Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 216 of 218
Found at i:64926889 original size:8 final size:8
Alignment explanation
Indices: 64926876--64926900 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
64926866 TATTAATTCA
64926876 TTTAAAAT
1 TTTAAAAT
64926884 TTTAAAAT
1 TTTAAAAT
64926892 TTTAAAAT
1 TTTAAAAT
64926900 T
1 T
64926901 AAAACTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:64934795 original size:221 final size:219
Alignment explanation
Indices: 64934413--64934855 Score: 850
Period size: 221 Copynumber: 2.0 Consensus size: 219
64934403 CTTTATATCT
*
64934413 AAAGGTTAGAATATTCACCTCTAAATCTCCTTGAGAACTTGAATAGTAAACACTCAATGGTATTT
1 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
64934478 ACAATACAATTTGCACTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTCTC
66 ACAATACAATTTGCACTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTCTC
*
64934543 TTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTTAGCTTGCTAACATAGAATTTA
131 TTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATTTA
64934608 AGTGAATATCAAAGTAACTTCTTG
196 AGTGAATATCAAAGTAACTTCTTG
64934632 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
1 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
64934697 ACAATACAATTTGCACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
66 ACAATACAATTTGCA--CTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
64934762 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
129 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
64934827 TAAGTGAATATCAAAGTAACTTCTTG
194 TAAGTGAATATCAAAGTAACTTCTTG
64934853 AAA
1 AAA
64934856 CTAGCCATTA
Statistics
Matches: 220, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
219 79 0.36
221 141 0.64
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (219 bp):
AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
ACAATACAATTTGCACTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTCTC
TTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATTTA
AGTGAATATCAAAGTAACTTCTTG
Found at i:64948016 original size:33 final size:31
Alignment explanation
Indices: 64947976--64948066 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 31
64947966 ATACCAACGG
*
64947976 AAAAGTGTCAAATTTAGATACCAAATCAGGAA
1 AAAAGTGTCAAGTTTAGATACCAAATCA-GAA
* * *
64948008 AACAAGTGTCGAGTTTAGGTACCAAATTAGAA
1 AA-AAGTGTCAAGTTTAGATACCAAATCAGAA
* *
64948040 AAAATATGTCAAGTTCAGATACCAAAT
1 AAAA-GTGTCAAGTTTAGATACCAAAT
64948067 ATTATATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 2 0.04
32 25 0.51
33 22 0.45
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (31 bp):
AAAAGTGTCAAGTTTAGATACCAAATCAGAA
Found at i:64954685 original size:2 final size:2
Alignment explanation
Indices: 64954678--64954703 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64954668 AAAGGCAAAG
64954678 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
64954704 TGTGCCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:64959736 original size:17 final size:17
Alignment explanation
Indices: 64959716--64959748 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64959706 AAATGAATTT
64959716 AATTATTAAAT-TCAAAG
1 AATTA-TAAATATCAAAG
64959733 AATTATAAATATCAAA
1 AATTATAAATATCAAA
64959749 ATAGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
AATTATAAATATCAAAG
Found at i:64965235 original size:18 final size:17
Alignment explanation
Indices: 64965212--64965246 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64965202 TTGAAAATCA
64965212 GGCCCAAATTGTCAAAGT
1 GGCCCAAATTGT-AAAGT
*
64965230 GGCCCAAGTTGTAAAGT
1 GGCCCAAATTGTAAAGT
64965247 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (17 bp):
GGCCCAAATTGTAAAGT
Found at i:64968350 original size:31 final size:31
Alignment explanation
Indices: 64968315--64968389 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
64968305 CGGCAACGTG
64968315 GTAGTCTCAAATCGACACGGAGGGACTACCA
1 GTAGTCTCAAATCGACACGGAGGGACTACCA
64968346 GTAGTCTCAAATCGACACGGAGGGACTACCA
1 GTAGTCTCAAATCGACACGGAGGGACTACCA
64968377 GTAGTCTCAAATC
1 GTAGTCTCAAATC
64968390 AACGTGGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (31 bp):
GTAGTCTCAAATCGACACGGAGGGACTACCA
Found at i:64968847 original size:20 final size:20
Alignment explanation
Indices: 64968803--64968847 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64968793 GTTTTGAACA
* **
64968803 ATTTTAATTTTTTTTTTGTT
1 ATTTTAACTTTTTTTTCCTT
*
64968823 TTTTTAACTTTTTTTTCCTT
1 ATTTTAACTTTTTTTTCCTT
64968843 ATTTT
1 ATTTT
64968848 CCATTCTCTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (20 bp):
ATTTTAACTTTTTTTTCCTT
Found at i:64976450 original size:16 final size:16
Alignment explanation
Indices: 64976429--64976479 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
64976419 GGTTGGGGTG
64976429 AATGGAATA-AGGCTGT
1 AATGGAATAGA-GCTGT
**
64976445 AATGGAATAGAAATGT
1 AATGGAATAGAGCTGT
64976461 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
64976477 AAT
1 AAT
64976480 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:64976742 original size:57 final size:57
Alignment explanation
Indices: 64976668--64976878 Score: 221
Period size: 57 Copynumber: 3.8 Consensus size: 57
64976658 TATTATTAAA
64976668 AATAAAA-AATTAAATAATTTAATCATATTC-TAACATAATTATTATTAAATATAATTT
1 AATAAAATAA-TAAATAATTTAATCATATTCTTAACATAATTATTATT-AATATAATTT
* * * *
64976725 AATAAAATAATATATAATTTAATAATATTCTTAATATAATTA-TATGAAT-TAA--T
1 AATAAAATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
64976778 AA-AAACCATAATAAATAATTTAATCATATT-TTAACAT-A--ATTATTAATATAATTT
1 AATAAA--ATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
* * * *
64976832 AATAAAATAATATATAATTTACT-AGCATTCTTAATATAATTATTATT
1 AATAAAATAATAAATAATTTAATCA-TATTCTTAACATAATTATTATT
64976879 TTAGGTACAT
Statistics
Matches: 128, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
50 1 0.01
51 6 0.05
52 8 0.06
53 27 0.21
54 30 0.23
55 7 0.05
56 3 0.02
57 34 0.27
58 12 0.09
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (57 bp):
AATAAAATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
Found at i:64976830 original size:107 final size:110
Alignment explanation
Indices: 64976678--64976874 Score: 328
Period size: 107 Copynumber: 1.8 Consensus size: 110
64976668 AATAAAAAAT
64976678 TAAATAATTTAATCATATTCTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAAT
1 TAAATAATTTAATCATATTCTAACATAA-TATTATTAAATATAATTTAATAAAATAATATATAAT
*
64976743 TTAATAATATTCTTAATATAATTATATGAATTAATAAAAACCATAA
65 TTAATAACATTCTTAATATAATTATATGAATTAATAAAAACCATAA
*
64976789 TAAATAATTTAATCATATTTTAACAT-A-ATTATT-AATATAATTTAATAAAATAATATATAATT
1 TAAATAATTTAATCATATTCTAACATAATATTATTAAATATAATTTAATAAAATAATATATAATT
* *
64976851 TACTAGCATTCTTAATATAATTAT
66 TAATAACATTCTTAATATAATTAT
64976875 TATTTTAGGT
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 50 0.61
108 6 0.07
110 1 0.01
111 25 0.30
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (110 bp):
TAAATAATTTAATCATATTCTAACATAATATTATTAAATATAATTTAATAAAATAATATATAATT
TAATAACATTCTTAATATAATTATATGAATTAATAAAAACCATAA
Found at i:64976836 original size:20 final size:20
Alignment explanation
Indices: 64976703--64976872 Score: 53
Period size: 20 Copynumber: 8.0 Consensus size: 20
64976693 TATTCTAACA
*
64976703 TAATTATTATTAAATATAATT
1 TAATAATTATT-AATATAATT
* *
64976724 TAATAA-AATAATATATAATT
1 TAATAATTATTA-ATATAATT
*
64976744 TAATAATATTCTTAATATAA-T
1 TAAT-A-ATTATTAATATAATT
* **
64976765 TATATGAATTAATAA-A-AACCA
1 TA-AT-AATTATTAATATAA-TT
* *
64976786 TAATAAATAATTTAATCATATTT
1 TAAT-AATTA-TTAAT-ATAATT
64976809 TAACATAATTATTAATATAATT
1 T-A-ATAATTATTAATATAATT
* *
64976831 TAATAA-AATAATATATAATT
1 TAATAATTATTA-ATATAATT
* *
64976851 TACTAGCATTCTTAATATAATT
1 TAATA--ATTATTAATATAATT
64976873 ATTATTTTAG
Statistics
Matches: 108, Mismatches: 24, Indels: 33
0.65 0.15 0.20
Matches are distributed among these distances:
19 6 0.06
20 37 0.34
21 21 0.19
22 25 0.23
23 11 0.10
24 6 0.06
25 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (20 bp):
TAATAATTATTAATATAATT
Found at i:64980681 original size:36 final size:37
Alignment explanation
Indices: 64980640--64980713 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
64980630 AGAATGAAAA
64980640 AAAATATCAGTTGGGGATTTCAG-GTGTGAGAAAGAG
1 AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
* *
64980676 AAAATATGAGTTGGGGATTTCAGATTGTGAGAAAGAG
1 AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
64980713 A
1 A
64980714 GGAGAATGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 22 0.63
37 13 0.37
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (37 bp):
AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
Found at i:64981596 original size:15 final size:15
Alignment explanation
Indices: 64981572--64981602 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64981562 ATATTGACTA
64981572 GTCCAAACAAATAAG
1 GTCCAAACAAATAAG
*
64981587 GTCCACACAAATAAG
1 GTCCAAACAAATAAG
64981602 G
1 G
64981603 CATAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.13
Consensus pattern (15 bp):
GTCCAAACAAATAAG
Found at i:64982440 original size:24 final size:24
Alignment explanation
Indices: 64982413--64982461 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
64982403 TTTATTAAGT
64982413 TAGTGACGAGTTATAGTATAAACA
1 TAGTGACGAGTTATAGTATAAACA
64982437 TAGTGACGAGTTATAGTATAAACA
1 TAGTGACGAGTTATAGTATAAACA
64982461 T
1 T
64982462 GCATGAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (24 bp):
TAGTGACGAGTTATAGTATAAACA
Found at i:64985542 original size:23 final size:23
Alignment explanation
Indices: 64985505--64985669 Score: 138
Period size: 23 Copynumber: 7.2 Consensus size: 23
64985495 GAATGCATAA
64985505 AATAATACATGATAAATTTAAAT
1 AATAATACATGATAAATTTAAAT
* * * *
64985528 AATCATAGATGATAAGTTCAAAAT
1 AATAATACATGATAAATT-TAAAT
*
64985552 AATAATACATGATAACTTTAAAT
