Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 87 of 352
Found at i:27413092 original size:23 final size:23
Alignment explanation
Indices: 27413066--27413111 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27413056 ATCTGTATTC
27413066 ATCTATATATTAAT-TTTATAAAT
1 ATCTATAT-TTAATATTTATAAAT
*
27413089 ATCTTTATTTAATATTTATAAAT
1 ATCTATATTTAATATTTATAAAT
27413112 TCAGTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
ATCTATATTTAATATTTATAAAT
Found at i:27416869 original size:6 final size:6
Alignment explanation
Indices: 27416858--27416883 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27416848 GCCTTGAACT
27416858 TCCCTC TCCCTC TCCCTC TCCCTC TC
1 TCCCTC TCCCTC TCCCTC TCCCTC TC
27416884 TTCTCCCCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
TCCCTC
Found at i:27417527 original size:6 final size:6
Alignment explanation
Indices: 27417516--27417550 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
27417506 AACATATTAT
27417516 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG AGGAA
1 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG AGGAA
27417551 CAGTAGGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGAAG
Found at i:27418792 original size:20 final size:21
Alignment explanation
Indices: 27418747--27418792 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
27418737 GCTCATCTGG
* *
27418747 TTTTGCTGCTGCTCCCTCCCT
1 TTTTCCTGCTGCTCCCGCCCT
*
27418768 GTTTCCTGCTGC-CCCGCCCT
1 TTTTCCTGCTGCTCCCGCCCT
27418788 TTTTC
1 TTTTC
27418793 TAATATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.00, C:0.43, G:0.15, T:0.41
Consensus pattern (21 bp):
TTTTCCTGCTGCTCCCGCCCT
Found at i:27420541 original size:10 final size:8
Alignment explanation
Indices: 27420513--27420537 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27420503 TTATAAGGGT
27420513 ATATTAAA
1 ATATTAAA
27420521 ATATTAAA
1 ATATTAAA
27420529 ATATTAAA
1 ATATTAAA
27420537 A
1 A
27420538 AATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATTAAA
Found at i:27421708 original size:12 final size:12
Alignment explanation
Indices: 27421691--27421718 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27421681 AAAGTCATTG
27421691 TTAATATAGACA
1 TTAATATAGACA
27421703 TTAATATAGACA
1 TTAATATAGACA
27421715 TTAA
1 TTAA
27421719 GGGTGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (12 bp):
TTAATATAGACA
Found at i:27424342 original size:25 final size:23
Alignment explanation
Indices: 27424290--27424344 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
27424280 TATAAATAGT
27424290 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
27424313 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
27424338 AATAGTG
1 AATAGTG
27424345 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:27424464 original size:22 final size:24
Alignment explanation
Indices: 27424406--27424473 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
27424396 ATAGATATAA
* *
27424406 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
27424430 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
27424454 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
27424474 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:27424517 original size:25 final size:24
Alignment explanation
Indices: 27424489--27424618 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 24
27424479 AGAAAAAAAA
*
27424489 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* *
27424514 ATATACATAAAATAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
27424537 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * *
27424560 ATATACCTAATATATTA-AAAGAAT
1 ATATACATAATATAGTATTAAG-AT
* * *
27424584 ATATATATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
27424608 ATATA-ATAATA
1 ATATACATAATA
27424619 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.47
24 24 0.29
25 18 0.22
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:27424520 original size:77 final size:81
Alignment explanation
Indices: 27424370--27424550 Score: 192
Period size: 77 Copynumber: 2.3 Consensus size: 81
27424360 ATGTTAAGAT
* * * * * * *
27424370 ATATATAATATATACATATGTATAAAATAGATATAAAAAAATATGTACATAATATAGTGTAAAAA
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAA
*
27424435 ATACATACATAATATA
66 ATACATACATAAAATA
* * *
27424451 AT-TAAAATATATACATAAG-ATAACAT-G-TAGAAAAAAAAATATAAATAATATAGTATTAAAG
1 ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAA
*
27424512 ATATATACATAAAATA
66 ATACATACATAAAATA
* * *
27424528 GTATAATATATATACGTAA-TATA
1 ATATAAAATATATACATAAGTATA
27424551 GAATTTAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
77 42 0.51
78 18 0.22
79 6 0.07
80 15 0.18
81 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (81 bp):
ATATAAAATATATACATAAGTATAAAATAGATAGAAAAAAAAATATAAATAATATAGTATAAAAA
ATACATACATAAAATA
Found at i:27424538 original size:23 final size:25
Alignment explanation
Indices: 27424410--27424618 Score: 98
Period size: 23 Copynumber: 8.6 Consensus size: 25
27424400 ATATAAAAAA
* * * *
27424410 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
27424435 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
27424457 ATATATACATAAGATAACATGTAGAAAAAA
1 ATATATACAT-A-AT-ATA-GTA-TTAAAG
* *
27424487 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27424512 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
27424535 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
27424559 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27424581 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
27424606 AAATATA-ATAATA
1 ATATATACATAATA
27424619 ACAAAAAAAA
Statistics
Matches: 139, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 11 0.08
23 43 0.31
24 24 0.17
25 39 0.28
26 4 0.03
27 2 0.01
28 3 0.02
29 4 0.03
30 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:27424594 original size:24 final size:23
Alignment explanation
Indices: 27424567--27424618 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
27424557 AGAATATACC
*
27424567 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
27424591 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
27424614 TAATA
1 TAATA
27424619 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:27424929 original size:16 final size:16
Alignment explanation
Indices: 27424891--27424929 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27424881 TCTCCAAAAA
*
27424891 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
27424907 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
27424923 AATAACT
1 AAAAACT
27424930 CTTCTCCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:27426947 original size:47 final size:47
Alignment explanation
Indices: 27426742--27426947 Score: 193
Period size: 47 Copynumber: 4.3 Consensus size: 47
27426732 CCATGGCAGC
* * *
27426742 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATC-G-G
* * *
27426793 AAATGTGATATGTGTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * *
27426842 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGAT-CCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * *
27426889 -TGTGATATGTGATCCGTGTAAGACCATGGCT-GGCTATGGCCTCGG
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGG
27426934 TATGTGATATGTGA
1 -ATGTGATATGTGA
27426948 CTATGTGCAA
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
45 11 0.08
46 26 0.20
47 54 0.41
49 1 0.01
50 1 0.01
51 28 0.21
53 11 0.08
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:27435118 original size:111 final size:111
Alignment explanation
Indices: 27434924--27435146 Score: 437
Period size: 111 Copynumber: 2.0 Consensus size: 111
27434914 AATTTTTTTG
27434924 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGACCTA
1 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGACCTA
27434989 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
66 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
*
27435035 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
1 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGACCTA
27435100 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
66 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
27435146 A
1 A
27435147 TCTTTCCAGA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (111 bp):
AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGACCTA
TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
Found at i:27435783 original size:3 final size:3
Alignment explanation
Indices: 27435775--27435799 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27435765 CCTAAAAATG
27435775 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
27435800 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:27438824 original size:9 final size:9
Alignment explanation
Indices: 27438810--27438835 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27438800 TTTAAAATTT
27438810 AAAATATTA
1 AAAATATTA
27438819 AAAATATTA
1 AAAATATTA
27438828 AAAATATT
1 AAAATATT
27438836 TTATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATATTA
Found at i:27438868 original size:16 final size:16
Alignment explanation
Indices: 27438839--27438881 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
27438829 AAATATTTTA
27438839 TAATATTTTATAATTT
1 TAATATTTTATAATTT
27438855 TAATGATTTT-TAATTTT
1 TAAT-ATTTTATAA-TTT
*
27438872 TAAAATTTTA
1 TAATATTTTA
27438882 AAAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTATAATTT
Found at i:27439912 original size:17 final size:17
