Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 69 of 199
Found at i:19506721 original size:52 final size:48
Alignment explanation
Indices: 19506702--19506904 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 48
19506692 TGACAAGTGG
* * *
19506702 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTAATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19506748 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
19506800 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
19506846 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
19506892 AAAGTGATAAGTG
1 AAAGTGATAAGTG
19506905 GCTACACTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 99 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:19506760 original size:98 final size:98
Alignment explanation
Indices: 19506640--19506904 Score: 440
Period size: 98 Copynumber: 2.7 Consensus size: 98
19506630 AGTACTTCTG
* *
19506640 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGAAAA
19506705 GTGATAAGTAATAGCTTCGGCTATACTTATCTA
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTA
**
19506738 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGAAAA
* *
19506803 GTGATAAGTGATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTA
* * *
19506836 ATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGTGAAA
19506901 AGTG
65 AGTG
19506905 GCTACACTTA
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
98 144 0.93
99 11 0.07
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGAAAA
GTGATAAGTAATAGCTTCGGCTATACTTATCTA
Found at i:19506912 original size:37 final size:37
Alignment explanation
Indices: 19506868--19507013 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19506858 GATAGCTTTA
*
19506868 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19506905 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
19506942 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
19506979 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19507014 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:19508618 original size:13 final size:13
Alignment explanation
Indices: 19508600--19508627 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19508590 TTGTCTGATC
19508600 TTATAGACTTCAA
1 TTATAGACTTCAA
19508613 TTATAGACTTCAA
1 TTATAGACTTCAA
19508626 TT
1 TT
19508628 TGCATCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
TTATAGACTTCAA
Found at i:19512042 original size:6 final size:6
Alignment explanation
Indices: 19512028--19512063 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
19512018 TAAAAATAAA
19512028 TTTATAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTA-AT TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
19512064 AACCTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:19520087 original size:18 final size:17
Alignment explanation
Indices: 19520060--19520094 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19520050 TATTATAATT
*
19520060 AAATAAAAATTCATTCA
1 AAATAAAAATTAATTCA
19520077 AAATGAAAAATTAATTCA
1 AAAT-AAAAATTAATTCA
19520095 GGTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTAATTCA
Found at i:19520564 original size:14 final size:15
Alignment explanation
Indices: 19520530--19520568 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
19520520 AAAGTTAGAT
*
19520530 TATATAAATTTATTA
1 TATATAAAATTATTA
*
19520545 TTTATAAAATT-TTA
1 TATATAAAATTATTA
19520559 TATATAAAAT
1 TATATAAAAT
19520569 ATAAAATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATAAAATTATTA
Found at i:19521232 original size:11 final size:11
Alignment explanation
Indices: 19521216--19521265 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
19521206 TCAATTATTT
19521216 TCTCAATTTCC
1 TCTCAATTTCC
* *
19521227 TCTCAAATTGC
1 TCTCAATTTCC
19521238 TCTCAATTTCC
1 TCTCAATTTCC
*
19521249 TTCTAAATTT-C
1 -TCTCAATTTCC
19521260 TCTCAA
1 TCTCAA
19521266 ATCCATATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
10 5 0.16
11 19 0.59
12 8 0.25
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:19521243 original size:22 final size:22
Alignment explanation
Indices: 19521216--19521265 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19521206 TCAATTATTT
19521216 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTCT-AAATTGC
*
19521238 TCTCAATTTCCTTCTAAATTTC
1 TCTCAATTTCCTTCTAAATTGC
19521260 TCTCAA
1 TCTCAA
19521266 ATCCATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAATTTCCTTCTAAATTGC
Found at i:19522298 original size:13 final size:13
Alignment explanation
Indices: 19522282--19522309 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19522272 ATATTATAAA
19522282 AATTAACTATATT
1 AATTAACTATATT
19522295 AATTAACTATATT
1 AATTAACTATATT
19522308 AA
1 AA
19522310 ATAATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTAACTATATT
Found at i:19522508 original size:18 final size:18
Alignment explanation
Indices: 19522454--19522508 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
19522444 TAATACAATA
* *
19522454 AAATATTTATTATATTTAT
1 AAATATTTTTTA-ATATAT
19522473 AATAGTATTTTTT-A-ATAT
1 AA-A-TATTTTTTAATATAT
19522491 AAATATTTTTTAATATAT
1 AAATATTTTTTAATATAT
19522509 TTTTATTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.27
17 2 0.07
18 9 0.30
19 3 0.10
20 1 0.03
21 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AAATATTTTTTAATATAT
Found at i:19523306 original size:25 final size:27
Alignment explanation
Indices: 19523273--19523322 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
19523263 ATTAATATAT
*
19523273 TTAAAAAAAT-TT-AATTCGATTAAAG
1 TTAAAAAAATATTCAATTCAATTAAAG
19523298 TTAAAAAAATATTCAATTCAATTAA
1 TTAAAAAAATATTCAATTCAATTAA
19523323 TAACCCATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 2 0.09
27 10 0.45
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (27 bp):
TTAAAAAAATATTCAATTCAATTAAAG
Found at i:19525635 original size:18 final size:18
Alignment explanation
Indices: 19525612--19525647 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19525602 TTCCCTTCTA
19525612 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATTTT
* *
19525630 ATTTCTCTCTCAACTTTT
1 ATTTCTCACTCAAATTTT
19525648 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTCTCACTCAAATTTT
Found at i:19526376 original size:91 final size:88
Alignment explanation
Indices: 19526205--19526376 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 88
19526195 GCTAGAAGCT
* *
19526205 TTTTTGTTATTTTGGCCCAATCCCGTAATTTTACAAAAAAAAAGCCTAATCCAGTAATTATTTTA
1 TTTTTATTATTTTGGCCCAATCCCGTAATTTTACAAAAAAAAAACCTAATCCAGTAATTATTTTA
19526270 AAAAATCAAGATTTTTTATAGCA
66 AAAAATCAAGATTTTTTATAGCA
*
19526293 TTTTTATTATTTCT-GCCCAA-CCCTGTAATTTTACAAAAAAAAAACAACCTAATCCAGTTATTA
1 TTTTTATTATTT-TGGCCCAATCCC-GTAATTTTAC--AAAAAAAA-AACCTAATCCAGTAATTA
**
19526356 TTTTAAAAAATTGAGATTTTT
61 TTTTAAAAAATCAAGATTTTT
19526377 CATAAATTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
87 3 0.04
88 27 0.36
89 1 0.01
90 8 0.11
91 35 0.47
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (88 bp):
TTTTTATTATTTTGGCCCAATCCCGTAATTTTACAAAAAAAAAACCTAATCCAGTAATTATTTTA
AAAAATCAAGATTTTTTATAGCA
Found at i:19529731 original size:51 final size:51
Alignment explanation
Indices: 19529606--19529732 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 51
19529596 AAAGAGGTCC
* * **
19529606 CATGTAAGA-CATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCT
* * *
19529656 C-CGTAAGACCATGTCTGGGACATGGCATGGGCTCCGATATGAGAACAT-CT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-ACATCCT
19529706 CATGTAAGACCATGTCTGGGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
19529733 TTTGGCATGT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 6 0.09
50 34 0.52
51 26 0.39
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCT
Found at i:19536461 original size:8 final size:8
Alignment explanation
Indices: 19536448--19536475 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
19536438 CAAGCTTTTC
19536448 TTTTCTTT
1 TTTTCTTT
19536456 TTTTCTTT
1 TTTTCTTT
19536464 TTTTCTTT
1 TTTTCTTT
19536472 TTTT
1 TTTT
19536476 AGTCTCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Found at i:19539369 original size:22 final size:22
Alignment explanation
Indices: 19539322--19539373 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19539312 GCTCTAATGG
*
19539322 TTTTTATTTATTATTGCATTTA
1 TTTTTATTTATTATAGCATTTA
*
19539344 TTTTTCTTTATTATAGTC-TTT-
1 TTTTTATTTATTATAG-CATTTA
19539365 TTTTTATTT
1 TTTTTATTT
19539374 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 17 0.65
23 1 0.04
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTATTTATTATAGCATTTA
Found at i:19540925 original size:15 final size:15
Alignment explanation
Indices: 19540905--19540956 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
19540895 ACTACAAAAC
19540905 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
19540920 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
19540939 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
19540954 ATT
1 ATT
19540957 AATTTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:19541021 original size:16 final size:16
Alignment explanation
Indices: 19540990--19541026 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19540980 ATATGAAGAA
19540990 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19541006 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19541022 TATTA
1 TATTA
19541027 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19541050 original size:18 final size:18
Alignment explanation
Indices: 19541012--19541047 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19541002 TTATTATTTT
*
19541012 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
19541030 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
19541048 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:19541066 original size:34 final size:29
Alignment explanation
Indices: 19541011--19541088 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
19541001 ATTATTATTT
*
19541011 TTAA-AATTTATTATTAAAATAAAATTTAAATA
1 TTAATAATTTATTATAAAAAT-AAA-TT--ATA
19541043 TTAAATAATTTATTA-AAATAATAAATTATA
1 TT-AATAATTTATTATAAA-AATAAATTATA
19541073 TTAATAATTTATTATA
1 TTAATAATTTATTATA
