Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008254.1 Hibiscus syriacus cultivar Beakdansim tig00110907_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 246921
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:1674 original size:18 final size:18
Alignment explanation
Indices: 1651--1687 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1641 AATGTCTGTT
*
1651 TATATATGATGTTTATCA
1 TATATATGATATTTATCA
1669 TATATATGATATTTATCA
1 TATATATGATATTTATCA
1687 T
1 T
1688 GAATGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TATATATGATATTTATCA
Found at i:14279 original size:21 final size:21
Alignment explanation
Indices: 14255--14329 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
14245 AAAGGTTAAG
14255 ACCTTTTGATGAAAGGACTTA
1 ACCTTTTGATGAAAGGACTTA
* * *
14276 ACCTTTTGATTAAAAGACTTC
1 ACCTTTTGATGAAAGGACTTA
* *
14297 TCC-TTTGATGAAAGGGCTTA
1 ACCTTTTGATGAAAGGACTTA
*
14317 ACCTTTTCATGAA
1 ACCTTTTGATGAA
14330 GAGAATTGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (21 bp):
ACCTTTTGATGAAAGGACTTA
Found at i:14321 original size:20 final size:20
Alignment explanation
Indices: 14259--14322 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
14249 GTTAAGACCT
14259 TTTGATGAAAGGACTTAACC
1 TTTGATGAAAGGACTTAACC
* * **
14279 TTTTGATTAAAAGACTTCTCC
1 -TTTGATGAAAGGACTTAACC
*
14300 TTTGATGAAAGGGCTTAACC
1 TTTGATGAAAGGACTTAACC
14320 TTT
1 TTT
14323 TCATGAAGAG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (20 bp):
TTTGATGAAAGGACTTAACC
Found at i:19774 original size:20 final size:22
Alignment explanation
Indices: 19728--19775 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
19718 CCCCTGTGGG
19728 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
*
19750 AGGGGAATCGGTT-CCC-TCAA
1 GGGGGAATCGGTTCCCCTTCAA
19770 GGGGGA
1 GGGGGA
19776 TCAATTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 12 0.50
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.19
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:26835 original size:2 final size:2
Alignment explanation
Indices: 26830--26875 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
26820 ACAAAGTGTG
26830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
26873 TA T
1 TA T
26876 GTTTGTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30075 original size:17 final size:17
Alignment explanation
Indices: 30053--30106 Score: 108
Period size: 17 Copynumber: 3.2 Consensus size: 17
30043 AGGAGCATTC
30053 AACAGATTTAGAAACAT
1 AACAGATTTAGAAACAT
30070 AACAGATTTAGAAACAT
1 AACAGATTTAGAAACAT
30087 AACAGATTTAGAAACAT
1 AACAGATTTAGAAACAT
30104 AAC
1 AAC
30107 CACTACATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (17 bp):
AACAGATTTAGAAACAT
Found at i:37950 original size:3 final size:3
Alignment explanation
Indices: 37944--37980 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
37934 TAATAATGGT
* *
37944 ATC ATC ATC ATA ATT ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
37981 CTTTCATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:41494 original size:21 final size:21
Alignment explanation
Indices: 41470--41556 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
41460 AGGTTAAGAC
41470 CTTTCGATGAAAGGACTTAAT
1 CTTTCGATGAAAGGACTTAAT
* * * *
41491 CTTTTGATTAAATGACTT-CT
1 CTTTCGATGAAAGGACTTAAT
** * *
41511 CCTTGGGATGAAAGGGCTTAAC
1 -CTTTCGATGAAAGGACTTAAT
*
41533 CTTTTC-AT-AAAGGATTTAAT
1 C-TTTCGATGAAAGGACTTAAT
41553 CTTT
1 CTTT
41557 TCATGAAGAG
Statistics
Matches: 47, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
19 3 0.06
20 11 0.23
21 31 0.66
22 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
CTTTCGATGAAAGGACTTAAT
Found at i:47540 original size:3 final size:3
Alignment explanation
Indices: 47532--47598 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
47522 AAGGCTATGC
47532 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47578 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
47599 ATAAAAAATC
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:55932 original size:17 final size:17
Alignment explanation
Indices: 55910--55981 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
55900 AATTAAGAGT
55910 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
55927 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* * *
55944 TTGTTTAATTAATCAAC
1 TAGTTTAATAAATGAAC
* * *
55961 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
55979 TAG
1 TAG
55982 ATGCATGAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 30 0.71
18 12 0.29
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:57506 original size:25 final size:25
Alignment explanation
Indices: 57461--57508 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57451 AACTTTTTCA
*
57461 TTAATTTATTTCTATTCCAATTTAC
1 TTAATTTATATCTATTCCAATTTAC
*
57486 TTAAGTTTATATC-ATTTCAATTT
1 TTAA-TTTATATCTATTCCAATTT
57509 CTAATCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (25 bp):
TTAATTTATATCTATTCCAATTTAC
Found at i:58090 original size:17 final size:17
Alignment explanation
Indices: 58062--58116 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
58052 TTTAAATAGT
*
58062 TATAATAGTAATTTATAA
1 TATAATATTAATTT-TAA
58080 TA-AATATTAATTTCTCAA
1 TATAATATTAATTT-T-AA
58098 TATAAT-TTAATTTTAA
1 TATAATATTAATTTTAA
58114 TAT
1 TAT
58117 TAAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 5 0.15
17 12 0.36
18 13 0.39
19 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (17 bp):
TATAATATTAATTTTAA
Found at i:58721 original size:478 final size:479
Alignment explanation
Indices: 57617--59053 Score: 2462
Period size: 478 Copynumber: 3.0 Consensus size: 479
57607 AAGGTAATAT
* *
57617 TATAATTTAATTTTTAATAATAAAATATAGTTCATATGCTATTTTTAAATGTTTATTAAAAACTT
1 TATAATTTAATTTTTAATAATAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
*
57682 TAGTAT-ATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
66 TAATATAATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
* *
57746 TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGAAAATTTATTATAAACATTTTAT
131 TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
* *
57811 GTATATTTTAATGTATTTAATATTATTTTTATTTTTATAAGATTTTTAAATAAACTTTTAGTTAT
196 GTTTATTTTAATGTATTTAATATTATTTTTATTTTTATAATATTTTTAAATAAACTTTTAGTTAT
* * *
57876 CATAATCAATTATTTTAGTTATAATAACAAATTCAACCATATGTTATTTTTTAAAATCAATAAAT
261 CATAATCAATTATTTTAGTTA-AATAACAAATTCAAACATATGTTATTTTGTAAAATCAACAAAT
* *
57941 TATGGTAAATTATTTAGACACAATAACAAAATAAATTTAGTTAACATAAAAAATTATATATGTTA
325 TATGGTAATTTATTTAGACACAATAACAAAATAAATTTAGTTAAAAT-AAAAA-TATATATGTTA
* *
58006 AATTTCTTTAGTCAAAATATTTTTCAAAATAACAAAATATAACAAATTTAAATAGTTATAATAGT
388 AATTTCTTTAGTCAAAATATTTTTCAAAATAACAAAATATGACAAATTTAAATAGTTATAATAAT
58071 AATTTATAATAAATATTAATTTCTCAA
453 AATTTATAATAAATATTAATTTCTCAA
*
58098 TATAATTTAA-TTTTAATATTAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
1 TATAATTTAATTTTTAATAATAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
58162 TAATATAATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
66 TAATATAATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
*
58227 TTTAATTTATTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
131 TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
*
58292 GTTTATTTTAATGTATTTAATATTATTTTTATTTTTATAATATTTTT-AATAAAGTTTTAGTTAT
196 GTTTATTTTAATGTATTTAATATTATTTTTATTTTTATAATATTTTTAAATAAACTTTTAGTTAT
