Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 11 of 105
Found at i:2015858 original size:44 final size:44
Alignment explanation
Indices: 2015713--2015913 Score: 145
Period size: 44 Copynumber: 4.6 Consensus size: 44
2015703 ATTAGTTATA
* * * ***
2015713 AATTT-ATAATAAATCATAAATAATTTAATGATAAATCACCAAT
1 AATTTAATAATAAATCATTAATAACTTAATAATAAATCATTGAT
* * ** * *
2015756 AATTTAA-AAGAAATCACTAATAACTTAAGGATATATCATTTAT
1 AATTTAATAATAAATCATTAATAACTTAATAATAAATCATTGAT
* *** * * *
2015799 AACTTAATGGCAAATCATTCATAAATTAAAAATAAATCATTGAT
1 AATTTAATAATAAATCATTAATAACTTAATAATAAATCATTGAT
* * *
2015843 AATTTAATAATAAATCATTGATAACTTAATAGTAAATAATTGAT
1 AATTTAATAATAAATCATTAATAACTTAATAATAAATCATTGAT
* ** * *
2015887 AATATAATTGTTAATCATTGATAACTT
1 AATTTAATAATAAATCATTAATAACTT
2015914 TTTATACTTA
Statistics
Matches: 123, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
43 38 0.31
44 85 0.69
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (44 bp):
AATTTAATAATAAATCATTAATAACTTAATAATAAATCATTGAT
Found at i:2015894 original size:22 final size:21
Alignment explanation
Indices: 2015790--2015910 Score: 107
Period size: 22 Copynumber: 5.5 Consensus size: 21
2015780 TTAAGGATAT
* * *
2015790 ATCATTTATAACTTAATGGCAA
1 ATCATTGATAA-TTAATAGTAA
* * *
2015812 ATCATTCATAAATTAAAAATAA
1 ATCATTGAT-AATTAATAGTAA
*
2015834 ATCATTGATAATTTAATAATAA
1 ATCATTGATAA-TTAATAGTAA
2015856 ATCATTGATAACTTAATAGTAA
1 ATCATTGATAA-TTAATAGTAA
* * *
2015878 ATAATTGATAATATAATTGTTA
1 ATCATTGATAAT-TAATAGTAA
2015900 ATCATTGATAA
1 ATCATTGATAA
2015911 CTTTTTATAC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.04
22 78 0.94
23 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (21 bp):
ATCATTGATAATTAATAGTAA
Found at i:2016234 original size:22 final size:22
Alignment explanation
Indices: 2016209--2016253 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2016199 TGTTAATCAT
2016209 TAATAACCTAATAGTAAATTAG
1 TAATAACCTAATAGTAAATTAG
*
2016231 TAATAACTTAATAGTAAATTAG
1 TAATAACCTAATAGTAAATTAG
2016253 T
1 T
2016254 TTCAGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAACCTAATAGTAAATTAG
Found at i:2016313 original size:22 final size:21
Alignment explanation
Indices: 2016287--2016378 Score: 78
Period size: 22 Copynumber: 4.2 Consensus size: 21
2016277 ATAAACTTAG
*
2016287 TAGTAACTCATAAATAATTTAA
1 TAGTAAATCA-AAATAATTTAA
* *
2016309 TAGTAAATCAATGATAATTTAG
1 TAGTAAATCAA-AATAATTTAA
* *
2016331 TTGTTAATCATTAAA-AATTTAA
1 TAGTAAATCA--AAATAATTTAA
* *
2016353 AAGTAAATCAATATAATTTAA
1 TAGTAAATCAAAATAATTTAA
2016374 TAGTA
1 TAGTA
2016379 GTTAATCATC
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.04
21 12 0.22
22 38 0.70
23 1 0.02
24 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (21 bp):
TAGTAAATCAAAATAATTTAA
Found at i:2016411 original size:16 final size:15
Alignment explanation
Indices: 2016390--2016422 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
2016380 TTAATCATCT
2016390 ATAACTTAATAGTTAA
1 ATAACTTAATAG-TAA
2016406 ATAACTTAATAGTAA
1 ATAACTTAATAGTAA
2016421 AT
1 AT
2016423 TATAGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
ATAACTTAATAGTAA
Found at i:2016444 original size:21 final size:22
Alignment explanation
Indices: 2016406--2016455 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
2016396 TAATAGTTAA
*
2016406 ATAACTTAATAGTAAATTA-TAG
1 ATAATTTAATAGTAAATTAGT-G
2016428 ATAATTTAATA-TAAATTAGTG
1 ATAATTTAATAGTAAATTAGTG
2016449 ATAATTT
1 ATAATTT
2016456 GTTAATGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTAGTG
Found at i:2016497 original size:22 final size:22
Alignment explanation
Indices: 2016427--2016499 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
2016417 GTAAATTATA
2016427 GATAATTTAAT-ATAAAT-TAGT
1 GATAATTTAATAATAAATCT-GT
** **
2016448 GATAATTTGTTAATGCATCATG-
1 GATAATTTAATAATAAATC-TGT
*
2016470 GTTAATTTAATAATAAATCTGT
1 GATAATTTAATAATAAATCTGT
2016492 GATAATTT
1 GATAATTT
2016500 TGTAGTATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
21 11 0.29
22 25 0.66
23 1 0.03
24 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (22 bp):
GATAATTTAATAATAAATCTGT
Found at i:2016777 original size:22 final size:22
Alignment explanation
Indices: 2016642--2016803 Score: 96
Period size: 22 Copynumber: 7.4 Consensus size: 22
2016632 ATTAGTAAAT
* *
2016642 TAGTTAATCATTGATAACTTT-G
1 TAGTAAATCATTAATAA-TTTAG
* * * *
2016664 TAGCAAATCATTGATAAATTAC
1 TAGTAAATCATTAATAATTTAG
*
2016686 TAGTAAATCAATT-ATAACTTTAT
1 TAGTAAATC-ATTAATAA-TTTAG
* * * *
2016709 TA-AAAATTATCAGTAATTTAG
1 TAGTAAATCATTAATAATTTAG
* * *
2016730 TAATAAATCATCAGTAATTTAG
1 TAGTAAATCATTAATAATTTAG
*
2016752 TAGTAAATCATTAATAATTTAA
1 TAGTAAATCATTAATAATTTAG
* * * * *
2016774 TAGTATATTATTGATAACTTAA
1 TAGTAAATCATTAATAATTTAG
2016796 TAGTAAAT
1 TAGTAAAT
2016804 AACTGACAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.09
22 94 0.84
23 8 0.07
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGTAAATCATTAATAATTTAG
Found at i:2017201 original size:21 final size:22
Alignment explanation
Indices: 2017155--2017265 Score: 113
Period size: 21 Copynumber: 5.2 Consensus size: 22
2017145 ATTAATTACT
* *
2017155 AAAATTACATCAATAAATTATC
1 AAAATTATATCAATAAGTTATC
* *
2017177 AAAATTTTATCAAT-AGTTATT
1 AAAATTATATCAATAAGTTATC
*
2017198 AAAATCATATC-ATAAGTTATC
1 AAAATTATATCAATAAGTTATC
*
2017219 AAAATTATATCAA-AGGTTATC
1 AAAATTATATCAATAAGTTATC
* * *
2017240 AAAATTTTATTAA-AATTTATC
1 AAAATTATATCAATAAGTTATC
2017261 AAAAT
1 AAAAT
2017266 CAAAATTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
20 2 0.03
21 59 0.80
22 13 0.18
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATTATATCAATAAGTTATC
Found at i:2017258 original size:10 final size:10
Alignment explanation
Indices: 2017172--2017265 Score: 71
Period size: 10 Copynumber: 9.0 Consensus size: 10
2017162 CATCAATAAA
2017172 TTATCAAAATT
1 TTATCAAAA-T
* *
2017183 TTATCAATAG
1 TTATCAAAAT
*
2017193 TTATTAAAAT
1 TTATCAAAAT
* * *
2017203 CATATCATAAG
1 -TTATCAAAAT
2017214 TTATCAAAAT
1 TTATCAAAAT
**
2017224 TATATCAAAGG
1 T-TATCAAAAT
2017235 TTATCAAAATT
1 TTATCAAAA-T
*
2017246 TTATTAAAAT
1 TTATCAAAAT
2017256 TTATCAAAAT
1 TTATCAAAAT
2017266 CAAAATTAAA
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
10 32 0.52
11 30 0.48
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:2021440 original size:9 final size:9
Alignment explanation
Indices: 2021426--2021455 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2021416 TATATTTTAT
2021426 TAATTAAAA
1 TAATTAAAA
2021435 TAATTAAAA
1 TAATTAAAA
2021444 TATATTAAAA
1 TA-ATTAAAA
2021454 TA
1 TA
2021456 TAAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:2021452 original size:10 final size:10
Alignment explanation
Indices: 2021428--2021457 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2021418 TATTTTATTA
2021428 ATTAAAATA-
1 ATTAAAATAT
2021437 ATTAAAATAT
1 ATTAAAATAT
2021447 ATTAAAATAT
1 ATTAAAATAT
2021457 A
1 A
2021458 AAAACTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:2022023 original size:26 final size:27
Alignment explanation
Indices: 2021967--2022024 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
2021957 AGTGAAAATC
* * *
2021967 ATAA-ATAAAATTATTAATTATTATAT
1 ATAATATAAAAATATTAATTACTATAA
*
2021993 TTAATATAAAAATATT-ATTACTATAA
1 ATAATATAAAAATATTAATTACTATAA
2022019 ATAATA
1 ATAATA
2022025 CATTAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
ATAATATAAAAATATTAATTACTATAA
Found at i:2024178 original size:56 final size:56
Alignment explanation
Indices: 2024058--2024180 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 56
2024048 TTTTTATTCA
* * **
2024058 TTTATTGAT-AATTTTTTCGGTGATAAAGTCATTTTTGAAATTGAATTGATAAATT
1 TTTAATGATAAATCTTTTCGGTGATAAAGTCATTTTTGAAATTGAACAGATAAATT
* *
2024113 TTTAATGATAAATCTTTT-GGTGATAAAGTCATTTTTTAAGTTTGAACAGATAAATT
1 TTTAATGATAAATCTTTTCGGTGATAAAGTCATTTTTGAA-ATTGAACAGATAAATT
**
2024169 TTTGGTGATAAA
1 TTTAATGATAAA
2024181 CCCTAGATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
55 28 0.48
56 30 0.52
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (56 bp):
TTTAATGATAAATCTTTTCGGTGATAAAGTCATTTTTGAAATTGAACAGATAAATT
Found at i:2025033 original size:16 final size:13
Alignment explanation
Indices: 2024997--2025021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2024987 ATTAGAGTAA
2024997 TTTTAATATTAAT
1 TTTTAATATTAAT
2025010 TTTTAATATTAA
1 TTTTAATATTAA
2025022 ATTTATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATATTAAT
Found at i:2027384 original size:20 final size:20
Alignment explanation
Indices: 2027354--2027398 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2027344 AAACTCAACG
2027354 AATTT-TCAATTTTCATAAT
1 AATTTCTCAATTTTCATAAT
**
2027373 AATTTCTCAATTTTGGTAAT
1 AATTTCTCAATTTTCATAAT
2027393 AATTTC
1 AATTTC
2027399 ATAAATTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (20 bp):
AATTTCTCAATTTTCATAAT
Found at i:2032463 original size:2 final size:2
Alignment explanation
Indices: 2032456--2032491 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2032446 TGCAACCTCT
2032456 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2032492 AACCATCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2037661 original size:9 final size:9