19541089 TGATTAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 12 0.29
30 6 0.15
32 4 0.10
33 7 0.17
34 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATAATTTATTATAAAAATAAATTATA
Found at i:19541086 original size:16 final size:16
Alignment explanation
Indices: 19541040--19541089 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19541030 TAAAATTTAA
19541040 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
19541057 A-A--AATAATAAATT
1 ATATTAATAATTTATT
19541070 ATATTAATAATTTATT
1 ATATTAATAATTTATT
19541086 ATAT
1 ATAT
19541090 GATTAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:19541097 original size:29 final size:30
Alignment explanation
Indices: 19541021--19541086 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
19541011 TTAAAATTTA
*
19541021 TTATTAAAATAA-AATTTAAATATTAAATAAT
1 TTATTAAAATAATAAATT--ATATTAAATAAT
19541052 TTATTAAAATAATAAATTATATT-AATAAT
1 TTATTAAAATAATAAATTATATTAAATAAT
19541081 TTATTA
1 TTATTA
19541087 TATGATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 12 0.36
32 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAATAAT
Found at i:19545080 original size:22 final size:22
Alignment explanation
Indices: 19545053--19545103 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
19545043 CTCATATTTC
19545053 CTCTCAATTT-CTTTCCAAAATT
1 CTCTCAATTTCCTTT-CAAAATT
19545075 CTCTCAATTTCCTTTCAAAATT
1 CTCTCAATTTCCTTTCAAAATT
19545097 CTCTCAA
1 CTCTCAA
19545104 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCAATTTCCTTTCAAAATT
Found at i:19546983 original size:18 final size:18
Alignment explanation
Indices: 19546957--19546991 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19546947 AGGTGCGTTT
*
19546957 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
19546975 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
19546992 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:19547506 original size:25 final size:25
Alignment explanation
Indices: 19547468--19547605 Score: 155
Period size: 25 Copynumber: 5.7 Consensus size: 25
19547458 TATTTTGATA
19547468 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
19547493 TTATTTGATATAATAATATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
19547518 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
19547543 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
19547562 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
19547588 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
19547606 ACCCTAACCT
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.01
20 5 0.05
21 8 0.09
22 1 0.01
23 1 0.01
24 8 0.09
25 68 0.73
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:19547566 original size:95 final size:94
Alignment explanation
Indices: 19547424--19547603 Score: 324
Period size: 95 Copynumber: 1.9 Consensus size: 94
19547414 TATTTTGATA
*
19547424 TTATTTTATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
19547489 AAGTTTATTTGATATAATAATATAGAAGT
66 AAGTTTATTTGATATAATAATATAGAAGT
*
19547518 TTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAAAAAAATAGAAATTTTTT-GAGTTATTTTGATATTATTTGATGTAATAAAATA
*
19547583 GAAGTTTATTTGATGTAATAA
65 GAAGTTTATTTGATATAATAA
19547604 AAACCCTAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
94 28 0.34
95 54 0.66
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (94 bp):
TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGTTTATTTGATATAATAATATAGAAGT
Found at i:19547582 original size:45 final size:44
Alignment explanation
Indices: 19547414--19547595 Score: 215
Period size: 44 Copynumber: 4.0 Consensus size: 44
19547404 ATATTTTGAA
* *
19547414 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
*
19547458 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA-T
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGAGT
*
19547502 ATAATAATATAGA-AGTTTATTTGATGTAATAAAATAGAAATTTTTTCGAGT
1 -T-AT--T-TTGATA--TTATTTGATGTAATAAAATAGAAATTTTTT-GAGT
*
19547553 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGA
19547596 TGTAATAAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 23
0.80 0.05 0.15
Matches are distributed among these distances:
44 35 0.29
45 34 0.29
46 8 0.07
47 2 0.02
48 2 0.02
49 8 0.07
50 29 0.24
51 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (44 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
Found at i:19547653 original size:23 final size:23
Alignment explanation
Indices: 19547601--19547807 Score: 122
Period size: 23 Copynumber: 8.6 Consensus size: 23
19547591 TTTGATGTAA
* *
19547601 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAATCTAATTTAAT
***
19547624 CCTAAACCCTAATCTAATTTAAT
1 TAAAAACCCTAATCTAATTTAAT
19547647 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA---T---CTAATTTAAT
**
19547676 TAAAAACCCTAA---ACCTTAACT
1 TAAAAACCCTAATCTAATTTAA-T
**
19547697 TAAAAACCCTAA---ACCTTAACTT
1 TAAAAACCCTAATCTAATTTAA--T
*
19547719 TAAAAACCCTAACCTAATTTAA-
1 TAAAAACCCTAATCTAATTTAAT
*
19547741 TACAAAACCCTAACCTAATTTAAT
1 TA-AAAACCCTAATCTAATTTAAT
19547765 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA---T---CTAATTTAAT
19547794 TAAAAACCCTAATC
1 TAAAAACCCTAATC
19547808 CTAACCTAAT
Statistics
Matches: 151, Mismatches: 14, Indels: 38
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.03
21 20 0.13
22 15 0.10
23 58 0.38
24 2 0.01
25 5 0.03
26 2 0.01
29 44 0.29
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAATCTAATTTAAT
Found at i:19547669 original size:29 final size:29
Alignment explanation
Indices: 19547621--19548273 Score: 532
Period size: 29 Copynumber: 23.5 Consensus size: 29
19547611 AACCTAATTT
*
19547621 AACCCTAAACCCTAATCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
19547651 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19547680 AACCCT-A----AACC----TTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
* *
19547701 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19547723 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
19547746 AACCCT-A-----ACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19547769 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19547798 AACCCTAATCCTAACCTAATTTAATAATTTAATTAAA
1 AACCCTAACCCTAACC--------TAATTTAATTAAA
*
19547835 AACCCTACCCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19547864 AACTCTAACCCTAACCTAATTTAATTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
19547894 AA-CCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
19547923 AACCCTAACCCTAACCTAATTTAATTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
*
19547953 AA-CATAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
19547982 AACCCTAACCCTAACCTAATTTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19548011 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19548040 AACCCTAACTCTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
19548068 AACCCTAAACCTTAACTTAA--AAACTCTAAA
1 AACCCT-AACCCTAACCTAATTTAA-T-TAAA
** *
19548098 CCTTAACTTTAAAAACCCTAACCTAATTTAA-T-AC
1 ----AACCCT---AACCCTAACCTAATTTAATTAAA
19548132 AA----AACCCTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
19548156 AACCCCAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
19548185 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19548207 AACCCTAA--C--A--TAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19548230 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
19548259 AACCCTAACCCTAAC
1 AACCCTAACCCTAAC
19548274 TTAAAAACCC
Statistics
Matches: 527, Mismatches: 31, Indels: 131
0.76 0.04 0.19
Matches are distributed among these distances:
20 11 0.02
21 14 0.03
22 27 0.05
23 59 0.11
24 12 0.02
25 5 0.01
27 3 0.01
28 30 0.06
29 254 0.48
30 65 0.12
34 5 0.01
35 1 0.00
36 12 0.02
37 27 0.05
38 2 0.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:19547721 original size:22 final size:21
Alignment explanation
Indices: 19547671--19547730 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
19547661 CTAACCTAAT
19547671 TTAA-TTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
19547691 TTAACTTAAAAACCCTAAACC
1 TTAACTTAAAAACCCTAAACC
19547712 TTAACTTTAAAAACCCTAA
1 TTAAC-TTAAAAACCCTAA
19547731 CCTAATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.11
21 21 0.55
22 13 0.34
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:19547732 original size:21 final size:20
Alignment explanation
Indices: 19547675--19547783 Score: 94
Period size: 21 Copynumber: 5.0 Consensus size: 20
19547665 CCTAATTTAA
19547675 TTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCT-AACC-TAACT
19547696 TTAAAAACCCTAAACCTTAACT
1 TTAAAAACCCT-AACC-TAACT
*
19547718 TTAAAAACCCTAACCTAATT
1 TTAAAAACCCTAACCTAACT
*
19547738 TAATACAAAACCCTAACCTAATTT
1 T--TA-AAAACCCTAACCTAA-CT
19547762 AATTAAAAACCCTAACCCTAAC
1 --TTAAAAACCCTAA-CCTAAC
19547784 CTAATTTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
20 5 0.06
21 25 0.32
22 13 0.17
23 25 0.32
24 9 0.12
26 1 0.01
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAAAAACCCTAACCTAACT
Found at i:19547828 original size:37 final size:37
Alignment explanation
Indices: 19547785--19547859 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
19547775 AACCCTAACC
*
19547785 TAATTTAATTAAAAACCCTAATCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
19547822 TAATTTAATTAAAAACCCTACCCCTAACCTAATTTAA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
19547859 T
1 T
19547860 TAAAAACTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (37 bp):
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
Found at i:19547847 original size:118 final size:115
Alignment explanation
Indices: 19547606--19548060 Score: 458
Period size: 118 Copynumber: 3.8 Consensus size: 115
19547596 TGTAATAAAA
** * *
19547606 ACCCTAACCTAATTTAACCCTAAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 ACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
* * * *
19547671 TTAATTAAAAACCCTAAACCTTAACTTAA-AAACCCTAAACCTTAACTTTAAAA----
66 TTAATTAAAAACCCT-AACC-TAACCTAATTAA---T-AA-TTTAA-TTAAAAACCCT
19547724 ACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 ACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
19547789 TTAATTAAAAACCCTAATCCTAACCTAATTTAATAATTTAATTAAAAACCCT
66 TTAATTAAAAACCCTAA-CCTAACCTAA-TTAATAATTTAATTAAAAACCCT
*
