21713185 CCTTAGGG
1 -TTTAGGG
*
21713193 TTTAAGG
1 TTTAGGG
21713200 TTT
1 TTT
21713203 CAAAATTGGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
7 33 0.75
8 11 0.25
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:21713190 original size:22 final size:22
Alignment explanation
Indices: 21713149--21713202 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
21713139 GGTTTTAGGA
**
21713149 TTTAGGGTTTAGGATTTTAGAG
1 TTTAGGGTTTAGGACCTTAGAG
* *
21713171 TTTAGGGTTTAGGGCCTTAGGG
1 TTTAGGGTTTAGGACCTTAGAG
*
21713193 TTTAAGGTTT
1 TTTAGGGTTT
21713203 CAAAATTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAGGGTTTAGGACCTTAGAG
Found at i:21714868 original size:144 final size:141
Alignment explanation
Indices: 21714693--21714950 Score: 299
Period size: 144 Copynumber: 1.8 Consensus size: 141
21714683 TTTTAATGCA
* *
21714693 CCAAAAATCATTAAATAATTTAAAAATATGATCTATAA-TGTTTCACGAAAAACTAA-CTTCAGA
1 CCAAAAATCATCAAATAATTT-AAAATATGATCCA-AAGTGTTTCACGAAAAACTAACCTT-AGA
* * *
21714756 AAGGTTAAATTACAAAAATACCCTTAAAAGGTA-TTTTAGTGATTTCACACCTTGTGAGGTACGA
63 AAAGTCAAATTAC-AAAATACCCTT-AAAGGTATTTTTA-TAATTTCACACCTTGTGAGGTACGA
21714820 TTAAGATTTTTAATATT
125 TTAAGATTTTTAATATT
* * * **
21714837 CCAAAAATTATCAAATAATATT-AAATCATGATCCAAAGTTTTTCATGAAATTCTAACCTTAGAA
1 CCAAAAATCATCAAATAAT-TTAAAAT-ATGATCCAAAGTGTTTCACGAAAAACTAACCTTAGAA
* * *
21714901 AAGTCAATTTACAAAGTACCCTTAAGGGTATTTTTATAATTTCACACCTT
64 AAGTCAAATTACAAAATACCCTTAAAGGTATTTTTATAATTTCACACCTT
21714951 TTAAAGTATA
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
142 19 0.20
143 21 0.22
144 51 0.53
145 5 0.05
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (141 bp):
CCAAAAATCATCAAATAATTTAAAATATGATCCAAAGTGTTTCACGAAAAACTAACCTTAGAAAA
GTCAAATTACAAAATACCCTTAAAGGTATTTTTATAATTTCACACCTTGTGAGGTACGATTAAGA
TTTTTAATATT
Found at i:21716646 original size:24 final size:24
Alignment explanation
Indices: 21716614--21716670 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
21716604 AGCCTATCAA
21716614 TCAAAGGCTATATCAATCAAAATG
1 TCAAAGGCTATATCAATCAAAATG
21716638 TCAAAGGCTATATCAATCAAAATG
1 TCAAAGGCTATATCAATCAAAATG
21716662 TCAAAGGCT
1 TCAAAGGCT
21716671 TGGAAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (24 bp):
TCAAAGGCTATATCAATCAAAATG
Found at i:21721889 original size:66 final size:66
Alignment explanation
Indices: 21721753--21721889 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 66
21721743 GGGGTAAAAT
* * * *
21721753 ATTGTTATCAACTACCTATATGTTCAATTGAATATTCTCCAAGTCAGTTACAACCACTCCCTGTG
1 ATTGTTATCAACTACCTATATATTCAATTGAATATTCTCCAAGTCAATTACAACCAATCCCTATG
*
21721818 T
66 A
** * * *
21721819 ATTGTTATCAACTATTTATATATTCAATTGAATATTTTGCAAGTCAATTACAACCAATTCCTATG
1 ATTGTTATCAACTACCTATATATTCAATTGAATATTCTCCAAGTCAATTACAACCAATCCCTATG
21721884 A
66 A
21721885 ATTGT
1 ATTGT
21721890 GGATTGGTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (66 bp):
ATTGTTATCAACTACCTATATATTCAATTGAATATTCTCCAAGTCAATTACAACCAATCCCTATG
A
Found at i:21730257 original size:38 final size:38
Alignment explanation
Indices: 21730214--21730292 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
21730204 CTACAGCGTT
*
21730214 ACCATTATTTTAGTTTTTTATTTTCACTTGATTTTTAA
