Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148
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: 1464219
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 85296 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:542336 original size:15 final size:15
Alignment explanation
Indices: 542289--542336 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
542279 TATTTTCTCT
*
542289 TCTTTTTCTACTCTTA
1 TCTTTTTCTATTC-TA
*
542305 TCTTTTTTTACTT-TA
1 TCTTTTTCTA-TTCTA
542320 TCTTTTTCTATTCTA
1 TCTTTTTCTATTCTA
542335 TC
1 TC
542337 ACTATCAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 15 0.56
16 9 0.33
17 1 0.04
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTTTTCTATTCTA
Found at i:542899 original size:21 final size:22
Alignment explanation
Indices: 542875--542918 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
542865 GGGTAATCTT
* *
542875 ACTTTGTCACC-GAAGGTATAA
1 ACTTTGTAACCAGAAAGTATAA
*
542896 ACTTTTTAACCAGAAAGTATAA
1 ACTTTGTAACCAGAAAGTATAA
542918 A
1 A
542919 TTTTTTAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (22 bp):
ACTTTGTAACCAGAAAGTATAA
Found at i:544305 original size:25 final size:25
Alignment explanation
Indices: 544276--544324 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
544266 AAGAAACAAC
544276 TTCTATTCCAACAGAACTTCAAGAT
1 TTCTATTCCAACAGAACTTCAAGAT
*
544301 TTCTATTCCAACATAACTTCAAGA
1 TTCTATTCCAACAGAACTTCAAGA
544325 CTTACTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (25 bp):
TTCTATTCCAACAGAACTTCAAGAT
Found at i:548733 original size:2 final size:2
Alignment explanation
Indices: 548726--548751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
548716 GGTAATGTAG
548726 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
548752 TTTAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:548993 original size:52 final size:52
Alignment explanation
Indices: 548898--549382 Score: 432
Period size: 52 Copynumber: 9.1 Consensus size: 52
548888 ATTTCCTATT
* * *
548898 AATTACTATTTAAAAA-AATAAAAAATTAAAAAAATTTTATATTAAATTTTG
1 AATTACTATTTAAAAATAATAAAAATTTAAAAATATTTTATATTAAATTTTA
* * * * *
548949 AATTACTATTTAAAAATAATAAAAATTTAAATATATTATGTATTAAATCTCA
1 AATTACTATTTAAAAATAATAAAAATTTAAAAATATTTTATATTAAATTTTA
* *
549001 AATTACTA-TTAAAAATAATAAAAATTAAAAATATATTTTATATTAAA-TTCA
1 AATTACTATTTAAAAATAATAAAAATTTAAAA-ATATTTTATATTAAATTTTA
* * *
549052 GAATTA-TTTTTAAAAAATAATAAAAATTTAAAAATATTTTATATTTAATCTTGA
1 -AATTACTATTT-AAAAATAATAAAAATTTAAAAATATTTTATATTAAAT-TTTA
* * * * *
549106 ATTTA-AATTTACAAAATAATAAAAAATAAAAATATATTTTACATTAAATTTTA
1 AATTACTATTTA-AAAATAATAAAAATTTAAAA-ATATTTTATATTAAATTTTA
* * *
549159 AATTAC-ATTTTAAAAATAATAAAAAAATTTAAAAATATTTTATATTTAATCTTG
1 AATTACTA-TTTAAAAATAAT--AAAAATTTAAAAATATTTTATATTAAATTTTA
*** * *
549213 AATTTGAATTTACAAAATAATAAAAA-ATAAAAATATATTTACATTAAATTTTA
1 AATTACTATTTA-AAAATAATAAAAATTTAAAAATAT-TTTATATTAAATTTTA
* *
549266 AATTAC-ATTTTAAAAATAATAAAAAAAATTGT-AAAATA-TTTATATTAAATATCA
1 AATTACTA-TTTAAAAATAAT---AAAAATT-TAAAAATATTTTATATTAAATTTTA
* * * *
549320 AATTACTGTTTAACAAATAATAAAAATTTTAAAAATATACTTTATATTTAATTCTG
1 AATTACTATTTAA-AAATAATAAAAA-TTTAAAAATAT--TTTATATTAAATTTTA
549376 AATTACT
1 AATTACT
549383 GTATATCATC
Statistics
Matches: 354, Mismatches: 51, Indels: 53
0.77 0.11 0.12
Matches are distributed among these distances:
51 41 0.12
52 94 0.27
53 94 0.27
54 69 0.19
55 31 0.09
56 24 0.07
57 1 0.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (52 bp):
AATTACTATTTAAAAATAATAAAAATTTAAAAATATTTTATATTAAATTTTA
Found at i:549132 original size:54 final size:53
Alignment explanation
Indices: 548898--549381 Score: 408
Period size: 54 Copynumber: 9.1 Consensus size: 53
548888 ATTTCCTATT
* *
548898 AATTACTATTTAAAAA-AATAAAAAA-TTAAAAAAATTTTATATTAAATTTTG-
1 AATTACAATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAA-TTTGA
* * * * * *
548949 AATTACTATTTAAAAATAAT-AAAAATTTAAATATATTATGTATTAAATCTCA
1 AATTACAATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAATTTGA
* * *
549001 AATTACTA-TTAAAAATAAT-AAAAATTAAAAATATATTTTATATTAAA-TTCA
1 AATTACAATTTAAAAATAATAAAAAATTTAAAA-ATATTTTATATTAAATTTGA
** *
549052 GAATTA-TTTTTAAAAAATAAT-AAAAATTTAAAAATATTTTATATTTAATCTTGA
1 -AATTACAATTT-AAAAATAATAAAAAATTTAAAAATATTTTATATTAAAT-TTGA
* * * *
549106 ATTTA-AATTTACAAAATAATAAAAAA-TAAAAATATATTTTACATTAAATTTTA
1 AATTACAATTTA-AAAATAATAAAAAATTTAAAA-ATATTTTATATTAAATTTGA
* *
549159 AATTACATTTTAAAAATAATAAAAAAATTTAAAAATATTTTATATTTAATCTTG-
1 AATTACAATTTAAAAATAAT-AAAAAATTTAAAAATATTTTATATTAAAT-TTGA
** * *
549213 AATTTGAATTTACAAAATAATAAAAAA--TAAAAATATATTTACATTAAATTTTA
1 AATTACAATTTA-AAAATAATAAAAAATTTAAAAATAT-TTTATATTAAATTTGA
* * *
549266 AATTACATTTTAAAAATAATAAAAAAAATTGT-AAAATA-TTTATATTAAATATCA
1 AATTACAATTTAAAAATAAT--AAAAAATT-TAAAAATATTTTATATTAAATTTGA
** * *
549320 AATTACTGTTTAACAAATAATAAAAATTTTAAAAATATACTTTATATTTAATTCTG-
1 AATTACAATTTAA-AAATAATAAAAAATTTAAAAATAT--TTTATATTAAATT-TGA
549376 AATTAC
1 AATTAC
549382 TGTATATCAT
Statistics
Matches: 357, Mismatches: 46, Indels: 55
0.78 0.10 0.12
Matches are distributed among these distances:
51 48 0.13
52 83 0.23
53 87 0.24
54 92 0.26
55 22 0.06
56 23 0.06
57 2 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (53 bp):
AATTACAATTTAAAAATAATAAAAAATTTAAAAATATTTTATATTAAATTTGA
Found at i:549142 original size:47 final size:47
Alignment explanation
Indices: 549091--549253 Score: 141
Period size: 47 Copynumber: 3.2 Consensus size: 47
549081 AAAAATATTT
549091 TATATTTAATCTTGAATTTAAATTTACAAAATAATAAAAAATAAAAA
1 TATATTTAATCTTGAATTTAAATTTACAAAATAATAAAAAATAAAAA
* *
549138 TATATTTTA-CATTAAATTTTAAA-TTACATTTTAAAAATAATAAAAAAATTTAAAAA
1 TATATTTAATC-TTGAA-TTTAAATTTAC------AAAATAAT-AAAAAA--TAAAAA
*
549194 TATTTTATATTTAATCTTGAATTTGAATTTACAAAATAATAAAAAATAAAAA
1 TAT-----ATTTAATCTTGAATTTAAATTTACAAAATAATAAAAAATAAAAA
549246 TATATTTA
1 TATATTTA
549254 CATTAAATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 36
0.69 0.04 0.27
Matches are distributed among these distances:
46 1 0.01
47 21 0.23
48 6 0.06
52 9 0.10
53 8 0.09
54 12 0.13
55 8 0.09
56 9 0.10
60 5 0.05
61 13 0.14
62 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (47 bp):
TATATTTAATCTTGAATTTAAATTTACAAAATAATAAAAAATAAAAA
Found at i:549336 original size:108 final size:108
Alignment explanation
Indices: 548898--549381 Score: 518
Period size: 108 Copynumber: 4.6 Consensus size: 108
548888 ATTTCCTATT
*
548898 AATTACTATTTA-AAAA-AATAAAAAATTAAAAA-A-ATTTTATATTAAATTTTGAATTAC-TAT
1 AATTACTATTTACAAAATAATAAAAAA-TAAAAATATATTTTATATTAAATTTTAAATTACAT-T
* * *
548958 TTAAAAATAAT--AAAAATTTAAATATATTATGTATTAAATCTCA
64 TTAAAAATAATAAAAAAATTTAAAAATATTTTATATTAAATCTCA
* *
549001 AATTACTA-TTA-AAAATAATAAAAATTAAAAATATATTTTATATTAAA-TTCAGAATT--ATTT
1 AATTACTATTTACAAAATAATAAAAAATAAAAATATATTTTATATTAAATTTTA-AATTACATTT
* * *
549061 TTAAAA-AATAATAAAAATTTAAAAATATTTTATATTTAATCTTGA
65 TAAAAATAATAA-AAAAATTTAAAAATATTTTATATTAAATC-TCA
* * *
549106 ATTTA-AATTTACAAAATAATAAAAAATAAAAATATATTTTACATTAAATTTTAAATTACATTTT
1 AATTACTATTTACAAAATAATAAAAAATAAAAATATATTTTATATTAAATTTTAAATTACATTTT
* **
549170 AAAAATAATAAAAAAATTTAAAAATATTTTATATTTAATCTTG
66 AAAAATAATAAAAAAATTTAAAAATATTTTATATTAAATCTCA
*** *
549213 AATTTGAATTTACAAAATAATAAAAAATAAAAATATA-TTTACATTAAATTTTAAATTACATTTT
1 AATTACTATTTACAAAATAATAAAAAATAAAAATATATTTTATATTAAATTTTAAATTACATTTT
*
549277 AAAAATAATAAAAAAAATTGT-AAAATA-TTTATATTAAATATCA
66 AAAAATAAT-AAAAAAATT-TAAAAATATTTTATATTAAATCTCA
* * * * * *
549320 AATTACTGTTTA-ACAAATAATAAAAATTTTAAAAATATACTTTATATTTAATTCTGAATTAC
1 AATTACTATTTACA-AAATAATAAAAA--ATAAAAATATATTTTATATTAAATTTTAAATTAC
549382 TGTATATCAT
Statistics
Matches: 327, Mismatches: 32, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
101 3 0.01
102 20 0.06
103 20 0.06
104 43 0.13
105 9 0.03
106 39 0.12
107 75 0.23
108 84 0.26
109 16 0.05
110 18 0.06
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (108 bp):
AATTACTATTTACAAAATAATAAAAAATAAAAATATATTTTATATTAAATTTTAAATTACATTTT
AAAAATAATAAAAAAATTTAAAAATATTTTATATTAAATCTCA
Found at i:549582 original size:2 final size:2
Alignment explanation
Indices: 549575--549609 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
549565 TGCCTAAAAC
549575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
549610 AAGCAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:549814 original size:2 final size:2
Alignment explanation
Indices: 549807--549831 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
549797 TAAAGAATTT
549807 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
549832 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:549940 original size:19 final size:19
Alignment explanation
Indices: 549895--549940 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
549885 TTTTCTTAAT
549895 TTATATATTTTTTATAAAAA
1 TTATAT-TTTTTTATAAAAA
549915 TTA-ATTTTTTTA-ATAAAA
1 TTATATTTTTTTATA-AAAA
549933 TTATATTT
1 TTATATTT
549941 ACATCCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 6 0.25
20 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATTTTTTTATAAAAA
Found at i:549971 original size:21 final size:21
Alignment explanation
Indices: 549923--549987 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
549913 AATTAATTTT
*
549923 TTTAATAAAATTATATTTACA
1 TTTAATAAAATAATATTTACA
** *
549944 TCCAATAAAATAATATTTATA
1 TTTAATAAAATAATATTTACA
*
549965 TTTAATAAAAATAATATATACA
1 TTTAAT-AAAATAATATTTACA
549987 T
1 T
549988 ATAACATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAATAAAATAATATTTACA
Found at i:560586 original size:21 final size:21
Alignment explanation
Indices: 560534--560586 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
560524 TTTTTTCGAA
*
560534 TAAAATAATATGTACATAGAG
1 TAAAATAATATATACATAGAG
* * * *
560555 CATAATTATATATACATATAG
1 TAAAATAATATATACATAGAG
*
560576 TAAAATGATAT
1 TAAAATAATAT
560587 TTTTTTTGTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAAATAATATATACATAGAG
Found at i:560968 original size:52 final size:50
Alignment explanation
Indices: 560874--561431 Score: 353
Period size: 52 Copynumber: 11.2 Consensus size: 50
560864 TTACACATAC
* *
560874 AGTAATTCAGAATTTAATAT--AATTTTTTTAAATTTTTTATTATTTTTAAAT
1 AGTAATT-AGGATTTAATATAAAATATTTTT-AA-TTTTTATTATTTTTAAAT
560925 AGTAATTCAGGA-TTAATATAAAATATATTTTCAATTTTTATTATTTTTAAAT
1 AGTAATT-AGGATTTAATATAAAATAT-TTTT-AATTTTTATTATTTTTAAAT
* * * * *
560977 TGTAATTTGAGATTTAATATACAAT-TTTATAATTTTTATAATTTTTTAAAT
1 AGTAATTAG-GATTTAATATAAAATATTTTTAATTTTTATTA-TTTTTAAAT
* * *
561028 AGTAATTA-G-TATAAGAT---ATGTTTTTAATTTTT-TTATTTTTAAA-
1 AGTAATTAGGATTTAATATAAAATATTTTTAATTTTTATTATTTTTAAAT
* * *
561071 ATGTAATTTGAAATTTAATATAAAATATGATTTAATTTTTTTTATTATTTTTAAAT
1 A-GTAATTAG-GATTTAATATAAAATAT-TTTTAA---TTTTTATTATTTTTAAAT
** * *
561127 AACAATTCAAGATTTTATATAAAATATTTTTAATTTTTATTATTTTTTAAAT
1 AGTAATT-AGGATTTAATATAAAATATTTTTAATTTTTATTA-TTTTTAAAT
*
561179 -GATAATTTGAGATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTAAAT
1 AG-TAATTAG-GATTTAATATAAAATA-TTTTTAA-TTTTTATTATTTTTAAAT
* * ** * * *
561232 AGTAACTCAAGATTTAACGTAAAATAATTTTAATTTTTATTAGGTTTTAAAA
1 AGTAA-TTAGGATTTAATATAAAATATTTTTAATTTTTATTA-TTTTTAAAT
*
561284 AGTAATTTGAGA-TTAATAT---A-A---TT--TTTTTA-T-TTTTTAAAT
1 AGTAATTAG-GATTTAATATAAAATATTTTTAATTTTTATTATTTTTAAAT
** * * *
561323 TTTAATTCGAGATTTAAAATAAAATATGTTTTTAATTTTTATT-CTTTTAAAT
1 AGTAATTAG-GATTTAATATAAAATA--TTTTTAATTTTTATTATTTTTAAAT
* * * *
561375 AATAATTTGAGATTTAATAT-AATTA-TTTTAGTTTTTTATT-TTTTTAAAT
1 AGTAATTAG-GATTTAATATAAAATATTTTTA-ATTTTTATTATTTTTAAAT
561424 AGTAATTA
1 AGTAATTA
561432 ATAGGGAATT
Statistics
Matches: 402, Mismatches: 61, Indels: 90