58356 CATAATCAATTATTTTAGTTACAATAACAAATTCAAACATATGTTATTTTGTAAAATCAACAAAT
261 CATAATCAATTATTTTAGTTA-AATAACAAATTCAAACATATGTTATTTTGTAAAATCAACAAAT
*
58421 CATGGTAATTTATTTAGACACAATAACAAAATAAATTTAGTTAAAATAAAAA-ATATATGTTAAA
325 TATGGTAATTTATTTAGACACAATAACAAAATAAATTTAGTTAAAATAAAAATATATATGTTAAA
* * * *
58485 TTTATTTATTCAAAATATTTTTCAAAATAACAAAATATGACAAATTTTAATACTTATAATAATAA
390 TTTCTTTAGTCAAAATATTTTTCAAAATAACAAAATATGACAAATTTAAATAGTTATAATAATAA
*
58550 TTTATAATAAATATTTATTTCTCAA
455 TTTATAATAAATATTAATTTCTCAA
*
58575 TATATTTTAATTTTTAATAATAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
1 TATAATTTAATTTTTAATAATAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
* *
58640 TAATATAATTTAACTTTTTTCTTTACATATAGGTGTGGAGGAATTTATGGATCTTCCTGGTGCAT
66 TAATATAATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
58705 TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
131 TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
* * **
58770 GTTTA-TTTAATGTATTTAATATTAGTTTTATTTTTATAATTTTTTTAAATAATTTTTTAGTTAT
196 GTTTATTTTAATGTATTTAATATTATTTTTATTTTTATAATATTTTTAAATAAACTTTTAGTTAT
*
58834 CATAATCAATTATTTTAGTT--ATAA-TAA--CAAACATATGTTATTTTGTAAAATCAACAAATT
261 CATAATCAATTATTTTAGTTAAATAACAAATTCAAACATATGTTATTTTGTAAAATCAACAAATT
*
58894 ATGGTAATTTATTTAGACACAATAACAACATAAATTTAGTTAAAATAAAAATATATATGTTAAAT
326 ATGGTAATTTATTTAGACACAATAACAAAATAAATTTAGTTAAAATAAAAATATATATGTTAAAT
*
58959 TTCTTTAGTCAAAATATTTTCTCAAAATAATAAAATATGACAAATTTAAATAGTTATAATAATAA
391 TTCTTTAGTCAAAATATTTT-TCAAAATAACAAAATATGACAAATTTAAATAGTTATAATAATAA
59024 TTTATAATAAATATTAATTTCTCAA
455 TTTATAATAAATATTAATTTCTCAA
59049 TATAA
1 TATAA
59054 AAAGTAACAA
Statistics
Matches: 908, Mismatches: 43, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
472 82 0.09
473 31 0.03
474 71 0.08
475 4 0.00
477 143 0.16
478 220 0.24
479 5 0.01
480 177 0.19
481 175 0.19
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (479 bp):
TATAATTTAATTTTTAATAATAAAATATATTTCATATACTATTTTTAAATGTTTATTAAAAACTT
TAATATAATTTAACTTTTTTCTTTACATGTAGGTGTGGAGGAATTTATGGATCTTCATGGTGCAT
TTTAATTTACTTTTATTTATAGGGAGGACTTTATATTTTTAGCAAATTTATTCTAAACATTTTAT
GTTTATTTTAATGTATTTAATATTATTTTTATTTTTATAATATTTTTAAATAAACTTTTAGTTAT
CATAATCAATTATTTTAGTTAAATAACAAATTCAAACATATGTTATTTTGTAAAATCAACAAATT
ATGGTAATTTATTTAGACACAATAACAAAATAAATTTAGTTAAAATAAAAATATATATGTTAAAT
TTCTTTAGTCAAAATATTTTTCAAAATAACAAAATATGACAAATTTAAATAGTTATAATAATAAT
TTATAATAAATATTAATTTCTCAA
Found at i:58851 original size:22 final size:21
Alignment explanation
Indices: 58820--58860 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
58810 TTTTTTAAAT
*
58820 AATTTTTTAGTTATCATAATC
1 AATTTTTTAGTTATAATAATC
58841 AATTATTTTAGTTATAATAA
1 AATT-TTTTAGTTATAATAA
58861 CAAACATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTTTTAGTTATAATAATC
Found at i:59262 original size:198 final size:199
Alignment explanation
Indices: 58899--59267 Score: 469
Period size: 198 Copynumber: 1.9 Consensus size: 199
58889 AAATTATGGT
* * * * *
58899 AATTTATTTAGACACAATAACAACATAAATTTAGTTAAAATAAAAATATATATGTTAAATTTCTT
1 AATTTATTTAGACACAATAACAACATAAAATTAATCAAAATAAAAAAATATATGTTAAATTTATT
* * *
58964 TAGTCAAAATATTTTCTCAAAATAATAAAATATGACAAATTTAAATAGTTATAATAATAATTTAT
66 TAGTCAAAATATTTTCTCAAAATAACAAAATATGACAAATTTAAATAGTCATAATAACAATTTAT
* *
59029 AATAAATATTAATTTCTCAATATAAAAAGTAACAAA-AATAATTTTTTTCACAATAATAAATTAT
131 AACAAATATTAATTTCTCAATATAAAAAATAACAAACAATAATTTTTTTCACAATAATAAATTAT
59093 AACA
196 AACA
* * *
59097 AATTTATTTAGTCACAATAACATA-TTAAAATTAATCAGAATAAAAAAAT-TATGTTAAATTTAT
1 AATTTATTTAGACACAATAACA-ACATAAAATTAATCAAAATAAAAAAATATATGTTAAATTTAT
* * ** * ** *
59160 TTCGTCACAATA-TTTCTCAAAATAACAACTTTTGACAAA-TTATTTAGTCATACTAACAATTTA
65 TTAGTCAAAATATTTTCTCAAAATAACAAAATATGACAAATTTAAATAGTCATAATAACAATTTA
*
59223 TAACAAATATTAATTTCTGAATATAAAAAATTATAACAAACAATA
130 TAACAAATATTAATTTCTCAATAT-AAAAA--ATAACAAACAATA
59268 TTGATTGCTT
Statistics
Matches: 144, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
195 41 0.28
196 28 0.19
197 23 0.16
198 47 0.33
199 5 0.03
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (199 bp):
AATTTATTTAGACACAATAACAACATAAAATTAATCAAAATAAAAAAATATATGTTAAATTTATT
TAGTCAAAATATTTTCTCAAAATAACAAAATATGACAAATTTAAATAGTCATAATAACAATTTAT
AACAAATATTAATTTCTCAATATAAAAAATAACAAACAATAATTTTTTTCACAATAATAAATTAT
AACA
Found at i:63987 original size:20 final size:19
Alignment explanation
Indices: 63962--64014 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
63952 TTATACAATT
*
63962 AGTATCGATACCGAAGGGGA
1 AGTATCGATACC-AAAGGGA
63982 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
64001 AGGTATCGATACCA
1 A-GTATCGATACCA
64015 TAGTAGAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:64056 original size:22 final size:19
Alignment explanation
Indices: 64003--64043 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63993 CAAAGGGAAG
*
64003 GTATCGATACCATAGTAGA
1 GTATTGATACCATAGTAGA
*
64022 GTATTGATACCATAGTATA
1 GTATTGATACCATAGTAGA
64041 GTA
1 GTA
64044 GTATATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (19 bp):
GTATTGATACCATAGTAGA
Found at i:64546 original size:45 final size:45
Alignment explanation
Indices: 64482--64842 Score: 358
Period size: 45 Copynumber: 8.0 Consensus size: 45
64472 AATCGAATGA
* * * * *
64482 CCAAAATAATATTTCATATGGGTTCATTATAGGCATTAAAGGATG
1 CCAAAAAAATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
* *
64527 CCAAAAAAATAATGCATATGGGTGCATTATAGGTATGAAAGGATA
1 CCAAAAAAATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
*
64572 CCAAAATAATAATGCATATGGGTGCATTATCA-GCATGAAAGGATG
1 CCAAAAAAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATG
* * *
64617 CCAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATG
1 CCAAAAAAATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
* *
64662 -CAAAAATAATAATGCATATTGGTTCATTATAGGCATGAAAGGATG
1 CCAAAAA-AATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
* * *
64707 -CAAAAATAATAATGCACATGGGTGCATTATCGGCATGAGAGGATG
1 CCAAAAA-AATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
* ** * * *
64752 CCATGATTAA-AATGCATGAACGGATGCATTA-AGGCATAAAAGGATG
1 CCA-AAAAAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGATG
** * *
64798 CCATAATTAA-AATGCATGAACGGATGCATTA-AGGCATGAAAGGAT
1 CCA-AAAAAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGAT
64843 ACCATAATTA
Statistics
Matches: 276, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
44 5 0.02
45 200 0.72
46 60 0.22
47 11 0.04
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (45 bp):
CCAAAAAAATAATGCATATGGGTGCATTATAGGCATGAAAGGATG
Found at i:64600 original size:90 final size:90
Alignment explanation
Indices: 64481--64860 Score: 396
Period size: 90 Copynumber: 4.2 Consensus size: 90
64471 AAATCGAATG
* * * *
64481 ACCAAAATAATATTTCATATGGGTTCATTATAGGCATTAAAGGATGCCAAAAAAATAATGCATAT
1 ACCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAAAAATAATGCATAT
*
64546 GGGTGCATTATAGGTATGAAAGGAT
66 GGGTGCATTATAGGCATGAAAGGAT
*
64571 ACCAAAATAATAATGCATATGGGTGCATTATCA-GCATGAAAGGATGCCAAAATAATAATGCATA
1 ACCAAAATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGCCAAAAAAATAATGCATA
* *
64635 TGGGTGCATTATCGACATGAAAGGAT
65 TGGGTGCATTATAGGCATGAAAGGAT
* * * * *
64661 GCAAAAATAATAATGCATATTGGTTCATTATAGGCATGAAAGGATG-CAAAAATAATAATGCACA
1 ACCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAAA-AATAATGCATA
* *
64725 TGGGTGCATTATCGGCATGAGAGGAT
65 TGGGTGCATTATAGGCATGAAAGGAT
* * * * * * **