1 AATAATACATGATAAATTTAAAT
* *
64985575 AAAAATACATGATAAACTTAAAAT
1 AATAATACATGATAAA-TTTAAAT
** *
64985599 AATGTTA-ATGATGAATTTAAAAT
1 AATAATACATGATAAATTT-AAAT
* * * *
64985622 AATAACATATTATAAATTAAAAT
1 AATAATACATGATAAATTTAAAT
**
64985645 AAT-ATTGATGATAAATTTAAA-
1 AATAATACATGATAAATTTAAAT
64985666 AATA
1 AATA
64985670 TATTAAGCTT
Statistics
Matches: 110, Mismatches: 27, Indels: 11
0.74 0.18 0.07
Matches are distributed among these distances:
21 3 0.03
22 15 0.14
23 55 0.50
24 37 0.34
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (23 bp):
AATAATACATGATAAATTTAAAT
Found at i:64985560 original size:47 final size:46
Alignment explanation
Indices: 64985505--64985669 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 46
64985495 GAATGCATAA
* * *
64985505 AATAATACATGATAAATTTAAATAATCATAGATGATAAGTTCAAAAT
1 AATAATACATGATAAATTTAAATAATAATACATGATAAATT-AAAAT
* *
64985552 AATAATACATGATAACTTTAAATAAAAATACATGATAAACTTAAAAT
1 AATAATACATGATAAATTTAAATAATAATACATGATAAA-TTAAAAT
** * * * *
64985599 AATGTTA-ATGATGAATTTAAAATAATAACATATTATAAATTAAAAT
1 AATAATACATGATAAATTT-AAATAATAATACATGATAAATTAAAAT
**
64985645 AAT-ATTGATGATAAATTTAAA-AATA
1 AATAATACATGATAAATTTAAATAATA
64985670 TATTAAGCTT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 29 0.29
47 60 0.61
48 2 0.02
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (46 bp):
AATAATACATGATAAATTTAAATAATAATACATGATAAATTAAAAT
Found at i:64985645 original size:70 final size:70
Alignment explanation
Indices: 64985508--64985646 Score: 165
Period size: 70 Copynumber: 2.0 Consensus size: 70
64985498 TGCATAAAAT
* * * *
64985508 AATACATGATAAATTTAAATAATCATAGATGATAAGTTCAAAATAATAATACATGATAACTTTAA
1 AATACATGATAAATTAAAATAATCATAGATGATAAGTTCAAAATAATAACACATGATAAATTAAA
64985573 ATAAA
66 ATAAA
** * * *
64985578 AATACATGATAAACTTAAAATAATGTTA-ATGATGAA-TTTAAAATAATAACATATTATAAATTA
1 AATACATGATAAA-TTAAAATAATCATAGATGAT-AAGTTCAAAATAATAACACATGATAAATTA
64985641 AAATAA
64 AAATAA
64985647 TATTGATGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
70 45 0.78
71 13 0.22
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (70 bp):
AATACATGATAAATTAAAATAATCATAGATGATAAGTTCAAAATAATAACACATGATAAATTAAA
ATAAA
Found at i:64991714 original size:15 final size:16
Alignment explanation
Indices: 64991690--64991732 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
64991680 AAAATATAAT
64991690 TAATCT-AATTAATCC
1 TAATCTAAATTAATCC
**
64991705 TAAT-TAAATTAATTT
1 TAATCTAAATTAATCC
64991720 TAATCTAAATTAA
1 TAATCTAAATTAA
64991733 AAACTTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 15 0.62
16 8 0.33
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATCTAAATTAATCC
Found at i:64992194 original size:18 final size:18
Alignment explanation
Indices: 64992171--64992208 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64992161 TATAAGACTT
* *
64992171 TATATTATGTTATTTTTA
1 TATATTATGTAATTTATA
64992189 TATATTATGTAATTTATA
1 TATATTATGTAATTTATA
64992207 TA
1 TA
64992209 ACACATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TATATTATGTAATTTATA
Found at i:64992363 original size:21 final size:21
Alignment explanation
Indices: 64992291--64992365 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
64992281 TGATTATATA
64992291 AAAAATAA-ATAAATAAAATTT
1 AAAAATAATAT-AATAAAATTT
* *
64992312 AAAAA-ATTATTA-AAAATTAAAT
1 AAAAATAATATAATAAAATT---T
*
64992334 GAAAATAATATAATAAAATTT
1 AAAAATAATATAATAAAATTT
64992355 AAAAATAATAT
1 AAAAATAATAT
64992366 GGGTGGATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 6 0.14
20 2 0.05
21 18 0.43
22 5 0.12
23 5 0.12
24 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAAATAATATAATAAAATTT
Found at i:64992507 original size:5 final size:5
Alignment explanation
Indices: 64992497--64992526 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
64992487 ACTTAGACCT
*
64992497 GAACC GAACC GAACC GAACC GAACC AAACC
1 GAACC GAACC GAACC GAACC GAACC GAACC
64992527 CAAACCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.43, C:0.40, G:0.17, T:0.00
Consensus pattern (5 bp):
GAACC
Found at i:65002036 original size:37 final size:37
Alignment explanation
Indices: 65001988--65002076 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
65001978 TTGTTTTGCA
* * * *
65001988 GCAAAGCAAAGACAAAGATGAACAGGGGTGATTCCCT
1 GCAAAGCAAAGACAAAAATAAACAAGGGTGATCCCCT
* * *
65002025 GTAAAGTAAAGATAAAAATAAACAAGGGTGATCCCCT
1 GCAAAGCAAAGACAAAAATAAACAAGGGTGATCCCCT
*
65002062 GCAAAGCCAAGACAA
1 GCAAAGCAAAGACAA
65002077 GAAAAGAAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (37 bp):
GCAAAGCAAAGACAAAAATAAACAAGGGTGATCCCCT
Found at i:65003896 original size:35 final size:36
Alignment explanation
Indices: 65003852--65003933 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 36
65003842 GGGTTCGGGA
* * *
65003852 TTCGAGATTCGAA-ATTTAAGATTTAAGATTCTGGG
1 TTCGGGATTCGAATATTTAAGATTCAAGATTCTAGG
* *
65003887 TTCGGGATTC-AATGTTTAGGATTCAAGATTCTAGG
1 TTCGGGATTCGAATATTTAAGATTCAAGATTCTAGG
* *
65003922 TTTGGGGTTCGA
1 TTCGGGATTCGA
65003934 GATTCTTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 2 0.05
35 35 0.92
36 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.38
Consensus pattern (36 bp):
TTCGGGATTCGAATATTTAAGATTCAAGATTCTAGG
Found at i:65003924 original size:21 final size:21
Alignment explanation
Indices: 65003900--65003939 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65003890 GGGATTCAAT
65003900 GTTTAGGATTCAAGATTCTAG
1 GTTTAGGATTCAAGATTCTAG
* * *
65003921 GTTTGGGGTTCGAGATTCT
1 GTTTAGGATTCAAGATTCT
65003940 TAGTTCAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (21 bp):
GTTTAGGATTCAAGATTCTAG
Found at i:65018843 original size:16 final size:16
Alignment explanation
Indices: 65018822--65018856 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65018812 AACAGTCTGC
*
65018822 AATAGTTTAAACCCAA
1 AATAGTTAAAACCCAA
*
65018838 AATAGTTAAAACCCGA
1 AATAGTTAAAACCCAA
65018854 AAT
1 AAT
65018857 GATATGGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (16 bp):
AATAGTTAAAACCCAA
Found at i:65024854 original size:20 final size:21
Alignment explanation
Indices: 65024813--65024855 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
65024803 AATAGGCATG
*
65024813 CATATTTTTTAAAAATTGATT
1 CATATATTTTAAAAATTGATT
*
65024834 CATATATTTTAAATA-TGATT
1 CATATATTTTAAAAATTGATT
65024854 CA
1 CA
65024856 CATTAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (21 bp):
CATATATTTTAAAAATTGATT
Found at i:65026983 original size:87 final size:87
Alignment explanation
Indices: 65026876--65027059 Score: 287
Period size: 87 Copynumber: 2.1 Consensus size: 87
65026866 CCTATGGCTA
* * * * *
65026876 TGGATACACAGCAAATTAATGCAGATAAAATTTGCAACTGACTATGGATGCACAACATGTTAGTA
1 TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
*
65026941 GGTAAGAGTTGTCAATAGGTTG
66 GGTAAGAGCTGTCAATAGGTTG
* *
65026963 TGGATACACAGTAAATTAATGCAGATAAAATATCCCACTAACTATAGATGCACAACATGTTAATA
1 TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
65027028 GGTAAGAGCTGTCAATAGGTTG
66 GGTAAGAGCTGTCAATAGGTTG
*
65027050 TGGATGCACA
1 TGGATACACA
65027060 TCATATTTGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (87 bp):
TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
GGTAAGAGCTGTCAATAGGTTG
Found at i:65027345 original size:34 final size:34
Alignment explanation
Indices: 65027261--65027356 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 34
65027251 CATTAATGCA
* *
65027261 CTTATAACAGA-TCAATACAGTAGCAAATAGTATG
1 CTTATAACA-ATTCAATACAATAGCAAATAATATG
* *
65027295 CTTTATAAC-ATGTCAATACAAAAGCAATTAATATG
1 C-TTATAACAAT-TCAATACAATAGCAAATAATATG
*
65027330 CTTATAACAATTCAATATAATAGCAAA
1 CTTATAACAATTCAATACAATAGCAAA
65027357 AGACATGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
33 1 0.02
34 21 0.41
35 29 0.57
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (34 bp):
CTTATAACAATTCAATACAATAGCAAATAATATG
Found at i:65029701 original size:87 final size:87
Alignment explanation
Indices: 65029555--65029740 Score: 257
Period size: 87 Copynumber: 2.1 Consensus size: 87
65029545 TGCTTATGGC
* * * * * *
65029555 TGTGGATACACAGCAAATTAATGCAGATAAAATTTGCAACTGACTGTGGATGCACAACATGTTAG
1 TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTGACTGTAGATGCACAACATGTTAA
65029620 CAAGTAAGAGCTGTCAATAGGT
66 CAAGTAAGAGCTGTCAATAGGT
* *
65029642 TGTGGATGCACAGTAAAATAATGCAGATAAAATCTCCCAC-GAACTGTAGATGCACAACATGTTA
1 TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTG-ACTGTAGATGCACAACATGTTA
* * *
65029706 ATAGGTAAGAGCTGTTAATAGGT
65 ACAAGTAAGAGCTGTCAATAGGT
65029729 TGTGGATGCACA
1 TGTGGATGCACA
65029741 TCATATTTGC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.01
87 86 0.99
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (87 bp):
TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTGACTGTAGATGCACAACATGTTAA
CAAGTAAGAGCTGTCAATAGGT
Found at i:65029984 original size:35 final size:34
Alignment explanation
Indices: 65029908--65029995 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
65029898 ATATGACATG
* *
65029908 CTTATAACATATCAATACGGTAGTCATTAATGCA
1 CTTATAACATATCAATACAGTAGTCAATAATGCA
*
65029942 CTTATAACAGATCAATACAGTAG-CAAATAGTATGC-
1 CTTATAACATATCAATACAGTAGTC-AATA--ATGCA
65029977 CTTATAACATATCAATACA
1 CTTATAACATATCAATACA
65029996 AAAGCAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.02
34 24 0.51
35 18 0.38
36 4 0.09
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (34 bp):
CTTATAACATATCAATACAGTAGTCAATAATGCA
Found at i:65030002 original size:35 final size:34
Alignment explanation
Indices: 65029937--65030037 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 34
65029927 GTAGTCATTA
* *
65029937 ATGCACTTATAACAGATCAATACAGTAGCAAATAGT
1 ATGC-CTTATAACA-ATCAATACAATAGCAAATAAT
* *
65029973 ATGCCTTATAACATATCAATACAAAAGCAATTAAT
1 ATGCCTTATAACA-ATCAATACAATAGCAAATAAT
* *
65030008 ACG-CTTATAACAATTCAATATAATAGCAAA