1 ACCATTATTTTAGGTTTTTATTTTCACTTGATTTTTAA
21730252 ACCATTATTTTAGGTTTTTATTTTCACTTGATTTTTAA
1 ACCATTATTTTAGGTTTTTATTTTCACTTGATTTTTAA
21730290 ACC
1 ACC
21730293 TATGAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.06, T:0.57
Consensus pattern (38 bp):
ACCATTATTTTAGGTTTTTATTTTCACTTGATTTTTAA
Found at i:21730432 original size:18 final size:19
Alignment explanation
Indices: 21730406--21730441 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21730396 TATTTAAAAG
*
21730406 TATTTTTTCTCT-TTTTTT
1 TATTCTTTCTCTCTTTTTT
21730424 TATTCTTTCTCTCTTTTT
1 TATTCTTTCTCTCTTTTT
21730442 CAATTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTCTTTCTCTCTTTTTT
Found at i:21730562 original size:18 final size:18
Alignment explanation
Indices: 21730518--21730555 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
21730508 GGAGAGGAAC
21730518 TAATTTATTTTTGGAACAA
1 TAATTT-TTTTTGGAACAA
21730537 TAATTTTTTTTGGAA-AA
1 TAATTTTTTTTGGAACAA
21730554 TA
1 TA
21730556 TCTTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (18 bp):
TAATTTTTTTTGGAACAA
Found at i:21730675 original size:23 final size:23
Alignment explanation
Indices: 21730637--21730696 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
21730627 TGAAATAATT
* *
21730637 TTAAATAATA-AAATTTTATTAA
1 TTAAATAATATTAATTTAATTAA
*
21730659 CTT-ATTAATATTAATTTAATTAA
1 -TTAAATAATATTAATTTAATTAA
21730682 TTAAATAATATTAAT
1 TTAAATAATATTAAT
21730697 AATAATTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAATAATATTAATTTAATTAA
Found at i:21741641 original size:103 final size:103
Alignment explanation
Indices: 21741320--21741656 Score: 453
Period size: 109 Copynumber: 3.2 Consensus size: 103
21741310 TAAATCTATT
* * ** * *
21741320 TATGGCTTCCTTT-TTTAATATTTCTTCATGTTTCAATCC-CCATAAAACAAGCCAACTATAGTC
1 TATGGCTTTCTTTCATTAATATTTCTTCATGTTTCAATCCAAAAAAAAAAAAGCCAACTATAGTC
21741383 CCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
66 CCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
* * *
21741421 TATGGCTTTCTTTCATAAATATTTCTTCATGTTTCAATCCAAAGAAAAAAAAAAAATAGCTAACC
1 TATGGCTTTCTTTCATTAATATTTCTTCATGTTTCAATCC-----AAAAAAAAAAA-AGCCAACT
**
21741486 ATAGTCCGAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
60 ATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
*
21741530 TATAGCTTTCTTTCATTAATATTTCTTCATGTTTCAATCCAAAAAAAAAAAAGCCAACTATAGTC
1 TATGGCTTTCTTTCATTAATATTTCTTCATGTTTCAATCCAAAAAAAAAAAAGCCAACTATAGTC
* * *
21741595 CCCACCTAATTTAAATAAAGCTTTAGTTTTCATCTTTA
66 CCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
**
21741633 TATGGCTTTCTTTTTTTAATATTT
1 TATGGCTTTCTTTCATTAATATTT
21741657 TTCTATTCTT
Statistics
Matches: 205, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
101 12 0.06
102 24 0.12
103 66 0.32
104 11 0.05
108 6 0.03
109 86 0.42
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (103 bp):
TATGGCTTTCTTTCATTAATATTTCTTCATGTTTCAATCCAAAAAAAAAAAAGCCAACTATAGTC
CCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTG
Found at i:21741678 original size:103 final size:104
Alignment explanation
Indices: 21741363--21741680 Score: 381
Period size: 103 Copynumber: 3.0 Consensus size: 104
21741353 CAATCCCCAT
*
21741363 AAAACAAGCCAACTATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
1 AAAAAAAGCCAACTATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
* * * **
21741428 TTCTTTCATAAATATTTCTTCATGTTTCAATCCAAAGAAAAAA
66 TTCTTTCATTAATATTTCTTC-T-ATTC-TTCC-ATCAAAAAA
* * ** *
21741471 AAAAAATAGCTAACCATAGTCCGAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATAGC
1 AAAAAA-AGCCAACTATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGC
* *
21741536 TTTCTTTCATTAATATTTCTTC-ATGT-TTCAATCCAAAAA
65 TTTCTTTCATTAATATTTCTTCTAT-TCTTCCATCAAAAAA
* * *
21741575 AAAAAAAGCCAACTATAGTCCCCACCTAATTTAAATAAAGCTTTAGTTTTCATCTTTATATGGCT
1 AAAAAAAGCCAACTATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
** **
21741640 TTCTTTTTTTAATATTT-TTCTATTCTTCCATCTTAAAA
66 TTCTTTCATTAATATTTCTTCTATTCTTCCATCAAAAAA
21741678 AAA
1 AAA
21741681 CCCATGCAAC
Statistics
Matches: 180, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
102 4 0.02
103 81 0.45
104 12 0.07
105 2 0.01
106 1 0.01
107 1 0.01
108 5 0.03
109 74 0.41
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (104 bp):
AAAAAAAGCCAACTATAGTCCCCACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
TTCTTTCATTAATATTTCTTCTATTCTTCCATCAAAAAA
Found at i:21746472 original size:24 final size:24
Alignment explanation
Indices: 21746440--21746491 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
21746430 TCATCATGTG
* *
21746440 GCAGATAGAAGTAGAAATGCAGAA
1 GCAGATAGAAGTAAAAATACAGAA
21746464 GCAGATAGAAGTAAAAATACAGAA
1 GCAGATAGAAGTAAAAATACAGAA
21746488 GCAG
1 GCAG
21746492 CCTGGCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.27, T:0.12
Consensus pattern (24 bp):
GCAGATAGAAGTAAAAATACAGAA
Found at i:21748773 original size:107 final size:107
Alignment explanation
Indices: 21748625--21748920 Score: 448
Period size: 107 Copynumber: 2.8 Consensus size: 107
21748615 CAATCCCCAT
* * **
21748625 AAAACAAGCCAACTATAGTCCCCGCCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
1 AAAAAAAGCCAACCATAGTCCCAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
*
21748690 TTCTTTCATTAATATTTCTTCATGTTTCAATCCAAAAAAAAA
66 TTCTTTCATTAATATTTCTTCATGGTTCAATCCAAAAAAAAA
* * * *
21748732 AAAAATAGCTAACCATAGTCCGAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATAGCT
1 AAAAAAAGCCAACCATAGTCCCAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
21748797 TTCTTTCATTAATATTTCTTCATGGTTCAATCCAAAAAAAAA
66 TTCTTTCATTAATATTTCTTCATGGTTCAATCCAAAAAAAAA
* * * * *
21748839 AAAAAAAGCCAACTATAGTCCCCACCTAATTTAAATAAAGCTTTAGTTTTCATCTTTATATGGCT
1 AAAAAAAGCCAACCATAGTCCCAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
**
21748904 TTCTTTTTTTAATATTT
66 TTCTTTCATTAATATTT
21748921 TTCTATTCTT
Statistics
Matches: 169, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 169 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (107 bp):
AAAAAAAGCCAACCATAGTCCCAACCTATTTTAAACAAAGCTTTAGTTTTCATCTTTGTATGGCT
TTCTTTCATTAATATTTCTTCATGGTTCAATCCAAAAAAAAA
Found at i:21750502 original size:52 final size:50
Alignment explanation
Indices: 21750414--21750529 Score: 126
Period size: 52 Copynumber: 2.3 Consensus size: 50
21750404 ATCAAAGTCC
* ** * *
21750414 TTGAGACTTTAAAAATCTCATTTAAAAATGGTTCCCCTTAAAT-AGAGGTT