Alignment explanation
Indices: 27439890--27439923 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27439880 AGGTTTAGGT
27439890 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
27439907 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
27439924 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:27445353 original size:22 final size:22
Alignment explanation
Indices: 27445325--27445369 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27445315 CCAACAAGAT
27445325 TGTCAATTTCTGCTTCTTTATC
1 TGTCAATTTCTGCTTCTTTATC
27445347 TGTCAATTTCTGCTTCTTTATC
1 TGTCAATTTCTGCTTCTTTATC
27445369 T
1 T
27445370 TTGACAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.09, T:0.56
Consensus pattern (22 bp):
TGTCAATTTCTGCTTCTTTATC
Found at i:27446769 original size:40 final size:40
Alignment explanation
Indices: 27446716--27446802 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
27446706 CAAGTTAATG
*
27446716 AAAAAAGTTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
1 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
27446756 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
1 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
27446796 AAAAAAA
1 AAAAAAA
27446803 GGGGGGGGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.32
Consensus pattern (40 bp):
AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
Found at i:27455413 original size:15 final size:14
Alignment explanation
Indices: 27455395--27455424 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27455385 AATAAAATCT
27455395 AATTAAATAAAAAAA
1 AATTAAA-AAAAAAA
27455410 AATTAAAAAAAAAA
1 AATTAAAAAAAAAA
27455424 A
1 A
27455425 TCCTCCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATTAAAAAAAAAA
Found at i:27457307 original size:25 final size:24
Alignment explanation
Indices: 27457255--27457314 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
27457245 TTTTTATTTT
* * *
27457255 ATTTTATTTTATATTAATATAATTA
1 ATTTTATTTAACATTAATATAA-AA
*
27457280 TTTTTATTTAACATTAATATAAAA
1 ATTTTATTTAACATTAATATAAAA
27457304 ATTTTATTTAA
1 ATTTTATTTAA
27457315 TTATTTAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTATTTAACATTAATATAAAA
Found at i:27458156 original size:20 final size:20
Alignment explanation
Indices: 27458133--27458188 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
27458123 TTTTTTTAAA
*
27458133 ATTTAAAAATTATAAAAGTT
1 ATTTAAAAATTATAAAAATT
*
27458153 ATTTTTAAAATT-TAAAAATT
1 A-TTTAAAAATTATAAAAATT
27458173 A-TTAAAAATTTATAAA
1 ATTTAAAAA-TTATAAA
27458189 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.20
19 2 0.07
20 13 0.43
21 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTAAAAATTATAAAAATT
Found at i:27469463 original size:6 final size:6
Alignment explanation
Indices: 27469452--27469481 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
27469442 TTTATGTGTC
*
27469452 TATGTG TATGTG TATGTG TATGTG CATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG
27469482 CCTGTGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (6 bp):
TATGTG
Found at i:27485044 original size:25 final size:25
Alignment explanation
Indices: 27485010--27485058 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
27485000 CATGAATGTT
27485010 CTTGAATGGTTATTGATATTAAATC
1 CTTGAATGGTTATTGATATTAAATC
27485035 CTTGAATGGTTATTGATATTAAAT
1 CTTGAATGGTTATTGATATTAAAT
27485059 TCTAGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (25 bp):
CTTGAATGGTTATTGATATTAAATC
Found at i:27491384 original size:23 final size:22
Alignment explanation
Indices: 27491352--27491407 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
27491342 TAATTTTGGT
27491352 ATATGATGAAGT-TATCTT-ATAA
1 ATATGATGAA-TCTATCTTGA-AA
27491374 ATATGCATGAATCTATCTTGAAA
1 ATATG-ATGAATCTATCTTGAAA
*
27491397 ATATGTTGAAT
1 ATATGATGAAT
27491408 TGGATTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
23 18 0.60
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATGATGAATCTATCTTGAAA
Found at i:27492921 original size:21 final size:18
Alignment explanation
Indices: 27492878--27492921 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 18
27492868 AATATTTTAC
27492878 ATTTTGAATAAAATAAAA
1 ATTTTGAATAAAATAAAA
27492896 A-TTTGAATAAATAATTAAAA
1 ATTTTGAAT-AA-AA-TAAAA
27492916 ATTTTG
1 ATTTTG
27492922 TATTGGGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.32
18 3 0.14
19 2 0.09
20 6 0.27
21 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
ATTTTGAATAAAATAAAA
Found at i:27493432 original size:12 final size:12
Alignment explanation
Indices: 27493415--27493444 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27493405 CTTATGATTG
27493415 TATATATGTATA
1 TATATATGTATA
*
27493427 TGTATATGTATA
1 TATATATGTATA
27493439 TATATA
1 TATATA
27493445 GTTTAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:27497709 original size:36 final size:36
Alignment explanation
Indices: 27497641--27497709 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
27497631 TTATTTAATT
* ** *
27497641 TATTTTTAAATTTTTTACTATTTTACTATTTTTATG
1 TATTTTGAAATTTTTTAAAATTTTAATATTTTTATG
* *
27497677 TATTTTGAGATTTTTTAAAATTTTAATTTTTTT
1 TATTTTGAAATTTTTTAAAATTTTAATATTTTT
27497710 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (36 bp):
TATTTTGAAATTTTTTAAAATTTTAATATTTTTATG
Found at i:27499828 original size:20 final size:20
Alignment explanation
Indices: 27499803--27499841 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27499793 TCTAAGGGGG
27499803 ATGCTG-CAGCAAAGTTGGTA
1 ATGCTGCCA-CAAAGTTGGTA
27499823 ATGCTGCCACAAAGTTGGT
1 ATGCTGCCACAAAGTTGGT
27499842 TTTAATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (20 bp):
ATGCTGCCACAAAGTTGGTA
Found at i:27504178 original size:9 final size:9
Alignment explanation
Indices: 27504164--27504222 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
27504154 ATAAGAATAA
27504164 AATTAACCG
1 AATTAACCG
*
27504173 AATTAACCA
1 AATTAACCG
27504182 AATTAACCG
1 AATTAACCG
* *
27504191 AATTACCCC
1 AATTAACCG
*
27504200 AATTAACCA
1 AATTAACCG
27504209 AATTAACCG
1 AATTAACCG
27504218 AATTA
1 AATTA
27504223 TTCAAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:27504194 original size:27 final size:27
Alignment explanation
Indices: 27504164--27504222 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
27504154 ATAAGAATAA
*
27504164 AATTAACCGAATTAACCAAATTAACCG
1 AATTAACCCAATTAACCAAATTAACCG
*
27504191 AATTACCCCAATTAACCAAATTAACCG
1 AATTAACCCAATTAACCAAATTAACCG
27504218 AATTA
1 AATTA
27504223 TTCAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (27 bp):
AATTAACCCAATTAACCAAATTAACCG
Found at i:27504230 original size:27 final size:27
Alignment explanation
Indices: 27504164--27504231 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
27504154 ATAAGAATAA
* *
27504164 AATTAACCGAATTAACCAAATTAACCG
1 AATTACCCAAATTAACCAAATTAACCG
*
27504191 AATTACCCCAATTAACCAAATTAACCG
1 AATTACCCAAATTAACCAAATTAACCG
**
27504218 AATTATTCAAATTA
1 AATTACCCAAATTA
27504232 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.26
Consensus pattern (27 bp):
AATTACCCAAATTAACCAAATTAACCG
Found at i:27507324 original size:103 final size:103
Alignment explanation
Indices: 27507145--27507350 Score: 378
Period size: 103 Copynumber: 2.0 Consensus size: 103
27507135 GAGGGGCAAG
27507145 ATAGAATCATTTGGTGTCATACTTCGTCTGGAAACTTCTCGGTCAAAAGCACTTATAAGATTTGT
1 ATAGAATCATTTGGTGTCATACTTCGTCTGGAAACTTCTCGGTCAAAAGCACTTATAAGATTTGT
27507210 AATGGTGATGGATAGAATTTAAAT-GATGAAAAATGGAA
66 AATGGTGATGGATAGAATTT-AATGGATGAAAAATGGAA
* *
27507248 ATAGAATCATTTGGTGTCATACTTTGTCTGGAAACTTCTCGGTCAAAAGCGCTTATAAGATTTGT
1 ATAGAATCATTTGGTGTCATACTTCGTCTGGAAACTTCTCGGTCAAAAGCACTTATAAGATTTGT
27507313 AATGGTGATGGATAGAATTTAATGGATGAAAAATGGAA
66 AATGGTGATGGATAGAATTTAATGGATGAAAAATGGAA
27507351 GTATGTTTGG
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 3 0.03
103 97 0.97
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (103 bp):
ATAGAATCATTTGGTGTCATACTTCGTCTGGAAACTTCTCGGTCAAAAGCACTTATAAGATTTGT
AATGGTGATGGATAGAATTTAATGGATGAAAAATGGAA
Found at i:27512662 original size:16 final size:17
Alignment explanation
Indices: 27512641--27512673 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
27512631 GTCATTTTCT
27512641 GTTAAAAA-GAAAAAAA
1 GTTAAAAACGAAAAAAA
27512657 GTTAAAAACGAAAAAAA
1 GTTAAAAACGAAAAAAA
27512674 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
GTTAAAAACGAAAAAAA
Found at i:27512831 original size:19 final size:20
Alignment explanation
Indices: 27512807--27512859 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
27512797 AAGCAGTAGC
27512807 AAGGAGAAGAAAAG-A-AAG
1 AAGGAGAAGAAAAGAAGAAG
*
27512825 AAAGGAGAAGAGAAGAAGAAG
1 -AAGGAGAAGAAAAGAAGAAG
27512846 AAGGAGAAAGAAAA
1 AAGGAG-AAGAAAA
27512860 AAAAATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.45
20 7 0.24
21 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAAGAAGAAG
Found at i:27512993 original size:26 final size:26
Alignment explanation
Indices: 27512960--27513009 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
27512950 TTTTTGTTAG
27512960 TTATTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAACCC
27512986 TTATTATTATTGTTAGTAAAAAAC
1 TTATTATTATTGTTAGTAAAAAAC
27513010 TATTATTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACCC
Found at i:27513015 original size:26 final size:26
Alignment explanation
Indices: 27512960--27513017 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
27512950 TTTTTGTTAG