Alignment explanation
Indices: 2037643--2037671 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2037633 TTTTCTTTCA
2037643 TTTTTT-TT
1 TTTTTTGTT
2037651 TTTTTTGTT
1 TTTTTTGTT
2037660 TTTTTTGTT
1 TTTTTTGTT
2037669 TTT
1 TTT
2037672 CAATCTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:2040207 original size:14 final size:14
Alignment explanation
Indices: 2040188--2040218 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2040178 TACCAGAATA
2040188 ATGTGAAAATTATG
1 ATGTGAAAATTATG
2040202 ATGTGAAAATTATG
1 ATGTGAAAATTATG
2040216 ATG
1 ATG
2040219 CGTAGACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
ATGTGAAAATTATG
Found at i:2041092 original size:21 final size:23
Alignment explanation
Indices: 2041063--2041105 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2041053 TAAAGAAGCT
2041063 TAAATATTAAAAAATT-TTAAAC
1 TAAATATTAAAAAATTATTAAAC
*
2041085 TAAA-ATTAAATAATTATTAAA
1 TAAATATTAAAAAATTATTAAA
2041106 ATATTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATATTAAAAAATTATTAAAC
Found at i:2041281 original size:30 final size:31
Alignment explanation
Indices: 2041216--2041281 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
2041206 TTTGTCCAAT
*
2041216 AAAAACTTAATTAAAGTGAAAATAAATATTT
1 AAAAACTTAATTAAAGTGAAAATAAATATTA
* *
2041247 AAAAACTTAATT-AA-TTATAATAAAATATTA
1 AAAAACTTAATTAAAGTGAAAAT-AAATATTA
2041277 AAAAA
1 AAAAA
2041282 TTTGATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 14 0.45
31 12 0.39
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAACTTAATTAAAGTGAAAATAAATATTA
Found at i:2041611 original size:20 final size:20
Alignment explanation
Indices: 2041588--2041645 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
2041578 AATATTAAAA
2041588 TTTATATATTTATATAATAT
1 TTTATATATTTATATAATAT
* *
2041608 TTTATATA--AATATTATAT
1 TTTATATATTTATATAATAT
*
2041626 ATTATA-ATTTATATTAATAT
1 TTTATATATTTATA-TAATAT
2041646 AAAATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.43
19 3 0.10
20 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATATATTTATATAATAT
Found at i:2041620 original size:18 final size:18
Alignment explanation
Indices: 2041570--2041631 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
2041560 TACATTTATA
*
2041570 TTATATAAAATATTAAAATT
1 TTATAT-AAATA-TAATATT
**
2041590 TATATATTTATATAATATT
1 T-TATATAAATATAATATT
* *
2041609 TTATATAAATATTATATA
1 TTATATAAATATAATATT
2041627 TTATA
1 TTATA
2041632 ATTTATATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
18 18 0.53
19 7 0.21
20 4 0.12
21 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATAAATATAATATT
Found at i:2041626 original size:25 final size:25
Alignment explanation
Indices: 2041593--2041690 Score: 76
Period size: 25 Copynumber: 3.9 Consensus size: 25
2041583 TAAAATTTAT
2041593 ATATT-TATATAATATTTTATATAA
1 ATATTATATATAATATTTTATATAA
* *
2041617 ATATTATATATTATAATTTATATTAA
1 ATATTATATATAATATTTTATA-TAA
** * **
2041643 TATAAAATATTTTTTATTTTAT-TAA
1 -ATATTATATATAATATTTTATATAA
2041668 AT-TTATATATAATTATTATTATA
1 ATATTATATATAA-TATT-TTATA
2041691 ATTTTAAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
23 5 0.09
24 11 0.20
25 21 0.38
26 3 0.05
27 16 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTATATATAATATTTTATATAA
Found at i:2041713 original size:38 final size:41
Alignment explanation
Indices: 2041671--2041755 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 41
2041661 TTATTAAATT
* *
2041671 TATATATAATTATTAT-T-ATAATTTTA-AATTATATCATA
1 TATATATAATTATTATATCATAATTATATAATAATATCATA
* * *
2041709 TATATATTATTTTTATATCATAATTATATTATAATATCATA
1 TATATATAATTATTATATCATAATTATATAATAATATCATA
2041750 TA-ATAT
1 TATATAT
2041756 TTTAAATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
38 14 0.36
39 1 0.03
40 12 0.31
41 12 0.31
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (41 bp):
TATATATAATTATTATATCATAATTATATAATAATATCATA
Found at i:2041724 original size:22 final size:22
Alignment explanation
Indices: 2041698--2041756 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 22
2041688 ATAATTTTAA
2041698 ATTATATCATATATATATTATT
1 ATTATATCATATATATATTATT
*
2041720 TTTATATCATA-AT-TA-TATT
1 ATTATATCATATATATATTATT
*
2041739 ATAATATCATATA-ATATT
1 ATTATATCATATATATATT
2041757 TTAAATTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 13 0.42
20 5 0.16
21 3 0.10
22 10 0.32
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTATATCATATATATATTATT
Found at i:2041725 original size:11 final size:11
Alignment explanation
Indices: 2041662--2041743 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 11
2041652 TTTTTTATTT
2041662 TATTA-AATT-
1 TATTATAATTA
2041671 TATATATAATTA
1 TAT-TATAATTA
2041683 TTATTATAA-T-
1 -TATTATAATTA
2041693 T-TTA-AATTA
1 TATTATAATTA
*
2041702 TATCAT-ATATA
1 TATTATAAT-TA
**
2041713 TATTATTTTTA
1 TATTATAATTA
*
2041724 TATCATAATTA
1 TATTATAATTA
2041735 TATTATAAT
1 TATTATAAT
2041744 ATCATATAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 5 0.09
10 6 0.11
11 30 0.54
12 6 0.11
13 3 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTATAATTA
Found at i:2041985 original size:30 final size:30
Alignment explanation
Indices: 2041949--2042005 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2041939 ACAATTGATG
2041949 ATATTTAATAA-ATTTAAATTTTAAATCTTA
1 ATATTT-ATAATATTTAAATTTTAAATCTTA
* *
2041979 ATATTTATAATTTTTTAATTTTAAATC
1 ATATTTATAATATTTAAATTTTAAATC
2042006 ACAATCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (30 bp):
ATATTTATAATATTTAAATTTTAAATCTTA
Found at i:2042530 original size:17 final size:18
Alignment explanation
Indices: 2042487--2042533 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
2042477 TTTAGTTTTT
2042487 TTTTATTTTTTTATTGCA
1 TTTTATTTTTTTATTGCA
** *
2042505 ACTT-GTTTTTTA-TGCA
1 TTTTATTTTTTTATTGCA
2042521 TTTTATTTTTTTA
1 TTTTATTTTTTTA
2042534 AATCAAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
16 6 0.27
17 14 0.64
18 2 0.09
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTTTATTGCA
Found at i:2042846 original size:24 final size:23
Alignment explanation
Indices: 2042797--2042860 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
2042787 TTATTAATAG
**
2042797 TATTATAATATATAAATCCATGTA
1 TATTA-AATATATAAATATATGTA
*
2042821 TATATAAATATATAAATATATTTA
1 TAT-TAAATATATAAATATATGTA
2042845 TATTAAATA-A-AAATAT
1 TATTAAATATATAAATAT
2042861 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.17
22 1 0.03
23 6 0.17
24 21 0.58
25 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (23 bp):
TATTAAATATATAAATATATGTA
Found at i:2043741 original size:18 final size:18
Alignment explanation
Indices: 2043720--2043754 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2043710 TAAAGCATGA
*
2043720 TTACATATTAAATATTTT
1 TTACATAATAAATATTTT
2043738 TTACATAATAAATATTT
1 TTACATAATAAATATTT
2043755 AACTTAAAAT
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:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTACATAATAAATATTTT
Found at i:2044756 original size:32 final size:32
Alignment explanation
Indices: 2044719--2044821 Score: 100
Period size: 32 Copynumber: 3.1 Consensus size: 32
2044709 TAAATTAAAT
2044719 AATTTATAAATTTATATTATATAAAATATTAA
1 AATTTATAAATTTATATTATATAAAATATTAA
* *** *
2044751 AATTTATATATTTATATTATATTTTATATAAA
1 AATTTATAAATTTATATTATATAAAATATTAA
2044783 AATTACGTATTATAATTTATATTATAATAAAA-ATTAA
1 AATT---TA-TA-AATTTATATTAT-ATAAAATATTAA
2044820 AA
1 AA
2044822 AATATATATT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
32 31 0.56
35 2 0.04
36 2 0.04
37 17 0.31
38 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (32 bp):
AATTTATAAATTTATATTATATAAAATATTAA
Found at i:2044761 original size:69 final size:65
Alignment explanation
Indices: 2044688--2044842 Score: 152
Period size: 69 Copynumber: 2.3 Consensus size: 65
2044678 CATTCACTTT
2044688 TATATCTTTTTATTTTA-AAAATAAATTAAATAATTTATAAATTTATATTAT-ATAAAATATTAA
1 TATAT-TTTTTATTTTATAAAA-AAATTAAAT-A-TTAT-AATTTATATTATAATAAAA-ATTAA
**
2044751 AATTTA
60 AAAATA
* **
2044757 TATATTTATATTATATTTTATATAAAAATTACGTATTATAATTTATATTATAATAAAAATTAAAA
1 TATA-TT-T-TT-TATTTTATAAAAAAATTAAATATTATAATTTATATTATAATAAAAATTAAAA
2044822 AATA
62 AATA
*
2044826 TATATTTTTAATTTTAT
1 TATATTTTTTATTTTAT
2044843 TAAATTTATA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
65 7 0.09
66 2 0.03
67 1 0.01
68 2 0.03
69 30 0.41
70 12 0.16
71 3 0.04
72 14 0.19
73 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (65 bp):
TATATTTTTTATTTTATAAAAAAATTAAATATTATAATTTATATTATAATAAAAATTAAAAAATA
Found at i:2044771 original size:37 final size:36
Alignment explanation
Indices: 2044730--2044808 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 36
2044720 ATTTATAAAT
2044730 TTATA-TTATATAAAATATTAAA-ATTTATATATTTATA
1 TTATATTTATATAAAA-ATTAAATA-TTATA-ATTTATA
**
2044767 TTATATTTTATATAAAAATTACGTATTATAATTTATA
1 TTATA-TTTATATAAAAATTAAATATTATAATTTATA
2044804 TTATA
1 TTATA
2044809 ATAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
37 17 0.46
38 9 0.24
39 11 0.30
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (36 bp):
TTATATTTATATAAAAATTAAATATTATAATTTATA