1 ATGCCTTATAACAA-TCAATACAATAGCAAA
65030038 AGACATGCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 1 0.02
34 22 0.40
35 28 0.51
36 4 0.07
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.27
Consensus pattern (34 bp):
ATGCCTTATAACAATCAATACAATAGCAAATAAT
Found at i:65030019 original size:69 final size:69
Alignment explanation
Indices: 65029908--65030037 Score: 165
Period size: 69 Copynumber: 1.9 Consensus size: 69
65029898 ATATGACATG
*** * *
65029908 CTTATAACATATCAATACGGTAGTCATTAATGCACTTATAACAGA-TCAATACAGTAGCAAATAG
1 CTTATAACATATCAATACAAAAGTCATTAATACACTTATAACA-ATTCAATACAATAGCAAATAG
65029972 TATGC
65 TATGC
* *
65029977 CTTATAACATATCAATACAAAAG-CAATTAATACGCTTATAACAATTCAATATAATAGCAAA
1 CTTATAACATATCAATACAAAAGTC-ATTAATACACTTATAACAATTCAATACAATAGCAAA
65030038 AGACATGCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 2 0.04
69 50 0.96
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (69 bp):
CTTATAACATATCAATACAAAAGTCATTAATACACTTATAACAATTCAATACAATAGCAAATAGT
ATGC
Found at i:65030026 original size:34 final size:34
Alignment explanation
Indices: 65029907--65030036 Score: 97
Period size: 34 Copynumber: 3.8 Consensus size: 34
65029897 AATATGACAT
** *
65029907 GCTTATAAC-ATATCAATACGGTAGTC-ATTAATGC
1 GCTTATAACAAT-TCAATACAATAG-CAATTAATAC
* * * * *
65029941 ACTTATAACAGA-TCAATACAGTAGCAAATAGTAT
1 GCTTATAACA-ATTCAATACAATAGCAATTAATAC
*
65029975 GCCTTATAAC-ATATCAATACAAAAGCAATTAATAC
1 G-CTTATAACAAT-TCAATACAATAGCAATTAATAC
*
65030010 GCTTATAACAATTCAATATAATAGCAA
1 GCTTATAACAATTCAATACAATAGCAA
65030037 AAGACATGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
33 2 0.03
34 44 0.59
35 28 0.37
36 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (34 bp):
GCTTATAACAATTCAATACAATAGCAATTAATAC
Found at i:65030869 original size:29 final size:30
Alignment explanation
Indices: 65030804--65030879 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
65030794 TCAAAATTAT
*
65030804 ACATGAACTTTGATTTAATGTGTAATTTGAA
1 ACATGAACTTTGATTT-AGGTGTAATTTGAA
* *
65030835 ATATGAACTTTGATTT-GGTGTAATTAT-AC
1 ACATGAACTTTGATTTAGGTGTAATT-TGAA
65030864 ACATGAAACTTTGATT
1 ACATG-AACTTTGATT
65030880 ACGATTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 13 0.33
30 11 0.28
31 15 0.38
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (30 bp):
ACATGAACTTTGATTTAGGTGTAATTTGAA
Found at i:65035076 original size:16 final size:16
Alignment explanation
Indices: 65035040--65035070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65035030 CTCAAATGAC
65035040 CTAAATTCAAAACAAT
1 CTAAATTCAAAACAAT
*
65035056 CTAAATTCGAAACAA
1 CTAAATTCAAAACAA
65035071 CTTAAAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (16 bp):
CTAAATTCAAAACAAT
Found at i:65041830 original size:6 final size:6
Alignment explanation
Indices: 65041812--65041841 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
65041802 GTTCCGTAAC
*
65041812 ACCCCA ACACCA ACCCCA ACCCCA ACCCCA
1 ACCCCA ACCCCA ACCCCA ACCCCA ACCCCA
65041842 TCCAACATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.63, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCCA
Found at i:65049486 original size:28 final size:28
Alignment explanation
Indices: 65049454--65049510 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
65049444 CAAATCACTG
65049454 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
65049482 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
65049510 G
1 G
65049511 AATCTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (28 bp):
GTAACTTCTGATTTCAAATGATTTTTTA
Found at i:65049526 original size:27 final size:28
Alignment explanation
Indices: 65049454--65049527 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 28
65049444 CAAATCACTG
* **
65049454 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
* **
65049482 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
65049510 G-AATCTT-TAATGCCAAAT
1 GTAA-CTTCTAATGCCAAAT
65049528 TTCCTCACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.24
28 32 0.76
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (28 bp):
GTAACTTCTAATGCCAAATGATTTTTTA
Found at i:65051074 original size:45 final size:45
Alignment explanation
Indices: 65051010--65051095 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
65051000 TCCTTAATAA
** * * *
65051010 TCATTTTCCACCTTAGGACATGCTCATTATCTTTGTTTGGTATTG
1 TCATTTTCCAAATTAGGACATGCACATGATCTTTGCTTGGTATTG
65051055 TCATTTTCCAAATTAGGACATGCACATGATCTTTGCTTGGT
1 TCATTTTCCAAATTAGGACATGCACATGATCTTTGCTTGGT
65051096 TTAAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (45 bp):
TCATTTTCCAAATTAGGACATGCACATGATCTTTGCTTGGTATTG
Found at i:65054128 original size:29 final size:29
Alignment explanation
Indices: 65054095--65054151 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
65054085 CTGGGACAAC
65054095 GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
1 GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
65054124 GTTCCCAAAGTTTCAGCCTTTAAAAAAA
1 GTTCCCAAAGTTTCAGCCTTTAAAAAAA
65054152 CCTTGGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (29 bp):
GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
Found at i:65056338 original size:27 final size:26
Alignment explanation
Indices: 65056288--65056347 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
65056278 AAAATTTATT
65056288 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTTTAAAATTAAAAAAA
65056314 TTAAAAATGTATTTTAAAATT-AAAAAA
1 TTAAAAA--TATTTTAAAATTAAAAAAA
65056341 TTAAAAA
1 TTAAAAA
65056348 AAAAGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAAAATATTTTAAAATTAAAAAAA
Found at i:65056348 original size:28 final size:29
Alignment explanation
Indices: 65056305--65056362 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
65056295 TATTTTAAAA
*
65056305 TTAAAAAAATT-AAAAATGTATTTTAAAA
1 TTAAAAAAATTAAAAAAAGTATTTTAAAA
65056333 TT-AAAAAATTAAAAAAAAAGTATTTTAAAA
1 TTAAAAAAATT--AAAAAAAGTATTTTAAAA
65056363 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 8 0.31
28 2 0.08
30 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (29 bp):
TTAAAAAAATTAAAAAAAGTATTTTAAAA
Found at i:65056362 original size:11 final size:11
Alignment explanation
Indices: 65056348--65056373 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65056338 AAATTAAAAA
65056348 AAAAGTATTTT
1 AAAAGTATTTT
65056359 AAAAGTATTTT
1 AAAAGTATTTT
65056370 AAAA
1 AAAA
65056374 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:65056977 original size:27 final size:27
Alignment explanation
Indices: 65056937--65056993 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
65056927 AGAAGAGGAG
*
65056937 AAAATACTTTTGAAAAGT-ATTGTTAAA
1 AAAATACTTATGAAAAGTGATT-TTAAA
*
65056964 AAAATGCTTATGAAAAGTGATTTTAAA
1 AAAATACTTATGAAAAGTGATTTTAAA
65056991 AAA
1 AAA
65056994 CTTGATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (27 bp):
AAAATACTTATGAAAAGTGATTTTAAA
Found at i:65058199 original size:72 final size:73
Alignment explanation
Indices: 65058110--65058266 Score: 190
Period size: 72 Copynumber: 2.2 Consensus size: 73
65058100 TGCAAAACTG
* * * * * *
65058110 TTCATTGATGATATAAAATGCAAGAAGTATAGATCGTCTGTTGACAATACAAAATG-GAAGAAGT
1 TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTAACAATACAAAATGAAAAAAAGT
*
65058174 GTAAATCA
66 GTAAACCA
* * * * *
65058182 TTCATTGGTTATATAAAATGTAAGAAGTGTAGATCATCCGTTAACGATATAAAATGAAAAAAAGT
1 TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTAACAATACAAAATGAAAAAAAGT
65058247 GTAAACCA
66 GTAAACCA
*
65058255 TTAATTGGTGAT
1 TTCATTGGTGAT
65058267 GTGAAATGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
72 47 0.67
73 23 0.33
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (73 bp):
TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTAACAATACAAAATGAAAAAAAGT
GTAAACCA
Found at i:65058232 original size:36 final size:36
Alignment explanation
Indices: 65058114--65058237 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
65058104 AAACTGTTCA
* * * *
65058114 TTGATGATATAAAATGCAAGAAGTATAGATCGTCTG
1 TTGACGATATAAAATGCAAGAAGTGTAGATCATCCG
* * * * * *
65058150 TTGACAATACAAAATGGAAGAAGTGTAAATCATTCA
1 TTGACGATATAAAATGCAAGAAGTGTAGATCATCCG
*** *
65058186 TTGGTTATATAAAATGTAAGAAGTGTAGATCATCCG
1 TTGACGATATAAAATGCAAGAAGTGTAGATCATCCG
*
65058222 TTAACGATATAAAATG
1 TTGACGATATAAAATG
65058238 AAAAAAAGTG
Statistics
Matches: 66, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (36 bp):
TTGACGATATAAAATGCAAGAAGTGTAGATCATCCG
Found at i:65058788 original size:49 final size:49
Alignment explanation
Indices: 65058718--65058830 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
65058708 ACAACTCGGT
65058718 AAGTAATAAAGTGACCTTACTCCCAT-ACGCATAGGAGGAGACTTACAAA
1 AAGTAATAAAGTGACCTTACTCCC-TGACGCATAGGAGGAGACTTACAAA
* * ***
65058767 AAGTAATACAA-TGA-CTCTACTCTCTGACGCATGGGAGGAGACTTATGGA
1 AAGTAATA-AAGTGACCT-TACTCCCTGACGCATAGGAGGAGACTTACAAA
65058816 AAGTAATAAAGTGAC
1 AAGTAATAAAGTGAC
65058831 ATTGCTCCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
48 5 0.09
49 47 0.87
50 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (49 bp):
AAGTAATAAAGTGACCTTACTCCCTGACGCATAGGAGGAGACTTACAAA
Found at i:65059477 original size:82 final size:81
Alignment explanation
Indices: 65059254--65059511 Score: 252
Period size: 81 Copynumber: 3.2 Consensus size: 81
65059244 ATATGTCAAG
* * * * * *
65059254 GGATATAACCA-CTCGCAGGAACCCCTCGTGGGCTCCCTTTGTCTCACAATATTCATTATACAAA
1 GGATATAACCATC-CGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-AA
* *
65059318 TAGACAAACGTGCAAAG-
64 TATACAAACATGCAAAGA
* * * * * * * * *
65059335 GGGTATAACCACCCACGAGAACCCTTCACGCGCTCTTTTTATCCCACAATATCCATTATACGAAT
1 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-AAT
65059400 ATACAAACATGCAAAGA
65 ATACAAACATGCAAAGA
* * * *
65059417 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTCTCTAACAATGTACAATATACAGAT
1 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACA-AT
*
65059482 CTACAAACATGCAAAGA
65 ATACAAACATGCAAAGA
*
65059499 GGA-AAAACCATCC
1 GGATATAACCATCC
65059512 TTTTTGAGAT
Statistics
Matches: 143, Mismatches: 31, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
81 73 0.51
82 70 0.49
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (81 bp):
GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACAATA
TACAAACATGCAAAGA
Found at i:65062776 original size:62 final size:61
Alignment explanation
Indices: 65062696--65062819 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 61
65062686 GAACTGTGCA
*
65062696 AAAGACATTAATATAGTCTGCAATCTGCATGCTGTAATGGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAAT-GGGGAAGAGGCAATCGGTCGACT
65062758 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
65062819 A
1 A
65062820 CTGAAGCAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 24 0.39
62 37 0.61
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (61 bp):
AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
Found at i:65065214 original size:128 final size:121
Alignment explanation
Indices: 65064940--65065225 Score: 412
Period size: 121 Copynumber: 2.3 Consensus size: 121
65064930 TTGTTTTCAT
* *
65064940 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAATTACTGCTTAAAGATTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
* *
65065005 GATGTTTAATGTAATCGGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAA
66 AATGTTTAATGTAATCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
65065061 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
* * *
65065126 AATGTTTAGTGTAGTCTGGGCGTTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAA
66 AATGTTTAATGTA--AT---C---GGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
* *
65065189 TGATTTCAAATGCATTGGATAAGGTTCAAGCTAGTTA
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTA
65065226 TATAGCTCGA
Statistics
Matches: 148, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
121 74 0.50
123 1 0.01
126 1 0.01
128 53 0.36
129 19 0.13
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (121 bp):
TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
AATGTTTAATGTAATCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
Found at i:65065374 original size:147 final size:147
Alignment explanation
Indices: 65065147--65065489 Score: 499
Period size: 147 Copynumber: 2.3 Consensus size: 147
65065137 TAGTCTGGGC
*
65065147 GTTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAATGATTTCAAATGCATTGGATAA
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
* * * * * *
65065211 GGTTCAAGCTAGTTATATAGCTCGACTTATAGCTGTCCATGCTGCTTAAAGATTGGATTATGGTA
66 GGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
65065276 TATCGATGTTTAGCTTA
131 TATCGATGTTTAGCTTA
* * *
65065293 GTTGGGCACTCAATAGCTTAGTTCATTGACATCATAGTAAGATTCATTTCAAATGCATTGGCTAA
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
* * * *
65065358 GGTTCAAGCTAGTTATATAGATTGACCTGTAGCTGTCCTTACTGCCTATAGAGTGGATCATGGTA
66 GGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
*
65065423 TATTGATGTTTAGCTTA
131 TATCGATGTTTAGCTTA
* * * * *
65065440 GTCGGGCGTTCAATACCTTAGATCATTGACATCATGGTAAGAATCATTTC
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTC
65065490 TTGACCTGTA
Statistics
Matches: 174, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
146 22 0.13
147 152 0.87
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
GGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
TATCGATGTTTAGCTTA
Found at i:65067603 original size:19 final size:20
Alignment explanation
Indices: 65067567--65067612 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
65067557 ACAAAAAAAA
65067567 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
65067586 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
65067606 AAAAATT
1 AAAAATT
65067613 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:65069732 original size:42 final size:42
Alignment explanation
Indices: 65069672--65069752 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
65069662 CGTATATAGT
*
65069672 AGGACCCATTTGAAAGAAAAGCTAGCCGTTGAAGAGGAGAGA
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
* * *
65069714 AGGACCCATTTGATAGAAAAGGTAGCCGTTAAAGGGGAG
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAG
65069753 CGGCCACAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (42 bp):
AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
Found at i:65070489 original size:21 final size:23
Alignment explanation
Indices: 65070465--65070506 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
65070455 ACAAGCTTAC
65070465 AGGTTC-TGTCCCT-GCTTCATT
1 AGGTTCATGTCCCTCGCTTCATT
*
65070486 AGGTTCATGTCCTTCGCTTCA
1 AGGTTCATGTCCCTCGCTTCA
65070507 AACACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGTTCATGTCCCTCGCTTCATT
Found at i:65083252 original size:50 final size:50
Alignment explanation
Indices: 65083158--65083253 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
65083148 TAAGATTCGA
* * **
65083158 TTTGGTACCTAAAGTTTATTTTGGTCCAATTAAGTACTTTAATTTGGCTT
1 TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTGGCTT
* *
65083208 TTTGGTACCTAAACTTTTTTTTTGTCAAATTAAGTACTAGAATTTG
1 TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTG
65083254 ACCTTTTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (50 bp):
TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTGGCTT
Found at i:65087034 original size:26 final size:26
Alignment explanation
Indices: 65086998--65087047 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
65086988 CGCTTTTGTG
*
65086998 GGTAATTTATTCTGTAGGAAAACTAT
1 GGTAAATTATTCTGTAGGAAAACTAT
65087024 GGTAAATTATTCTGTAGGAAAACT
1 GGTAAATTATTCTGTAGGAAAACT
65087048 GCGGCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (26 bp):
GGTAAATTATTCTGTAGGAAAACTAT
Found at i:65087290 original size:21 final size:21
Alignment explanation
Indices: 65087261--65087303 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65087251 ACAGCAGAAC
* *
65087261 AGGTTTTTAGCGGCGTTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
65087282 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
65087303 A
1 A
65087304 ACGCCACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.47
Consensus pattern (21 bp):
AGGTCTTTAGCGGCGCTTTTT
Found at i:65087481 original size:42 final size:42
Alignment explanation
Indices: 65087374--65087728 Score: 419
Period size: 42 Copynumber: 8.4 Consensus size: 42
65087364 ACGTCACTAA
* * * *
65087374 CTTTTGCGGCGCTTACATAAAAAAACACCGTTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* * *
65087418 CTTTAGCGGTGCTTAGAAAAAAAAAGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
* *
65087461 CTTTAGCGGCGCTTAGAAAAAAACGCCCCCAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
65087503 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
** *
65087545 CTTTAGCGGTTCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
65087587 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
65087629 CTTTAACGGCGCTTTAGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* *** * *
65087672 CTATAGCGGCGCTTATTCAAAAACACCGCTAAA-AGT-AGTATT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
65087714 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
65087729 TTTCACAAAC
Statistics
Matches: 273, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.00
42 189 0.69
43 71 0.26
44 12 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:65088219 original size:21 final size:21
Alignment explanation
Indices: 65088171--65088221 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
65088161 CTGCTTCTCT
*
65088171 CGTTGCTTCTCTCGCTGCGGC
1 CGTTGCTTCTCTCGCTGCAGC
*
65088192 C-TCTGCTTCTCTCGCTGTAGC
1 CGT-TGCTTCTCTCGCTGCAGC
65088213 CGTTGCTTC
1 CGTTGCTTC
65088222 CTTCGTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.02, C:0.37, G:0.24, T:0.37
Consensus pattern (21 bp):
CGTTGCTTCTCTCGCTGCAGC
Found at i:65093755 original size:9 final size:9
Alignment explanation
Indices: 65093743--65094064 Score: 211
Period size: 9 Copynumber: 36.6 Consensus size: 9
65093733 TTATGTATTT
65093743 TGTAAGTTA
1 TGTAAGTTA
*
65093752 TGTAAGTTC
1 TGTAAGTTA
65093761 TGT-A-TTA
1 TGTAAGTTA
65093768 TGT-A-TTA
1 TGTAAGTTA
* **
65093775 TGTATGCCCCA
1 TGTAAG--TTA
*
65093786 TGTAAGTAA
1 TGTAAGTTA
65093795 TGTAAGTTA
1 TGTAAGTTA
*
65093804 TGTAAGTAA
1 TGTAAGTTA
65093813 TGT-A-TTA
1 TGTAAGTTA
*
65093820 TGTAAGTTG
1 TGTAAGTTA
*
65093829 TGT-A-CTA
1 TGTAAGTTA
** *
65093836 CATCA-TTA
1 TGTAAGTTA
*
65093844 TGTGAGTTA
1 TGTAAGTTA
65093853 TGTAAGTTA
1 TGTAAGTTA
* *
65093862 TTTAATTTA
1 TGTAAGTTA
*
65093871 CT-TAATTTA
1 -TGTAAGTTA
65093880 TGTAAGTTA
1 TGTAAGTTA
*
65093889 TGTAAGATA
1 TGTAAGTTA
* *
65093898 TTTAATTTA
1 TGTAAGTTA
65093907 TGTAAGTTA
1 TGTAAGTTA
65093916 TGTAAGTTA
1 TGTAAGTTA
* *
65093925 TTTAATTTA
1 TGTAAGTTA
*
65093934 CT-TAATTTA
1 -TGTAAGTTA
65093943 TGTAAGTTA
1 TGTAAGTTA
* *
65093952 TTTAATTTA
1 TGTAAGTTA
*
65093961 CT-TAATTTA
1 -TGTAAGTTA
65093970 TGTAAGTTA
1 TGTAAGTTA
* *
65093979 TGCAAGATA
1 TGTAAGTTA
* *
65093988 TTTAATTTA
1 TGTAAGTTA
65093997 TGTAAGTTA
1 TGTAAGTTA
65094006 TGTAAGTTA
1 TGTAAGTTA
*
65094015 CT-TAATTTA
1 -TGTAAGTTA
65094024 TGTAAGTTA
1 TGTAAGTTA
65094033 TGTAAGTTA
1 TGTAAGTTA
* * *
65094042 TTTAATTTT
1 TGTAAGTTA
65094051 TGTAAGTTA
1 TGTAAGTTA
65094060 TGTAA
1 TGTAA
65094065 TTAACCAAAT
Statistics
Matches: 245, Mismatches: 52, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
7 19 0.08
8 13 0.05
9 203 0.83
10 4 0.02
11 6 0.02
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:65093914 original size:54 final size:54
Alignment explanation
Indices: 65093850--65094064 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
65093840 ATTATGTGAG
* * * *
65093850 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* *