*
27512960 TTATTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAACCA
*
27512986 TTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTGTTAGTAAAAAACCA
27513012 TTATTA
1 TTATTA
27513018 GGATTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACCA
Found at i:27513023 original size:26 final size:26
Alignment explanation
Indices: 27512968--27513025 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
27512958 AGTTATTATT
* **
27512968 ATTGTTAGTAAAAAACCCTTATTATT
1 ATTGTTAGTAAAAAACCATTATTAGG
*
27512994 ATTGTTAGTAAAAAACTATTATTAGG
1 ATTGTTAGTAAAAAACCATTATTAGG
27513020 ATTGTT
1 ATTGTT
27513026 GGTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (26 bp):
ATTGTTAGTAAAAAACCATTATTAGG
Found at i:27513060 original size:36 final size:37
Alignment explanation
Indices: 27512989--27513069 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 37
27512979 AAAACCCTTA
* *
27512989 TTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGG
1 TTATTATTGTTAGTAAAAAACTATAATT--GATTGTTAG
*
27513028 TTATTATTGTTAGTAAAAAACTCTAATT-ATTGTTAG
1 TTATTATTGTTAGTAAAAAACTATAATTGATTGTTAG
27513064 TTATTA
1 TTATTA
27513070 CTATTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 13 0.33
39 26 0.67
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.48
Consensus pattern (37 bp):
TTATTATTGTTAGTAAAAAACTATAATTGATTGTTAG
Found at i:27513075 original size:39 final size:39
Alignment explanation
Indices: 27512986--27513078 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
27512976 TAAAAAACCC
* *
27512986 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGG
1 TTATTA-TATTGTTAGTAAAAAACTATAATT--GATTGTTAG
*
27513028 TTA-T-TATTGTTAGTAAAAAACTCTAATT-ATTGTTAG
1 TTATTATATTGTTAGTAAAAAACTATAATTGATTGTTAG
27513064 TTATTACTATTGTTA
1 TTATTA-TATTGTTA
27513079 ATTTATATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
36 10 0.22
37 1 0.02
39 30 0.67
41 1 0.02
42 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (39 bp):
TTATTATATTGTTAGTAAAAAACTATAATTGATTGTTAG
Found at i:27518949 original size:39 final size:40
Alignment explanation
Indices: 27518902--27518983 Score: 148
Period size: 39 Copynumber: 2.0 Consensus size: 40
27518892 ATAATAACAT
27518902 AATTTATTTCCTTAAATTACGTAGATC-TTTTTTTAATGA
1 AATTTATTTCCTTAAATTACGTAGATCTTTTTTTTAATGA
27518941 AATTTATTTCCTTAAATTACGTAGATCTTTTTTTTTAATGA
1 AATTTATTTCCTTAAATTACGTAGATC-TTTTTTTTAATGA
27518982 AA
1 AA
27518984 CCCGTGATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 27 0.66
41 14 0.34
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (40 bp):
AATTTATTTCCTTAAATTACGTAGATCTTTTTTTTAATGA
Found at i:27519709 original size:152 final size:152
Alignment explanation
Indices: 27519505--27520789 Score: 1974
Period size: 152 Copynumber: 8.5 Consensus size: 152
27519495 TATTTTTAAA
* ** *
27519505 ATTTTTAAAATTTTTGGATCTTATTTTTTAAAATATACTATTTTTATATTTTATATTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
27519570 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATATTAATTTAGT-AATGAC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTT-ATATTAATTTAGTAAATAAC
*
27519634 CCTAATTTTGTCCCTTTGTTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
* * *
27519657 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTTATGTT
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
*
27519722 ATTTTAGTATATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
* *
27519787 CCTGATTTTGGCCCTTTCTTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
* *
27519810 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
27519875 TTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTTATATTAATTAAGTAAATAACC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
* *
27519940 CTAATTTTGTCCTTTTGTTTGT
131 CTAATTTTGGCCCTTTGTTTGT
*
27519962 ATTTTTAAAATTTTTGGATTCTA-TTTTTAAAATTATACTATTTTCGTATTTTATTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAA-TATACTATTTTCGTATTTTATTTTTTATATT
* *
27520026 ATTTTAGTATATAATGTTTCAAATATATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
* * *
27520090 CTTGATTTTGGCCCTTCGTTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
* *
27520113 ATTTTTAAAATTTTTAGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * *
27520178 ATTTTAGTACATAATGTTTCAAATGTATTATTTTATTATTATTTTATATTAATTTAGTAAATAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
* *
27520243 CCTAATTTCGGTCCTTTGTTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
* * * **
27520266 GTTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTTTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
*
27520331 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-ATTTTTTATATTAATTTAGTAAATAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
* * *
27520395 CCTGATTTTGGCCATTTCTTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
* *
27520418 ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
27520483 TTTTTGTACATAATGTTTCAAATGTATTATTTTAGTG--TTTTTATATTAATTTAATAAATAACC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
27520546 CTAATTTTGGCCCTTTGTTTGT
131 CTAATTTTGGCCCTTTGTTTGT
*
27520568 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAATTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTT-ATTTTTTATATT
*
27520633 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAAT
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAAC
* *
27520697 CCTAATTTTGTCCCTTTATTTGT
130 CCTAATTTTGGCCCTTTGTTTGT
** * * *
27520720 ATTATTT-AAATTTTCAGATTTTATTTTTTGAAATATATTATTTTTGTATTTTATTTTTTATATT
1 ATT-TTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
27520784 ATTTTA
65 ATTTTA
27520790 AAAAACCGTC
Statistics
Matches: 1040, Mismatches: 83, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
150 93 0.09
151 207 0.20
152 471 0.45
153 269 0.26
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (152 bp):
ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
CTAATTTTGGCCCTTTGTTTGT
Found at i:27520322 original size:13 final size:13
Alignment explanation
Indices: 27520299--27520335 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27520289 TTTTTAAAAA
*
27520299 TATACTATTTTTT
1 TATATTATTTTTT
*
27520312 TATTTTATTTTTT
1 TATATTATTTTTT
27520325 TATATTATTTT
1 TATATTATTTT
27520336 AGTACATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:27520457 original size:305 final size:303
Alignment explanation
Indices: 27519505--27520789 Score: 2019
Period size: 305 Copynumber: 4.2 Consensus size: 303
27519495 TATTTTTAAA
* * ** *
27519505 ATTTTTAAAATTTTTGGATCTTATTTTTTAAAATATACTATTTTTATATTTTATATTTTATATTA
1 ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
27519570 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATATTAATTTAGT-AATGAC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTT-ATATTAATTTAGTAAATAAC
* *
27519634 CCTAATTTTGTCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATT
130 CCTAATTTGGT-CCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATT
* * *
27519699 TTCATATTTTATTTTTTTATGTTATTTTAGTATATAATGTTTCAAATGTATTATTTTAGTGTTTT
194 TTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTT
27519764 TTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTCTTTGT
258 TTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTCTTTGT
*
27519810 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
27519875 TTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTTATATTAATTAAGTAAATAACC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
* * * *
27519940 CTAATTTTGTCCTTTTGTTTGTATTTTTAAAATTTTTGGATTCTATTTTTAAAATTATACTATTT
131 CTAATTTGGTCC-TTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTT
* *
27520005 TCGTATTTTA-TTTTTTATATTATTTTAGTATATAATGTTTCAAATATATTATTTTAGTGTTTTT
195 TCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
*
27520069 TATATTAATTTAGTAAATAACCTTGATTTTGGCCC-TTCGTTTGT
260 TATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTC-TTTGT
*
27520113 ATTTTTAAAATTTTT-AGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATAT
1 ATTTTTAAAATTTTTGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATAT
* * *
27520177 TATTTTAGTACATAATGTTTCAAATGTATTATTTTATTATTATTTTATATTAATTTAGTAAATAA
64 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAA
*
27520242 CCCTAATTTCGGTCCTTTGTTTGTGTTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTAT
129 CCCTAATTT-GGTCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTAT
** *
27520307 TTTTTTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTT
193 TTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTT
*
27520372 TTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTCTTTGT
258 TTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTCTTTGT
*
27520418 ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
27520483 TTTTTGTACATAATGTTTCAAATGTATTATTTTAGTG--TTTTTATATTAATTTAATAAATAACC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
* *
27520546 CTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTT
131 CTAA-TTTGGTCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTT
*
27520611 TCGTATTTTAATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
195 TCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
* * * *
27520676 TATATTAATTTAGTAAATAATCCTAATTTTGTCCCTTTATTTGT
260 TATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTCTTTGT
* * * *
27520720 ATTATTT-AAA-TTTTCAGATTTTATTTTTTGAAATATATTATTTTTGTATTTTATTTTTTATAT
1 ATT-TTTAAAATTTTTGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
27520783 TATTTTA
64 TATTTTA
27520790 AAAAACCGTC
Statistics