Found at i:2052935 original size:28 final size:28
Alignment explanation
Indices: 2052901--2052965 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
2052891 TTCAATCCAC
*
2052901 ATATATATAAAAATTAAAATTAAAAATT
1 ATATATATAAAAATTAAAAGTAAAAATT
* *
2052929 ATTTATATAAAAATTAGAAGTAAAAATT
1 ATATATATAAAAATTAAAAGTAAAAATT
2052957 ATATATATA
1 ATATATATA
2052966 TTTAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
ATATATATAAAAATTAAAAGTAAAAATT
Found at i:2052941 original size:15 final size:14
Alignment explanation
Indices: 2052903--2052965 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 14
2052893 CAATCCACAT
2052903 ATATATAAAAATTA
1 ATATATAAAAATTA
*
2052917 AAAT-TAAAAATTA
1 ATATATAAAAATTA
*
2052930 TTTATATAAAAATTA
1 -ATATATAAAAATTA
*
2052945 GA-A-GTAAAAATTA
1 -ATATATAAAAATTA
2052958 TATATATA
1 -ATATATA
2052966 TTTAATTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
13 19 0.51
14 7 0.19
15 11 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATATAAAAATTA
Found at i:2052980 original size:22 final size:22
Alignment explanation
Indices: 2052955--2053003 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
2052945 GAAGTAAAAA
*
2052955 TTATATATATATTTAATTTAAT
1 TTATATATATATTTAAATTAAT
*
2052977 TTATATATATTTTTAAATTAAT
1 TTATATATATATTTAAATTAAT
2052999 TTATA
1 TTATA
2053004 AATAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATATATATTTAAATTAAT
Found at i:2052995 original size:18 final size:20
Alignment explanation
Indices: 2052952--2052996 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2052942 TTAGAAGTAA
2052952 AAATTATATATATATTTAATT
1 AAATTATATATATATTT-ATT
*
2052973 TAATT-TATATATATTT-TT
1 AAATTATATATATATTTATT
2052991 AAATTA
1 AAATTA
2052997 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTATATATATATTTATT
Found at i:2062082 original size:25 final size:25
Alignment explanation
Indices: 2062054--2062101 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2062044 AAAATACGAA
2062054 TAAAATATGTAAAAATAA-TATAATT
1 TAAAATATGTAAAAA-AATTATAATT
* *
2062079 TAAAATTTTTAAAAAAATTATAA
1 TAAAATATGTAAAAAAATTATAA
2062102 ATAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
TAAAATATGTAAAAAAATTATAATT
Found at i:2062188 original size:28 final size:27
Alignment explanation
Indices: 2062152--2062206 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
2062142 ACATCAACAT
2062152 AAATTATAAAAAATAAT-TTTTATATAA
1 AAATTAT-AAAAATAATATTTTATATAA
*
2062179 AAATATATAAATATAATATTTTATATAA
1 AAAT-TATAAAAATAATATTTTATATAA
2062207 TATGTCGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATTATAAAAATAATATTTTATATAA
Found at i:2067391 original size:39 final size:39
Alignment explanation
Indices: 2067335--2067411 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
2067325 GTGGTGGATA
*
2067335 GGGGAATGCATGGTGTTTTGGTCTTTTCCGAATCAGAAT
1 GGGGAATGCATGATGTTTTGGTCTTTTCCGAATCAGAAT
*
2067374 GGGGAATGCGTGATGTTTTGGTCTTTTCCGAATCAGAA
1 GGGGAATGCATGATGTTTTGGTCTTTTCCGAATCAGAA
2067412 AACAACTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (39 bp):
GGGGAATGCATGATGTTTTGGTCTTTTCCGAATCAGAAT
Found at i:2070060 original size:30 final size:30
Alignment explanation
Indices: 2069996--2070056 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
2069986 GAGAAATAAG
*
2069996 AATAAATTTTTAAATTTTAATTTGTATACA
1 AATAAATTATTAAATTTTAATTTGTATACA
* *
2070026 AATAAGTTATTAATTTTTAATTTGTAT-CA
1 AATAAATTATTAAATTTTAATTTGTATACA
2070055 AA
1 AA
2070057 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (30 bp):
AATAAATTATTAAATTTTAATTTGTATACA
Found at i:2070768 original size:29 final size:30
Alignment explanation
Indices: 2070718--2070776 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2070708 AAATATAAAA
**
2070718 TATAATTTTTTTATTTTATTAAATT-TATT
1 TATAATTTTTTTAAATTATTAAATTATATT
2070747 TATAATTTTTTTTAAATT-TTAAATTATATT
1 TATAA-TTTTTTTAAATTATTAAATTATATT
2070777 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TATAATTTTTTTAAATTATTAAATTATATT
Found at i:2070798 original size:23 final size:22
Alignment explanation
Indices: 2070736--2070799 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
2070726 TTTTATTTTA
* *
2070736 TTAAATTTAT-TTATAATTTTTT
1 TTAAATTTTTATTAT-ATTATTT
*
2070758 TTAAATTTTAAATTATATTATTT
1 TTAAATTTT-TATTATATTATTT
*
2070781 TTATATTTTTATTCATATT
1 TTAAATTTTTATT-ATATT
2070800 GTATTCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 11 0.32
23 19 0.56
24 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTAAATTTTTATTATATTATTT
Found at i:2084018 original size:26 final size:27
Alignment explanation
Indices: 2083982--2084040 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
2083972 TTTAATTTAC
2083982 ATATATAT-AAATTAAAAATAAAAATT
1 ATATATATAAAATTAAAAATAAAAATT
* *
2084008 ATATATGTAAAAATTAAAAATAAAATTT
1 ATATATAT-AAAATTAAAAATAAAAATT
2084036 ATATA
1 ATATA
2084041 AGAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.24
28 22 0.76
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATATATATAAAATTAAAAATAAAAATT
Found at i:2084022 original size:28 final size:29
Alignment explanation
Indices: 2083990--2084054 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
2083980 ACATATATAT
*
2083990 AAATTAAAAATAAAAATTATATATG-TAA
1 AAATTAAAAATAAAAATTATATAAGATAA
*
2084018 AAATTAAAAATAAAATTTATATAAGAATAA
1 AAATTAAAAATAAAAATTATATAAG-ATAA
2084048 AAATTAA
1 AAATTAA
2084055 GTTTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 23 0.70
30 10 0.30
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAATTAAAAATAAAAATTATATAAGATAA
Found at i:2084329 original size:19 final size:19
Alignment explanation
Indices: 2084307--2084344 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2084297 CTATACACGA
2084307 TGAAGCCAAGTTCTAAAAT
1 TGAAGCCAAGTTCTAAAAT
* *
2084326 TGAAGTCTAGTTCTAAAAT
1 TGAAGCCAAGTTCTAAAAT
2084345 AAACAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (19 bp):
TGAAGCCAAGTTCTAAAAT
Found at i:2085105 original size:12 final size:12
Alignment explanation
Indices: 2085071--2085108 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
2085061 ATAAAAATAA
2085071 TATAAATAAAAAT
1 TATAAAT-AAAAT
*
2085084 TTTAAA-AAAAT
1 TATAAATAAAAT
2085095 TATAAATAAAAT
1 TATAAATAAAAT
2085107 TA
1 TA
2085109 AAAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAAATAAAAT
Found at i:2085106 original size:23 final size:22
Alignment explanation
Indices: 2085062--2085118 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
2085052 TAATATGATA
2085062 TAAAAATAA-TATAAATAAAAATTT
1 TAAAAA-AATTATAAATAAAAA--T
2085086 TAAAAAAATTATAAAT-AAAAT
1 TAAAAAAATTATAAATAAAAAT
2085107 T-AAAAAATTATA
1 TAAAAAAATTATA
2085119 TTTTATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.34
21 2 0.06
23 6 0.19
24 13 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAAAATTATAAATAAAAAT
Found at i:2085146 original size:30 final size:32
Alignment explanation
Indices: 2085111--2085174 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
2085101 TAAAATTAAA
* * *
2085111 AAATTATATTTTAT-ATTTTTATAT-CAATAT
1 AAATTATAATATATAATTTTTATATAAAATAT
2085141 AAATTATAATATATAATTTTTATATAAAATAT
1 AAATTATAATATATAATTTTTATATAAAATAT
2085173 AA
1 AA
2085175 TATAAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 12 0.41
31 10 0.34
32 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (32 bp):
AAATTATAATATATAATTTTTATATAAAATAT
Found at i:2085830 original size:25 final size:24
Alignment explanation
Indices: 2085802--2085908 Score: 71
Period size: 25 Copynumber: 4.5 Consensus size: 24
2085792 AAAAATATAA
2085802 AAAATAATATAATTTAAAATTTTAT
1 AAAATAATATAATTT-AAATTTTAT
* *
2085827 AAAAT--TATAA-ATAAATTTAAT
1 AAAATAATATAATTTAAATTTTAT
* *
2085848 AAAATAAAATATATTTATATTTTAT
1 AAAATAATATA-ATTTAAATTTTAT
* * * *
2085873 ATCAATATTAT-ATATAATTTTTAT
1 A-AAATAATATAATTTAAATTTTAT
*
2085897 ATAA-AATATAAT
1 AAAATAATATAAT
2085909 AAAAATACAT
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
21 13 0.21
22 5 0.08
23 12 0.19
24 12 0.19
25 14 0.23
26 6 0.10
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATAATATAATTTAAATTTTAT
Found at i:2085864 original size:19 final size:21
Alignment explanation
Indices: 2085818--2085864 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2085808 ATATAATTTA
*
2085818 AAATTTTATAAAATTATAAAT
1 AAATTTAATAAAATTATAAAT
2085839 AAATTTAATAAAA-TA-AAAT
1 AAATTTAATAAAATTATAAAT
*
2085858 ATATTTA
1 AAATTTA
2085865 TATTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 2 0.08
21 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTAATAAAATTATAAAT
Found at i:2085871 original size:46 final size:48
Alignment explanation
Indices: 2085789--2085910 Score: 119
Period size: 46 Copynumber: 2.6 Consensus size: 48
2085779 AATAATATAA
* *
2085789 ATAAA-AAATATAA-AAAATAATATAATTTAAAATTTTATA-AA-ATT
1 ATAAATAAATTTAATAAAATAAAATAATTTAAAATTTTATACAATATT
*
2085833 ATAAATAAATTTAATAAAATAAAATATATTT-ATATTTTATATCAATATT
1 ATAAATAAATTTAATAAAATAAAATA-ATTTAAAATTTTATA-CAATATT
* * *
2085882 ATATATAATTTTTATATAAAATATAATAA
1 ATAAATAA-ATTTA-ATAAAATAAAATAA
2085911 AAATACATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 5 0.08
45 7 0.11
46 19 0.30
47 4 0.06
48 2 0.03
49 10 0.16
50 5 0.08
51 12 0.19