19547841 ACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTAATTTAAAAA-CCTAAACCC
1 A-CCCTAACCTAATTTAA-T-ACAA----AACCCTAACCTAATTTAA-TTAAAAACCCT-AACCC
**
19547905 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT--TAATTTAAAAACATAAACCCT
57 TAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTAATAATTTAATTA-A-AAACCCT
* ** * * ** * *
19547965 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTACAAACCCTAACCTTAACCTAA
1 ACCCTAACCTAATTTAATA-CAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA
19548030 TTTAATTAAAAACCCTAACTCTAACCTAATT
65 TTTAATTAAAAACCCTAAC-CTAACCTAATT
19548061 TAATTAAAAC
Statistics
Matches: 294, Mismatches: 22, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
113 6 0.02
114 4 0.01
115 2 0.01
116 2 0.01
117 57 0.19
118 115 0.39
119 3 0.01
120 3 0.01
121 1 0.00
122 9 0.03
123 13 0.04
124 31 0.11
125 48 0.16
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (115 bp):
ACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
TTAATTAAAAACCCTAACCTAACCTAATTAATAATTTAATTAAAAACCCT
Found at i:19547907 original size:59 final size:58
Alignment explanation
Indices: 19547822--19548273 Score: 460
Period size: 59 Copynumber: 8.0 Consensus size: 58
19547812 CCTAATTTAA
* *
19547822 TAATTTAATTAAAAACCCT-ACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACC
1 TAATTTAATTAAAAA-CCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
19547880 TAATTTAATTTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAA-TTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
*
19547939 TAATTTAATTTAAAAACATAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAA-TTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
* * *
19547998 TAATTTAATTACAAACCCT-AACCTTAACCTAATTTAATTAAAAACCCTAACTCTAACC
1 TAATTTAATTA-AAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
* * * * * ** * **
19548056 TAATTTAATTAAAACCCTAAACCTTAACTTAA--AAACTCTAAACCTTAACTTTAAAAACCC
1 TAATTTAATTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCT---AA-CC
** * * * *
19548116 TAACCTAATTTAATA-CAAAACCCTAACCTAATTTAATT-AAAACCCCAACCCTAACC
1 TAATTTAATTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
*
19548172 TAATTTAATTAAAAACCCTAAA-CCT----TAA-CT--TTAAAAACCCTAA--C--A--
1 TAATTTAATTAAAAA-CCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
19548217 TAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 TAATTTAATTAAAAA-CCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
19548274 TTAAAAACCC
Statistics
Matches: 331, Mismatches: 37, Indels: 53
0.79 0.09 0.13
Matches are distributed among these distances:
44 2 0.01
45 22 0.07
47 1 0.00
49 4 0.01
50 3 0.01
51 9 0.03
52 14 0.04
53 3 0.01
54 1 0.00
56 28 0.08
57 12 0.04
58 78 0.24
59 130 0.39
60 21 0.06
61 3 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (58 bp):
TAATTTAATTAAAAACCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACC
Found at i:19547929 original size:88 final size:86
Alignment explanation
Indices: 19547822--19548273 Score: 453
Period size: 88 Copynumber: 5.3 Consensus size: 86
19547812 CCTAATTTAA
* *
19547822 TAATTTAATTAAAAACCCTACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
19547887 ATTTAAAAACCTAAACCCTAACC
66 A-TTAAAAACCT-AACCCTAACC
*
19547910 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTTAAAAA-CATAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TTAAAAACCCT-AACCCTAACCTAATT
19547974 TAATTAAAAACCCTAACCCTAACC
64 TAATTAAAAA-CCTAACCCTAACC
* * *
19547998 TAATTTAATTACAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACTCTAACCTAATTTA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
* * *
19548063 ATTAAAACCCTAAACCTTAACT
66 ATTAAAAACCT-AACCCTAACC
* ** *
19548085 TAA--AAACTCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAA-T-ACAA----AACCCTAA
1 TAATTTAA-T-TAAA----AACCCT---AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
19548142 CCTAATTTAATTAAAACCCCAACCCTAACC
57 CCTAATTTAATTAAAAACCTAACCCTAACC
* *
19548172 TAATTTAATTAAAAACCCTAAACCT----TAA-CT--TTAAAAACCCTAA--C--A--TAATTTA
1 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
19548224 ATTAAAAACCCTAACCCTAACC
66 ATTAAAAA-CCTAACCCTAACC
19548246 TAATTTAATTAAAAACCCTAACCCTAAC
1 TAATTTAATTAAAAACCCTAACCCTAAC
19548274 TTAAAAACCC
Statistics
Matches: 309, Mismatches: 29, Indels: 63
0.77 0.07 0.16
Matches are distributed among these distances:
73 14 0.05
74 37 0.12
75 5 0.02
76 3 0.01
77 1 0.00
79 2 0.01
80 5 0.02
83 4 0.01
85 2 0.01
86 4 0.01
87 59 0.19
88 118 0.38
89 30 0.10
91 4 0.01
92 3 0.01
93 1 0.00
94 17 0.06
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (86 bp):
TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
ATTAAAAACCTAACCCTAACC
Found at i:19547988 original size:213 final size:212
Alignment explanation
Indices: 19547621--19548075 Score: 571
Period size: 213 Copynumber: 2.2 Consensus size: 212
19547611 AACCTAATTT
*
19547621 AACCCTAAACCCTAATCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * ** * ** *
19547686 AAACCTTAACTTAAAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAATACAAAACCC
66 AAACCCTAACCTAAAAACCAAAAACCCTAACCCT--AAACCCTAACCTAATTTAAAACAAAACCC
19547751 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAATCC-TAACCT
129 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTTAACCT
19547815 AATTTAATAATTTAATTAAA
193 AATTTAATAATTTAATTAAA
* *
19547835 AACCCT-ACCCCTAACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTAATTTAAAAA-CC
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA-TTAAAAACCC
* ** **
19547898 TAAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-AA-CCTAATTTAATTTAAAAACATAAA
65 TAAACCCTAACCTAA--AAACCAAAAACCCTAACCCTAAACCCTAACCTAATTT-AAAACA-AAA
*
19547961 CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTACAAACCCTAACCTTAAC
126 CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAAC
19548026 C--------TAATTTAATTAAA
191 CTAATTTAATAATTTAATTAAA
*
19548040 AACCCT-AACTCTAACCTAATTTAATT-AAAACCCTAA
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAA
19548076 ACCTTAACTT
Statistics
Matches: 215, Mismatches: 20, Indels: 22
0.84 0.08 0.09
Matches are distributed among these distances:
204 9 0.04
205 37 0.17
211 11 0.05
212 9 0.04
213 124 0.58
214 13 0.06
215 12 0.06
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (212 bp):
AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
AAACCCTAACCTAAAAACCAAAAACCCTAACCCTAAACCCTAACCTAATTTAAAACAAAACCCTA
ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACCTAAT
TTAATAATTTAATTAAA
Found at i:19548096 original size:21 final size:22
Alignment explanation
Indices: 19548066--19548333 Score: 101
Period size: 22 Copynumber: 11.5 Consensus size: 22
19548056 TAATTTAATT
19548066 AAAACCCTAAACCTTAAC-TTA
1 AAAACCCTAAACCTTAACTTTA
*
19548087 AAAACTCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
*
19548109 AAAACCCT-AACC-TAATTTAATA
1 AAAACCCTAAACCTTAACTT--TA
19548131 CAAAACCCT-AACC-TAA-TTTAA
1 -AAAACCCTAAACCTTAACTTT-A
* * *
19548152 TTAAAACCCCAACCCTAACCTAATTTAATTA
1 --AAAACCCTAAACCT----TAA-CT--TTA
19548183 AAAACCCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
* *
19548205 AAAACCCT-AA-CATAATTTAATTA
1 AAAACCCTAAACCTTAA-CT--TTA
* *
19548228 AAAACCCTAACCCTAACCTAATTTAATTA
1 AAAACCCTAAACCT----TAA-CT--TTA
*
19548257 AAAACCCT-AACCCTAAC-TTA
1 AAAACCCTAAACCTTAACTTTA
*
19548277 AAAACCCTAAGCCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
* *
19548299 AAAACTCT-AACC-TAATTTAATTA
1 AAAACCCTAAACCTTAA-CT--TTA
19548322 AAAACCCTAAAC
1 AAAACCCTAAAC
19548334 TAAGTTAATA
Statistics
Matches: 194, Mismatches: 22, Indels: 59
0.71 0.08 0.21
Matches are distributed among these distances:
20 24 0.12
21 36 0.19
22 42 0.22
23 39 0.20
24 8 0.04
25 4 0.02
28 6 0.03
29 31 0.16
30 1 0.01
31 1 0.01
32 2 0.01
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAACCCTAAACCTTAACTTTA
Found at i:19548137 original size:94 final size:92
Alignment explanation
Indices: 19548017--19548336 Score: 410
Period size: 94 Copynumber: 3.4 Consensus size: 92
19548007 TACAAACCCT
*
19548017 AACCTTAACCTAATTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAACCCTAAACCTTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAC-CTAACCTAATTTAATTAAAACCCT-AACCTTA
*
19548082 ACTTAAAAACTCTAAACCTTAACTTTAAA
64 ACTTAAAAACCCTAAACCTTAACTTTAAA
** * ****
19548111 AACCCTAACCTAATTTAA-TACAAAACCCTAACCTAATTTAATTAAAACCCCAACCCTAACCTAA
1 AACCCTAACCTAATTTAATTA-AAAACCCTAACCTAACCTAATT-TAATTAAAACCCTAACC---
19548175 TTTAA-TTAAAAACCCTAAACCTTAACTTTAAA
61 -TTAACTTAAAAACCCTAAACCTTAACTTTAAA
* *
19548207 AACCCTAACATAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATT-AAAACCCTAACCTTA
*
19548272 ACTTAAAAACCCTAAGCCTTAACTTTAAA
64 ACTTAAAAACCCTAAACCTTAACTTTAAA
* *
19548301 AACTCTAACCTAATTTAATTAAAAACCCTAAACTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAA
19548337 GTTAATAATT
Statistics
Matches: 194, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
93 22 0.11
94 91 0.47
96 55 0.28
97 26 0.13
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (92 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAACCCTAACCTTAAC
TTAAAAACCCTAAACCTTAACTTTAAA
Found at i:19548190 original size:74 final size:74
Alignment explanation
Indices: 19548106--19548277 Score: 260
Period size: 74 Copynumber: 2.3 Consensus size: 74
19548096 AACCTTAACT
* *
19548106 TTAAAAACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATT-AAAACCCCAACCCTAA
1 TTAAAAACCCTAACCTAACTTAATA-AAAACCCTAACATAATTTAATTAAAAACCCCAACCCTAA
19548170 CCTAATTTAA
65 CCTAATTTAA
*
19548180 TTAAAAACCCTAAACCTTAACTT--TAAAAACCCTAACATAATTTAATTAAAAACCCTAACCCTA
1 TTAAAAACCCT-AACC-TAACTTAATAAAAACCCTAACATAATTTAATTAAAAACCCCAACCCTA
19548243 ACCTAATTTAA
64 ACCTAATTTAA
19548254 TTAAAAACCCTAACCCTAACTTAA
1 TTAAAAACCCTAA-CCTAACTTAA
19548278 AAACCCTAAG
Statistics
Matches: 89, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
73 29 0.33
74 51 0.57
75 4 0.04
76 5 0.06
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (74 bp):
TTAAAAACCCTAACCTAACTTAATAAAAACCCTAACATAATTTAATTAAAAACCCCAACCCTAAC
CTAATTTAA
Found at i:19548237 original size:190 final size:198
Alignment explanation
Indices: 19547899--19548342 Score: 568
Period size: 190 Copynumber: 2.2 Consensus size: 198
19547889 TTAAAAACCT
*
19547899 AAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTTAAAAACATAAACCC
1 AAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAA-TTAAAAACACAAACCC
19547964 TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTACAAACCCTAACCTTAACCTA
59 TAACCTAATTTAATTAAAAACCCTAACCCTAACC--ATTTAA-TACAAACCCTAACC-T-A-CTA
* * *
19548029 ATTTAATTAAAAACCCTAACTCTAACCTAATTTAATT-AAAACCCTAAACCTTAACTTAAAAACT
118 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACTTAAAAACC
19548093 CTAAACCTTAACTTTAA
182 CTAAACCTTAACTTTAA
* *
19548110 AAACCCTAACCTAATTTAA-TACAAAACCCTAACCTAATTTAATT-AAAACCCCAACCCTAACCT
1 AAACCCTAACCTAATTTAATTA-AAAACCCTAACCTAATTTAATTAAAAACACAAACCCTAACCT
*
19548173 AATTTAATTAAAAACCCTAAACCTTAA-C-TTT-A-A-AAACCCTAA-C-A-TAATTTAATTAAA
65 AATTTAATTAAAAACCCT-AACCCTAACCATTTAATACAAACCCTAACCTACTAATTTAATTAAA
*
19548230 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAAAAACCCTAAGCCTTAAC
129 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAAAAACCCTAAACCTTAAC
19548295 TTTAA
194 TTTAA
* * *
19548300 AAACTCTAACCTAATTTAATTAAAAACCCTAAACTAAGTTAAT
1 AAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
19548343 AATTTTACAT
Statistics
Matches: 218, Mismatches: 11, Indels: 29
0.84 0.04 0.11
Matches are distributed among these distances:
190 107 0.49
191 10 0.05
192 1 0.00
195 1 0.00
196 9 0.04
197 1 0.00
199 1 0.00
200 3 0.01
203 35 0.16
204 9 0.04
205 18 0.08
208 1 0.00
209 2 0.01
210 1 0.00
211 19 0.09
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.28
Consensus pattern (198 bp):
AAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACACAAACCCTAACCTA
ATTTAATTAAAAACCCTAACCCTAACCATTTAATACAAACCCTAACCTACTAATTTAATTAAAAA
CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAAAAACCCTAAACCTTAACTT
TAA
Found at i:19548279 original size:20 final size:21
Alignment explanation
Indices: 19548254--19548318 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
19548244 CCTAATTTAA
19548254 TTAAAAACCCTAACCCTAAC-
1 TTAAAAACCCTAACCCTAACT
*
19548274 TTAAAAACCCTAAGCCTTAACT
1 TTAAAAACCCTAA-CCCTAACT
*
19548296 TTAAAAACTCTAA-CCTAA-T
1 TTAAAAACCCTAACCCTAACT
19548315 TTAA
1 TTAA
19548319 TTAAAAACCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 5 0.12
20 17 0.43
21 6 0.15
22 12 0.30
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (21 bp):
TTAAAAACCCTAACCCTAACT
Found at i:19548431 original size:37 final size:37
Alignment explanation
Indices: 19548390--19548557 Score: 99
Period size: 37 Copynumber: 4.4 Consensus size: 37
19548380 TTTTGACTGC
19548390 TACTAACAATTAATAATTTTATATAATTTGATAATTT
1 TACTAACAATTAATAATTTTATATAATTTGATAATTT
* * * *
19548427 TACTAACCATTAATACAATTTT-TA-GAGTTAATAATTT
1 TACTAACAATTAAT--AATTTTATATAATTTGATAATTT
* * ** * * * * * **
19548464 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATA-ATTTTATATAAT-TTGAT-AATTT
19548506 TACTAACAATTAATAATTTTATATAATTTGATAATTT
1 TACTAACAATTAATAATTTTATATAATTTGATAATTT
*
19548543 TACTAACCATTAATA
1 TACTAACAATTAATA
19548558 CAATTTTTTG
Statistics
Matches: 91, Mismatches: 29, Indels: 22
0.64 0.20 0.15
Matches are distributed among these distances:
37 44 0.48
38 13 0.14
39 17 0.19
40 8 0.09
41 2 0.02
42 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (37 bp):
TACTAACAATTAATAATTTTATATAATTTGATAATTT
Found at i:19548479 original size:116 final size:116
Alignment explanation
Indices: 19548336--19548575 Score: 444
Period size: 116 Copynumber: 2.1 Consensus size: 116
19548326 CCCTAAACTA
* *
19548336 AGTTAATAATTTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGCTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
19548401 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
*
19548452 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATT
1 AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
*
19548517 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTG
66 AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
19548568 AGTTAATA
1 AGTTAATA
19548576 CAATTTATCA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 120 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
AGTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTGCTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTAG
Found at i:19548592 original size:17 final size:18
Alignment explanation
Indices: 19548551--19548592 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19548541 TTTACTAACC
* *
19548551 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
19548569 GTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
19548586 ATTAATA
1 ATTAATA
19548593 ATTGCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:19551947 original size:126 final size:126
Alignment explanation
Indices: 19551605--19552081 Score: 699
Period size: 126 Copynumber: 3.8 Consensus size: 126
19551595 CCCAAACATG
* * *
19551605 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGTGATTTCACAAATTCTTTTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
19551670 TAGAAACGATTTTATACTATTTGCTTAGAAACGTC-AAAAAA-AATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * ** *
19551729 CTACTGTAGCAAAAGCGTGTCCACGA-GCCGTAATTTCACAAATTCTTCTCAAATAGCACCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * **
19551793 TAGTAGCGATTTTATATTATTTATTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* * * * *
19551854 CTACTGTAGCAAAAGCGTGTCCACGAGGGCACGATTTCACAAATTATTCTCAAATAGCATCTTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
19551919 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTGTTTCTTCCGTGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
* *
19551980 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
19552045 TAGAAACGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAA
19552082 CTCGAAATTA
Statistics
Matches: 314, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
123 63 0.20
124 30 0.10
125 42 0.13
126 179 0.57
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
Found at i:19560733 original size:5 final size:5
Alignment explanation
Indices: 19560723--19560779 Score: 98
Period size: 5 Copynumber: 11.4 Consensus size: 5
19560713 TTATGTTTTA
19560723 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-AT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
19560772 ATATAT TA
1 -TATAT TA
19560780 AATAAACTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 2 0.04
5 46 0.92
6 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:19561386 original size:22 final size:24
Alignment explanation
Indices: 19561360--19561403 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
19561350 TATGACAATA
19561360 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
19561382 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
19561404 AGCTTGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:19561666 original size:24 final size:23
Alignment explanation
Indices: 19561639--19561685 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19561629 TAATCATGGG
19561639 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
19561663 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
19561686 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:19567158 original size:13 final size:14
Alignment explanation
Indices: 19567142--19567182 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
19567132 CTTACAGATA
19567142 CAGATA-ACAGAAT
1 CAGATATACAGAAT
19567155 CAGATATACAGAAT
1 CAGATATACAGAAT
*
19567169 -AGATATAGAGAAT
1 CAGATATACAGAAT
19567182 C
1 C
19567183 CTACCTCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:19569194 original size:25 final size:26
Alignment explanation
Indices: 19569160--19569215 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
19569150 ATATTTTCTC
*
19569160 AAAATTTTAC-CAGGGCAAAATCGTT
1 AAAATTTTACTAAGGGCAAAATCGTT
*
19569185 AAAATTTTACTAAGGGTAAAATCGTT
1 AAAATTTTACTAAGGGCAAAATCGTT
19569211 AAAAT
1 AAAAT
19569216 GTTGTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (26 bp):
AAAATTTTACTAAGGGCAAAATCGTT
Found at i:19572820 original size:22 final size:20
Alignment explanation
Indices: 19572778--19572829 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
19572768 GATTTTTAAA
19572778 ATAAAAAAA-T-TAAAAATT
1 ATAAAAAAATTCTAAAAATT
* *
19572796 ATATATAAATTCTAAAAAGTAT
1 ATAAAAAAATTCTAAAAA-T-T
19572818 ATAAAAAAATTC
1 ATAAAAAAATTC
19572830 AAGCTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 6 0.23
21 1 0.04
22 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTCTAAAAATT
Found at i:19574469 original size:41 final size:41
Alignment explanation
Indices: 19574412--19574566 Score: 220
Period size: 41 Copynumber: 3.8 Consensus size: 41
19574402 TTTGAGGCAT
* *
19574412 TTTAGCGGCGCTTTTGAGAAAGCACCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
*
19574453 TTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
* * * * * *
19574494 TTTAACGGCATTTTTAAAAAAGTGCCGCTAATGCTCGTGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
*
19574535 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAAT
19574567 AATAAAATCT
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGTGCC
Found at i:19575857 original size:29 final size:29
Alignment explanation
Indices: 19575810--19575866 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
19575800 CAATGCATGG
* *
19575810 TTTAGGGTTTAAGGTTTAGGTGTTACCAT
1 TTTAAGGTTTAAGGATTAGGTGTTACCAT
*
19575839 TTTAAGGTTTATGGATTAGGTGTTACCA
1 TTTAAGGTTTAAGGATTAGGTGTTACCA
19575867 ATGTCCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.44
Consensus pattern (29 bp):
TTTAAGGTTTAAGGATTAGGTGTTACCAT
Found at i:19576152 original size:25 final size:25
Alignment explanation
Indices: 19576122--19576171 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
19576112 TTTTTTCAAA
*
19576122 ATTTTAAAAATATTT-TAAACTTTT
1 ATTTTTAAAATATTTATAAACTTTT
* *
19576146 ATTTTTATAATATTTATATACTTTT
1 ATTTTTAAAATATTTATAAACTTTT
19576171 A
1 A
19576172 AAGAAAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTAAAATATTTATAAACTTTT
Found at i:19581334 original size:42 final size:42
Alignment explanation
Indices: 19581255--19581343 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
19581245 TAAATTTTTT
* * * *
19581255 TAAAGGTTATGTTTTTAGTGGCGTTTTTGCGAGAAGCGTCGC
1 TAAAGGTTATGTTTTTAGCGGCGTTTTAGCGAAAAGCGCCGC
19581297 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTAG-GAAAAGCGCCGC
