Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 40 of 438
Found at i:9967628 original size:2 final size:2
Alignment explanation
Indices: 9967585--9967617 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9967575 TTTGATGAAC
9967585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9967618 TCGGCTATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9968440 original size:40 final size:41
Alignment explanation
Indices: 9968377--9968482 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 41
9968367 TGAGGAATTG
* * * *
9968377 TATCCGGGCTTAAACACTTGCAGGCTAT-ATGCTGGAATGT
1 TATCCGGGCTTAAAGACCTGCAGGCTATCATGCTAGAATGC
* *
9968417 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCTGCAGGCTATCATGCTAGAATGC
* *
9968457 TATCTGGGC-TAGAGACCTGCAGGCTA
1 TATCCGGGCTTAAAGACCTGCAGGCTA
9968483 CGAGCTGGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.27
40 40 0.73
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (41 bp):
TATCCGGGCTTAAAGACCTGCAGGCTATCATGCTAGAATGC
Found at i:9968717 original size:2 final size:2
Alignment explanation
Indices: 9968710--9968736 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9968700 TTAAAGAATG
9968710 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 A
9968737 CGTGTGGATG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9968885 original size:2 final size:2
Alignment explanation
Indices: 9968878--9968906 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9968868 CTTGTGTATT
9968878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9968907 TCGACCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9980209 original size:46 final size:46
Alignment explanation
Indices: 9980139--9980458 Score: 410
Period size: 46 Copynumber: 7.0 Consensus size: 46
9980129 GCTCTCTGAA
* * * *
9980139 ATGAAAT-ATGTAAGATCGTGGTTGAAAGATACCATGGTAACATGAT
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
9980185 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
9980231 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9980277 GGGAAATGAGTAAGACCATGGTTGAAAGATACCATGGTAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
9980323 ATGAAATGAATAAGATCATGGTTGAAAGACACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
9980369 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
9980415 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
9980459 TCAAAGATAA
Statistics
Matches: 242, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 241 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:9980674 original size:42 final size:42
Alignment explanation
Indices: 9980627--9980712 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
9980617 ATGAAATAAT
9980627 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
1 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
9980669 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
1 TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
9980711 TA
1 TA
9980713 ATTTATGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (42 bp):
TATAAAGATAGGTAAACGAAATAAGTATAAGTACATGGAATA
Found at i:9985167 original size:5 final size:5
Alignment explanation
Indices: 9985157--9985184 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9985147 TTTTGTGTTC
9985157 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9985185 CACACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9986228 original size:3 final size:3
Alignment explanation
Indices: 9986220--9986335 Score: 207
Period size: 3 Copynumber: 38.7 Consensus size: 3
9986210 TAGATCACTA
9986220 TTC TTC TTC TTC TTC TTC TTC TTC -TC TTTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC
*
9986265 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9986313 TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
9986336 TATGAATGAT
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.02
3 105 0.96
4 2 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9993677 original size:23 final size:22
Alignment explanation
Indices: 9993634--9993688 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9993624 ACCAACATTT
* *
9993634 TCAAGAACATTAAGAACAATTAA
1 TCAA-AACATTAAAAAAAATTAA
*
9993657 TCAAAACATTATAAAAAAATTGA
1 TCAAAACATTA-AAAAAAATTAA
*
9993680 TTAAAACAT
1 TCAAAACAT
9993689 AAAGATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
TCAAAACATTAAAAAAAATTAA
Found at i:9997326 original size:31 final size:31
Alignment explanation
Indices: 9997278--9997338 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
9997268 ACTAAAAATT
* *
9997278 TTACTTTTTTGTTTCTCTCATCTACTTCTTA
1 TTACATTTTAGTTTCTCTCATCTACTTCTTA
9997309 TTACATTTTAGTTTCTCTCATCTACTTCTT
1 TTACATTTTAGTTTCTCTCATCTACTTCTT
9997339 CTCTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (31 bp):
TTACATTTTAGTTTCTCTCATCTACTTCTTA
Found at i:10003869 original size:38 final size:38
Alignment explanation
Indices: 10003820--10003935 Score: 214
Period size: 38 Copynumber: 3.1 Consensus size: 38
10003810 ACCGCTAAGA
*
10003820 TAAAGTTAGTTTTCAATTGATTAATATGAGGTATTCAC
1 TAAAGTTAGTTTTTAATTGATTAATATGAGGTATTCAC
*
10003858 TAAAATTAGTTTTTAATTGATTAATATGAGGTATTCAC
1 TAAAGTTAGTTTTTAATTGATTAATATGAGGTATTCAC
10003896 TAAAGTTAGTTTTTAATTGATTAATATGAGGTATTCAC
1 TAAAGTTAGTTTTTAATTGATTAATATGAGGTATTCAC
10003934 TA
1 TA
10003936 TTATAAAAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (38 bp):
TAAAGTTAGTTTTTAATTGATTAATATGAGGTATTCAC
Found at i:10006032 original size:22 final size:21
Alignment explanation
Indices: 10005997--10006072 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
10005987 AAAGGATATC
* *
10005997 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10006018 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10006041 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
10006060 TGC-AATCATATCT
1 TACAAATCATATCT
10006073 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10006089 original size:35 final size:37
Alignment explanation
Indices: 10006033--10006123 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
10006023 AATCATATCT
*
10006033 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
10006070 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
10006106 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
10006124 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:10006102 original size:14 final size:15
Alignment explanation
Indices: 10006047--10006102 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
10006037 AGATTGCATA
10006047 TCATATCTAAGATTG
1 TCATATCTAAGATTG
10006062 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
10006080 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
10006097 -CATATC
1 TCATATC
10006103 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:10006131 original size:17 final size:19
Alignment explanation
Indices: 10006033--10006123 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
10006023 AATCATATCT
10006033 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10006052 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
10006070 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
10006087 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
10006106 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
10006124 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10006279 original size:21 final size:20
Alignment explanation
Indices: 10006242--10006280 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10006232 TTGGACTTTG
**
10006242 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
10006262 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
10006281 TCAGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:10006589 original size:44 final size:45
Alignment explanation
Indices: 10006473--10006746 Score: 259
Period size: 45 Copynumber: 6.1 Consensus size: 45
10006463 GGAAGGCGAT
* *
10006473 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
10006518 ATCTGTTATCTTCGATCTACTCCCCGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * * * *
10006563 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * *
10006607 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
* * * * * * * *
10006652 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACA-AAG-ACGCCAA
* * *
10006697 ATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
10006744 ATC
1 ATC
10006747 ATCTTGGATC
Statistics