64751 GCCATGATTAA-AATGCATGAACGGATGCATTA-AGGCATAAAAGGATGCCATAATTAA-AATGC
1 ACCA-AAATAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGATGCCA-AAAAAATAATGC
* *
64813 ATGAACGGATGCATTA-AGGCATGAAAGGAT
62 AT--ATGGGTGCATTATAGGCATGAAAGGAT
*
64843 ACCATAATTAA-AATGCAT
1 ACCA-AAATAATAATGCAT
64861 GAACGAATGT
Statistics
Matches: 247, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
89 6 0.02
90 164 0.66
91 25 0.10
92 40 0.16
93 12 0.05
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (90 bp):
ACCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAAAAATAATGCATAT
GGGTGCATTATAGGCATGAAAGGAT
Found at i:64690 original size:135 final size:135
Alignment explanation
Indices: 64482--64844 Score: 412
Period size: 135 Copynumber: 2.7 Consensus size: 135
64472 AATCGAATGA
* * * * *
64482 CCAAAATAATATTTCATATGGGTTCATTATAGGCATTAAAGGATGCCAAAAAAATAATGCATATG
1 CCAAAATAATAATGCATATGGGTGCATTATAGACATGAAAGGATGCCAAAAAAATAATGCATATG
* * *
64547 GGTGCATTATAGGTATGAAAGGATACCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAA
66 GGTGCATTATAGGCATGAAAGGATACAAAAATAATAATGCACATGGGTGCATTATCAGCATGAAA
64612 GGATG
131 GGATG
*
64617 CCAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATG-CAAAAATAATAATGCATAT
1 CCAAAATAATAATGCATATGGGTGCATTATAGACATGAAAGGATGCCAAAAA-AATAATGCATAT
* * * * *
64681 TGGTTCATTATAGGCATGAAAGGATGCAAAAATAATAATGCACATGGGTGCATTATCGGCATGAG
65 GGGTGCATTATAGGCATGAAAGGATACAAAAATAATAATGCACATGGGTGCATTATCAGCATGAA
64746 AGGATG
130 AGGATG
* * * * * * **
64752 CCATGATTAA-AATGCATGAACGGATGCATTA-AGGCATAAAAGGATGCCATAATTAA-AATGCA
1 CCA-AAATAATAATGCAT--ATGGGTGCATTATAGACATGAAAGGATGCCA-AAAAAATAATGCA
* *
64814 TGAACGGATGCATTA-AGGCATGAAAGGATAC
62 T--ATGGGTGCATTATAGGCATGAAAGGATAC
64845 CATAATTAAA
Statistics
Matches: 192, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
134 6 0.03
135 124 0.65
136 23 0.12
137 29 0.15
138 10 0.05
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (135 bp):
CCAAAATAATAATGCATATGGGTGCATTATAGACATGAAAGGATGCCAAAAAAATAATGCATATG
GGTGCATTATAGGCATGAAAGGATACAAAAATAATAATGCACATGGGTGCATTATCAGCATGAAA
GGATG
Found at i:64797 original size:46 final size:46
Alignment explanation
Indices: 64746--64875 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
64736 TCGGCATGAG
*
64746 AGGATGCCATGATTAAAATGCATGAACGGATGCATTAAGGCATAAA
1 AGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATAAA
*
64792 AGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAA
1 AGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATAAA
* * *
64838 AGGATACCATAATTAAAATGCATGAACGAATGTATTAA
1 AGGATGCCATAATTAAAATGCATGAACGGATGCATTAA
64876 TGGATGAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (46 bp):
AGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATAAA
Found at i:64836 original size:20 final size:20
Alignment explanation
Indices: 64765--64842 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
64755 TGATTAAAAT
*
64765 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
64785 GCATAAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
64811 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
64831 GCATGAAAGGAT
1 GCATGAAAGGAT
64843 ACCATAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 24 0.53
21 1 0.02
22 3 0.07
24 3 0.07
25 1 0.02
26 13 0.29
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:64861 original size:26 final size:25
Alignment explanation
Indices: 64798--64863 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 25
64788 TAAAAGGATG
*
64798 CCATAATTAAAATGCATGAACGGAT
1 CCATAATTAAAATGCATGAAAGGAT
* *
64823 GC---ATT--AAGGCATGAAAGGAT
1 CCATAATTAAAATGCATGAAAGGAT
64843 ACCATAATTAAAATGCATGAA
1 -CCATAATTAAAATGCATGAA
64864 CGAATGTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 11
0.65 0.11 0.24
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 3 0.10
24 3 0.10
25 1 0.03
26 9 0.30
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (25 bp):
CCATAATTAAAATGCATGAAAGGAT
Found at i:64883 original size:46 final size:46
Alignment explanation
Indices: 64506--64884 Score: 234
Period size: 45 Copynumber: 8.3 Consensus size: 46
64496 CATATGGGTT
* ** * *
64506 CATTATAGGCATTAAAGGATGCCA-AAAAAATAATGCAT--ATGGGTG
1 CATTA-AGGCATGAAAGGATGCCATAATTAA-AATGCATGAACGGATG
* * * * *
64551 CATTATAGGTATGAAAGGATACCA-AAATAATAATGCAT--ATGGGTG
1 CATTA-AGGCATGAAAGGATGCCATAATTAA-AATGCATGAACGGATG
* * *
64596 CATTATCA-GCATGAAAGGATGCCA-AAATAATAATGCAT--ATGGGTG
1 CATTA--AGGCATGAAAGGATGCCATAATTAA-AATGCATGAACGGATG
* * * * ** *
64641 CATTATCGACATGAAAGGATG-CAAAAATAATAATGCAT-ATTGG-TT
1 CATTA-AGGCATGAAAGGATGCCATAATTAA-AATGCATGAACGGATG
* * * * *
64686 CATTATAGGCATGAAAGGATG-CAAAAATAATAATGCA--CATGGGTG
1 CATTA-AGGCATGAAAGGATGCCATAATTAA-AATGCATGAACGGATG
* * *
64731 CATTATCGGCATGAGAGGATGCCATGATTAAAATGCATGAACGGATG
1 CATTA-AGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATG
*
64778 CATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATG
* *
64824 CATTAAGGCATGAAAGGATACCATAATTAAAATGCATGAACGAATG
1 CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATG
*
64870 TATTAATGG-ATGAAA
1 CATTAA-GGCATGAAA
64885 AGAGATCATA
Statistics
Matches: 292, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
44 5 0.02
45 174 0.60
46 101 0.35
47 12 0.04
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATG
Found at i:64895 original size:46 final size:46
Alignment explanation
Indices: 64757--64895 Score: 185
Period size: 46 Copynumber: 3.0 Consensus size: 46
64747 GGATGCCATG
64757 ATTAAAATGCATGAACGGATGCATTAAGGCAT-AAAAG-GATGCCATA
1 ATTAAAATGCATGAACGGATGCATTAAGGCATGAAAAGAGAT--CATA
* * *
64803 ATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATA
1 ATTAAAATGCATGAACGGATGCATTAAGGCATGAAAAGAGATCATA
* *
64849 ATTAAAATGCATGAACGAATGTATTAATGG-ATGAAAAGAGATCATA
1 ATTAAAATGCATGAACGGATGCATTAA-GGCATGAAAAGAGATCATA
64895 A
1 A
64896 CTGAAATTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
46 75 0.91
47 6 0.07
48 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (46 bp):
ATTAAAATGCATGAACGGATGCATTAAGGCATGAAAAGAGATCATA
Found at i:64909 original size:92 final size:92
Alignment explanation
Indices: 64729--64909 Score: 215
Period size: 92 Copynumber: 2.0 Consensus size: 92
64719 TGCACATGGG
* * * * *
64729 TGCATTATCGGCATGAGAGGATGCCATGATTAAAATGCATGAACGGATGCATTAAGGCATAAAAG
1 TGCATTATAGGCATGAAAGGATACCATAATTAAAATGCATGAACGAATGCATTAAGGCATAAAAG
* *
64794 GATGCCATAATTAAAATGCATGAACGGA
66 GAT-CCATAACTAAAATGAATGAACGGA
*
64822 TGCATTA-AGGCATGAAAGGATACCATAATTAAAATGCATGAACGAATGTATTAATGG-ATGAAA
1 TGCATTATAGGCATGAAAGGATACCATAATTAAAATGCATGAACGAATGCATTAA-GGCAT-AAA
* *
64885 AGAGAT-CATAACTGAAATTAATGAA
64 AG-GATCCATAACTAAAATGAATGAA
64910 TAATTACTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
92 58 0.77
93 14 0.19
94 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (92 bp):
TGCATTATAGGCATGAAAGGATACCATAATTAAAATGCATGAACGAATGCATTAAGGCATAAAAG
GATCCATAACTAAAATGAATGAACGGA
Found at i:71173 original size:20 final size:20
Alignment explanation
Indices: 71148--71218 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
71138 CGCCCAAGAT
71148 TCCATTGAGCCCGAATGGAC
1 TCCATTGAGCCCGAATGGAC
71168 TCCATTGAGCCCGAATGGAC
1 TCCATTGAGCCCGAATGGAC
71188 TCCATTGAGCCCGAATGGAC
1 TCCATTGAGCCCGAATGGAC
*
71208 TCTATTGAGCC
1 TCCATTGAGCC
71219 ATGCTCTCGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (20 bp):
TCCATTGAGCCCGAATGGAC
Found at i:73944 original size:20 final size:21
Alignment explanation