0.73 0.11 0.16
Matches are distributed among these distances:
39 16 0.04
40 6 0.01
41 1 0.00
42 6 0.01
43 2 0.00
44 17 0.04
45 4 0.01
46 11 0.03
47 7 0.02
48 12 0.03
49 25 0.06
50 20 0.05
51 69 0.17
52 104 0.26
53 50 0.12
54 21 0.05
55 30 0.07
56 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (50 bp):
AGTAATTAGGATTTAATATAAAATATTTTTAATTTTTATTATTTTTAAAT
Found at i:561162 original size:105 final size:102
Alignment explanation
Indices: 560885--561430 Score: 475
Period size: 105 Copynumber: 5.5 Consensus size: 102
560875 GTAATTCAGA
* * * *
560885 ATTTAATAT-AATTTTTTTAAATTTTTTATTATTTTTAAATAGTAATTCAGGATTAATATAAAAT
1 ATTTAATATAAAATATTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAGATTAATATAAAAT
*
560949 ATATTTTCAATTTTTATTATTTTTAAATTGTAATTTGAG
66 AT-TTTT-AATTTTTATTATTTTTAAAATGTAATTTGAG
* * * *
560988 ATTTAATATACAAT-TTTATAATTTTTATAAT-TTTTTAAATAGTAATT--AG--T-ATA-AGAT
1 ATTTAATATAAAATATTT-TAATTTTTTTATTATTTTTAAATAGTAATTCAAGATTAATATA-AA
* *
561045 ATGTTTTTAATTTTT-TTATTTTTAAAATGTAATTTGAA
64 ATATTTTTAATTTTTATTATTTTTAAAATGTAATTTGAG
** *
561083 ATTTAATATAAAATATGATTTAATTTTTTTTATTATTTTTAAATAACAATTCAAGATTTTATATA
1 ATTTAATATAAAATAT--TTTAA-TTTTTTTATTATTTTTAAATAGTAATTCAAGA-TTAATATA
*
561148 AAATATTTTTAATTTTTATTATTTTTTAAATGATAATTTGAG
62 AAATATTTTTAATTTTTATTATTTTTAAAATG-TAATTTGAG
* **
561190 ATTTAATATAAAATATTTTTTAA-TTTTTTATTATTTTTAAATAGTAACTCAAGATTTAACGTAA
1 ATTTAATATAAAATA--TTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAGA-TTAATATAA
* * *
561254 AATAATTTTAATTTTTATTAGGTTTTAAAAAGTAATTTGAG
63 AATATTTTTAATTTTTATTA-TTTTTAAAATGTAATTTGAG
** * *
561295 -----AT-T--AATA---TAATTTTTTTA-T-TTTTTAAATTTTAATTCGAGATTTAAAATAAAA
1 ATTTAATATAAAATATTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAGA-TTAATATAAAA
* *
561347 TATGTTTTTAATTTTTATT-CTTTT-AAATAATAATTTGAG
65 TA--TTTTTAATTTTTATTATTTTTAAAAT-GTAATTTGAG
* *
561386 ATTTAATAT-AATTATTTT-AGTTTTTTATT-TTTTTAAATAGTAATT
1 ATTTAATATAAAATATTTTAATTTTTTTATTATTTTTAAATAGTAATT
561431 AATAGGGAAT
Statistics
Matches: 365, Mismatches: 43, Indels: 72
0.76 0.09 0.15
Matches are distributed among these distances:
90 3 0.01
91 42 0.12
92 4 0.01
93 21 0.06
95 34 0.09
96 10 0.03
97 13 0.04
98 20 0.05
99 16 0.04
100 10 0.03
101 19 0.05
103 28 0.08
104 13 0.04
105 81 0.22
106 22 0.06
107 28 0.08
109 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (102 bp):
ATTTAATATAAAATATTTTAATTTTTTTATTATTTTTAAATAGTAATTCAAGATTAATATAAAAT
ATTTTTAATTTTTATTATTTTTAAAATGTAATTTGAG
Found at i:561321 original size:91 final size:92
Alignment explanation
Indices: 561213--561412 Score: 237
Period size: 91 Copynumber: 2.2 Consensus size: 92
561203 TATTTTTTAA
* ** *
561213 TTTTTTATTATTTTTAAATAGTAACTCAAGATTTAACGTAAAATA-ATTTTAATTTTTATTAGGT
1 TTTTTTAGT-TTTTTAAATAGTAACTCAAGATTTAAAATAAAATAGATTTTAATTTTTATT--CT
561277 TTTAAA-AAGTAATTTGAGA-TTAATATAAT
63 TTTAAATAA-TAATTTGAGATTTAATATAAT
** * * *
561306 TTTTTTA-TTTTTTAAATTTTAATTCGAGATTTAAAATAAAATATGTTTTTAATTTTTATTCTTT
1 TTTTTTAGTTTTTTAAATAGTAACTCAAGATTTAAAATAAAATA-GATTTTAATTTTTATTCTTT
561370 TAAATAATAATTTGAGATTTAATATAAT
65 TAAATAATAATTTGAGATTTAATATAAT
*
561398 TATTTTAGTTTTTTA
1 TTTTTTAGTTTTTTA
561413 TTTTTTTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
91 46 0.49
92 19 0.20
93 28 0.30
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (92 bp):
TTTTTTAGTTTTTTAAATAGTAACTCAAGATTTAAAATAAAATAGATTTTAATTTTTATTCTTTT
AAATAATAATTTGAGATTTAATATAAT
Found at i:561821 original size:2 final size:2
Alignment explanation
Indices: 561814--561852 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
561804 AATTCGGGGC
561814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
561853 GGGATAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:562097 original size:19 final size:18
Alignment explanation
Indices: 562060--562098 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
562050 GTGGGTGATT
*
562060 ATTTATTTAAATTTAAAA
1 ATTTATCTAAATTTAAAA
562078 ATTTATCTAATATTTTAAAA
1 ATTTATCTAA-A-TTTAAAA
562098 A
1 A
562099 AATTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATCTAAATTTAAAA
Found at i:564252 original size:6 final size:6
Alignment explanation
Indices: 564237--564275 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
564227 AAAAAAATAC
*
564237 AAAAATG AAAAAG AAAAAG AAAAAG AAAGA- AAAAAG AAA
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
564276 GTGGAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 20 0.69
7 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:565765 original size:2 final size:2
Alignment explanation
Indices: 565758--565797 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
565748 ATTGGTTGTT
*
565758 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
565798 ATCTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:573168 original size:20 final size:23
Alignment explanation
Indices: 573155--573211 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
573145 TGATAGTAAA
573155 TAAAAAATAATGATTAATAATAT
1 TAAAAAATAATGATTAATAATAT
573178 TAAAAAATAAT--TT-A-AATAT
1 TAAAAAATAATGATTAATAATAT
*
573197 TAATAAAATACTGAT
1 TAA-AAAATAATGAT
573212 ATATTATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 2 0.07
22 1 0.03
23 11 0.37
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAAAAATAATGATTAATAATAT
Found at i:573985 original size:22 final size:20
Alignment explanation
Indices: 573940--574008 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 20
573930 TTGATACTTA
* * *
573940 AATAATTTTATTATTTTAAA
1 AATAATATTATTATTTTTAT
573960 AATATTATATTATTATTTTTAT
1 AATA--ATATTATTATTTTTAT
573982 AATAATA-T-TTATTTTTAT
1 AATAATATTATTATTTTTAT
*
574000 AATTATATT
1 AATAATATT
574009 TAAATAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 16 0.38
19 2 0.05
20 7 0.17
22 17 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATAATATTATTATTTTTAT
Found at i:573995 original size:18 final size:18
Alignment explanation
Indices: 573972--574010 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
573962 TATTATATTA
573972 TTATTTTTATAATAATAT
1 TTATTTTTATAATAATAT
*
573990 TTATTTTTATAATTATAT
1 TTATTTTTATAATAATAT
574008 TTA
1 TTA
574011 AATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTTTATAATAATAT
Found at i:574862 original size:2 final size:2
Alignment explanation
Indices: 574826--574850 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
574816 GCAAAAACAA
574826 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
574851 CACATCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:575421 original size:2 final size:2
Alignment explanation
Indices: 575414--575445 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
575404 AAACCACCAA
575414 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
575446 GACTTGTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:575931 original size:11 final size:11
Alignment explanation
Indices: 575915--576036 Score: 51
Period size: 11 Copynumber: 11.0 Consensus size: 11
575905 AAATATAATT
575915 ATATAAATATA
1 ATATAAATATA
*
575926 ATATAAAAATA
1 ATATAAATATA
575937 AT-TAAAATATA
1 ATAT-AAATATA
*
575948 ATAT-TATATGA
1 ATATAAATAT-A
*
575959 ATAT-ATTA-A
1 ATATAAATATA
575968 ATTATTAATATATCA
1 A-TA-TAA-ATAT-A
* **
575983 AAATTTATATAA
1 ATATAAATAT-A
575995 ATATAAA-ATA
1 ATATAAATATA
* *
576005 TTTTAAATATA
1 ATATAAATATA
576016 AT-TATAATATA
1 ATATA-AATATA
576027 ATA-AAATATA
1 ATATAAATATA
576037 TTAATTTAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
9 2 0.02
10 21 0.25
11 43 0.52
12 11 0.13
13 3 0.04
14 1 0.01
15 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
ATATAAATATA
Found at i:575971 original size:18 final size:18
Alignment explanation
Indices: 575921--576003 Score: 56
Period size: 18 Copynumber: 4.9 Consensus size: 18
575911 AATTATATAA
*
575921 ATATAATATA--AAAATA
1 ATATAATATATCAAAATT
* *
575937 AT-TAAAATAT-AATATT
1 ATATAATATATCAAAATT
*
575953 ATATGAATATAT-TAAATT
1 ATAT-AATATATCAAAATT
575971 AT-TAATATATCAAAATTT
1 ATATAATATATCAAAA-TT
575989 ATATAA-ATAT-AAAAT
1 ATATAATATATCAAAAT
576004 ATTTTAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
15 6 0.11
16 16 0.30
17 9 0.17
18 20 0.37
19 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATATATCAAAATT
Found at i:576029 original size:16 final size:16
Alignment explanation
Indices: 575915--576050 Score: 59
Period size: 16 Copynumber: 8.4 Consensus size: 16
575905 AAATATAATT
*
575915 ATATAAATATAATATAA
1 ATATAATTATAATAT-A
* *
575932 AAATAATTAAAATATA
1 ATATAATTATAATATA
*
575948 ATATTA-TATGAATATA
1 ATATAATTAT-AATATA
*
575964 TTA-AATTATTAATAT-
1 ATATAATTA-TAATATA
*
575979 ATCAAAATT-T-ATATAA
1 AT-ATAATTATAATAT-A
* * *
575995 ATATAA-AATATTTTAA
1 ATATAATTATAATAT-A
576011 ATATAATTATAATATA
1 ATATAATTATAATATA
* *
576027 ATAAAATATATTAATTTA
1 ATATAAT-TA-TAATATA
576045 ATATAA
1 ATATAA
576051 ACATATAAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
14 4 0.05
15 9 0.10
16 40 0.45
17 24 0.27
18 11 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
ATATAATTATAATATA
Found at i:576031 original size:36 final size:36
Alignment explanation
Indices: 575903--576036 Score: 95
Period size: 36 Copynumber: 3.8 Consensus size: 36
575893 TATGCAAATA
*
575903 TTAAATATAATTAT-ATA-AATATAATATAAAAATAAT
1 TTAAATATAATTATAATATAATA-AATAT-AAAATATT
* * * *
575939 TAAAATATAA-TATTATATGAAT--ATATTAAAT-TA
1 TTAAATATAATTATAATAT-AATAAATATAAAATATT
* * *
575972 TT-AATAT-ATCAAAATTTATATAAATATAAAATATT
1 TTAAATATAATTATAATATA-ATAAATATAAAATATT
576007 TTAAATATAATTATAATATAATAAAATATA
1 TTAAATATAATTATAATATAAT-AAATATA
576037 TTAATTTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
31 2 0.03
32 11 0.15
33 1 0.01
34 12 0.16
35 10 0.14
36 19 0.26
37 15 0.21
38 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAAATATAATTATAATATAATAAATATAAAATATT
Found at i:581253 original size:35 final size:37
Alignment explanation
Indices: 581182--581261 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 37
581172 TATGTATATG
* *
581182 TAAATATATAATTAAATTTGATATTTAAATTAAATAA
1 TAAATATATAAATAAAATTGATATTTAAATTAAATAA
** *
581219 TAAA-ATATAAATAAAATT-ATATTTATCTTGAATAA
1 TAAATATATAAATAAAATTGATATTTAAATTAAATAA
*
581254 TAATTATA
1 TAAATATA
581262 AGTTATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 17 0.47
36 15 0.42
37 4 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (37 bp):
TAAATATATAAATAAAATTGATATTTAAATTAAATAA
Found at i:581318 original size:29 final size:29
Alignment explanation
Indices: 581215--581329 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
581205 TTTAAATTAA
*
581215 ATAATAAAAT-ATAAATAAAATTATATTT
1 ATAATAAAATAATAATTAAAATTATATTT
* ** *
581243 AT-CTTGAATAATAATTATAAGTTATATTT
1 ATAATAAAATAATAATTA-AAATTATATTT
* * * *
581272 ACATTAAAAGAATTATTAAAATTATATTT
1 ATAATAAAATAATAATTAAAATTATATTT
*
581301 ATAATAAAAT-ATAAATTAAAAATATATTT
1 ATAATAAAATAAT-AATTAAAATTATATTT
581330 TATGTTAACT
Statistics
Matches: 66, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
27 4 0.06
28 10 0.15
29 42 0.64
30 10 0.15
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAATAAAATAATAATTAAAATTATATTT
Found at i:581410 original size:19 final size:18
Alignment explanation
Indices: 581368--581412 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
581358 ATAAAAAATG
*
581368 AAATATATATTTATATTAA
1 AAATA-ATATTTACATTAA
581387 AAATAATATTTACATTAA
1 AAATAATATTTACATTAA
581405 ATAATAAT
1 A-AATAAT
581413 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAATATTTACATTAA
Found at i:581441 original size:28 final size:29
Alignment explanation