Matches: 183, Mismatches: 37, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
43 5 0.03
44 44 0.24
45 104 0.57
46 1 0.01
47 18 0.10
48 6 0.03
49 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAA
Found at i:10006638 original size:89 final size:89
Alignment explanation
Indices: 10006487--10006653 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
10006477 GCTATCTTTG
* *
10006487 ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTTCGATCTACTCCCCGTCTAATAT
1 ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATAC
*
10006552 AGAGACGCCAAATTTGCTTCTTCA
66 AAAGACGCCAAATTTGCTTCTTCA
* * * *
10006576 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATAC
*
10006641 AAAGATGCCAAAT
66 AAAGACGCCAAAT
10006654 CTGTCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTTATCTCCGATCTACTCCCCGTCTAATAC
AAAGACGCCAAATTTGCTTCTTCA
Found at i:10006817 original size:78 final size:79
Alignment explanation
Indices: 10006686--10006859 Score: 273
Period size: 78 Copynumber: 2.2 Consensus size: 79
10006676 ATGTAAACAC
*
10006686 ATGAAGGT-CAGATCTGCTATGTCTTCAATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATC
*
10006750 TTGGATCTGCTTCA
66 TTGGATCTACTTCA
* ** *
10006764 ATGAAGGTCCA-ATCTGTTATGTCTTTGATATGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATC
10006828 TTGGATCTACTTCA
66 TTGGATCTACTTCA
10006842 ATGAAGGT-CAGATCTGCT
1 ATGAAGGTCCAGATCTGCT
10006860 CTCCATAGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
77 2 0.02
78 83 0.95
79 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (79 bp):
ATGAAGGTCCAGATCTGCTATGTCTTCAATATGCTCCCCGTCTAATACAAAGATGCCAAATCATC
TTGGATCTACTTCA
Found at i:10007038 original size:44 final size:44
Alignment explanation
Indices: 10006964--10007455 Score: 575
Period size: 44 Copynumber: 11.2 Consensus size: 44
10006954 CACGTGAAAA
* *
10006964 CCAAATCTGCTATGTCTTCAATTTGCTCTCTGACAATACAGAGATG
1 CCAAATCTGCTA--TCTTCAATCTGCTCTCTGACAATACAGAGACG
* *
10007010 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACA
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* * * * * *
10007054 CTAAA--T-C-ATCTTAAATCCGCT-TCAG-CGTAA-ACACGTGAAAG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGAC--AATACA-GAG-ACG
* * * * *
10007095 CCAAATCTGCTATATCTTCAATTTTCTCTCTGAAAATATAGAGATG
1 CCAAATCTGC--TATCTTCAATCTGCTCTCTGACAATACAGAGACG
* *
10007141 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* *
10007185 CCAAATCTGCTATCTTCAATCTGCCCTCTGATAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* * *
10007229 CCAAATCTTCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* * *
10007273 CCAAATCTCCTATTTTCAATCTGCCCTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* *
10007317 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* * *
10007361 CCAAATCTGTTATCTTTAATCTGCCCTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
* *
10007405 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
10007449 CCAAATC
1 CCAAATC
10007456 ATCTTAGATC
Statistics
Matches: 377, Mismatches: 56, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 15 0.04
41 6 0.02
42 1 0.00
43 1 0.00
44 304 0.81
46 24 0.06
47 14 0.04
48 5 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGACG
Found at i:10008434 original size:1 final size:1
Alignment explanation
Indices: 10008423--10008496 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
10008413 GGCCTCTCCA
* * * * * * * * **
10008423 TTTTTTCTTTTTTCTTTTTTCTTTTTTTTTCTTTTTCTTTTTTCTTTTTATTTTCTTTTTTTCCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10008488 TTTTTTTTT
1 TTTTTTTTT
10008497 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:10008435 original size:7 final size:7
Alignment explanation
Indices: 10008423--10008496 Score: 73
Period size: 7 Copynumber: 10.6 Consensus size: 7
10008413 GGCCTCTCCA
10008423 TTTTTTC
1 TTTTTTC
10008430 TTTTTTC
1 TTTTTTC
10008437 TTTTTTC
1 TTTTTTC
*
10008444 TTTTTTTT
1 -TTTTTTC
10008452 TCTTTTTC
1 T-TTTTTC
10008460 TTTTTTC
1 TTTTTTC
10008467 TTTTTAT-
1 TTTTT-TC
*
10008474 TTTCTT-
1 TTTTTTC
*
10008480 TTTTTCC
1 TTTTTTC
10008487 TTTTTT-
1 TTTTTTC
10008493 TTTT
1 TTTT
10008497 GAAATAGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
6 9 0.16
7 35 0.61
8 13 0.23
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:10008452 original size:24 final size:24
Alignment explanation
Indices: 10008423--10008496 Score: 107
Period size: 23 Copynumber: 3.1 Consensus size: 24
10008413 GGCCTCTCCA
10008423 TTTTTTCTTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTTTTTTCTTT
10008447 TTTTTTC-TTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTTTTTTCTTT
*
10008470 TTATTTTCTTTTTTTCCTTTTT-TTT
1 TT-TTTTC-TTTTTTCTTTTTTCTTT
10008495 TT
1 TT
10008497 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
23 18 0.39
24 12 0.26
25 5 0.11
26 11 0.24
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (24 bp):
TTTTTTCTTTTTTCTTTTTTCTTT
Found at i:10008460 original size:30 final size:32
Alignment explanation
Indices: 10008424--10008496 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 32
10008414 GCCTCTCCAT
10008424 TTTTTCTTTTTTCTTTTT-TCTT-TTTTTTTC
1 TTTTTCTTTTTTCTTTTTATCTTCTTTTTTTC
*
10008454 TTTTTCTTTTTTCTTTTTATTTTCTTTTTTTC
1 TTTTTCTTTTTTCTTTTTATCTTCTTTTTTTC
*
10008486 CTTTT-TTTTTT
1 TTTTTCTTTTTT
10008497 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
30 18 0.46
31 9 0.23
32 12 0.31
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (32 bp):
TTTTTCTTTTTTCTTTTTATCTTCTTTTTTTC
Found at i:10014113 original size:22 final size:21
Alignment explanation
Indices: 10014078--10014153 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
10014068 AAAGGATATC
* *
10014078 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10014099 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10014122 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
10014141 TGC-AATCATATCT
1 TACAAATCATATCT
10014154 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10014170 original size:35 final size:37
Alignment explanation
Indices: 10014114--10014204 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
10014104 AATCATATCT
*
10014114 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
10014151 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
10014187 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
10014205 TAAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:10014183 original size:14 final size:15
Alignment explanation
Indices: 10014128--10014183 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
10014118 AGATTGCATA
10014128 TCATATCTAAGATTG
1 TCATATCTAAGATTG
10014143 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
10014161 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
10014178 -CATATC
1 TCATATC
10014184 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:10014212 original size:17 final size:19
Alignment explanation
Indices: 10014114--10014204 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
10014104 AATCATATCT
10014114 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10014133 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
10014151 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
10014168 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
10014187 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
10014205 TAAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10015011 original size:18 final size:18
Alignment explanation
Indices: 10014988--10015029 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10014978 AATTTGAAAT
* *
10014988 AAAACATGAACTTTTGGG
1 AAAACATGAAATTTTAGG
10015006 AAAACATGAAATTTTAGG
1 AAAACATGAAATTTTAGG
10015024 AAAACA
1 AAAACA
10015030 GTGGTCACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (18 bp):
AAAACATGAAATTTTAGG
Found at i:10015287 original size:85 final size:85
Alignment explanation
Indices: 10015144--10015308 Score: 312
Period size: 85 Copynumber: 1.9 Consensus size: 85
10015134 TGGGTATTTG
* *
10015144 TGTAACACCCCTTACCCGTATCCGAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
1 TGTAACACCCCTTACCCGTATACAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
10015209 AACATTAAACTAAAACTAAA
66 AACATTAAACTAAAACTAAA
10015229 TGTAACACCCCTTACCCGTATACAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
1 TGTAACACCCCTTACCCGTATACAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