Indices: 73921--73969 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
73911 ATGGAGTTAT
73921 CAAA-TATTTT-TTCACAATAA
1 CAAATTATTTTGTT-ACAATAA
73941 CAAATTTATTTTGTTACAATAA
1 CAAA-TTATTTTGTTACAATAA
*
73963 CACATTA
1 CAAATTA
73970 AATCTAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 3 0.12
22 16 0.64
23 2 0.08
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (21 bp):
CAAATTATTTTGTTACAATAA
Found at i:74274 original size:196 final size:198
Alignment explanation
Indices: 73938--74347 Score: 529
Period size: 196 Copynumber: 2.1 Consensus size: 198
73928 TTTTTCACAA
* *
73938 TAACAAATTTATTTTGTTACAATAACACATTAAATCTAGTCAAAATAAAAATTTAAGTCAAATAT
1 TAACAAATTTATTTAGCTACAATAACACATTAAATCTAGTCAAAATAAAAATTTAAGTCAAATAT
* * * * * * * **
74003 ATTTCATCACAATATTTTCTCAAAATAACAACTTTTGACAAATTTGTTTATTCTTAATAACAATT
66 ATTTCATCAAAATATTTTATCAAAATAAAAAATTGTGACAAATTTATTTAATCAAAATAACAATT
* * * * *
74068 TATAACAAATATTAATTTCTCAATAT-AAAAATTATGATAAATTACATTCTTTCACAATATCAAA
131 TATAACAAATATTAATTTCTCAATATAAAAAATTAGGACAAATAACATTCCTTCACAATAACAAA
74132 TTG
196 TTG
*** * * * *
74135 TAACAAATTTATTTAGCTACAATAATGTA-TAAATTTAGTCAAAATAAAAGTTT-TGTCAAATTT
1 TAACAAATTTATTTAGCTACAATAACACATTAAATCTAGTCAAAATAAAAATTTAAGTCAAATAT
*
74198 ATTTCATCAAAATATTTTATCAAAATAAAAAAATTGTGACAAATTTATTTAATCAAAATAATAAT
66 ATTTCATCAAAATATTTTATCAAAAT-AAAAAATTGTGACAAATTTATTTAATCAAAATAACAAT
* * * *
74263 TTATTACAAATATTAATTTCTCAATATAAAAAATTGGGACAAGTAATATTCCTTCACAATAACAA
130 TTATAACAAATATTAATTTCTCAATATAAAAAATTAGGACAAATAACATTCCTTCACAATAACAA
74328 ATTG
195 ATTG
*
74332 TAACAAAATTATTTAG
1 TAACAAATTTATTTAG
74348 GAAAAACGTT
Statistics
Matches: 182, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
195 32 0.18
196 78 0.43
197 72 0.40
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (198 bp):
TAACAAATTTATTTAGCTACAATAACACATTAAATCTAGTCAAAATAAAAATTTAAGTCAAATAT
ATTTCATCAAAATATTTTATCAAAATAAAAAATTGTGACAAATTTATTTAATCAAAATAACAATT
TATAACAAATATTAATTTCTCAATATAAAAAATTAGGACAAATAACATTCCTTCACAATAACAAA
TTG
Found at i:85046 original size:17 final size:17
Alignment explanation
Indices: 85019--85085 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
85009 AAGAGTTGTC
*
85019 TAATAAATGAACTAGTT
1 TAATGAATGAACTAGTT
* *
85036 TGATGAATGAAATAGTT
1 TAATGAATGAACTAGTT
* *
85053 TAATTAATGAACTAACTT
1 TAATGAATGAACT-AGTT
* *
85071 TATTCAATGAACTAG
1 TAATGAATGAACTAG
85086 ATGCATGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 25 0.64
18 14 0.36
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (17 bp):
TAATGAATGAACTAGTT
Found at i:87743 original size:17 final size:17
Alignment explanation
Indices: 87697--87744 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
87687 AAGAGTTATC
87697 TAATAAATGAACTAGTT
1 TAATAAATGAACTAGTT
* * *
87714 TGATGAATAAACTAGTT
1 TAATAAATGAACTAGTT
*
87731 TAATTAATGAACTA
1 TAATAAATGAACTA
87745 AACTTATTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
TAATAAATGAACTAGTT
Found at i:91450 original size:17 final size:17
Alignment explanation
Indices: 91423--91470 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
91413 AAGAGTTATC
* *
91423 TAATAAATGAACTATTT
1 TAATGAATGAACTAGTT
*
91440 TGATGAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
91457 TAATTAATGAACTA
1 TAATGAATGAACTA
91471 AACTTATTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
TAATGAATGAACTAGTT
Found at i:95150 original size:17 final size:17
Alignment explanation
Indices: 95123--95170 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
95113 AAGAGTTATC
*
95123 TAATAAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
95140 TGATGAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
95157 TAATTAATGAACTA
1 TAATGAATGAACTA
95171 AACTTATGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
TAATGAATGAACTAGTT
Found at i:97262 original size:15 final size:14
Alignment explanation
Indices: 97223--97254 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
97213 CTCTTTAAAC
*
97223 TTTTTTCTTTCTTT
1 TTTTTTCTTTATTT
97237 TTTTTTCTTTATTT
1 TTTTTTCTTTATTT
97251 TTTT
1 TTTT
97255 ATTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTATTT
Found at i:98835 original size:17 final size:17
Alignment explanation
Indices: 98808--98855 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
98798 AAGAGTTATC
*
98808 TAATAAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
98825 TGATGAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
98842 TAATTAATGAACTA
1 TAATGAATGAACTA
98856 AACTTATGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
TAATGAATGAACTAGTT
Found at i:100954 original size:14 final size:14
Alignment explanation
Indices: 100921--100954 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
100911 CTCTTTAAAC
*
100921 TTTTTTCTTTCTTT
1 TTTTTTCTTTATTT
*
100935 TGTTTTCTTTATTT
1 TTTTTTCTTTATTT
100949 TTTTTT
1 TTTTTT
100955 ATTTTTTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTATTT
Found at i:102539 original size:17 final size:17
Alignment explanation
Indices: 102512--102559 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
102502 AAGAGTTATC
*
102512 TAATAAATGAACTACTT
1 TAATGAATGAACTACTT
* *
102529 TGATGAATGAACTAGTT
1 TAATGAATGAACTACTT
*
102546 TAATTAATGAACTA
1 TAATGAATGAACTA
102560 AACTTATTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (17 bp):
TAATGAATGAACTACTT
Found at i:106248 original size:17 final size:17
Alignment explanation
Indices: 106226--106268 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
106216 TTATCAAATA
*
106226 AATGAACTACTTTGATG
1 AATGAACTACTTTAATG
* * *
106243 AATGAAATAGTTTAATT
1 AATGAACTACTTTAATG
106260 AATGAACTA
1 AATGAACTA
106269 AACTTATTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (17 bp):
AATGAACTACTTTAATG
Found at i:111988 original size:10 final size:9
Alignment explanation
Indices: 111974--112021 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
111964 CTCTTTAAAC
111974 TTTTTTATT
1 TTTTTTATT
*
111983 TCTTTTATT
1 TTTTTTATT
*
111992 TTCTTTA-T
1 TTTTTTATT
*
112000 TTTTTAATT
1 TTTTTTATT
*
112009 TTTTTAATT
1 TTTTTTATT
112018 TTTT
1 TTTT
112022 ATTAACCCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 6 0.18
9 27 0.82
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTATT
Found at i:111990 original size:9 final size:8
Alignment explanation
Indices: 111974--112024 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
111964 CTCTTTAAAC
111974 TTTTTTAT
1 TTTTTTAT
111982 TTCTTTTAT
1 TT-TTTTAT
111991 TTTCTTTAT
1 TTT-TTTAT
*
112000 TTTTTAAT
1 TTTTTTAT
*
112008 TTTTTTAA
1 TTTTTTAT
112016 TTTTTTAT
1 TTTTTTAT
112024 T
1 T
112025 AACCCGAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 21 0.57
9 16 0.43
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:112018 original size:17 final size:16
Alignment explanation
Indices: 111974--112022 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
111964 CTCTTTAAAC
*
111974 TTTTTTATTTCTTTTAT
1 TTTTTTATTT-TTTAAT
111991 TTTCTTTATTTTTTAAT
1 TTT-TTTATTTTTTAAT
112008 TTTTTTAATTTTTTA
1 TTTTTT-ATTTTTTA
112023 TTAACCCGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 3 0.10
17 19 0.66
18 7 0.24
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTTAAT
Found at i:113478 original size:30 final size:30
Alignment explanation
Indices: 113407--113479 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
113397 ATCAGATTTA
* * *
113407 TTTAGTGACCAAATTAAAATTTTGGTAAAG
1 TTTAGGGACCAAATTAAAACTTTGGAAAAG