Indices: 581382--581445 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
581372 ATATATTTAT
*
581382 ATTAAAAATAATATTTACATTAAATAATA
1 ATTAAAAATAATATTTACATTAAATAAAA
* *
581411 ATTAAAAATTATATTT--ATTTAATAAAAA
1 ATTAAAAATAATATTTACATTAAAT-AAAA
581439 ATTAAAA
1 ATTAAAA
581446 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.19
28 10 0.32
29 15 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTAAAAATAATATTTACATTAAATAAAA
Found at i:583748 original size:3 final size:3
Alignment explanation
Indices: 583740--583774 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
583730 TGCTTTAATC
* *
583740 TCT TCT TCT TCT GCT TCT TCT TTT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
583775 CAACTGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:584361 original size:27 final size:29
Alignment explanation
Indices: 584320--584426 Score: 85
Period size: 33 Copynumber: 3.6 Consensus size: 29
584310 TTGATATGTT
*
584320 TATATTTTATAATATTATA-ATCATATTTAAA
1 TATATTTTAT-AT-TTATATAT-AAATTTAAA
584351 -ATATTTTATATTTATATATAAATTTAAA
1 TATATTTTATATTTATATATAAATTTAAA
* * *
584379 TATATTAATAAATTTATATTATATAAATTTTAA
1 TATATT-TTATA-TT-TA-TATATAAATTTAAA
*
584412 TATA-TTTATTTTTAT
1 TATATTTTATATTTAT
584427 TTTATTATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
28 14 0.22
29 11 0.17
30 14 0.22
31 4 0.06
32 3 0.05
33 17 0.27
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (29 bp):
TATATTTTATATTTATATATAAATTTAAA
Found at i:584406 original size:15 final size:14
Alignment explanation
Indices: 584379--584408 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
584369 TAAATTTAAA
584379 TATATTAATAAATT
1 TATATTAATAAATT
584393 TATATTATATAAATT
1 TATATTA-ATAAATT
584408 T
1 T
584409 TAATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTAATAAATT
Found at i:584432 original size:11 final size:11
Alignment explanation
Indices: 584411--584467 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
584401 ATAAATTTTA
584411 ATATATTTATTT
1 ATAT-TTTATTT
*
584423 TTATTTTA-TT
1 ATATTTTATTT
*
584433 ATATTTTA-AT
1 ATATTTTATTT
584443 -TATTTTATTT
1 ATATTTTATTT
584453 ATATTTTATTT
1 ATATTTTATTT
584464 ATAT
1 ATAT
584468 AATTATATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 7 0.18
10 11 0.28
11 18 0.46
12 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATATTTTATTT
Found at i:584441 original size:30 final size:30
Alignment explanation
Indices: 584391--584467 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
584381 TATTAATAAA
* *
584391 TTTATATTATATAAATTTTAA-TATATTTATT
1 TTTATTTTAT-TATATTTTAATTAT-TTTATT
584422 TTTATTTTATTATATTTTAATTATTTTATT
1 TTTATTTTATTATATTTTAATTATTTTATT
*
584452 TATATTTTATTTATAT
1 TTTATTTTA-TTATAT
584468 AATTATATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
30 23 0.56
31 18 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTATTTTATTATATTTTAATTATTTTATT
Found at i:584448 original size:9 final size:9
Alignment explanation
Indices: 584422--584465 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
584412 TATATTTATT
584422 TTTATTTTA
1 TTTATTTTA
584431 TTATATTTTA
1 TT-TATTTTA
*
584441 ATTATTTTA
1 TTTATTTTA
584450 TTTATATTTTA
1 -TT-TATTTTA
584461 TTTAT
1 TTTAT
584466 ATAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 12 0.40
10 11 0.37
11 7 0.23
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:584454 original size:20 final size:19
Alignment explanation
Indices: 584423--584475 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
584413 ATATTTATTT
584423 TTATTTTATTATATTTTAA
1 TTATTTTATTATATTTTAA
*
584442 TTATTTTATTTATATTTTAT
1 TTATTTTA-TTATATTTTAA
* *
584462 TTATATAATTATAT
1 TTATTTTATTATAT
584476 CAAAAATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTATTATATTTTAA
Found at i:587410 original size:14 final size:14
Alignment explanation
Indices: 587387--587417 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
587377 GGTTTTCTTA
*
587387 ATTTTGTTAAATTT
1 ATTTTATTAAATTT
587401 ATTTTATTAAATTT
1 ATTTTATTAAATTT
587415 ATT
1 ATT
587418 ATAATGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
ATTTTATTAAATTT
Found at i:587439 original size:25 final size:24
Alignment explanation
Indices: 587411--587485 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
587401 ATTTTATTAA
587411 ATTTATTATAATGTTATTAATTTTT
1 ATTTATTATAATGTTA-TAATTTTT
*
587436 ATTTA-TAT--T-CTA-AA-TTTT
1 ATTTATTATAATGTTATAATTTTT
*
587454 ATATTATTATAATGTTAATATTTTTT
1 AT-TTATTATAATGTT-ATAATTTTT
587480 ATTTAT
1 ATTTAT
587486 ATTATTATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
18 6 0.15
19 5 0.13
20 3 0.08
21 2 0.05
22 2 0.05
23 1 0.03
24 4 0.10
25 10 0.26
26 6 0.15
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (24 bp):
ATTTATTATAATGTTATAATTTTT
Found at i:593809 original size:2 final size:2
Alignment explanation
Indices: 593802--593836 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
593792 TTCCTTTTTC
593802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
593837 TGAAACGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:598564 original size:27 final size:27
Alignment explanation
Indices: 598526--598578 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
598516 TGCAACCTTC
*
598526 ACTGTTTCAAATTGAATTTCATAATTT
1 ACTGTTTCAAATTGAATTTCAAAATTT
598553 ACTGTTTCAAATTGAATTTCAAAATT
1 ACTGTTTCAAATTGAATTTCAAAATT
598579 GGCGGTACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
ACTGTTTCAAATTGAATTTCAAAATTT
Found at i:609302 original size:5 final size:5
Alignment explanation
Indices: 609283--609332 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
609273 AGTATAAAAG
* * * *
609283 TAATA TAATA -AATA TGATA TAATA TATTA AAATA TAAT- TAATA AAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
609331 TA
1 TA
609333 TTTATTATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:609324 original size:19 final size:19
Alignment explanation
Indices: 609268--609330 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
609258 ATAATAATTT
* *
609268 TAATAAGTATAAAAGTAATA
1 TAATAAATATAATA-TAATA
*
609288 TAATAAATATGATATAATA
1 TAATAAATATAATATAATA
*
609307 TATTAAAATATAAT-TAATA
1 TAAT-AAATATAATATAATA
*
609326 AAATA
1 TAATA
609331 TATTTATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 19 0.54
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAATAAATATAATATAATA
Found at i:609329 original size:14 final size:14
Alignment explanation
Indices: 609284--609332 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
609274 GTATAAAAGT
* *
609284 AATATAATAAATAT
1 AATATAATTAATAA
* *
609298 GATATAATATATTAA
1 AATATAAT-TAATAA
609313 AATATAATTAATAA
1 AATATAATTAATAA
609327 AATATA
1 AATATA
609333 TTTATTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AATATAATTAATAA
Found at i:609348 original size:17 final size:16
Alignment explanation
Indices: 609328--609387 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
609318 AATTAATAAA
609328 ATATATTTATT-ATATT
1 ATATATTTATTAAT-TT
**
609344 -TATATTTAAAAATTT
1 ATATATTTATTAATTT
*
609359 AATATATTTAATAATTT
1 -ATATATTTATTAATTT
609376 ATGATATTTATT
1 AT-ATATTTATT
609388 TGTATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 10 0.28
16 4 0.11
17 22 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATATATTTATTAATTT
Found at i:609994 original size:20 final size:20
Alignment explanation
Indices: 609955--610009 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
609945 CCTGTCTAAC
*
609955 TAAAAATATTTAAA-TCTTTA
1 TAAAAA-ATTTAAATTTTTTA
609975 TAAAAAATTTAAATTTTTTA
1 TAAAAAATTTAAATTTTTTA
**
609995 T-TTAAATTTAAATTT
1 TAAAAAATTTAAATTT
610010 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAAAATTTAAATTTTTTA
Found at i:610001 original size:19 final size:19
Alignment explanation
Indices: 609979--610035 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
609969 TCTTTATAAA
609979 AAATTTAAATTTTTTATTT
1 AAATTTAAATTTTTTATTT
*
609998 AAATTTAAATTTATT-TTT
1 AAATTTAAATTTTTTATTT
610016 -AATTT-AATTATTTATATTT
1 AAATTTAAATT-TTT-TATTT
610035 A
1 A
610036 TTATTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 7 0.22
18 4 0.12
19 17 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATTTAAATTTTTTATTT
Found at i:610038 original size:13 final size:13
Alignment explanation
Indices: 610000--610044 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
609990 TTTTATTTAA
*
610000 ATTTAAATTTATT
1 ATTTATATTTATT
610013 -TTTA-ATTTAATT
1 ATTTATATTT-ATT
610025 ATTTATATTTATT
1 ATTTATATTTATT
610038 ATTTATA
1 ATTTATA
610045 ATTAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 14 0.48
14 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTATATTTATT
Found at i:610109 original size:20 final size:18
Alignment explanation
Indices: 610086--610160 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 18
610076 ATATTTATAA
610086 TTAAATTTAAATAAAAAATT
1 TTAAA-TTAAATAAAAAA-T
**
610106 TTAATTATTAAAT-ATCAAT
1 TTAA--ATTAAATAAAAAAT
*
610125 TTAAATAAAATAAAATAAAT
1 TTAAATTAAAT-AAA-AAAT
610145 TTAAATT-AATAAAAAA
1 TTAAATTAAATAAAAAA
610161 ATTATTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
17 9 0.20
18 3 0.07
19 9 0.20
20 16 0.36
21 6 0.14
22 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATTAAATAAAAAAT
Found at i:610928 original size:9 final size:9
Alignment explanation
Indices: 610914--610943 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
610904 GAGTTCTTTA
610914 AAATTTTTT
1 AAATTTTTT
610923 AAATTTTTT
1 AAATTTTTT
*
610932 ATATTTTTT
1 AAATTTTTT
610941 AAA
1 AAA
610944 AAAATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AAATTTTTT
Found at i:611641 original size:21 final size:23
Alignment explanation
Indices: 611616--611658 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
611606 AATTCTAAAG
611616 TTTTCA-AAAAA-TATGATATAT
1 TTTTCAGAAAAATTATGATATAT
*
611637 TTTTCAGAAAAATTATTATATA
1 TTTTCAGAAAAATTATGATATA
611659 GTCTTTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTTCAGAAAAATTATGATATAT
Found at i:616471 original size:21 final size:19
Alignment explanation
Indices: 616433--616472 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
616423 TGGAAGAATG
*
616433 TTTATAAAAAAAATAAGGT
1 TTTATAAAAAAAAAAAGGT
616452 TTTAGTAAAGAAAAAAAAGGT
1 TTTA-TAAA-AAAAAAAAGGT
616473 ACCAAGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (19 bp):
TTTATAAAAAAAAAAAGGT
Found at i:622611 original size:23 final size:20
Alignment explanation
Indices: 622557--622633 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
622547 AAAAACCTAG
622557 AATGTATCGATACAATAAGA
1 AATGTATCGATACAATAAGA
* *
622577 AATATATCGATACAATGAGGA
1 AATGTATCGATACAAT-AAGA
* **
622598 AGCATGTATCGATACATTAACT
1 A--ATGTATCGATACAATAAGA
622620 AATGTATCGATACA
1 AATGTATCGATACA
622634 TTTCCTTCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 28 0.60
21 4 0.09
22 2 0.04
23 13 0.28
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATAAGA
Found at i:624849 original size:2 final size:2
Alignment explanation
Indices: 624842--624880 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
624832 TTAAAGACAT
624842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
624881 TCTAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:625709 original size:10 final size:10
Alignment explanation
Indices: 625694--625718 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
625684 TATTTATTTA
625694 TTTATACTTT
1 TTTATACTTT
625704 TTTATACTTT
1 TTTATACTTT
625714 TTTAT
1 TTTAT
625719 TTATTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATACTTT
Found at i:625720 original size:24 final size:23
Alignment explanation