10015294 AACATTAAACTAAAA
66 AACATTAAACTAAAA
10015309 TACGAGCCAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (85 bp):
TGTAACACCCCTTACCCGTATACAAGGCCGAGCTAAGGTACGAGGCGTTACCAGACAAACATACA
AACATTAAACTAAAACTAAA
Found at i:10015912 original size:2 final size:2
Alignment explanation
Indices: 10015905--10015929 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10015895 GAGACTAGTC
10015905 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 A
10015930 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10023358 original size:50 final size:49
Alignment explanation
Indices: 10023283--10023519 Score: 190
Period size: 50 Copynumber: 4.8 Consensus size: 49
10023273 TGAATACACG
* * * *
10023283 TGTGTAGTACTGAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAA-TCACA
* ** ** *
10023333 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-A-GACTGTTAATCACA
* * *
10023384 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTG-TTA-ATCACA
* * * * * * *
10023434 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTGATCTCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
* * * *
10023483 TGTGCAGTACTAAGTACAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
10023520 TAGCTTCGGC
Statistics
Matches: 147, Mismatches: 33, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.23
50 68 0.46
51 36 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
Found at i:10029301 original size:40 final size:40
Alignment explanation
Indices: 10029234--10029490 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
10029224 ACCCAAGTAT
*
10029234 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
10029273 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
10029313 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
10029353 CTTCGGGACATAGCCCGGATATAGCAACTTGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
10029393 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
10029433 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
10029473 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
10029491 TTATCATCCG
Statistics
Matches: 186, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.08
40 166 0.89
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:10029367 original size:80 final size:80
Alignment explanation
Indices: 10029234--10029490 Score: 394
Period size: 80 Copynumber: 3.2 Consensus size: 80
10029224 ACCCAAGTAT
* * * *
10029234 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
10029296 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
*
10029313 CTTCGGGTCTTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
10029378 AACTTGCACAAATGC
66 AACTCGCACAAATGC
10029393 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
10029458 AACTCGCACGAATGC
66 AACTCGCACAAATGC
* *
10029473 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
10029491 TTATCATCCG
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 151 0.92
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:10034632 original size:4 final size:4
Alignment explanation
Indices: 10034623--10034650 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10034613 TCATAGAATT
10034623 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
10034651 CAAAATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:10035338 original size:46 final size:46
Alignment explanation
Indices: 10035263--10035765 Score: 677
Period size: 46 Copynumber: 11.0 Consensus size: 46
10035253 TTATCTTTGA
* * * * * *
10035263 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * *
10035309 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
10035355 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ** * *
10035401 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** *
10035447 CTTGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
10035492 CACATTGTCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
10035538 CATGTTGTCATGATATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
10035584 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
10035630 CATGTTGCCATGGTATCTTTTAACCATGGTCATACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
10035676 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
10035722 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
10035766 TTTAGAGAGC
Statistics
Matches: 417, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 41 0.10
46 376 0.90
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:10040775 original size:20 final size:20
Alignment explanation
Indices: 10040732--10040777 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10040722 ACTATTTTAT
*
10040732 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTACTAA
* *
10040751 AATGGGCCCAACTGTGCTAA
1 TATGGGCCCAACTGTACTAA
10040771 TATGGGC
1 TATGGGC
10040778 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTACTAA
Found at i:10044029 original size:20 final size:21
Alignment explanation
Indices: 10044006--10044057 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
10043996 CAACTTATTC
10044006 TCATTCATATAAACTA-CAAT
1 TCATTCATATAAACTAGCAAT
* *
10044026 TCATTTATAT-AACTAGTAAT
1 TCATTCATATAAACTAGCAAT
*
10044046 TCATCCATATAA
1 TCATTCATATAA
10044058 CCATTATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.38
Consensus pattern (21 bp):
TCATTCATATAAACTAGCAAT
Found at i:10050441 original size:37 final size:37
Alignment explanation
Indices: 10050394--10050471 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
10050384 CACCAAATGA
* *
10050394 AACACGCCAAATGCTCATAAGAGCTAATCCAACCAAT
1 AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
* *
10050431 AACACACCAAACGCTCATGAGAGCTAATCCAACCGAT
1 AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
10050468 AACA
1 AACA
10050472 TGCTTCGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.14
Consensus pattern (37 bp):
AACACACCAAACGCTCATAAGAGCTAATCCAACCAAT
Found at i:10051660 original size:12 final size:13
Alignment explanation
Indices: 10051643--10051671 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10051633 CTTTTAATTT
10051643 CTTTAA-TTTTAA
1 CTTTAATTTTTAA
10051655 CTTTAATTTTTAA
1 CTTTAATTTTTAA
10051668 CTTT
1 CTTT
10051672 TACTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTTAATTTTTAA
Found at i:10054956 original size:68 final size:68
Alignment explanation
Indices: 10054882--10055016 Score: 252
Period size: 68 Copynumber: 2.0 Consensus size: 68
10054872 TTTTTTATAA
* *
10054882 TTCATATTATTTCCTTATTCAATTTCCCTCAAAAGTTTAATATAACCATCAAACTTTCATCATTT
1 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
10054947 TTT
66 TTT
10054950 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
1 TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
10055015 TT
66 TT
10055017 CCATAATTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.01, T:0.47
Consensus pattern (68 bp):
TTCATATTATTTCCTTATTCAATTTCCCTCAAAACTTTAATATAACCATCAAACTTTAATCATTT
TTT
Found at i:10055335 original size:6 final size:5
Alignment explanation
Indices: 10055301--10055342 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
10055291 AATTTCTCCT
10055301 TTTTC TTTTC TTTTC TTCTT- TTTT- TTTTC TATTTC TTTTC TT
1 TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC T-TTTC TTTTC TT
10055343 CTCTGTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.18
5 21 0.62
6 7 0.21
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:10055335 original size:20 final size:20
Alignment explanation
Indices: 10055292--10055369 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 20
10055282 TCAAACCTTA
*
10055292 ATTTCTCCTTTTTCTTTTCT
1 ATTTCTTCTTTTTCTTTTCT
*
10055312 -TTTCTTCTTTTTTTTTTCT
1 ATTTCTTCTTTTTCTTTTCT
**
10055331 ATTTCTT-TTCTTCTCTGTAACT
1 ATTTCTTCTT-TT-TCT-TTTCT
10055353 ATTTC-TCTTTTTCTTTT
1 ATTTCTTCTTTTTCTTTT
10055370 GTTTTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 20 0.43
20 11 0.24
21 5 0.11
22 10 0.22
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (20 bp):
ATTTCTTCTTTTTCTTTTCT
Found at i:10055765 original size:20 final size:21
Alignment explanation
Indices: 10055719--10055766 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
10055709 TCCTTTCTTA
*
10055719 CTAATTACTTCTAATTAAAAAT
1 CTAATT-CTCCTAATTAAAAAT
*
10055741 -AAATTCTCCTAATT-AAAAT
1 CTAATTCTCCTAATTAAAAAT
10055760 CTAATTC
1 CTAATTC