1 TAAAGGTTATGTT-TTTAGCGGCGTTT-TAGCGAAAAGCGCCGC
19581339 TAAAG
1 TAAAG
19581344 ATAGTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.10
42 35 0.85
43 2 0.05
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATGTTTTTAGCGGCGTTTTAGCGAAAAGCGCCGC
Found at i:19581370 original size:117 final size:118
Alignment explanation
Indices: 19581234--19581461 Score: 386
Period size: 117 Copynumber: 1.9 Consensus size: 118
19581224 GTAAATATTA
* *
19581234 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGTGGCGTTTTTGCGAGAAGCGTCGCTA
1 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTA
* *
19581299 AAGGT-TTGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
66 AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
* *
19581351 TTTGATTAAAATAATTTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCTAGAAGCGCCGCTA
1 TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTA
*
19581416 AAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
66 AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG
19581462 GTCGTGGTCT
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 66 0.64
118 37 0.36
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (118 bp):
TTTGATTAAAATAAATTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTA
AAGGTCGTGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAGTAT
Found at i:19581434 original size:43 final size:43
Alignment explanation
Indices: 19581387--19581676 Score: 391
Period size: 43 Copynumber: 6.7 Consensus size: 43
19581377 GTTATGTTTT
* ** * * *
19581387 TAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTCGTGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
19581430 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* *
19581473 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCGCGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * ***
19581516 TAGCGGCGTTTGTGGGAAAAACGCCGTTAAAGGTCGCAATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* * * *
19581559 TAACGGCGTTTCTGGGAAAAGCCCCTCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* *
19581602 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
* *
19581645 TAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
19581677 TTAGCGACGC
Statistics
Matches: 219, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 219 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
Found at i:19586983 original size:20 final size:22
Alignment explanation
Indices: 19586960--19587008 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19586950 ACTTGTATTA
* *
19586960 GTACTTCTCC-AA-ATGTAGTT
1 GTACTTCTCCTAAGAAGTACTT
19586980 GTACTTCTCCTAAGAAGTACTT
1 GTACTTCTCCTAAGAAGTACTT
19587002 GTACTTC
1 GTACTTC
19587009 ACTAGAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (22 bp):
GTACTTCTCCTAAGAAGTACTT
Found at i:19594037 original size:50 final size:50
Alignment explanation
Indices: 19593882--19594038 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
19593872 CTTCACATGC
*
19593882 GACCTATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
1 GACCTATCATTTCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
* ** * ** * ***
19593932 GTTCAAAGC-TATTCGGTATGCATAGTAGCCTGCACATAGTACTACACATGC
1 G-ACCTATCAT-TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
* *
19593983 GACCTATCATTTTGGTACACGTAGTAGCTTGCACATAGTACTACACACAT
1 GACCTATCATTTCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
19594033 GACCTA
1 GACCTA
19594039 GCAACTTCAC
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
50 43 0.53
51 38 0.47
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
GACCTATCATTTCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
Found at i:19598046 original size:13 final size:14
Alignment explanation
Indices: 19598019--19598060 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
19598009 CAAATTTACT
19598019 TTTTTAATAAGCAC
1 TTTTTAATAAGCAC
*
19598033 TTTTTCATAA-CAC
1 TTTTTAATAAGCAC
19598046 TTTTTAA-AAGCAC
1 TTTTTAATAAGCAC
19598059 TT
1 TT
19598061 CTCACTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 14 0.56
14 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (14 bp):
TTTTTAATAAGCAC
Found at i:19599302 original size:22 final size:22
Alignment explanation
Indices: 19599277--19599320 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19599267 ATTCATCATG
*
19599277 ATTTGAATAATAA-TATTAATAT
1 ATTTGAAT-ATAACTAATAATAT
*
19599299 ATTTTAATATAACTAATAATAT
1 ATTTGAATATAACTAATAATAT
19599321 TAATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTGAATATAACTAATAATAT
Found at i:19599882 original size:20 final size:18
Alignment explanation
Indices: 19599788--19599882 Score: 61
Period size: 20 Copynumber: 5.1 Consensus size: 18
19599778 AAAATTTAGC
*
19599788 TTTATAATTTCTTAATATT
1 TTTATAA-TTATTAATATT
*
19599807 TTTAATAATTATT-ATA-A
1 TTT-ATAATTATTAATATT
* **
19599824 TTTAT-ATTTTTACCATT
1 TTTATAATTATTAATATT
19599841 TTTATAATTATTAATAGCTT
1 TTTATAATTATTAATA--TT
*
19599861 TTTATGAATTTTTTAATATT
1 TTTAT-AA-TTATTAATATT
19599881 TT
1 TT
19599883 CCTATATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
15 5 0.09
16 3 0.05
17 8 0.14
18 10 0.17
19 7 0.12
20 15 0.26
21 2 0.03
22 8 0.14
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATAATTATTAATATT
Found at i:19609806 original size:25 final size:25
Alignment explanation
Indices: 19609772--19609821 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19609762 AGTAGAGACA
19609772 ATAAAATTGCATTTTATCCATATAC
1 ATAAAATTGCATTTTATCCATATAC
19609797 ATAAAATTGCATTTTATCCATATAC
1 ATAAAATTGCATTTTATCCATATAC
19609822 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
ATAAAATTGCATTTTATCCATATAC
Found at i:19611950 original size:11 final size:11
Alignment explanation
Indices: 19611928--19611958 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
19611918 TCATGGATTA
19611928 TCTCTATTTATT
1 TCTCT-TTTATT
19611940 TCTCTTTTATT
1 TCTCTTTTATT
19611951 TCTCTTTT
1 TCTCTTTT
19611959 TCCACCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (11 bp):
TCTCTTTTATT
Found at i:19617059 original size:34 final size:35
Alignment explanation
Indices: 19617016--19617081 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
19617006 CCCAAATCAA
19617016 CATCATTTGTTGTAT-CCTTTTCAATAGTTTACAG
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
*
19617050 CATCATTTGTTGTATCCCTTTTTAATAGTTTA
1 CATCATTTGTTGTATCCCTTTTCAATAGTTTA
19617082 ACGGTACACC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.50
Consensus pattern (35 bp):
CATCATTTGTTGTATCCCTTTTCAATAGTTTACAG
Found at i:19617526 original size:21 final size:21
Alignment explanation
Indices: 19617502--19617557 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
19617492 AACATTGGTG
*
19617502 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19617523 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19617544 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
19617558 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:19625898 original size:20 final size:19
Alignment explanation
Indices: 19625873--19625928 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
19625863 GAATATCATT
19625873 ATATTTGTAAAAATTTATAA
1 ATATTT-TAAAAATTTATAA
*
19625893 ATATTTTTAATAATTTA-AA
1 ATA-TTTTAAAAATTTATAA
*
19625912 AT-TTTTAAAAATATATA
1 ATATTTTAAAAATTTATA
19625929 TAGGATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.35
18 1 0.03
19 4 0.13
20 12 0.39
21 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATTTTAAAAATTTATAA
Found at i:19632192 original size:15 final size:15
Alignment explanation
Indices: 19632174--19632207 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19632164 ATCTTTTTAA
19632174 AAATAAAAAATAATT
1 AAATAAAAAATAATT
19632189 AAAT-AAAAATAATT
1 AAATAAAAAATAATT
*
19632203 TAATA
1 AAATA
19632208 CATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAAAAATAATT
Found at i:19643796 original size:3 final size:3
Alignment explanation
Indices: 19643788--19643815 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19643778 TGAAGGCATC
19643788 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19643816 TGAGATGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19644141 original size:18 final size:18
Alignment explanation
Indices: 19644107--19644142 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19644097 TATAATGTGT
*
19644107 TAAAAATTATATAATATA
1 TAAAAATTACATAATATA
*
19644125 TAAAAATTACATGATATA
1 TAAAAATTACATAATATA
19644143 AAGTATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAAATTACATAATATA
Found at i:19645580 original size:9 final size:9
Alignment explanation
Indices: 19645563--19645593 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19645553 TCGAGTTGAT
19645563 TCGAATAAC
1 TCGAATAAC
*
19645572 TCGATTAAC
1 TCGAATAAC
19645581 TCGAATAAC
1 TCGAATAAC
19645590 TCGA
1 TCGA
19645594 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19653569 original size:20 final size:20
Alignment explanation
Indices: 19653528--19653569 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19653518 TCTTATGCTA
* *
19653528 TTTCTGTTATTTCTTTTCTT
1 TTTCTGCTATTTATTTTCTT
19653548 TTTCTGCTATATTATTTT-TT
1 TTTCTGCTAT-TTATTTTCTT
19653568 TT
1 TT
19653570 CTCTTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTCTGCTATTTATTTTCTT
Found at i:19653992 original size:24 final size:24
Alignment explanation
Indices: 19653955--19654000 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19653945 GACTGTGGAC
*
19653955 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
19653979 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
19654001 GCTAAGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:19658322 original size:20 final size:21
Alignment explanation
Indices: 19658288--19658327 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19658278 TTGTAATTAG
19658288 TATTTTTAAAAAAT-ATTTTT
1 TATTTTTAAAAAATAATTTTT
**
19658308 TATTTTTAATTAATAATTTT
1 TATTTTTAAAAAATAATTTT
19658328 AACACATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAAAAAATAATTTTT
Found at i:19659468 original size:41 final size:41
Alignment explanation
Indices: 19659411--19659691 Score: 463
Period size: 41 Copynumber: 6.9 Consensus size: 41
19659401 CTTTGAGTTT