Indices: 625682--625739 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
625672 ATTATTATTA
*
625682 TTTAT-TTATTTATTTATACTTT
1 TTTATCTTTTTTATTTATACTTT
*
625704 TTTATACTTTTTTATTTATTCTTT
1 TTTAT-CTTTTTTATTTATACTTT
625728 TTTATCTTTTTT
1 TTTATCTTTTTT
625740 GTGGAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 5 0.16
23 7 0.22
24 20 0.62
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATCTTTTTTATTTATACTTT
Found at i:625897 original size:2 final size:2
Alignment explanation
Indices: 625890--625922 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
625880 GAGATTTTCA
*
625890 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
625923 AATAACAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:626762 original size:21 final size:21
Alignment explanation
Indices: 626736--626787 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
626726 TTTTTCTCTC
*
626736 TTTTTCTTTTTTAACAACTTT
1 TTTTTCTCTTTTAACAACTTT
**
626757 TTTTTCTCTTTTAACCGCTTTT
1 TTTTTCTCTTTTAACAAC-TTT
626779 TTTTTCTCT
1 TTTTTCTCT
626788 CCCAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.12, C:0.19, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTCTCTTTTAACAACTTT
Found at i:627595 original size:31 final size:32
Alignment explanation
Indices: 627531--627640 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 32
627521 CCATCGACTG
* * * * *
627531 GTGTGGACTTTAGAAGAAGGTTGCCACTAACTT
1 GTGTGGGCTTT-GAAAAAGGATACCACCAACTT
627564 GTGTGGGCTTTGAAAAA-GATACCACCAACTT
1 GTGTGGGCTTTGAAAAAGGATACCACCAACTT
* * * * *
627595 GTGTAGGCTTTTAAAAAGGGATGCCATCGACTT
1 GTGTGGGCTTTGAAAAA-GGATACCACCAACTT
627628 GTGTGGGCTTTGA
1 GTGTGGGCTTTGA
627641 TTCAGGTGCC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
31 26 0.41
32 5 0.08
33 32 0.51
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (32 bp):
GTGTGGGCTTTGAAAAAGGATACCACCAACTT
Found at i:627637 original size:33 final size:32
Alignment explanation
Indices: 627518--627638 Score: 104
Period size: 33 Copynumber: 3.8 Consensus size: 32
627508 TTAGAAGGAA
* * *
627518 ATGCCATCGACTGGTGTGGAC-TTTAGAAGAAGG
1 ATGCCATCAACTTGTGTGGGCTTTTA-AA-AAGG
* *
627551 TTGCCA-CTAACTTGTGTGGGCTTTGAAAAA-G
1 ATGCCATC-AACTTGTGTGGGCTTTTAAAAAGG
* * *
627582 ATACCACCAACTTGTGTAGGCTTTTAAAAAGGG
1 ATGCCATCAACTTGTGTGGGCTTTTAAAAA-GG
*
627615 ATGCCATCGACTTGTGTGGGCTTT
1 ATGCCATCAACTTGTGTGGGCTTT
627639 GATTCAGGTG
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
31 25 0.36
32 4 0.06
33 38 0.54
34 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (32 bp):
ATGCCATCAACTTGTGTGGGCTTTTAAAAAGG
Found at i:627736 original size:59 final size:59
Alignment explanation
Indices: 627684--628702 Score: 902
Period size: 59 Copynumber: 16.9 Consensus size: 59
627674 AAAAACGTCA
* * * * ** *
627684 TGCTCTTTGAGAACTAAATGGGTGCCACCAACTTTTGTGGGTTTTTTTAAAAAAAAAGTGTCT
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG-TTTTTT---AAAAAAGCATCC
* * * * *
627747 TGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTATAGGTTTTTAAAAAAAGCATCA
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAGCATCC
* * * * *
627806 TGCTCTTTGAGGA-TAGAACGGGTGCCACCAACTTGTGTGAGCTTTTAAAAAAAGCGTCT
1 TGCTCTTTGAGGACT-GAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAGCATCC
* *
627865 TGCTTTTTGAGGATTGAACGGGTGCCACCAACTTGTGTGGGCTTTTTTTAAAAAAGGCATCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG--TTTTTTAAAAAA-GCATCC
* * * * *
627927 TGCTCTTTGAGAATTGAACGGGTGCCACCAACTTATGTAGG-CTTTTAAAAAAGGCATCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA-GCATCC
* * * ** *
627986 TGCTTTTTGAGGATTGAATGGGTGTTACCAACTTGTGTGGG-CTTTTAAAAAAGGCATCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA-GCATCC
* * * ** *
628045 TGCTTTTTAAGGACGGAACCAGTGCCACCAACTTGTGTGGGCTTTTTTTAAAAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG--TTTTTT-AAAAAA-GCATCC
* *
628108 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG-CTTTTAAAAAAGGCATCT
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA-GCATCC
* * * **
628167 TGCTCTTTGAGGACTGAACGGTTGCCACCAACTTGTGTGAGCTTTTTAAAAAATGGCGCCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA--GCATCC
** * * * * *
628228 TATTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAATGCGTTC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA-GCATCC
* * * * ***
628288 TGCTTTTTGAGTACTGAACGAGTGCCACCAACTTGTGTGGACTTTGACAGAAAAATGCATCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG-GTTTTTTA-AAAAA-GCATCC
* * * * *
628350 TGTTCTTTGAGGACTGAACAGGTGCCACCAACTTGTGTAGG-CTTTTAGAAAAAGACATTC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTA-AAAAAG-CATCC
* * * * * * * * *
628410 TGTTTTTTAAGGACTAAACGAGTGCCACCAACTTATATGGGCTTTTAAAAAAAGCATCC
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAGCATCC
* * * *
628469 TGCTCTTTGAGGACTGAACGAGTGCCACCAACTTGTGTGGG-CTTTTAAAAAATGCGTCT
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAA-GCATCC
* * * * *** *
628528 TTCTCTTTGAGGACTAAATGGGTGCCACCAACCTGTGTGGGCTTTAAAAGAAAAAGGCATCT
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG-TTTTTTA-AAAAA-GCATCC
* * *
628590 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAG-ATGTCT
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAGCA--TCC
* ** **
628650 TGCTCTTTGAGGACTAAACATGTGCCACCAACTTGTGT-GGACTTTTAAAAAAG
1 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAG
628703 GTGCCACAAA
Statistics
Matches: 800, Mismatches: 135, Indels: 46
0.82 0.14 0.05
Matches are distributed among these distances:
58 11 0.01
59 341 0.43
60 149 0.19
61 74 0.09
62 141 0.18
63 84 0.10
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (59 bp):
TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGTTTTTTAAAAAAGCATCC
Found at i:627797 original size:122 final size:119
Alignment explanation
Indices: 627665--628701 Score: 1080
Period size: 122 Copynumber: 8.6 Consensus size: 119
627655 ACTCGTGCAA
* * * * * * * *
627665 GCTTTAAAAAAAAACGTCATGCTCTTTGAGAACTAAATGGGTGCCACCAACTTTTGTGGGTTTTT
1 GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGG--CTT
* * * * *
627730 TTAAAAAAAAAGTGTCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTATAG
64 TT-AAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * *
627787 GTTTTTAAAAAAAGCATCATGCTCTTTGAGGA-TAGAACGGGTGCCACCAACTTGTGTGAGCTTT
1 GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTA-AACGGGTGCCACCAACTTGTGTGGGCTTT
* * *
627851 T-AAAAAAAGCGTCTTGCTTTTTGAGGATTGAACGGGTGCCACCAACTTGTGTGG
65 TAAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * * * * *
627905 GCTTTTTTTAAAAAAGGCATCCTGCTCTTTGAGAATTGAACGGGTGCCACCAACTTATGTAGGCT
1 GC---TTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCT
* * * * * **
627970 TTT-AAAAAAGGCATCCTGCTTTTTGAGGATTGAATGGGTGTTACCAACTTGTGTGG
63 TTTAAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * * ** **
628026 GCTTTTAAAAAAGGCATCCTGCTTTTTAAGGACGGAACCAGTGCCACCAACTTGTGTGGGCTTTT
1 GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGC---T
*
628091 TTTAAAAAAAGGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
63 TTTAAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * *
628148 GCTTTTAAAAAAGGCATCTTGCTCTTTGAGGACTGAACGGTTGCCACCAACTTGTGTGAGCTTTT
1 GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGC-TTT
** * ** *
628213 TAAAAAATGGCGCCCTATTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
65 TAAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * * * *
628268 GCTTTTAAAAAAATGCGT-TCTGCTTTTTGAGTACTGAACGAGTGCCACCAACTTGTGTGGACTT
1 GCTTTTAAAAAAA-GCATCT-TGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCTT
* * * * * *
628332 TGACAGAAAAATGCATCCTGTTCTTTGAGGACTGAACAGGTGCCACCAACTTGTGTAG
64 TTA-A-AAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * * * * *
628390 GCTTTTAGAAAAAGACAT-TCTGTTTTTTAAGGACTAAACGAGTGCCACCAACTTATATGGGCTT
1 GCTTTTAAAAAAAG-CATCT-TGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCTT
* *
628454 TT-AAAAAAAGCATCCTGCTCTTTGAGGACTGAACGAGTGCCACCAACTTGTGTGG
64 TTAAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
* * * * * *
628509 GCTTTTAAAAAATGCGTCTTTCTCTTTGAGGACTAAATGGGTGCCACCAACCTGTGTGGGCTTTA
1 GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCTTTT
* *
628574 AAAGAAAAAGGCATCTTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
66 AAA-AAAAA-GCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
** *
628630 GCTTTTAAAAAAAG-ATGTCTTGCTCTTTGAGGACTAAACATGTGCCACCAACTTGTGTGGACTT
1 GCTTTTAAAAAAAGCA--TCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCTT
628694 TTAAAAAA
64 TTAAAAAA
628702 GGTGCCACAA
Statistics
Matches: 782, Mismatches: 113, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
118 136 0.17
119 62 0.08
120 81 0.10
121 210 0.27
122 293 0.37
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (119 bp):
GCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTAAACGGGTGCCACCAACTTGTGTGGGCTTTT
AAAAAAAAGCGTCCTGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGG
Found at i:628133 original size:302 final size:297
Alignment explanation
Indices: 627684--628701 Score: 1102
Period size: 302 Copynumber: 3.4 Consensus size: 297
627674 AAAAACGTCA
* * * * * * ** *
627684 TGCTCTTTGAGAACTAAATGGGTGCCACCAACTTTTGTGGGTTTTTTTAAAAAAAAAGTGTCTTG
1 TGCTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGG--CTTTT--AAAAAAAGCATCCTG
* * * * *
627749 CTCTTTGAGGACTAAACGGGTGCCACCAACTTGTATAGG-TTTTTAAAAAAA-GCATCATGCTCT
62 CTTTTTGAGGAC-GAACAGGTGCCACCAACTTGTGTAGGCTTTTTAAAAAAAGGCATCCTGCTCT
* * *
627812 TTGAGGA-TAGAACGGGTGCCACCAACTTGTGTGAGCTTTTAAAAAAAGCGTCTTGCTTTTTGAG
126 TTGAGGACT-GAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCTTGCTCTTTGAG
* * * * *
627876 GATTGAACGGGTGCCACCAACTTGTGTGGGCTTTTTTTAAAAAAGGCATCCTGCTCTTTGAGAAT
190 GACTGAACGGGTGCCACCAACTTGTGTGGGC--TTTTTAAAAAAGGCGTCCTACTCTTTGAGGAC
* *
627941 TGAACGGGTGCCACCAACTTATGTAGGCTTTTAAAAAAGGCATCC
253 TGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCATCC
* * ** *
627986 TGCTTTTTGAGGATTGAATGGGTGTTACCAACTTGTGTGGGCTTTTAAAAAAGGCATCCTGCTTT
1 TGCTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCCTGCTTT
* * *
628051 TTAAGGACGGAACCA-GTGCCACCAACTTGTGTGGGCTTTTTTTAAAAAAAGGCGTCCTGCTCTT
66 TTGAGGAC-GAA-CAGGTGCCACCAACTTGTGTAGGC--TTTTTAAAAAAAGGCATCCTGCTCTT
*
628115 TGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCATCTTGCTCTTTGAGGA
127 TGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCTTGCTCTTTGAGGA
* * * * *
628180 CTGAACGGTTGCCACCAACTTGTGTGAGCTTTTTAAAAAATGGCGCCCTATTTTTTGAGGACTGA
192 CTGAACGGGTGCCACCAACTTGTGTGGGCTTTTTAAAAAA-GGCGTCCTACTCTTTGAGGACTGA
* * *
628245 ACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAATGCGTTC
256 ACGGGTGCCACCAACTTGTGTGGGCTTTT-AAAAAAGGCATCC
* * * *
628288 TGCTTTTTGAGTACTGAACGAGTGCCACCAACTTGTGTGGACTTTGACAGAAAAATGCATCCTG-
1 TGCTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTA-A-AAAAA-GCATCCTGC
* * * * *
628352 TTCTTTGAGGACTGAACAGGTGCCACCAACTTGTGTAGGC-TTTTAGAAAAAGACATTCTGTTTT
63 TT-TTTGAGGAC-GAACAGGTGCCACCAACTTGTGTAGGCTTTTTAAAAAAAGGCATCCTGCTCT
* * * * * *
628416 TTAAGGACTAAACGAGTGCCACCAACTTATATGGGCTTTTAAAAAAAGCATCCTGCTCTTTGAGG
126 TTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCTTGCTCTTTGAGG
* * * * *
628481 ACTGAACGAGTGCCACCAACTTGTGTGGGC-TTTTAAAAAATGCGTCTTTCTCTTTGAGGACTAA
191 ACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTTAAAAAAGGCGTCCTACTCTTTGAGGACTGA
* * * *
628545 ATGGGTGCCACCAACCTGTGTGGGCTTTAAAAGAAAAAGGCATCT
256 ACGGGTGCCACCAACTTGTGTGGGCTTT--TA-AAAAAGGCATCC
* *
628590 TGCTCTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAG-ATGTCTTGCT
1 TGCTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCA--TCCTGCT
* * *
