Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 13 of 25
Found at i:1837212 original size:22 final size:20
Alignment explanation
Indices: 1837187--1837231 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
1837177 ACGTTAAAAA
*
1837187 AATTTTACTCACATAATAAATT
1 AATTTGACTCA-A-AATAAATT
*
1837209 AATTTGACTCAAATTAAATT
1 AATTTGACTCAAAATAAATT
1837229 AAT
1 AAT
1837232 CAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTTGACTCAAAATAAATT
Found at i:1837685 original size:21 final size:21
Alignment explanation
Indices: 1837610--1837691 Score: 55
Period size: 21 Copynumber: 3.9 Consensus size: 21
1837600 TATTAATTAT
1837610 ATATATATATATATATATTTTAA
1 ATATATATATA-ATA-ATTTTAA
* **
1837633 AT-T-T-TGATTATAATTTTTT
1 ATATATAT-ATAATAATTTTAA
*
1837652 ATAGATA-ATTAATAATTTTAA
1 ATATATATA-TAATAATTTTAA
1837673 ATATATATATAATTAATTT
1 ATATATATATAA-TAATTT
1837692 ATATTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
19 7 0.16
20 5 0.11
21 22 0.50
22 8 0.18
23 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATATATATAATAATTTTAA
Found at i:1837706 original size:19 final size:19
Alignment explanation
Indices: 1837684--1837730 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1837674 TATATATATA
**
1837684 ATTAATTTATATTTTTTTT
1 ATTAATTTATATTTTAATT
*
1837703 ATTATTTTATATTTTAATT
1 ATTAATTTATATTTTAATT
1837722 ATT-ATTTAT
1 ATTAATTTAT
1837731 TTATTGATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTAATTTATATTTTAATT
Found at i:1837732 original size:4 final size:4
Alignment explanation
Indices: 1837723--1837765 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
1837713 ATTTTAATTA
* * *
1837723 TTAT TTAT TTAT TGAT GTAT TATAT TTGT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TT
1837766 GTTATTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:1837814 original size:26 final size:26
Alignment explanation
Indices: 1837780--1837852 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
1837770 TTAAAGTAAT
1837780 TAAAATATTTTTAATATAATAATAAA
1 TAAAATATTTTTAATATAATAATAAA
* *** *
1837806 TAAAGTATTCAAAATATAAGAATAAA
1 TAAAATATTTTTAATATAATAATAAA
*
1837832 -AAAATATTTTTGATA-AATAAT
1 TAAAATATTTTTAATATAATAAT
1837853 TATAACTTTG
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
24 5 0.14
25 10 0.28
26 21 0.58
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (26 bp):
TAAAATATTTTTAATATAATAATAAA
Found at i:1842398 original size:2 final size:2
Alignment explanation
Indices: 1842391--1842418 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1842381 GCACCCATAA
1842391 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
1842419 TGTTTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1843286 original size:12 final size:12
Alignment explanation
Indices: 1843269--1843293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1843259 TTTAAATGAA
1843269 TTAAATTTTAAT
1 TTAAATTTTAAT
1843281 TTAAATTTTAAT
1 TTAAATTTTAAT
1843293 T
1 T
1843294 ATTTTATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAAATTTTAAT
Found at i:1843876 original size:11 final size:12
Alignment explanation
Indices: 1843855--1843912 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
1843845 CGATATGAAC
1843855 AAATATTATATT
1 AAATATTATATT
1843867 AAAT-TTATATT
1 AAATATTATATT
*
1843878 AATTAATTAT-TT
1 AAAT-ATTATATT
*
1843890 ATAT-TTATATT
1 AAATATTATATT
*
1843901 CAATAATTATAT
1 AAAT-ATTATAT
1843913 ATTTCCCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
10 4 0.11
11 14 0.39
12 8 0.22
13 10 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
AAATATTATATT
Found at i:1843891 original size:17 final size:16
Alignment explanation
Indices: 1843857--1843900 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
1843847 ATATGAACAA
1843857 ATATTATATTAAATTT
1 ATATTATATTAAATTT
1843873 ATATTA-ATTAATTATTT
1 ATATTATATTAA--ATTT
1843890 ATATTTATATT
1 ATA-TTATATT
1843901 CAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 6 0.25
17 7 0.29
18 3 0.12
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATATTAAATTT
Found at i:1843912 original size:13 final size:12
Alignment explanation
Indices: 1843859--1843912 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 12
1843849 ATGAACAAAT
1843859 ATTATATTAA-A
1 ATTATATTAATA
*
1843870 TTTATATTAATTA
1 ATTATATTAA-TA
1843883 ATTAT-TT-ATA
1 ATTATATTAATA
*
1843893 TTTATATTCAATA
1 ATTATATT-AATA
1843906 ATTATAT
1 ATTATAT
1843913 ATTTCCCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.18
11 12 0.35
12 2 0.06
13 14 0.41
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATATTAATA
Found at i:1844499 original size:15 final size:15
Alignment explanation
Indices: 1844481--1844526 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1844471 TTTACAATAC
*
1844481 AAATTCAATACTTAT
1 AAATTCAATACTTAA
* *
1844496 AAATTTAATACTAAAA
1 AAATTCAATACT-TAA
1844512 AAATTCAATACTTAA
1 AAATTCAATACTTAA
1844527 TTTTTCAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTCAATACTTAA
Found at i:1844521 original size:16 final size:15
Alignment explanation
Indices: 1844481--1844523 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
1844471 TTTACAATAC
* *
1844481 AAATTCAATACTTAT
1 AAATTCAATACTAAA
*
1844496 AAATTTAATACTAAAA
1 AAATTCAATACT-AAA
1844512 AAATTCAATACT
1 AAATTCAATACT
1844524 TAATTTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTCAATACTAAA
Found at i:1844545 original size:14 final size:15
Alignment explanation
Indices: 1844515--1844548 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1844505 ACTAAAAAAA
*
1844515 TTCAATACTTAATTT
1 TTCAACACTTAATTT
*
1844530 TTCAACACTTATTTT
1 TTCAACACTTAATTT
1844545 TTCA
1 TTCA
1844549 GTTTATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:1845095 original size:21 final size:22
Alignment explanation
Indices: 1845054--1845095 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1845044 ATTTTTAGGT
*
1845054 TTTTTAAATTTTTTTTATAATA
1 TTTTTAAATTTTTTATATAATA
*
1845076 TTTTTAACTTTTTTAT-TAAT
1 TTTTTAAATTTTTTATATAAT
1845096 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTAAATTTTTTATATAATA
Found at i:1846033 original size:15 final size:15
Alignment explanation
Indices: 1846013--1846045 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1846003 TTTTTATTTT
*
1846013 TTTATTTCAATTTGA
1 TTTATTTAAATTTGA
1846028 TTTATTTAAATTTGA
1 TTTATTTAAATTTGA
1846043 TTT
1 TTT
1846046 GATATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTATTTAAATTTGA
Found at i:1846635 original size:14 final size:15
Alignment explanation
Indices: 1846605--1846643 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
1846595 TTATTTTAAA
1846605 AATTTATAATTTTTTT
1 AATTTATAA-TTTTTT
1846621 AATTTATAA-TTTTT
1 AATTTATAATTTTTT
*
1846635 ATTTTATAA
1 AATTTATAA
1846644 GAACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTATAATTTTTT
Found at i:1849329 original size:52 final size:52
Alignment explanation
Indices: 1849218--1849870 Score: 404
Period size: 53 Copynumber: 12.8 Consensus size: 52
1849208 ATTTTTATTC
* * *
1849218 AAAAT-TTTTATATTAAA-CATCAATTACTATTTAATAAATAA-AT-AAA-T-
1 AAAATATTTTATATTAAATCTTAAATTACTATATAA-AAATAATATAAAATTA
* *
1849265 -AAATATTTTATATTAAATCTTAAATTACTA-AT-ACAATACTATAAAATTTTA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAATATAAAA--TTA
* *
1849316 AAATTATTTTATATTAAAT-TTAAATTACTATTTAAAAATAATATAAAATTA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAATATAAAATTA
* * *
1849367 AAAAAATTTTATAATAAATCTCAAATTACTACT-TAAAAATAATA-AAAATTTA
1 AAAATATTTTATATTAAATCTTAAATTACTA-TATAAAAATAATATAAAA-TTA
* * * *
1849419 AAACA-ATATTTATATTAAATC-AAGAATTATTATTTAAAAGTAATA-AAAATTA
1 AAA-ATAT-TTTATATTAAATCTTA-AATTACTATATAAAAATAATATAAAATTA
* * * *
1849471 AAAATTATATTTATATTAAATCCTT-AATTGC-ATTTTAAAATAATATAAAA-AA
1 AAAA-TAT-TTTATATTAAAT-CTTAAATTACTATATAAAAATAATATAAAATTA
* ** * * *
1849523 AATAATATTTTTTATTAAATCTCGAGTGACTATTTAAATAATAATA-AAAATT-
1 AA-AATATTTTATATTAAATCTTAAATTACTATATAAA-AATAATATAAAATTA
* * * *
1849575 AAAATATTTTATATTAAATCTCAAATT-TTTTTTAAAAATAATA-AAAATTA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAATATAAAATTA
* * * * *
1849625 AAAATATTTTA-A-TAAATCTTGAATTATTATTTAAAATTAAT-CAAAA-TA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAATATAAAATTA
* * * * * *
1849673 TAAATA--TTGTATTAAATC-TAGAATTACTTTTTTAAAAGAAT-TAAAAATTTTA
1 AAAATATTTTATATTAAATCTTA-AATTACTATATAAAAATAATAT-AAAA--TTA
* * * *
1849725 AAAATATTTT-TATTAAATCATGAATTATTATTTAAAAGA-AATA-AAAATTAA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAA-ATAATATAAAATT-A
* * *
1849776 AAAATATTTTATATTAAAT-TTAAAATTACTTTTTTAAAATAA-ATAAAATATTA
1 AAAATATTTTATATTAAATCTT-AAATTACTATATAAAAATAATAT-AAA-ATTA
* * * * *
1849829 AAAAAATTTTATATTAAATGTCAAATTATTATTTAAAAATAA
1 AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAA
1849871 AAAATTTTAA
Statistics
Matches: 491, Mismatches: 64, Indels: 96
0.75 0.10 0.15
Matches are distributed among these distances:
45 4 0.01
46 9 0.02
47 18 0.04
48 49 0.10
49 35 0.07
50 23 0.05
51 84 0.17
52 118 0.24
53 142 0.29
54 9 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (52 bp):
AAAATATTTTATATTAAATCTTAAATTACTATATAAAAATAATATAAAATTA
Found at i:1849456 original size:53 final size:50
Alignment explanation
Indices: 1849249--1849884 Score: 453
Period size: 52 Copynumber: 12.3 Consensus size: 50
1849239 AATTACTATT
* * * *
1849249 TAATAAATAAATAAATAAATATTTTATATTAAATCTTAAATTACTA-AT-ACAA
1 TAATAAA-AATTAAA-AAATA-TTTATATTAAATC-TAAATTATTATTTAAAAA
* * * * *
1849301 TACTATAAAATTTTAAAATTATTTTATATTAAATTTAAATTACTATTTAAAAA
1 TA--ATAAAAATTAAAAAATA-TTTATATTAAATCTAAATTATTATTTAAAAA
* * *
1849354 TAATATAAAATTAAAAAA-ATTTTATAATAAATCTCAAATTACTACTTAAAAA
1 TAATA-AAAATTAAAAAATA-TTTATATTAAATCT-AAATTATTATTTAAAAA
* *
1849406 TAATAAAAATTTAAAACAATATTTATATTAAATCAAGAATTATTATTTAAAAG
1 TAATAAAAA-TTAAAA-AATATTTATATTAAATCTA-AATTATTATTTAAAAA
* ** *
1849459 TAATAAAAATTAAAAATTATATTTATATTAAATCCTTAATT-GCATTTTAAAA
1 TAATAAAAATTAAAAA--ATATTTATATTAAAT-CTAAATTATTATTTAAAAA
* * * * *
1849511 TAATATAAAA--AAAATAATATTTTTTATTAAATCTCGAGTGACTATTTAAATAA
1 TAATA-AAAATTAAAA-AATA-TTTATATTAAATCT-AAATTATTATTTAAA-AA
* *
1849564 TAATAAAAATTAAAATAT-TTTATATTAAATCTCAAATT-TTTTTTAAAAA
1 TAATAAAAATTAAAAAATATTTATATTAAATCT-AAATTATTATTTAAAAA
* * *
1849613 TAATAAAAATT-AAAAATATTT-TAATAAATCTTGAATTATTATTTAAAAT
1 TAATAAAAATTAAAAAATATTTATATTAAATC-TAAATTATTATTTAAAAA
* * * *
1849662 TAATCAAAA-T-ATAAATA-TTGTATTAAATCTAGAATTACTTTTTTAAAAGA
1 TAATAAAAATTAAAAAATATTTATATTAAATCTA-AATTA-TTATTTAAAA-A
* * * *
1849712 -ATTAAAAATTTTAAAAATATTTTTATTAAATCATGAATTATTATTTAAAAGA
1 TAATAAAAA-TTAAAAAATATTTATATTAAATC-TAAATTATTATTTAAAA-A
* *
1849764 -AATAAAAATTAAAAAATATTTTATATTAAATTTAAAATTACTT-TTTTAAAA
1 TAATAAAAATTAAAAAATA-TTTATATTAAATCT-AAATTA-TTATTTAAAAA
*
1849815 TAAATAAAATATTAAAAAA-ATTTTATATTAAATGTCAAATTATTATTTAAAAA
1 T-AATAAAA-ATTAAAAAATA-TTTATATTAAATCT-AAATTATTATTTAAAAA
*
1849868 TAA-AAAATTTTAAAAAA
1 TAATAAAA-ATTAAAAAA
1849885 ATACTTTACA
Statistics
Matches: 479, Mismatches: 65, Indels: 81
0.77 0.10 0.13
Matches are distributed among these distances:
47 3 0.01
48 37 0.08
49 49 0.10
50 12 0.03
51 90 0.19
52 136 0.28
53 131 0.27
54 21 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (50 bp):
TAATAAAAATTAAAAAATATTTATATTAAATCTAAATTATTATTTAAAAA
Found at i:1849512 original size:105 final size:103
Alignment explanation
Indices: 1849265--1849883 Score: 546
Period size: 105 Copynumber: 6.0 Consensus size: 103
1849255 ATAAATAAAT
* ** * * * *
1849265 AAATATTTTATATTAAATCTTAAATTAC--TAATACAATACTATAAAATTTTAAAATTATTTTAT
1 AAATATTTTATATTAAATCTCAAATTACTTTTTTAAAATAATA-AAAATTTAAAAAATA-TTTAT
* *
1849328 ATTAAATTTA-AATTACTATTTAAAAATAATATAAAATTAA
64 ATTAAATCTAGAATTATTATTTAAAAATAATA-AAAATTAA
* * ** *
1849368 AAAAATTTTATAATAAATCTCAAATTACTACTTAAAAATAATAAAAATTTAAAACAATATTTATA
1 AAATATTTTATATTAAATCTCAAATTACTTTTTTAAAATAATAAAAATTTAAAA-AATATTTATA
* *
1849433 TTAAATCAAGAATTATTATTTAAAAGTAATAAAAATTAA