65093904 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAG---------TTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* * *
65093967 TTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* *
65094021 TTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAA
65094065 TTAACCAAAT
Statistics
Matches: 138, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
54 89 0.64
63 49 0.36
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (54 bp):
TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
Found at i:65098234 original size:115 final size:115
Alignment explanation
Indices: 65098030--65098241 Score: 257
Period size: 115 Copynumber: 1.8 Consensus size: 115
65098020 GTTAAGACCA
* * *
65098030 AAACTCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATCAAAAAGCACCGCTAATACCATGATT
1 AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCACCGCTAATAACATGATT
* ** ***
65098095 TAGTGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATCAAGACTT
66 TAGCGGCGATGACTCAACAACGCCACTAATTCCAGTATACATCAAGACTT
* ** * * *
65098145 AAACGCTGCGTTTTTGTTAATATGTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATAATAT-ACT
1 AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCACCGCTAATAACATGA-T
65098209 TTAGCGGCGATGAC-CAACAAGCGCCACTAATTC
65 TTAGCGGCGATGACTCAACAA-CGCCACTAATTC
65098242 TAATATACCT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
114 4 0.05
115 76 0.95
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (115 bp):
AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCACCGCTAATAACATGATT
TAGCGGCGATGACTCAACAACGCCACTAATTCCAGTATACATCAAGACTT
Found at i:65108751 original size:29 final size:29
Alignment explanation
Indices: 65108719--65108789 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
65108709 TTTTGAAAAT
* *
65108719 TAAGAATTTGGTCCATATATTTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
* *
65108748 TAAGAATTTAGTCCCTGTATGTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
65108777 T-AGAAATTTAGTC
1 TAAG-AATTTAGTC
65108790 TCTCTACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 2 0.05
29 35 0.95
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (29 bp):
TAAGAATTTAGTCCATATATGTGTATTTC
Found at i:65111964 original size:17 final size:18
Alignment explanation
Indices: 65111937--65111972 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65111927 AATTATAATA
65111937 AAAAGTTATAAAATTTTT
1 AAAAGTTATAAAATTTTT
*
65111955 AAAA-TTATAAATTTTTT
1 AAAAGTTATAAAATTTTT
65111972 A
1 A
65111973 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAGTTATAAAATTTTT
Found at i:65112711 original size:109 final size:109
Alignment explanation
Indices: 65112520--65112737 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
65112510 ATATACACCC
65112520 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
1 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
*
65112585 CAGTTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
66 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
65112629 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
1 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
65112694 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
66 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
65112738 GACAAAGCAC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (109 bp):
ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
Found at i:65113792 original size:21 final size:21
Alignment explanation
Indices: 65113758--65113803 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
65113748 CTAAGATGTG
*
65113758 AATTGGATTGAATTGA-GTATA
1 AATTGGATTAAATTGATGT-TA
*
65113779 AATTGTATTAAATTGATGTTA
1 AATTGGATTAAATTGATGTTA
65113800 AATT
1 AATT
65113804 CATTCGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
AATTGGATTAAATTGATGTTA
Found at i:65114374 original size:24 final size:23
Alignment explanation
Indices: 65114347--65114394 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
65114337 TATCCGTTAT
65114347 TGGCTCGCATGAGCTTCCTGATTA
1 TGGCTCGCATGAGCTTCCT-ATTA
**
65114371 TGGCTCTTATGAGCTTCCTATTA
1 TGGCTCGCATGAGCTTCCTATTA
65114394 T
1 T
65114395 ACAACCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (23 bp):
TGGCTCGCATGAGCTTCCTATTA
Found at i:65115213 original size:19 final size:19
Alignment explanation
Indices: 65115189--65115237 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
65115179 TGATTTTGGT
*
65115189 TTGGTTTGAATGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
65115208 TTGGTTTGAAAGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
65115227 TTGGTTTGAAA
1 TTGGTTTGAAA
65115238 ATATGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (19 bp):
TTGGTTTGAAAGTCTTGTA
Found at i:65119178 original size:23 final size:22
Alignment explanation
Indices: 65119135--65119178 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
65119125 CAAAAAGTTA
*
65119135 GAAAATGTTCATTAACCTATTC
1 GAAAATGTTCATTAAACTATTC
* *
65119157 GAAAATTTTCATTTAAATTATT
1 GAAAATGTTCA-TTAAACTATT
65119179 GACATAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (22 bp):
GAAAATGTTCATTAAACTATTC
Found at i:65121083 original size:16 final size:17
Alignment explanation
Indices: 65121062--65121095 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65121052 AACAAAGTGT
*
65121062 AATTTTATTAATT-TAA
1 AATTTTATAAATTATAA
65121078 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
65121095 A
1 A
65121096 TACCTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:65123930 original size:16 final size:16
Alignment explanation
Indices: 65123909--65123943 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65123899 GTTTGAGTCA
*
65123909 ATTTTAAGTTCTAATC
1 ATTTTAAGTTCCAATC
65123925 ATTTTAAGTTCCAATC
1 ATTTTAAGTTCCAATC
65123941 ATT
1 ATT
65123944 CCAAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (16 bp):
ATTTTAAGTTCCAATC
Found at i:65127633 original size:30 final size:29
Alignment explanation
Indices: 65127599--65127689 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
65127589 TTGTTTGTGG
*
65127599 AAATTGAATC-AAATTAAAATTTTATGTATA
1 AAATTGAA-CAAAATCAAAA-TTTATGTATA
* *
65127629 AAATTGTACAAAATCAAAATTTATGTATG
1 AAATTGAACAAAATCAAAATTTATGTATA
* * * *
65127658 ATATTGCACATTAAATCAAAGTTCATGTATA
1 AAATTGAACA--AAATCAAAATTTATGTATA
65127689 A
1 A
65127690 TTTTGATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 18 0.36
30 15 0.30
31 17 0.34
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (29 bp):
AAATTGAACAAAATCAAAATTTATGTATA
Found at i:65127640 original size:29 final size:30
Alignment explanation
Indices: 65127599--65127656 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
65127589 TTGTTTGTGG
*
65127599 AAATTGAATC-AAATTAAAATTTTATGTATA
1 AAATTGAATCAAAATCAAAA-TTTATGTATA
*
65127629 AAATTGTA-CAAAATCAAAATTTATGTAT
1 AAATTGAATCAAAATCAAAATTTATGTAT
65127657 GATATTGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTGAATCAAAATCAAAATTTATGTATA
Found at i:65127663 original size:29 final size:30
Alignment explanation
Indices: 65127609--65127689 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
65127599 AAATTGAATC
* *
65127609 AAATTAAAATTTTATGTATAAAATTGTACA-
1 AAATCAAAA-TTTATGTATAAAATTGCACAT
* *
65127639 AAATCAAAATTTATGTATGATATTGCACATT
1 AAATCAAAATTTATGTATAAAATTGCACA-T
* *
65127670 AAATCAAAGTTCATGTATAA
1 AAATCAAAATTTATGTATAA
65127690 TTTTGATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTATGTATAAAATTGCACAT
Found at i:65130084 original size:3 final size:3
Alignment explanation
Indices: 65130076--65130100 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65130066 TGTAAAATTG
65130076 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
65130101 AAACATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:65131464 original size:10 final size:10
Alignment explanation
Indices: 65131449--65131490 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
65131439 ATCATGCTAG
*
65131449 TTTTTTGCAT
1 TTTTTTGAAT
65131459 TTTTTTGAAT
1 TTTTTTGAAT
65131469 TTTTTAT-AA-
1 TTTTT-TGAAT
65131478 TTTTTTGAAT
1 TTTTTTGAAT
65131488 TTT
1 TTT
65131491 GAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 19 0.68
11 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:65131473 original size:19 final size:19
Alignment explanation
Indices: 65131449--65131490 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
65131439 ATCATGCTAG
* *
65131449 TTTTTTGCATTTTTTTGAA
1 TTTTTTACAATTTTTTGAA
*
65131468 TTTTTTATAATTTTTTGAA
1 TTTTTTACAATTTTTTGAA
65131487 TTTT
1 TTTT
65131491 GAATTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTACAATTTTTTGAA
Found at i:65150471 original size:34 final size:34
Alignment explanation
Indices: 65150433--65150509 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
65150423 GTAATGTGGC
*
65150433 ATACTTATAATAGATCAATACGATAGCAATTAAT
1 ATACTTATAATAGATCAATACGATAACAATTAAT
* *
65150467 ATACTTATAGTAGATCAATACGATAACAATTATT
1 ATACTTATAATAGATCAATACGATAACAATTAAT
*
65150501 ATGCTTATA
1 ATACTTATA
65150510 CTAATTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (34 bp):
ATACTTATAATAGATCAATACGATAACAATTAAT
Found at i:65157911 original size:31 final size:30
Alignment explanation
Indices: 65157850--65157917 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
65157840 ACAATCCAAG
* *
65157850 ATAGTTGGGTGATCAAAAAAGACAAAACTAA
1 ATAGTTGAGTGACCAAAAAAGACAAAACT-A
*
65157881 ATAGTTGAGTGACCAAAAAAGA-AATTACTA
1 ATAGTTGAGTGACCAAAAAAGACAA-AACTA
65157911 ATAGTTG
1 ATAGTTG
65157918 GGTGGCTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.24
Consensus pattern (30 bp):
ATAGTTGAGTGACCAAAAAAGACAAAACTA
Found at i:65161301 original size:56 final size:57
Alignment explanation
Indices: 65161215--65161329 Score: 196
Period size: 56 Copynumber: 2.0 Consensus size: 57
65161205 TAGTCTAGCA
*