Matches: 909, Mismatches: 59, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
301 5 0.01
302 240 0.26
303 99 0.11
304 242 0.27
305 319 0.35
306 4 0.00
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (303 bp):
ATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACC
CTAATTTGGTCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTT
CGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
ATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTCTTTGT
Found at i:27520785 original size:12 final size:13
Alignment explanation
Indices: 27520753--27520788 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27520743 TTTTTTGAAA
27520753 TATATTATTTTTG
1 TATATTATTTTTG
*
27520766 TATTTTATTTTT-
1 TATATTATTTTTG
27520778 TATATTATTTT
1 TATATTATTTT
27520789 AAAAAACCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:27520893 original size:16 final size:16
Alignment explanation
Indices: 27520827--27520907 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
27520817 AAAAATTATT
*
27520827 TTTTTTTCATATTTTA
1 TTTTTTTAATATTTTA
**
27520843 TTTCTTTTTGTATTTTA
1 TTT-TTTTAATATTTTA
* ***
27520860 TTTTTTTATTAAGATA
1 TTTTTTTAATATTTTA
27520876 TTTTTTTAATATTTTA
1 TTTTTTTAATATTTTA
*
27520892 TTTTTTATACTATTTT
1 TTTTTT-TAATATTTT
27520908 TGTAAAATAG
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 29 0.57
17 22 0.43
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTTTAATATTTTA
Found at i:27520896 original size:17 final size:17
Alignment explanation
Indices: 27520826--27520907 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 17
27520816 AAAAAATTAT
*
27520826 TTTTTTTTCATATTTTA
1 TTTTTTTTAATATTTTA
*
27520843 TTTCTTTTT-GTATTTTA
1 TTT-TTTTTAATATTTTA
* ***
27520860 -TTTTTTTATTAAGATA
1 TTTTTTTTAATATTTTA
27520876 -TTTTTTTAATATTTTA
1 TTTTTTTTAATATTTTA
* *
27520892 TTTTTTATACTATTTT
1 TTTTTTTTAATATTTT
27520908 TGTAAAATAG
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 5 0.10
16 18 0.35
17 23 0.45
18 5 0.10
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTTTAATATTTTA
Found at i:27520985 original size:3 final size:3
Alignment explanation
Indices: 27520977--27521013 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27520967 TTAAAAAATA
27520977 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27521014 CGTTCTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27532318 original size:23 final size:23
Alignment explanation
Indices: 27532287--27532356 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
27532277 TGAGCTGATG
27532287 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTAA
* * *
27532310 AACTA-TAAGCTCCAATGAGTTGAA
1 AAC-AGTAAGCTCTATTGAGCT-AA
27532334 AACAGTAAGCTCT-TATGAGCTAA
1 AACAGTAAGCTCTAT-TGAGCTAA
27532357 CATATCGGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:27535302 original size:20 final size:20
Alignment explanation
Indices: 27535277--27535315 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27535267 ATTGATTGTT
27535277 TTGTTTGAA-TTGATTCAAAG
1 TTGTTT-AATTTGATTCAAAG
27535297 TTGTTTAATTTGATTCAAA
1 TTGTTTAATTTGATTCAAA
27535316 ACCCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGTTTAATTTGATTCAAAG
Found at i:27537300 original size:183 final size:185
Alignment explanation
Indices: 27536968--27537340 Score: 464
Period size: 183 Copynumber: 2.0 Consensus size: 185
27536958 AGACAAGGAA
* * *
27536968 GATGGAGAAGACTGTGAAGATATTATAGACTTGGAGAAACCCCATATACAGAAAAGGAAGATCAA
1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAA-GAAGATCAA
* * * * * * *
27537033 GAAGGGAAGAGGAAGACCAAGTTCAAAAGCTGTTGACGCTGATAATCGTCATCAATCGAAGGGAA
65 GAAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAA
** * * * * * *
27537098 GGGAGGACAAGCAGCCTCGAGTTGGCAAATCTGCTGTCG-AGAGGGAAGTATTGATT
130 CAGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAG-GGGAAGTATCGATC
* * * *
27537154 GATGGAGATGACTATGAAGACATTATAGATTTGGAGAAAATCCATATGCA-AAAA-AAGATCAAG
1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAAGAAGATCAAG
* *
27537217 AAGAGAAGAGGAAGACCGAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCTAAGGCAAC
66 AAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAAC
* * *
27537282 AGAGAAAAAGCGGCCTCGAGTTATAAAATCTGCTGTTGAAGGGGAAGTATCGATC
131 AGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAGGGGAAGTATCGATC
27537337 GATG
1 GATG
27537341 AATCGGATGG
Statistics
Matches: 159, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
183 110 0.69
184 2 0.01
185 4 0.03
186 43 0.27
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (185 bp):
GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAAGAAGATCAAG
AAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAAC
AGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAGGGGAAGTATCGATC
Found at i:27541553 original size:16 final size:15
Alignment explanation
Indices: 27541532--27541585 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
27541522 AATTTTTAAG
27541532 AAATAAAAAATATGAA
1 AAATAAAAAATAT-AA
* *
27541548 AAATAAAAAAAATTTA
1 AAATAAAAAATA-TAA
27541564 AAATAAAAAATA-AA
1 AAATAAAAAATATAA
27541578 AAATAAAA
1 AAATAAAA
27541586 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.27
16 23 0.70
17 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AAATAAAAAATATAA
Found at i:27541556 original size:7 final size:7
Alignment explanation
Indices: 27541532--27541585 Score: 56
Period size: 7 Copynumber: 7.1 Consensus size: 7
27541522 AATTTTTAAG
27541532 AAATAAA
1 AAATAAA
27541539 AAATATGAA
1 AAATA--AA
27541548 AAATAAA
1 AAATAAA
27541555 AAA-AATTTA
1 AAATAA---A
27541564 AAATAAA
1 AAATAAA
27541571 AAATAAA
1 AAATAAA
27541578 AAATAAA
1 AAATAAA
27541585 A
1 A
27541586 TATTTTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 2 0.05
7 26 0.63
9 11 0.27
10 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:27542911 original size:90 final size:91
Alignment explanation
Indices: 27542725--27542932 Score: 231
Period size: 91 Copynumber: 2.3 Consensus size: 91
27542715 GGAAACTCTG
* * * * * * * *
27542725 ATTTGTGGATAAACCACCAGTA-TTGCAGGTTAATACATTGCCATTAGTAGTGAGTATACAACGG
1 ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
* *
27542789 GTTTACAAATAAAAGCTGGCAATAAA
66 GTTTACAAATAAAAGATGCCAATAAA
* * * *
27542815 AATTGTGGACAAACCACCAGTATTTGCAAGTTAATACGCTACCAGTAGTTGTAAATACACAATGG
1 ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
* * *
27542880 GTTTGCAGATAAAAGATGCCAGT-AA
66 GTTTACAAATAAAAGATGCCAATAAA
* *
27542905 GTTTGTGGACAAACCACCAGTGTTTGCA
1 ATTTGTGGACAAACCACCAGTATTTGCA
27542933 GATAAACTAC
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
90 47 0.48
91 50 0.52
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (91 bp):
ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
GTTTACAAATAAAAGATGCCAATAAA
Found at i:27549810 original size:3 final size:3
Alignment explanation
Indices: 27549792--27549839 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
27549782 TTTAATTTTA
*
27549792 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT -TT AGTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
27549834 ATT ATT
1 ATT ATT
27549840 TACTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 28 0.74
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:27551207 original size:31 final size:31
Alignment explanation
Indices: 27551172--27551234 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
27551162 CTTTTCACAC
*
27551172 TTCATATTTCATAACACTGGGCCGAAGACTT
1 TTCATACTTCATAACACTGGGCCGAAGACTT
** *
27551203 TTCATACTTCATATTACTGGGCCGAAGCCTT
1 TTCATACTTCATAACACTGGGCCGAAGACTT
27551234 T
1 T
27551235 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (31 bp):
TTCATACTTCATAACACTGGGCCGAAGACTT
Found at i:27551505 original size:48 final size:49
Alignment explanation
Indices: 27551428--27551524 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 49
27551418 GCTTTATCAT
*
27551428 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
27551476 ATAACTGG-GGCATAAGCC-CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGAGGCAT-AGCCTCTTT-TAATAACTGGGGCATAAGCCCTTTTA
27551525 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 8 0.18
48 25 0.57
49 11 0.25
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:27551510 original size:25 final size:24
Alignment explanation
Indices: 27551428--27551524 Score: 135
Period size: 25 Copynumber: 4.0 Consensus size: 24
27551418 GCTTTATCAT
*
27551428 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
27551453 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27551476 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
27551501 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27551525 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.27
24 17 0.26
25 31 0.47
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27551598 original size:20 final size:20
Alignment explanation
Indices: 27551573--27551619 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
27551563 TTATGAATAC
27551573 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27551593 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27551613 ACCATGT
1 ATCATGT
27551620 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27554524 original size:20 final size:19
Alignment explanation
Indices: 27554488--27554537 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
27554478 AATAGCTATT
27554488 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
27554507 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