1 TTGAAACTTTAAAAATCTCATTTAAAAATGACTCCCCAT-AATCAGAGGCT
* * *
21750464 TTGAAGCTTTAAAAAGTCTTATTTGAGAAATGACTCCCCATAATCAGAGGCT
1 TTGAAACTTTAAAAA-TCTCATTT-AAAAATGACTCCCCATAATCAGAGGCT
21750516 TTGAAACTTTAAAA
1 TTGAAACTTTAAAA
21750530 TTTAAAATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 13 0.24
51 10 0.19
52 31 0.57
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (50 bp):
TTGAAACTTTAAAAATCTCATTTAAAAATGACTCCCCATAATCAGAGGCT
Found at i:21750718 original size:59 final size:58
Alignment explanation
Indices: 21750629--21750795 Score: 162
Period size: 59 Copynumber: 2.8 Consensus size: 58
21750619 TTAGAACTTT
*
21750629 AAAAATCTTGTATGAAAAT-GGTTTCCCCTAAACAGAGGCTTTGAAACTTTCTTT-T-TTAA
1 AAAAATCTTGTTTGAAAATGGGTTT--CCTAAACAGAGGCTTTGAAACTTT-TTTCTCTT-A
* *
21750688 AAAAATCTTGTTTGAAAATGGGTATTCCTAAACAGAAGCTTTGAAACTCTTTTTCTCTTT
1 AAAAATCTTGTTTGAAAATGGGT-TTCCTAAACAGAGGCTTTGAAACT-TTTTTCTCTTA
** * * * *
21750748 TTAAATCTT-TTTGAAAATGGCTCCTCCCAAACAGAGGCTGTGAAACTT
1 AAAAATCTTGTTTGAAAATGGGT-TTCCTAAACAGAGGCTTTGAAACTT
21750796 AAAAAATATA
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
58 1 0.01
59 74 0.80
60 13 0.14
61 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (58 bp):
AAAAATCTTGTTTGAAAATGGGTTTCCTAAACAGAGGCTTTGAAACTTTTTTCTCTTA
Found at i:21751782 original size:24 final size:24
Alignment explanation
Indices: 21751755--21751806 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
21751745 TTTTATTGTT
21751755 TTTTGCCTTT-TGTTTTGTTTTCTC
1 TTTTGCCTTTCT-TTTTGTTTTCTC
**
21751779 TTTTTTCTTTCTTTTTGTTTTCTC
1 TTTTGCCTTTCTTTTTGTTTTCTC
21751803 TTTT
1 TTTT
21751807 TTTGTCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (24 bp):
TTTTGCCTTTCTTTTTGTTTTCTC
Found at i:21751783 original size:13 final size:13
Alignment explanation
Indices: 21751767--21751807 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
21751757 TTGCCTTTTG
21751767 TTTTGTTTTCTCT
1 TTTTGTTTTCTCT
*
21751780 TTTT-TCTT-TCT
1 TTTTGTTTTCTCT
21751791 TTTTGTTTTCTCT
1 TTTTGTTTTCTCT
21751804 TTTT
1 TTTT
21751808 TTGTCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTGTTTTCTCT
Found at i:21767140 original size:98 final size:96
Alignment explanation
Indices: 21767025--21767262 Score: 274
Period size: 98 Copynumber: 2.4 Consensus size: 96
21767015 ACCCATCTAG
* * * *
21767025 ACAAAACTTTAG--TTCATCTATATACGGCTTCCTTT-TTTAATATTTCATGTTTCAATCCC-TA
1 ACAAAGCTTTAGTTTTCATCTTTATATGGCTT-CTTTCTTTAATA---CATGTTTCAATCCCAAA
*
21767086 AAAAACAAGCCAACCATAGTCCCCACCT-ATTTTAA
62 AAAAAAAAGCCAACCATAGTCCCCA-CTGATTTTAA
21767121 ACAAAGCTTTAGTTTTCATCTTTATATGGCATTCTTTCTTT-A-ACATGTTTCAATCCCAAAAAA
1 ACAAAGCTTTAGTTTTCATCTTTATATGGC-TTCTTTCTTTAATACATGTTTCAATCCC---AAA
* *
21767184 AAAAAAAAGCCAGCCTTAGTCCCCACTGATTTTAA
62 AAAAAAAAGCCAACCATAGTCCCCACTGATTTTAA
21767219 ACAAAGCTTTAGTTTTCATCTTTATATGGCTTTCTTTCTTTAAT
1 ACAAAGCTTTAGTTTTCATCTTTATATGGC-TTCTTTCTTTAAT
21767263 TTTTTCTATT
Statistics
Matches: 123, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
94 14 0.11
96 11 0.09
97 3 0.02
98 89 0.72
99 6 0.05
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (96 bp):
ACAAAGCTTTAGTTTTCATCTTTATATGGCTTCTTTCTTTAATACATGTTTCAATCCCAAAAAAA
AAAAGCCAACCATAGTCCCCACTGATTTTAA
Done.