65 TTAAATCTAGAATTATTATTTAAAAATAATAAAAATTAA
* * *
1849472 AAATTATATTTATATTAAATC-CTTAATTGC-ATTTTAAAATAATATAAAA---AAAATAATATT
1 AAA-TAT-TTTATATTAAATCTC-AAATTACTTTTTTAAAATAATA-AAAATTTAAAA-AATA-T
* * * * *
1849532 TTTTATTAAATCTCGAGTGACTATTTAAATAATAATAAAAATT-A
60 TTATATTAAATCTAGAATTATTATTTAAA-AATAATAAAAATTAA
1849576 AAATATTTTATATTAAATCTCAAATT--TTTTTTAAAAATAATAAAAA-TT-AAAAATATTT-TA
1 AAATATTTTATATTAAATCTCAAATTACTTTTTT-AAAATAATAAAAATTTAAAAAATATTTATA
* * * * *
1849636 ATAAATCTTGAATTATTATTTAAAATTAATCAAAA-TAT
65 TTAAATCTAGAATTATTATTTAAAAATAATAAAAATTAA
* * * *
1849674 AAATA--TTGTATTAAATCT-AGAATTACTTTTTTAAAAGAATTAAAAATTTTAAAAATATTTTT
1 AAATATTTTATATTAAATCTCA-AATTACTTTTTTAAAATAA-TAAAAATTTAAAAAATATTTAT
1849736 ATTAAATC-ATGAATTATTATTTAAAAGA-AATAAAAATTAAA
64 ATTAAATCTA-GAATTATTATTTAAAA-ATAATAAAAATT-AA
* * *
1849777 AAATATTTTATATTAAATTTAAAATTACTTTTTTAAAATAAATAAAATATTAAAAAAAT-TTTAT
1 AAATATTTTATATTAAATCTCAAATTACTTTTTTAAAAT-AATAAAA-ATTTAAAAAATATTTAT
* *
1849841 ATTAAATGTCA-AATTATTATTTAAAAATAA-AAAATTTTAA
64 ATTAAATCT-AGAATTATTATTTAAAAATAATAAAA-ATTAA
1849881 AAA
1 AAA
1849884 AATACTTTAC
Statistics
Matches: 426, Mismatches: 54, Indels: 71
0.77 0.10 0.13
Matches are distributed among these distances:
95 1 0.00
96 16 0.04
97 7 0.02
98 26 0.06
99 23 0.05
100 13 0.03
101 43 0.10
102 30 0.07
103 43 0.10
104 72 0.17
105 118 0.28
106 33 0.08
107 1 0.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (103 bp):
AAATATTTTATATTAAATCTCAAATTACTTTTTTAAAATAATAAAAATTTAAAAAATATTTATAT
TAAATCTAGAATTATTATTTAAAAATAATAAAAATTAA
Found at i:1849979 original size:22 final size:22
Alignment explanation
Indices: 1849954--1849995 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1849944 GATTGTTTTA
*
1849954 GTTAAAATCATTTATACATTCT
1 GTTAAAATCATATATACATTCT
*
1849976 GTTAAAGTCATATATACATT
1 GTTAAAATCATATATACATT
1849996 TAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
GTTAAAATCATATATACATTCT
Found at i:1850114 original size:22 final size:22
Alignment explanation
Indices: 1850086--1850164 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
1850076 CCTTTCATGA
* * *
1850086 AAAGTTATATGTATAATCAGTT
1 AAAGTTATATGTACATTCAATT
*
1850108 AAAGTTATATATACATTCAATT
1 AAAGTTATATGTACATTCAATT
*
1850130 ATAGTTATATGTACATTCAATT
1 AAAGTTATATGTACATTCAATT
*
1850152 ATAGTTATATGTA
1 AAAGTTATATGTA
1850165 TATATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (22 bp):
AAAGTTATATGTACATTCAATT
Found at i:1850510 original size:22 final size:22
Alignment explanation
Indices: 1850485--1850569 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 22
1850475 CAAAAGTATT
*
1850485 AGTTTTAGTTATATATACATTC
1 AGTTATAGTTATATATACATTC
* * * *
1850507 AGTTAAAATTATATATATATTT
1 AGTTATAGTTATATATACATTC
*
1850529 AGTTATAG--ATATAT--ATTT
1 AGTTATAGTTATATATACATTC
* *
1850547 AGTTATAGTTATATGTAAATTC
1 AGTTATAGTTATATATACATTC
1850569 A
1 A
1850570 ATTTTATTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 12 0.24
20 11 0.22
22 27 0.54
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (22 bp):
AGTTATAGTTATATATACATTC
Found at i:1850542 original size:18 final size:18
Alignment explanation
Indices: 1850519--1850560 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1850509 TTAAAATTAT
1850519 ATATATATTTAGTTATAG
1 ATATATATTTAGTTATAG
1850537 ATATATATTTAGTTATAG
1 ATATATATTTAGTTATAG
*
1850555 TTATAT
1 ATATAT
1850561 GTAAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
ATATATATTTAGTTATAG
Found at i:1850741 original size:53 final size:52
Alignment explanation
Indices: 1850648--1851394 Score: 693
Period size: 52 Copynumber: 14.5 Consensus size: 52
1850638 ATTAAGAAAT
* * * * *
1850648 ATTTTATATTAAATATGTTTTTAA-TTTT-TTATTTTTAAATAATAATTCAAG
1 ATTTAATATAAAATAT-TTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
* * ** *
1850699 ATTTAACATAAAATATTTTTAAAATTTTTATTATTTTTAAATAATAATTCGAC
1 ATTTAATATAAAATATTTTT-AAATTTTTATTATTTTTAAATAGTAATTTAAG
* * *
1850752 ATTTAATATAAAATATTTTTAAAATTTTTACTATTTTTTAAATAATAATTTAGG
1 ATTTAATATAAAATATTTTT-AAATTTTTATTA-TTTTTAAATAGTAATTTAAG
* * * *
1850806 ACTTAATATAAAATATTTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAT
1 ATTTAATATAAAATATTTTTAA-ATTTTTATTATTTTTAAATAGTAATTTAAG
1850859 ATTTAATATAAAATATTTTTTAAA--TTT-TTATTTTT---TAGT--TTT-A-
1 ATTTAATATAAAATA-TTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
* *
1850902 A-TT--TATAAAATATTTTTAAAATTTTAATTA-TTTTAAATAGTAATTTGAG
1 ATTTAATATAAAATATTTTT-AAATTTTTATTATTTTTAAATAGTAATTTAAG
* * * * *
1850951 ACTTAATATAAAATATTTTT--ATTTTTAATATTTTTATATGGTAATTTAGG
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
* * * * **
1851001 ATTTAATATAAAATATTTTTGATTTTTTATTATTTTAAAATAATAATTTTGG
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
1851053 ATTT-ATATAAAATATTTTT--ATTTTTATTATTTTTAAATAGTAATTCT-AG
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATT-TAAG
* * *
1851102 ATTTAATACAAAAATAGTTTTT--ATTTTTATTATTTTAAAATAGTTAA-TTGAG
1 ATTTAATA-TAAAATA-TTTTTAAATTTTTATTATTTTTAAATAG-TAATTTAAG
* * *
1851154 A-TTACTATAAACTATTTTTAAATTTTTAATTATTTTTAAATAGTAATTTGAG
1 ATTTAATATAAAATATTTTTAAATTTTT-ATTATTTTTAAATAGTAATTTAAG
** * * *
1851206 ATTTAATAT-AAATATTTTTTTTATTTTTAATATTTTTATATAGTAATTTAGG
1 ATTTAATATAAAATA-TTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
* * * *
1851258 ATTTGATATAAAATATTTTTAATTTTTTATTATTTTTAAATAATAATTTGAG
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
* * **
1851310 ATTTGATATAAAATATATTTTTAATTTTTTTATTATTTTGTAAATTTTAATTTAAG
1 ATTTAATAT-AAA-ATATTTTTAA-ATTTTTATTATTTT-TAAATAGTAATTTAAG
*
1851366 ATTTAATATAATATATTTTTAAAATTTTT
1 ATTTAATATAAAATATTTTT-AAATTTTT
1851395 TAATAGTGAC
Statistics
Matches: 585, Mismatches: 70, Indels: 79
0.80 0.10 0.11
Matches are distributed among these distances:
39 5 0.01
40 12 0.02
42 8 0.01
43 4 0.01
44 1 0.00
45 6 0.01
47 7 0.01
48 1 0.00
49 42 0.07
50 57 0.10
51 54 0.09
52 164 0.28
53 112 0.19
54 73 0.12
55 18 0.03
56 21 0.04
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (52 bp):
ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAAG
Found at i:1850796 original size:104 final size:104
Alignment explanation
Indices: 1850648--1851394 Score: 654
Period size: 107 Copynumber: 7.3 Consensus size: 104
1850638 ATTAAGAAAT
* * * * *
1850648 ATTTTATATTAAATATGTTTTTAA-TTTT-TTATTTTTAAATAATAATTCAAGATTTAACATAAA
1 ATTTAATATAAAATAT-TTTTAAATTTTTATTATTTTT-AATAATAATTTAAGATTTAATATAAA
* * *
1850711 ATATTTTTAAAATTTTTATTATTTTTAAATAATAATTCGAC
64 ATATTTTTAAAATTTTTATTATTTTTAAATAGTAATTTGAG
* * *
1850752 ATTTAATATAAAATATTTTTAAAATTTTTACTATTTTTTAAATAATAATTTAGGACTTAATATAA
1 ATTTAATATAAAATATTTTT-AAATTTTTATTA-TTTTT-AATAATAATTTAAGATTTAATATAA
** ** *
1850817 AATATTTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAT
63 AATATTTTTAAAATTTTTATTATTTTTAAATAGTAATTTGAG
*
1850859 ATTTAATATAAAATATTTTTTAAA--TTT-TTATTTTT--TAGT--TTT-A-A-TT--TATAAAA
1 ATTTAATATAAAATA-TTTTTAAATTTTTATTATTTTTAATAATAATTTAAGATTTAATATAAAA
*
1850912 TATTTTTAAAATTTTAATTA-TTTTAAATAGTAATTTGAG
65 TATTTTTAAAATTTTTATTATTTTTAAATAGTAATTTGAG
* * ** *
1850951 ACTTAATATAAAATATTTTT--ATTTTTAATATTTTTATATGGTAATTTAGGATTTAATATAAAA
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTA-ATAATAATTTAAGATTTAATATAAAA
* * * *
1851014 TATTTTT-GATTTTTTATTATTTTAAAATAATAATTTTG-G
65 TATTTTTAAAATTTTTATTATTTTTAAATAGTAA-TTTGAG
* *
1851053 ATTT-ATATAAAATATTTTT--ATTTTTATTATTTTTAAATAGTAATTCT-AGATTTAATACAAA
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTT-AATAATAATT-TAAGATTTAATA-TAA
*
1851114 AATAGTTTTT---ATTTTTATTATTTTAAAATAGTTAA-TTGAG
63 AATA-TTTTTAAAATTTTTATTATTTTTAAATAG-TAATTTGAG
* * * *
1851154 A-TTACTATAAACTATTTTTAAATTTTTAATTATTTTTAAATAGTAATTTGAGATTTAATAT-AA
1 ATTTAATATAAAATATTTTTAAATTTTT-ATTATTTTT-AATAATAATTTAAGATTTAATATAAA
*** * *
1851217 ATATTTTTTTTATTTTTAATATTTTTATATAGTAATTT-AGG
64 ATATTTTTAAAATTTTTATTATTTTTAAATAGTAATTTGA-G
* * * *
1851258 ATTTGATATAAAATATTTTTAATTTTTTATTATTTTTAAATAATAATTTGAGATTTGATATAAAA
1 ATTTAATATAAAATATTTTTAAATTTTTATTATTTTT-AATAATAATTTAAGATTTAATAT-AAA
** ** *
1851323 TATATTTTTAATTTTTTTATTATTTTGTAAATTTTAATTTAAG
64 -ATATTTTTAAAATTTTTATTATTTT-TAAATAGTAATTTGAG
*
1851366 ATTTAATATAATATATTTTTAAAATTTTT
1 ATTTAATATAAAATATTTTT-AAATTTTT
1851395 TAATAGTGAC
Statistics
Matches: 540, Mismatches: 60, Indels: 81
0.79 0.09 0.12
Matches are distributed among these distances:
89 1 0.00
91 8 0.01
92 37 0.07
93 24 0.04
95 5 0.01
96 1 0.00
97 3 0.01
98 3 0.01
99 1 0.00
100 10 0.02
101 94 0.17
102 45 0.08
103 29 0.05
104 101 0.19
105 29 0.05
106 4 0.01
107 103 0.19
108 34 0.06
109 8 0.01
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (104 bp):
ATTTAATATAAAATATTTTTAAATTTTTATTATTTTTAATAATAATTTAAGATTTAATATAAAAT
ATTTTTAAAATTTTTATTATTTTTAAATAGTAATTTGAG
Found at i:1850983 original size:92 final size:96
Alignment explanation
Indices: 1850697--1851386 Score: 412
Period size: 101 Copynumber: 6.8 Consensus size: 96
1850687 TAATAATTCA
* * * * *
1850697 AGATTTAACATAAAATATTTTTAAAATTTTTATTATTTTTAAATAATAATTCGACATTTAATATA
1 AGATTT-ATATAAAATATTTTTAAATTTTTTATTA-TTTTAAATAGTAATTTGAGA-TTAATATA
*
1850762 AAATATTTTTAAAATTTTTACTATTTTTTAAATA-ATAATTT
63 AAATATTTTT---ATTTTTA-TA-TTTTT--ATAGGT-ATTT
* * ** *
1850803 AGGACTTAATATAAAATATTTTTAATTTTTTTATTATTTTTAAATAGTAATTCAATATTTAATAT
1 A-GA-TTTATATAAAATATTTTTAAATTTTTTATTA-TTTTAAATAGTAATTTGAGA-TTAATAT
*
1850868 AAAATATTTTTTAAATTTT-TATTTTT-TA-GT-TTT
62 AAAATA-TTTTT-ATTTTTATATTTTTATAGGTATTT
* *
1850901 A-A-TT-TATAAAATATTTTTAAAATTTTAATTATTTTAAATAGTAATTTGAGACTTAATATAAA
1 AGATTTATATAAAATATTTTTAAATTTTTTATTATTTTAAATAGTAATTTGAGA-TTAATATAAA
1850963 ATATTTTTATTTTTAATATTTTTATATGGTAATTT
65 ATATTTTTATTTTT-ATATTTTTATA-GGT-ATTT
* * *
1850998 AGGATTTAATATAAAATATTTTT-GATTTTTTATTATTTTAAAATAATAATTTTG-GATTTATAT
1 A-GATTT-ATATAAAATATTTTTAAATTTTTTATTATTTT-AAATAGTAA-TTTGAGATTAATAT
1851061 AAAATATTTTTATTTTTATTATTTTTAAATA-GTAATTCT
62 AAAATATTTTTATTTTTA-TATTTTT--ATAGGT-ATT-T
* *
1851100 AGATTTAATACAAAAATAGTTTTT--A-TTTTTATTATTTTAAAATAGTTAA-TTGAGATTACTA
1 AGATTT-ATA-TAAAATA-TTTTTAAATTTTTTATTATTTT-AAATAG-TAATTTGAGATTAATA
*
1851161 TAAACTATTTTTAAATTTTTAATTATTTTTAAATA-GTAATTT
61 TAAAATATTTTT--ATTTTT-A-TATTTTT--ATAGGT-ATTT
** * * *
1851203 GAGATTTA-ATATAAATATTTTT-TTTATTTTTAATATTTTTATATAGTAATTT-AGGATTTGAT
1 -AGATTTATATA-AAATATTTTTAAAT-TTTTTATTA-TTTTAAATAGTAATTTGA-GA-TTAAT
*
1851265 ATAAAATATTTTTAATTTTTTATTATTTTTAAATA-ATAATTT
60 ATAAAATATTTTT-A-TTTTTA-TATTTTT--ATAGGT-ATTT
* ** *
1851307 GAGATTTGATATAAAATATATTTTTAATTTTTTTATTATTTTGTAAATTTTAATTTAAGATTTAA
1 -AGATTT-ATAT-AAA-ATATTTTTAAATTTTTTATTA-TTT-TAAATAGTAATTTGAGA-TTAA
*
1851372 TATAATATATTTTTA
59 TATAAAATATTTTTA
1851387 AAATTTTTTA
Statistics
Matches: 496, Mismatches: 43, Indels: 89
0.79 0.07 0.14
Matches are distributed among these distances:
90 5 0.01
91 5 0.01
92 37 0.07
93 26 0.05
94 1 0.00
95 2 0.00
96 1 0.00
97 4 0.01
98 4 0.01
99 1 0.00
100 9 0.02
101 100 0.20
102 42 0.08
103 29 0.06
104 74 0.15
105 25 0.05
106 11 0.02
107 81 0.16
108 38 0.08
109 1 0.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (96 bp):
AGATTTATATAAAATATTTTTAAATTTTTTATTATTTTAAATAGTAATTTGAGATTAATATAAAA
TATTTTTATTTTTATATTTTTATAGGTATTT
Found at i:1851447 original size:18 final size:18
Alignment explanation
Indices: 1851424--1851459 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1851414 CATACCAATT
1851424 TTATTGCGAATAT-TTTAA
1 TTATTGC-AATATCTTTAA
1851442 TTATTGCAATATCTTTAA
1 TTATTGCAATATCTTTAA
1851460 AATAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (18 bp):
TTATTGCAATATCTTTAA
Found at i:1853379 original size:72 final size:72
Alignment explanation
Indices: 1853169--1853379 Score: 175
Period size: 72 Copynumber: 2.9 Consensus size: 72
1853159 ATTTTTATTA
* * * *
1853169 TAAAA-ATATTTTTGAATATGATTATACGAGTTTAGATTTTATAACA-TATGATTTATTTTTATT
1 TAAAATATTTTTTTGAAT-TGATTATACGAGTTTAAATTTTTTAA-AGTAAGATTTA--TTTATT
*
1853232 TGTAGAAGTTT
62 TTTAGAAGTTT
* * * * *
1853243 TAAAATATTTTTTTG-TTTGATTATATGAGTTTAAATTTTTTTTATGTTATA-ATTTTTTTA-TT