27554527 TTGAAAATGTG
1 TTGTAAATGTG
27554538 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:27555210 original size:47 final size:48
Alignment explanation
Indices: 27555151--27555269 Score: 179
Period size: 47 Copynumber: 2.5 Consensus size: 48
27555141 TACGGGAGCC
27555151 AGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATATACAA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATATACAAGCT
* ** *
27555198 AGTGTAAGACATGTCTGGGACATTCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATATACAAGCT
27555246 AGTGTAAGATC-TGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
27555270 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 41 0.63
48 23 0.35
49 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCTCAAGATATACAAGCT
Found at i:27555361 original size:49 final size:49
Alignment explanation
Indices: 27555147--27555461 Score: 183
Period size: 49 Copynumber: 6.6 Consensus size: 49
27555137 ATATTACGGG
* *
27555147 AGCCAGTGTAAGACATGTCTGGGACAT-GCATCAACCTC-A-AGAT-ATA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-A
* * * * * * *
27555193 CAACTAGTGTAAGACATGTCTGGGACAT-TCATCGGCCTCGAGATAT-ACA
1 -AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-A
* * * * * **
27555242 AGCTAGTGTAAGATCTGTCTGGGACATGGCGTC-AGCT---T-GTTGTT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* * *
27555286 TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAA
** * *
27555335 AGCCAGTGTAATTCCTGCCTGGGACATGGCATC-AGCCTCGATATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGAA
* * * * * * **
27555384 AGTCAGTGTAAGACCTATCTGGGATATGGCATCGA-CT-TAAATATGCT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
*
27555431 AGCCAGTGTAAGACCATGTTTGGGACATGGC
1 AGCCAGTGTAAGACC-TGTCTGGGACATGGC
27555462 GTCGGCATCT
Statistics
Matches: 205, Mismatches: 49, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
44 29 0.14
45 1 0.00
46 1 0.00
47 53 0.26
48 44 0.21
49 76 0.37
50 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
Found at i:27559221 original size:40 final size:40
Alignment explanation
Indices: 27559116--27559332 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
27559106 CGGATGATAG
* * *
27559116 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
27559156 CTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27559195 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
27559235 CCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27559275 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
27559315 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27559333 TACTTGGTTG
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 49 0.31
40 107 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27566765 original size:40 final size:40
Alignment explanation
Indices: 27566656--27566843 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
27566646 TATTCGGATG
* * *
27566656 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
27566696 A-ATTCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
27566735 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
27566775 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
27566815 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
27566844 AGTGAGTAGT
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.25
40 101 0.75
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:27571130 original size:40 final size:40
Alignment explanation
Indices: 27571075--27571155 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
27571065 ATTTTCAGAA
27571075 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
1 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
*
27571115 AAACTTACCTAAATTGAAAGAAAAACAATTTAAATTTACT
1 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
27571155 A
1 A
27571156 TCCTAGGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.28
Consensus pattern (40 bp):
AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
Found at i:27575910 original size:18 final size:19
Alignment explanation
Indices: 27575883--27575948 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
27575873 AATAGGTATT
27575883 ATATATAAAATCATTAAAA
1 ATATATAAAATCATTAAAA
*
27575902 ATATAAAAAATCA-TAAAA
1 ATATATAAAATCATTAAAA
* *
27575920 ATATAGAAAATCATAAAAA
1 ATATATAAAATCATTAAAA
27575939 ATATATAAAA
1 ATATATAAAA
27575949 ATTATAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.40
19 25 0.60
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
ATATATAAAATCATTAAAA
Found at i:27575911 original size:10 final size:9
Alignment explanation
Indices: 27575883--27575963 Score: 74
Period size: 10 Copynumber: 8.4 Consensus size: 9
27575873 AATAGGTATT
*
27575883 ATATATAAA
1 ATATAAAAA
*
27575892 ATCATTAAAA
1 AT-ATAAAAA
27575902 ATATAAAAA
1 ATATAAAAA
27575911 ATCAT-AAAA
1 AT-ATAAAAA
*
27575920 ATATAGAAA
1 ATATAAAAA
27575929 ATCATAAAAA
1 AT-ATAAAAA
27575939 ATATATAAAA
1 ATATA-AAAA
27575949 ATTATAAACAA
1 A-TATAAA-AA
27575960 ATAT
1 ATAT
27575964 TAAAGTGCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.03
9 24 0.40
10 27 0.45
11 7 0.12
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (9 bp):
ATATAAAAA
Found at i:27576118 original size:21 final size:21
Alignment explanation
Indices: 27576093--27576174 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
27576083 AAATTTTTAT
*
27576093 AAATTATATAAATTATGAAAA
1 AAATTATAAAAATTATGAAAA
* *
27576114 AAATTGTAAAAATTATGTAAA
1 AAATTATAAAAATTATGAAAA
*
27576135 ATATT-T-AAAA-TATAGAAAA
1 AAATTATAAAAATTAT-GAAAA
* *
27576154 ATATT-TAAAAAATATAGAAAA
1 AAATTATAAAAATTAT-GAAAA
27576175 GTGAAAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
18 3 0.06
19 14 0.26
20 5 0.09
21 31 0.58
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
AAATTATAAAAATTATGAAAA
Found at i:27576211 original size:19 final size:19
Alignment explanation
Indices: 27576177--27576250 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
27576167 ATAGAAAAGT
27576177 GAAAATTATAAAAAATATA
1 GAAAATTATAAAAAATATA
*
27576196 GAAAATTATGAAAAATATA
1 GAAAATTATAAAAAATATA
*
27576215 TTACAAATTATTCAAAAAATAATA
1 -GA-AAATTA-T-AAAAAAT-ATA
*
27576239 TAAAATT-TAAAA
1 GAAAATTATAAAA
27576251 TTTAAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 22 0.47
20 2 0.04
21 6 0.13
22 6 0.13
23 8 0.17
24 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
GAAAATTATAAAAAATATA
Found at i:27576222 original size:21 final size:19
Alignment explanation
Indices: 27576102--27576225 Score: 92
Period size: 19 Copynumber: 6.4 Consensus size: 19
27576092 TAAATTATAT
*
27576102 AAATTATGAAAAAAATTGTAA
1 AAATTATGAAAAATATT-T-A
*
27576123 AAATTATGTAAAATATTTA
1 AAATTATGAAAAATATTTA
27576142 AAA-TATAGAAAAATATTTAA
1 AAATTAT-GAAAAATATTT-A
* * * *
27576162 AAAATAT-AGAAA-AGTGA
1 AAATTATGAAAAATATTTA
* **
27576179 AAATTATAAAAAATATAGA
1 AAATTATGAAAAATATTTA
27576198 AAATTATGAAAAATATATTA
1 AAATTATGAAAAATAT-TTA
27576218 CAAATTAT
1 -AAATTAT
27576226 TCAAAAAATA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.08
18 9 0.11
19 36 0.43
20 6 0.07
21 25 0.30
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATTATGAAAAATATTTA
Found at i:27576631 original size:8 final size:8
Alignment explanation
Indices: 27576620--27576716 Score: 56
Period size: 8 Copynumber: 11.6 Consensus size: 8
27576610 TTTTTAATAT
27576620 TTTTATAA
1 TTTTATAA
27576628 TTTTTCATAA
1 -TTTT-ATAA
*
27576638 -TTTATAT
1 TTTTATAA
27576645 TTTTAT-A
1 TTTTATAA
27576652 TTTTATAA
1 TTTTATAA
*
27576660 TTTTTAGTTA
1 -TTTTA-TAA
*
27576670 TTTTAAAA
1 TTTTATAA
27576678 TTTATATAA
1 TTT-TATAA
* **
27576687 CTTTATTC
1 TTTTATAA
27576695 TTTTATAA
1 TTTTATAA
27576703 TATTT-TATA
1 T-TTTATA-A
27576712 TTTTA
1 TTTTA
27576717 ATGATTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 9 0.13
8 27 0.40
9 25 0.37
10 6 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:27576750 original size:25 final size:25
Alignment explanation
Indices: 27576704--27576751 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27576694 CTTTTATAAT
*
27576704 ATTTTATATTTTAATGATTTTTTTC
1 ATTTTATATTTTAATAATTTTTTTC
*
27576729 ATTTTATATTTTAA-AATATTTTT
1 ATTTTATATTTTAATAATTTTTTT
27576752 ATAAATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATATTTTAATAATTTTTTTC
Found at i:27576800 original size:30 final size:31
Alignment explanation
Indices: 27576766--27576826 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
27576756 ATGTAATATA
27576766 TTTTTACT-ATTTTTATT-ATTTTCTA-TAATT
1 TTTTTA-TAATTTTTATTAATTTT-TACTAATT
27576796 TTTTTATAATTTTTATTAATTTTTACTAATT
1 TTTTTATAATTTTTATTAATTTTTACTAATT
27576827 ATAGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 1 0.04
30 17 0.61
31 10 0.36
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (31 bp):
TTTTTATAATTTTTATTAATTTTTACTAATT
Found at i:27576801 original size:21 final size:21
Alignment explanation
Indices: 27576775--27576819 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
27576765 ATTTTTACTA
*
27576775 TTTTTATTATTTTCTA-TAATT
1 TTTTTATAATTTT-TATTAATT
27576796 TTTTTATAATTTTTATTAATT
1 TTTTTATAATTTTTATTAATT
27576817 TTT
1 TTT
27576820 ACTAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTATAATTTTTATTAATT
Found at i:27576810 original size:9 final size:9
Alignment explanation
Indices: 27576618--27576826 Score: 93
Period size: 9 Copynumber: 23.3 Consensus size: 9
27576608 ATTTTTTAAT
27576618 ATTTTTATA
1 ATTTTTATA
27576627 ATTTTTCATA
1 ATTTTT-ATA
27576637 A--TTTAT-
1 ATTTTTATA
27576643 ATTTTTAT-