628654 CTTTGAGGACTAAACATGTGCCACCAACTTGTGT-GGAC-TTTTAAAAAA
64 TTTTGAGGAC-GAACAGGTGCCACCAACTTGTGTAGG-CTTTTTAAAAAA
628702 GGTGCCACAA
Statistics
Matches: 604, Mismatches: 92, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
298 42 0.07
299 4 0.01
300 108 0.18
301 69 0.11
302 332 0.55
303 2 0.00
304 8 0.01
305 39 0.06
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (297 bp):
TGCTTTTTGAGGACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCCTGCTTT
TTGAGGACGAACAGGTGCCACCAACTTGTGTAGGCTTTTTAAAAAAAGGCATCCTGCTCTTTGAG
GACTGAACGGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGCATCTTGCTCTTTGAGGACTGA
ACGGGTGCCACCAACTTGTGTGGGCTTTTTAAAAAAGGCGTCCTACTCTTTGAGGACTGAACGGG
TGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCATCC
Found at i:628707 original size:32 final size:32
Alignment explanation
Indices: 628671--628735 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
628661 GACTAAACAT
*
628671 GTGCCACCAACTTGTGTGGACTTTTAAAAAAG
1 GTGCCACAAACTTGTGTGGACTTTTAAAAAAG
*
628703 GTGCCACAAACTTGTGTGGGCTTTTAAAAAAG
1 GTGCCACAAACTTGTGTGGACTTTTAAAAAAG
628735 G
1 G
628736 CGTCCTGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (32 bp):
GTGCCACAAACTTGTGTGGACTTTTAAAAAAG
Found at i:628768 original size:91 final size:93
Alignment explanation
Indices: 628610--628797 Score: 281
Period size: 91 Copynumber: 2.0 Consensus size: 93
628600 GGACTGAACG
* * * * *
628610 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGATGTCTTGCTCTTTGAGGACTAAACATGTGC
1 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAAGACGTCCTGCTCTTTGAAGACTAAACAGGTGC
628675 CACCAACTTGTGTGGACTTTT-AAAAAA
66 CACCAACTTGTGTGGACTTTTAAAAAAA
* **
628702 GGTGCCACAAACTTGTGTGGGCTTTT-AAAAAAGGCGTCCTGCTCTTTGAAGACTAAATGGGTGC
1 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAAGACGTCCTGCTCTTTGAAGACTAAACAGGTGC
*
628766 CACCAACTTGTGTGGGCTTTTAAAAAAA
66 CACCAACTTGTGTGGACTTTTAAAAAAA
628794 GGTG
1 GGTG
628798 TCATGCTCTT
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 51 0.59
92 35 0.41
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (93 bp):
GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAAGACGTCCTGCTCTTTGAAGACTAAACAGGTGC
CACCAACTTGTGTGGACTTTTAAAAAAA
Found at i:628852 original size:151 final size:153
Alignment explanation
Indices: 628548--628854 Score: 449
Period size: 151 Copynumber: 2.0 Consensus size: 153
628538 GGACTAAATG
* * * *
628548 GGTGCCACCAACCTGTGTGGGCTTTAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTGAACGGGT
1 GGTGCCACAAACCTGTGTGGGCTTT-AAAGAAAAAGGCATCCTGCTCTTTGAAGACTAAACGGGT
* *
628613 GCCACCAACTTGTGTGGGCTTTTAAAAAAAGATGTCTTGCTCTTTGAGGACTAAACATGTGCCAC
65 GCCACCAACTTGTGTGGGCTTTTAAAAAAAGATGTCATGCTCTTTGAAGACTAAACATGTGCCAC
* *
628678 CAACTTGTGTGGACTTTTAAAAAA
130 AAAATTGTGTGGACTTTTAAAAAA
* * * *
628702 GGTGCCACAAACTTGTGTGGGCTTT-TA-AAAAAGGCGTCCTGCTCTTTGAAGACTAAATGGGTG
1 GGTGCCACAAACCTGTGTGGGCTTTAAAGAAAAAGGCATCCTGCTCTTTGAAGACTAAACGGGTG
*
628765 CCACCAACTTGTGTGGGCTTTTAAAAAAAGGTGTCATGCTCTTTGAAGACTAAACGA-GTGCCAC
66 CCACCAACTTGTGTGGGCTTTTAAAAAAAGATGTCATGCTCTTTGAAGACTAAAC-ATGTGCCAC
*
628829 AAAATTGTGTGGGCTTTTAAAAAA
130 AAAATTGTGTGGACTTTTAAAAAA
628853 GG
1 GG
628855 CGTCTTGCTC
Statistics
Matches: 138, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
151 113 0.82
152 2 0.01
154 23 0.17
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (153 bp):
GGTGCCACAAACCTGTGTGGGCTTTAAAGAAAAAGGCATCCTGCTCTTTGAAGACTAAACGGGTG
CCACCAACTTGTGTGGGCTTTTAAAAAAAGATGTCATGCTCTTTGAAGACTAAACATGTGCCACA
AAATTGTGTGGACTTTTAAAAAA
Found at i:628910 original size:59 final size:59
Alignment explanation
Indices: 628702--629180 Score: 593
Period size: 59 Copynumber: 8.1 Consensus size: 59
628692 TTTTAAAAAA
* * *
628702 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAAGACTAAATG
1 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * *
628761 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGGTGTCATGCTCTTTGAAGACTAAACG
1 GGTGCCACCAACTTGTGTGGGCTTTT-AAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * * * * *
628821 AGTGCCACAAAATTGTGTGGGCTTTTAAAAAAGGCGTCTTGCTCTATGAGGACTGAACG
1 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * * * * * * *
628880 GG-GGCTCCAACTTATGTGAGCTTTTAAAAAAGGCATCATTCTCTTTGAGGACTGAACG
1 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * * * *
628938 GGTGCCCCCAACTTGTGTGGGCTTTAAGAAAAAAAGCATCCTGCTCTTTGAGGACTGAACG
1 GGTGCCACCAACTTGTGTGGGCTTT--TAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * * * *
628999 GGTGCCACCAACTTGTGTGTGCTTTTAAAAAAGGCATCCTGTTCTTTGTGGACTAAACA
1 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
*
629058 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACG
1 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
* * *
629117 GGTGCCACCAACTTGTGTGGGC-TTTAAGAGAAAAGCGTCCTGCTCTTTGAGGATTAAAAG
1 GGTGCCACCAACTTGTGTGGGCTTTTAA-A-AAAGGCGTCCTGCTCTTTGAGGACTAAACG
629177 GGTG
1 GGTG
629181 TTAAGTTTCA
Statistics
Matches: 365, Mismatches: 49, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
58 53 0.15
59 176 0.48
60 83 0.23
61 53 0.15
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (59 bp):
GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACG
Found at i:628970 original size:119 final size:118
Alignment explanation
Indices: 628702--629141 Score: 578
Period size: 119 Copynumber: 3.7 Consensus size: 118
628692 TTTTAAAAAA
* *
628702 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAAGACTAAATGGGTGCC
1 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACGGGTGCC
** * *
628767 ACCAACTTGTGTGGGCTTTTAAAAAAAGGTGTCATGCTCTTTGAAGACTAAACG
66 ACCAACTTGTGTGGGCTTTT-AAAAAAGGCATCATTCTCTTTGAGGACTAAACG
* * * * * *
628821 AGTGCCACAAAATTGTGTGGGCTTTTAAAAAAGGCGTCTTGCTCTATGAGGACTGAACGGG-GGC
1 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACGGGTGCC
* * * *
628885 TCCAACTTATGTGAGCTTTTAAAAAAGGCATCATTCTCTTTGAGGACTGAACG
66 ACCAACTTGTGTGGGCTTTTAAAAAAGGCATCATTCTCTTTGAGGACTAAACG
* * * * * *
628938 GGTGCCCCCAACTTGTGTGGGCTTTAAGAAAAAAAGCATCCTGCTCTTTGAGGACTGAACGGGTG
1 GGTGCCACAAACTTGTGTGGGCTTT--TAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACGGGTG
* * * *
629003 CCACCAACTTGTGTGTGCTTTTAAAAAAGGCATCCTGT-TCTTTGTGGACTAAACA
64 CCACCAACTTGTGTGGGCTTTTAAAAAAGGCATCAT-TCTCTTTGAGGACTAAACG
* *
629058 GGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGCC
1 GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACGGGTGCC
629123 ACCAACTTGTGTGGGCTTT
66 ACCAACTTGTGTGGGCTTT
629142 AAGAGAAAAG
Statistics
Matches: 277, Mismatches: 40, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
117 49 0.18
118 72 0.26
119 85 0.31
120 70 0.25
121 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (118 bp):
GGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAACGGGTGCC
ACCAACTTGTGTGGGCTTTTAAAAAAGGCATCATTCTCTTTGAGGACTAAACG
Found at i:629163 original size:178 final size:177
Alignment explanation
Indices: 628701--629174 Score: 628
Period size: 178 Copynumber: 2.7 Consensus size: 177
628691 CTTTTAAAAA
* * * *
628701 AGGTGCCACAAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAAGACTAAATGGGTGC
1 AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGC
* * *
628766 CACCAACTTGTGTGGGCTTTTAA-AAAAAGGTGTCATGCTCTTTGAAGACTAAACGAGTGCCACA
66 CACCAACTTGTGTGGGC-TTTAAGAAAAA-GCGTCCTGCTCTTTGAGGACTAAACGAGTGCCACA
* * *
628830 AAATTGTGTGGGCTTTTAAAAAAGGCGTCTTGCTCTATGAGGACTGAAC
129 AAATTGTGTGGGCTTTTAAAAAAGGCATCCTGCTCTATGAGGACTAAAC
* * * * * * * *
628879 -GGGGGCTCCAACTTATGTGAGCTTTTAAAAAAGGCATCATTCTCTTTGAGGACTGAACGGGTGC
1 AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGC
* * * * *
628943 CCCCAACTTGTGTGGGCTTTAAGAAAAAAAGCATCCTGCTCTTTGAGGACTGAACGGGTGCCACC
66 CACCAACTTGTGTGGGCTTTAAG--AAAAAGCGTCCTGCTCTTTGAGGACTAAACGAGTGCCACA
* * * * *
629008 AACTTGTGTGTGCTTTTAAAAAAGGCATCCTGTTCTTTGTGGACTAAAC
129 AAATTGTGTGGGCTTTTAAAAAAGGCATCCTGCTCTATGAGGACTAAAC
629057 AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGC
1 AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGC
*
629122 CACCAACTTGTGTGGGCTTTAAGAGAAAAGCGTCCTGCTCTTTGAGGATTAAA
66 CACCAACTTGTGTGGGCTTTAAGA-AAAAGCGTCCTGCTCTTTGAGGACTAAA
629175 AGGGTGTTAA
Statistics
Matches: 251, Mismatches: 40, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
176 5 0.02
177 69 0.27
178 94 0.37
179 83 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (177 bp):
AGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCATGCTCTTTGAGGACTAAACGGGTGC
CACCAACTTGTGTGGGCTTTAAGAAAAAGCGTCCTGCTCTTTGAGGACTAAACGAGTGCCACAAA
ATTGTGTGGGCTTTTAAAAAAGGCATCCTGCTCTATGAGGACTAAAC
Found at i:630078 original size:43 final size:43
Alignment explanation
Indices: 630017--630099 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
630007 ATTCTTGAAG
* *
630017 TCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAA
1 TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAA
*
630060 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
630100 TCCATCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAA
Found at i:630098 original size:21 final size:21
Alignment explanation
Indices: 630031--630098 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
630021 ATGTAGTTGG
*
630031 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* ** *
630052 CCTTTAAATCCAATATAGCTGG--
1 CC-TTGAAT-CAGCATA-TTGGCA
630074 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
630095 CCTT
1 CCTT
630099 TTCCATCTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.33
22 7 0.21
23 4 0.12
24 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:630131 original size:52 final size:53
Alignment explanation
Indices: 630053--630206 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 53
630043 ACATTGGCAC
*
630053 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * * *
630105 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCTCAT
* * * * * *
630160 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
630207 ATCACTTTTC
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
52 37 0.45
53 4 0.05
54 5 0.06
55 36 0.44
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:630297 original size:49 final size:49
Alignment explanation
Indices: 630225--630418 Score: 256
Period size: 49 Copynumber: 4.0 Consensus size: 49
630215 TCTCATCTTC
* *
630225 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
630274 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C---
1 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
*
630319 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT
1 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT
* * *
630367 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 --ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
630419 TTCTCATCTT
Statistics
Matches: 128, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
43 41 0.32
44 1 0.01
48 1 0.01
49 42 0.33
52 41 0.32
53 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:630316 original size:116 final size:120
Alignment explanation
Indices: 630102--630323 Score: 299
Period size: 116 Copynumber: 1.9 Consensus size: 120
630092 GCACCTTTTC
* *
630102 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATC--TCTTCTCATCTTTAAG
* * * *
630167 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
64 CCCAATATAGCTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
* * *
630224 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CTT-T-ATCTTTAAGTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTCTTCTCATCTTTAAGCC
* *
630285 CAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
66 CAATATAGCTGGCCGTGAATCAACACATTGGCACCTTTA