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (48 bp):
ATAAATAAATTTAATAAAATAAAATAATTTAAAATTTTATACAATATT
Found at i:2086288 original size:2 final size:2
Alignment explanation
Indices: 2086281--2086310 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2086271 ACTCGAGATT
2086281 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2086311 TTATGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2087205 original size:11 final size:12
Alignment explanation
Indices: 2087179--2087229 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
2087169 ATTTAAATTA
2087179 TATATTTTATAT
1 TATATTTTATAT
*
2087191 TATATTTGA-AT
1 TATATTTTATAT
2087202 TATATTATTATAT
1 TATATT-TTATAT
*
2087215 TATATTTTAAAT
1 TATATTTTATAT
2087227 TAT
1 TAT
2087230 GAATAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.24
12 18 0.53
13 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:2087217 original size:24 final size:25
Alignment explanation
Indices: 2087124--2087229 Score: 90
Period size: 25 Copynumber: 4.1 Consensus size: 25
2087114 AATATAAAAG
* * *
2087124 ATATTTATTTTATTTTA-TTAAATTT
1 ATATATATTATATTATATTTAAA-TT
*
2087149 ATATATAATTATTATTAAAAATTTAAATT
1 ATATAT-ATTA-TATT--ATATTTAAATT
* *
2087178 ATATATTTTATATTATATTTGAATT
1 ATATATATTATATTATATTTAAATT
2087203 ATAT-TATTATATTATATTTTAAATT
1 ATATATATTATATTATA-TTTAAATT
2087228 AT
1 AT
2087230 GAATAAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
24 11 0.17
25 27 0.41
26 3 0.05
27 8 0.12
28 3 0.05
29 9 0.14
30 5 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
ATATATATTATATTATATTTAAATT
Found at i:2093029 original size:13 final size:13
Alignment explanation
Indices: 2093011--2093042 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2093001 CCGGCTATTA
2093011 TACAACATAAGGC
1 TACAACATAAGGC
2093024 TACAACATAAGGC
1 TACAACATAAGGC
*
2093037 AACAAC
1 TACAAC
2093043 CTCCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (13 bp):
TACAACATAAGGC
Found at i:2104622 original size:11 final size:13
Alignment explanation
Indices: 2104595--2104628 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2104585 TTCATGGGTG
2104595 AGAGGAAAAATAC
1 AGAGGAAAAATAC
* *
2104608 AGAGGAAAAACAG
1 AGAGGAAAAATAC
2104621 AGAGGAAA
1 AGAGGAAA
2104629 GGCAAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.06, G:0.29, T:0.03
Consensus pattern (13 bp):
AGAGGAAAAATAC
Found at i:2108519 original size:22 final size:23
Alignment explanation
Indices: 2108486--2108528 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2108476 AAAATATTGG
2108486 GTTACTTATTATTTATATTTTTT
1 GTTACTTATTATTTATATTTTTT
*
2108509 GTTAC-TATTATTTGTATTTT
1 GTTACTTATTATTTATATTTT
2108529 ATTTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (23 bp):
GTTACTTATTATTTATATTTTTT
Found at i:2111214 original size:33 final size:33
Alignment explanation
Indices: 2111172--2111238 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2111162 CATAAAGTAT
2111172 AAGATCGATGGCTCAAACAAGTCTTTGGAATAA
1 AAGATCGATGGCTCAAACAAGTCTTTGGAATAA
2111205 AAGATCGATGGCTCAAACAAGTCTTTGGAATAA
1 AAGATCGATGGCTCAAACAAGTCTTTGGAATAA
2111238 A
1 A
2111239 TATTCTTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (33 bp):
AAGATCGATGGCTCAAACAAGTCTTTGGAATAA
Found at i:2115724 original size:18 final size:18
Alignment explanation
Indices: 2115701--2115739 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2115691 AAAGTATGAA
* *
2115701 AATAATCATGCATATTAT
1 AATAATCATACAAATTAT
*
2115719 AATAATTATACAAATTAT
1 AATAATCATACAAATTAT
2115737 AAT
1 AAT
2115740 TTTAATATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
AATAATCATACAAATTAT
Found at i:2126669 original size:32 final size:32
Alignment explanation
Indices: 2126608--2126711 Score: 82
Period size: 32 Copynumber: 3.0 Consensus size: 32
2126598 TTGATGATTC
*
2126608 ATATATTTATATTATGTAAAATATTAAAATTT
1 ATATATTTATATTATGTAAAATATAAAAATTT
* ***
2126640 ATATATTTATTTTATGTTTTATATAAAAATTATGT
1 ATATATTTATATTATGTAAAATATAAAAA-T-T-T
*
2126675 ATCATAATTTATATTGATATAAAAATATAAAATATTT
1 AT-AT-ATTTATATT-ATGT-AAAATATAAAA-ATTT
2126712 TTTTTATTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
32 24 0.44
33 1 0.02
34 1 0.02
35 3 0.06
36 2 0.04
37 9 0.17
38 4 0.07
39 9 0.17
40 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (32 bp):
ATATATTTATATTATGTAAAATATAAAAATTT
Found at i:2128834 original size:25 final size:25
Alignment explanation
Indices: 2128803--2128878 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
2128793 GTTTTAATTG
2128803 TTAAATCAAATAAATTAATATAAAA
1 TTAAATCAAATAAATTAATATAAAA
*
2128828 TTAAATC----AAATTCATATAAAA
1 TTAAATCAAATAAATTAATATAAAA
* *
2128849 TTGAATAAAATAAATTAATATAAAA
1 TTAAATCAAATAAATTAATATAAAA
2128874 TTAAA
1 TTAAA
2128879 AATTTTTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 18 0.43
25 24 0.57
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (25 bp):
TTAAATCAAATAAATTAATATAAAA
Found at i:2128879 original size:21 final size:21
Alignment explanation
Indices: 2128810--2128879 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 21
2128800 TTGTTAAATC
2128810 AAATAAATTAATATAAAATT-
1 AAATAAATTAATATAAAATTA
*
2128830 AAATCAAATTCATATAAAATTGAATA
1 AAAT-AAATTAATATAAAA-T---TA
2128856 AAATAAATTAATATAAAATTA
1 AAATAAATTAATATAAAATTA
2128877 AAA
1 AAA
2128880 ATTTTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.10
21 18 0.43
22 1 0.02
24 1 0.02
25 14 0.33
26 4 0.10
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (21 bp):
AAATAAATTAATATAAAATTA
Found at i:2132559 original size:30 final size:29
Alignment explanation
Indices: 2132523--2132589 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
2132513 TAATATTATA
*
2132523 AATTTTTAAAATTTAATTTGAATTTAAATT-
1 AATTTTTAAAA-TTAATCT-AATTTAAATTG
*
2132553 AATTTTTTTAAAATTAATCTCATTTAAATTG
1 AA--TTTTTAAAATTAATCTAATTTAAATTG
2132584 AATTTT
1 AATTTT
2132590 ATTGGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
29 4 0.12
30 11 0.34
31 8 0.25
32 9 0.28
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
AATTTTTAAAATTAATCTAATTTAAATTG
Found at i:2132570 original size:31 final size:32
Alignment explanation
Indices: 2132525--2132589 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
2132515 ATATTATAAA
*
2132525 TTTTTAAAATTTAATTTGAATTTAAATT-AATT
1 TTTTTAAAATTTAATCT-AATTTAAATTGAATT
*
2132557 TTTTTAAAA-TTAATCTCATTTAAATTGAATT
1 TTTTTAAAATTTAATCTAATTTAAATTGAATT
2132588 TT
1 TT
2132590 ATTGGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 9 0.30
31 12 0.40
32 9 0.30
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTTTAAAATTTAATCTAATTTAAATTGAATT
Found at i:2132635 original size:22 final size:20
Alignment explanation
Indices: 2132601--2132644 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2132591 TTGGTTTTGA
*
2132601 TTTTATTTGATTTATTAATTT
1 TTTTATTTAATTT-TTAATTT
*
2132622 TTTTAATTTAATTTTTTATTT
1 TTTT-ATTTAATTTTTAATTT
2132643 TT
1 TT
2132645 ATATGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTAATTTTTAATTT
Found at i:2132692 original size:20 final size:21
Alignment explanation
Indices: 2132654--2132692 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
2132644 TATATGTTAT
* *
2132654 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
2132675 TTTAA-ATAAATTTAAATA
1 TTTAATATAAATTTAAATA
2132693 AAAAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:2133487 original size:15 final size:16
Alignment explanation
Indices: 2133467--2133510 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2133457 TTAGTTTTAA
2133467 AATATAAAA-AATTAT
1 AATATAAAATAATTAT
*
2133482 AATATAAAATAATTAA
1 AATATAAAATAATTAT
*
2133498 AATTTTAAAATAA
1 AA-TATAAAATAA
2133511 AGTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
16 7 0.28
17 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:2133508 original size:17 final size:18
Alignment explanation
Indices: 2133486--2133523 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2133476 AATTATAATA
*
2133486 TAAAAT-AATTAAAATTT
1 TAAAATAAAGTAAAATTT
2133503 TAAAATAAAGTAAAATTT
1 TAAAATAAAGTAAAATTT
2133521 TAA
1 TAA
2133524 TTCATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAAAATAAAGTAAAATTT
Found at i:2139217 original size:7 final size:7
Alignment explanation
Indices: 2139205--2139243 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
2139195 TTTGAGTGCC
2139205 GGTTCAT
1 GGTTCAT
2139212 GGTTCAT
1 GGTTCAT
*
2139219 GGTTCAC
1 GGTTCAT
2139226 GGTTCAT
1 GGTTCAT
2139233 GGATTC-T
1 GG-TTCAT
2139240 GGTT
1 GGTT
2139244 TAGCCTAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 2 0.07
7 24 0.83
8 3 0.10
ACGTcount: A:0.13, C:0.15, G:0.31, T:0.41
Consensus pattern (7 bp):
GGTTCAT
Found at i:2139228 original size:21 final size:21
Alignment explanation
Indices: 2139204--2139243 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2139194 TTTTGAGTGC
2139204 CGGTTCATGG-TTCATGGTTCA
1 CGGTTCATGGATTC-TGGTTCA
2139225 CGGTTCATGGATTCTGGTT
1 CGGTTCATGGATTCTGGTT
2139244 TAGCCTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.12, C:0.17, G:0.30, T:0.40
Consensus pattern (21 bp):
CGGTTCATGGATTCTGGTTCA
Found at i:2140210 original size:22 final size:22
Alignment explanation