10055767 AACTTGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
CTAATTCTCCTAATTAAAAAT
Found at i:10056255 original size:20 final size:20
Alignment explanation
Indices: 10056230--10056269 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10056220 ATCGTGCAGA
10056230 GTCAACCAATCCATACCAAG
1 GTCAACCAATCCATACCAAG
10056250 GTCAACCAATCCATACCAAG
1 GTCAACCAATCCATACCAAG
10056270 AATCTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (20 bp):
GTCAACCAATCCATACCAAG
Found at i:10059466 original size:41 final size:41
Alignment explanation
Indices: 10059399--10059529 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
10059389 AAATACATCA
* * * * *
10059399 TTTTCATTTGTTATCCTTTTCAGATAATATCATTTTAAACC
1 TTTTCATTTGATATCATTTTTAGATAACATCATTTTCAACC
* * *
10059440 TTTTCATTTGATGTCATTTTTGGATAACATCATTTTCAATC
1 TTTTCATTTGATATCATTTTTAGATAACATCATTTTCAACC
* *
10059481 TTTTTATTTGATATCATTTTTAGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCATTTTTAGATAACATCATTTTCAACC
10059522 TTTTCATT
1 TTTTCATT
10059530 GATTTAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (41 bp):
TTTTCATTTGATATCATTTTTAGATAACATCATTTTCAACC
Found at i:10059617 original size:20 final size:20
Alignment explanation
Indices: 10059592--10059630 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10059582 CCTTTTAGAG
10059592 TGTATTTCAATCACGGTCCA
1 TGTATTTCAATCACGGTCCA
*
10059612 TGTATTTCAATCATGGTCC
1 TGTATTTCAATCACGGTCC
10059631 TTTCCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATTTCAATCACGGTCCA
Found at i:10061614 original size:59 final size:59
Alignment explanation
Indices: 10061545--10061663 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
10061535 TAAAGCTCAA
* *
10061545 TGAGTGCACATGCATACAACACAAATATACACACCAAACATGTTAGGATTTAAACATAG
1 TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
*
10061604 TGAGTACACATGCATACAACACAAATATACACACCAAACATTTTAGGATATAAACATAG
1 TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
10061663 T
1 T
10061664 TTAAAAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (59 bp):
TGAGTACACATGCATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAG
Found at i:10061684 original size:59 final size:58
Alignment explanation
Indices: 10061557--10061686 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 58
10061547 AGTGCACATG
* * * *
10061557 CATACAACACAAATATACACACCAAACATGTTAGGATTTAAACATAGTGAGTACACATG
1 CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGT-AGTAAAAATA
* *
10061616 CATACAACACAAATATACACACCAAACATTTTAGGATATAAACATAGT-TTAAAAATTCA
1 CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGTAGTAAAAA-T-A
*
10061675 CATATAACACAA
1 CATACAACACAA
10061687 TTTTCATACT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 4 0.06
58 1 0.02
59 57 0.92
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (58 bp):
CATACAACACAAATATACACACCAAACATGTTAGGATATAAACATAGTAGTAAAAATA
Found at i:10062336 original size:2 final size:2
Alignment explanation
Indices: 10062282--10062317 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10062272 AACAAGACCC
*
10062282 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10062318 ATCAAGACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10067099 original size:31 final size:29
Alignment explanation
Indices: 10067057--10067120 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
10067047 TCTTGGCAGG
*
10067057 TATATATAACAAAAC-CTAAGCATAATATAT
1 TATATAAAAC-AAACGCTAAGCATAA-ATAT
*
10067087 ATATATAAAACAAACGCTATGCATAAATAT
1 -TATATAAAACAAACGCTAAGCATAAATAT
10067117 TATA
1 TATA
10067121 AATTGAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.13
30 8 0.27
31 18 0.60
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (29 bp):
TATATAAAACAAACGCTAAGCATAAATAT
Found at i:10070696 original size:37 final size:37
Alignment explanation
Indices: 10070650--10070731 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
10070640 AAATTTGAGC
10070650 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
1 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
*
10070687 GAATTTTGCAAAAGGTGATGAAATTTTAAATCTATTT
1 GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
10070724 GAATTTTG
1 GAATTTTG
10070732 AAAGAGGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (37 bp):
GAATTTTGCAAAAGGTGATGAAAATTTAAATCTATTT
Found at i:10071165 original size:40 final size:40
Alignment explanation
Indices: 10071121--10071202 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
10071111 ATTGGATAGA
*
10071121 TTATAGATTTAATTTATTTTTAAAAACTAGATAAATACTT
1 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
10071161 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
1 TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
10071201 TT
1 TT
10071203 TTTCATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (40 bp):
TTATAGATTTAATTTATTCTTAAAAACTAGATAAATACTT
Found at i:10071738 original size:12 final size:13
Alignment explanation
Indices: 10071716--10071745 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
10071706 CTAGCTTCGG
10071716 TTTTCAATTTTAA
1 TTTTCAATTTTAA
10071729 TTTT-AATTTTAA
1 TTTTCAATTTTAA
10071741 TTTTC
1 TTTTC
10071746 CTTTGTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTTAA
Found at i:10072597 original size:44 final size:44
Alignment explanation
Indices: 10072535--10072628 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
10072525 TTGAGGAATG
10072535 TAAA-TTGTATTTCAATGTGAGATTTTGATTTTCAAAATAAATT
1 TAAATTTGTATTTCAATGTGAGATTTTGATTTTCAAAATAAATT
10072578 TAAATTTGTATTTCAATGTGAGATTTTGATTTTCAAAATAAATT
1 TAAATTTGTATTTCAATGTGAGATTTTGATTTTCAAAATAAATT
10072622 TAAATTT
1 TAAATTT
10072629 AAAACTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (44 bp):
TAAATTTGTATTTCAATGTGAGATTTTGATTTTCAAAATAAATT
Found at i:10078197 original size:16 final size:16
Alignment explanation
Indices: 10078176--10078207 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10078166 AGATTAGGTT
10078176 GACAATGCATCAATGC
1 GACAATGCATCAATGC
10078192 GACAATGCATCAATGC
1 GACAATGCATCAATGC
10078208 CTTGACCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (16 bp):
GACAATGCATCAATGC
Found at i:10080957 original size:34 final size:34
Alignment explanation
Indices: 10080907--10080982 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
10080897 TAAAGTATCA
*
10080907 TCATCA-TATTAACCAGGTCCTTTCATCAATTTC
1 TCATCATTATCAACCAGGTCCTTTCATCAATTTC
*
10080940 TCATCATTATCAACCAGGTCCTTTCATCAGTTTC
1 TCATCATTATCAACCAGGTCCTTTCATCAATTTC
10080974 TCATCATTA
1 TCATCATTA
10080983 ACTTGAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (34 bp):
TCATCATTATCAACCAGGTCCTTTCATCAATTTC
Found at i:10083653 original size:23 final size:23
Alignment explanation
Indices: 10083610--10083654 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10083600 TTCTTATTAT
* *
10083610 TTTATATTTTATCTATCATATAG
1 TTTATATATTATATATCATATAG
10083633 TTTATATCATTATATAT-ATATA
1 TTTATAT-ATTATATATCATATA
10083655 TATGTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATATTATATATCATATAG
Found at i:10083775 original size:26 final size:25
Alignment explanation
Indices: 10083724--10083775 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
10083714 GTTACTTCTC
*
10083724 TTTTCTTATAAAATATATATTATTT
1 TTTTCTTATAAAATATATATGATTT
* * *
10083749 TTTTACTTATTAATTATATATGCTTT
1 TTTT-CTTATAAAATATATATGATTT
10083775 T
1 T
10083776 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTCTTATAAAATATATATGATTT
Found at i:10096075 original size:220 final size:220
Alignment explanation
Indices: 10095693--10096560 Score: 1394
Period size: 220 Copynumber: 3.9 Consensus size: 220
10095683 GTAACAGGCT
10095693 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
* * *
10095758 CTTACGTTTACAAGGAGCAGATTGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
66 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* *
10095823 AGATCTATGATGATTTGCCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
131 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
10095888 TCCATATTCGACGGAGAGCAAATCG
196 TCCATATTCGACGGAGAGCAAATCG
*
10095913 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
*
10095978 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGATTTCACGTGTTTACGCTGAAGC
66 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* *
10096043 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGAAACATATTTGGCATC
131 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
*
10096108 TCCATATTCGACGGATAGCAAATCG
196 TCCATATTCGACGGAGAGCAAATCG
* *
10096133 AAGACATAGTAGATCTAACCATCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
* **
10096198 CTTGCGTTTACAAGGAGCAGATCGAAGACATAATAGATTTGGCTTTCACGTGTTTACGCTGAAGC
66 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* *
10096263 AGATATAATATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
131 AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
* *
10096328 TCTATATTCGACGGAGAGCAAATAG
196 TCCATATTCGACGGAGAGCAAATCG
10096353 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
1 AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
* * * * * *
10096418 TTTGTAATTACAAGGAGCAGATCGAAGACATAGTAGATTTGGCTTTCACATGTGTACGCTGAAGC
66 CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
* * ** * *
10096483 AGATCTAAGATAACAGATTTGGCGTCCCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGATTTG
131 AGATCTAAGAT----GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGA-AACAGATTTG
* *
10096548 GCGTCTCTATATT
191 GCATCTCCATATT
10096561 GTCAGAGAGC
Statistics
Matches: 601, Mismatches: 42, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
220 546 0.91
224 34 0.06
225 21 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
AAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATC
CTTGCATTTACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
AGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATC
TCCATATTCGACGGAGAGCAAATCG
Found at i:10096537 original size:44 final size:44
Alignment explanation
Indices: 10096480--10096728 Score: 270
Period size: 44 Copynumber: 5.6 Consensus size: 44
10096470 TGTACGCTGA
* *
10096480 AGCAGATCTAAGATAACAGATTTGGCGTCCCTGTATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* * *
10096524 AGTAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* * * * *
10096568 AGCAGATCAAAGATATAGTAGATTTGGCTTTCACGTGT-TTACG-CTGA-
1 AGCAGATCGAAGATA-A-CAGATTTGGC-GTCTC-TGTATT--GTCAGAG
*
10096615 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
* * * * *
10096659 AGCAAATCGAAGATAGCAGATTTGGCGTTTCTGTATTGACAGAA
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
*
10096703 AGCAGATCAAAGATAACAGATTTGGC
1 AGCAGATCGAAGATAACAGATTTGGC
10096729 ATTCTTGAGT
Statistics
Matches: 170, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 120 0.71
45 9 0.05
46 9 0.05
47 19 0.11
48 5 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAG
Found at i:10096649 original size:135 final size:135
Alignment explanation
Indices: 10096432--10096717 Score: 455
Period size: 135 Copynumber: 2.1 Consensus size: 135
10096422 TAATTACAAG
* * *
10096432 GAGCAGATCGAAGACATAGTAGATTTGGCTTTCACATGTGTACGCTGAAGCAGATCTAAGATAAC
1 GAGCAGATCAAAGATATAGTAGATTTGGCTTTCACATGTGTACGCTGAAGCAGATCGAAGATAAC
* *
10096497 AGATTTGGCGTCCCTGTATTGTCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTATATTG
66 AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATATTG
*
10096562 TCAGA
131 ACAGA
* * *
10096567 GAGCAGATCAAAGATATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCGAAGATAGC
1 GAGCAGATCAAAGATATAGTAGATTTGGCTTTCACATGTGTACGCTGAAGCAGATCGAAGATAAC
* * *
10096632 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTTGGCGTTTCTGTATTG
66 AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATATTG
10096697 ACAGA
131 ACAGA
*
10096702 AAGCAGATCAAAGATA
1 GAGCAGATCAAAGATA
10096718 ACAGATTTGG
Statistics
Matches: 138, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (135 bp):
GAGCAGATCAAAGATATAGTAGATTTGGCTTTCACATGTGTACGCTGAAGCAGATCGAAGATAAC
AGATTTGGCGTCCCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATATTG
ACAGA
Found at i:10098980 original size:2 final size:2
Alignment explanation
Indices: 10098973--10099002 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10098963 TTTGCATTTA
10098973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10099003 CACGCAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10102627 original size:2 final size:2
Alignment explanation
Indices: 10102620--10102644 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10102610 CTATTACTAC
10102620 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 A
10102645 ACTACCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10104734 original size:37 final size:37
Alignment explanation
Indices: 10104693--10104793 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
10104683 AGCTTGTAAA
*
10104693 AGCTAATCCACCCGATAACACGCCAGATGCTCATAAG
1 AGCTAATCCACCCGATAACACGCCAGATGCTCACAAG
* * * *
10104730 AGCTAATCCACCTGCTAACAAGCTAGATGCTCACAAG
1 AGCTAATCCACCCGATAACACGCCAGATGCTCACAAG
* * *
10104767 AGCTAGTCCAACCGAAAACACGCCAGA
1 AGCTAATCCACCCGATAACACGCCAGA
10104794 ACAGAGAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (37 bp):
AGCTAATCCACCCGATAACACGCCAGATGCTCACAAG
Found at i:10113109 original size:8 final size:8
Alignment explanation
Indices: 10113091--10113120 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10113081 ATGCTAATTA
10113091 TGTGTATTT
1 TGTG-ATTT
10113100 TGTGATTT
1 TGTGATTT
10113108 TGTGATTT
1 TGTGATTT
10113116 TGTGA
1 TGTGA
10113121 ATTAAGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (8 bp):
TGTGATTT
Found at i:10113489 original size:29 final size:30
Alignment explanation
Indices: 10113436--10113493 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10113426 CGGAAGTTTT
*
10113436 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCAATTTAAACTAGCTTG
10113466 GGCACTAAGTGTGCAATTT-AACTAGCTT
1 GGCACTAAGTGTGCAATTTAAACTAGCTT
10113494 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCAATTTAAACTAGCTTG
Found at i:10114890 original size:15 final size:16
Alignment explanation
Indices: 10114864--10114894 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10114854 AGAAAATTTT
10114864 TTTAATAATAAATGAA
1 TTTAATAATAAATGAA
10114880 TTTAA-AATAAATGAA
1 TTTAATAATAAATGAA
10114895 GAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTTAATAATAAATGAA
Found at i:10115342 original size:10 final size:10
Alignment explanation
Indices: 10115315--10115345 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10115305 ACAAAATCAA
*
10115315 ATATATATAT
1 ATATATAAAT
10115325 ATATATAAAT
1 ATATATAAAT
10115335 ATATATAAAT
1 ATATATAAAT
10115345 A
1 A
10115346 ATGTATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATAAAT
Found at i:10123444 original size:30 final size:29
Alignment explanation
Indices: 10123408--10123465 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
10123398 CAGAAGTTTT
10123408 GGCACTAAGTGTGCGATTTAAACTAGCTTA
1 GGCACTAAGTGTGCGATTT-AACTAGCTTA
10123438 GGCACTAAGTGTGCGATTTAACTAGCTT
1 GGCACTAAGTGTGCGATTTAACTAGCTT
10123466 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (29 bp):
GGCACTAAGTGTGCGATTTAACTAGCTTA
Found at i:10127294 original size:3 final size:3
Alignment explanation
Indices: 10127286--10127337 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
10127276 GTTCAAATTG
*
10127286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10127334 TTA T
1 TTA T
10127338 GGTTATATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10132491 original size:44 final size:44
Alignment explanation
Indices: 10132427--10132514 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
10132417 AAACTGGTGT
* *
10132427 TTGGTTAGTGTGGTTGGTTATCGGTCTCACATACTAACATCACA
1 TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCACA
*
10132471 TTGGTTAGTGTGGTTAGTTATTAGTCTCACATACTAACATCACA
1 TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCACA
10132515 AATTCACTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (44 bp):
TTGGTTAGTGTGGTTAGTTATCAGTCTCACATACTAACATCACA
Found at i:10132869 original size:15 final size:15
Alignment explanation
Indices: 10132849--10132878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10132839 ATTTTAAGTA
10132849 ACTTTAATTTTTTTT
1 ACTTTAATTTTTTTT
*
10132864 ACTTTACTTTTTTTT
1 ACTTTAATTTTTTTT
10132879 GTTATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (15 bp):
ACTTTAATTTTTTTT
Found at i:10148075 original size:31 final size:32
Alignment explanation
Indices: 10148016--10148075 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
10148006 TTAAAACAAA
* *
10148016 CTTAGTAGTCCAATGATTTACATAAAAACATT
1 CTTAGTAGTCCAATGAGTTAAATAAAAACATT
* *
10148048 CTTA-TAGTTCAATGAGTTAAATGAAAAC