630324 AGTCCAATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 43 0.48
117 1 0.01
118 2 0.02
121 1 0.01
122 42 0.47
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (120 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTCTTCTCATCTTTAAGCC
CAATATAGCTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
Found at i:630337 original size:43 final size:43
Alignment explanation
Indices: 630276--630365 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
630266 GCACCTTTAT
630276 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
630319 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
630362 CTTT
1 CTTT
630366 TCCATCTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:630343 original size:22 final size:22
Alignment explanation
Indices: 630276--630343 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
630266 GCACCTTTAT
630276 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * *
630298 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATATAGCTGGC
630319 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
630341 CTT
1 CTT
630344 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:630397 original size:52 final size:55
Alignment explanation
Indices: 630319--630429 Score: 165
Period size: 52 Copynumber: 2.1 Consensus size: 55
630309 ACATTGGCAC
* *
630319 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
630371 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
630426 CTTT
1 CTTT
630430 GAACCCAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
52 38 0.73
53 2 0.04
54 5 0.10
55 7 0.13
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:630476 original size:266 final size:267
Alignment explanation
Indices: 629996--630536 Score: 892
Period size: 266 Copynumber: 2.0 Consensus size: 267
629986 TATTCGACGT
* *
629996 ATTGGCACCTTATTCTTGAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAAT
1 ATTGGCACCTTATTCTTGAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAAT
630061 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGG
66 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGG
*
630126 CCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCA
131 CCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCA
* *
630191 ACATATTGGCATCTTTATCACTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
196 ACATATTGGCATCTTTATCACTTTTCATCATCATCATCTTTAAGTCCAATGTCGCAGGCCTTGAA
630255 TCAGCAC
261 TCAGCAC
* *
630262 ATTGGCACCTT-TATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
1 ATTGGCACCTTAT-TCTTGAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAA
630326 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTG
65 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTG
*
630391 GCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTGAA-CCCAATATCGTTGGTCGTGAAT
130 GCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTT-AAGCCCAATATCGTTGGCCGTGAAT
* * * * *
630455 CAACGTATTGGTCCT-TTTATCACTTTTCATCCTCATCATCTTTAAGTCCAGTGTTGCAGGCCTT
194 CAACATATTGG-CATCTTTATCACTTTTCATCATCATCATCTTTAAGTCCAATGTCGCAGGCCTT
*
630519 GAATCTGCAC
258 GAATCAGCAC
*
630529 AGTGGCAC
1 ATTGGCAC
630537 ATTGCAAAAC
Statistics
Matches: 256, Mismatches: 15, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
265 1 0.00
266 205 0.80
267 50 0.20
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (267 bp):
ATTGGCACCTTATTCTTGAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAAT
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGG
CCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCA
ACATATTGGCATCTTTATCACTTTTCATCATCATCATCTTTAAGTCCAATGTCGCAGGCCTTGAA
TCAGCAC
Found at i:631153 original size:13 final size:13
Alignment explanation
Indices: 631135--631191 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
631125 CATAAAGTGT
631135 TGTATCGATACAA
1 TGTATCGATACAA
631148 TGTATCGATACATAA
1 TGTATCGATAC--AA
631163 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
631180 TGTATCGATACA
1 TGTATCGATACA
631192 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:631170 original size:32 final size:32
Alignment explanation
Indices: 631115--631212 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
631105 TTCAACGATT
631115 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
631148 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
631180 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
631212 T
1 T
631213 ATAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:631172 original size:19 final size:18
Alignment explanation
Indices: 631113--631210 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
631103 ATTTCAACGA
631113 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
631132 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
631148 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
631164 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
631180 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
631196 TTTTGTATCGATACA
1 -TTTGTATCGATACA
631211 ATATAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:631250 original size:13 final size:13
Alignment explanation
Indices: 631232--631256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
631222 TACCAAAAAA
631232 TGTATCGATACAT
1 TGTATCGATACAT
631245 TGTATCGATACA
1 TGTATCGATACA
631257 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:631323 original size:52 final size:52
Alignment explanation
Indices: 631265--631393 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
631255 CACTGATCTT
631265 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
631317 TGTATCGATACATG-TAGTCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAAG-CAAATTTGCCCAGATGTATCGATACACTATAAAA
*
631369 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAAGCAAATTT
631394 TCATATTTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
51 2 0.03
52 67 0.96
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:647329 original size:13 final size:13
Alignment explanation
Indices: 647313--647362 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
647303 TACATTGTAA
647313 AATGTATCGATAC
1 AATGTATCGATAC
647326 AATG-A--G-TA-
1 AATGTATCGATAC
647334 A-TGTATCGATAC
1 AATGTATCGATAC
647346 AATGTATCGATAC
1 AATGTATCGATAC
647359 AATG
1 AATG
647363 CAAAATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 19 0.61
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:647336 original size:20 final size:18
Alignment explanation
Indices: 647293--647400 Score: 91
Period size: 20 Copynumber: 5.8 Consensus size: 18
647283 AAAATGCCTG
* *
647293 AATGTATTGATACATTGTAA
1 AATGTATCGATACAATG--A
647313 AATGTATCGATACAATGA
1 AATGTATCGATACAATGA
647331 GTAATGTATCGATAC-----
1 --AATGTATCGATACAATGA
647346 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG--A
647366 AATGTATCGATACAATGAA
1 AATGTATCGATACAATG-A
647385 CAATGTATCGATACAA
1 -AATGTATCGATACAA
647401 ATTATGAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
13 13 0.17
18 1 0.01
19 2 0.03
20 60 0.79
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (18 bp):
AATGTATCGATACAATGA
Found at i:647355 original size:33 final size:33
Alignment explanation
Indices: 647313--647382 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
647303 TACATTGTAA
*
647313 AATGTATCGATACAATG-AGTAATGTATCGATAC
1 AATGTATCGATACAATGCA-AAATGTATCGATAC
647346 AATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
647379 AATG
1 AATG
647383 AACAATGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:647358 original size:53 final size:53
Alignment explanation
Indices: 647293--647400 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
647283 AAAATGCCTG
* * * **
647293 AATGTATTGATACATTGTAAAATGTATCGATACAATGAGTAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATACAATGAACAATGTATCGATAC
647346 AATGTATCGATACAATGCAAAATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATACAATGAACAATGTATCGATAC
647399 AA
1 AA
647401 ATTATGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGCAAAATGTATCGATACAATGAACAATGTATCGATAC
Found at i:648040 original size:41 final size:39
Alignment explanation
Indices: 647956--648048 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 39
647946 GTCCCACTTT
* *
647956 TTGAGGACAAAGGAAAAAAGAATGAAATAAGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAGGAAAT-AGTCCTGCTCC
* *
647996 TTGAGAACAAAGGAAAAAAGAAAAGGAAAGT-GTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAG--AAGGAAA-TAGTCCTGCTCC
648037 TTGAGGACAAAG
1 TTGAGGACAAAG
648049 TGGAAAAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 19 0.42
41 19 0.42
42 6 0.13
43 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (39 bp):
TTGAGGACAAAGGAAAAAAGAAGGAAATAGTCCTGCTCC
Found at i:648202 original size:45 final size:42
Alignment explanation
Indices: 648087--648226 Score: 147
Period size: 45 Copynumber: 3.2 Consensus size: 42
648077 GATAAAGGAA
* *
648087 AAAAGGAAAATGAAATGGTCCTGCTCTTTGAGGACAAAAGA-
1 AAAAGAAAAATGAAGTGGTCCTGCTCTTTGAGGACAAAAGAG
* * * *
648128 AAGAGGAAAAATAAAGTGCATCCTACTCTTTGAGGACAAAAGAG
1 AA-AAGAAAAATGAAGTG-GTCCTGCTCTTTGAGGACAAAAGAG
* *
648172 AAAAGAAGGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAG
1 AAAAGAA--AAATGAAGTG-GTCCTGCTCTTTGAGGACAAAAGAG
*
648217 AAAAGGAAAA
1 AAAAGAAAAA
648227 GGCATCCTAC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.03
42 11 0.14
43 28 0.35
44 2 0.03
45 36 0.46
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.18
Consensus pattern (42 bp):
AAAAGAAAAATGAAGTGGTCCTGCTCTTTGAGGACAAAAGAG
Found at i:648202 original size:88 final size:82
Alignment explanation
Indices: 648095--648252 Score: 212
Period size: 83 Copynumber: 1.8 Consensus size: 82
648085 AAAAAAGGAA
648095 AATGAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAA-ATAAAGTGCATCCTACTCTTT
1 AATGAAATGGTCCTGCTCTTTGAGGAC-AAAG---GA-GAAAAGA-AAAG-GCATCCTACTCTTT
648159 GAGGAC-AAAAGAGAAAAGAAGGG
59 GAGGACTAAAAGAGAAAAGAAGGG
*
648182 AATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTACTCTTTGAGGA
1 AATGAAATG-GTCCTGCTCTTTGAGGACAAAGGAGAAAA-GAAAAGGCATCCTACTCTTTGAGGA
648247 CTAAAA
64 CTAAAA
648253 AGTGCCACCA
Statistics
Matches: 66, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
83 25 0.38
84 10 0.15
85 1 0.02
87 12 0.18
88 18 0.27
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (82 bp):
AATGAAATGGTCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAAGGCATCCTACTCTTTGAGGACT
AAAAGAGAAAAGAAGGG
Found at i:648243 original size:83 final size:85
Alignment explanation
Indices: 648095--648252 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 85
648085 AAAAAAGGAA
648095 AATGAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAATAAAGTGCATCCTACTCTTTG
1 AATGAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAGG---AATAAAGTGCATCCTACTCTTTG
648160 AGGAC-AAAAGAGAAAAGAAGGG
63 AGGACTAAAAGAGAAAAGAAGGG
*
648182 AATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAAA-AGG-A-AAAG-GCATCCTACTCTTTG
1 AATGAAATG-GTCCTGCTCTTTGAGGACAAA--AGAAAGAGGAATAAAGTGCATCCTACTCTTTG
648243 AGGACTAAAA
63 AGGACTAAAA
648253 AGTGCCACCA
Statistics
Matches: 66, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
83 20 0.30
84 8 0.12
85 1 0.02
87 8 0.12
88 21 0.32
89 3 0.05
90 5 0.08
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (85 bp):
AATGAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAATAAAGTGCATCCTACTCTTTGAGG
ACTAAAAGAGAAAAGAAGGG
Found at i:648395 original size:122 final size:124
Alignment explanation
Indices: 648216--648466 Score: 357
Period size: 122 Copynumber: 2.0 Consensus size: 124
648206 GGACAAAGGA
* *