1 TAAAATATTTTTTTGAATTGATTATACGAGTTTAAA-TTTTTTAAAG-TA-AGATTTATTTATTT
1853305 TTAGAAG-TT
63 TTAGAAGTTT
* * *
1853314 T-AAATTTATTTTTTGAGTTGATTATAGGAGTTTAAATTATTTTAAAGTAAGATTTATTTATTTT
1 TAAAATAT-TTTTTTGAATTGATTATACGAGTTTAAATT-TTTTAAAGTAAGATTTATTTATTTT
1853378 TA
64 TA
1853380 TTTATAAAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
70 6 0.05
71 22 0.20
72 37 0.33
73 20 0.18
74 12 0.11
75 14 0.13
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.55
Consensus pattern (72 bp):
TAAAATATTTTTTTGAATTGATTATACGAGTTTAAATTTTTTAAAGTAAGATTTATTTATTTTTA
GAAGTTT
Found at i:1853625 original size:72 final size:71
Alignment explanation
Indices: 1853515--1853856 Score: 301
Period size: 73 Copynumber: 4.8 Consensus size: 71
1853505 TGTAAAAGTG
* *
1853515 TTTTTT-GTATAATTATACGAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTTGTAAAAGTT
1 TTTTTTGGTTTAATTATACAAGTTT-AAATTTTTAAAG-ATAATTTATTTTTATTTGTAAAAGTT
1853579 TAAATTTA
64 TAAATTTA
* * * *
1853587 TATTTTGTTTTAATTATACAATTTTAAATTTTTAAAG-T-A--TA-CTTT-TTTG-AAGAAGTTT
1 TTTTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGATAATTTATTTTTATTTGTAA-AAGTTT
1853645 AAATTTA
65 AAATTTA
* * * * *
1853652 TTTTTT-GTTATAATTATACGAGTTTAATTTTTTAAGGCATGATTTATTTTTATTTGTAGAAGTT
1 TTTTTTGGTT-TAATTATACAAGTTTAAATTTTTAAAG-ATAATTTATTTTTATTTGTAAAAGTT
*
1853716 TAAATTTG
64 TAAATTTA
* * * *
1853724 TTTTTTGGTTTAATTATATAAGTTTAAATTTTTTAAGATAAGATTTATTTTCATTTGTAGATA-T
1 TTTTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGAT-A-ATTTATTTTTATTTGTA-AAAGT
*
1853788 TTAAATTTG
63 TTAAATTTA
* * * * * *
1853797 TTTTTTGGGTTGATTGTAAAAG-TTAAATTTTTTTAAGGTATGATTTATTTTTATTTGTAA
1 TTTTTTGGTTTAATTATACAAGTTTAAA--TTTTTAAAG-ATAATTTATTTTTATTTGTAA
1853857 GATTAGTTTG
Statistics
Matches: 220, Mismatches: 32, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
64 4 0.02
65 45 0.20
66 3 0.01
67 3 0.01
68 1 0.00
69 1 0.00
70 3 0.01
71 5 0.02
72 67 0.30
73 78 0.35
74 8 0.04
75 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (71 bp):
TTTTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGATAATTTATTTTTATTTGTAAAAGTTTA
AATTTA
Found at i:1853645 original size:65 final size:70
Alignment explanation
Indices: 1853515--1853803 Score: 245
Period size: 72 Copynumber: 4.1 Consensus size: 70
1853505 TGTAAAAGTG
* * * * *
1853515 TTTTTTG-TATAATTATACGAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTTGTAA-AAGT
1 TTTTTTGTTTTAATTATACAAGTTT-AAATTTTT-AAG-ATGATATATCTTTATTTG-AAGAAGT
1853578 TTAAATTTA
62 TTAAATTTA
* *
1853587 TATTTTGTTTTAATTATACAATTTTAAATTTTTAA-A-G-TATA-CTTT-TTTGAAGAAGTTTAA
1 TTTTTTGTTTTAATTATACAAGTTTAAATTTTTAAGATGATATATCTTTATTTGAAGAAGTTTAA
1853647 ATTTA
66 ATTTA
* * * * * *
1853652 TTTTTTGTTATAATTATACGAGTTTAATTTTTTAAGGCATGATTTATTTTTATTTGTAGAAGTTT
1 TTTTTTGTTTTAATTATACAAGTTTAAATTTTTAA-G-ATGATATATCTTTATTTGAAGAAGTTT
*
1853717 AAATTTG
64 AAATTTA
* * * *
1853724 TTTTTTGGTTTAATTATATAAGTTTAAATTTTTTAAGATAAGATTTAT-TTTCATTTGTAGATA-
1 TTTTTTGTTTTAATTATACAAGTTTAAA-TTTTTAAGAT--GATATATCTTT-ATTTGAAGA-AG
*
1853787 TTTAAATTTG
61 TTTAAATTTA
1853797 TTTTTTG
1 TTTTTTG
1853804 GGTTGATTGT
Statistics
Matches: 182, Mismatches: 21, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
64 2 0.01
65 47 0.26
66 3 0.02
67 3 0.02
68 1 0.01
69 2 0.01
70 3 0.02
71 7 0.04
72 59 0.32
73 54 0.30
74 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (70 bp):
TTTTTTGTTTTAATTATACAAGTTTAAATTTTTAAGATGATATATCTTTATTTGAAGAAGTTTAA
ATTTA
Found at i:1854064 original size:66 final size:68
Alignment explanation
Indices: 1853994--1854140 Score: 162
Period size: 70 Copynumber: 2.2 Consensus size: 68
1853984 TTTTTAGATA
* *
1853994 TGATTATACGGGTTTACAAGGTAT-AA-T-TTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
1 TGATTATACGAGTTTA-AAGGTATAAAGTATTATTTTTATTTGTAAAAGTTTAAATTTATTTTTT
1854056 GGTT
65 GGTT
** * *
1854060 TGATTATACGAGTTTAAATTTTTAAAGTTACTTATTTTTATTTTTAAAAGTTTAAATTTA-TTTT
1 TGATTATACGAGTTTAAAGGTATAAAG-TA-TTATTTTTATTTGTAAAAGTTTAAATTTATTTTT
1854124 T--TT
64 TGGTT
*
1854127 TGATTATATGAGTT
1 TGATTATACGAGTT
1854141 AAAATTTTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
65 4 0.06
66 17 0.25
67 15 0.22
68 1 0.01
69 5 0.07
70 27 0.39
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (68 bp):
TGATTATACGAGTTTAAAGGTATAAAGTATTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTG
GTT
Found at i:1854116 original size:70 final size:67
Alignment explanation
Indices: 1854021--1854177 Score: 197
Period size: 70 Copynumber: 2.2 Consensus size: 67
1854011 AAGGTATAAT
* *
1854021 TTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAGTTTAAATTTTTAAA
1 TTATTTTTATTTGTAAAAGTTTAAATTTA-TTTTT--TTTGATTATACGAGTTAAAATTTTTAAA
1854086 GTTAC
63 GTTAC
* * *
1854091 TTATTTTTATTTTTAAAAGTTTAAATTTATTTTTTTTGATTATATGAGTTAAAATTTTTCTAAGG
1 TTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTTTGATTATACGAGTTAAAA-TTTT-TAAAG
*
1854156 TGTGAT
64 T-T-AC
1854162 TTATTTTTATTTGTAA
1 TTATTTTTATTTGTAA
1854178 GATTAGTTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
67 18 0.24
68 4 0.05
69 10 0.13
70 28 0.37
71 16 0.21
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (67 bp):
TTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTTTGATTATACGAGTTAAAATTTTTAAAGTT
AC
Found at i:1854128 original size:470 final size:461
Alignment explanation
Indices: 1853187--1854176 Score: 1149
Period size: 470 Copynumber: 2.1 Consensus size: 461
1853177 TTTTTGAATA
* **
1853187 TGATTATACGAGTTTAGATTTTATAACATATGATTTATTTTTATTTGTAGAAGTTTTAAAATATT
1 TGATTATACGAGTTTA-ATTTTTTAAGGTATGATTTATTTTTATTTGTAGAAGTTTTAAAATATT
* * * *
1853252 TTTTTGTTTGATTATATGAGTTTAAATTTTTTTTATGTTATAATTTTTTTATTTTAGAAGTTTAA
65 TTTTTGTTTAATTATATAAGTTTAAA-TTTTTTTAAGATATAATTTTTTTATTTTAGAAGTTTAA
** *
1853317 ATTTATTTTTTGAGTTGATTATAGGAGTTTAAATTATTTTAAAGTAAGATTTATTTATTTTTATT
129 ATTTATTTTTTGAGTTGATTATAAAAGTTTAAATTATTTTAAAGT-A-ATTGATTTATTTTTATT
** * *
1853382 TATAAAATTAATTTGATTTTTGTGATATTTTATCGAAATATGACAAAATTTAGTTTGATTGCATT
192 TATAAAATTAATTTGATTTTTGAAATACTTTATCGAAATACGACAAAATTTAGTTTGATTGCATT
* *
1853447 AATGTATTTTTGTTGAAATATTAGGTAACTAGTATTTTAAATAAAAATATATTTCATTTGTAAAA
257 AATGTATTGTTGTTGAAATATTAGGTAACTAGTATTTTAAATAAAAATATATTTCATTTATAAAA
* * * *
1853512 GTGTTTTTTGTATAATTATACGAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTTGTAAAAG
322 ATATTTTTAGTATAATTATACGAGTTT--AA---TCAAAGTATAATTTATTTTTATTTGTAAAAG
* * *
1853577 TTTAAATTTATATTTTGTTTTAATTATACAATTTTAAATTTTTAAAGTATACTTTTTTGAAGAAG
382 TTTAAATTTATATTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGTATACTTTTTTGAAAAAG
1853642 TTTAAATTTATTTTT
447 TTTAAATTTATTTTT
*
1853657 TGTTATAATTATACGAGTTTAATTTTTTAAGGCATGATTTATTTTTATTTGTAGAAG-TTT-AAA
1 TG-----ATTATACGAGTTTAATTTTTTAAGGTATGATTTATTTTTATTTGTAGAAGTTTTAAAA
*
1853720 TTTGTTTTTTGGTTTAATTATATAAGTTTAAA-TTTTTTAAGATA-AGATTTATTTTCATTTGTA
61 TAT-TTTTTT-GTTTAATTATATAAGTTTAAATTTTTTTAAGATATA-ATTT-TTTT-ATTT-TA
* * * * *
1853783 GATA-TTTAAATTTGTTTTTTGGGTTGATTGTAAAAG-TTAAATTTTTTTAAGGT-A-TGATTTA
120 GA-AGTTTAAATTTATTTTTTGAGTTGATTATAAAAGTTTAAATTATTTTAAAGTAATTGATTTA
* * * * *
1853844 TTTTTATTTGTAAGATTAGTTTGATTTTTGAAATACTTTATCTAAATACGATAAAATTTAGTTTG
184 TTTTTATTTATAAAATTAATTTGATTTTTGAAATACTTTATCGAAATACGACAAAATTTAGTTTG
* * * * *
1853909 ATTGCATTAGTGTATTGTTGTTGAAATATTAGGTAATTGGTATTTTAAAT-AAAATATTTTTTAT
249 ATTGCATTAATGTATTGTTGTTGAAATATTAGGTAACTAGTATTTTAAATAAAAATATATTTCAT
* * *
1853973 TTATAAAAATATTTTTAGATATGATTATACGGGTTT-A-CAAGGTATAATTTATTTTTATTTGTA
314 TTATAAAAATATTTTTAG-TATAATTATACGAGTTTAATCAAAGTATAATTTATTTTTATTTGTA
* * * * *
1854036 GAAGTTTAAATTTATTTTTTGGTTTGATTATACGAGTTTAAATTTTTAAAGT-TACTTATTTTTA
378 AAAGTTTAAATTTATATTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGTATACTT-TTTTGA
1854100 TTTTTAAAAGTTTAAATTTATTTTTTT
442 -----AAAAGTTTAAATTTA--TTTTT
* * *
1854127 TGATTATATGAGTTAAAATTTTTCTAAGGTGTGATTTATTTTTATTTGTA
1 TGATTATACGAGTT-TAATTTTT-TAAGGTATGATTTATTTTTATTTGTA
1854177 AGATTAGTTT
Statistics
Matches: 445, Mismatches: 52, Indels: 49
0.82 0.10 0.09
Matches are distributed among these distances:
462 5 0.01
463 75 0.17
465 11 0.02
466 7 0.02
467 25 0.06
468 14 0.03
469 26 0.06
470 132 0.30
471 2 0.00
472 19 0.04
473 13 0.03
474 70 0.16
475 45 0.10
476 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (461 bp):
TGATTATACGAGTTTAATTTTTTAAGGTATGATTTATTTTTATTTGTAGAAGTTTTAAAATATTT
TTTTGTTTAATTATATAAGTTTAAATTTTTTTAAGATATAATTTTTTTATTTTAGAAGTTTAAAT
TTATTTTTTGAGTTGATTATAAAAGTTTAAATTATTTTAAAGTAATTGATTTATTTTTATTTATA
AAATTAATTTGATTTTTGAAATACTTTATCGAAATACGACAAAATTTAGTTTGATTGCATTAATG
TATTGTTGTTGAAATATTAGGTAACTAGTATTTTAAATAAAAATATATTTCATTTATAAAAATAT
TTTTAGTATAATTATACGAGTTTAATCAAAGTATAATTTATTTTTATTTGTAAAAGTTTAAATTT
ATATTTTGGTTTAATTATACAAGTTTAAATTTTTAAAGTATACTTTTTTGAAAAAGTTTAAATTT
ATTTTT
Found at i:1856585 original size:20 final size:20
Alignment explanation
Indices: 1856560--1856617 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
1856550 GTTGAGCGCA
1856560 ATGTATCGATACATTTCATC
1 ATGTATCGATACATTTCATC
*
1856580 ATGTATCGATACAATGTC-TC
1 ATGTATCGATAC-ATTTCATC
1856600 ATGTATCGATACATTTCA
1 ATGTATCGATACATTTCA
1856618 CTTAGAGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
20 26 0.76
21 4 0.12
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTCATC
Found at i:1856682 original size:19 final size:20
Alignment explanation
Indices: 1856642--1856695 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1856632 TACCAGTTTC
*
1856642 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATAGAGT
*
1856662 ATGTATCAATACAA-AGAGT
1 ATGTATCGATACAATAGAGT
1856681 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1856696 GTATCTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATAGAGT
Found at i:1856706 original size:32 final size:33
Alignment explanation
Indices: 1856662--1856726 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
1856652 ACAATTGAGT
1856662 ATGTATCAATACAAAG-AGT-ATGTATCGATACA
1 ATGTATCAATACAAAGCA-TAATGTATCGATACA
* *
1856694 ATGTATCTATACAAAGCATAATGTATCTATACA
1 ATGTATCAATACAAAGCATAATGTATCGATACA
1856727 TCTAGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (33 bp):
ATGTATCAATACAAAGCATAATGTATCGATACA
Found at i:1858356 original size:74 final size:72
Alignment explanation
Indices: 1858197--1858532 Score: 371
Period size: 74 Copynumber: 4.7 Consensus size: 72
1858187 CAAACTAATC
* * * *
1858197 TTACAAATAAAAATAAATCCTAT-CTTAAAAAATTT-AACTTTTATGATCAACCCAAAAAATAAA
1 TTACAAATAAAAATAAAT--TATACTTAAAAAATTTAAACTTATATAATCAAACTAAAAAATAAA
*
1858260 TTTAAAGTT
64 TTTAAACTT
* * * * *
1858269 TTACAAATCAAAATAAATTATATCTTCAAAAAAATTAAACTCATATAATCTAACTAGAAAATAAA
1 TTACAAATAAAAATAAATTATA-CTT-AAAAAATTTAAACTTATATAATCAAACTAAAAAATAAA
1858334 TTTAAACTT
64 TTTAAACTT
* * * *
1858343 CTATAAATAAAAATAAATTATACTTTAAAAAATTTAAACTTGTACAAT-AATACTCAAAAAATAA
1 TTACAAATAAAAATAAATTATAC-TTAAAAAATTTAAACTTATATAATCAA-ACT-AAAAAATAA
1858407 ATTTAAACTT
63 ATTTAAACTT
* * * *
1858417 TTACAAATAAAAATAAGTAATACTTTAAAAATTTAAACTTGTATAATCAAACTAAAAAATAAATT
1 TTACAAATAAAAATAAATTATACTTAAAAAATTTAAACTTATATAATCAAACTAAAAAATAAATT
*
1858482 TAAAATT
66 TAAACTT
*
1858489 TTACAAAT---AA-AAATTATACCTTAAAAAATTTAAACTCATATAAT
1 TTACAAATAAAAATAAATTATA-CTTAAAAAATTTAAACTTATATAAT
1858533 TATACCCTAA
Statistics
Matches: 224, Mismatches: 31, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
68 6 0.03
69 24 0.11
70 3 0.01
72 47 0.21
73 55 0.25
74 89 0.40
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (72 bp):
TTACAAATAAAAATAAATTATACTTAAAAAATTTAAACTTATATAATCAAACTAAAAAATAAATT
TAAACTT
Found at i:1858357 original size:146 final size:146
Alignment explanation
Indices: 1858198--1858556 Score: 396
Period size: 146 Copynumber: 2.5 Consensus size: 146
1858188 AAACTAATCT
* ** *
1858198 TACAAATAAAAATAAATCCTAT-C-TTAAAAAATTT-AACTTTTATGATCA-ACCCAAAAAATAA
1 TACAAATAAAAATAAAT--TATACTTTAAAAAATTTAAACTTGTACAATAATACCCAAAAAATAA
* * * *
1858259 ATTTAAAGTTTTACAAATCAAAATAAATTATATCTTCAAAAAAATTAAACTCATATAATCTAACT