65161215 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGA-TAAAAAATAG
1 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGACAAAAAAATAG
* *
65161271 CTTAAATGGTATGGGTTCAAACCCTATTATTCCCTTCTCCCTATGACAAAAAAATAG
1 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGACAAAAAAATAG
65161328 CT
1 CT
65161330 AACATAGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 44 0.80
57 11 0.20
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (57 bp):
CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGACAAAAAAATAG
Found at i:65169045 original size:110 final size:108
Alignment explanation
Indices: 65168850--65169171 Score: 418
Period size: 109 Copynumber: 3.0 Consensus size: 108
65168840 TAAATTCAAT
* * * *
65168850 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCG
1 AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
*
65168913 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAAGA
66 AATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTAA-A
* * *
65168957 AGGATATTAAG-TCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCT
1 AGGATATTAGGCT-ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCT
65169021 CGAATTTCCAAACGCAAAATATTGCCTTATTTT-AAAATTTTTAAA
64 CGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAA-TTTTAAA
* * * * *
65169066 AGGATATTTGGCTATTAGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTC
1 AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTC
* * * *
65169131 GAACTTCCAAATGCAAAATCTTGCCTTATTTAGAAAATTTT
65 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTT
65169172 CTTTTTTGAA
Statistics
Matches: 187, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
107 23 0.12
109 117 0.63
110 47 0.25
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
AATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTAAA
Found at i:65169456 original size:39 final size:39
Alignment explanation
Indices: 65169381--65169459 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
65169371 AAAATTTAAC
* * * *
65169381 AAAATTATAAAAATATGAAAAATATATATACATATATAT
1 AAAATTATAAAAATACGAAAAAAAAACATACATATATAT
* **
65169420 AAAATTATGAAAATACGAAAAAAAAACATATGTATATAT
1 AAAATTATAAAAATACGAAAAAAAAACATACATATATAT
65169459 A
1 A
65169460 CATATTCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (39 bp):
AAAATTATAAAAATACGAAAAAAAAACATACATATATAT
Found at i:65171404 original size:43 final size:43
Alignment explanation
Indices: 65171351--65171493 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
65171341 CTCCGCTGTA
* *
65171351 ACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTACTACT
1 ACTT-AGGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACT
* *
65171395 ACTTAGGGAGATAAGACTT-G---ATGC-GATCTGCTCCACTACT
1 ACTTAGGGAGATAAGA-TTGGTTTCTTCTG-TCTGCTCCACTACT
* * * *
65171435 GCTTAAGGAGATAAGATCGGTTTCTT-TGGTCTACTCCACTACT
1 ACTTAGGGAGATAAGATTGGTTTCTTCT-GTCTGCTCCACTACT
65171478 ACTTAGGGAGATAAGA
1 ACTTAGGGAGATAAGA
65171494 CTTGATGTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
43 40 0.51
44 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
ACTTAGGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTACT
Found at i:65171433 original size:40 final size:40
Alignment explanation
Indices: 65171389--65171533 Score: 164
Period size: 40 Copynumber: 3.5 Consensus size: 40
65171379 TGTCTGCTCT
* *
65171389 ACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCC
1 ACTACTACTTAGGGAGATAAGACTTGATGTGATCTACTCC
* * ** * *
65171429 ACTACTGCTTAAGGAGATAAGATCGGTTTCTTTGGTCTACTCC
1 ACTACTACTTAGGGAGATAAGA-C--TTGATGTGATCTACTCC
*
65171472 ACTACTACTTAGGGAGATAAGACTTGATGTGATCTACTCT
1 ACTACTACTTAGGGAGATAAGACTTGATGTGATCTACTCC
* *
65171512 ACTATTGCTTAGGGAGATAAGA
1 ACTACTACTTAGGGAGATAAGA
65171534 TCGGTTTCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
40 52 0.61
41 1 0.01
42 1 0.01
43 31 0.36
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
ACTACTACTTAGGGAGATAAGACTTGATGTGATCTACTCC
Found at i:65171458 original size:83 final size:83
Alignment explanation
Indices: 65171358--65171581 Score: 306
Period size: 83 Copynumber: 2.7 Consensus size: 83
65171348 GTAACTTCAG
* * * *
65171358 GGAGATAGGATTGGTTTC-TTCTGTCTGCTCTACTACTACTTAGGGAGATAAGACTTGATGCGAT
1 GGAGATAAGATCGGTTTCTTTC-GTCTACTCCACTACTACTTAGGGAGATAAGACTTGATGCGAT
*
65171422 CTGCTCCACTACTGCTTAA
65 CTACTCCACTACTGCTTAA
* *
65171441 GGAGATAAGATCGGTTTCTTTGGTCTACTCCACTACTACTTAGGGAGATAAGACTTGATGTGATC
1 GGAGATAAGATCGGTTTCTTTCGTCTACTCCACTACTACTTAGGGAGATAAGACTTGATGCGATC
* * *
65171506 TACTCTACTATTGCTTAG
66 TACTCCACTACTGCTTAA
* * *
65171524 GGAGATAAGATCGGTTTCTTTCGTCTACTCCACTACAACCTCAAGGAGATAAGACTTG
1 GGAGATAAGATCGGTTTCTTTCGTCTACTCCACTACTA-CTTAGGGAGATAAGACTTG
65171582 CATATTCAAC
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
83 106 0.85
84 19 0.15
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (83 bp):
GGAGATAAGATCGGTTTCTTTCGTCTACTCCACTACTACTTAGGGAGATAAGACTTGATGCGATC
TACTCCACTACTGCTTAA
Found at i:65171738 original size:90 final size:88
Alignment explanation
Indices: 65171644--65172070 Score: 359
Period size: 90 Copynumber: 4.8 Consensus size: 88
65171634 ATCTGCTCTT
*
65171644 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAACCTCAGGGAGATA
1 CTGTAA-CTCAGGGAGATAAGATCTGAAATTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATA
65171709 AGACTTGCACATTCAACCTACCCCA
64 AGACTTGCACATTCAACCTACCCCA
*
65171734 CTGTAACTTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAAC-TCAGGGAGATAAGATCTGAAATTCTTC-GTCTACTCCACTGTAACCTCAGGGAGATA
* *
65171799 AGACTTGCATATTCAACCTGCCCCA
64 AGACTTGCACATTCAACCTACCCCA
* * * * * *
65171824 CTGTAACTTCAGGGAGATAAGGTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CTGTAAC-TCAGGGAGATAAGATCTGAAAT-TCTTCG-TCTACTCCACTGTAACCTCAGGGAGAT
* ** *
65171886 AAGA-TCTG-AAATTCTTCGGTCTACTCCA
63 AAGACT-TGCACATTCAAC---CTACCCCA
* ** * * *
65171914 CTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAAC--CTGCCCCACTGTAACTTCAGGGAGAT
1 CTGTAA-CTCAGGGAGATAAGATC-TG-AAATTCTTCGTCTACTCCACTGTAACCTCAGGGAGAT
** ** * * * * *
65171976 AAGGTTTGTGGC-TTCGATCTGCTCCT
63 AAGACTTG-CACATTCAACCTACCCCA
* *
65172002 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCTCCTCCACTGTAACCTCAGAGAGATA
1 CTGTAA-CTCAGGGAGATAAGATCTGAAATTCTTCG-TCTACTCCACTGTAACCTCAGGGAGATA
65172067 AGAC
64 AGAC
65172071 CTGATGCGAT
Statistics
Matches: 273, Mismatches: 44, Indels: 40
0.76 0.12 0.11
Matches are distributed among these distances:
87 15 0.05
88 63 0.23
89 2 0.01
90 185 0.68
91 5 0.02
93 2 0.01
94 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (88 bp):
CTGTAACTCAGGGAGATAAGATCTGAAATTCTTCGTCTACTCCACTGTAACCTCAGGGAGATAAG
ACTTGCACATTCAACCTACCCCA
Found at i:65171751 original size:44 final size:44
Alignment explanation
Indices: 65171568--65171978 Score: 235
Period size: 44 Copynumber: 9.2 Consensus size: 44
65171558 ACAACCTCAA
* * *
65171568 GGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAA
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACTTCAG
** **** * * * * **
65171612 GGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAA-TCTCAG
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACT-TCAG
** ** *
65171656 GGAGATAAGA-TCTG-AAATTCTTCAGTCTATTCCACTGTAACCTCAG
1 GGAGATAAGACT-TGCAAA---TTCAACCTACCCCACTGTAACTTCAG
*
65171702 GGAGATAAGACTTGCACATTCAACCTACCCCACTGTAACTTCAG
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACTTCAG
* ** * *
65171746 AGAGATAAGA-TCTG-AAATTCTTCGGTCTACTCCACTGTAACCTCAG
1 GGAGATAAGACT-TGCAAATTCAAC---CTACCCCACTGTAACTTCAG
* *
65171792 GGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAG
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACTTCAG
** **** * * * * *
65171836 GGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA-TCTCAG
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACT-TCAG
** * *
65171880 GGAGATAAGA-TCTG-AAATTCTTCGGTCTACTCCACTGTAACCTCAG
1 GGAGATAAGACT-TGCAAATTCAAC---CTACCCCACTGTAACTTCAG
* *
65171926 GGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAG
1 GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACTTCAG
65171970 GGAGATAAG
1 GGAGATAAG
65171979 GTTTGTGGCT
Statistics
Matches: 277, Mismatches: 68, Indels: 44
0.71 0.17 0.11
Matches are distributed among these distances:
43 14 0.05
44 159 0.57
46 87 0.31
47 17 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
GGAGATAAGACTTGCAAATTCAACCTACCCCACTGTAACTTCAG
Found at i:65171798 original size:224 final size:224
Alignment explanation
Indices: 65171546--65171978 Score: 776
Period size: 224 Copynumber: 1.9 Consensus size: 224
65171536 GGTTTCTTTC
65171546 GTCTACTCCACTACAACCTCAAGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCA
1 GTCTACTCCACTACAACCTCAAGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCA
*
65171611 AGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAATCTCAGGGAGATAAGATCTGAAATTC
66 AGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTC
*
65171676 TTCAGTCTATTCCACTGTAACCTCAGGGAGATAAGACTTGCACATTCAACCTACCCCACTGTAAC
131 TTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCACATTCAACCTACCCCACTGTAAC
65171741 TTCAGAGAGATAAGATCTGAAATTCTTCG
196 TTCAGAGAGATAAGATCTGAAATTCTTCG
** *
65171770 GTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCA
1 GTCTACTCCACTACAACCTCAAGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCA
*
65171835 GGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTC
66 AGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTC
* * *
65171900 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAAC
131 TTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCACATTCAACCTACCCCACTGTAAC
*
65171965 TTCAGGGAGATAAG
196 TTCAGAGAGATAAG
65171979 GTTTGTGGCT
Statistics
Matches: 199, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 199 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (224 bp):
GTCTACTCCACTACAACCTCAAGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCA
AGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTC
TTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCACATTCAACCTACCCCACTGTAAC
TTCAGAGAGATAAGATCTGAAATTCTTCG
Found at i:65171825 original size:134 final size:134
Alignment explanation
Indices: 65171687--65172164 Score: 536
Period size: 134 Copynumber: 3.6 Consensus size: 134
65171677 TCAGTCTATT
*
65171687 CCACTGTAACCTCAGGGAGATAAGACTTG-CACATTCAACCTACCCCACTGTAA-CTTCAGAGAG
1 CCACTGTAACCTCAGGGAGATAAGACTTGTCAC-TTCAACCTGCCCCACTGTAATC-TCAGAGAG
*
65171750 ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
64 ATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
65171815 CCTGCC
129 CCTGCC
* ** ** * * * * *
65171821 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACCTCAGGGAGATAAGACTTGTCACTTCAACCTGCCCCACTGTAATCTCAGAGAGAT
*
65171886 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
65171951 TGCC
131 TGCC
* ** ** * * * * *
65171955 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACCTCAGGGAGATAAGACTTGTCACTTCAACCTGCCCCACTGTAATCTCAGAGAGAT
* * * * * *
65172020 AAGATCTGAAATTCTTCGATCTCCTCCACTGTAACCTCAGAGAGATAAGACCTG---ATGCGATC
66 AAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
* *
65172082 TACT
131 TGCC
* * * ** * * * *
65172086 CTACTGTAACTTCAGAGAGATAAGA-TTGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAACCTCAGGGAGATAAGACTTGTCACTTCAACCTGCCCCACTGTAATCTCAGAGAGAT
65172150 AAGATCTGAAATTCT
66 AAGATCTGAAATTCT
65172165 CCGACCTGTT
Statistics
Matches: 316, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
130 51 0.16
131 29 0.09
134 234 0.74
135 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (134 bp):
CCACTGTAACCTCAGGGAGATAAGACTTGTCACTTCAACCTGCCCCACTGTAATCTCAGAGAGAT
AAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:65172054 original size:224 final size:222
Alignment explanation
Indices: 65171525--65172023 Score: 750
Period size: 224 Copynumber: 2.2 Consensus size: 222
65171515 ATTGCTTAGG
* * * ** * *
65171525 GAGATAAGATCGGTTTCTTTCG-TCTACTCCACTACAACCTCAAGGAGATAAGACTTGCATATTC
1 GAGATAAGATCTGATGC-TTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGAATATTC
* *
65171589 AACCTGCCCCACTGTAACTTCAAGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAATCTC
65 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTC
*
65171654 AGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAACCTCAGGGAGATAAGACTTGCAC
130 AGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAC
65171719 ATTCAACCTACCCCACTGTAACTTCAGA
195 ATTCAACCTACCCCACTGTAACTTCAGA
* * *
65171747 GAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATT
1 GAGATAAGATCTG--ATGCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGAATATT
65171812 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCT
64 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCT
*
65171877 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCA
129 CAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCA
* * *
65171942 TATTCAACCTGCCCCACTGTAACTTCAGG
194 CATTCAACCTACCCCACTGTAACTTCAGA
* * * * *
65171971 GAGATAAGGTTTG-TGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGA
1 GAGATAAGATCTGAT-GCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA
65172024 TCTGAAATTC
Statistics
Matches: 254, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
221 1 0.00
222 45 0.18
223 4 0.02
224 204 0.80
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (222 bp):
GAGATAAGATCTGATGCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGAATATTCA
ACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCA
GGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCACA
TTCAACCTACCCCACTGTAACTTCAGA
Found at i:65173392 original size:7 final size:7
Alignment explanation
Indices: 65173380--65173426 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
65173370 TTAGCCTCTC
65173380 CATTTTT
1 CATTTTT
65173387 CA-TTTT
1 CATTTTT
65173393 CATTTTT
1 CATTTTT
65173400 CATTTTT
1 CATTTTT
*
65173407 CA-TTCT
1 CATTTTT
65173413 CATTTTT
1 CATTTTT
65173420 CATTTTT
1 CATTTTT
65173427 TTTTGACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:65173398 original size:13 final size:13
Alignment explanation
Indices: 65173383--65173425 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
65173373 GCCTCTCCAT
65173383 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
65173395 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
65173409 TTCTCATTTTTCA
1 TTTTCATTTTTCA
65173422 TTTT
1 TTTT
65173426 TTTTTGACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:65173403 original size:20 final size:20
Alignment explanation
Indices: 65173380--65173426 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
65173370 TTAGCCTCTC
*
65173380 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
65173400 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
65173420 CATTTTT
1 CATTTTT
65173427 TTTTGACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:65174380 original size:34 final size:33
Alignment explanation
Indices: 65174341--65174439 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 33
65174331 TTCTTCTTTC
65174341 TTTTTCTCATTTTTATTTTGATCTTGATTTTGAT
1 TTTTTCTCATTTTTATTTTGA-CTTGATTTTGAT
65174375 TTTTTCTTC-TTTTT-TTTTGA--T--TTTTGAT
1 TTTTTC-TCATTTTTATTTTGACTTGATTTTGAT
*
65174403 TTTTT-TCATTTTCATTTTGACTTTGATTTTGAT
1 TTTTTCTCATTTTTATTTTGAC-TTGATTTTGAT
65174436 TTTT
1 TTTT
65174440 CTTTTTTTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
26 2 0.04
27 4 0.07
28 18 0.32
30 1 0.02
31 1 0.02
33 17 0.30
34 11 0.20
35 2 0.04
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (33 bp):
TTTTTCTCATTTTTATTTTGACTTGATTTTGAT
Found at i:65174408 original size:21 final size:21
Alignment explanation
Indices: 65174368--65174408 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65174358 TTGATCTTGA
**
65174368 TTTTGATTTTTTCTTCTTTTT
1 TTTTGATTTTTGATTCTTTTT
65174389 TTTTGATTTTTGATT-TTTTT
1 TTTTGATTTTTGATTCTTTTT
65174409 CATTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTGATTTTTGATTCTTTTT
Found at i:65174435 original size:6 final size:6
Alignment explanation
Indices: 65174349--65174438 Score: 50
Period size: 6 Copynumber: 15.8 Consensus size: 6
65174339 TCTTTTTCTC
* * * *
65174349 ATTTTT ATTTTG ATCTTG ATTTTG ATTTT- -TTCTT- CTTTT- TTTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT-TTG ATTTTG ATTTTG
* * *
65174394 ATTTTTG A-TTT- -TTTTC ATTTTC ATTTTG ACTTTG ATTTTG ATTTT
1 A-TTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
65174439 TCTTTTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 5 0.07
5 11 0.16
6 47 0.68
7 6 0.09
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.71
Consensus pattern (6 bp):
ATTTTG
Found at i:65174449 original size:34 final size:33
Alignment explanation
Indices: 65174337--65174449 Score: 97
Period size: 33 Copynumber: 3.4 Consensus size: 33
65174327 TTCTTTCTTC
* *
65174337 TTTC-TTTTTCTCATTTTTATTTTGATCTTGATT
1 TTTCTTTTTTTTCA-TTTTATTTTGATTTTGATT
** *
65174370 TTGATTTTTTCTTC-TTTTTTTTTGATTTTTGATT
1 TTTCTTTTTT-TTCATTTTATTTTGA-TTTTGATT
** *
65174404 TTT-TTCATTTTCATTTTGACTTTGATTTTGATT
1 TTTCTTTTTTTTCATTTT-ATTTTGATTTTGATT
65174437 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
65174450 CCTTTTTTGA
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
32 3 0.05
33 31 0.50
34 26 0.42
35 2 0.03
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.73
Consensus pattern (33 bp):
TTTCTTTTTTTTCATTTTATTTTGATTTTGATT
Found at i:65178017 original size:110 final size:108
Alignment explanation
Indices: 65177836--65178144 Score: 426
Period size: 109 Copynumber: 2.9 Consensus size: 108
65177826 ATATTTGGAA
* *
65177836 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAATGC
1 ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAATGC
*
65177899 AAAACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGTC
66 AAAACATTGCCTTATTTTGAAATTTTTAA-AAGGATATTAAGCC
* * *
65177943 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTCGAATTTCCAAATG
* **
65178008 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTTGGCC
65 CAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCC
* * * *
65178052 ATTAGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTCGAACTTCCAAATG
1 ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTCGAATTTCCAAATG
* *
65178117 CAAAATC-TTGCCTTATTTAGAAAATTTT
65 CAAAA-CATTGCCTTATTTTGAAATTTTT
65178145 CTTTTTTGAA
Statistics
Matches: 178, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 14 0.08
109 117 0.66
110 47 0.26
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAATGC
AAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCC
Found at i:65178388 original size:19 final size:18
Alignment explanation
Indices: 65178353--65178414 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
65178343 AATAATTTAA
65178353 AAAAATTATAAAAATATG
1 AAAAATTATAAAAATATG
*
65178371 AAAAATATATATACATATAT-
1 AAAAAT-TATA-A-AAATATG
* *
65178391 ATAAAATTATGAAAATACG
1 A-AAAATTATAAAAATATG
65178410 AAAAA
1 AAAAA
65178415 AAACATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 14 0.40
19 6 0.17
20 5 0.14
21 10 0.29
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAAATTATAAAAATATG
Found at i:65181068 original size:40 final size:40
Alignment explanation
Indices: 65181010--65181086 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
65181000 AGGTGCCAAT
*
65181010 TTACTTCGATTTAGCCGATGAGACACTAGGTGTCAAATTA
1 TTACTTCGAATTAGCCGATGAGACACTAGGTGTCAAATTA
* * * * *
65181050 TTACTTTGAATTATCCGATTAGGCACTGGGTGTCAAA
1 TTACTTCGAATTAGCCGATGAGACACTAGGTGTCAAA
65181087 CTGGTGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (40 bp):
TTACTTCGAATTAGCCGATGAGACACTAGGTGTCAAATTA
Found at i:65181137 original size:12 final size:12
Alignment explanation
Indices: 65181117--65181148 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