648216 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGAGTGGGCTTTGAA
1 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGAGTGGGCTTTAAA
* * * *
648281 AAGAAAAGGCTTCCTGCTTTTTAAGGACTAG-AAGGTGCCACCAATTTGTATGGGCTTT
66 AAGAAAAGGCGTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTT
** * *
648339 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-CAAAGTGCCACCAACTC-ATGTGGGCTTTAA
1 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGA-GTGGGCTTTAA
* *
648402 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
65 AAAGAAAAGGCGTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTT
648462 -AAAAG
1 GAAAAG
648467 GGAAAAGAAG
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
121 1 0.01
122 60 0.53
123 53 0.46
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (124 bp):
GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGAGTGGGCTTTAAA
AAGAAAAGGCGTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTT
Found at i:648461 original size:62 final size:61
Alignment explanation
Indices: 648217--648465 Score: 311
Period size: 61 Copynumber: 4.1 Consensus size: 61
648207 GACAAAGGAG
* * * *
648217 AAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGAGTGGGCTTT
1 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* * * * * * * * *
648278 GAAAAGAAAAGGCTTCCTGCTTTTTAAGGACTAGAAGGTGCCACCAATTTGTATGGGCTTT
1 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* * * *
648339 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-CAAAGTGCCACCAACTCATGTGGGCTTT
1 AAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
*
648400 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTT
648462 AAAA
1 AAAA
648466 GGGAAAAGAA
Statistics
Matches: 158, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
60 25 0.16
61 82 0.52
62 51 0.32
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (61 bp):
AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:648641 original size:60 final size:60
Alignment explanation
Indices: 648517--649639 Score: 1235
Period size: 60 Copynumber: 18.1 Consensus size: 60
648507 AAGGGGGAAT
* * * *
648517 AAAGTGCGTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * *
648579 AAAGGCGTCTTGCTCTTTGAGGACTAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--A
* * * * * * * * * *
648641 AAAGACTGCCCTACTATTTGAGGACTGGAGGGTGCCACCAACTCGTATGGGCTTTGAAAGGA
1 AAAGGC-GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
*
648703 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
*
648764 AAAGGCGTCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--A
* * * * * * * * ** * *
648826 AAAGGCGTCTTACTCTTTGAGGACTGGAGGGTACTACCAACTCGTATGCACTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
648887 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-----A
648952 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-A
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * * * *
649011 AAAGGCGTCCTGCTCTTTGAGGACTGGAGGGTGACACCAACTCGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
649072 AAAGGC-TCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG---A
* * * * ** ** *
649134 AAAGGCGTCCTACTCTTTGAGGAGTGGAGGGTGCCACCAACTCATGTGGGC-TTGGAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
649194 GAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* **
649255 AAATGTTTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * *
649315 ACAGGCGTCCTGCTCTTTGAGGACAAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAAGGGAA
1 AAAGGCGTCCTGCTCTTTGAGGAC--TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA--G--
649380 AA
60 -A
* * *
649382 AAAGGAAATAAAGTGCGTCTTACTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGG------CGT-C--CTG-CTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTA
*
649447 AAAGGA
55 AAAAGA
* *
649453 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
*
649514 AAATGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * * *
649574 AAAGGCGTCCTGCTCTTTGAGAACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
649635 AAAGG
1 AAAGG
649640 TTGCTTTACT
Statistics
Matches: 896, Mismatches: 124, Indels: 83
0.81 0.11 0.08
Matches are distributed among these distances:
59 53 0.06
60 281 0.31
61 254 0.28
62 81 0.09
63 61 0.07
64 48 0.05
65 60 0.07
67 5 0.01
71 6 0.01
73 2 0.00
74 2 0.00
75 2 0.00
76 29 0.03
77 12 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (60 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
Found at i:648734 original size:61 final size:61
Alignment explanation
Indices: 648517--649639 Score: 1235
Period size: 61 Copynumber: 18.1 Consensus size: 61
648507 AAGGGGGAAT
* * *
648517 AAAGTGCGTCCTGCTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
648579 AAAGGCGTCTTGCTCTTTGAGGACTAAA-GGTGCCACTAACTTGTGTGGCCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GA
* * * * ** * * *
648641 AAAGACTGCCCTACTATTTGAGGACTGGAGGGTGCCACCAACTCGTATGGGCTTTGAAAGGA
1 AAAGGC-GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
648703 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
648764 AAAGGCGTCCTGCTCTTTAAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GA
* * ** * * * * ** *
648826 AAAGGCGTCTTACTCTTTGAGGACTGGAGGGTACTACCAACTCGTATGCACTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
648887 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG----G
648951 A
61 A
*
648952 AAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAA-AA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
** * * *
649011 AAAGGCGTCCTGCTCTTTGAGGACTGGAGGGTGACACCAACTCGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
649072 AAAGGC-TCCTACTCTTTGAGGACTAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--GA
* * ** ** **
649134 AAAGGCGTCCTACTCTTTGAGGAGTGGAGGGTGCCACCAACTCATGTGGGC-TTGGAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
649194 GAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* ** *
649255 AAATGTTTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * ** *
649315 ACAGGCGTCCTGCTCTTTGAGGACAAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAAGGGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT-AAAA-GG--
649380 AA
61 -A
* *
649382 AAAGGAAATAAAGTGCGTCTTACTCTTTGAGGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGG------CGT-C--CTG-CTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTT
*
649446 GAAAGGA
55 AAAAGGA
* *
649453 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
649514 AAATGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* ** *
649574 AAAGGCGTCCTGCTCTTTGAGAACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
649635 AAAGG
1 AAAGG
649640 TTGCTTTACT
Statistics
Matches: 892, Mismatches: 128, Indels: 83
0.81 0.12 0.08
Matches are distributed among these distances:
59 50 0.06
60 264 0.30
61 274 0.31
62 82 0.09
63 63 0.07
64 46 0.05
65 55 0.06
67 5 0.01
71 6 0.01
73 2 0.00
74 3 0.00
75 5 0.01
76 25 0.03
77 12 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:648922 original size:308 final size:307
Alignment explanation
Indices: 648517--649639 Score: 1345
Period size: 308 Copynumber: 3.6 Consensus size: 307
648507 AAGGGGGAAT
* *
648517 AAAGTGCGTCCTGCTCTTTGAGGACTAGGA-GGTGCCACCAACTTGTGT-GAGCTTTGAAAGGAA
1 AAAG-GCGTCCTACTCTTTGAGGACT-GGAGGGTGCCACCAACTCGTGTGGA-CTTTGAAAGGAA
* * *
648580 AAGGCGTCTTGCTCTTTGAGGACTAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAAGAAAAAAG
63 AAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAG
* * * * * * *
648645 ACTGCCCTACTATTTGAGGACTGGAGGGTGCCACCAACTCGTATGGGCTTTGAAAGGAAAAGGCG
128 ACTGCCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCG
* *
648710 TCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
192 TCCTGCTCTTTGAGGACTAAAGGGTGACACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
* *
648775 GCTCTTTAAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
257 ACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
* * * * *
648826 AAAGGCGTCTTACTCTTTGAGGACTGGAGGGTACTACCAACTCGTATGCACTTTGAAAGGAAAAG
1 AAAGGCGTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGACTTTGAAAGGAAAAG
* **
648891 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAG
66 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGACT
*
648956 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA-AAAAGGCGTC
131 GC--CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCGTC
** * * *
649020 CTGCTCTTTGAGGACTGGAGGGTGACACCAACTCGTGTGGGCTTTGAAAGGAAAAGGC-TCCTAC
194 CTGCTCTTTGAGGACTAAAGGGTGACACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTAC
*
649084 TCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
259 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAA
* * * * *
649134 AAAGGCGTCCTACTCTTTGAGGAGTGGAGGGTGCCACCAACTCATGTGGGC-TTGGAAGGAGAAG
1 AAAGGCGTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGACTTTGAAAGGAAAAG
* *
649198 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAATG--
66 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGAC
** * *
649260 TTTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAACAGGCGTCC
130 TGCCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCGTCC
* ** *
649325 TGCTCTTTGAGGACAAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAAGGGAAAAAAAGGAAA
195 TGCTCTTTGAGGACTA-AAGGGTGACACCAACTTGTGTGGGCTTT----------AAAAA-G--A
* * *
649390 TAAAGTGCGTCTTACTCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG-GA
246 -AAAG-GCGTCCTACTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
* * ** * * * * *
649453 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAT
1 AAAGGCGTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGACTTTGAAAGGAAAAG
*
649518 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAGGC-
66 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGACT
* * * * *
649580 GTCCTGCTCTTTGAGAACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGG
131 GCCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGG
649640 TTGCTTTACT
Statistics
Matches: 703, Mismatches: 81, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
303 50 0.07
304 24 0.03
305 23 0.03
307 93 0.13
308 244 0.35
309 32 0.05
310 15 0.02
315 3 0.00
316 1 0.00
318 5 0.01
319 93 0.13
320 72 0.10
321 23 0.03
322 25 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (307 bp):
AAAGGCGTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGACTTTGAAAGGAAAAG
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGACT
GCCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
GCTCTTTGAGGACTAAAGGGTGACACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTACTC
TTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
Found at i:653394 original size:21 final size:20
Alignment explanation
Indices: 653370--653418 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
653360 CTCGGAAAAC
*
653370 ACTTTTTATTTATTTTTTTAT
1 ACTTTTTATTT-TTTATTTAT
653391 ACTTTTTTATTTTTTATTTAT
1 AC-TTTTTATTTTTTATTTAT
*
653412 TCTTTTT
1 ACTTTTT
653419 TATCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 9 0.36
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
ACTTTTTATTTTTTATTTAT
Found at i:653396 original size:10 final size:10
Alignment explanation
Indices: 653383--653428 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
653373 TTTTATTTAT
*
653383 TTTTTTATAC
1 TTTTTTATTC
*
653393 TTTTTTATTT
1 TTTTTTATTC
653403 TTTATTTATTC
1 TTT-TTTATTC
653414 TTTTTTA-TC
1 TTTTTTATTC
653423 TTTTTT
1 TTTTTT
653429 TGGAAACCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.25
10 15 0.47
11 9 0.28
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTATTC
Found at i:653417 original size:29 final size:30