1 CTTAGTAGTCCAATGAGTTAAATAAAAAC
10148076 TTTCAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 20 0.83
32 4 0.17
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (32 bp):
CTTAGTAGTCCAATGAGTTAAATAAAAACATT
Found at i:10156234 original size:13 final size:13
Alignment explanation
Indices: 10156216--10156240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10156206 TATTTTAAAT
10156216 AATATTTTATTAA
1 AATATTTTATTAA
10156229 AATATTTTATTA
1 AATATTTTATTA
10156241 TTTTAATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTTATTAA
Found at i:10156248 original size:16 final size:16
Alignment explanation
Indices: 10156201--10156251 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10156191 TTATTATTTA
10156201 ATTATTATTTTAAATAAT
1 ATTATTATTTT-AAT-AT
**
10156219 ATT-TTATTAAAATAT
1 ATTATTATTTTAATAT
*
10156234 TTTATTATTTTAATAT
1 ATTATTATTTTAATAT
10156250 AT
1 AT
10156252 ATGATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 4 0.15
16 14 0.54
17 5 0.19
18 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTTTAATAT
Found at i:10157128 original size:23 final size:23
Alignment explanation
Indices: 10157102--10157149 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10157092 ATATCCAATA
10157102 TCAAACTAACAAAATGCCAAAGC
1 TCAAACTAACAAAATGCCAAAGC
10157125 TCAAACTAACAAAATGCCAAAGC
1 TCAAACTAACAAAATGCCAAAGC
10157148 TC
1 TC
10157150 TTTGCTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (23 bp):
TCAAACTAACAAAATGCCAAAGC
Found at i:10157372 original size:50 final size:50
Alignment explanation
Indices: 10157297--10157411 Score: 212
Period size: 50 Copynumber: 2.3 Consensus size: 50
10157287 CAATCCAAAC
10157297 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
1 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
10157347 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
1 TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
10157397 TGAAATATTGCTAAA
1 TGAAA-ATTG-TAAA
10157412 CTAAAACTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 55 0.87
51 4 0.06
52 4 0.06
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.30
Consensus pattern (50 bp):
TGAAAATTGTAAAATTATAGCGAGGTAAGTAGTTATAAATTAGCAGAAAT
Found at i:10157386 original size:25 final size:25
Alignment explanation
Indices: 10157308--10157388 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
10157298 GAAAATTGTA
10157308 AAATTATAGCGAGGTAAGTAGTTAT
1 AAATTATAGCGAGGTAAGTAGTTAT
* ** * * * *
10157333 AAATTAGCAGAAATTGAAAATTG-TA-
1 AAATTA-TAGCGA-GGTAAGTAGTTAT
10157358 AAATTATAGCGAGGTAAGTAGTTAT
1 AAATTATAGCGAGGTAAGTAGTTAT
10157383 AAATTA
1 AAATTA
10157389 GCAGAAATTG
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
23 5 0.13
24 5 0.13
25 18 0.47
26 5 0.13
27 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.31
Consensus pattern (25 bp):
AAATTATAGCGAGGTAAGTAGTTAT
Found at i:10158954 original size:21 final size:21
Alignment explanation
Indices: 10158914--10158952 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10158904 GTTAAAAATA
10158914 ATTATCATTTTCATCATTTAG
1 ATTATCATTTTCATCATTTAG
10158935 ATTATCATTTTCAT-ATTT
1 ATTATCATTTTCATCATTT
10158953 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTATCATTTTCATCATTTAG
Found at i:10165767 original size:39 final size:39
Alignment explanation
Indices: 10165713--10165838 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
10165703 TTCAGTGATG
10165713 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
10165752 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
10165791 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
10165830 TATGTCCGG
1 TATATCCGG
10165839 GCTAAAGTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:10165856 original size:78 final size:78
Alignment explanation
Indices: 10165713--10165876 Score: 197
Period size: 78 Copynumber: 2.1 Consensus size: 78
10165703 TTCAGTGATG
* * * * **
10165713 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
10165778 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
10165791 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGTAGG
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
* *
10165855 CTTTGAGCTGGTAT
65 CTATGAGCTGGAAT
10165869 TATA-CCGG
1 TATATCCGG
10165877 GTTTAAATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 8 0.11
78 65 0.89
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:10169425 original size:38 final size:38
Alignment explanation
Indices: 10169382--10169459 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
10169372 GAGTCAGTTA
10169382 GAATGTATTGGAGTTTAGAATCAATTTAAAATTTGGAT
1 GAATGTATTGGAGTTTAGAATCAATTTAAAATTTGGAT
10169420 GAATGTATTGGAGTTTAGAATCAATTTAAAATTTGGAT
1 GAATGTATTGGAGTTTAGAATCAATTTAAAATTTGGAT
10169458 GA
1 GA
10169460 CAATTTGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (38 bp):
GAATGTATTGGAGTTTAGAATCAATTTAAAATTTGGAT
Found at i:10180382 original size:24 final size:25
Alignment explanation
Indices: 10180332--10180383 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
10180322 AAATAATTTC
*
10180332 TAAAATTAAATAGAATACTTAAGAA
1 TAAAATTAAATAGAATAATTAAGAA
* *
10180357 TAAAATTAAATA-TATAATTAATAA
1 TAAAATTAAATAGAATAATTAAGAA
10180381 TAA
1 TAA
10180384 GTTTCAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAATTAAATAGAATAATTAAGAA
Found at i:10183802 original size:15 final size:16
Alignment explanation
Indices: 10183774--10183804 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10183764 CAATAAAATG
10183774 TTGTTTTGGTTTGGTT
1 TTGTTTTGGTTTGGTT
10183790 TTGTTTT-GTTTGGTT
1 TTGTTTTGGTTTGGTT
10183805 GCGCAGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (16 bp):
TTGTTTTGGTTTGGTT
Found at i:10189167 original size:21 final size:19
Alignment explanation
Indices: 10189122--10189167 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
10189112 TTTACTTTGT
*
10189122 ATAATTCATTATTATTTTA
1 ATAATTCATTATTACTTTA
*
10189141 AAAATTCACTTAGTTACTTTA
1 ATAATTCA-TTA-TTACTTTA
10189162 ATAATT
1 ATAATT
10189168 TTACTTCGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTCATTATTACTTTA
Found at i:10191452 original size:13 final size:13
Alignment explanation
Indices: 10191434--10191465 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
10191424 TTTCACTTGA
10191434 TCCCCTTTGAAGC
1 TCCCCTTTGAAGC
10191447 TCCCCTTTGAAGC
1 TCCCCTTTGAAGC
10191460 TCCCCT
1 TCCCCT
10191466 CGCTCCCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.44, G:0.12, T:0.31
Consensus pattern (13 bp):
TCCCCTTTGAAGC
Found at i:10196285 original size:58 final size:58
Alignment explanation
Indices: 10196216--10196332 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
10196206 TTCTATTGTT
10196216 TAATCTTGAACCATCCTATAATAACATTTCTATTACATTGAACCAAACACACTGTCAA
1 TAATCTTGAACCATCCTATAATAACATTTCTATTACATTGAACCAAACACACTGTCAA
10196274 TAATCTTGAACCATCCTATAATAACATTTCTATTACATTGAACCAAACACACTGTCAA
1 TAATCTTGAACCATCCTATAATAACATTTCTATTACATTGAACCAAACACACTGTCAA
10196332 T
1 T
10196333 TCTTTTCATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (58 bp):
TAATCTTGAACCATCCTATAATAACATTTCTATTACATTGAACCAAACACACTGTCAA
Found at i:10197036 original size:96 final size:98
Alignment explanation
Indices: 10196923--10197101 Score: 265
Period size: 97 Copynumber: 1.8 Consensus size: 98
10196913 CAGGACAAAA
10196923 GAAATTATAATAATTTTATTGA-TATTTTACATATTTAAAATTTTATAACT-TTTTACTAAGTTT
1 GAAATTATAATAATTTTATTGATTATTTTACATATTTAAAATTTTATAA-TATTTTACTAAGTTT
* *
10196986 TAAT-AGCTTTTAATAATTTTTAAAATTTTGGTT
65 TAATAACCTTTTAAAAATTTTTAAAATTTTGGTT
** * * *
10197019 GAAATTATAATCCTTTTATTGATTTTTTTACATATTTAAATTTTTATAATATTTTAGTAAGTTTT
1 GAAATTATAATAATTTTATTGATTATTTTACATATTTAAAATTTTATAATATTTTACTAAGTTTT
10197084 AATAACCTTTTAAAAATT
66 AATAACCTTTTAAAAATT
10197102 CTATATTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
96 21 0.29
97 40 0.55
98 12 0.16
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (98 bp):
GAAATTATAATAATTTTATTGATTATTTTACATATTTAAAATTTTATAATATTTTACTAAGTTTT
AATAACCTTTTAAAAATTTTTAAAATTTTGGTT
Found at i:10198973 original size:34 final size:34
Alignment explanation
Indices: 10198935--10199001 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
10198925 TTATAGAGAT
*
10198935 ATCTTTCATCAATAGGTGTCTTTTTGAATAATAC
1 ATCTTTCATCAATAGGTGTCTTTCTGAATAATAC
10198969 ATCTTTCATCAATAGGTGTCTTTCTGAATAATA
1 ATCTTTCATCAATAGGTGTCTTTCTGAATAATA