*
113437 TTT-GGTAACCAAATTATAAACTTT-GAAAAG
1 TTTAGG-GACCAAATTA-AAACTTTGGAAAAG
113467 TTTAGGGACCAAA
1 TTTAGGGACCAAA
113480 ATGTAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 1 0.03
30 26 0.74
31 8 0.23
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (30 bp):
TTTAGGGACCAAATTAAAACTTTGGAAAAG
Found at i:114382 original size:11 final size:11
Alignment explanation
Indices: 114343--114374 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
114333 ATTGAGGGGT
114343 TGTTGTATAAG
1 TGTTGTATAAG
114354 TGTTGTATAAG
1 TGTTGTATAAG
114365 TGTTGTATAA
1 TGTTGTATAA
114375 TTGATGTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (11 bp):
TGTTGTATAAG
Found at i:115609 original size:88 final size:91
Alignment explanation
Indices: 115432--115639 Score: 307
Period size: 88 Copynumber: 2.3 Consensus size: 91
115422 GTAACCATGC
* * *
115432 AAATAAGCTTATGATCTTGTGGAAT-AATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTAT
115496 GAAAATAAATGGTAAATATATTGGTA
66 GAAAATAAATGGTAAATATATTGGTA
* * *
115522 AAATAAGCTTACGAGCTTATGGAATAAATGGTAATTAT-TGG-TAAAATAAGCTTACGATCTTAT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTAT
* *
115585 G-GAATAAATGGTAAGTATATTGGTA
66 GAAAATAAATGGTAAATATATTGGTA
*
115610 AAATAAGCTTACGAGCTTATGGGATAAATG
1 AAATAAGCTTACGAGCTTATGGAATAAATG
115640 ATATGTATAT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
88 51 0.47
89 22 0.20
90 25 0.23
91 10 0.09
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTAT
GAAAATAAATGGTAAATATATTGGTA
Found at i:115621 original size:45 final size:45
Alignment explanation
Indices: 115432--115655 Score: 303
Period size: 45 Copynumber: 5.0 Consensus size: 45
115422 GTAACCATGC
* * * *
115432 AAATAAGCTTATGATCTTGTGGAAT-AATGGCAAGTATA-TGGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGG-TA
* *
115476 AAATAAGCTTACGAGCTTATGAAAATAAATGGTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATG-GAATAAATGGTAAGTATATTGGTA
115522 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA-T-TATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
115565 AAATAAGCTTACGATCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * *
115610 AAATAAGCTTACGAGCTTATGGGATAAATGATATGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
115655 A
1 A
115656 GAAAGTTGTA
Statistics
Matches: 162, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
43 41 0.25
44 20 0.12
45 64 0.40
46 34 0.21
47 3 0.02
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:116602 original size:17 final size:17
Alignment explanation
Indices: 116575--116641 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
116565 AAGAGTTATC
*
116575 TAATAAATGAACTAGTT
1 TAATGAATGAACTAGTT
*
116592 TGATGAATGAACTAGTT
1 TAATGAATGAACTAGTT
* *
116609 TAATTAATGAACTAACTT
1 TAATGAATGAACT-AGTT
* *
116627 TATTCAATGAACTAG
1 TAATGAATGAACTAG
116642 ATGCATGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 27 0.66
18 14 0.34
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (17 bp):
TAATGAATGAACTAGTT
Found at i:119900 original size:34 final size:32
Alignment explanation
Indices: 119861--119930 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
119851 TTTTGTAAAG
*
119861 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
119895 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
119927 GGGA
1 GGGA
119931 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:120826 original size:26 final size:26
Alignment explanation
Indices: 120788--120846 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
120778 TATTGTTTTT
120788 ACCA-TTTTTATTGCCTCGACATTGC
1 ACCATTTTTTATTGCCTCGACATTGC
120813 ACCATTTTTTATTGCCTCGACATTGC
1 ACCATTTTTTATTGCCTCGACATTGC
120839 ACCATTTT
1 ACCATTTT
120847 CAACATTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.42
Consensus pattern (26 bp):
ACCATTTTTTATTGCCTCGACATTGC
Found at i:144019 original size:21 final size:21
Alignment explanation
Indices: 143993--144040 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
143983 ATTAGAATAT
143993 GCCCGATAGCAAAGAAGGGGC
1 GCCCGATAGCAAAGAAGGGGC
*
144014 GTCCGATAGCAAAGAAGGGGC
1 GCCCGATAGCAAAGAAGGGGC
144035 GCCCGA
1 GCCCGA
144041 GAATAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.38, T:0.06
Consensus pattern (21 bp):
GCCCGATAGCAAAGAAGGGGC
Found at i:148499 original size:50 final size:50
Alignment explanation
Indices: 148424--148524 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
148414 AGCATCAACA
148424 TTTCACTTGATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGC
1 TTTCACTTGATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGC
148474 TTTCACTTGATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGC
1 TTTCACTTGATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGC
148524 T
1 T
148525 CGATTCCAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
TTTCACTTGATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGC
Found at i:148593 original size:86 final size:86
Alignment explanation
Indices: 148482--148640 Score: 248
Period size: 86 Copynumber: 1.8 Consensus size: 86
148472 GCTTTCACTT
* *
148482 GATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCGCTCGATTCCAACACATAAGGATTT
1 GATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCACTCGATTCCAACACATAAGGAGTT
148547 GGATCAGCGTCAATTTTGCTC
66 GGATCAGCGTCAATTTTGCTC
** * *
148568 GATTCCATCACATAATG-AGTTGGATCAGGATCAACATTTCACTCGATTCCATCGCATAAGGAGT
1 GATTCCATCACATAA-GAAGTTGGATCAACATCAACATTTCACTCGATTCCAACACATAAGGAGT
148632 TGGATCAGC
65 TGGATCAGC
148641 ATCATCATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 65 0.98
87 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (86 bp):
GATTCCATCACATAAGAAGTTGGATCAACATCAACATTTCACTCGATTCCAACACATAAGGAGTT
GGATCAGCGTCAATTTTGCTC
Found at i:148669 original size:44 final size:44
Alignment explanation
Indices: 148406--148682 Score: 272
Period size: 44 Copynumber: 6.2 Consensus size: 44
148396 AAGCAAGGTT
* * * *
148406 GTTGGATTAGCATCAACATTTCACTTGATTCCATCACATAAGAA
1 GTTGGATCAGCATCAACATTTCTCTCGATTCCATCACATAAGGA
* * *
148450 GTTGGATCAACATCAACATTTCGCTTTCACTTGATTCCATCACATAAGAA
1 GTTGGATCAGCATCAACATTT--C--T--CTCGATTCCATCACATAAGGA
* * *
148500 GTTGGATCAACATCAACATTTCGCTCGATTCCAACACATAAGGA
1 GTTGGATCAGCATCAACATTTCTCTCGATTCCATCACATAAGGA
* * *
148544 TTTGGATCAGCGTC-A-ATTT-TGCTCGATTCCATCACATAATGA
1 GTTGGATCAGCATCAACATTTCT-CTCGATTCCATCACATAAGGA
* * *
148586 GTTGGATCAGGATCAACATTTCACTCGATTCCATCGCATAAGGA
1 GTTGGATCAGCATCAACATTTCTCTCGATTCCATCACATAAGGA
* * ** *
148630 GTTGGATCAGCATCATCATTTCTCTTGATTCCATTGCATAGGGA
1 GTTGGATCAGCATCAACATTTCTCTCGATTCCATCACATAAGGA
*
148674 GTTAGATCA
1 GTTGGATCA
148683 ACATTATTTC
Statistics
Matches: 197, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
42 34 0.17
43 2 0.01
44 117 0.59
46 1 0.01
48 1 0.01
50 42 0.21
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
GTTGGATCAGCATCAACATTTCTCTCGATTCCATCACATAAGGA
Found at i:148811 original size:34 final size:33
Alignment explanation
Indices: 148766--148859 Score: 91
Period size: 36 Copynumber: 2.7 Consensus size: 33
148756 GATGAGCATC
*
148766 GTTTTTATTAAAACATATTTTATCACTTG-AGATT
1 GTTTTTCTTAAAA-ATATTTTATCACTTGCA-ATT
* *
148800 GTTTTTCTTAAAAAAAGTTTTATCTCGCTTGCAATT
1 GTTTTTCTTAAAAATA-TTTTA--TCACTTGCAATT
* *
148836 GTTTTCCTTAAAAATATTCTATCA
1 GTTTTTCTTAAAAATATTTTATCA
148860 ATTTAAAGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
33 4 0.08
34 17 0.35
35 4 0.08