64 ATTTAAACTTTTACAAATAAAAATAAATAATA-CTT-AAAAAAATTAAACTCATATAATCAAACT
* *
1858324 AGAAAATAAATTTAAACTTC
127 AAAAAATAAATTTAAAATTC
* *
1858344 TATAAATAAAAATAAATTATACTTTAAAAAATTTAAACTTGTACAATAATACTCAAAAAATAAAT
1 TACAAATAAAAATAAATTATACTTTAAAAAATTTAAACTTGTACAATAATACCCAAAAAATAAAT
* * * **
1858409 TTAAACTTTTACAAATAAAAATAAGTAATACTTTAAAAATTTAAACTTGTATAATCAAACTAAAA
66 TTAAACTTTTACAAATAAAAATAAATAATACTTAAAAAAATTAAACTCATATAATCAAACTAAAA
*
1858474 AATAAATTTAAAATTT
131 AATAAATTTAAAATTC
* ** * * *
1858490 TACAAAT---AA-AAATTATACCTTAAAAAATTTAAACTCATATAATTATACCC--TAAATAAAT
1 TACAAATAAAAATAAATTATACTTTAAAAAATTTAAACTTGTACAATAATACCCAAAAAATAAAT
1858549 TTAAACTT
66 TTAAACTT
1858557 GAAATAATAA
Statistics
Matches: 183, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
140 16 0.09
142 35 0.19
143 2 0.01
144 3 0.02
145 1 0.01
146 73 0.40
147 13 0.07
148 40 0.22
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (146 bp):
TACAAATAAAAATAAATTATACTTTAAAAAATTTAAACTTGTACAATAATACCCAAAAAATAAAT
TTAAACTTTTACAAATAAAAATAAATAATACTTAAAAAAATTAAACTCATATAATCAAACTAAAA
AATAAATTTAAAATTC
Found at i:1858618 original size:14 final size:14
Alignment explanation
Indices: 1858601--1858635 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1858591 ACATACTTTT
**
1858601 AAAAATATTTATTA
1 AAAAATATAAATTA
1858615 AAAAATATAAATTA
1 AAAAATATAAATTA
1858629 AAAAATA
1 AAAAATA
1858636 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATATAAATTA
Found at i:1861416 original size:22 final size:20
Alignment explanation
Indices: 1861381--1861424 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
1861371 ATATATAATC
1861381 ATTTATTTAAAAATGTATCAAA
1 ATTTATTTAAAAAT-T-TCAAA
**
1861403 ATTTATTTTCAAATTTCAAA
1 ATTTATTTAAAAATTTCAAA
1861423 AT
1 AT
1861425 ACCTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTATTTAAAAATTTCAAA
Found at i:1861597 original size:30 final size:31
Alignment explanation
Indices: 1861511--1861608 Score: 103
Period size: 30 Copynumber: 3.2 Consensus size: 31
1861501 TATTCTCTTA
* * *
1861511 TTATAATC-AAATAAATCATTAATCTTTAAT
1 TTATATTCAAAATAAAACTTTAATCTTTAAT
1861541 TTATATTCAAAATAAAACTTTAAATCTTTAAT
1 TTATATTCAAAATAAAACTTT-AATCTTTAAT
* **
1861573 TTGTA-TCAAAAT-AAACTTGTAATCTCAAAT
1 TTATATTCAAAATAAAACTT-TAATCTTTAAT
1861603 TTATAT
1 TTATAT
1861609 CTTTACATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
30 25 0.44
31 18 0.32
32 14 0.25
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (31 bp):
TTATATTCAAAATAAAACTTTAATCTTTAAT
Found at i:1865083 original size:21 final size:20
Alignment explanation
Indices: 1865055--1865098 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
1865045 TAAAGTTTAT
*
1865055 AAAAAAAT-TATTAAACATAA
1 AAAAAAATAAATTAAA-ATAA
1865075 AAAATAAATAAATTAAAATAA
1 AAAA-AAATAAATTAAAATAA
1865096 AAA
1 AAA
1865099 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAATAAATTAAAATAA
Found at i:1865204 original size:28 final size:25
Alignment explanation
Indices: 1865192--1865351 Score: 107
Period size: 25 Copynumber: 6.8 Consensus size: 25
1865182 TCACGTATGC
1865192 ATTTTCATTTCATGCATTTCACATA
1 ATTTTCATTTCATGCATTTCACATA
*
1865217 ATTTTCTTTTCATGCATTT--C---
1 ATTTTCATTTCATGCATTTCACATA
*
1865237 A-TTTCA-TGCATGCATTT--CATA
1 ATTTTCATTTCATGCATTTCACATA
* * *
1865258 A---ACATTTCAAGC--TTCATGCATGC
1 ATTTTCATTTCATGCATTTCA--CAT-A
1865281 ATTTTCATTTCATGCATTTCACATA
1 ATTTTCATTTCATGCATTTCACATA
** *
1865306 ACAATTCA-TGCATGCATTTCACATA
1 A-TTTTCATTTCATGCATTTCACATA
1865331 ATTTTCATTTCATGCATTTCA
1 ATTTTCATTTCATGCATTTCA
1865352 TTTCATGCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
18 13 0.13
19 6 0.06
20 6 0.06
21 1 0.01
22 3 0.03
23 2 0.02
24 4 0.04
25 48 0.47
26 16 0.16
28 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (25 bp):
ATTTTCATTTCATGCATTTCACATA
Found at i:1865364 original size:43 final size:44
Alignment explanation
Indices: 1865310--1865414 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 44
1865300 CACATAACAA
* * * *
1865310 TTCATGCATGCATTTCACATAA-TTTTCATTTCA-TGCATTTCAT
1 TTCATGCATGCATTTCA-AAAACATTTCATTGCATTGCATTGCAT
1865353 TTCATGCATGCATTTCAAAAACATTTCATTGCATTGCATTGCAT
1 TTCATGCATGCATTTCAAAAACATTTCATTGCATTGCATTGCAT
1865397 TTCATTGCATTGC-TTTCA
1 TTCA-TGCA-TGCATTTCA
1865415 TGTACGAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
42 3 0.06
43 26 0.48
44 13 0.24
45 9 0.17
46 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (44 bp):
TTCATGCATGCATTTCAAAAACATTTCATTGCATTGCATTGCAT
Found at i:1865387 original size:5 final size:5
Alignment explanation
Indices: 1865374--1865409 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
1865364 ATTTCAAAAA
* *
1865374 CATTT CATTG CATTG CATTG CATTT CATTG CATTG C
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG C
1865410 TTTCATGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (5 bp):
CATTG
Found at i:1866101 original size:124 final size:124
Alignment explanation
Indices: 1865873--1866114 Score: 340
Period size: 124 Copynumber: 2.0 Consensus size: 124
1865863 CAAGCACGGT
* * * *
1865873 AGCAACGAAAAGGCAGCATCCACGATCAAAAACTAGCTTCCAGCAGCATCCACGATCACAGATAG
1 AGCAACAAAAAGGCAGCATCCACGATAAAAAACCAGCTTCCAGCAGCATCCACGATCACAGACAG
* * * * *
1865938 CTTTCAGCAAGCAGCCCACAAGGTCCAGCAACTTTCTGCATCCATCCTAGCTCACGGGC
66 CTTCCAGCAAGCAACCCACAAGCTCCAGCAACTTCCTGCATCCACCCTAGCTCACGGGC
* * * *
1865997 AGCAACAAAAAGGCAGCATCCATGATAAAAAACCAGCTTCTAGTAGCATCCACGATCACGGACAG
1 AGCAACAAAAAGGCAGCATCCACGATAAAAAACCAGCTTCCAGCAGCATCCACGATCACAGACAG
* * *
1866062 CTTCCAGCAAGTAACCCACAAGCTCCAGCAGCTTCCTGCATCTACCCTAGCTC
66 CTTCCAGCAAGCAACCCACAAGCTCCAGCAACTTCCTGCATCCACCCTAGCTC
1866115 GCAGACAGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
124 102 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (124 bp):
AGCAACAAAAAGGCAGCATCCACGATAAAAAACCAGCTTCCAGCAGCATCCACGATCACAGACAG
CTTCCAGCAAGCAACCCACAAGCTCCAGCAACTTCCTGCATCCACCCTAGCTCACGGGC
Found at i:1866569 original size:5 final size:6
Alignment explanation
Indices: 1866554--1866583 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
1866544 AAATGTTTAA
1866554 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
1866584 CTTTGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:1866576 original size:13 final size:12
Alignment explanation
Indices: 1866554--1866583 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
1866544 AAATGTTTAA
1866554 AAAAATAAAAAT
1 AAAAATAAAAAT
1866566 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
1866579 AAAAA
1 AAAAA
1866584 CTTTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:1867231 original size:16 final size:16
Alignment explanation
Indices: 1867212--1867243 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1867202 ATAAAATTAA
*
1867212 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
1867228 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
1867244 TCATCTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:1868073 original size:11 final size:11
Alignment explanation
Indices: 1868057--1868100 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
1868047 TAAAATGTGG
1868057 AGTTTGACTTT
1 AGTTTGACTTT
1868068 AGTTTGACTTT
1 AGTTTGACTTT
1868079 AGTTTGACTATT
1 AGTTTGACT-TT
*
1868091 -GTTTTACTTT
1 AGTTTGACTTT
1868101 GGCTTAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 2 0.06
11 27 0.87
12 2 0.06
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (11 bp):
AGTTTGACTTT
Found at i:1870114 original size:32 final size:32
Alignment explanation
Indices: 1870011--1870116 Score: 92
Period size: 32 Copynumber: 3.4 Consensus size: 32
1870001 CCTTTTGAGC
* * * *
1870011 AGGTTAAGAATGGAACTTGTTTCCTTCGAAAA
1 AGGTTAAGAGTCGAACTTGTTTCTTTCTAAAA
* * * *
1870043 AGGTGAAGAGTC-AA-TTTTTTTTTTCTAAGCA
1 AGGTTAAGAGTCGAACTTGTTTCTTTCTAA-AA
* *
1870074 A-GTCAAGAGTCGAACTTGTTTCTTTCTAAAT
1 AGGTTAAGAGTCGAACTTGTTTCTTTCTAAAA
1870105 AGGTTAAGAGTC
1 AGGTTAAGAGTC
1870117 AAATTAAAGG
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
30 19 0.34
31 7 0.12
32 30 0.54
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (32 bp):
AGGTTAAGAGTCGAACTTGTTTCTTTCTAAAA
Found at i:1872255 original size:13 final size:13
Alignment explanation
Indices: 1872237--1872262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1872227 CAATTTTTTG
1872237 TGTATCGATACAT
1 TGTATCGATACAT
1872250 TGTATCGATACAT
1 TGTATCGATACAT
1872263 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1874800 original size:13 final size:13
Alignment explanation
Indices: 1874782--1874846 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
1874772 ATAATCACCC
*
1874782 TGTATCGATACAG
1 TGTATCGATACAA
1874795 TGTATCGATACAA
1 TGTATCGATACAA
*
1874808 TGTATCGATACAG
1 TGTATCGATACAA
1874821 TGTATCGATACAA
1 TGTATCGATACAA
1874834 TGTATCGATACAA
1 TGTATCGATACAA
1874847 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1874818 original size:26 final size:26
Alignment explanation
Indices: 1874782--1874845 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
1874772 ATAATCACCC
1874782 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1874808 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1874834 TGTATCGATACA
1 TGTATCGATACA
1874846 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:1874857 original size:20 final size:20
Alignment explanation
Indices: 1874832--1874910 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1874822 GTATCGATAC
1874832 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1874852 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1874877 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1874897 CATGTATCGATACA
1 AATGTATCGATACA
1874911 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1876945 original size:15 final size:15
Alignment explanation
Indices: 1876925--1876955 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1876915 ATTTCGTTTG
*
1876925 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1876940 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1876955 G
1 G
1876956 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1878787 original size:21 final size:21
Alignment explanation
Indices: 1878758--1878802 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1878748 AAGTTTTCAT
*
1878758 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1878778 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1878800 TTT
1 TTT
1878803 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1881039 original size:13 final size:13
Alignment explanation
Indices: 1881021--1881046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1881011 CAATTTTTTG
1881021 TGTATCGATACAT
1 TGTATCGATACAT
1881034 TGTATCGATACAT
1 TGTATCGATACAT
1881047 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1882080 original size:92 final size:92
Alignment explanation
Indices: 1881966--1882141 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
1881956 TAAAACCGAG
* * ** * *
1881966 TTTTTTCTGCAAAAAATGATAAAATCAG-GTTTTTTAAGGTTAGTTTTCTTCTTTTTGTCAAACC
1 TTTTTTATACAAAAAATGATAAAA-CAGAGTTTTTTAAAATTAGTTTTCTTCTTTCTATCAAACC
* *
1882030 AACCAAAATTGAGTCTTTTATAGTGAGT
65 AACCAAAATCGAATCTTTTATAGTGAGT
* * *
1882058 TTTTTTATACAAATAATGATAAAACTGAGTTTTTTAAAATTAGTTTTGTTCTTTCTATCAAACCA
1 TTTTTTATACAAAAAATGATAAAACAGAGTTTTTTAAAATTAGTTTTCTTCTTTCTATCAAACCA
*
1882123 ATCAAAATCGAATCTTTTA
66 ACCAAAATCGAATCTTTTA
1882142 CTATTAAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 2 0.03
92 69 0.97
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (92 bp):
TTTTTTATACAAAAAATGATAAAACAGAGTTTTTTAAAATTAGTTTTCTTCTTTCTATCAAACCA
ACCAAAATCGAATCTTTTATAGTGAGT
Found at i:1885242 original size:18 final size:18
Alignment explanation
Indices: 1885221--1885272 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
1885211 ATTATTAATT
*
1885221 TTAATTTTATTATAATAC
1 TTAATTTTATTATAATAA
1885239 TTAATTTCGTATCTATAATAA
1 TTAATTT--TAT-TATAATAA
1885260 TTAATTTTATTAT
1 TTAATTTTATTAT