Indices: 2140182--2140230 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
2140172 AATGCAAGTG
2140182 AAAAGGGAAAAGGAAAAAAGAT
1 AAAAGGGAAAAGGAAAAAAGAT
2140204 AAAAGGGAAAAGGAAAAAAGAT
1 AAAAGGGAAAAGGAAAAAAGAT
2140226 AAAAG
1 AAAAG
2140231 AGCAGTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (22 bp):
AAAAGGGAAAAGGAAAAAAGAT
Found at i:2151299 original size:6 final size:6
Alignment explanation
Indices: 2151290--2151333 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
2151280 CCCTCCCATT
*
2151290 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA TCC-CCA ACTCCA CC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA -CCTCCA CCTCCA CC
2151334 CGGCATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 31 0.91
7 2 0.06
ACGTcount: A:0.18, C:0.66, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTCCA
Found at i:2151299 original size:15 final size:13
Alignment explanation
Indices: 2151274--2151333 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
2151264 TCTGTGACAT
*
2151274 ACCTCCCCCTCCC
1 ACCTCCACCTCCC
2151287 ATTCCTCCACCT-CC
1 A--CCTCCACCTCCC
2151301 ACCTCCACCT-CC
1 ACCTCCACCTCCC
*
2151313 ACCTCCATC-CCC
1 ACCTCCACCTCCC
*
2151325 AACTCCACC
1 ACCTCCACC
2151334 CGGCATTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 28 0.70
13 1 0.03
14 3 0.08
15 8 0.20
ACGTcount: A:0.17, C:0.65, G:0.00, T:0.18
Consensus pattern (13 bp):
ACCTCCACCTCCC
Found at i:2153478 original size:18 final size:18
Alignment explanation
Indices: 2153449--2153494 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
2153439 CTCGACTCGA
2153449 TATATATTAATTTTTATTAT
1 TATAT-TTAA-TTTTATTAT
*
2153469 T-TATTTAATTTTATTTT
1 TATATTTAATTTTATTAT
2153486 TATATTTAA
1 TATATTTAA
2153495 AAATAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 3 0.12
20 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTAATTTTATTAT
Found at i:2169185 original size:21 final size:22
Alignment explanation
Indices: 2169147--2169199 Score: 90
Period size: 21 Copynumber: 2.4 Consensus size: 22
2169137 CCTTAAATTA
2169147 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
2169169 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
2169190 ATAAATATAT
1 ATAAA-ATAT
2169200 AATTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:2178975 original size:19 final size:20
Alignment explanation
Indices: 2178951--2178994 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2178941 TAATTTTATA
2178951 TTTATA-TTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
2178970 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
2178990 TTTAT
1 TTTAT
2178995 TAATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:2181146 original size:13 final size:13
Alignment explanation
Indices: 2181130--2181154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2181120 TTTTATTAAT
2181130 TATAAAAATTATA
1 TATAAAAATTATA
2181143 TATAAAAATTAT
1 TATAAAAATTAT
2181155 TTATTTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAAAAATTATA
Found at i:2185157 original size:16 final size:16
Alignment explanation
Indices: 2185136--2185169 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2185126 AAGGCCAATA
2185136 TGTATGGTATAGTTCT
1 TGTATGGTATAGTTCT
2185152 TGTATGGTATAGTTCT
1 TGTATGGTATAGTTCT
2185168 TG
1 TG
2185170 AATTCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.26, T:0.50
Consensus pattern (16 bp):
TGTATGGTATAGTTCT
Found at i:2186567 original size:2 final size:2
Alignment explanation
Indices: 2186560--2186602 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2186550 TTCTTAACAC
* * *
2186560 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2186602 T
1 T
2186603 TTACTTGGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:2191193 original size:39 final size:39
Alignment explanation
Indices: 2191139--2191214 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
2191129 CTATCTATAA
2191139 ATAATCAAACGTTAGTTTCGGAAAGAAAGGAAGTCATAC
1 ATAATCAAACGTTAGTTTCGGAAAGAAAGGAAGTCATAC
2191178 ATAATCAAACGTTAGTTTCGGAAAGAAAGGAAGTCAT
1 ATAATCAAACGTTAGTTTCGGAAAGAAAGGAAGTCAT
2191215 TAACTATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (39 bp):
ATAATCAAACGTTAGTTTCGGAAAGAAAGGAAGTCATAC
Found at i:2194287 original size:25 final size:22
Alignment explanation
Indices: 2194246--2194318 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
2194236 TAAATGATTT
*
2194246 TAATAATATAATTAAATTGATG
1 TAATAATATAATTAAATTAATG
2194268 TAATAATATATATATCAAATTAAT-
1 TAATAATATA-AT-T-AAATTAATG
*
2194292 T--TAATAT-ATTAAATTAATT
1 TAATAATATAATTAAATTAATG
*
2194311 TAAAAATA
1 TAATAATA
2194319 AAAAAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
18 8 0.19
19 2 0.05
20 2 0.05
21 4 0.09
22 16 0.37
23 2 0.05
24 2 0.05
25 7 0.16
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (22 bp):
TAATAATATAATTAAATTAATG
Found at i:2194300 original size:18 final size:18
Alignment explanation
Indices: 2194277--2194313 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2194267 GTAATAATAT
2194277 ATATATCAAATTAATTTA
1 ATATATCAAATTAATTTA
*
2194295 ATATATTAAATTAATTTA
1 ATATATCAAATTAATTTA
2194313 A
1 A
2194314 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATCAAATTAATTTA
Found at i:2196605 original size:19 final size:18
Alignment explanation
Indices: 2196581--2196630 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 18
2196571 TTAAACAAAA
2196581 CAAAACAAACAAAAAATCT
1 CAAAACAAA-AAAAAATCT
2196600 CAAAACAAAAAAAAA-CT
1 CAAAACAAAAAAAAATCT
2196617 -AAAA-AAAAAAAAAT
1 CAAAACAAAAAAAAAT
2196631 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.30
16 4 0.13
17 2 0.07
18 6 0.20
19 9 0.30
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (18 bp):
CAAAACAAAAAAAAATCT
Found at i:2206422 original size:11 final size:10
Alignment explanation
Indices: 2206402--2206431 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2206392 ACTTTGCTTG
2206402 AAAGAAAAAA
1 AAAGAAAAAA
*
2206412 ATAGAAAAAA
1 AAAGAAAAAA
2206422 AAAGAAAAAA
1 AAAGAAAAAA
2206432 GTAAAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:2206439 original size:20 final size:20
Alignment explanation
Indices: 2206402--2206439 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2206392 ACTTTGCTTG
*
2206402 AAAGAAAAAAATAGAAAAAA
1 AAAGAAAAAAATAAAAAAAA
*
2206422 AAAGAAAAAAGTAAAAAA
1 AAAGAAAAAAATAAAAAA
2206440 TGAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAAATAAAAAAAA
Found at i:2207235 original size:48 final size:48
Alignment explanation
Indices: 2207179--2207469 Score: 317
Period size: 48 Copynumber: 6.1 Consensus size: 48
2207169 TGAGAAAAAA
*
2207179 ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTCAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAG
* * * * * *
2207227 ATGAGATTTTTAAGTTGTTGAGCTTCCGTTGAGAGGAG-CTTTTTTAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAG
* * **
2207274 ATGAGATTTTTAAAATTGTTGAGCCTCAGCTGAGA-GA-AACTTTTCAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTC-AG
* * *
2207322 AT-AGATTTTAAAGTTATTGAGCCTCTGTTGAGAGGAG-CTTTTTCAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAG
* *
2207368 ATAAGATTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCCCTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTC-AG
* ** *
2207417 ATGA-ATTTTTAAAATTGTTGAGTATCTGCTGAGAGGAGCCGTTTT-AG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAG
2207464 ATGAGA
1 ATGAGA
2207470 GCCCTTTTCA
Statistics
Matches: 202, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
46 28 0.14
47 67 0.33
48 68 0.34
49 39 0.19
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (48 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAG
Found at i:2207298 original size:96 final size:97
Alignment explanation
Indices: 2207179--2207787 Score: 570
Period size: 96 Copynumber: 6.2 Consensus size: 97
2207169 TGAGAAAAAA
*
2207179 ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCCCTTTTCAGATGAGATTTTT-AAGTT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAGATGAGATTTTTAAAGTT
* * * *
2207243 GTTGAGCTTCCGTTGAGAGGAG-CTTTTTTAG
66 GTTGAGCCTCTGCTGAGAGGAGCCTTTTTAAG
* * **
2207274 ATGAGATTTTTAAAATTGTTGAGCCTCAGCTGAGA-GA-AACTTTTCAAGAT-AGA-TTTTAAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTC-AGATGAGATTTTTAAAG
* * *
2207335 TTATTGAGCCTCTGTTGAGAGGAG-CTTTTTCAG
64 TTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTAAG
* * *
2207368 ATAAGATTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCCCTTTTCAAGATGA-ATTTTTAAAAT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTC-AGATGAGATTTTTAAAGT
**
2207432 TGTTGAGTATCTGCTGAGAGGAGCCGTTTTAGATGAGAG
65 TGTTGAGCCTCTGCTGAGAGGAGCC-TTTT---T-A-AG
* *
2207471 CCCTTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCC-TTTCAGGTGAGA
1 ----------ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAGATGAGA
* *
2207535 TTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAG
55 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTAAG
* * * *
2207579 ATG-GATTTTAAAGTTGTTGAGCCTTTGTTGAGATGAG-CTTTTTCAGATGAGATTTTTAAAGTT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAGATGAGATTTTTAAAGTT
* **
2207642 GTTGAGCCTCTGCTGAGAGAAGCCATTTCCAAG
66 GTTGAGCCTCTGCTGAGAGGAGCC-TTTTTAAG