1 ATTTTTATA
27576651 A-TTTTATA
1 ATTTTTATA
*
27576659 ATTTTTAGTT
1 ATTTTTA-TA
*
27576669 A-TTTTAAA
1 ATTTTTATA
*
27576677 ATTTATATA
1 ATTTTTATA
*
27576686 A-CTTTAT-
1 ATTTTTATA
27576693 -TCTTTTATA
1 AT-TTTTATA
27576702 ATATTTTAT-
1 AT-TTTTATA
* *
27576711 ATTTTAATG
1 ATTTTTATA
* *
27576720 ATTTTTTTC
1 ATTTTTATA
27576729 A-TTTTAT-
1 ATTTTTATA
* *
27576736 ATTTTAAAA
1 ATTTTTATA
27576745 TATTTTTATA
1 -ATTTTTATA
* * *
27576755 AATGTAATA
1 ATTTTTATA
27576764 TATTTTTACT-
1 -ATTTTTA-TA
*
27576774 ATTTTTATT
1 ATTTTTATA
27576783 ATTTTCTATA
1 ATTTT-TATA
27576793 ATTTTTTTATA
1 A--TTTTTATA
27576804 ATTTTTATTA
1 ATTTTTA-TA
27576814 ATTTTTACTA
1 ATTTTTA-TA
27576824 ATT
1 ATT
27576827 ATAGATATAT
Statistics
Matches: 152, Mismatches: 26, Indels: 43
0.69 0.12 0.19
Matches are distributed among these distances:
6 1 0.01
7 9 0.06
8 35 0.23
9 55 0.36
10 42 0.28
11 6 0.04
12 4 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:27577505 original size:32 final size:32
Alignment explanation
Indices: 27577469--27577529 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
27577459 TAAATAATGA
27577469 TAGACTCTAAATCGGCCCGATTTGGACAAAGT
1 TAGACTCTAAATCGGCCCGATTTGGACAAAGT
*
27577501 TAGACTCTAAATTGGCCCGATTTGGACAA
1 TAGACTCTAAATCGGCCCGATTTGGACAA
27577530 GGTTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (32 bp):
TAGACTCTAAATCGGCCCGATTTGGACAAAGT
Found at i:27577799 original size:19 final size:20
Alignment explanation
Indices: 27577773--27577813 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27577763 TTTAAAATTT
27577773 ATATATTTATATATTTTAAAA
1 ATAT-TTTATATATTTTAAAA
* *
27577794 ATATTTTTTATTTTTTAAAA
1 ATATTTTATATATTTTAAAA
27577814 TTTTAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTTTATATATTTTAAAA
Found at i:27588167 original size:25 final size:24
Alignment explanation
Indices: 27588139--27588208 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
27588129 CTAAATAACG
*
27588139 GGAAGCTCGTGAGAGCCAAGTATTA
1 GGAAGCTCATGAGAGCCAA-TATTA
*
27588164 GGAAGCTCAAGAGAGCCAATATTA
1 GGAAGCTCATGAGAGCCAATATTA
*
27588188 -GAATGCTCATGAGAGCTAATA
1 GGAA-GCTCATGAGAGCCAATA
27588209 ACGGACGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.08
24 20 0.50
25 17 0.43
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATATTA
Found at i:27589127 original size:13 final size:14
Alignment explanation
Indices: 27589111--27589140 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27589101 TATTATTTAT
27589111 TTTA-TTTATCATC
1 TTTATTTTATCATC
27589124 TTTATTTTATCATC
1 TTTATTTTATCATC
27589138 TTT
1 TTT
27589141 CCAATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTTATCATC
Found at i:27598658 original size:12 final size:13
Alignment explanation
Indices: 27598622--27598659 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
27598612 AAATATTTGA
27598622 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
27598635 ATATGTTCTTAATT
1 CT-TGTTCTTAATT
27598649 CTTG-TCTTAAT
1 CTTGTTCTTAAT
27598660 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:27599669 original size:21 final size:21
Alignment explanation
Indices: 27599645--27599686 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27599635 GTTAAAAGCA
27599645 TTACCAGACAAATCAG-AACAT
1 TTACCA-ACAAATCAGTAACAT
* *
27599666 TTACGAACAATTCAGTAACAT
1 TTACCAACAAATCAGTAACAT
27599687 CATCCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (21 bp):
TTACCAACAAATCAGTAACAT
Found at i:27607323 original size:20 final size:22
Alignment explanation
Indices: 27607295--27607336 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
27607285 GTTAAAGGCA
27607295 TTACAGAACAAATCAA-AACAT
1 TTACAGAACAAATCAATAACAT
*
27607316 TTAC-GAACAATTCAATAACAT
1 TTACAGAACAAATCAATAACAT
27607337 CATCCACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (22 bp):
TTACAGAACAAATCAATAACAT
Found at i:27608836 original size:43 final size:42
Alignment explanation
Indices: 27608767--27608888 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
27608757 GGAAAGCTCG
* * *
27608767 TACAATGCCAATGTCTCAGACGTGGTCTTACTTGTAATCAAA
1 TACAATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAA
* * * *
27608809 TATCAATGTCACTGTCCCAGACATGGTCTTACACGAAATCAAA
1 TA-CAATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAA
*
27608852 TACGATGCCAAC-GTCCCAGACGTGGTCTTACATGTAA
1 TACAATGCC-ACTGTCCCAGACGTGGTCTTACATGTAA
27608889 ATACCAAATC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
TACAATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAA
Found at i:27612258 original size:17 final size:17
Alignment explanation
Indices: 27612220--27612261 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27612210 TCGCAGGTCC
27612220 AGTGAGCTTGCAGTGCT
1 AGTGAGCTTGCAGTGCT
* *
27612237 GGTGAGCTTGCGGT-CTT
1 AGTGAGCTTGCAGTGC-T
27612254 AGTGAGCT
1 AGTGAGCT
27612262 CGCACATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.14, C:0.17, G:0.38, T:0.31
Consensus pattern (17 bp):
AGTGAGCTTGCAGTGCT
Found at i:27623534 original size:17 final size:17
Alignment explanation
Indices: 27623512--27623547 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27623502 ACTTCTTCTG
*
27623512 TTTGTTGTTTGTTGCAA
1 TTTGTTGTTTGCTGCAA
27623529 TTTGTTGTTTGCTGCAA
1 TTTGTTGTTTGCTGCAA
27623546 TT
1 TT
27623548 CTATTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGTTGTTTGCTGCAA
Found at i:27626719 original size:21 final size:21
Alignment explanation
Indices: 27626644--27626709 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
27626634 GTCTTGAATT
27626644 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
27626665 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
27626690 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
27626710 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:27627981 original size:28 final size:28
Alignment explanation
Indices: 27627950--27628008 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
27627940 ACAATATATG
* *
27627950 TAAAAAATATTTTAAAGTATAAATTTAT
1 TAAAAAATAATTTAAAATATAAATTTAT
27627978 TAAAAAATAATTTAAAATATAAATTTAT
1 TAAAAAATAATTTAAAATATAAATTTAT
27628006 TAA
1 TAA
27628009 TATATGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAAAATAATTTAAAATATAAATTTAT
Found at i:27628138 original size:18 final size:19
Alignment explanation
Indices: 27628094--27628131 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27628084 CATCCAAACA
27628094 CCAGAAAAATAAATCATTT
1 CCAGAAAAATAAATCATTT
*
27628113 CCAGAAAAGTAAATCATTT
1 CCAGAAAAATAAATCATTT
27628132 TCTAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (19 bp):
CCAGAAAAATAAATCATTT
Found at i:27629026 original size:43 final size:43
Alignment explanation
Indices: 27628935--27629540 Score: 383
Period size: 43 Copynumber: 14.1 Consensus size: 43
27628925 ACAGGTTATA
* * * * * *
27628935 CTTCGGTTTATCTGATGATGCCTCTGTATGTGCCAGTATATTTT
1 CTTCGGTTTGTCCGATGATG-CACTGTGTGTGCCAGTATAGTTG
*
27628979 CTTAGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * * *
27629022 CTTAGATATATCTGATGATGCACTGTATGTACCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * *
27629065 ATTCGGTTTGTCCAATAATGCACT-TCATTTGCTAGTATAGTTA
1 CTTCGGTTTGTCCGATGATGCACTGT-GTGTGCCAGTATAGTTG
* * * * * *
27629108 CTTCGATATATCCGATGAAGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* *** * *
27629151 CTTCGGCTTGTTTAATGATGCACTGCGTGTGCCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * *
27629194 CTTTGATATT-TCCGATAATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGT-TTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * *
27629237 CTTCTGTTTTTCCAATGATGCACTGTGTGTGCCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * *
27629280 CTTTGGTATATCTGATGATACACTGTGTGTACCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * *
27629323 CTTCGATTTGTCTGATGGTGCACTATGTGTGCTAGTATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * ***** * *
27629366 CTTCTGTATATCCGATGATGCACTAAAAATGCCAATATATGCT-
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATA-GTTG
* * * *
27629409 CTTCAGTTTGTCCAATGATGCACTGTGTGTACCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * *
27629452 TTTTGGTAT-ACACGATGATGCACTGTGGGTGCTAGTATATTTT
1 CTTCGGTTTGTC-CGATGATGCACTGTGTGTGCCAGTATAGTTG
* ** * *
27629495 CTTCGGTTTGTCCAACAATGCACTGTCTGTGCCAGCATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
27629538 CTT
1 CTT
27629541 TGGTACATTC
Statistics
Matches: 412, Mismatches: 142, Indels: 17
0.72 0.25 0.03
Matches are distributed among these distances:
42 6 0.01
43 383 0.93
44 23 0.06
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (43 bp):
CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
Found at i:27629543 original size:86 final size:86
Alignment explanation
Indices: 27628943--27629559 Score: 637
Period size: 86 Copynumber: 7.2 Consensus size: 86
27628933 TACTTCGGTT
* * * * *
27628943 TATCTGATGATGCCTCTGTATGTGCCAGTATATTTTCTTAGGTTTGTCCGATGATGCACTGTGTG
1 TATCCGATGATG-CACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTG
* *
27629008 TGCCAGTATAGTTGCTTAGATA
65 TGCCAGTATAGTTGCTTTGGTA
* * * * * * *
27629030 TATCTGATGATGCACTGTATGTACCAGTATATTTTATTCGGTTTGTCCAATAATGCACT-TCATT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGT-GTG
* * * *
27629094 TGCTAGTATAGTTACTTCGATA
65 TGCCAGTATAGTTGCTTTGGTA
* * ** *
27629116 TATCCGATGAAGCACTGTGTGTGCCAGTATATTTTCTTCGGCTTGTTTAATGATGCACTGCGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
* *
27629181 GCCAATATAGTTGCTTTGATA
66 GCCAGTATAGTTGCTTTGGTA