1885273 TATTATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.33
19 3 0.10
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (18 bp):
TTAATTTTATTATAATAA
Found at i:1885243 original size:31 final size:31
Alignment explanation
Indices: 1885181--1885244 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
1885171 TTTATTATCG
*
1885181 TTATTATATTTAAATTTAAATAAATATTTAA
1 TTATTATATTTAAATTTAAATAAATACTTAA
* * *
1885212 TTATTA-ATTTTAATTTTATTATAATACTTAA
1 TTATTATATTTAAATTTAAATA-AATACTTAA
1885243 TT
1 TT
1885245 TCGTATCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
TTATTATATTTAAATTTAAATAAATACTTAA
Found at i:1885621 original size:18 final size:18
Alignment explanation
Indices: 1885600--1885652 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
1885590 ATAAAATATA
1885600 AAATTAATTTAATCAATT
1 AAATTAATTTAATCAATT
1885618 AAATTAATTTAATTATCAATT
1 AAATTAATTT-A--ATCAATT
1885639 AAA--AATTTAATCAA
1 AAATTAATTTAATCAA
1885653 ATATTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.16
18 11 0.34
19 6 0.19
21 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAATTTAATCAATT
Found at i:1885647 original size:19 final size:20
Alignment explanation
Indices: 1885611--1885649 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1885601 AATTAATTTA
1885611 ATCAATTAAATTAATTTAATT
1 ATCAATTAAA-TAATTTAATT
1885632 ATCAATTAAA-AATTTAAT
1 ATCAATTAAATAATTTAAT
1885650 CAAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
ATCAATTAAATAATTTAATT
Found at i:1885884 original size:20 final size:21
Alignment explanation
Indices: 1885859--1885900 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1885849 TATTATATTT
1885859 AATA-TTAAAATTATT-TTTAA
1 AATATTTAAAATT-TTATTTAA
1885879 AATATTTAAAATTTTATTTAA
1 AATATTTAAAATTTTATTTAA
1885900 A
1 A
1885901 TAAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTAAAATTTTATTTAA
Found at i:1885901 original size:20 final size:20
Alignment explanation
Indices: 1885848--1885902 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
1885838 TATTAATTAT
*
1885848 TTATTATATTTAATATTAAAA
1 TTATTAT-TTAAATATTAAAA
1885869 TTATT-TTTAAAATATTTAAAA
1 TTATTATTT-AAATA-TTAAAA
1885890 TT-TTATTTAAATA
1 TTATTATTTAAATA
1885903 AATAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTATTTAAATATTAAAA
Found at i:1886207 original size:17 final size:17
Alignment explanation
Indices: 1886134--1886246 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
1886124 ATTAATTTAT
1886134 TTTTTAATATAAAATATAA
1 TTTTTAATAT-AAATAT-A
*
1886153 TTCTTAA-A-AAAT-TA
1 TTTTTAATATAAATATA
* *
1886167 TTTCTTAATTTAATTA-A
1 TTT-TTAATATAAATATA
1886184 TTATTTAATATAAATATA
1 TT-TTTAATATAAATATA
* * *
1886202 TTTTTAATACATATTTTA
1 TTTTTAATATA-AATATA
*
1886220 TCATTTAATATAAATATA
1 T-TTTTAATATAAATATA
*
1886238 ATTTTAATA
1 TTTTTAATA
1886247 ATTTTTATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
14 3 0.04
15 5 0.07
16 4 0.06
17 31 0.44
18 14 0.20
19 14 0.20
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTAATATAAATATA
Found at i:1886226 original size:36 final size:34
Alignment explanation
Indices: 1886186--1886284 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 34
1886176 TTAATTAATT
*
1886186 ATTTAATATAAATATATTTTTAATACATATTTTATC
1 ATTTAATATAAATATAATTTTAATA-AT-TTTTATC
1886222 ATTTAATATAAATATAATTTTAATAATTTTTAT-
1 ATTTAATATAAATATAATTTTAATAATTTTTATC
* *
1886255 -TTATTATATATAATTTAA-TTTAATAATTTT
1 ATT-TAATATA-AATATAATTTTAATAATTTT
1886285 AATAATTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
32 2 0.03
33 18 0.31
34 12 0.21
35 2 0.03
36 24 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (34 bp):
ATTTAATATAAATATAATTTTAATAATTTTTATC
Found at i:1886264 original size:33 final size:32
Alignment explanation
Indices: 1886184--1886284 Score: 100
Period size: 33 Copynumber: 3.0 Consensus size: 32
1886174 ATTTAATTAA
*
1886184 TTATTTA-ATATAAATATATTTTTAATACATATT
1 TTATTTATATATAAATATAATTTTAATA-AT-TT
1886217 TTATCATT-TAATATAAATATAATTTTAATAATTT
1 TTAT--TTAT-ATATAAATATAATTTTAATAATTT
*
1886251 TTATTTATTATATATAATTTAA-TTTAATAATTT
1 TTATTTA-TATATA-AATATAATTTTAATAATTT
1886284 T
1 T
1886285 AATAATTATT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
32 2 0.03
33 21 0.36
34 13 0.22
35 4 0.07
36 19 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (32 bp):
TTATTTATATATAAATATAATTTTAATAATTT
Found at i:1886301 original size:17 final size:17
Alignment explanation
Indices: 1886281--1886388 Score: 53
Period size: 17 Copynumber: 6.3 Consensus size: 17
1886271 AATTTAATAA
1886281 TTTTAATAATTATTAAT
1 TTTTAATAATTATTAAT
* *
1886298 TTTTAATAA-AATTTAT
1 TTTTAATAATTATTAAT
* * *
1886314 TTTGTTATTATCATTATAT
1 TTT-TAATAATTATTA-AT
* * * *
1886333 TTATATTTAAATATATATT
1 TTTTA-ATAATTAT-TAAT
1886352 TTATTAATAATT-TTAA-
1 TT-TTAATAATTATTAAT
*
1886368 TTTT-ATTATTATTAAT
1 TTTTAATAATTATTAAT
1886384 TTTTA
1 TTTTA
1886389 TTTTTTTTGT
Statistics
Matches: 64, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
14 5 0.08
15 6 0.09
16 14 0.22
17 15 0.23
18 5 0.08
19 15 0.23
20 4 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTTAATAATTATTAAT
Found at i:1886422 original size:78 final size:82
Alignment explanation
Indices: 1886247--1886423 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 82
1886237 AATTTTAATA
* *
1886247 ATTTTTATTTATTATATATAATTTAATTTAATAATTTTAATAATTATTAATTTTTAATAAAATTT
1 ATTTTTATTTA-AATATATAATTTAATTTAATAATTTTAATAATTATTAATTATTAATAAAATTT
*
1886312 ATTTTGTTATTATCATTAT
65 ATTTTGTAATTA-CATTAT
* * * ***
1886331 ATTTATATTTAAATATAT-ATTTTA-TTAATAATTTTAAT-TTTATT-ATTATTAATTTTTATTT
1 ATTTTTATTTAAATATATAATTTAATTTAATAATTTTAATAATTATTAATTATTAA-TAAAATTT
* *
1886392 TTTTTGTAATTA-ATTTT
65 ATTTTGTAATTACATTAT
1886409 ATTTTTATTTAAATA
1 ATTTTTATTTAAATA
1886424 AATTTATTTC
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 18 0.22
79 7 0.09
80 20 0.25
81 14 0.17
82 5 0.06
83 6 0.08
84 10 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (82 bp):
ATTTTTATTTAAATATATAATTTAATTTAATAATTTTAATAATTATTAATTATTAATAAAATTTA
TTTTGTAATTACATTAT
Found at i:1886427 original size:21 final size:21
Alignment explanation
Indices: 1886355--1886432 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
1886345 ATATATTTTA
*
1886355 TTAAT-AATTTTAATTTTATT
1 TTAATAAATTTTATTTTTATT
* *
1886375 ATTATTAATTTTTATTTTT-TT
1 -TTAATAAATTTTATTTTTATT
*
1886396 TGTAATTAATTTTATTTTTATT
1 T-TAATAAATTTTATTTTTATT
*
1886418 TAAATAAA-TTTATTT
1 TTAATAAATTTTATTT
1886433 CAATATGTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
20 8 0.17
21 25 0.54
22 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (21 bp):
TTAATAAATTTTATTTTTATT
Found at i:1886429 original size:20 final size:21
Alignment explanation
Indices: 1886385--1886432 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1886375 ATTATTAATT
* * *
1886385 TTTATTTTTTTTGTAATTAAT
1 TTTATTTTTATTGTAAATAAA
1886406 TTTATTTTTATT-TAAATAAA
1 TTTATTTTTATTGTAAATAAA
1886426 TTTATTT
1 TTTATTT
1886433 CAATATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATTTTTATTGTAAATAAA
Found at i:1887286 original size:2 final size:2
Alignment explanation
Indices: 1887279--1887307 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1887269 TTTGTATTTC
1887279 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
1887308 TAAAGATAGA
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:1887610 original size:17 final size:17
Alignment explanation
Indices: 1887590--1887635 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1887580 ATATTAAATT
1887590 TAAAAAATAAATTTAGA
1 TAAAAAATAAATTTAGA
* * *
1887607 TAAAATATTAATTTTATA
1 TAAAA-AATAAATTTAGA
1887625 TAAAAAATAAA
1 TAAAAAATAAA
1887636 GTAAAGCTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAAATAAATTTAGA
Found at i:1887753 original size:20 final size:20
Alignment explanation
Indices: 1887730--1887769 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1887720 TATATATTTG
*
1887730 TATTATATAAAGAATAAATA
1 TATTATATAAAAAATAAATA
1887750 TATTATATAAAAAATAAATA
1 TATTATATAAAAAATAAATA
1887770 AATATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATTATATAAAAAATAAATA
Found at i:1888040 original size:11 final size:11
Alignment explanation
Indices: 1887978--1888053 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
1887968 AAATTTCTAT
*
1887978 TTTAACTTAAA
1 TTTAATTTAAA
1887989 TTATAATTTAAA
1 TT-TAATTTAAA
* *
1888001 -TAAATATAAA
1 TTTAATTTAAA
1888011 --TAATATT-AA
1 TTTAAT-TTAAA
1888020 TATTATATTTAAA
1 T-TTA-ATTTAAA
1888033 TTTAATTTAAA
1 TTTAATTTAAA
*
1888044 GTTAATTTAA
1 TTTAATTTAA
1888054 TTAAACCGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
9 5 0.10
10 8 0.15
11 19 0.37
12 15 0.29
13 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:1894493 original size:2 final size:2
Alignment explanation
Indices: 1894486--1894533 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1894476 AGACACAAAC
1894486 AT AT AT AT AT AT 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 AT AT AT AT AT AT
1894528 AT AT AT
1 AT AT AT
1894534 TGCTTTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1901424 original size:139 final size:140
Alignment explanation
Indices: 1901252--1901533 Score: 467
Period size: 139 Copynumber: 2.0 Consensus size: 140
1901242 TATTTTTTCA
* * * * * *
1901252 TTTTCAGATAAAATATAACTTCTCTATTTGTTGATAAATTTATCACTTATACTAAGTGCTGATTT
1 TTTTCAGATAAAAAATAACTTCTCTATTCGTTGATAAATCTATCACCTATACTAAATGCTAATTT
*
1901317 TGATATAATTGTAATGATCAGAATGCTTAGCACATCCTTTGCTATTTGTGAAAGGAAAGGATATC
66 TGATATAATTGTAATGATCAGAATACTTAGCACATCCTTTGCTATTTGTGAAAGGAAAGGATATC
1901382 GAAATTCATT
131 GAAATTCATT
*
1901392 TTTTC-GATAAAAAATAACTTTTCTATTCGTTGATAAATCTATCACCTATACTAAATGCTAATTT
1 TTTTCAGATAAAAAATAACTTCTCTATTCGTTGATAAATCTATCACCTATACTAAATGCTAATTT
* *
1901456 TGATATAATTGTAATGATCAGAATACTTAGCACATCCTTTTCTATTTGTGAAAGGAGAGGATATC
66 TGATATAATTGTAATGATCAGAATACTTAGCACATCCTTTGCTATTTGTGAAAGGAAAGGATATC
1901521 GAAATTCATT
131 GAAATTCATT
1901531 TTT
1 TTT
1901534 CCAATAATCA
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
139 127 0.96
140 5 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (140 bp):
TTTTCAGATAAAAAATAACTTCTCTATTCGTTGATAAATCTATCACCTATACTAAATGCTAATTT
TGATATAATTGTAATGATCAGAATACTTAGCACATCCTTTGCTATTTGTGAAAGGAAAGGATATC
GAAATTCATT
Found at i:1903545 original size:2 final size:2
Alignment explanation
Indices: 1903538--1903564 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1903528 CCTATAATTA
1903538 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
1903565 CACACACACA
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:1904759 original size:44 final size:47
Alignment explanation
Indices: 1904711--1904803 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 47
1904701 TATCAATATG
*
1904711 ATTAATTTTTA-ATAT-ATA-ATATTGTAAT-AATAAAT-TATTTAAAA
1 ATTAA-TTTTACATATAATATAGATTGTAATAAATAAATATA-TTAAAA
*
1904755 ATTAATTTTACATATAATATAGATTTTAATAAATAAATATATTAAAA
1 ATTAATTTTACATATAATATAGATTGTAATAAATAAATATATTAAAA
1904802 AT
1 AT
1904804 AACATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
43 5 0.12
44 9 0.21
45 3 0.07
46 8 0.19
47 15 0.36
48 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (47 bp):
ATTAATTTTACATATAATATAGATTGTAATAAATAAATATATTAAAA
Found at i:1904844 original size:29 final size:29
Alignment explanation
Indices: 1904779--1904844 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
1904769 TAATATAGAT
*
1904779 TTTAATAAATAAATATATTAAAAATAACA
1 TTTAATAAATAAATATATTAAAAATAAAA
*
1904808 TATT-ATAAA-AAATTTACTT-AAAATAATAA
1 T-TTAATAAATAAATATA-TTAAAAATAA-AA
1904837 TTTAATAA
1 TTTAATAA
1904845 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
28 15 0.48
29 14 0.45
30 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTAATAAATAAATATATTAAAAATAAAA
Found at i:1908907 original size:13 final size:13
Alignment explanation
Indices: 1908889--1908914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1908879 AAAAATTTTG