36 23 0.47
37 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.48
Consensus pattern (33 bp):
GTTTTTCTTAAAAATATTTTATCACTTGCAATT
Found at i:151055 original size:25 final size:22
Alignment explanation
Indices: 151002--151055 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
150992 AAAACTTTTG
*
151002 ATTTATATTTATTTTCCTTAAT
1 ATTTTTATTTATTTTCCTTAAT
*
151024 TTGTTTTATTTATTTGATCCTTTAAT
1 AT-TTTTATTTATTT--TCC-TTAAT
151050 ATTTTT
1 ATTTTT
151056 TCATTTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
25 7 0.28
26 6 0.24
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTATTTATTTTCCTTAAT
Found at i:156442 original size:21 final size:21
Alignment explanation
Indices: 156395--156435 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
156385 TCTGATTTCC
156395 TATTTGA--ATTCTGTTATGA
1 TATTTGATCATTCTGTTATGA
*
156414 TATTTGATCATTCTGTTTTGA
1 TATTTGATCATTCTGTTATGA
156435 T
1 T
156436 TTCTGATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (21 bp):
TATTTGATCATTCTGTTATGA
Found at i:157927 original size:26 final size:28
Alignment explanation
Indices: 157896--157967 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
157886 ATATATAATC
*
157896 TATATATATATATAATACTTAA-AATGTG
1 TATATATATATAT-ATACATAAGAATGTG
* **
157924 TATATATAAATATATACATAAGTGTGTG
1 TATATATATATATATACATAAGAATGTG
157952 TATATATATATATATA
1 TATATATATATATATA
157968 AGTATACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (28 bp):
TATATATATATATATACATAAGAATGTG
Found at i:157948 original size:24 final size:24
Alignment explanation
Indices: 157921--157970 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
157911 TACTTAAAAT
157921 GTGTATATATAAATATATACATAA
1 GTGTATATATAAATATATACATAA
* * * *
157945 GTGTGTGTATATATATATATATAA
1 GTGTATATATAAATATATACATAA
157969 GT
1 GT
157971 ATACATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (24 bp):
GTGTATATATAAATATATACATAA
Found at i:158584 original size:4 final size:4
Alignment explanation
Indices: 158575--158609 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
158565 ACTCATGTGA
158575 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
158610 TATGTATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:158907 original size:21 final size:21
Alignment explanation
Indices: 158883--158933 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
158873 AAGGATTATA
158883 ATTAATTTAGAAATTAAATTT
1 ATTAATTTAGAAATTAAATTT
158904 ATTAATTTAGAAATTAAATTT
1 ATTAATTTAGAAATTAAATTT
*
158925 ACTAATTTA
1 ATTAATTTA
158934 ATTATCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTAATTTAGAAATTAAATTT
Found at i:160212 original size:3 final size:3
Alignment explanation
Indices: 160186--160370 Score: 145
Period size: 3 Copynumber: 62.0 Consensus size: 3
160176 TATTTCTTAC
*
160186 TAT TA- TAT TA- TAT TA- TAC TAT TAT TAT TAT TAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
160228 TAT TAT TAT TAT TGT TAT TA- TAT ATAT TAT TAT TAT TAT ATAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
* * * * * *
160273 TAT ATAT T-T TAT TAT T-T TTT TCAT TCT GCAT TTT TTT TCTT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT TAT T-AT TAT TAT
* *
160320 TAT TAT TAT T-G TAT GTTT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
160365 TAT TAT
1 TAT TAT
160371 ATATATCTAT
Statistics
Matches: 151, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
2 16 0.11
3 117 0.77
4 18 0.12
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:160947 original size:95 final size:95
Alignment explanation
Indices: 160826--161122 Score: 468
Period size: 95 Copynumber: 3.1 Consensus size: 95
160816 ATGTATATCC
* * * *
160826 AGGTTATTATATATATACAATAAAGCTTGAGTTATCCCTCTAAAGTAATTGGTTAAACGCCCCGA
1 AGGTGATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGA
160891 CTTTATGGATAAGATTCAGCTAGCCTGATAA
65 CTTTATGGATAAGATTCAGCTAGCCTGATAA
* * *
160922 AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACACCCTGGC
1 AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGAC
*
160987 TTTATAGATAAGATTCAGCTAGCCTGATAA
66 TTTATGGATAAGATTCAGCTAGCCTGATAA
*
161017 AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCAAC
1 AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGAC
** *
161082 TTTATGGATAAGATTCAGCTAATCTAATAA
66 TTTATGGATAAGATTCAGCTAGCCTGATAA
*
161112 AGGTGTTTATA
1 AGGTGATTATA
161123 TATTGAGTTG
Statistics
Matches: 184, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
95 174 0.95
96 10 0.05
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (95 bp):
AGGTGATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGAC
TTTATGGATAAGATTCAGCTAGCCTGATAA
Found at i:162574 original size:83 final size:83
Alignment explanation
Indices: 162317--163546 Score: 1432
Period size: 83 Copynumber: 14.9 Consensus size: 83
162307 AACTATTGGT
* * * * ** * * * *
162317 AGCATAACTCAAGGCGAGAAGGATTACCTATCAACCAAGACTTTCGAGTTCGATTCCATTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
162382 CTAAGGCACATCGAATGT--
66 CAAAGGCACATC--ATTTAC
* *
162400 AGCATAGCTCAAGGCAAGAAGGGCTATTTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
162462 CAAAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * * * *
162480 AGTATAGCTCAAGGCAAAAAGGGCTATATGCCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
162545 CAAAGGAACATTATTTAC
66 CAAAGGCACATCATTTAC
* * ** * * * *
162563 AGCATAACTCAATGTTAGAAGGATTATCTGTCAACAAAAACCTTCGAGTTCGATTATACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
162628 CAAAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * *
162646 AGCGTAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTT-TAGGTTTGATTA-ACCTCAG
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGA-GTTCGATTACA-CTCAG
162709 CTCAAAGGCACATCATTTAC
64 CTCAAAGGCACATCATTTAC
* * * * * *
162729 AACATAGCTCAAGGAAAGAAGGGCTATCTACCAACCAAGACCTTTGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
162794 CAATGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
* * * * * * *
162812 AGCATAACTCAAGGCTAGAA-GGTTATATGTCAACAAAGACCTTCAACTTCGATTACACTTAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
162876 CAAAGGCACATCATTTGC
66 CAAAGGCACATCATTTAC
* * * *
162894 AGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAGACCTTCGAGTTCGATTACACTCAGTT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
162959 CAAAGACACATTATTTAC
66 CAAAGGCACATCATTTAC
* * * * ** *
162977 AGCATAACTCAATGCTAGAAGGGTTATTTGTGAACAAAAACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
163042 CAAAGGCACATCATTTAC
66 CAAAGGCACATCATTTAC
* * ** * *
163060 AGCATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTACGAGTTCGATTACACTTAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
**
163125 CAAAGGCACATCATTTGT
66 CAAAGGCACATCATTTAC
* * * *
163143 AGCGTAGCTCAAGGCAAGAATGGTTATCTGCCAACAAAAACCTTCGAGTTTGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
163208 CAAAGGTACATCATTTAC
66 CAAAGGCACATCATTTAC
* * * * *
163226 AACATAACTTAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
163291 CAAATGCACATTATTTAC
66 CAAAGGCACATCATTTAC
* * * * * *
163309 AGTATAACTCAAGGCTATAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTATACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
163374 CAAGGGCACATTATTTGC
66 CAAAGGCACATCATTTAC
* * *
163392 AGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAATACCTTCGAGTTTGATTACACTCAGCT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
163457 CAAATGTACATAATTTAC
66 CAAAGGCACATCATTTAC