*
19659411 TCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
19659452 TCGGGTCTTTAACGGCGTTTTTGAAGAAGCACCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
19659493 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
**
19659534 TTAGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
19659575 TCTGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
19659616 TTGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
19659657 TCGGGTATTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
19659692 AAAAAATATT
Statistics
Matches: 224, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 224 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:19659921 original size:78 final size:76
Alignment explanation
Indices: 19659774--19659919 Score: 229
Period size: 79 Copynumber: 1.9 Consensus size: 76
19659764 TCTTAATTCC
* **
19659774 TTTCTCCCCTACCCCGATTCCCTTTATTTTCCCCCCAATTTCCCCAAATCGGTAGCCCTTTTATT
1 TTTCTCCCCTAACCCGATTCCCTTTATTTTCCCCCCAATTTCCCCAAATCGGTAGCCCTTGCA-T
19659839 TTTCCCAAATCA
65 TTTCCCAAATCA
19659851 TTTCTCCCTCTAACCCGATTCCCTTTATTTTTCCCCCCAATTTCCCCAAATCGGTAGCCCTCTGC
1 TTTCTCCC-CTAACCCGATTCCCTTTA-TTTTCCCCCCAATTTCCCCAAATCGGTAGCCCT-TGC
19659916 ATTT
63 ATTT
19659920 CCTCATCTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 8 0.13
78 17 0.27
79 36 0.57
80 2 0.03
ACGTcount: A:0.17, C:0.39, G:0.06, T:0.38
Consensus pattern (76 bp):
TTTCTCCCCTAACCCGATTCCCTTTATTTTCCCCCCAATTTCCCCAAATCGGTAGCCCTTGCATT
TTCCCAAATCA
Found at i:19663719 original size:43 final size:43
Alignment explanation
Indices: 19663624--19663798 Score: 189
Period size: 43 Copynumber: 4.1 Consensus size: 43
19663614 AATTTATGCT
* *
19663624 TTTAGTGGCGTTTGT-GAAAAAGTGTCGCTAAAAGTCAAT-GT-
1 TTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTC-CTGGTC
* * * * * *
19663665 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGTTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCCTGGTC
* *
19663708 TTTAGTGGCGTTTCTGGAAAAAGCGCCGCTAAAAGTCCTGGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCCTGGTC
*
19663751 TTTAGTGGCGTTTGTGGGAAAAGCG-CTGCT-AAAGATCCTGGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGTC-GCTAAAAG-TCCTGGTC
19663794 TTTAG
1 TTTAG
19663799 CGGCATTTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 14 0.12
42 24 0.21
43 74 0.66
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAAGTCCTGGTC
Found at i:19663774 original size:86 final size:84
Alignment explanation
Indices: 19663624--19663798 Score: 219
Period size: 86 Copynumber: 2.1 Consensus size: 84
19663614 AATTTATGCT
* * *
19663624 TTTAGTGGCGTTTGTGAAAAAGTGTCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGC
1 TTTAGTGGCGTTTCTGAAAAAGCGCCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGC
* * *
19663689 G-TCGCTAAAGGTCTTGTTC
66 GCT-GCTAAAGATCCTGGTC
* * *
19663708 TTTAGTGGCGTTTCTGGAAAAAGCGCCGCTAAAAGTC-CTGGTCTTTAGTGGCGTTTGTGGGAAA
1 TTTAGTGGCGTTTCT-GAAAAAGCGCCGCTAAAAGTCAAT-GT-TATAGCGGCGTTTGTGGGAAA
19663772 AGCGCTGCTAAAGATCCTGGTC
63 AGCGCTGCTAAAGATCCTGGTC
19663794 TTTAG
1 TTTAG
19663799 CGGCATTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
84 15 0.19
85 21 0.27
86 41 0.53
87 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (84 bp):
TTTAGTGGCGTTTCTGAAAAAGCGCCGCTAAAAGTCAATGTTATAGCGGCGTTTGTGGGAAAAGC
GCTGCTAAAGATCCTGGTC
Found at i:19663932 original size:22 final size:22
Alignment explanation
Indices: 19663900--19663942 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19663890 TAGCGGCGCT
* *
19663900 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
19663922 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
19663943 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:19664464 original size:63 final size:64
Alignment explanation
Indices: 19664368--19664500 Score: 259
Period size: 63 Copynumber: 2.1 Consensus size: 64
19664358 ACATTCTTTC
19664368 TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
1 TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
19664432 TTTCATGAG-TTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
1 TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
19664495 TTTCAT
1 TTTCAT
19664501 TCGAGTAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 60 0.87
64 9 0.13
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (64 bp):
TTTCATGAGTTTTTTTTTTATTCATTCTAGTTTAGAATAATTTAAGAGTGCATCATAGAAATTG
Found at i:19666367 original size:16 final size:16
Alignment explanation
Indices: 19666331--19666372 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
19666321 CTTAATTATC
*
19666331 AAATTATGAAAAAAAT
1 AAATTATTAAAAAAAT
*
19666347 AAATTATTAAAAATAT
1 AAATTATTAAAAAAAT
*
19666363 TAATT-TTAAA
1 AAATTATTAAA
19666373 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTATTAAAAAAAT
Found at i:19666710 original size:12 final size:12
Alignment explanation
Indices: 19666693--19666717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19666683 CCTGGCTTGC
19666693 TCTTTTTTCTTT
1 TCTTTTTTCTTT
19666705 TCTTTTTTCTTT
1 TCTTTTTTCTTT
19666717 T
1 T
19666718 TGTACATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:19668417 original size:31 final size:31
Alignment explanation
Indices: 19668379--19668454 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
19668369 TTGGCTTGGT
* *
19668379 TCAATTATATACATAAAAGTTTGATTTTGAA
1 TCAATTATATACATAAAAATTTAATTTTGAA
* * *
19668410 TCAATTATGTATATAAAAATTTAATTTTGAT
1 TCAATTATATACATAAAAATTTAATTTTGAA
*
19668441 TCAATTGTATACAT
1 TCAATTATATACAT
19668455 GACATAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (31 bp):
TCAATTATATACATAAAAATTTAATTTTGAA
Found at i:19668792 original size:21 final size:21
Alignment explanation
Indices: 19668766--19668807 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19668756 TCTAAAGGAA
19668766 AAGGATGCAACTTTTCTCATG
1 AAGGATGCAACTTTTCTCATG
19668787 AAGGATGCAACTTTTCTCATG
1 AAGGATGCAACTTTTCTCATG
19668808 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
AAGGATGCAACTTTTCTCATG
Found at i:19672228 original size:15 final size:15
Alignment explanation
Indices: 19672208--19672260 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
19672198 CTAACAAAAG
19672208 AACCCAATACCCACA
1 AACCCAATACCCACA
19672223 AACCCAATACCCACA
1 AACCCAATACCCACA
19672238 AACCCAATACCCACA
1 AACCCAATACCCACA
19672253 AACCCAAT
1 AACCCAAT
19672261 TACCATGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCAATACCCACA
Found at i:19672242 original size:8 final size:8
Alignment explanation
Indices: 19672216--19672258 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
19672206 AGAACCCAAT
19672216 ACCCACAA
1 ACCCACAA
*
19672224 ACCCA-AT
1 ACCCACAA
19672231 ACCCACAA
1 ACCCACAA
*
19672239 ACCCA-AT
1 ACCCACAA
19672246 ACCCACAA
1 ACCCACAA
19672254 ACCCA
1 ACCCA
19672259 ATTACCATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.05
Consensus pattern (8 bp):
ACCCACAA
Found at i:19673283 original size:3 final size:3
Alignment explanation
Indices: 19673275--19673327 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
19673265 TTAGTCCTAC
* * * *
19673275 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19673323 TAT TA
1 TAT TA
19673328 CCTATTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:19675630 original size:23 final size:24
Alignment explanation
Indices: 19675604--19675648 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
19675594 ACTAATAATC
*
19675604 ATTTCCTAATAT-ATATATTTTAT
1 ATTTCCTAATATAAAATATTTTAT
**
19675627 ATTTTTTAATATAAAATATTTT
1 ATTTCCTAATATAAAATATTTT
19675649 CATTTATCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTCCTAATATAAAATATTTTAT
Found at i:19675653 original size:23 final size:23
Alignment explanation
Indices: 19675610--19675653 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
19675600 AATCATTTCC
* *
19675610 TAATATATATATTTTATATTTTT
1 TAATATAAATATTTTACATTTTT
19675633 TAATATAAAATATTTT-CATTT
1 TAATAT-AAATATTTTACATTT
19675654 ATCCATATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATATAAATATTTTACATTTTT
Found at i:19676211 original size:2 final size:2
Alignment explanation
Indices: 19676204--19676236 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19676194 ATGAAAAACA
19676204 AT AT 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 AT AT A
19676237 ACTTAAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19676604 original size:22 final size:20
Alignment explanation
Indices: 19676582--19676621 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19676572 GAGTAGGAGA
19676582 AAAAAAATGAATTTTTTTAAG
1 AAAAAAAT-AATTTTTTTAAG
* *
19676603 AAATAAATAGTTTTTTTAA
1 AAAAAAATAATTTTTTTAA
19676622 ATCAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
AAAAAAATAATTTTTTTAAG
Found at i:19677878 original size:38 final size:37
Alignment explanation
Indices: 19677836--19677951 Score: 91
Period size: 38 Copynumber: 3.1 Consensus size: 37
19677826 AAACATATAC
19677836 ATAAAATTAAATTTAAGTATTTAAGAAGTAAAAGAATA
1 ATAAAATTAAATTTAAGTATTTAA-AAGTAAAAGAATA
* * * *
19677874 ATAAATAAGTAAA--TAAATCA-ATAAAA--AAAA-TATGA
1 AT-AA-AATTAAATTTAAGT-ATTTAAAAGTAAAAGAAT-A
*
19677909 ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATA
1 ATAAAATTAAATTTAAGTATTT-AAAAGTAAAAGAATA
19677947 ATAAA
1 ATAAA
19677952 CAAATAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 22
0.64 0.11 0.25
Matches are distributed among these distances:
33 5 0.09
34 5 0.09
35 12 0.21
36 4 0.07
37 2 0.04
38 18 0.32
39 5 0.09
40 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (37 bp):
ATAAAATTAAATTTAAGTATTTAAAAGTAAAAGAATA
Found at i:19677941 original size:73 final size:72
Alignment explanation
Indices: 19677773--19678036 Score: 345
Period size: 73 Copynumber: 3.7 Consensus size: 72
19677763 AAGTATTATC
* * * *
19677773 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAGATAGAT--AAAACATATAC
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAAAAAATATA-
*
19677836 ATAAAATT
65 ATAATATT
* *
19677844 AAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAGTAAATAAATCA-ATAAAAAAAATATG
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAT-AGATAAAAAAAATAT-
19677908 AATAATATT
64 AATAATATT
* * *
19677917 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAATAAATAGATATAACAAATATAA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAAAAAATAT-A