1908889 ATGTATCGATACA
1 ATGTATCGATACA
1908902 ATGTATCGATACA
1 ATGTATCGATACA
1908915 TATTTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1918263 original size:13 final size:13
Alignment explanation
Indices: 1918245--1918271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1918235 ACATACTACT
1918245 TTGTATCGATACA
1 TTGTATCGATACA
1918258 TTGTATCGATACA
1 TTGTATCGATACA
1918271 T
1 T
1918272 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1918302 original size:21 final size:19
Alignment explanation
Indices: 1918255--1918312 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1918245 TTGTATCGAT
*
1918255 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1918274 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1918293 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
1918313 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1918367 original size:20 final size:20
Alignment explanation
Indices: 1918342--1918394 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1918332 TATCATTATT
** *
1918342 TGTATCGATACATGGTACAA
1 TGTATCGATACATGAAAAAA
1918362 TGTATCGATACATGAAAAAA
1 TGTATCGATACATGAAAAAA
1918382 TGTATCGATACAT
1 TGTATCGATACAT
1918395 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:1924534 original size:13 final size:13
Alignment explanation
Indices: 1924516--1924544 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1924506 ACAACATTCC
1924516 TTGTATCGATACA
1 TTGTATCGATACA
1924529 TTGTATCGATACA
1 TTGTATCGATACA
1924542 TTG
1 TTG
1924545 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1926426 original size:18 final size:19
Alignment explanation
Indices: 1926393--1926428 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1926383 AAATTTTTAT
*
1926393 ATATAAAAAGGGGGAGAAG
1 ATATAAAAAGGAGGAGAAG
1926412 ATATAAAAA-GAGGAGAA
1 ATATAAAAAGGAGGAGAA
1926429 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.11
Consensus pattern (19 bp):
ATATAAAAAGGAGGAGAAG
Found at i:1926440 original size:18 final size:18
Alignment explanation
Indices: 1926418--1926470 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
1926408 GAAGATATAA
1926418 AAAGAGGAGAATTTTTTT
1 AAAGAGGAGAATTTTTTT
* * **
1926436 TAAGAGGAGATAATCGTTT
1 AAAGAGGAGA-ATTTTTTT
1926455 AAAGAGGAGAATTTTT
1 AAAGAGGAGAATTTTT
1926471 AAGGGGAGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (18 bp):
AAAGAGGAGAATTTTTTT
Found at i:1927057 original size:32 final size:33
Alignment explanation
Indices: 1926997--1927061 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1926987 CACACCCAGA
* *
1926997 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCAATACATGCTGCATTGTATCGATACAT
*
1927030 TGTATCAATACATG-TTCATTGTATCGATACAT
1 TGTATCAATACATGCTGCATTGTATCGATACAT
1927062 GGACAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATGCTGCATTGTATCGATACAT
Found at i:1927157 original size:33 final size:33
Alignment explanation
Indices: 1927113--1927177 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1927103 TATCACTATT
* *
1927113 TGTATCGATACATGGTA-AAATGTATCGATACAG
1 TGTATCAATACAT-GAAGAAATGTATCGATACAG
1927146 TGTATCAATACATGAAGAAATGTATCGATACA
1 TGTATCAATACATGAAGAAATGTATCGATACA
1927178 TAGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (33 bp):
TGTATCAATACATGAAGAAATGTATCGATACAG
Found at i:1933303 original size:19 final size:16
Alignment explanation
Indices: 1933260--1933292 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1933250 TAAATTTAAT
1933260 TATTA-ATTATTAAAA
1 TATTATATTATTAAAA
1933275 TATTATATTATTAAAA
1 TATTATATTATTAAAA
1933291 TA
1 TA
1933293 ATTTCATATT
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:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTATATTATTAAAA
Found at i:1933514 original size:18 final size:17
Alignment explanation
Indices: 1933474--1933516 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1933464 CTTATTATTT
*
1933474 TAATATTTTTAAAATTA
1 TAATATTTTTAAAATAA
*
1933491 -AATATTTTTATTAATAA
1 TAATATTTTTA-AAATAA
1933508 TAATATTTT
1 TAATATTTT
1933517 ATCCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTTTTAAAATAA
Found at i:1933675 original size:19 final size:21
Alignment explanation
Indices: 1933629--1933680 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
1933619 GAAAAAAGTT
*
1933629 TTATTTTTTATTGATCAGTAAA
1 TTATTTTTCATTGATCAG-AAA
*
1933651 TAATTTTTCATTGAT-A-AAA
1 TTATTTTTCATTGATCAGAAA
1933670 TTATTTTTCAT
1 TTATTTTTCAT
1933681 GAAATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
21 1 0.04
22 13 0.48
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (21 bp):
TTATTTTTCATTGATCAGAAA
Found at i:1933689 original size:19 final size:20
Alignment explanation
Indices: 1933647--1933690 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1933637 TATTGATCAG
*
1933647 TAAATAATTTTTCATTGATA
1 TAAATAATTTTTCATTGAAA
*
1933667 -AAATTATTTTTCA-TGAAA
1 TAAATAATTTTTCATTGAAA
1933685 TAAATA
1 TAAATA
1933691 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAATAATTTTTCATTGAAA
Found at i:1933692 original size:18 final size:20
Alignment explanation
Indices: 1933630--1933692 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 20
1933620 AAAAAAGTTT
* *
1933630 TATTTTTTATTGATCAGTAAA
1 TATTTTTCATTGAT-AATAAA
*
1933651 TAATTTTTCATTGATAA-AAT
1 T-ATTTTTCATTGATAATAAA
1933671 TATTTTTCA-TGA-AATAAA
1 TATTTTTCATTGATAATAAA
1933689 TATT
1 TATT
1933693 AAAAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 2 0.06
18 9 0.25
19 8 0.22
20 3 0.08
21 2 0.06
22 12 0.33
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (20 bp):
TATTTTTCATTGATAATAAA
Found at i:1935916 original size:17 final size:17
Alignment explanation
Indices: 1935896--1935933 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1935886 TAATAATTTT
*
1935896 AATTAATTTTTAATAAA
1 AATTAATTTTAAATAAA
*
1935913 AATTAATTTTAAATTAA
1 AATTAATTTTAAATAAA
1935930 AATT
1 AATT
1935934 GATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAATTTTAAATAAA
Found at i:1936385 original size:7 final size:8
Alignment explanation
Indices: 1936368--1936392 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1936358 TATATTATTT
1936368 AAAAATAA
1 AAAAATAA
1936376 AAAAATAA
1 AAAAATAA
1936384 AAAAATAA
1 AAAAATAA
1936392 A
1 A
1936393 TTAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:1937564 original size:25 final size:25
Alignment explanation
Indices: 1937525--1937584 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
1937515 AAAGATATTG
*
1937525 ATAAATA-ATTTTTTTAAAAATTTA
1 ATAAATATATTATTTTAAAAATTTA
* **
1937549 ATTAATATATTATTTTTTAAATTTA
1 ATAAATATATTATTTTAAAAATTTA
1937574 ATAAGATATAT
1 ATAA-ATATAT
1937585 AAAAACTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 6 0.21
25 17 0.59
26 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAAATATATTATTTTAAAAATTTA
Found at i:1937737 original size:36 final size:37
Alignment explanation
Indices: 1937655--1937737 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 37
1937645 CCGATTTTTG
* *
1937655 TTATTTTTTTGGAGTAATGGACAGCTTGGCAAAAGAA
1 TTATTTTTTTGGAATAATGGAAAGCTTGGCAAAAGAA
* * * *
1937692 TTATATTTTTGGAATAAT-GAAAGCTTGGGAAATGAG
1 TTATTTTTTTGGAATAATGGAAAGCTTGGCAAAAGAA
*
1937728 TTTTTTTTTT
1 TTATTTTTTT
1937738 TTGGGTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 22 0.58
37 16 0.42
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (37 bp):
TTATTTTTTTGGAATAATGGAAAGCTTGGCAAAAGAA
Found at i:1937881 original size:15 final size:15
Alignment explanation
Indices: 1937833--1937886 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
1937823 AATTAATTAA
1937833 TTAA-ATTTATAT-T
1 TTAATATTTATATAT
*
1937846 TTAATTTTTAT-TACT
1 TTAATATTTATATA-T
1937861 TTAATATTTATATAT
1 TTAATATTTATATAT
* *
1937876 TAAATAATTAT
1 TTAATATTTAT
1937887 GTTACACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 21 0.64
16 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTATATAT
Found at i:1938465 original size:6 final size:6
Alignment explanation
Indices: 1938422--1938454 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1938412 GTGTTTTATT
1938422 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1938455 TAAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:1941149 original size:241 final size:243
Alignment explanation
Indices: 1940719--1941154 Score: 585
Period size: 241 Copynumber: 1.8 Consensus size: 243
1940709 GTAATGCTTG
* * * *
1940719 TACTTGATAGACTTCAGAGAAATTTGGAATATTACAGCTTCTATACTATTTCTGAAACATCTTAG
1 TACTTGATAGACTTCAAAGAAACTTGGAATATTACAGCTTCTATACTATTTCTGAAAAATCTGAG
* * *
1940784 ATGCCAAGTTTCTTGGAGTTTAGAAGATGAACTCTTATAATGTGGTCATTAACTAAAACTATTGC
66 ATGCAAAGTTACTAGGAGTTTAGAAGATGAACTCTTATAATGTGGTCATTAACTAAAACTATTGC
* * * * * *
1940849 CTATATGGGTTTTCAAATGGGTGAAGTGCATGCTCTCCAATCTCCGTACAGCTCAAGAAATTGCA
131 CTACATGGGATTTAAAATGGGTGAAGTGCATGCTCTCCAATCTCCATACAGCACAAGAAACTGCA
1940914 AAAAATAATATAAAAAATTCCCTGCCTTCTTTGAATAATGCTTAATGC
196 AAAAATAATATAAAAAATTCCCTGCCTTCTTTGAATAATGCTTAATGC
* * *
1940962 TACTTGATAGA-TT-AAAGAAACTTGGAGTATTAGAGCTTCTATATTATTTCTGAAAAATCTGAG
1 TACTTGATAGACTTCAAAGAAACTTGGAATATTACAGCTTCTATACTATTTCTGAAAAATCTGAG
* * * * * *
1941025 ATGCAAAGTTAGTAGGAGTTTAGACGATGAACTCTTATATTGTGGTTATTTACTAAATCTAATGA
66 ATGCAAAGTTACTAGGAGTTTAGAAGATGAACTCTTATAATGTGGTCATTAACTAAAACT-AT--
* * *
1941090 TGCCTACATTGGATTTAAAATGGGT-AAGTGCATGCTCTCC-A-GTCCATACGGCACAAGAAACT
128 TGCCTACATGGGATTTAAAATGGGTGAAGTGCATGCTCTCCAATCTCCATACAGCACAAGAAACT
1941152 GCA
193 GCA
1941155 GAAAGAATTC
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
241 113 0.68
242 5 0.03
243 26 0.16
244 21 0.13
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (243 bp):
TACTTGATAGACTTCAAAGAAACTTGGAATATTACAGCTTCTATACTATTTCTGAAAAATCTGAG
ATGCAAAGTTACTAGGAGTTTAGAAGATGAACTCTTATAATGTGGTCATTAACTAAAACTATTGC
CTACATGGGATTTAAAATGGGTGAAGTGCATGCTCTCCAATCTCCATACAGCACAAGAAACTGCA
AAAAATAATATAAAAAATTCCCTGCCTTCTTTGAATAATGCTTAATGC
Found at i:1948975 original size:11 final size:11
Alignment explanation
Indices: 1948959--1949000 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1948949 TTTTTAAAAT
1948959 ATTTAATTTTA
1 ATTTAATTTTA
*
1948970 ATTTAAGTTTA
1 ATTTAATTTTA
*
1948981 AATT-ATTTTA
1 ATTTAATTTTA
1948991 GATTTAATTT
1 -ATTTAATTT
1949001 ATTTTTAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
ATTTAATTTTA
Found at i:1953333 original size:36 final size:35
Alignment explanation
Indices: 1953273--1953359 Score: 122
Period size: 36 Copynumber: 2.5 Consensus size: 35
1953263 AATTATACAA
* * *
1953273 AATCAAATTATGA-AAATTATGATCCTATAATCAT
1 AATCAAAATATTAGAAATTACGATCCTATAATCAT
*
1953307 AATCAAAATATTAAGAAATTACGATCCTGTAATCAT
1 AATCAAAATATT-AGAAATTACGATCCTATAATCAT
1953343 AATCAAAATATTAGAAA
1 AATCAAAATATTAGAAA
1953360 ATCTTTAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
34 10 0.21
35 6 0.13
36 31 0.66
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (35 bp):
AATCAAAATATTAGAAATTACGATCCTATAATCAT
Found at i:1957357 original size:155 final size:155
Alignment explanation
Indices: 1956920--1958234 Score: 1031
Period size: 155 Copynumber: 8.4 Consensus size: 155
1956910 ACCCTTACTA
* * * * * * * * **
1956920 CCCACCTTCGACGTAAAAGTGGACCCGATGGCAACCTAAGACTTGGTTCTAAAAAAAGAAACTAA
1 CCCACCTTCGGCATAAAAGCGGAACCGATGACGACCTAGGACTTGATTCT-AAAAAA-TTAC-AA
* * * * *** *
1956985 AAATGCCCCTA-GAGGATACCTTCGACGTGAAAGTATCCCGATTCCCCTAAAAGACTTAAAAATG
63 AAATGCCCCTATGAGTATACCTTCGACATAAAAGTA-CTCGAAAACCCTAAAGGACTTAAAAA-G
** ** * *
1957049 GTTTTAAAAGGGATGAATCTATCCTAAATG
126 ACTAGAAAATGGATGAACCTATCCTAAATG
* * * * * * **
1957079 ACTACCTTCGGCATAAAAGCGG-ACCCA-GCAACAACCTAGGACTCGATTCTAAGAAATTATGAA
1 CCCACCTTCGGCATAAAAGCGGAACCGATG--ACGACCTAGGACTTGATTCTAAAAAATTACAAA
* ** * ** * *
1957142 AATGCCCTTACAAGTATACGTTCGACATAAAAGTACCTCGGTAACTCTAAAGGACCTAAAAAGAC
64 AATGCCCCTATGAGTATACCTTCGACATAAAAGTA-CTCGAAAACCCTAAAGGACTTAAAAAGAC
1957207 TAGAAAATGGATGAACCTATCCTAAATG
128 TAGAAAATGGATGAACCTATCCTAAATG