* * * *
27629202 TTTCCGATAATGCACTGTGTGTGCCAGTATATTTTCTTCTGTTTTTCCAATGATGCACTGTGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
*
27629267 GCCAATATAGTTGCTTTGGTA
66 GCCAGTATAGTTGCTTTGGTA
* * * * ** * *
27629288 TATCTGATGATACACTGTGTGTACCAGTATATTTTCTTCGATTTGTCTGATGGTGCACTATGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
*
27629353 GCTAGTATAGTTGCTTCT-GTA
66 GCCAGTATAGTTGCTT-TGGTA
***** * ** *
27629374 TATCCGATGATGCACTAAAAATGCCAATATATGCTCTTCAGTTTGTCCAATGATGCACTGTGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
* * *
27629439 ACCAATATAGTTGTTTTGGTA
66 GCCAGTATAGTTGCTTTGGTA
* * ** *
27629460 TA-CACGATGATGCACTGTGGGTGCTAGTATATTTTCTTCGGTTTGTCCAACAATGCACTGTCTG
1 TATC-CGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTG
*
27629524 TGCCAGCATAGTTGCTTTGGTA
65 TGCCAGTATAGTTGCTTTGGTA
* * *
27629546 CATTCAATGATGCA
1 TATCCGATGATGCA
27629560 AGTATGATGA
Statistics
Matches: 432, Mismatches: 92, Indels: 13
0.80 0.17 0.02
Matches are distributed among these distances:
85 3 0.01
86 416 0.96
87 13 0.03
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (86 bp):
TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
GCCAGTATAGTTGCTTTGGTA
Found at i:27633018 original size:18 final size:18
Alignment explanation
Indices: 27632997--27633034 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27632987 TCTCTTTGTT
*
27632997 CTCTTCGTTCTCAGCTTC
1 CTCTTCGTTCTCAACTTC
*
27633015 CTCTTCTTTCTCAACTTC
1 CTCTTCGTTCTCAACTTC
27633033 CT
1 CT
27633035 ATTTGTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.39, G:0.05, T:0.47
Consensus pattern (18 bp):
CTCTTCGTTCTCAACTTC
Found at i:27634206 original size:59 final size:60
Alignment explanation
Indices: 27634143--27634265 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 60
27634133 GACAAAATTG
* * **
27634143 AATAGTTGGGTGATTATTTTCTATTTTTTCATAGTT-GA-GTAACAAAAAAGAAATTTAAT
1 AATAGTTGGGCGATCATTTTCTAACTTTTCATAGTTGGATG-AACAAAAAAGAAATTTAAT
* * ** *
27634202 AATAGTTGGGCGATCATTTTGTAACTTTTCATATTTGGATGATTAAAAAAGAAATTTACT
1 AATAGTTGGGCGATCATTTTCTAACTTTTCATAGTTGGATGAACAAAAAAGAAATTTAAT
27634262 AATA
1 AATA
27634266 ATTTAATGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 30 0.57
60 22 0.42
61 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (60 bp):
AATAGTTGGGCGATCATTTTCTAACTTTTCATAGTTGGATGAACAAAAAAGAAATTTAAT
Found at i:27639956 original size:21 final size:21
Alignment explanation
Indices: 27639918--27639975 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
27639908 GTTTTAAGAA
*
27639918 TTGTTTTAGTATCATTTTTAT
1 TTGTTTTAATATCATTTTTAT
**
27639939 TTGTTTTAATATTTTTTTTAT
1 TTGTTTTAATATCATTTTTAT
*
27639960 GTT-TTTAAATAT-ATTT
1 -TTGTTTTAATATCATTT
27639976 GATTTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATCATTTTTAT
Found at i:27642623 original size:38 final size:38
Alignment explanation
Indices: 27642526--27642652 Score: 166
Period size: 38 Copynumber: 3.4 Consensus size: 38
27642516 ATAATACTAA
* * *
27642526 AACAGTAGACATGCTTAACGTGTATTCAGTTCAAC-AT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
* * *
27642563 AACAATAGACATGCTTATCATGTTTTTGGTTCAACAAT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
* *
27642601 AATAATAGACATGTTTAACATGTATTCGGTTCAACAAT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
*
27642639 AACAATAGGCATGC
1 AACAATAGACATGC
27642653 AACTATTAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
37 29 0.39
38 46 0.61
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (38 bp):
AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
Found at i:27647530 original size:19 final size:20
Alignment explanation
Indices: 27647498--27647541 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
27647488 TTCATTAGCC
*
27647498 TCTTTTTCTCTCTTTCTTCT
1 TCTTTTCCTCTCTTTCTTCT
*
27647518 TCTTTTCCT-TCTTTTTTCT
1 TCTTTTCCTCTCTTTCTTCT
27647537 T-TTTT
1 TCTTTT
27647542 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TCTTTTCCTCTCTTTCTTCT
Found at i:27659001 original size:24 final size:24
Alignment explanation
Indices: 27658956--27659003 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
27658946 AGATTTAGGG
27658956 TCAAATTTAGTTAAAAAAATAAATT
1 TCAAATTTAG-TAAAAAAATAAATT
27658981 TCAAATTTA-TAAAAAATATAAAT
1 TCAAATTTAGTAAAAAA-ATAAAT
27659004 GTTAAGTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 6 0.27
25 9 0.41
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TCAAATTTAGTAAAAAAATAAATT
Found at i:27665644 original size:27 final size:27
Alignment explanation
Indices: 27665592--27665652 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
27665582 TGTGTGTTTA
* *
27665592 AAAATAATATATAATTATCAACTAATG
1 AAAATAATATAAAATTATAAACTAATG
* *
27665619 AAAATAATA-AAAATATATAAATTAATT
1 AAAATAATATAAAAT-TATAAACTAATG
27665646 AAAATAA
1 AAAATAA
27665653 AATTTTAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATAATATAAAATTATAAACTAATG
Found at i:27666832 original size:31 final size:31
Alignment explanation
Indices: 27666796--27666864 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
27666786 AATTGGTTCC
* *
27666796 TAAATTTGAGACTTTTTCTTAATTTAGTA-T
1 TAAATTTGACACTTTTTCTTAAGTTAGTAGT
*
27666826 TGAAATTTGACATTTTTTCTTAAGTTAGTAGT
1 T-AAATTTGACACTTTTTCTTAAGTTAGTAGT
27666858 TAAATTT
1 TAAATTT
27666865 TTCGGGATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 31 0.91
32 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (31 bp):
TAAATTTGACACTTTTTCTTAAGTTAGTAGT
Found at i:27673071 original size:39 final size:39
Alignment explanation
Indices: 27673012--27673104 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
27673002 TAGAATCAAA
* * *
27673012 ATAGTAAAACTAGTCCTATTCACCCTTTACTTCCTATAAT
1 ATAG-AAAACTACTCCTATTCACCATCTACTTCCTATAAT
27673052 ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
1 ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
27673091 ATAGAAAACTACTC
1 ATAGAAAACTACTC
27673105 TTAAAATAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
39 46 0.92
40 4 0.08
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (39 bp):
ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
Found at i:27683658 original size:39 final size:39
Alignment explanation
Indices: 27683615--27683691 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
27683605 ACTTCTCATA
*
27683615 TTTGCCCTCTACTTCCTATAATATAGAAAACTAATCCTG
1 TTTGCCCTCTACCTCCTATAATATAGAAAACTAATCCTG
*
27683654 TTTGCCCTCTACCTCCTATAATATAGAAAACTACTCCT
1 TTTGCCCTCTACCTCCTATAATATAGAAAACTAATCCT
27683692 AAAATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (39 bp):
TTTGCCCTCTACCTCCTATAATATAGAAAACTAATCCTG
Found at i:27684119 original size:24 final size:24
Alignment explanation
Indices: 27684092--27684140 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27684082 TATATTTCAT
*
27684092 ATTGAATATCCACTTAATATCTCC
1 ATTGAATATCCACTTAATACCTCC
* * *
27684116 ATTGAGTATTCATTTAATACCTCC
1 ATTGAATATCCACTTAATACCTCC
27684140 A
1 A
27684141 AACTGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (24 bp):
ATTGAATATCCACTTAATACCTCC
Found at i:27684520 original size:34 final size:34
Alignment explanation
Indices: 27684444--27684521 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
27684434 CAACTTCCTT
* *
27684444 ATAAC-ATACATATAATGTATTCAACAATTGATA
1 ATAACTATACATATAACGCATTCAACAATTGATA
** * *
27684477 ATAGTTATACATATAACGCATTCAATAATTGGTA
1 ATAACTATACATATAACGCATTCAACAATTGATA
27684511 ATAACTATACA
1 ATAACTATACA
27684522 AGCATAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (34 bp):
ATAACTATACATATAACGCATTCAACAATTGATA
Found at i:27685058 original size:59 final size:58
Alignment explanation
Indices: 27684982--27685147 Score: 192
Period size: 58 Copynumber: 2.8 Consensus size: 58
27684972 AAGGTTTAAC
27684982 TTTTTTTAGTCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTT-GAACTT
1 TTTTTTTA-TCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTTGGAA--T
* * * * *
27685042 TTTTTTTATCCAAGTTAGT-CTCTAAACTTGGCAACTATTCTCACACTGAGCTTGGAAT
1 TTTTTTTATCCAAGTTAGTCCT-TGAACTAGACAATTATTCTCACATTGAGCTTGGAAT
** * * *
27685100 TTTTTTTATTAAAGTTAGTCCTTGAACTGGACAATTGTTTTCACATTG
1 TTTTTTTATCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTG
27685148 GTGACATAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
58 39 0.44
59 39 0.44
60 11 0.12
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (58 bp):
TTTTTTTATCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTTGGAAT
Found at i:27685144 original size:58 final size:58
Alignment explanation
Indices: 27684982--27685144 Score: 179
Period size: 59 Copynumber: 2.8 Consensus size: 58
27684972 AAGGTTTAAC
* * *
27684982 TTTTTTTAGTCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTTGAACTT
1 TTTTTTTA-TCAAAGTTAGTCCTTGAACTGGACAATTATTCTCACACTGAGCTTGAAC-T
* * *
27685042 TTTTTTTATCCAAGTTAGT-CTCTAAACTTGG-CAACTATTCTCACACTGAGCTTGGAA-T
1 TTTTTTTATCAAAGTTAGTCCT-TGAAC-TGGACAATTATTCTCACACTGAGCTT-GAACT
* * *
27685100 TTTTTTTATTAAAGTTAGTCCTTGAACTGGACAATTGTTTTCACA
1 TTTTTTTATCAAAGTTAGTCCTTGAACTGGACAATTATTCTCACA
27685145 TTGGTGACAT
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
57 3 0.03
58 35 0.40
59 37 0.42
60 13 0.15
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (58 bp):
TTTTTTTATCAAAGTTAGTCCTTGAACTGGACAATTATTCTCACACTGAGCTTGAACT
Found at i:27685314 original size:59 final size:59
Alignment explanation
Indices: 27685235--27685378 Score: 163
Period size: 59 Copynumber: 2.4 Consensus size: 59
27685225 CTATATTAAA
* * *