19677982 ATAATATT
65 ATAATATT
* * **
19677990 AAATTTAGGCATTTAAAAAGTAAAAGGGTAATAAATAAATAAATAAA
1 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAA
19678037 ACAAATATAA
Statistics
Matches: 170, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
71 45 0.26
72 2 0.01
73 122 0.72
74 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (72 bp):
AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAAAAAATATAA
TAATATT
Found at i:19677946 original size:35 final size:35
Alignment explanation
Indices: 19677836--19677949 Score: 90
Period size: 35 Copynumber: 3.2 Consensus size: 35
19677826 AAACATATAC
* *
19677836 ATAAAATTAAATTTAAGTATTTAAGAAGTAAAAGA
1 ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGA
* ** * *
19677871 ATAATAAATAAGTAAATAAATCA-ATAAAAA--AAATATGA
1 ATAAT-ATTAA--ATTTAAGT-ATTTAAAAAGTAAA-A-GA
19677909 ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGA
1 ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGA
19677944 ATAATA
1 ATAATA
19677950 AACAAATAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
34 1 0.02
35 23 0.40
36 8 0.14
37 8 0.14
38 17 0.29
39 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (35 bp):
ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGA
Found at i:19678034 original size:146 final size:146
Alignment explanation
Indices: 19677773--19678052 Score: 402
Period size: 146 Copynumber: 1.9 Consensus size: 146
19677763 AAGTATTATC
* * * * *
19677773 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAGATAGATAAAACATATACAT
1 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAATAAATAAATAGATAAAAAATATAAAT
* * * *
19677838 AAAATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAGTAAATAAATC-AATA-AAAA
66 AAAATTAAATTTAAGCATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAACAAATATAAAA
19677901 AAATATGAATAATATT
131 AAATATGAATAATATT
*
19677917 AAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAATAAATAGATATAACAAATATAA
1 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAATAAATAAATAGATA-AA-AAATATAA
* * **
19677982 ATAATATTAAATTTAGGCATTTAAAAAGTAAAAGGGTAATAAATAAATAAATAAAACAAATATAA
64 ATAAAATTAAATTTAAGCATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAACAAATATAA
19678047 AAAAAT
129 AAAAAT
19678053 GAAATTAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 49 0.42
145 2 0.02
146 55 0.47
147 4 0.03
148 8 0.07
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (146 bp):
AAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAATAAATAAATAGATAAAAAATATAAAT
AAAATTAAATTTAAGCATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAACAAATATAAAA
AAATATGAATAATATT
Found at i:19680173 original size:95 final size:96
Alignment explanation
Indices: 19680056--19680288 Score: 326
Period size: 95 Copynumber: 2.4 Consensus size: 96
19680046 GGAATTGTAG
* *
19680056 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTTTAACTTGTAGCTTTAATATGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
*
19680121 ACTATAACTTCA-GAGAAATAAGATTCGC-AT
66 ACTACAACTTCAGGA-AAATAAGATTCGCTAT
* * * * *
19680151 CTTCAATTTGCTCCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
* *
19680216 ACTGCAACTTCAGGAAAATAAGATTTGCTAT
66 ACTACAACTTCAGGAAAATAAGATTCGCTAT
* * *
19680247 CTTCAATCTACTTCACTGCAACTTCAAGGAGATAAGATTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGT
19680289 TTTAATCTGC
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
95 80 0.67
96 40 0.33
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (96 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTGTAACTTGTAGCTTCAATATGTTCC
ACTACAACTTCAGGAAAATAAGATTCGCTAT
Found at i:19680227 original size:51 final size:46
Alignment explanation
Indices: 19680024--19680469 Score: 283
Period size: 45 Copynumber: 9.6 Consensus size: 46
19680014 TCGTTCTAAC
* * *
19680024 CCACTGCAACTTCAGGG-GTATAGGAATTG--TAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGCTTAGCTTCAATCTGTT
* * * * *
19680068 CCACTGCAACTTCAAGGAGATAAAATTTTTAACTTGTAGCTTTAATATGTT
1 CCACTGCAACTTCAGGGAGATAAGA--TTT-GC-T-TAGCTTCAATCTGTT
** * * * * * *
19680119 CCACTATAACTTCAGAGAAATAAGATTCGC--ATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* *
19680163 CCACTACAACTTCAGGGAGATAATATTTGTAACTTGTAGCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C-T-TAGCTTCAATCTGTT
* * * *
19680214 CCACTGCAACTTCAGGAAAATAAGATTTGC-TATCTTCAATCTACTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCT-GTT
* *
19680260 -CACTGCAACTTCAAGGAGATAAGATTTG-TT---TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* *
19680300 ACACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCGTT-AATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C-T-TAGC-TTCAATCTGTT
* * * * *
19680351 CCACTGCAACTTCAGGGAAATAAGATTTAC-TATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
* * * * * *
19680396 CTATTACAACTTCAGGGAGATAAGATTTGC-TATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
*
19680441 CCACTGCAACTTCAGGGGGATAAGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
19680470 TGACTTTACT
Statistics
Matches: 315, Mismatches: 58, Indels: 57
0.73 0.13 0.13
Matches are distributed among these distances:
40 1 0.00
41 31 0.10
42 2 0.01
44 56 0.18
45 112 0.36
46 5 0.02
47 2 0.01
48 3 0.01
49 2 0.01
51 101 0.32
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (46 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTTAGCTTCAATCTGTT
Found at i:19680506 original size:137 final size:140
Alignment explanation
Indices: 19680120--19680475 Score: 490
Period size: 137 Copynumber: 2.6 Consensus size: 140
19680110 TAATATGTTC
* * * *
19680120 CACTATAACTTCAGAGAAATAAGATTCGC-ATCTTCAATTTGCTCCACTACAACTTCAGGGAGAT
1 CACTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGAT
* * *
19680184 AATATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCT
66 AAGATTTGTAACTTGTAGCTT-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATCT
19680249 TCAATCTACTT
130 TCAATCTACTT
* * * *
19680260 CACTGCAACTTCAAGGAGATAAGATTTG-T-T-TT-AATCTGCTACACTACAACTTCAGGGAGAT
1 CACTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGAT
19680321 AAGATTTGTAACTTGTAGCGTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATCT
66 AAGATTTGTAACTTGTAGC-TTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATCT
* *
19680386 TCAATTTGC-T
130 TCAATCTACTT
* * *
19680396 CTATTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGGGA
1 C-ACTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGA
*
19680461 TAAGATTTGTGACTT
65 TAAGATTTGTAACTT
19680476 TACTGATTTG
Statistics
Matches: 188, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
136 2 0.01
137 117 0.62
138 5 0.03
139 2 0.01
140 24 0.13
141 38 0.20
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (140 bp):
CACTACAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGAT
AAGATTTGTAACTTGTAGCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTACTATCTT
CAATCTACTT
Found at i:19683853 original size:18 final size:17
Alignment explanation
Indices: 19683808--19683863 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
19683798 ATCAAAGAAA
19683808 AATAA-AAT-CAATAAT
1 AATAATAATGCAATAAT
*
19683823 AAT-ACAATG-AATAAT
1 AATAATAATGCAATAAT
*
19683838 AATAATAATAGCAATAAC
1 AATAATAAT-GCAATAAT
19683856 AATAATAA
1 AATAATAA
19683864 AATAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 4 0.12
17 1 0.03
18 13 0.38
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATGCAATAAT
Found at i:19684015 original size:15 final size:15
Alignment explanation
Indices: 19683995--19684023 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19683985 AATTAAAGTT
19683995 GTAATAATAATAATG
1 GTAATAATAATAATG
19684010 GTAATAATAATAAT
1 GTAATAATAATAAT
19684024 AATATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
GTAATAATAATAATG
Found at i:19685932 original size:17 final size:17
Alignment explanation
Indices: 19685910--19685942 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19685900 CGGTTTTGTT
*
19685910 TTTTATTTATTTATTTA
1 TTTTATTTATTCATTTA
19685927 TTTTATTTATTCATTT
1 TTTTATTTATTCATTT
19685943 CAAGCTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTCATTTA
Found at i:19686190 original size:14 final size:13
Alignment explanation
Indices: 19686147--19686196 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
19686137 TTATTCATTT
*
19686147 ATTTGTTTGTTT-
1 ATTTATTTGTTTC
*
19686159 GTTTATTTG-TTC
1 ATTTATTTGTTTC
*
19686171 AATTATTCTGTTTC
1 ATTTATT-TGTTTC
19686185 ATTTATTTGTTT
1 ATTTATTTGTTT
19686197 ATTAAAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.07
12 12 0.40
13 7 0.23
14 9 0.30
ACGTcount: A:0.14, C:0.06, G:0.12, T:0.68
Consensus pattern (13 bp):
ATTTATTTGTTTC
Found at i:19693032 original size:87 final size:87
Alignment explanation
Indices: 19692883--19693297 Score: 652
Period size: 87 Copynumber: 4.8 Consensus size: 87
19692873 AGAACAGATC
* * * *
19692883 AGCAGATCAAAAATAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-GTCAGATT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAG-CAGATC
* *
19692947 TTACCTTCCTGCATTGACAGCGA
65 TTGCCTTCCTGCATTAACAGCGA
* * *
19692970 AGCAGATCAAAAACGAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
*
19693035 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTAACAGCGA
* * *
19693057 AGCAGATCGAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGATTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19693122 TGCCTTCCTGCATTAACAGCGA
66 TGCCTTCCTGCATTAACAGCGA
*
19693144 AGCAGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
19693209 TGCCTTCCTGCCTTAACAGCAA
66 TGCCTTCCTGCATTAACAGCGA
* *
19693231 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGTAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
19693296 TG
66 TG
19693298 TCCCTAAGCA
Statistics
Matches: 305, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
87 304 1.00
88 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTAACAGCGA
Found at i:19693435 original size:44 final size:44
Alignment explanation
Indices: 19693376--19693487 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
19693366 GGTCTTATAT
* * **
19693376 CCCTAAGGTTGCAGTGGAGCAGA-CTG-AGTAAGCAGGTCTTATCC
1 CCCTAAGCTTACAGTGGAGCAGATC-GAAG-AAGCAAATCTTATCC
* *