65181107 TCGTGTATCC
65181117 GTCCGAGTTCGA
1 GTCCGAGTTCGA
*
65181129 GTTCGAGTTCGA
1 GTCCGAGTTCGA
65181141 GTCCGAGT
1 GTCCGAGT
65181149 CGTGTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (12 bp):
GTCCGAGTTCGA
Found at i:65182581 original size:4 final size:4
Alignment explanation
Indices: 65182572--65182635 Score: 51
Period size: 4 Copynumber: 15.2 Consensus size: 4
65182562 AAATAAAAAG
* *
65182572 AGAA AGAA AGAA AGAA ACAAA ATGAAA CAGAA AGGAA AGAA A-AA CGAA
1 AGAA AGAA AGAA AGAA A-GAA A-G-AA -AGAA A-GAA AGAA AGAA AGAA
65182620 AGAA AGAA AG-A AGAA A
1 AGAA AGAA AGAA AGAA A
65182636 CGCAAGGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
3 5 0.10
4 31 0.63
5 9 0.18
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.05, G:0.22, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:65182623 original size:20 final size:20
Alignment explanation
Indices: 65182600--65182637 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65182590 AAAATGAAAC
65182600 AGAAAGGAAAGAA-AAACGAA
1 AGAAA-GAAAGAAGAAACGAA
65182620 AGAAAGAAAGAAGAAACG
1 AGAAAGAAAGAAGAAACG
65182638 CAAGGGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.68, C:0.05, G:0.26, T:0.00
Consensus pattern (20 bp):
AGAAAGAAAGAAGAAACGAA
Found at i:65182624 original size:15 final size:17
Alignment explanation
Indices: 65182596--65182628 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
65182586 AAACAAAATG
65182596 AAACAGAAAGGAAAGAA
1 AAACAGAAAGGAAAGAA
65182613 AAAC-GAAA-GAAAGAA
1 AAACAGAAAGGAAAGAA
65182628 A
1 A
65182629 GAAGAAACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.73, C:0.06, G:0.21, T:0.00
Consensus pattern (17 bp):
AAACAGAAAGGAAAGAA
Found at i:65198885 original size:19 final size:19
Alignment explanation
Indices: 65198850--65198896 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
65198840 TATAGGTACT
** *
65198850 AATTTTTAACAGTAGAAGA
1 AATTTTTAACAAAAGAACA
*
65198869 AATTTTTAACAAAAGAACC
1 AATTTTTAACAAAAGAACA
65198888 AATTTTTAA
1 AATTTTTAA
65198897 TGTAGGTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (19 bp):
AATTTTTAACAAAAGAACA
Found at i:65199292 original size:7 final size:7
Alignment explanation
Indices: 65199213--65199277 Score: 109
Period size: 7 Copynumber: 9.7 Consensus size: 7
65199203 TTACTTCTTA
65199213 AAAAATT
1 AAAAATT
65199220 -AAAATT
1 AAAAATT
65199226 AAAAATT
1 AAAAATT
65199233 AAAAATT
1 AAAAATT
65199240 AAAAATT
1 AAAAATT
65199247 AAAAATT
1 AAAAATT
65199254 AAAAATT
1 AAAAATT
65199261 -AAAATT
1 AAAAATT
65199267 -AAAATT
1 AAAAATT
65199273 AAAAA
1 AAAAA
65199278 AACTTAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 18 0.32
7 38 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:65199533 original size:31 final size:30
Alignment explanation
Indices: 65199495--65199594 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 30
65199485 CCAGAGTGTA
65199495 AACTTGTAAACTTGCTAATAATTTAGTGACC
1 AACTTGTAAACTT-CTAATAATTTAGTGACC
* *
65199526 AACTTGT-AGCATTCTGA-AATTTAGTGACC
1 AACTTGTAAAC-TTCTAATAATTTAGTGACC
* * * *
65199555 GAA-TTATAAACTTACTAATAGTTGAGTGACT
1 -AACTTGTAAACTT-CTAATAATTTAGTGACC
*
65199586 AGCTTGTAA
1 AACTTGTAA
65199595 CTTTTTGAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
29 17 0.32
30 13 0.25
31 23 0.43
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (30 bp):
AACTTGTAAACTTCTAATAATTTAGTGACC
Found at i:65199604 original size:60 final size:60
Alignment explanation
Indices: 65199501--65199645 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 60
65199491 TGTAAACTTG
* * * * ** * *
65199501 TAAACTTGCTAATAATTTAGTGACCAACTTGTAGCATTCTGAAATTTAGTGACCGAATTA
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
* * * * *
65199561 TAAACTTACTAATAGTTGAGTGACTAGCTTGTAACTTTTTGAAATCCAATGACCAAATTG
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
65199621 TAAACTTACTAATAGTTGAGTGACC
1 TAAACTTACTAATAGTTGAGTGACC
65199646 GAATTTAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (60 bp):
TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
Found at i:65200601 original size:3 final size:3
Alignment explanation
Indices: 65200595--65200632 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
65200585 AAGGTAACTG
65200595 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
65200633 TTTTGCCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:65202365 original size:48 final size:48
Alignment explanation
Indices: 65202313--65202466 Score: 147
Period size: 48 Copynumber: 3.3 Consensus size: 48
65202303 AAGTACAACT
* * *
65202313 TAATGCTTCTGCTCTGTCCCCTTCTCCATCGAAAGACAAAGCACGACC
1 TAATGCTTCTACTCTGTCCCCTTCTCCATCAAAAAACAAAGCACGACC
* * *
65202361 TAATGTTTCTACTCCGAT-CCC-T-T-CATCAAAAAACAAAGTACGACC
1 TAATGCTTCTACTCTG-TCCCCTTCTCCATCAAAAAACAAAGCACGACC
* ** * * *
65202406 CAATGCTTCTTTTCTGTCCCCTTCTCCATCAAAACACAAAGGACAATCC
1 TAATGCTTCTACTCTGTCCCCTTCTCCATCAAAAAACAAAGCACGA-CC
65202455 -AATGCTTCTACT
1 TAATGCTTCTACT
65202467 TCACGTCCTC
Statistics
Matches: 84, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
44 1 0.01
45 33 0.39
46 2 0.02
47 2 0.02
48 43 0.51
49 3 0.04
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (48 bp):
TAATGCTTCTACTCTGTCCCCTTCTCCATCAAAAAACAAAGCACGACC
Found at i:65207064 original size:17 final size:17
Alignment explanation
Indices: 65207042--65207074 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65207032 AGTTTCACTA
65207042 TTATAAATACAATACAT
1 TTATAAATACAATACAT
*
65207059 TTATAAGTACAATACA
1 TTATAAATACAATACA
65207075 AATACAAATA
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:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (17 bp):
TTATAAATACAATACAT
Found at i:65213876 original size:16 final size:16
Alignment explanation
Indices: 65213830--65213877 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
65213820 AAGTTGTGAT
*
65213830 TTTTTATTATATTTTAA
1 TTTTTA-TATTTTTTAA
* *
65213847 -TTTGATAGTTTTTAA
1 TTTTTATATTTTTTAA
65213862 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
65213878 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:65217348 original size:4 final size:4
Alignment explanation
Indices: 65217339--65217403 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
65217329 GTAAGTTGAC
65217339 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
65217387 ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT A
65217404 TATATATGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:65234637 original size:129 final size:129
Alignment explanation
Indices: 65234404--65234656 Score: 416
Period size: 129 Copynumber: 2.0 Consensus size: 129
65234394 TATATTGATC
* *
65234404 ATTTGAATATTCAAATAGAATGTTTTGAAGTTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
* * * * *
65234469 AGCAATGTTGTTGAAACCATATTGGATCGTTTAGTCAGATTCGTTGGATCATGAATTGACCGGT
66 AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGACCGGT
*
65234533 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
* *
65234598 AGCAATGTTGTTGGAACCATATTCGACCGTCTAGCCAGATTGGTTGGATCAGGAATTGA
66 AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGA
65234657 TCAGTATACC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (129 bp):
ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGACCGGT
Found at i:65235673 original size:36 final size:36
Alignment explanation
Indices: 65235595--65235673 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 36
65235585 TTCAATAATC
*
65235595 TATATTTTTCATATATTTAAAATTTAATCCTCTTAT
1 TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
* *
65235631 TATATTTTT-GTATATTTAAAATTTAATCTTCCTAT
1 TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
65235666 TATTATTT
1 TA-TATTT
65235674 CAAGAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 25 0.64
36 14 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (36 bp):
TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
Found at i:65235684 original size:36 final size:35
Alignment explanation
Indices: 65235609--65235684 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
65235599 TTTTTCATAT
* ** *
65235609 ATTTAAAATTTAATCCTCTTATTATATTTTTGTAT
1 ATTTAAAATTTAATCCTCCTATTATATTTAAGTAG
*
65235644 ATTTAAAATTTAATCTTCCTATTATTATTTCAAG-AG
1 ATTTAAAATTTAATCCTCCTATTA-TATTT-AAGTAG
65235680 ATTTA
1 ATTTA
65235685 GTTTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 22 0.65
36 11 0.32
37 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (35 bp):
ATTTAAAATTTAATCCTCCTATTATATTTAAGTAG
Found at i:65243066 original size:16 final size:17
Alignment explanation
Indices: 65243039--65243070 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65243029 TAATAAATGA
65243039 TAAATATATAAAATTAT
1 TAAATATATAAAATTAT
65243056 TAAATAT-TAAAATTA
1 TAAATATATAAAATTA
65243071 AAATTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAATTAT
Found at i:65245454 original size:74 final size:74
Alignment explanation
Indices: 65245333--65245479 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
65245323 TTTGCATCCG
*
65245333 ACAATTACACATGGTGAGATAAAATTTAGATTAAGAACTCACACATGTAAACGCACACAATAGGA
1 ACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATAGGA
*
65245398 CTCGAACCA
66 CTCAAACCA
*
65245407 ACAATTACATATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATAGGA
1 ACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATAGGA
65245472 CTCAAACC
66 CTCAAACC
65245480 TAGACACTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (74 bp):
ACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATAGGA
CTCAAACCA
Found at i:65246104 original size:1 final size:1
Alignment explanation
Indices: 65246068--65246097 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
65246058 CTCAATGTAT
*
65246068 CCCCCCCCCCCCCCCCCCCCCCCCCTCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
65246098 ATCCCCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Done.