* * * * * *
163475 AGCATATCTCAAGGCGAGAAGGGTTATCTTCCAACAAAAGATCTTCGAGTTCGATTACATTTAGC
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
163540 TCAAAGG
65 TCAAAGG
163547 TATATCCAGT
Statistics
Matches: 972, Mismatches: 164, Indels: 21
0.84 0.14 0.02
Matches are distributed among these distances:
78 3 0.00
80 65 0.07
81 1 0.00
82 71 0.07
83 800 0.82
84 32 0.03
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (83 bp):
AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCACATCATTTAC
Found at i:162780 original size:249 final size:249
Alignment explanation
Indices: 162317--163613 Score: 1631
Period size: 249 Copynumber: 5.2 Consensus size: 249
162307 AACTATTGGT
* * * * * * *
162317 AGCATAACTCAAGGCGAGAAGGATTACCTATCAACCAAGACTTTCGAGTTCGATTCCATTCAGCT
1 AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * *
162382 CTAAGGCACATCGA-ATGTAGCATAGCTCAAGGCAAGAAGGGCTATTTG-C--CAAAGACCTTCG
66 CAAAGGCACATC-ATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCG
* * * * * * *
162443 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCAAAAAGGGCTATA
130 AGTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATC
* * *
162508 TGCCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATTATTTAC
195 TGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
* * * *
162563 AGCATAACTCAATGTTAGAAGGATTATCTGTCAACAAAAACCTTCGAGTTCGATTATACTCAGCT
1 AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
162628 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTT-TA
66 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGA
* * * *
162692 GGTTTGATTA-ACCTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGAAAGAAGGGCTAT
131 -GTTTGATTACA-CTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTAT
* * * *
162756 CTACCAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAATGGCACATCATTTAC
194 CTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
* * * *
162812 AGCATAACTCAAGGCTAGAAGG-TTATATGTCAACAAAGACCTTCAACTTCGATTACACTTAGCT
1 AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
162876 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAGACCTTCGA
66 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGA
* * * * * * *
162941 GTTCGATTACACTCAGTTCAAAGACACATTATTTACAGCATAACTCAATGCTAGAAGGGTTATTT
131 GTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCT
** *
163006 GTGAACAAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
196 GCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
* * * *
163060 AGCATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTACGAGTTCGATTACACTTAGCT
1 AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *
163125 CAAAGGCACATCATTTGTAGCGTAGCTCAAGGCAAGAATGGTTATCTGCCAACAAAAACCTTCGA
66 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGA
* * * *
163190 GTTTGATTACACTCAGCTCAAAGGTACATCATTTACAACATAACTTAAGGCTAGAAGGGTTATCT
131 GTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCT
* * *
163255 GTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCACATTATTTAC
196 GCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
* * * *
163309 AGTATAACTCAAGGCTATAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTATACTCAGCT
1 AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *
163374 CAAGGGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAATACCTTCGA
66 CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGA
* * * * *
163439 GTTTGATTACACTCAGCTCAAATGTACATAATTTACAGCATATCTCAAGGCGAGAAGGGTTATCT
131 GTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCT
* * * * * * * *
163504 TCCAACAAAAGATCTTCGAGTTCGATTACATTTAGCTCAAAGGTATATCCA-GTAT
196 GCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-CATTTAC
* * * * * * *
163559 AGTATAACTCAAGGCGAGAATGG-TTATCTGTTAATAAAAATCGTCGAGTTCGATT
1 AGCATAACTCAAGGCTAGAA-GGATTATCTGTCAACAAAGACCTTCGAGTTCGATT
163614 CCATTAAGCT
Statistics
Matches: 920, Mismatches: 119, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
245 1 0.00
246 94 0.10
247 1 0.00
248 219 0.24
249 520 0.57
250 82 0.09
251 3 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (249 bp):
AGCATAACTCAAGGCTAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAGACCTTCGA
GTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGTTATCT
GCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAC
Found at i:165087 original size:28 final size:26
Alignment explanation
Indices: 165037--165088 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
165027 ATTTTTATTA
*
165037 TTTTTATATAATATCTTATTTATACG
1 TTTTTATATAATATCTTAATTATACG
*
165063 TTTTTATATATATATTTTTAATTATA
1 TTTTTATATA-ATA-TCTTAATTATA
165089 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 3 0.14
28 9 0.41
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTATATAATATCTTAATTATACG
Found at i:165088 original size:12 final size:14
Alignment explanation
Indices: 165035--165093 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 14
165025 TCATTTTTAT
165035 TATTTTTATATA-A
1 TATTTTTATATATA
* *
165048 TA-TCTTATTTATA
1 TATTTTTATATATA
**
165061 CGTTTTTATATATA
1 TATTTTTATATATA
165075 TATTTTTA-AT-TA
1 TATTTTTATATATA
165087 TATTTTT
1 TATTTTT
165094 CTTTTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 16 0.44
13 5 0.14
14 15 0.42
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTTTTATATATA
Found at i:165166 original size:8 final size:9
Alignment explanation
Indices: 165155--165252 Score: 62
Period size: 9 Copynumber: 11.1 Consensus size: 9
165145 TATATTATAC
165155 TATT-TTTT
1 TATTATTTT
165163 TATTA-TTT
1 TATTATTTT
* *
165171 T-TTGTCTT
1 TATTATTTT
*
165179 TATTATTAT
1 TATTATTTT
*
165188 TATTATTGT
1 TATTATTTT
* *
165197 TATTATATA
1 TATTATTTT
*
165206 TATTTTTTAT
1 TATTATTT-T
*
165216 TATTATTAT
1 TATTATTTT
165225 TA-TATATTT
1 TATTAT-TTT
165234 TA-TATATTT
1 TATTAT-TTT
165243 TATTATTTT
1 TATTATTTT
165252 T
1 T
165253 TCATTATGCA
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
7 2 0.03
8 14 0.20
9 44 0.64
10 9 0.13
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.71
Consensus pattern (9 bp):
TATTATTTT
Found at i:165170 original size:50 final size:50
Alignment explanation
Indices: 165115--165219 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
165105 CTATATTTCT
* * *
165115 TTATTTTTGGTTTTTTTTATTTCTTACTATT-ATATTATACTAT-TTTTTTA
1 TTATTTTTGGTCTTTATTA-TTATTACTATTGATATTATA-TATATTTTTTA
* * *
165165 TTATTTTTTGTCTTTATTATTATTATTATTGTTATTATATATATTTTTTA
1 TTATTTTTGGTCTTTATTATTATTACTATTGATATTATATATATTTTTTA
165215 TTATT
1 TTATT
165220 ATTATTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 12 0.26
50 35 0.74
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (50 bp):
TTATTTTTGGTCTTTATTATTATTACTATTGATATTATATATATTTTTTA
Found at i:165184 original size:3 final size:3
Alignment explanation
Indices: 165178--165333 Score: 107
Period size: 3 Copynumber: 52.7 Consensus size: 3
165168 TTTTTTGTCT
*
165178 TTA TTA TTA TTA TTA TTG TTA TTA -TA TATA TT- TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * *
165221 TTA TTA TATA TT- TTA TATA TT- TTA TTA TT- TT- TTCA TTA TGCA GTG
1 TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TTA T-TA TTA
* * *
165266 TT- TTG TCT- TTA TTA TTA TTA TTG TATA TT- TTA TTT TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
165310 TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA T-TA TT
165334 CTATATATTT
Statistics
Matches: 126, Mismatches: 11, Indels: 32
0.75 0.07 0.19