* * * * *
2207675 ATGAAATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAACCTTTTTC--A--AGA-TTTTAAAATT
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAGATGAGATTTTTAAAGTT
*
2207735 ATTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA-
66 GTTGAGCCTCTGCTGAGAGGAGCCTTTTT-AAG
2207766 ATGAGATTTTTAAAGTTGTTGA
1 ATGAGA-TTTTAAAGTTGTTGA
2207788 AAGTTGTTGA
Statistics
Matches: 429, Mismatches: 52, Indels: 69
0.78 0.09 0.13
Matches are distributed among these distances:
91 8 0.02
92 17 0.04
93 58 0.14
94 51 0.12
95 27 0.06
96 134 0.31
97 31 0.07
98 14 0.03
101 1 0.00
103 2 0.00
108 2 0.00
109 1 0.00
112 5 0.01
113 43 0.10
114 35 0.08
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (97 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAGATGAGATTTTTAAAGTT
GTTGAGCCTCTGCTGAGAGGAGCCTTTTTAAG
Found at i:2207328 original size:47 final size:47
Alignment explanation
Indices: 2207179--2207787 Score: 305
Period size: 48 Copynumber: 12.5 Consensus size: 47
2207169 TGAGAAAAAA
*
2207179 ATGAGA-TTTTAAAGTTGTTGAGCCTCTA-CTGAGAGGAGCCCTTTTCAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTC-AGCTGAGA-GA-ACCTTTTCAG
* * * * * *
2207227 ATGAGATTTTT-AAGTTGTTGAGCTTCCGTTGAGAGGAGCTTTTTTAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACCTTTTCAG
* *
2207274 ATGAGATTTTTAAAATTGTTGAGCCTCAGCTGAGAGAAACTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGAGAACCTTTTC-AG
* * * * *
2207322 AT-AGA-TTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTCAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACCTTTTCAG
* ** *
2207368 ATAAGA-TTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCCCTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GA-ACCTTTTC-AG
* ** * *
2207417 ATGA-ATTTTTAAAATTGTTGAGTATCTGCTGAGAGGAGCCGTTTT-AG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACC-TTTTCAG
* * * ** * * *
2207464 ATGAGAGCCCTTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAG
1 ATGAGA----TTTTTA-A--AG-TTGTT-GAG--CCTCAG---CTG-AGAGA--A-CCTTTTCAG
* * *
2207529 GTGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GA-ACCTTTTC-AG
** * * *
2207579 ATG-GA-TTTTAAAGTTGTTGAGCCTTTGTTGAGATGAGCTTTTTCAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACCTTTTCAG
* *
2207625 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTTCCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGAGAA-CC-TTTTC-AG
* * *
2207675 ATGA-AATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAACCTTTTTC--
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACC-TTTTCAG
* * * * * *
2207721 A--AGA-TTTTAAAATTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAA
1 ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGA-GAACCTTTTCAG
2207766 ATGAGATTTTTAAAGTTGTTGA
1 ATGAGATTTTTAAAGTTGTTGA
2207788 AAGTTGTTGA
Statistics
Matches: 442, Mismatches: 75, Indels: 88
0.73 0.12 0.15
Matches are distributed among these distances:
43 5 0.01
44 30 0.07
45 2 0.00
46 34 0.08
47 84 0.19
48 130 0.29
49 86 0.19
50 16 0.04
51 5 0.01
52 5 0.01
53 1 0.00
54 2 0.00
55 1 0.00
56 6 0.01
57 6 0.01
58 2 0.00
59 2 0.00
60 1 0.00
61 5 0.01
62 5 0.01
63 2 0.00
64 3 0.01
65 9 0.02
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (47 bp):
ATGAGATTTTTAAAGTTGTTGAGCCTCAGCTGAGAGAACCTTTTCAG
Found at i:2207477 original size:16 final size:17
Alignment explanation
Indices: 2207452--2207486 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2207442 CTGCTGAGAG
*
2207452 GAGCCGTTTT-AGATGA
1 GAGCCCTTTTCAGATGA
2207468 GAGCCCTTTTCAGATGA
1 GAGCCCTTTTCAGATGA
2207485 GA
1 GA
2207487 TTTTTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (17 bp):
GAGCCCTTTTCAGATGA
Found at i:2207534 original size:48 final size:48
Alignment explanation
Indices: 2207468--2207787 Score: 359
Period size: 48 Copynumber: 6.7 Consensus size: 48
2207458 TTTTAGATGA
*
2207468 GAGCCCTTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAG
1 GAGCCC-TTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
* *
2207517 GAGCCCTTTCAGGTGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAT
1 GAGCCCTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
* * *
2207565 GAGCCCTTTTCAAGATG-GA-TTTTAAAGTTGTTGAGCCTTTGTTGAGAT
1 GAGCCC-TTTC-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
**
2207613 GAGCTTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
1 GAGCCCTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
* * * *
2207661 AAGCCATTTCCAAGATGA-AATTTTAAAGTCGTTGAGCCTCTGCTGAGAG
1 GAGCCCTTT-C-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
* * * *
2207710 GAACCTTTTTC--A--AGA-TTTTAAAATTATTGAGCCTCTGCTGAGAG
1 GAGCC-CTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
** *
2207754 GAGCTTTTTCAAATGAGATTTTTAAAGTTGTTGA
1 GAGCCCTTTCAGATGAGATTTTTAAAGTTGTTGA
2207788 AAGTTGTTGA
Statistics
Matches: 232, Mismatches: 26, Indels: 27
0.81 0.09 0.09
Matches are distributed among these distances:
43 5 0.02
44 30 0.13
45 2 0.01
46 6 0.03
47 9 0.04
48 121 0.52
49 46 0.20
50 13 0.06
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (48 bp):
GAGCCCTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG
Found at i:2207534 original size:65 final size:65
Alignment explanation
Indices: 2207403--2207534 Score: 185
Period size: 65 Copynumber: 2.0 Consensus size: 65
2207393 TTGCTGAGAG
* * * *
2207403 GAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGTATCTGCTGAGAGGAGCCGTTTTAGATGA
1 GAGCCCTTTTCAAGATGAATTTTTAAAATTATTGAGCATCTGCTGAGAGGAGCCCTTTCAGATGA
* * *
2207468 GAGCCCTTTTC-AGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGGTG
1 GAGCCCTTTTCAAGATGA-ATTTTTAAAATTATTGAGCATCTGCTGAGAGGAGCCCTTTCAGATG
2207532 A
65 A
2207533 GA
1 GA
2207535 TTTTTAAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 6 0.10
65 53 0.90
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (65 bp):
GAGCCCTTTTCAAGATGAATTTTTAAAATTATTGAGCATCTGCTGAGAGGAGCCCTTTCAGATGA
Found at i:2207558 original size:113 final size:113
Alignment explanation
Indices: 2207361--2207574 Score: 315
Period size: 113 Copynumber: 1.9 Consensus size: 113
2207351 GAGAGGAGCT
* *
2207361 TTTTCAGATAAGATTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCCCTTTTCAAGATGAATTTT
1 TTTTCAGATAAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTT
* *
2207426 TAAAATTGTTGAGTATCTGCTGAGAGGAGCCGTTTTAGATGAGAGCCC
66 TAAAATTGTTGAGCATCTGCTGAGAGGAGCCCTTTTAGATGAGAGCCC
* *
2207474 TTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCC-TTTC-AGGTGAGATT
1 TTTTCAGATAAGA-TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGA-ATT
* * *
2207537 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTT
64 TTTAAAATTGTTGAGCATCTGCTGAGAGGAGCCCTTTT
2207575 CAAGATGGAT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 5 0.06
113 52 0.58
114 33 0.37
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (113 bp):
TTTTCAGATAAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTT
TAAAATTGTTGAGCATCTGCTGAGAGGAGCCCTTTTAGATGAGAGCCC
Found at i:2207629 original size:161 final size:160
Alignment explanation
Indices: 2207313--2207757 Score: 452
Period size: 161 Copynumber: 2.9 Consensus size: 160
2207303 CTGAGAGAAA
* **
2207313 CTTTTCAAGATAGATTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTCAGATAAGATTTT
1 CTTTTCAAGATAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGATAAGATTTT
* *
2207378 AAAGTTGTTGAGCCTTTGCTGAGAGGAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGTATC
66 AAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGCATC
2207443 TGCTGAGAGGAGCCGTTTTAGATGAGAGCC
131 TGCTGAGAGGAGCCGTTTTAGATGAGAGCC
* *
2207473 CTTTTC-AGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGGTGAGATT
1 CTTTTCAAGAT-AGA-TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGATAAGA-T
* * *
2207537 TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAGATGGA-TTTTAAAGTTGTTGAGC
63 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGC
* * * * *
2207601 CTTTGTTGAGATGAG-C-TTTT---TCAGA---
128 ATCTGCTGAGAGGAGCCGTTTTAGATGAGAGCC
* * * *
2207626 ----T-GAGAT---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTTCCAAGATGAA-AT
1 CTTTTCAAGATAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTT-C-AGAT-AAGAT
* * * *
2207682 TTTAAAGTCGTTGAGCCTCTGCTGAGAGGAACCTTTTTC-A-A-G-A-TTTTAAAATTATTGAGC
63 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGC
*
2207742 CTCTGCTGAGAGGAGC
128 ATCTGCTGAGAGGAGC
2207758 TTTTTCAAAT
Statistics
Matches: 248, Mismatches: 29, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
141 28 0.11
142 1 0.00
143 1 0.00
144 36 0.15
145 37 0.15
146 4 0.02
147 1 0.00
149 5 0.02
156 4 0.02
159 8 0.03
160 10 0.04
161 68 0.27
162 45 0.18
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (160 bp):
CTTTTCAAGATAGATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGATAAGATTTT
AAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATGAATTTTTAAAATTGTTGAGCATC
TGCTGAGAGGAGCCGTTTTAGATGAGAGCC
Found at i:2207717 original size:144 final size:141
Alignment explanation
Indices: 2207474--2207787 Score: 427
Period size: 141 Copynumber: 2.2 Consensus size: 141
2207464 ATGAGAGCCC
* * * * *
2207474 TTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCAGGTGAGATTTT
1 TTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTTCAGATGAGAATTT
* * * * *
2207539 TAAAGTTGTTGAGCCTCTGCTGAGATGAG-CCCTTTTCAAGATGGATTTTAAAGTTGTTGAGCCT
66 TAAAGTCGTTGAGCCTCTGCTGAGAGGAGACCTTTTTC-A-A--GATTTTAAAATTATTGAGCCT
* * *
2207603 TTGTTGAGATGAGCT
127 CTGCTGAGAGGAGCT
2207618 TTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTTCCAAGATGA-AAT
1 TTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTT-C-AGATGAGAAT
2207682 TTTAAAGTCGTTGAGCCTCTGCTGAGAGGA-ACCTTTTTCAAGATTTTAAAATTATTGAGCCTCT
64 TTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACCTTTTTCAAGATTTTAAAATTATTGAGCCTCT
2207746 GCTGAGAGGAGCT
129 GCTGAGAGGAGCT
*
2207759 TTTTCAAATGAGATTTTTAAAGTTGTTGA
1 TTTTCAGATGAGATTTTTAAAGTTGTTGA
2207788 AAGTTGTTGA
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
141 59 0.39
143 1 0.01
144 50 0.33
145 38 0.25
146 5 0.03
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (141 bp):
TTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCATTTCAGATGAGAATTT
TAAAGTCGTTGAGCCTCTGCTGAGAGGAGACCTTTTTCAAGATTTTAAAATTATTGAGCCTCTGC
TGAGAGGAGCT
Found at i:2207820 original size:58 final size:60
Alignment explanation
Indices: 2207736--2207847 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
2207726 TTTAAAATTA
* * *
2207736 TTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA-ATGAGATTTTTAAAGTTGTTGAAAGTTG
1 TTGAGCCTCTGCTAAGAAGAGTCTTTTTCAAGATGAGATTTTTAAAGTTATTGAAAGTTG
* * *
2207794 TTGAGCTTCTGCTAAGAAGAGTTTTTTTTAAGATGAGATTTTTAAAGTTATTGA
1 TTGAGCCTCTGCTAAGAAGAGTCTTTTTCAAGATGAGATTTTTAAAGTTATTGA
2207848 GCCTTTGCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 18 0.39
59 7 0.15
60 21 0.46
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (60 bp):
TTGAGCCTCTGCTAAGAAGAGTCTTTTTCAAGATGAGATTTTTAAAGTTATTGAAAGTTG
Found at i:2212945 original size:2 final size:2
Alignment explanation
Indices: 2212938--2212970 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2212928 TTCTGCTATG
2212938 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
2212971 GAGAGAGAGA
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:2212975 original size:2 final size:2
Alignment explanation
Indices: 2212970--2212996 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2212960 ATATATATAT
2212970 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
2212997 CTTACGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2215637 original size:30 final size:31
Alignment explanation
Indices: 2215557--2215638 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
2215547 CTAAAGAAGT
2215557 CAAAGAAGTGAAAGAAAAT-GTTGTGGCAGC
1 CAAAGAAGTGAAAGAAAATGGTTGTGGCAGC
* * *
2215587 CAAAGAAGTGAAGGAAAATGGTT-TTGCTGC
1 CAAAGAAGTGAAAGAAAATGGTTGTGGCAGC
*
2215617 CAAAGAAGTGAAATAAAATGGT
1 CAAAGAAGTGAAAGAAAATGGT
2215639 GTCACCCATT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 43 0.93
31 3 0.07
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.20
Consensus pattern (31 bp):
CAAAGAAGTGAAAGAAAATGGTTGTGGCAGC
Found at i:2217452 original size:3 final size:3
Alignment explanation
Indices: 2217444--2217470 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2217434 TGTCCGGTAC
2217444 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
2217471 ATACTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2226631 original size:25 final size:25
Alignment explanation
Indices: 2226587--2226638 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
2226577 TCTTCTATTA
*
2226587 TTTTCATTTTCATTTGTCTTTCCAT
1 TTTTCATTTTCATTTGTCTTGCCAT
*
2226612 TTTTCCTTTATCATTT-TCTTGCCAT
1 TTTTCATTT-TCATTTGTCTTGCCAT
2226637 TT
1 TT
2226639 CACTTTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.12, C:0.21, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTCATTTTCATTTGTCTTGCCAT
Found at i:2231011 original size:50 final size:50
Alignment explanation
Indices: 2230949--2231312 Score: 308
Period size: 50 Copynumber: 7.3 Consensus size: 50
2230939 GGTTCGAGAA
* * * *
2230949 AAGATAAAATTTTTAAAGTTGTTGAGCCTTTGCTTATAGGAGCGTTTTCC
1 AAGATAAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
* * * *
2230999 ATA-ATAAAATTTTTAAAGCTATAGAGCCTCTACTTAGAGGAGC-TTTTCT
1 A-AGATAAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
** ** * *
2231048 AAGATAATTTTTTTAAAGTTATAGAG-CTTCTATTTAGAGAAGCTTTTTTC
1 AAGATAAAATTTTTAAAGTTATAGAGCCTT-TGCTTAGAGGAGCTTTTTCC
* * * * *
2231098 AAGATGAAAA-ATTTAAAGTCATAGAGCCTTTGTTTCGAGGAGCTTTTTTC
1 AAGAT-AAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
* * ** * * *
2231148 AAGATGAAATTTTTAATGTCGTAAAGCCTCTGCTTGGAGGAGCTTTTTCC
1 AAGATAAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
* * * * *
2231198 AAGATAAAATTTTTAAAGTCATAGAG-CTTCTGTTTAGATGTGCTTTTTTC
1 AAGATAAAATTTTTAAAGTTATAGAGCCTT-TGCTTAGAGGAGCTTTTTCC
* * * * * *
2231248 AAGATAAAATTTTTAAAGTTGTTGAGTCTCTGCTTATAGGAGC-TTTTCT
1 AAGATAAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
*
2231297 AAGATGAAATTTTTAA
1 AAGATAAAATTTTTAA
2231313 GTTTTAAAAT
Statistics
Matches: 253, Mismatches: 52, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.01
49 61 0.24
50 181 0.72
51 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (50 bp):
AAGATAAAATTTTTAAAGTTATAGAGCCTTTGCTTAGAGGAGCTTTTTCC
Found at i:2231214 original size:100 final size:100
Alignment explanation
Indices: 2230949--2231312 Score: 380
Period size: 100 Copynumber: 3.7 Consensus size: 100
2230939 GGTTCGAGAA
* * * *
2230949 AAGATAAAATTTTTAAAGTTGTTGAGCCTTTGCTTATAGGAGCGTTTTCCATA-ATAAAATTTTT
1 AAGATAAAATTTTTAAAGTTGTAGAGCCTCTGCTTAGAGGAGCTTTTTCCA-AGATAAAATTTTT
* ** *
2231013 AAAG-CTATAGAGCCTCTACTTAGAGGAGCTTTTCT-
65 AAAGTC-ATAGAGCCTTTGTTTAGAGGAGCTTTTTTC
** * * ** * * *
2231048 AAGATAATTTTTTTAAAGTTATAGAGCTTCTATTTAGAGAAGCTTTTTTCAAGATGAAAA-ATTT
1 AAGATAAAATTTTTAAAGTTGTAGAGCCTCTGCTTAGAGGAGCTTTTTCCAAGAT-AAAATTTTT
*
2231112 AAAGTCATAGAGCCTTTGTTTCGAGGAGCTTTTTTC
65 AAAGTCATAGAGCCTTTGTTTAGAGGAGCTTTTTTC
* * * * *
2231148 AAGATGAAATTTTTAATGTCGTAAAGCCTCTGCTTGGAGGAGCTTTTTCCAAGATAAAATTTTTA
1 AAGATAAAATTTTTAAAGTTGTAGAGCCTCTGCTTAGAGGAGCTTTTTCCAAGATAAAATTTTTA
* *
2231213 AAGTCATAGAG-CTTCTGTTTAGATGTGCTTTTTTC
66 AAGTCATAGAGCCTT-TGTTTAGAGGAGCTTTTTTC
* * * * *
2231248 AAGATAAAATTTTTAAAGTTGTTGAGTCTCTGCTTATAGGAGC-TTTTCTAAGATGAAATTTTTA
1 AAGATAAAATTTTTAAAGTTGTAGAGCCTCTGCTTAGAGGAGCTTTTTCCAAGATAAAATTTTTA
2231312 A
66 A
2231313 GTTTTAAAAT
Statistics
Matches: 214, Mismatches: 45, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
98 1 0.00
99 99 0.46
100 114 0.53
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (100 bp):
AAGATAAAATTTTTAAAGTTGTAGAGCCTCTGCTTAGAGGAGCTTTTTCCAAGATAAAATTTTTA
AAGTCATAGAGCCTTTGTTTAGAGGAGCTTTTTTC
Found at i:2231251 original size:150 final size:148
Alignment explanation
Indices: 2230949--2231312 Score: 378
Period size: 150 Copynumber: 2.4 Consensus size: 148
2230939 GGTTCGAGAA
* ** * * * * *
2230949 AAGATAAAATTTTTAAAGTTGTTGAGCCTTTGCTTATAGGAGCGTTTTCCATA-ATAAAATTTTT
1 AAGATAAAATATTTAAAGTCATAGAGCCTCTGCTTAGAGGAGC-TTTTCTA-AGATGAAATTTTT
* * ** *
2231013 AAAG-C-TATAGAGCCTCTACTTAGAGGAGCTTTTCTAAGATAATTTTTTTAAAGTTATAGAGCT
64 AATGTCGTA-A-AGCCTCTACTTAGAGGAGCTTTTCCAAGATAAAATTTTTAAAGTCATAGAGCT
2231076 TCTATTTAGAGAAGCTTTTTTC
127 TCTATTTAGAGAAGCTTTTTTC
* * * *
2231098 AAGATGAAAA-ATTTAAAGTCATAGAGCCTTTGTTTCGAGGAGCTTTTTTCAAGATGAAATTTTT
1 AAGAT-AAAATATTTAAAGTCATAGAGCCTCTGCTTAGAGGAGCTTTTCT-AAGATGAAATTTTT
* *
2231162 AATGTCGTAAAGCCTCTGCTTGGAGGAGCTTTTTCCAAGATAAAATTTTTAAAGTCATAGAGCTT
64 AATGTCGTAAAGCCTCTACTTAGAGGAGC-TTTTCCAAGATAAAATTTTTAAAGTCATAGAGCTT
* *
2231227 CTGTTTAGATG-TGCTTTTTTC
128 CTATTTAGA-GAAGCTTTTTTC
* ** * * *
2231248 AAGATAAAATTTTTAAAGTTGTTGAGTCTCTGCTTATAGGAGCTTTTCTAAGATGAAATTTTTAA
1 AAGATAAAATATTTAAAGTCATAGAGCCTCTGCTTAGAGGAGCTTTTCTAAGATGAAATTTTTAA
2231313 GTTTTAAAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
148 5 0.03
149 82 0.46
150 88 0.49
151 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (148 bp):
AAGATAAAATATTTAAAGTCATAGAGCCTCTGCTTAGAGGAGCTTTTCTAAGATGAAATTTTTAA
TGTCGTAAAGCCTCTACTTAGAGGAGCTTTTCCAAGATAAAATTTTTAAAGTCATAGAGCTTCTA
TTTAGAGAAGCTTTTTTC
Found at i:2231565 original size:3 final size:3
Alignment explanation
Indices: 2231559--2231589 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2231549 ACTACTAGTG
2231559 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2231590 ACTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2231606 original size:10 final size:9
Alignment explanation
Indices: 2231593--2231624 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
2231583 TTATTATACT
2231593 TTTTTTTCC
1 TTTTTTTCC
2231602 TTTTTTTCC
1 TTTTTTTCC
2231611 TTTTTTTCC
1 TTTTTTTCC
2231620 TTTTT
1 TTTTT
2231625 CTCTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:2231630 original size:8 final size:9
Alignment explanation
Indices: 2231593--2231634 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
2231583 TTATTATACT
*
2231593 TTTTTTTCC
1 TTTTTCTCC
*
2231602 TTTTTTTCC
1 TTTTTCTCC
*
2231611 TTTTTTTCC
1 TTTTTCTCC
2231620 TTTTTCT-C
1 TTTTTCTCC
2231628 TTTTTCT
1 TTTTTCT
2231635 TTTCTTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTCC
Found at i:2231632 original size:18 final size:18
Alignment explanation