10199002 ATGTCTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (34 bp):
ATCTTTCATCAATAGGTGTCTTTCTGAATAATAC
Found at i:10202183 original size:19 final size:20
Alignment explanation
Indices: 10202149--10202186 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10202139 AGTCCTTTCA
10202149 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
10202169 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
10202187 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:10214355 original size:2 final size:2
Alignment explanation
Indices: 10214348--10214376 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10214338 TCTTTTCTTT
10214348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10214377 TCTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10216184 original size:15 final size:15
Alignment explanation
Indices: 10216159--10216197 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10216149 ATTAATGTCT
10216159 ATTGAGTATTAACTCA
1 ATTG-GTATTAACTCA
* *
10216175 ATTGGTATTAATTCG
1 ATTGGTATTAACTCA
10216190 ATTGGTAT
1 ATTGGTAT
10216198 CAATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (15 bp):
ATTGGTATTAACTCA
Found at i:10216757 original size:17 final size:18
Alignment explanation
Indices: 10216735--10216772 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10216725 TTGGTTGTTA
10216735 AAATTTG-TAATTAGTTT
1 AAATTTGATAATTAGTTT
**
10216752 AAATTTGATCTTTAGTTT
1 AAATTTGATAATTAGTTT
10216770 AAA
1 AAA
10216773 ATCTGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (18 bp):
AAATTTGATAATTAGTTT
Found at i:10216779 original size:19 final size:18
Alignment explanation
Indices: 10216745--10216784 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10216735 AAATTTGTAA
*
10216745 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATCTGATCT
*
10216763 TTAGTTTAAAATCTGATTT
1 TTAGTTT-AAATCTGATCT
10216782 TTA
1 TTA
10216785 AATTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (18 bp):
TTAGTTTAAATCTGATCT
Found at i:10224898 original size:17 final size:16
Alignment explanation
Indices: 10224876--10224913 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10224866 TCAAATAAGT
*
10224876 AAAAATATATATAAATA
1 AAAAAT-TATAAAAATA
10224893 AAAAATTATAAAAATA
1 AAAAATTATAAAAATA
10224909 AAAAA
1 AAAAA
10224914 AATTATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTATAAAAATA
Found at i:10224904 original size:14 final size:16
Alignment explanation
Indices: 10224870--10224912 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10224860 CGTGTTTCAA
*
10224870 ATAAGTAAAAATATAT
1 ATAAATAAAAATATAT
10224886 ATAAATAAAAA-ATTAT
1 ATAAATAAAAATA-TAT
*
10224902 AAAAATAAAAA
1 ATAAATAAAAA
10224913 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAATAAAAATATAT
Found at i:10238788 original size:22 final size:22
Alignment explanation
Indices: 10238760--10238805 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
10238750 CTTAGATTAG
10238760 ATAGTGCCATATGTTTACAAAA
1 ATAGTGCCATATGTTTACAAAA
10238782 ATAGTGCCATATGTTTACAAAA
1 ATAGTGCCATATGTTTACAAAA
10238804 AT
1 AT
10238806 CCTAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (22 bp):
ATAGTGCCATATGTTTACAAAA
Found at i:10239560 original size:18 final size:18
Alignment explanation
Indices: 10239533--10239579 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
10239523 TTTTAAAATA
10239533 TTTATGAAAATTTG-GATAT
1 TTTAT-AAAATTTGAGA-AT
*
10239552 TTTATAAAAGTTGAGAAT
1 TTTATAAAATTTGAGAAT
*
10239570 TTTAAAAAAT
1 TTTATAAAAT
10239580 ACTTTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTATAAAATTTGAGAAT
Found at i:10239681 original size:18 final size:18
Alignment explanation
Indices: 10239643--10239695 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
10239633 TAATAAGATC
10239643 TATTTAAACTAATTT--AT
1 TATTTAAA-TAATTTAAAT
*
10239660 TATTTGAATAATTTAAAT
1 TATTTAAATAATTTAAAT
*
10239678 TATTTAAATTATTTAAAT
1 TATTTAAATAATTTAAAT
10239696 CGAAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.19
17 7 0.23
18 18 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTAAATAATTTAAAT
Found at i:10239682 original size:9 final size:9
Alignment explanation
Indices: 10239658--10239695 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
10239648 AAACTAATTT
*
10239658 ATTATTTGA
1 ATTATTTAA
*
10239667 ATAATTTAA
1 ATTATTTAA
10239676 ATTATTTAA
1 ATTATTTAA
10239685 ATTATTTAA
1 ATTATTTAA
10239694 AT
1 AT
10239696 CGAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
ATTATTTAA
Found at i:10239706 original size:23 final size:22
Alignment explanation
Indices: 10239679--10239735 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
10239669 AATTTAAATT
10239679 ATTTAAATTATTTAAATCGAAAA
1 ATTTAAATTATTTAAAT-GAAAA
* * *
10239702 ATTTAACTTAAATTAAATTAAAA
1 ATTTAAATT-ATTTAAATGAAAA
10239725 A-TTAAATTATT
1 ATTTAAATTATT
10239736 ATTAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 6 0.21
23 13 0.46
24 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTAAATTATTTAAATGAAAA
Found at i:10239731 original size:17 final size:16
Alignment explanation
Indices: 10239709--10239753 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
10239699 AAAATTTAAC
10239709 TTAAATTAAATTAAAAA
1 TTAAATTAAATT-AAAA
*
10239726 TTAAATTATTATTAAAA
1 TTAAATTA-AATTAAAA
*
10239743 TTAAATCAAAT
1 TTAAATTAAAT
10239754 CAAATCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 19 0.79
18 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATTAAATTAAAA
Found at i:10241086 original size:16 final size:19
Alignment explanation
Indices: 10241052--10241086 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10241042 TTTACATATA
10241052 AATAATATTTTATATTTTT
1 AATAATATTTTATATTTTT
10241071 AATAAT-TTTTA-ATTTT
1 AATAATATTTTATATTTT
10241087 CAGATACGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATAATATTTTATATTTTT
Found at i:10246225 original size:23 final size:21
Alignment explanation
Indices: 10246183--10246225 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10246173 TTTCATACAC
*
10246183 TATATACTTTAAATTGTTTTG
1 TATATACTTTAAATTATTTTG
*
10246204 TATATATTTCTAAACTTATTTT
1 TATATACTT-TAAA-TTATTTT
10246226 TATGTACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
TATATACTTTAAATTATTTTG
Found at i:10249522 original size:19 final size:19
Alignment explanation
Indices: 10249500--10249553 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
10249490 ATTGCCTCTT
10249500 TTTGCATT-CATTTCATCCA
1 TTTGCATTACATTTCAT-CA
10249519 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
10249538 TATGCATTAAATTTCA
1 TTTGCATTACATTTCA
10249554 CAAAAAGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 24 0.75
20 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:10259574 original size:51 final size:51
Alignment explanation
Indices: 10259498--10259623 Score: 207
Period size: 51 Copynumber: 2.4 Consensus size: 51
10259488 AGTGACAAGC
* *
10259498 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
10259549 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
10259600 GACAAGTGATAAATGTGATAAGTG
1 GACAAGTGAT-AA-GTGATAAGTG
10259624 TAAGACTGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 58 0.83
52 2 0.03
53 10 0.14
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:10261530 original size:44 final size:44
Alignment explanation
Indices: 10261464--10261639 Score: 167
Period size: 44 Copynumber: 4.0 Consensus size: 44
10261454 AATCACCATG
* * *
10261464 GCGAATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAGCC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
* * *
10261508 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTA
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
* * * *
10261553 -C-AGATCTTATCTCCCTAAAGTTGTAGTGGAATAGATCGAAGATA
1 GCGA-ATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAG-CA
** * * * *
10261597 GAAAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
1 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGC
10261640 TATGAGTTAC
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 76 0.70
45 31 0.28
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCA
Found at i:10261582 original size:88 final size:89
Alignment explanation
Indices: 10261468--10261634 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 89
10261458 ACCATGGCGA
* * * ** *