* * * * * * **
1957235 CCCACCTTTGGCATAAAAGCGGATCTGATGATGACCTAGGAGTTGGTTCT-AAAAATTATGAAAA
1 CCCACCTTCGGCATAAAAGCGGAACCGATGACGACCTAGGACTTGATTCTAAAAAATTACAAAAA
* * *
1957299 TTCCCCTATGAGTATACCTTCGACGTAAAAGTATCTCGAAAACTCTAAAGGACTTAAAACA-ACT
66 TGCCCCTATGAGTATACCTTCGACATAAAAGTA-CTCGAAAACCCTAAAGGACTTAAAA-AGACT
*
1957363 AG-AGATGGGATGAACCTATCCTAAATG
129 AGAAAAT-GGATGAACCTATCCTAAATG
* * * * * * * *
1957390 CCCACCTTTGACATAAAAGTGGATGCGGA-GATGACCTAGGAGTTGGTTCTAATAAAATTACAAA
1 CCCACCTTCGGCATAAAAGCGGA-ACCGATGACGACCTAGGACTTGATTCTAA-AAAATTACAAA
* * * ** *
1957454 AATGCCCCTTTGGGTATATCTTCGACATAAAAGTA-TCCTGGCAACCTTAAAGGACTTAAAAAGA
64 AATGCCCCTATGAGTATACCTTCGACATAAAAGTACT-C-GAAAACCCTAAAGGACTTAAAAAGA
*
1957518 ATAG-AAATGGGATGAACCTATCCTAAATG
127 CTAGAAAAT-GGATGAACCTATCCTAAATG
* * * * *
1957547 CCCACCTTCAGCATAAAAGC-GAACCCGGTGACAACCTAGGACTCGATTCTAAAAAATTACCAAA
1 CCCACCTTCGGCATAAAAGCGGAA-CCGATGACGACCTAGGACTTGATTCTAAAAAATTACAAAA
** * * * ** *
1957611 ATGCCCCTA-GAAAATACCTTCGATATAAAAGTACTCGATACCCCTAGTGGACACTAAAAAGACT
65 ATGCCCCTATGAGTATACCTTCGACATAAAAGTACTCGAAAACCCTAAAGGAC-TTAAAAAGACT
* *
1957675 AGAAAAGGGATGAACCTATACTAAATG
129 AGAAAATGGATGAACCTATCCTAAATG
* * * *
1957702 CCCACCTTCGGCTTAAAAAC-GAACCCAGTGACGACCTAGGAGTTGATTCTAAAAAATTACAAAA
1 CCCACCTTCGGCATAAAAGCGGAACCGA-TGACGACCTAGGACTTGATTCTAAAAAATTACAAAA
* * * *
1957766 ATGCCCCTA-GAGGATACCTTCGACGTAAAAGTACT-TAATACCCATAAAAGGACTTAAAAAGAC
65 ATGCCCCTATGAGTATACCTTCGACATAAAAGTACTCGAAAACCC-T-AAAGGACTTAAAAAGAC
*
1957829 TA-AAAATGGTGATGAACCTATCCCAAATG
128 TAGAAAAT-G-GATGAACCTATCCTAAATG
** * * * * ** **
1957858 CCCACCTTTAGCATAAAAG-TGAACCTGGTGAC-ATCTTAGGA-TTCGGTTCTAGGAAATTATGA
1 CCCACCTTCGGCATAAAAGCGGAACC-GATGACGA-CCTAGGACTT-GATTCTAAAAAATTACAA
* ** *
1957920 AAATGCCCCTAT-AGGTATACCTTCGACGTAAAAGTACTCCGGCAACCCTAAAGGACCTAAAAAG
63 AAATGCCCCTATGA-GTATACCTTCGACATAAAAGTACT-CGAAAACCCTAAAGGACTTAAAAAG
* * *
1957984 ACTAGAAAAGGGATGACCCTATCCTAAATA
126 ACTAGAAAATGGATGAACCTATCCTAAATG
* * * * *
1958014 CCCACCTCCGGCATAAAAG-TGAACCCAGCGAC-AGCCTAGGACTCGATTCTAAAAAATTACAAA
1 CCCACCTTCGGCATAAAAGCGGAACCGA-TGACGA-CCTAGGACTTGATTCTAAAAAATTACAAA
* **
1958077 AATGCCCCTATGGGTATACCTTCGACATAAAAGTAC-CGTGGCAACCCTAAAGGACTTAAAAAGA
64 AATGCCCCTATGAGTATACCTTCGACATAAAAGTACTC--GAAAACCCTAAAGGACTTAAAAAGA
* *
1958141 CTAGAAAA-GGGTGAACCTATCCTAAATA
127 CTAGAAAATGGATGAACCTATCCTAAATG
* * * ** * * *
1958169 CCCACATTCGGCATAAAAGCAG-ACTCGGTGATAACCTAGGACTCGATTTTGAAAAATTACAAAA
1 CCCACCTTCGGCATAAAAGCGGAAC-CGATGACGACCTAGGACTTGATTCTAAAAAATTACAAAA
1958233 AT
65 AT
1958235 ACCCTTAGGG
Statistics
Matches: 938, Mismatches: 178, Indels: 84
0.78 0.15 0.07
Matches are distributed among these distances:
154 24 0.03
155 348 0.37
156 311 0.33
157 204 0.22
158 14 0.01
159 37 0.04
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (155 bp):
CCCACCTTCGGCATAAAAGCGGAACCGATGACGACCTAGGACTTGATTCTAAAAAATTACAAAAA
TGCCCCTATGAGTATACCTTCGACATAAAAGTACTCGAAAACCCTAAAGGACTTAAAAAGACTAG
AAAATGGATGAACCTATCCTAAATG
Found at i:1957480 original size:312 final size:308
Alignment explanation
Indices: 1956984--1958209 Score: 1180
Period size: 312 Copynumber: 3.9 Consensus size: 308
1956974 AAAGAAACTA
* * * *** * *
1956984 AAAATGCCCCTA-GAGGATACCTTCGACGTGAAAGTATCCCGATTCCCCTAAAAGACTTAAAAAT
1 AAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTA-CTCGAAAACCCTAAAGGACCTAAAAA-
** ** * * * * * * *
1957048 GGTTTTAAAAGGGATGAATCTATCCTAAATGACTACCTTCGGCATAAAAGCGGACCCAGCA-ACA
64 GACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGAACCC-GGAGA-G
* * * ** *** *
1957112 ACCTAGGACTCGATTCTAAGAAATTATGAAAATG-CCCTTACAAGTATACGTTCGACATAAAAGT
127 ACCTAGGAGTTGATTCTAAAAAATTACAAAAATGCCCCTT-TGGGTATACCTTCGACATAAAAGT
* * *
1957176 ACCTCGGTAACTC-TAAAGGACCTAAAAAGACTAGAAAAT-GGATGAACCTATCCTAAATGCCCA
191 ACCT-GGCAACCCATAAAGGACTTAAAAAGACTAGAAAATGGGATGAACCTATCCTAAATGCCCA
** * * * *
1957239 CCTTTGGCATAAAAGCGGATCTGATGATGACCTAGGAGTTGGTTCTAAAAATTATG
255 CCTTCAGCATAAAAGCGAACCTGGTGA-AACCTAGGA-TTGGTTCTAAAAATTATG
* * *
1957295 AAAATTCCCCTATGAGTATACCTTCGACGTAAAAGTATCTCGAAAACTCTAAAGGACTTAAAACA
1 AAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTA-CTCGAAAACCCTAAAGGACCTAAAA-A
* * * * * **
1957360 -ACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTGACATAAAAGTGGATGCGGAGATGA
64 GACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGAACCCGGAGA-GA
* *
1957424 CCTAGGAGTTGGTTCTAATAAAATTACAAAAATGCCCCTTTGGGTATATCTTCGACATAAAAGTA
128 CCTAGGAGTTGATTCTAA-AAAATTACAAAAATGCCCCTTTGGGTATACCTTCGACATAAAAGTA
* *
1957489 TCCTGGCAA-CCTTAAAGGACTTAAAAAGAATAG-AAATGGGATGAACCTATCCTAAATGCCCAC
192 -CCTGGCAACCCATAAAGGACTTAAAAAGACTAGAAAATGGGATGAACCTATCCTAAATGCCCAC
* * * **
1957552 CTTCAGCATAAAAGCGAACCCGGTGACAACCTAGGACTCGATTCTAAAAAATTACC
256 CTTCAGCATAAAAGCGAACCTGGTGA-AACCTAGGA-TTGGTTCT-AAAAATTATG
** ** * * **
1957608 AAAATGCCCCTA-GAAAATACCTTCGATATAAAAGTACTCGATACCCCTAGTGGACACTAAAAAG
1 AAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTACTCGAAAACCCTAAAGGAC-CTAAAAAG
* * ** * *
1957672 ACTAGAAAAGGGATGAACCTATACTAAATGCCCACCTTCGGCTTAAAAACGAACCCAGTGACGAC
65 ACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGAACCCGGAGA-GAC
* *
1957737 CTAGGAGTTGATTCTAAAAAATTACAAAAATGCCCC-TAGAGG-ATACCTTCGACGTAAAAGTA-
129 CTAGGAGTTGATTCTAAAAAATTACAAAAATGCCCCTTTG-GGTATACCTTCGACATAAAAGTAC
** *
1957799 CT-TAATACCCATAAAAGGACTTAAAAAGACTA-AAAATGGTGATGAACCTATCCCAAATGCCCA
193 CTGGCA-ACCCAT-AAAGGACTTAAAAAGACTAGAAAATGG-GATGAACCTATCCTAAATGCCCA
* * * * *
1957862 CCTTTAGCATAAAAGTGAACCTGGTGACATCTTAGGATTCGGTTCTAGGAAATTATG
255 CCTTCAGCATAAAAGCGAACCTGGTGA-AACCTAGGATT-GGTTCTA-AAAATTATG
**
1957919 AAAATGCCCCTAT-AGGTATACCTTCGACGTAAAAGTACTCCGGCAACCCTAAAGGACCTAAAAA
1 AAAATGCCCCTATGA-GTATACCTTCGACGTAAAAGTACT-CGAAAACCCTAAAGGACCTAAAAA
* * * *
1957983 GACTAGAAAAGGGATGACCCTATCCTAAATACCCACCTCCGGCATAAAAGTGAACCCAGCGACAG
64 GACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGAACCC-G-GAGAG
* * *
1958048 -CCTAGGACTCGATTCTAAAAAATTACAAAAATGCCCCTATGGGTATACCTTCGACATAAAAGTA
127 ACCTAGGAGTTGATTCTAAAAAATTACAAAAATGCCCCTTTGGGTATACCTTCGACATAAAAGTA
*
1958112 CCGTGGCAACCC-TAAAGGACTTAAAAAGACTAGAAAA-GGG-TGAACCTATCCTAAATACCCAC
192 CC-TGGCAACCCATAAAGGACTTAAAAAGACTAGAAAATGGGATGAACCTATCCTAAATGCCCAC
* *
1958174 ATTCGGCATAAAAGC-AGA-CTCGGTGATAACCTAGGA
256 CTTCAGCATAAAAGCGA-ACCT-GGTGA-AACCTAGGA
1958210 CTCGATTTTG
Statistics
Matches: 750, Mismatches: 133, Indels: 64
0.79 0.14 0.07
Matches are distributed among these distances:
307 1 0.00
308 3 0.00
309 3 0.00
310 51 0.07
311 233 0.31
312 363 0.48
313 82 0.11
314 8 0.01
315 5 0.01
316 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (308 bp):
AAAATGCCCCTATGAGTATACCTTCGACGTAAAAGTACTCGAAAACCCTAAAGGACCTAAAAAGA
CTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGAACCCGGAGAGACCT
AGGAGTTGATTCTAAAAAATTACAAAAATGCCCCTTTGGGTATACCTTCGACATAAAAGTACCTG
GCAACCCATAAAGGACTTAAAAAGACTAGAAAATGGGATGAACCTATCCTAAATGCCCACCTTCA
GCATAAAAGCGAACCTGGTGAAACCTAGGATTGGTTCTAAAAATTATG
Found at i:1957785 original size:467 final size:463
Alignment explanation
Indices: 1957054--1958264 Score: 1422
Period size: 467 Copynumber: 2.6 Consensus size: 463
1957044 AAATGGTTTT
* * * * *
1957054 AAAAGGGATGAATCTATCCTAAATGACTACCTTCGGCATAAAAGCGGACCCAGCAACAACCTAGG
1 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCAGCGACAACCTAGG
* ** * * *
1957119 ACTCGATTCTAAGAAATTATGAAAATGCCCTTACAAGTATACGTTCGACATAAAAGTACCTCGGT
66 ACTCGATTCTAAAAAATTACAAAAATGCCCCTAGAA-TATACCTTCGACATAAAAGTA-CTC-GT
* * *
1957184 AACTCTAAAGGACCTAAAAAGACTAGAAAATGGATGAACCTATCCTAAATGCCCACCTTTGGCAT
128 AACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * * ** * *
1957249 AAAAGCGGA-TCTGATGATGACCTAGGAGTTGGTTCTAAAAATTATGAAAATTCCCCTATGAGTA
193 AAAAGCGAACTCAG-TGATGACCTAGGAGTTGATTCTAAAAATTACAAAAATACCCCTA-GAGGA
* * *
1957313 TACCTTCGACGTAAAAGTATCTCGAAAACTC-T-AAAGGACTTAAAACA-ACTAGAGATGG-GAT
256 TACCTTCGACGTAAAAGTA-CT-GAAAACCCATAAAAGGACTTAAAA-AGACTAAAAATGGTGAT
* * *
1957374 GAACCTATCCTAAATGCCCACCTTT-GACATAAAAGTGGA-TGCG-GAGATGACCTAGGAGTT-G
318 GAACCTATCCCAAATGCCCACCTTTAG-CATAAAAGTGAACTG-GTGACAT--CCTAGGA-TTCG
* * * *
1957435 GTTCTAATAAAATTACAAAAATGCCCCTTTGGGTATATCTTCGACATAAAAGTA-TCCTGGCAAC
378 GTTCT-AGAAAATTACAAAAATGCCCCTATAGGTATACCTTCGACATAAAAGTACTCC-GGCAAC
* *
1957499 CTTAAAGGACTTAAAAAGAATAG
441 CCTAAAGGACCTAAAAAGAATAG
* * * *
1957522 AAATGGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGAACCCGGTGACAACCTAGG
1 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCAGCGACAACCTAGG
* * * *
1957587 ACTCGATTCTAAAAAATTACCAAAATGCCCCTAGAAAATACCTTCGATATAAAAGTACTCGATAC
66 ACTCGATTCTAAAAAATTACAAAAATGCCCCTAGAATATACCTTCGACATAAAAGTACTCG-TAA
** * *
1957652 CCCTAGTGGACACTAAAAAGACTAGAAAAGGGATGAACCTATACTAAATGCCCACCTTCGGCTTA
130 CCCTAAAGGAC-CTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* * * *
1957717 AAAACGAACCCAGTGACGACCTAGGAGTTGATTCTAAAAAATTACAAAAATGCCCCTAGAGGATA
194 AAAGCGAACTCAGTGATGACCTAGGAGTTGATTCT-AAAAATTACAAAAATACCCCTAGAGGATA
* *
1957782 CCTTCGACGTAAAAGTACTTAATACCCATAAAAGGACTTAAAAAGACTAAAAATGGTGATGAACC
258 CCTTCGACGTAAAAGTACTGAAAACCCATAAAAGGACTTAAAAAGACTAAAAATGGTGATGAACC
* *
1957847 TATCCCAAATGCCCACCTTTAGCATAAAAGTGAACCTGGTGACATCTTAGGATTCGGTTCTAGGA
323 TATCCCAAATGCCCACCTTTAGCATAAAAGTGAA-CTGGTGACATCCTAGGATTCGGTTCTAGAA
** *
1957912 AATTATGAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTACTCCGGCAACCCTAAAGGACC
387 AATTACAAAAATGCCCCTATAGGTATACCTTCGACATAAAAGTACTCCGGCAACCCTAAAGGACC
*
1957977 TAAAAAGACTAG
452 TAAAAAGAATAG
* * * * *
1957989 AAAAGGGATGACCCTATCCTAAATACCCACCTCCGGCATAAAAGTGAACCCAGCGACAGCCTAGG
1 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCAGCGACAACCTAGG
**
1958054 ACTCGATTCTAAAAAATTACAAAAATGCCCCTATGGGTATACCTTCGACATAAAAGTAC-CGTGG
66 ACTCGATTCTAAAAAATTACAAAAATGCCCCTA-GAATATACCTTCGACATAAAAGTACTCGT--
* * *
1958118 CAACCCTAAAGGACTTAAAAAGACTAGAAAAGGG-TGAACCTATCCTAAATACCCACATTCGGCA
128 -AACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * * * * *
1958182 TAAAAGC-AGACTCGGTGATAACCTAGGACTCGATTTTGAAAAATTACAAAAATACCCTTAGGGG
192 TAAAAGCGA-ACTCAGTGATGACCTAGGAGTTGATTCT-AAAAATTACAAAAATACCCCTAGAGG
* *
1958246 ATACTTTCGACGTGAAAGT
255 ATACCTTCGACGTAAAAGT
1958265 GCTCGAAGAT
Statistics
Matches: 633, Mismatches: 91, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
465 6 0.01
466 19 0.03
467 389 0.61
468 201 0.32
469 12 0.02
470 6 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (463 bp):
AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCAGCGACAACCTAGG
ACTCGATTCTAAAAAATTACAAAAATGCCCCTAGAATATACCTTCGACATAAAAGTACTCGTAAC
CCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
AGCGAACTCAGTGATGACCTAGGAGTTGATTCTAAAAATTACAAAAATACCCCTAGAGGATACCT
TCGACGTAAAAGTACTGAAAACCCATAAAAGGACTTAAAAAGACTAAAAATGGTGATGAACCTAT
CCCAAATGCCCACCTTTAGCATAAAAGTGAACTGGTGACATCCTAGGATTCGGTTCTAGAAAATT
ACAAAAATGCCCCTATAGGTATACCTTCGACATAAAAGTACTCCGGCAACCCTAAAGGACCTAAA
AAGAATAG
Found at i:1960928 original size:166 final size:164
Alignment explanation
Indices: 1960738--1961205 Score: 538
Period size: 166 Copynumber: 2.9 Consensus size: 164
1960728 CGTATTTTGG
* * * * *
1960738 AAAAAG-GGAATTTCAAGGAAAAAATTCAAAAATTCATGAAAATGAATGAAGTTTTAAAAAATAA
1 AAAAAGAGAAATTTCAA-GAAAAAA-TCAAAAACTCATGAAAATGAATTAATTTTTGAAAAAT-A
* * * *
1960802 ATTAATATGAAATAAATAATGATGTTTGAAGAATTTTAAAAATTGAAAACCAAGAAAAATCCCTT
63 ATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCT
*
1960867 C-AAAAAAATTACAGAGTAGAAAACACCCTTTTTCGGA
128 CGAAAAAAATTACAGAGTAGAAAACACCCTATTTC-GA
* * *
1960904 AAAAAGA-AAATTTCAAG--AAAA--AAATACTCATGAAAATGAATTAATTTTTGAAAATTGATT
1 AAAAAGAGAAATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAAAT-AAT
* * *
1960964 TAATATGAAATGAATGATAATATTTTATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCG
65 TAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCG
* * * * * *
1961029 AAAGAAATTATAGAGTAGGAAATATCGTATTTCGA
130 AAAAAAATTACAGAGTAGAAAACACCCTATTTCGA
* * * *
1961064 TAAAAGAGAAATTTCAATGAAAAAATCAAAAACTCAGGAAAATGAATTAATTTTTGAAAACTGAT