Alignment explanation
Indices: 653372--653428 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
653362 CGGAAAACAC
*
653372 TTTTTATTTATTTTTTTATA-CTTTTTTAT
1 TTTTTATTTATTCTTTTATATCTTTTTTAT
*
653401 TTTTTATTTATTCTTTTTTATCTTTTTT
1 TTTTTATTTATTCTTTTATATCTTTTTT
653429 TGGAAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTTATTTATTCTTTTATATCTTTTTTAT
Found at i:656856 original size:20 final size:20
Alignment explanation
Indices: 656805--656879 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
656795 AAAAAGACAT
* *
656805 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAA
* *
656825 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
656845 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
656865 AATGTATCGATACAT
1 AATGTATCGATACAT
656880 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:656862 original size:40 final size:39
Alignment explanation
Indices: 656802--656879 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
656792 GGTAAAAAGA
*
656802 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
656841 CATACATGTATTGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
656880 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:657616 original size:29 final size:29
Alignment explanation
Indices: 657421--658124 Score: 960
Period size: 29 Copynumber: 24.5 Consensus size: 29
657411 CCACCAACTT
**
657421 TTGTGGGCTTTGAAAAGAGTTGCCACCAAC
1 TTGTGGGCTTTGAAAAGAG-TGCCACTGAC
* *
657451 TCGTGTAGGCTTTTAAAAGAGTGCCACTGAC
1 T--TGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657482 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657510 TTGTGGGCTTTG-AAAGGGTGCCACTAAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * *
657538 TTGTGAGTTTTG-AAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657566 TTGT-GGCTTTGAAAGGA-TGCCACTAAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657593 TTGTGCGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657622 TTGTGGGCTTTG-AAAGGGTGTCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * *
657650 TTGTAGGCTTTGAAAAGAGTGCCACTAAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657679 TTATGGGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657708 TTGTGGGCTTTGAAAAGAGTGCCACTGAA
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657737 TTATGGGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657766 TTGTGGGCTTTGAAAAGAGTGCCGCTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657795 TTGTGGGCTTTGAAAAGAGTGCCACTGAA
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657824 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657852 TTGTGGACTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657881 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657909 TTGTGGGCTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657938 TTGTGAGCTTTG-AAAGGGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657966 TTGTGGGCTTTGAAAAGAATGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
657995 TTGTGGGCTTTGAAAAG-GTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
658023 TTGTGGGCTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
658052 TTGTGGGTTTTGAAAAGAGTGCCACTAAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
658081 TTATGAGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
658110 TTATGAGCTTTGAAA
1 TTGTGGGCTTTGAAA
658125 GGGATGAACA
Statistics
Matches: 598, Mismatches: 66, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.03
28 212 0.35
29 342 0.57
30 1 0.00
31 9 0.02
32 16 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
TTGTGGGCTTTGAAAAGAGTGCCACTGAC
Found at i:657652 original size:57 final size:58
Alignment explanation
Indices: 657421--658124 Score: 960
Period size: 57 Copynumber: 12.3 Consensus size: 58
657411 CCACCAACTT
** * *
657421 TTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTAGGCTTTTAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGAC
* * *
657482 TTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * * * *
657538 TTGTGAGTTTTG-AAAGGGTGCCACTGACTTGT-GGCTTTGAAAGGA-TGCCACTAAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * *
657593 TTGTGCGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGTCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * * *
657650 TTGTAGGCTTTGAAAAGAGTGCCACTAATTTATGGGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657708 TTGTGGGCTTTGAAAAGAGTGCCACTGAATTATGGGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657766 TTGTGGGCTTTGAAAAGAGTGCCGCTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAA
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * *
657824 TTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGACTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
657881 TTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * * *
657938 TTGTGAGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
*
657995 TTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAT
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* * * *
658052 TTGTGGGTTTTGAAAAGAGTGCCACTAACTTATGAGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
658110 TTATGAGCTTTGAAA
1 TTGTGGGCTTTGAAA
658125 GGGATGAACA
Statistics
Matches: 587, Mismatches: 49, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
55 27 0.05
56 69 0.12
57 278 0.47
58 187 0.32
59 9 0.02
60 5 0.01
61 12 0.02
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (58 bp):
TTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
Found at i:659377 original size:5 final size:5
Alignment explanation
Indices: 659364--659400 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
659354 TTTTCTTGGT
*
659364 TTTTT TTTTG TTTTG TTTTG TTTT- TTTTG TTTT- TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
659401 TTGGGTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (5 bp):
TTTTG
Found at i:659377 original size:9 final size:9
Alignment explanation
Indices: 659365--659400 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
659355 TTTCTTGGTT
659365 TTTTTTTTG
1 TTTTTTTTG
659374 TTTTGTTTTG
1 TTTT-TTTTG
659384 TTTTTTTTG
1 TTTTTTTTG
659393 TTTTTTTT
1 TTTTTTTT
659401 TTGGGTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:659377 original size:10 final size:10
Alignment explanation
Indices: 659341--659401 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 10
659331 GACCCTTCTC
659341 TTTTTTTGCTAT
1 TTTTTTTG-T-T
659353 TTTTTCTTGGTTT
1 TTTTT-TT-G-TT
659366 TTTTTTTGTT
1 TTTTTTTGTT
*
659376 TTGTTTTG-T
1 TTTTTTTGTT
659385 TTTTTTTGTT
1 TTTTTTTGTT
659395 TTTTTTT
1 TTTTTTT
659402 TGGGTGTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
9 8 0.19
10 17 0.40
11 1 0.02
12 7 0.16
13 8 0.19
14 2 0.05
ACGTcount: A:0.02, C:0.03, G:0.11, T:0.84
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:659401 original size:11 final size:11
Alignment explanation
Indices: 659341--659403 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
659331 GACCCTTCTC
659341 TTTTTTTGCTATT
1 TTTTTTTG-T-TT
*
659354 TTTTCTTGGTTT
1 TTTT-TTTGTTT
659366 TTTTTTTG-TT
1 TTTTTTTGTTT
*
659376 TTGTTTTG--T
1 TTTTTTTGTTT
659385 TTTTTTTGTTT
1 TTTTTTTGTTT
659396 TTTTTTTG
1 TTTTTTTG
659404 GGTGTAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 8 0.19
10 9 0.21
11 12 0.28
12 6 0.14
13 5 0.12
14 3 0.07
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:659401 original size:19 final size:19
Alignment explanation
Indices: 659365--659400 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
659355 TTTCTTGGTT
659365 TTTTTTTTGTTTTGTTTTG
1 TTTTTTTTGTTTTGTTTTG
659384 TTTTTTTTGTTTT-TTTT
1 TTTTTTTTGTTTTGTTTT
659401 TTGGGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTTTGTTTTGTTTTG
Found at i:668618 original size:20 final size:20
Alignment explanation
Indices: 668593--668637 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
668583 AAATAATGGG
*
668593 AATGAATAGCAAGAAAAAAA
1 AATGAACAGCAAGAAAAAAA
* *
668613 AATGAACATCAATAAAAAAA
1 AATGAACAGCAAGAAAAAAA
668633 AATGA
1 AATGA
668638 CCCTTCCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (20 bp):
AATGAACAGCAAGAAAAAAA
Found at i:672917 original size:20 final size:20
Alignment explanation
Indices: 672888--672962 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
672878 AAAAAGACAT
*
672888 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
*
672908 AATATATCGATACATT-AATA
1 AATGTATCGATACATTGAA-A
* *
672928 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
672948 AATGTATCGATACAT
1 AATGTATCGATACAT
672963 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:674031 original size:20 final size:20
Alignment explanation
Indices: 673990--674036 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
673980 TTCTTCTTTC
*
673990 TTTTTCTTTTTTAACAACTT
1 TTTTTCTCTTTTAACAACTT
*
674010 TTTTTCTCTTTTAAC--CAT
1 TTTTTCTCTTTTAACAACTT
674028 TTTTTCTCT
1 TTTTTCTCT
674037 CCTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTCTCTTTTAACAACTT
Found at i:674037 original size:20 final size:21
Alignment explanation
Indices: 673990--674037 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
673980 TTCTTCTTTC
673990 TTTTTCT-T-TTTTAACAACT
1 TTTTTCTCTCTTTTAACAACT
*
674009 TTTTT-TCTCTTTTAACCA-T
1 TTTTTCTCTCTTTTAACAACT
674028 TTTTTCTCTC
1 TTTTTCTCTC
674038 CTAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTCTCTCTTTTAACAACT
Found at i:674321 original size:16 final size:17
Alignment explanation
Indices: 674300--674348 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
674290 ACTTATTCTC
674300 TTTTTTTGTTTTGTTTT-
1 TTTTTTTGTTTT-TTTTA
674317 TTTTTTTG-TTTTTTTA
1 TTTTTTTGTTTTTTTTA
674333 TTTTTTTGTATTTTTT
1 TTTTTTTGT-TTTTTT
674349 CAAATAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 8 0.28
18 6 0.21
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTTA
Found at i:674322 original size:17 final size:16
Alignment explanation
Indices: 674300--674348 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
674290 ACTTATTCTC
*
674300 TTTTTTTGTTTTGTTTT
1 TTTTTTTGTTTT-TTTA
674317 TTTTTTTGTTTTTTTA
1 TTTTTTTGTTTTTTTA
674333 TTTTTTTGTATTTTTT
1 TTTTTTTGT-TTTTTT
674349 CAAATAAGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTA
Found at i:674331 original size:12 final size:13
Alignment explanation
Indices: 674300--674336 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
674290 ACTTATTCTC
*
674300 TTTTTTTGTTTTG
1 TTTTTTTATTTTG
674313 TTTTTTT-TTTTG
1 TTTTTTTATTTTG
674325 TTTTTTTATTTT
1 TTTTTTTATTTT
674337 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (13 bp):
TTTTTTTATTTTG
Found at i:675891 original size:18 final size:18
Alignment explanation
Indices: 675854--675916 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
675844 AAAAAAAGCG
*
675854 AAAAACAAAAAACCATAA
1 AAAAACAAAAAACAATAA
675872 AAAAACAAAAAA-AAT--
1 AAAAACAAAAAACAATAA
*
675887 AAAAACAAAAAATGAA-AA
1 AAAAACAAAAAA-CAATAA
*
675905 AAAAATAAAAAA
1 AAAAACAAAAAA
675917 AGAGGGGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 12 0.31
17 4 0.10
18 23 0.59
ACGTcount: A:0.84, C:0.08, G:0.02, T:0.06
Consensus pattern (18 bp):
AAAAACAAAAAACAATAA
Found at i:675891 original size:33 final size:33
Alignment explanation
Indices: 675854--675917 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
675844 AAAAAAAGCG
*
675854 AAAAACAAAAAACCATAAAAAAACAAAAAAAAT
1 AAAAACAAAAAACCAAAAAAAAACAAAAAAAAT
** *
675887 AAAAACAAAAAATGAAAAAAAAATAAAAAAA
1 AAAAACAAAAAACCAAAAAAAAACAAAAAAA
675918 GAGGGGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.84, C:0.08, G:0.02, T:0.06
Consensus pattern (33 bp):
AAAAACAAAAAACCAAAAAAAAACAAAAAAAAT
Done.