10261468 ATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATTGAAG-CCGCGAATCTTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
*
10261532 CAGTGGAATAGATTGAAGTTACAG
66 CAGTGGAACAGATTGAAGTTACAG
* * *
10261556 ATCTTATCTCCCTAAAGTTGTAGTGGAATAGATCGAAGATAGAAAATCTCATTTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
10261621 CAGTGGAACAGATT
66 CAGTGGAACAGATT
10261635 AAAGCTATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 35 0.51
89 33 0.49
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
ATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCGAAGACAGAAAATCTCATCTCCCTGAAGTTG
CAGTGGAACAGATTGAAGTTACAG
Found at i:10261938 original size:94 final size:94
Alignment explanation
Indices: 10261743--10261979 Score: 253
Period size: 94 Copynumber: 2.5 Consensus size: 94
10261733 GCTAAAGATA
* * * * *
10261743 GCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCATATTAAAGCTACAAATCCTATACCTCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTCTGAAA
* * *
10261808 TTGCAGTAGGTCGGATCAAATCTATCATG
66 TTGCAGTAGGACAGATCAAATCTACCATG
* * * * *
10261837 GCGAATCTTATCTCCCTGACGTTGCGGTAGAGCAGATTGAAGCCACTAATCCTATACC-CGTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTC-TGAA
* * * *
10261901 ATTGTAGTGGGACAGATTAAAGT-TACCTTG
65 ATTGCAGTAGGACAGATCAAA-TCTACCATG
* * * *
10261931 GCAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTGAAGGCACAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAA
10261980 CCTTGTCTCC
Statistics
Matches: 115, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
93 1 0.01
94 113 0.98
95 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (94 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCCTATACCTCTGAAA
TTGCAGTAGGACAGATCAAATCTACCATG
Found at i:10264936 original size:182 final size:184
Alignment explanation
Indices: 10264538--10264958 Score: 483
Period size: 182 Copynumber: 2.3 Consensus size: 184
10264528 TCGTATTTTA
* * * * * * *
10264538 AAGTTTTCCTTTCTTTGTTCCA-TTACTCTTCTCTGAATCTTCTCTCGTTTTCTCTATTATGTTA
1 AAGTTTTTCTTTCTTTGTT-TAGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTA
10264602 TCACGCTCATCAAAACAAAATCAAGTAGAAAAAAAGAAAGAAAGAGGGCAACAACTTGCAATCCA
65 TCACGCTCATCAAAACAAAATCAAGT---AAAAAAGAAAG-AAGA-GGCAACAACTTGCAATCCA
10264667 AAATACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTAAATAGTCTAACTAGT
125 AAATACCATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTAAATAGTCTAACTAGT
** * * *
10264727 ACCTTTTTATTTCTTTGTCTCGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTTA
1 AAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATG-TTA
* * * *
10264792 TCATGCTCATCAAAACAAAATCAAGT-AAAAA-AAAG-AGA-GCGAGAACTTTCAATCCAAAATA
65 TCACGCTCATCAAAACAAAATCAAGTAAAAAAGAAAGAAGAGGCAACAACTTGCAATCCAAAATA
** * * ** * * *
10264853 CTGTGAAAGGAAAGTTGAATGTTAGTATTCCTTTCCTTGTCAATAGTCTAATTGGT
130 CCAT-AAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTAAATAGTCTAACTAGT
** *
10264909 AAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTCAACTCTACTATTGTTT
1 AAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTTGACTCTACTCTTGTTT
10264959 GTTCCGTTCC
Statistics
Matches: 196, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
181 22 0.11
182 86 0.44
183 3 0.02
185 4 0.02
186 5 0.03
189 48 0.24
190 28 0.14
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (184 bp):
AAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTAT
CACGCTCATCAAAACAAAATCAAGTAAAAAAGAAAGAAGAGGCAACAACTTGCAATCCAAAATAC
CATAAAAGAAAGTTGAATGTTAGTATTCCCTTCCTACTAAATAGTCTAACTAGT
Found at i:10265153 original size:217 final size:216
Alignment explanation
Indices: 10264747--10265168 Score: 652
Period size: 217 Copynumber: 1.9 Consensus size: 216
10264737 TTCTTTGTCT
*
10264747 CGTTCCTCTTCTTTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
1 CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
* * ** *
10264812 TCAAGTAAAAAAAAGAGAGCGAGAACTTTCAATCCAAAATACTGTGAAAGGAAAGTTGAATGTTA
66 TCAAGTAAAAAAAAGAAAGCGAGAACTTACAATCCAAAATACCATGAAAGAAAAGTTGAATGTTA
* * *
10264877 GTATTCCTTTCCTTGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTTTAGTTCCTCTTCTT
131 GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTC
10264942 CAACTCTACTATTGTTTGTTC
196 CAACTCTACTATTGTTTGTTC
* *
10264963 CGTTCCTCTTCTCTGACTCTACTTTTGTTTTCTCTATTATGTTTATCATGCTCATCTAAACAAAA
1 CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
10265028 TCAAGTAAAAAAAA-AAAG-GATGACAACTTACAATCCAAAATACCAT-AGAAGAAAAGTTGAAT
66 TCAAGTAAAAAAAAGAAAGCGA-G--AACTTACAATCCAAAATACCATGA-AAGAAAAGTTGAAT
* * *
10265090 GTTAGTATTCCTTTCCTAGTTAATAGTTTAATTGGTAAGTTTTTCTTTCTTTGTCTCGTTCCTCT
127 GTTAGTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCT
*
10265155 TCTCCGACTCTACT
192 TCTCCAACTCTACT
10265169 CTCGTTTTCT
Statistics
Matches: 187, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
214 2 0.01
215 4 0.02
216 77 0.41
217 104 0.56
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (216 bp):
CGTTCCTCTTCTCTGACTCTACTCTTGTTTTCTCTATTATGTTTATCATGCTCATCAAAACAAAA
TCAAGTAAAAAAAAGAAAGCGAGAACTTACAATCCAAAATACCATGAAAGAAAAGTTGAATGTTA
GTATTCCTTTCCTAGTCAATAGTCTAATTGGTAAGTTTTTCTTTCTTTGTCTAGTTCCTCTTCTC
CAACTCTACTATTGTTTGTTC
Found at i:10266309 original size:2 final size:2
Alignment explanation
Indices: 10266302--10266332 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10266292 GTACCCGAAA
10266302 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 A
10266333 ATAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10266647 original size:27 final size:28
Alignment explanation
Indices: 10266595--10266647 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
10266585 TGATTTTATT
* * *
10266595 AAAATAAATAAATTCAATGGATAATTAA
1 AAAATAAATAAATTAAATGCAAAATTAA
10266623 AAAATAAA-AAATTAAATGCAAAATT
1 AAAATAAATAAATTAAATGCAAAATT
10266648 GGAGAAATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (28 bp):
AAAATAAATAAATTAAATGCAAAATTAA
Found at i:10269293 original size:22 final size:21
Alignment explanation
Indices: 10269246--10269294 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
10269236 TAATTTAATT
10269246 TTTTTCTTTTATGTTATTTTA
1 TTTTTCTTTTATGTTATTTTA
* *
10269267 ATTTTCTTTTTAT-TTTTCTTTA
1 TTTTTC-TTTTATGTTAT-TTTA
10269289 TTTTTC
1 TTTTTC
10269295 ATTCTCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTCTTTTATGTTATTTTA
Found at i:10269921 original size:24 final size:24
Alignment explanation
Indices: 10269875--10269922 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10269865 AAAAAAGAAT
*
10269875 AGAAAATAAAGAAAACAATTTAAA
1 AGAAAATAAAGAAAACAAATTAAA
10269899 AGAAAATAAAAGAAAA-AAATTAAA
1 AGAAAAT-AAAGAAAACAAATTAAA
10269923 TTGATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (24 bp):
AGAAAATAAAGAAAACAAATTAAA
Found at i:10272171 original size:14 final size:15
Alignment explanation
Indices: 10272137--10272184 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10272127 TTTCCCCTTT
* *
10272137 TTATCCTATTATTTG
1 TTATACTATTATTTA
10272152 TTATACTATT-TTTA
1 TTATACTATTATTTA
* *
10272166 TTATACCACTATTTA
1 TTATACTATTATTTA
10272181 TTAT
1 TTAT
10272185 TTTTATTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (15 bp):
TTATACTATTATTTA
Found at i:10272257 original size:21 final size:22
Alignment explanation
Indices: 10272225--10272276 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10272215 TTTTTACTAT
10272225 TTATT-TTAAATCATTATAT-TA
1 TTATTATT-AATCATTATATATA
* *
10272246 TTATTATTAATCTTTTTATATA
1 TTATTATTAATCATTATATATA
10272268 TT-TTATTAA
1 TTATTATTAA
10272277 AAGTTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTATTAATCATTATATATA
Found at i:10272370 original size:12 final size:12
Alignment explanation
Indices: 10272353--10272399 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
10272343 TTTTTCCTAT
*
10272353 TATTATTTATAC
1 TATTATATATAC
10272365 TATTATATATA-
1 TATTATATATAC
10272376 TATATATATATA-
1 TAT-TATATATAC
10272388 TATATATATATA
1 TAT-TATATATA
10272400 TATATTCGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
11 3 0.09
12 30 0.91
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTATATATAC
Found at i:10272375 original size:2 final size:2
Alignment explanation
Indices: 10272368--10272404 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10272358 TTTATACTAT
10272368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10272405 TCGTTCTCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.