27685235 GCTTAACTTTTTTTTAGTCCAAGTTAGTA-TC-TAAACTTGGTAATTATTCTCACACTAAG
1 GCTTAAC-TTTTTTT-GTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
* *
27685294 GCTTAAGCTTTTTTTGGTCCAAGTTA--ACCCTTGAACTTAGAAATTATTCTCACATTAAG
1 GCTTAA-CTTTTTTT-GTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
27685353 GCTTGAACTTTTTTT-TCCAAGTTAGT
1 GCTT-AACTTTTTTTGTCCAAGTTAGT
27685379 TCATTATATT
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
57 10 0.14
58 1 0.01
59 59 0.81
60 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (59 bp):
GCTTAACTTTTTTTGTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
Found at i:27687585 original size:42 final size:42
Alignment explanation
Indices: 27687507--27687653 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 42
27687497 ATCCCTGACG
* * *
27687507 TGGTCTTACATGTAA-TCAAACATCGATGCCATTGTCCCAAACA
1 TGGTCTTACACG-AACTCAAA-AGCGATGCCAATGTCCCAAACA
* *
27687550 GGGTCTTACACGAACTCAGATA-CGATGCCAATGTCCCAAACA
1 TGGTCTTACACGAACTCA-AAAGCGATGCCAATGTCCCAAACA
* ** * * *
27687592 TGGACTTACACGTAAAACAAAAGTCGAAGCCAATGCCCCAGACA
1 TGGTCTTACACG-AACTCAAAAG-CGATGCCAATGTCCCAAACA
27687636 TGGTCTTACACGAACTCA
1 TGGTCTTACACGAACTCA
27687654 CATAACGGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 33 0.39
43 22 0.26
44 29 0.35
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (42 bp):
TGGTCTTACACGAACTCAAAAGCGATGCCAATGTCCCAAACA
Found at i:27696248 original size:24 final size:24
Alignment explanation
Indices: 27696221--27696266 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27696211 TGAAGCCAAA
*
27696221 TATGAATTAACCATAGTTTATTAG
1 TATGAATTAACCATAATTTATTAG
*
27696245 TATGGATTAACCATAATTTATT
1 TATGAATTAACCATAATTTATT
27696267 CTTCACTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
TATGAATTAACCATAATTTATTAG
Found at i:27701223 original size:46 final size:45
Alignment explanation
Indices: 27701198--27701498 Score: 372
Period size: 46 Copynumber: 6.4 Consensus size: 45
27701188 GATCAAGTGA
* *
27701198 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
* *
27701243 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
27701289 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27701335 CAAGTGACAAGTGGA-AAGTGATAAGTATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGT-GATAA--G-T--G-ATAGCTTCAGCTATACTTATCTGAT
* *
27701386 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
* * *
27701432 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27701478 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
27701499 GCTACACTTA
Statistics
Matches: 233, Mismatches: 10, Indels: 25
0.87 0.04 0.09
Matches are distributed among these distances:
44 2 0.01
45 11 0.05
46 175 0.75
47 2 0.01
48 1 0.00
49 1 0.00
50 2 0.01
51 33 0.14
52 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
Found at i:27701435 original size:143 final size:144
Alignment explanation
Indices: 27701139--27701487 Score: 637
Period size: 143 Copynumber: 2.4 Consensus size: 144
27701129 TTTGAGTACT
* *
27701139 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
27701204 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
27701269 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
27701283 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
27701348 GAAAGTGATAAGT-ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
27701412 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
27701426 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
27701488 AGTGATAAGT
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 123 0.62
144 74 0.38
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:27701512 original size:37 final size:37
Alignment explanation
Indices: 27701462--27701570 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
27701452 GATAGCTTTA
27701462 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
27701499 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
27701536 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
27701571 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:27708059 original size:19 final size:21
Alignment explanation
Indices: 27708037--27708078 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
27708027 AAAAATTAGT
27708037 AAAAATATA-AAAATA-AAAA
1 AAAAATATATAAAATACAAAA
*
27708056 AAAAATATATATAATACAAAA
1 AAAAATATATAAAATACAAAA
27708077 AA
1 AA
27708079 GTCAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAATATATAAAATACAAAA
Found at i:27715644 original size:7 final size:7
Alignment explanation
Indices: 27715632--27715663 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27715622 TGTCCACTCT
27715632 ACATTTC
1 ACATTTC
27715639 ACATTTC
1 ACATTTC
27715646 ACATTTC
1 ACATTTC
27715653 ACATTTC
1 ACATTTC
27715660 ACAT
1 ACAT
27715664 GTCCACTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (7 bp):
ACATTTC
Found at i:27716438 original size:48 final size:48
Alignment explanation
Indices: 27716383--27716478 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
27716373 GTCGATACCG
27716383 TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
1 TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
* *
27716431 TATCGATACTTGGTAACTGATTTTCAAGTTAGTAGCCTATTTTGGTAT
1 TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
27716479 CGATTTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (48 bp):
TATCGATACTTGGTAACTCATTTTCAAGTTAGTAGCCTATTATGGTAT
Found at i:27717313 original size:198 final size:198
Alignment explanation
Indices: 27716975--27717369 Score: 781
Period size: 198 Copynumber: 2.0 Consensus size: 198
27716965 TTTCACGACT
27716975 GCTAATGCAAATGTTCAAACCAAGAAAAGCGTTATGTTTCTTTGTGGCTTAACAGTTGTAAGTAA
1 GCTAATGCAAATGTTCAAACCAAGAAAAGCGTTATGTTTCTTTGTGGCTTAACAGTTGTAAGTAA
27717040 ATCTGGGAATGGTCTGTCCTTGCTATGGTTTAAAGTTGAAAGTTTACTCATTATTTGAGGGTTTA
66 ATCTGGGAATGGTCTGTCCTTGCTATGGTTTAAAGTTGAAAGTTTACTCATTATTTGAGGGTTTA
27717105 ATATAATAACATTGTTTTTATATTTATATCTACACTATATAATTTATATCTGAACTGCAACTATT
131 ATATAATAACATTGTTTTTATATTTATATCTACACTATATAATTTATATCTGAACTGCAACTATT
27717170 TAC
196 TAC
27717173 GCTAATGCAAATGTTCAAACCAAGAAAAGCGTTATGTTTCTTTGTGGCTTAACAGTTGTAAGTAA
1 GCTAATGCAAATGTTCAAACCAAGAAAAGCGTTATGTTTCTTTGTGGCTTAACAGTTGTAAGTAA
*
27717238 ATCTGGGAATGGTCTGTGCTTGCTATGGTTTAAAGTTGAAAGTTTACTCATTATTTGAGGGTTTA
66 ATCTGGGAATGGTCTGTCCTTGCTATGGTTTAAAGTTGAAAGTTTACTCATTATTTGAGGGTTTA
27717303 ATATAATAACATTGTTTTTATATTTATATCTACACTATATAATTTATATCTGAACTGCAACTATT
131 ATATAATAACATTGTTTTTATATTTATATCTACACTATATAATTTATATCTGAACTGCAACTATT
27717368 TA
196 TA
27717370 TGACTCAACC
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 196 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (198 bp):
GCTAATGCAAATGTTCAAACCAAGAAAAGCGTTATGTTTCTTTGTGGCTTAACAGTTGTAAGTAA
ATCTGGGAATGGTCTGTCCTTGCTATGGTTTAAAGTTGAAAGTTTACTCATTATTTGAGGGTTTA
ATATAATAACATTGTTTTTATATTTATATCTACACTATATAATTTATATCTGAACTGCAACTATT
TAC
Found at i:27720922 original size:6 final size:6
Alignment explanation
Indices: 27720906--27720936 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
27720896 CATTATCAGG
27720906 ATATCAA ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA
27720937 GAATGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:27721874 original size:41 final size:41
Alignment explanation
Indices: 27721824--27721917 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
27721814 TTTTTTGTAG
* * *
27721824 GTCTTGAGACTTAGGGGTTATGTTTTGAGACCTA-TC-CTCAT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCAC-C-T
*
27721865 GTCTCGAGACTTAGGGGTTATGTCTAGATACCTAGTCACCT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCACCT
27721906 GTCTCGAGACTT
1 GTCTCGAGACTT
27721918 TGGATCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 43 0.91
42 3 0.06
43 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCACCT
Found at i:27726144 original size:44 final size:43
Alignment explanation
Indices: 27726058--27726230 Score: 165
Period size: 44 Copynumber: 4.0 Consensus size: 43
27726048 AAGCCCCATA
* * *
27726058 CGATTTGAGATTTACGTGTAAGACCATGTCTGTGACGGTGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGACAGTGGCAT
* * *
27726102 CGATTTGAGATTTACGTGTAAGACCATGTCTGGGAAATTGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGACAGTGGCAT
* * * *
27726146 CGTATTTA-ATTT-CATGTAAGACCCTGTTTGGGATAGTAGCAT
1 CG-ATTTAGATTTACATGTAAGACCATGTCTGGGACAGTGGCAT
* *
27726188 CGATATTTGA-TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGAT-TTAGATTTACATGTAAGACCATGTCTGGGACAG-TGGCAT
27726231 TGAACGAGCT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.29
43 28 0.26
44 43 0.40
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATTTAGATTTACATGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:27726178 original size:42 final size:42
Alignment explanation
Indices: 27726074--27726221 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 42
27726064 GAGATTTACG
* ** *
27726074 TGTAAGACCATGTCTGTGACGGTGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGAAAGTGGCATCGTATTT-A-ATTT-CA
*
27726118 TGTAAGACCATGTCTGGGAAATTGGCATCGTATTTAATTTCA
1 TGTAAGACCATGTCTGGGAAAGTGGCATCGTATTTAATTTCA
* * * * * *
27726160 TGTAAGACCCTGTTTGGGATAGTAGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAAAGTGGCATCG-TATTTAATTTCA
*
27726203 TGTAAGACCACGTCTGGGA
1 TGTAAGACCATGTCTGGGA
27726222 CGTTGGCATT
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.30
43 30 0.34
44 27 0.31
45 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGAAAGTGGCATCGTATTTAATTTCA
Done.