19693420 CCCTAAAGC-TACAGTGGGGCAGATCGAAGAAGCAAATCTTATCT
1 CCCT-AAGCTTACAGTGGAGCAGATCGAAGAAGCAAATCTTATCC
*
19693464 CCCTGAGCTTACAGTGGAGCAGAT
1 CCCTAAGCTTACAGTGGAGCAGAT
19693488 TAAAGCCGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
43 3 0.05
44 47 0.84
45 6 0.11
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (44 bp):
CCCTAAGCTTACAGTGGAGCAGATCGAAGAAGCAAATCTTATCC
Found at i:19697124 original size:15 final size:16
Alignment explanation
Indices: 19697100--19697132 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19697090 GCTTTCTTCC
19697100 TTTTTATATT-TTTCT
1 TTTTTATATTCTTTCT
*
19697115 TTTTTTTATTCTTTCT
1 TTTTTATATTCTTTCT
19697131 TT
1 TT
19697133 AAAAGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATATTCTTTCT
Found at i:19697888 original size:41 final size:44
Alignment explanation
Indices: 19697781--19697897 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 44
19697771 CACTACCTTC
* * *
19697781 AATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
19697825 AATC-GACTCTACTGCAACTTCAGAGAGATAAGG-TT-T-GCTAT
1 AATCTG-CTCTACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
* * *
19697866 GATCTGCTCTATTGCAATTTCAGAGAGATAAG
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAG
19697898 ATCTGTAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 31 0.48
42 2 0.03
43 3 0.05
44 29 0.45
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTGGCTAT
Found at i:19698018 original size:44 final size:45
Alignment explanation
Indices: 19697738--19698260 Score: 227
Period size: 44 Copynumber: 11.8 Consensus size: 45
19697728 GTAATCTCTT
* * * * *
19697738 TCTACCCCACTGCAGCTTCGGGGAGATAAGA-TTCACTACCTTCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GCTAGCTTCAA
* ** * *
19697783 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTTAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * ** *
19697827 TCGACTCTACTGCAACTTCAGAGAGATAAGGTTTGCTA---T-GA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * * * **
19697868 TCTGCTCTATTGCAATTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGA-C-----TTGCTAGCTTCAA
** * * * **
19697919 TCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATATTCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
*
19697964 TCTACTCCACTGTAACCTT-AGGGAGATAAGACTTG-TAGCTTCAA
1 TCTACTCCACTGCAA-CTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * * *
19698008 TCTACCCCACTACAACTTCAGGGGGATAAGA-TCTGCTATCTTCAT
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCTAGCTTCAA
* * *
19698053 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATA---T-GA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * * * * ** *
19698094 TTTGCTCTACTGTAACTTCAGAGAGATAATA-TCTG-TAATTTTAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCTAGCTTCAA
** * * * * *
19698138 TCTGTTCCACTGCAACTTCAGAGAAATAA-A-TCTACTATCTTCAG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TGCTAGCTTCAA
* * * * * * * *
19698182 TCTGCTCCATTGAAACTTCAGGGAGATAAGACTTACGA-TTTTAG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * *
19698226 TCTGCTCCACTGCAATTTCTGGGAGATAAGACTTG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTG
19698261 TTATGGTAGA
Statistics
Matches: 367, Mismatches: 86, Indels: 51
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.01
41 55 0.15
42 2 0.01
43 9 0.02
44 157 0.43
45 104 0.28
46 7 0.02
47 4 0.01
50 1 0.00
51 25 0.07
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
Found at i:19698024 original size:89 final size:89
Alignment explanation
Indices: 19697910--19698087 Score: 232
Period size: 89 Copynumber: 2.0 Consensus size: 89
19697900 CTGTAATTTA
*** * * *
19697910 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATATTCAATCTACTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
*
19697975 GTAACCTT-AGGGAGATAAGACTTG
66 GCAA-CTTCAGGGAGATAAGACTTG
** * * *
19697999 TAGCTTCAATCTACCCCACTACAACTTCAGGGGGATAAGATCTGCTATCTTCATTCTGCTCCACT
1 TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
19698064 GCAACTTCAGGGAGATAAGACTTG
66 GCAACTTCAGGGAGATAAGACTTG
19698088 ATATGATTTG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
88 3 0.04
89 73 0.96
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
TAGCTTCAATCTACCCCACTACAACTTCAGGGAAATAAGATCTGCTATATTCAATCTACTCCACT
GCAACTTCAGGGAGATAAGACTTG
Found at i:19698642 original size:182 final size:181
Alignment explanation
Indices: 19698323--19698674 Score: 440
Period size: 182 Copynumber: 1.9 Consensus size: 181
19698313 GTTTTAATCC
* * *
19698323 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCACTTTATAGCTTCAATCTGTTCCATTGCAATG
1 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAATG
* * * * *
19698388 CCAGAGAAATAAGATTCGCTATCTTCAGTCTGTTCTGCTGCAACTTCAGGGAGATAATACTGGTG
66 CCAGAGAAATAAGATTCGATATCTTCAGTCTGTTCTACTACAACTTCAGGGAGATAAGACTGGTA
* * *
19698453 GCTTCAATC-AGCTCCTCCGCAACTTCAAGGGGGATAAGATTTGATATGATTT
131 GCTTCAATCTA-CCCCACCGCAACTTC-AGAGGGATAAGATTTGATATGATTT
* * * *
19698505 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCATTATGTTCCACTGCAACT
1 GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAA-T
** * * * *
19698570 -TTAGAGAAATGAGATTTGATATCTTCAGTCTGCTTC-ACTACAACTTCAGGGAGGTAAGACTTG
65 GCCAGAGAAATAAGATTCGATATCTTCAGTCTG-TTCTACTACAACTTCAGGGAGATAAGACTGG
* *
19698633 TATCTTCAATCTACCCCACTGCAACTTCAGAGGGATAAGATT
129 TAGCTTCAATCTACCCCACCGCAACTTCAGAGGGATAAGATT
19698675 AGTGGCTTTA
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
181 13 0.09
182 126 0.88
183 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (181 bp):
GCTCCACTGCAACTTCAAAGAGATAAGATCTGCAATTTATAGCTTCAATATGTTCCACTGCAATG
CCAGAGAAATAAGATTCGATATCTTCAGTCTGTTCTACTACAACTTCAGGGAGATAAGACTGGTA
GCTTCAATCTACCCCACCGCAACTTCAGAGGGATAAGATTTGATATGATTT
Found at i:19698658 original size:44 final size:44
Alignment explanation
Indices: 19698605--19698714 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
19698595 CAGTCTGCTT
* * *
19698605 CACTACAACTTCAGGGAGGTAAGACTT-GTATCTTCAATCTACCC
1 CACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTACCC
* * * *
19698649 CACTGCAACTTCAGAGG-GATAAGATTAGTGGCTTTAATCTGCTC
1 CACTGCAACTTCAG-GGAGATAAGATTAGTAGCTTCAATCTACCC
19698693 CACTGCAACTTCAGGGAGATAA
1 CACTGCAACTTCAGGGAGATAA
19698715 TATTCGCCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 4 0.07
44 50 0.89
45 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTACCC
Found at i:19699628 original size:31 final size:31
Alignment explanation
Indices: 19699587--19699651 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
19699577 TGGCCTCTCC
19699587 TTTTTCTTTTT-CTTTT-CTTCCTCTCCTTTTT
1 TTTTTCTTTTTCCTTTTACTT--TCTCCTTTTT
*
19699618 TTTTTCTTTTTCCTTTTACTTTTTCCTTTTT
1 TTTTTCTTTTTCCTTTTACTTTCTCCTTTTT
19699649 TTT
1 TTT
19699652 ATTTATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 23 0.74
32 5 0.16
33 3 0.10
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTTCTTTTTCCTTTTACTTTCTCCTTTTT
Found at i:19699639 original size:13 final size:13
Alignment explanation
Indices: 19699618--19699647 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19699608 TCTCCTTTTT
*
19699618 TTTTTCTTTTTCC
1 TTTTACTTTTTCC
19699631 TTTTACTTTTTCC
1 TTTTACTTTTTCC
19699644 TTTT
1 TTTT
19699648 TTTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTACTTTTTCC
Found at i:19704606 original size:18 final size:17
Alignment explanation
Indices: 19704561--19704616 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 17
19704551 ATCAAAGAAA
19704561 AATAA-AAT-CAATAAT
1 AATAATAATGCAATAAT
*
19704576 AAT-ACAATG-AATAAT
1 AATAATAATGCAATAAT
*
19704591 AATAATAATAGCAATAAC
1 AATAATAAT-GCAATAAT
19704609 AATAATAA
1 AATAATAA
19704617 AATAAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 15 0.44
16 4 0.12
17 1 0.03
18 13 0.38
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATGCAATAAT
Found at i:19704765 original size:12 final size:12
Alignment explanation
Indices: 19704748--19704782 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
19704738 ATTAAAGTTG
19704748 TAGTAATAATAA
1 TAGTAATAATAA
19704760 TAGTAATAATAA
1 TAGTAATAATAA
*
19704772 TAATAATAATA
1 TAGTAATAATA
19704783 TAAAAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAGTAATAATAA
Found at i:19704802 original size:3 final size:3
Alignment explanation
Indices: 19704751--19704782 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
19704741 AAAGTTGTAG
*
19704751 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19704783 TAAAAAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19705743 original size:15 final size:16
Alignment explanation
Indices: 19705717--19705746 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19705707 GCTTTCTTCC
19705717 TTTTTATATTTTTCTT
1 TTTTTATATTTTTCTT
19705733 TTTTTAT-TTTTTCT
1 TTTTTATATTTTTCT
19705747 GTAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATATTTTTCTT
Found at i:19707789 original size:30 final size:28
Alignment explanation
Indices: 19707753--19707815 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
19707743 AAAAGCCGTT
19707753 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
19707783 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
19707811 TTTTT
1 TTTTT
19707816 CGCGAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 6 0.20
29 17 0.57
30 7 0.23
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:19714256 original size:17 final size:19
Alignment explanation
Indices: 19714234--19714273 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19714224 TCCTCCCTCA
19714234 TCTTTTC-TTTTCTTCTT-
1 TCTTTTCATTTTCTTCTTC
*
19714251 TCTTTTCATTTTTTTCTTC
1 TCTTTTCATTTTCTTCTTC
19714270 TCTT
1 TCTT
19714274 GTTGTCGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TCTTTTCATTTTCTTCTTC
Found at i:19714265 original size:21 final size:23
Alignment explanation
Indices: 19714241--19714297 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
19714231 TCATCTTTTC
*
19714241 TTTTCTTCT-TTCTTTTC-ATTT
1 TTTTCTTCTCTTCTTGTCGATTT
*
19714262 TTTTCTTCTCTTGTTGTCGATTT
1 TTTTCTTCTCTTCTTGTCGATTT
19714285 TTTTCCTTCTCTT
1 TTTT-CTTCTCTT
19714298 TTCCCTCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 6 0.19
23 8 0.26
24 8 0.26
ACGTcount: A:0.04, C:0.21, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTCTTCTCTTCTTGTCGATTT
Done.