Indices: 2231591--2231642 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
2231581 TATTATTATA
*
2231591 CTTTTTTTTCCTTTTTTT
1 CTTTTTTTTCCTTTTTCT
*
2231609 CCTTTTTTTCCTTTTTCT
1 CTTTTTTTTCCTTTTTCT
*
2231627 CTTTTTCTTTTCTTTT
1 CTTTTT-TTTCCTTTT
2231643 CTGATCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTTTTCCTTTTTCT
Found at i:2233175 original size:5 final size:5
Alignment explanation
Indices: 2233165--2233197 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
2233155 AATAAAATTT
2233165 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
2233198 TGTGTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:2234346 original size:20 final size:21
Alignment explanation
Indices: 2234307--2234346 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2234297 AATTTGAAAG
2234307 TATTTTCTTTTAGCATATAAAA
1 TATTTTCTTTTA-CATATAAAA
2234329 TATTTTCTTTTA-ATATAA
1 TATTTTCTTTTACATATAA
2234347 TAAAATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTTCTTTTACATATAAAA
Found at i:2236817 original size:83 final size:84
Alignment explanation
Indices: 2236678--2236844 Score: 264
Period size: 83 Copynumber: 2.0 Consensus size: 84
2236668 ACCACGTCCA
* *
2236678 GCCATTATGACATATTTGTCATGTTACACCGTGGTGCATCAAACTCAGAAATTAATGGCCCCCTA
1 GCCATCATGACATATTTGTCATGTTACACCATGGTGCATCAAACTCAGAAATTAATGGCCCCCTA
*
2236743 ACAA-TTTCTATTAGGTAG
66 ACAATTTTCTATCAGGTAG
* * **
2236761 GCCATCATGACATATTTGTCATGTTACATCATGGTGCATCAAACTCAGAACTTAATGTTCCCCTA
1 GCCATCATGACATATTTGTCATGTTACACCATGGTGCATCAAACTCAGAAATTAATGGCCCCCTA
2236826 ACAATTTTCTATCAGGTAG
66 ACAATTTTCTATCAGGTAG
2236845 TTTGTTCCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 63 0.83
84 13 0.17
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (84 bp):
GCCATCATGACATATTTGTCATGTTACACCATGGTGCATCAAACTCAGAAATTAATGGCCCCCTA
ACAATTTTCTATCAGGTAG
Found at i:2238734 original size:236 final size:237
Alignment explanation
Indices: 2237605--2238829 Score: 862
Period size: 236 Copynumber: 5.2 Consensus size: 237
2237595 AAATTTAGAG
* * *
2237605 TTTTTCTTATATATTTATAAAA-AATAATTGATTAAAAAATTTTACATTGAT-AATTTAATTATT
1 TTTTTCTTATATATTTATAAAATAATAATTAATT--AAAATTTTATATT-ATCAATATAATTATT
* * * * * ** * ** * * *
2237668 TACATTATATTAATTTTTTTTTATGATTGTTATTACCTTT-AGTTATGTTTATAGTTGTCATTAC
63 TATATTATAATAATATATTCTTACAATTGTTCTTATTTTTCA-TTATGTTTAGAATTGTCATAAC
* * * * * * * ** *
2237732 -TTTTTCTTAGTATATTATGA-AATTGTTTACT--TATTAAG-TCAAATTATGTTAATTTTACGT
127 GCTTTTCTTAGTGTATTATAACAATT-CTTACTCATTTTATGCTCAAATAATACTAATTTTATGT
* * * *
2237792 TTTT-TCCACTTTTTTTTA-TATTATCT-ACTTGTTTTTT-ATTCTTTAATTA
191 TTTTCT-CAC--TTGTTTACT-TTA-CTAATTTATTTTTTAATT-TTTAACTA
* * * *
2237841 TTTTCCTTATATATTTAAAAAATAATAATTAGTTACAATTTTATATTATCAATATAATTATTTAT
1 TTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTATATTATCAATATAATTATTTAT
* * * * * * **
2237906 GTTACAATAATATATTCTTACAATTGTTCTTATCTTTCA-TATATTTCGAATTATCATAATTC-T
66 ATTATAATAATATATTCTTACAATTGTTCTTATTTTTCATTATGTTTAGAATTGTCATAACGCTT
* * * * *
2237969 TTCTTAGTATGTTATAACATTTCTTACTTATTTTATG-TCAAATAATATTAATTTTATGTTTCTT
131 TTCTTAGTGTATTATAACAATTCTTACTCATTTTATGCTCAAATAATACTAATTTTATGTTT-TT
* * * *
2238033 CTTACTTGTTTACATTACTAATTTATTTTATAATTTTTAGCTA
195 CTCACTTGTTTACTTTACTAATTTATTTTTTAATTTTTAACTA
* * * * *
2238076 TTTTCCTTATATATATATATATATACAAAAACAATAATTAATTAAAAATTTACATTA-CCATCAT
1 -TTT--TTCT-TATATAT-T-TAT---AAAATAATAATTAATTAAAATTTTATATTATCAAT-AT
** *
2238140 AATTATTTATATTATAATAATATAATT-TTATTATTGTTCTTATTTTTTATTATGTTTAGAATTG
56 AATTATTTATATTATAATAATAT-ATTCTTACAATTGTTCTTATTTTTCATTATGTTTAGAATTG
* * * * * * *
2238204 TCATAAC-TTTTTCTTAGTGTTTTATAATATTTCTTATTCATTTTACGC-CAAATGATACTAATT
120 TCATAACGCTTTTCTTAGTGTATTATAACAATTCTTACTCATTTTATGCTCAAATAATACTAATT
* * * * * * * *
2238267 TTACG--TTTCTTATTTATTTGCATTA-TCAATTTATTTTTAAATTTTAAACTA
185 TTATGTTTTTCTCACTTGTTTACTTTACT-AATTTATTTTTTAATTTTTAACTA
** * * * * * *
2238318 TTTTTCTTATATATTTATTGGAATAATGATTAATTAAAAGTTTATGTTGTCAACATAATAATTTA
1 TTTTTCTTATATATTTA-TAAAATAATAATTAATTAAAATTTTATATTATCAATATAATTATTTA
* * * *
2238383 TTTTATAATAATATATTCTTACAATTG-T-TTATATTTTCAACTATGTTTAAAATTGTCATAATT
65 TATTATAATAATATATTCTTACAATTGTTCTTAT-TTTTC-ATTATGTTTAGAATTGTCATAA-C
* * * * *
2238446 G-TTTT-TTAATGTATTATGACTATTCTTACTTATTTTA--CATCAAACAATACTAATTTTATGT
127 GCTTTTCTTAGTGTATTATAACAATTCTTACTCATTTTATGC-TCAAATAATACTAATTTTATGT
* * * *
2238507 ATGTTCTCACTTGTTTACTTT-TTCAATTTATTTTTTAATTTCTATCTA
191 -TTTTCTCACTTGTTTACTTTACT-AATTTATTTTTTAATTTTTAACTA
*
2238555 TTTTTCTTAAATATTTATAAAATAATAATTAATTAAAATTTTACT-TTATCAATATAATT-TCTT
1 TTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTA-TATTATCAATATAATTAT-TT
* * * ** * *
2238618 ACATTATAATAATATTTTATTATGATTGTTCTTATTTTTCATTACGTTTAGAATTGTTATAACGC
64 ATATTATAATAATATATTCTTACAATTGTTCTTATTTTTCATTATGTTTAGAATTGTCATAACGC
* * * * *
2238683 TATT-TTGGTGTATTATAACAATTCATACTCATTTTATGCT-AAATGATACTAATTTTATATTTT
129 TTTTCTTAGTGTATTATAACAATTCTTACTCATTTTATGCTCAAATAATACTAA-TTT-TATGTT
* * * *
2238746 TTTCTCACTTGTTTACGTTACTAATATGTTTTTCTAATTTTTAAATA
192 TTTCTCACTTGTTTACTTTACTAATTTATTTTT-TAATTTTTAACTA
* *
2238793 TTTTTCTTATATGTTT-TAAAAAAATAATTAATTAAAA
1 TTTTTCTTATATATTTATAAAATAATAATTAATTAAAA
2238830 ATTTGAGTTA
Statistics
Matches: 779, Mismatches: 159, Indels: 101
0.75 0.15 0.10
Matches are distributed among these distances:
232 5 0.01
233 8 0.01
234 152 0.20
235 85 0.11
236 169 0.22
237 124 0.16
238 44 0.06
239 10 0.01
240 1 0.00
241 6 0.01
242 36 0.05
243 4 0.01
244 66 0.08
245 69 0.09
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (237 bp):
TTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTATATTATCAATATAATTATTTAT
ATTATAATAATATATTCTTACAATTGTTCTTATTTTTCATTATGTTTAGAATTGTCATAACGCTT
TTCTTAGTGTATTATAACAATTCTTACTCATTTTATGCTCAAATAATACTAATTTTATGTTTTTC
TCACTTGTTTACTTTACTAATTTATTTTTTAATTTTTAACTA
Found at i:2241128 original size:22 final size:24
Alignment explanation
Indices: 2241084--2241130 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
2241074 ATATTCATAT
*
2241084 TTATAAAATATTTTTAAAATAAAA
1 TTATAAAATATTTTGAAAATAAAA
*
2241108 TTAT-AAA-ATTTTGAAATTAAAA
1 TTATAAAATATTTTGAAAATAAAA
2241130 T
1 T
2241131 GATTACTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 3 0.14
24 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATAAAATATTTTGAAAATAAAA
Found at i:2248590 original size:17 final size:17
Alignment explanation
Indices: 2248561--2248614 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
2248551 CATTAATTAA
2248561 TATAATTTTATTATTTT
1 TATAATTTTATTATTTT
* * *
2248578 TATCATTTGATTATGTT
1 TATAATTTTATTATTTT
* *
2248595 AATAATTTTTTTATTTT
1 TATAATTTTATTATTTT
2248612 TAT
1 TAT
2248615 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:2248698 original size:34 final size:32
Alignment explanation
Indices: 2248647--2248712 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
2248637 AGTTAATTTT
2248647 TTTCTTTGAAATAATTTTTTATTAATATTTTTAA
1 TTTCTTTGAAATAA-TTTTTA-TAATATTTTTAA
*
2248681 TTTCTTT-AGAATTATTTTTATAATATTTTTAA
1 TTTCTTTGA-AATAATTTTTATAATATTTTTAA
2248713 CTATTTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 12 0.40
33 7 0.23
34 11 0.37
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (32 bp):
TTTCTTTGAAATAATTTTTATAATATTTTTAA
Found at i:2250585 original size:52 final size:52
Alignment explanation
Indices: 2250492--2250596 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
2250482 TGGATAAGAA
** *
2250492 GACTTGCAGAATGAGAATTATAAAAGAAAAGGGATTCTTAATAGACAAGTTT
1 GACTTGCAGAATGAGAATTATAAAAGAAAAGAAATTCTTAATAGACAAATTT
* * * * *
2250544 GACTTGCAGAA-GAAGAATTCTAAAAGGAAATAAATTTTTAATAGGCAAATTT
1 GACTTGCAGAATG-AGAATTATAAAAGAAAAGAAATTCTTAATAGACAAATTT
2250596 G
1 G
2250597 TATGGTTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (52 bp):
GACTTGCAGAATGAGAATTATAAAAGAAAAGAAATTCTTAATAGACAAATTT
Found at i:2251483 original size:30 final size:30
Alignment explanation
Indices: 2251447--2251507 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
2251437 AAAATAAGAT
2251447 AGAAGTCCAAGCCGGCGACTATCATTATTG
1 AGAAGTCCAAGCCGGCGACTATCATTATTG
* * *
2251477 AGAAGTCCAAGCTGGTGGCTATCATTATTG
1 AGAAGTCCAAGCCGGCGACTATCATTATTG
2251507 A
1 A
2251508 TTTAATTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (30 bp):
AGAAGTCCAAGCCGGCGACTATCATTATTG
Found at i:2252380 original size:21 final size:20
Alignment explanation
Indices: 2252343--2252404 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
2252333 AATTTTTCTT
2252343 GAAAAATAATGAAAAAAAAAAA
1 GAAAAA-AATG-AAAAAAAAAA
*
2252365 GATTAGAAAA-GAAAAAAAAAA
1 GA--AAAAAATGAAAAAAAAAA
2252386 GAAAAAAATGAAAAAAAAA
1 GAAAAAAATGAAAAAAAAA
2252405 TTGATGGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 12 0.34
22 3 0.09
23 2 0.06
24 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (20 bp):
GAAAAAAATGAAAAAAAAAA
Found at i:2252726 original size:9 final size:9
Alignment explanation
Indices: 2252714--2252747 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2252704 TGAAAAATGA
2252714 AAAAAAAAC
1 AAAAAAAAC
2252723 AAAAAAAAC
1 AAAAAAAAC
**
2252732 AAAAAGCAC
1 AAAAAAAAC
2252741 AAAAAAA
1 AAAAAAA
2252748 GAGAAAAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Done.