1 AAAAAGAGAAATTTCAA-GAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATAAT
** **
1961129 TCAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAATTAAGAAAAATCCTCC-
65 T-AATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCC-CCT
1961193 CGAAAAAAATTAC
128 CGAAAAAAATTAC
1961206 TGAAAAGAAA
Statistics
Matches: 254, Mismatches: 38, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
160 96 0.38
161 35 0.14
162 1 0.00
163 4 0.02
164 4 0.02
165 3 0.01
166 109 0.43
167 2 0.01
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (164 bp):
AAAAAGAGAAATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATAATT
AATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGA
AAAAAATTACAGAGTAGAAAACACCCTATTTCGA
Found at i:1962649 original size:168 final size:167
Alignment explanation
Indices: 1962386--1962717 Score: 405
Period size: 168 Copynumber: 2.0 Consensus size: 167
1962376 CAAGACTAAA
* * * * ** * *
1962386 CCAATAGGTAAACAAGGGATAAAAGATTGACTAGGATTGAATTGGTAAGTTAATAAAAGATAAAA
1 CCAATAGGTAAACAAAGGATAAAAAATTGACCAGGATTGAACTGACAAGTCAACAAAAGATAAAA
* * * *
1962451 GAAAGTACCTGAGACCAAGTCGATAGGTGAATGAAGGATAAAAAGTTAACCGGGATTAAATCGAT
66 GAAAGTACCTGAGACCAAGCCAACAGGTGAATGAAGGATAAAAAGTTAACCGGGATTAAACCGAT
* ** * * *
1962516 GAGTCAATGAGGGATAAATAATTTACCTGGGACTGGG
131 AAGTCAACAAAGGATAAAGAATTTACCTAGGACTGGG
* * *
1962553 CCAATGGGTAAACAAAGGATAAAAAAGTTGACCGGGATTGGACTGACAAGTCAACAAAAGATAAA
1 CCAATAGGTAAACAAAGGATAAAAAA-TTGACCAGGATTGAACTGACAAGTCAACAAAAGAT-AA
* * * *
1962618 AAGAAA-TACTTGGGACCAAGCCAACAGGTGAATGAAGGATAAAAAGTTGACTGGGATTAAACCG
64 AAGAAAGTACCTGAGACCAAGCCAACAGGTGAATGAAGGATAAAAAGTTAACCGGGATTAAACCG
*
1962682 ATAAGTCAACAAAGGATAAAGGATTTACCTAGGACT
129 ATAAGTCAACAAAGGATAAAGAATTTACCTAGGACT
1962718 AAGTTGATGA
Statistics
Matches: 137, Mismatches: 26, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
167 23 0.17
168 106 0.77
169 8 0.06
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.20
Consensus pattern (167 bp):
CCAATAGGTAAACAAAGGATAAAAAATTGACCAGGATTGAACTGACAAGTCAACAAAAGATAAAA
GAAAGTACCTGAGACCAAGCCAACAGGTGAATGAAGGATAAAAAGTTAACCGGGATTAAACCGAT
AAGTCAACAAAGGATAAAGAATTTACCTAGGACTGGG
Found at i:1962892 original size:43 final size:43
Alignment explanation
Indices: 1962836--1962935 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
1962826 GAAAGTTAGT
*
1962836 TCCCGGGACTGAGCTGATGGGA-A-ATTAAAGAGATGAAAAAATC
1 TCCCGGGTCTGAGCTGAT-GGATAGA-TAAAGAGATGAAAAAATC
* * *
1962879 TCTCGGGTCTGAGCTGATGGATAGATAAAGAGATGAAGAAGTC
1 TCCCGGGTCTGAGCTGATGGATAGATAAAGAGATGAAAAAATC
*
1962922 TCCCAGGTCTGAGC
1 TCCCGGGTCTGAGC
1962936 CAATAGGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 3 0.06
43 45 0.92
44 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (43 bp):
TCCCGGGTCTGAGCTGATGGATAGATAAAGAGATGAAAAAATC
Found at i:1963072 original size:43 final size:44
Alignment explanation
Indices: 1963002--1963119 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 44
1962992 AAAAATGAAG
* * ** *
1963002 AAGTCTCTTGGGTCTAAGTTGACGGGCAAGCGA-TTGATAAAGA
1 AAGTCTCTCGAGTCTAAGCCGATGGGCAAGCGAGTTGATAAAGA
*
1963045 AAGTCTCTCGAGTCTAAGCCGATGGGC-AGAC-AGTTGATAAAGG
1 AAGTCTCTCGAGTCTAAGCCGATGGGCAAG-CGAGTTGATAAAGA
* * *
1963088 GAGTCTCTC-AGGTCTAAGCCAATGGGTAAGCG
1 AAGTCTCTCGA-GTCTAAGCCGATGGGCAAGCG
1963120 GTGGATGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
42 4 0.07
43 55 0.90
44 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.23
Consensus pattern (44 bp):
AAGTCTCTCGAGTCTAAGCCGATGGGCAAGCGAGTTGATAAAGA
Found at i:1963312 original size:42 final size:42
Alignment explanation
Indices: 1963239--1963321 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1963229 TGAGCCGACT
* **
1963239 GGCAGATGATGGATGAAGAAGACTCTTAGGTCTAAACTGACG
1 GGCAGATGAAGGATGAAGAAGACTCCCAGGTCTAAACTGACG
* *
1963281 GGCAGATGAAGGAT-AAGGAAGTCTCCCAGGTCTAAGCTGAC
1 GGCAGATGAAGGATGAA-GAAGACTCCCAGGTCTAAACTGAC
1963322 TTGCAAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (42 bp):
GGCAGATGAAGGATGAAGAAGACTCCCAGGTCTAAACTGACG
Found at i:1963442 original size:43 final size:43
Alignment explanation
Indices: 1963381--1963489 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
1963371 ACGATGGATG
* * * *
1963381 AAAAAGTCTCTTGGGTCTAAGCCGATGGGTAGACAGTTGATAA
1 AAAAAGTCTCTCGAGTCTAAGCCGACGGGTAAACAGTTGATAA
* *
1963424 AAAAAGTCTCTCGAGTCTAAGTCGACGGGTAAATAGTTGATAA
1 AAAAAGTCTCTCGAGTCTAAGCCGACGGGTAAACAGTTGATAA
** *
1963467 AGGAAGTCTC-CTAGGTCTAAGCC
1 AAAAAGTCTCTCGA-GTCTAAGCC
1963490 AATGAGCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAAAGTCTCTCGAGTCTAAGCCGACGGGTAAACAGTTGATAA
Found at i:1963711 original size:42 final size:42
Alignment explanation
Indices: 1963636--1963749 Score: 106
Period size: 41 Copynumber: 2.7 Consensus size: 42
1963626 CGATTGATGG
* * * *
1963636 AAAAGTCTCCTTA-GTCTAAGCCGACGGGCAGACGATTCAAAAA
1 AAAAGTCTCC-CAGGTCTAAGTCGATGGGTAGACGATT-AAAAA
* * * **
1963679 AAAAGTCTTCCAGGTCTAAGTTGA-GGGTAGACGATTGATGA
1 AAAAGTCTCCCAGGTCTAAGTCGATGGGTAGACGATTAAAAA
*
1963720 AAAAGTCTCCCGGGTCTAAGTCGATGGGTA
1 AAAAGTCTCCCAGGTCTAAGTCGATGGGTA
1963750 AACAATTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 23 0.40
42 17 0.29
43 18 0.31
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (42 bp):
AAAAGTCTCCCAGGTCTAAGTCGATGGGTAGACGATTAAAAA
Found at i:1963848 original size:42 final size:42
Alignment explanation
Indices: 1963470--1963880 Score: 235
Period size: 42 Copynumber: 9.7 Consensus size: 42
1963460 TTGATAAAGG
* ** * * * *
1963470 AAGTCTCCTAGGTCTAAGCCAATGAGCAAACGGTTGATGGAA
1 AAGTCTCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
* * ** ** * * * *
1963512 AAGTCTCCTAGGTCTGAGCCAATAGGCAAACCATTAATGAAA
1 AAGTCTCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
* * *
1963554 AAGTCTCCC-GAGTCTAAGCCGACAGGCAGATGATTGATGGAA
1 AAGTCTCCCAG-GTCTAAGCTGACGGGCAGACGATTGATGGAA
* * *
1963596 AAGTCT-CCTGAGCCTAAG-TCAACGGGCAGACGATTGATGGAA
1 AAGTCTCCCAG-GTCTAAGCT-GACGGGCAGACGATTGATGGAA
* * * ***
1963638 AAGTCTCCTTA-GTCTAAGCCGACGGGCAGACGATTCAAAAAAA
1 AAGTCTCC-CAGGTCTAAGCTGACGGGCAGACGATT-GATGGAA
* * * *
1963681 AAGTCTTCCAGGTCTAAGTTGA-GGGTAGACGATTGATGAAA
1 AAGTCTCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
* * * * * **
1963722 AAGTCTCCCGGGTCTAAG-TCGATGGGTAAACAATTTGA-CAAA
1 AAGTCTCCCAGGTCTAAGCT-GACGGGCAGACGA-TTGATGGAA
* ** * * *
1963764 GGAAG-CTTTCTGGGTCTAAGTTGACGGGCTGACGATTAATGGAA
1 --AAGTC-TCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
* *
1963808 AAGTCTCCCAGGTCTAAGCTGACGGGCAAATGATTGATGGAA
1 AAGTCTCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
*
1963850 AAGTCTCCCAGGTCTAAGCTGACAGGCAGAC
1 AAGTCTCCCAGGTCTAAGCTGACGGGCAGAC
1963881 TTAAGGGTGA
Statistics
Matches: 288, Mismatches: 64, Indels: 34
0.75 0.17 0.09
Matches are distributed among these distances:
40 1 0.00
41 25 0.09
42 208 0.72
43 29 0.10
44 24 0.08
45 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (42 bp):
AAGTCTCCCAGGTCTAAGCTGACGGGCAGACGATTGATGGAA
Found at i:1963912 original size:43 final size:43
Alignment explanation
Indices: 1963850--1964430 Score: 612
Period size: 43 Copynumber: 13.5 Consensus size: 43
1963840 ATTGATGGAA
* * * *
1963850 AAGTCTCCCAGGTCTAAGCTGACAGGCAGACTTAAGGGTGAAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * *
1963893 AAGTCTCCAAGGTCCAAGCTGACATGCAGACTTAAGGGTGAAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * *
1963936 AAGTCTCCAGGGTCATAGCCGACAGGTAGACTTAAAGGG-GAGT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTT-AAGGGCGAAT
* * ** *
1963979 AAGTTTCCAAGGTCAAAGTCGACAGGCAGACTTAAGGATGTAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
*
1964022 AAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTAAAGGG-GAAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTT-AAGGGCGAAT
* *
1964065 AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * * * **
1964108 AAGTCTCTAGGGTTAAAGCTGATAGGCAGACTTAAGGGAAAAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * *
1964151 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTAAGGGCGAAG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * *
1964194 AAGTCTCCAAGGTTAAAGTCGACAGACCGACTTAAGGGCGAGA-
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGA-AT
* * * **
1964237 AAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGGTGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * ***
1964280 AAGTCTCC-AGTGTGAAAGCCGACAGGCAGACTTAAAGGCGGGG
1 AAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * * *
1964323 AAGTCTCCAAGGTCAAAGCCAACAGGAAGATTTAAGGGGGAAA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
* * * **
1964366 AAGTCTCCACGGTTAAAGCTGACAGGCAGACTTAAGGGCGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
1964409 AAGTCTCCAAGGTCAAAGCCGA
1 AAGTCTCCAAGGTCAAAGCCGA
1964431 TAGACAAACT
Statistics
Matches: 448, Mismatches: 82, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
42 10 0.02
43 426 0.95
44 12 0.03
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (43 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGCGAAT
Found at i:1964595 original size:42 final size:42
Alignment explanation
Indices: 1964516--1964624 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
1964506 AAAGTTGACA
* * *
1964516 GGCAAACGAAGGATAAAGAAA-TCTCTCCAGTCAAAGCCGACG
1 GGCAGACGAAGGATAAA-AAAGTCTCTCCAGCCAAAGCCAACG
** *
1964558 GGCAGACGAAGGATAAAAAAGTCTCTCGGGCCTAAGCCAACG
1 GGCAGACGAAGGATAAAAAAGTCTCTCCAGCCAAAGCCAACG
* * * *
1964600 GGCAGACAAAAGATAGAGAAGTCTC
1 GGCAGACGAAGGATAAAAAAGTCTC
1964625 CCGGCTCTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.05
42 53 0.95
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (42 bp):
GGCAGACGAAGGATAAAAAAGTCTCTCCAGCCAAAGCCAACG
Found at i:1964635 original size:42 final size:42
Alignment explanation
Indices: 1964527--1964635 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
1964517 GCAAACGAAG
* * * * * *
1964527 GATAAAGAAA-TCTCTCCAGTCAAAGCCGACGGGCAGACGAAG
1 GATAAA-AAAGTCTCTCCGGCCTAAGCCAACGGGCAGACAAAA
*
1964569 GATAAAAAAGTCTCTCGGGCCTAAGCCAACGGGCAGACAAAA
1 GATAAAAAAGTCTCTCCGGCCTAAGCCAACGGGCAGACAAAA
* *
1964611 GATAGAGAAGTCTC-CCGGCTCTAAG
1 GATAAAAAAGTCTCTCCGGC-CTAAG
1964636 TTGATGAGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 7 0.13
42 48 0.87
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.14
Consensus pattern (42 bp):
GATAAAAAAGTCTCTCCGGCCTAAGCCAACGGGCAGACAAAA
Found at i:1964998 original size:42 final size:42
Alignment explanation
Indices: 1964909--1965113 Score: 189
Period size: 42 Copynumber: 4.9 Consensus size: 42
1964899 TCAGATGAAG
* * * * * * *
1964909 GATAAAGAAGTTTCTCGGGTCAAAGATGACGGGTAGATGAAAA
1 GATAAAGAAGTCTCCCAGGTCTAAGCTGACGGGCAGA-CAAAA
*
1964952 -ATAAAGAAGTCTCCCAGG-CTTAAGCTGAGGGGCAGACAAAA
1 GATAAAGAAGTCTCCCAGGTC-TAAGCTGACGGGCAGACAAAA
* * **
1964993 GATAAAAAAGTCTCCCAGGTCTAAGCCGATAGGCAGACAAAA
1 GATAAAGAAGTCTCCCAGGTCTAAGCTGACGGGCAGACAAAA
* *
1965035 GATATAGAAGTCTCCCAGGTCTAAGTTGACGGGCAGACAAAA
1 GATAAAGAAGTCTCCCAGGTCTAAGCTGACGGGCAGACAAAA
* * * *** *
1965077 AATAGAGAGGTCTCTTGGGTCTAAGCCGACGGGCAGA
1 GATAAAGAAGTCTCCCAGGTCTAAGCTGACGGGCAGA
1965114 TAAAGGGTGA
Statistics
Matches: 133, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 5 0.04
42 127 0.95
43 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.18
Consensus pattern (42 bp):
GATAAAGAAGTCTCCCAGGTCTAAGCTGACGGGCAGACAAAA
Found at i:1965378 original size:48 final size:48
Alignment explanation
Indices: 1965320--1965435 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
1965310 TCAGATAGGA
* ** * *
1965320 AAGAGGAGAGTTTGACTTGGCCCTAACACCAATATAGTCAAACAAGGG
1 AAGAGAAGAGTTTGACCAGGCCCTAACACCAATATAGTAAAACAAAGG
* *
1965368 AAGAGAAGAGTTTGACCAGGCCCTAACACTATTATAGTAAAACAAAGG
1 AAGAGAAGAGTTTGACCAGGCCCTAACACCAATATAGTAAAACAAAGG
*
1965416 AAGAAAAGAGTTTGACCAGG
1 AAGAGAAGAGTTTGACCAGG
1965436 TACAGTCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.18
Consensus pattern (48 bp):
AAGAGAAGAGTTTGACCAGGCCCTAACACCAATATAGTAAAACAAAGG
Done.