Matches are distributed among these distances:
2 19 0.15
3 89 0.71
4 18 0.14
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:165215 original size:25 final size:24
Alignment explanation
Indices: 165132--165248 Score: 91
Period size: 24 Copynumber: 4.9 Consensus size: 24
165122 TGGTTTTTTT
* * *
165132 TATTTCTTACTATTATATTATACTA
1 TATTTTTTATTATTTTATTATA-TA
* * *
165157 T-TTTTTTATTATTTT-TTGTCTT
1 TATTTTTTATTATTTTATTATATA
165179 TATTATTATTATTATTGTTATTATATA
1 TATT-TT-TTATTATT-TTATTATATA
165206 TATTTTTTATTA--TTATTAT-TA
1 TATTTTTTATTATTTTATTATATA
*
165227 TATATTTTATATATTTTATTAT
1 TATTTTTTAT-TATTTTATTAT
165249 TTTTTCATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
21 11 0.15
22 11 0.15
23 5 0.07
24 20 0.27
25 15 0.20
26 4 0.05
27 8 0.11
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (24 bp):
TATTTTTTATTATTTTATTATATA
Found at i:165461 original size:23 final size:25
Alignment explanation
Indices: 165408--165467 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
165398 TTATTTTCTG
* * *
165408 TTTTTTTATTATTATTTTATCTTAC
1 TTTTATTATTATTATCTTACCTTAC
165433 TCTTTATTATTATTATCTT-CCTTA-
1 T-TTTATTATTATTATCTTACCTTAC
165457 TTTTATGTATT
1 TTTTAT-TATT
165468 CTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 5 0.17
26 15 0.50
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTATTATTATTATCTTACCTTAC
Found at i:165522 original size:10 final size:9
Alignment explanation
Indices: 165501--165593 Score: 62
Period size: 9 Copynumber: 9.8 Consensus size: 9
165491 TTGTCCTATA
*
165501 TTATTTTAT
1 TTATTTTTT
165510 TTATTTTTGT
1 TTATTTTT-T
165520 TTACTTTTTT
1 TTA-TTTTTT
* *
165530 ATCTTTTTAT
1 TTATTTTT-T
*
165540 TTCCTTTTTCT
1 TT-ATTTTT-T
*
165551 TTATTTCTT
1 TTATTTTTT
*
165560 TT-GTTTTT
1 TTATTTTTT
*
165568 TTATTTTCT
1 TTATTTTTT
165577 TTATTTTTCT
1 TTATTTTT-T
165587 TTATTTT
1 TTATTTT
165594 CATTTTTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
8 6 0.09
9 26 0.39
10 20 0.30
11 14 0.21
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (9 bp):
TTATTTTTT
Found at i:165554 original size:41 final size:41
Alignment explanation
Indices: 165504--165582 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
165494 TCCTATATTA
*
165504 TTTTATTTATTTTTGTTTACTTTTTTATCTT-TTTATTTCCT
1 TTTTATTTATTTCT-TTTACTTTTTTATCTTCTTTATTTCCT
* ** *
165545 TTTTCTTTATTTCTTTTGTTTTTTTATTTTCTTTATTT
1 TTTTATTTATTTCTTTTACTTTTTTATCTTCTTTATTT
165583 TTCTTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 13 0.41
41 19 0.59
ACGTcount: A:0.10, C:0.09, G:0.03, T:0.78
Consensus pattern (41 bp):
TTTTATTTATTTCTTTTACTTTTTTATCTTCTTTATTTCCT
Found at i:171348 original size:15 final size:15
Alignment explanation
Indices: 171328--171369 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
171318 ATCATCATCA
171328 ACAACCACCGCCTCC
1 ACAACCACCGCCTCC
*
171343 ACAACCACCACCTCC
1 ACAACCACCGCCTCC
*
171358 ACAACCGCCGCC
1 ACAACCACCGCC
171370 ACCTCCACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.29, C:0.60, G:0.07, T:0.05
Consensus pattern (15 bp):
ACAACCACCGCCTCC
Found at i:171352 original size:18 final size:17
Alignment explanation
Indices: 171326--171389 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
171316 ATATCATCAT
*
171326 CAACAACCACCGCCTCCA
1 CAACCACCACC-CCTCCA
171344 CAACCACCA--CCTCCA
1 CAACCACCACCCCTCCA
* *
171359 CAACCGCCGCCACCTCCA
1 CAACCACCACC-CCTCCA
*
171377 CAACCATCACCCC
1 CAACCACCACCCC
171390 CAGAACCAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.35
17 2 0.05
18 22 0.59
ACGTcount: A:0.30, C:0.59, G:0.05, T:0.06
Consensus pattern (17 bp):
CAACCACCACCCCTCCA
Found at i:177399 original size:21 final size:21
Alignment explanation
Indices: 177369--177410 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
177359 TAATGAACAG
* *
177369 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCAATGCAT
*
177390 TGCTATAGTGCACCAATGCAT
1 TGCTACAGTGCACCAATGCAT
177411 AAAACTTCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCACCAATGCAT
Found at i:177905 original size:9 final size:9
Alignment explanation
Indices: 177888--177936 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
177878 GAATTCATAT
177888 AATAAGTTC
1 AATAAGTTC
*
177897 AATAGGTTC
1 AATAAGTTC
177906 AAT-AGATTC
1 AATAAG-TTC
*
177915 AATAAGTTT
1 AATAAGTTC
*
177924 AATAAATTC
1 AATAAGTTC
177933 AATA
1 AATA
177937 GCCCATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 30 0.91
10 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (9 bp):
AATAAGTTC
Found at i:177915 original size:18 final size:18
Alignment explanation
Indices: 177888--177937 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
177878 GAATTCATAT
*
177888 AATAAGTTCAATAGGTTC
1 AATAAATTCAATAGGTTC
* * *
177906 AATAGATTCAATAAGTTT
1 AATAAATTCAATAGGTTC
177924 AATAAATTCAATAG
1 AATAAATTCAATAG
177938 CCCATGATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (18 bp):
AATAAATTCAATAGGTTC
Found at i:178349 original size:31 final size:31
Alignment explanation
Indices: 178300--178379 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
178290 TTATATCGCG
*
178300 TAGAGATATCA-TTTCCATACCTTTATAACA
1 TAGACATATCATTTTCCATACCTTTATAACA
* *
178330 TAGACATATCATTTTCCATACTTTTATCACA
1 TAGACATATCATTTTCCATACCTTTATAACA
*
178361 TAGCTCATATCACTTTTCC
1 TAG-ACATATCA-TTTTCC
178380 TGCATATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 10 0.23
31 20 0.47
32 7 0.16
33 6 0.14
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (31 bp):
TAGACATATCATTTTCCATACCTTTATAACA
Found at i:184552 original size:21 final size:21
Alignment explanation
Indices: 184523--184565 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
184513 ATGGAAATTA
*
184523 TGCATCGATGCACTGCTACAG
1 TGCAGCGATGCACTGCTACAG
184544 TGCAGCGATGCACTGCTACAG
1 TGCAGCGATGCACTGCTACAG
184565 T
1 T
184566 ACTACTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (21 bp):
TGCAGCGATGCACTGCTACAG
Found at i:185037 original size:18 final size:18
Alignment explanation
Indices: 185011--185050 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
185001 GAATTCATAT
* *
185011 AATAGGTTCAATAGATTC
1 AATAAGTTCAATAAATTC
185029 AATAAGTTCAATAAATTC
1 AATAAGTTCAATAAATTC
185047 AATA
1 AATA
185051 GCCCATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
AATAAGTTCAATAAATTC
Found at i:185199 original size:23 final size:23
Alignment explanation
Indices: 185133--185218 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
185123 TCGTATAAAT
185133 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
185156 TTTGTC-CCGAAG-GACCGCGTAGAA
1 -TTG-CACCGAAGTG-CCACGTAGAA
185180 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
185203 ATGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
185219 TGTAAGATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.02
23 33 0.61
24 19 0.35
25 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:185520 original size:31 final size:31
Alignment explanation
Indices: 185461--185539 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
185451 TTATACTGCG
*
185461 TAGACATATCA-TTTCCATACCTTTATCACA
1 TAGACATATCATTTTCAATACCTTTATCACA
*
185491 TAGACATATCATTTTCAATACTTTTATCACA
1 TAGACATATCATTTTCAATACCTTTATCACA
*
185522 TAGCTCATATCACTTTTC
1 TAG-ACATATCA-TTTTC
185540 CTGCATATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 11 0.26
31 20 0.47
32 7 0.16
33 5 0.12
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.41
Consensus pattern (31 bp):
TAGACATATCATTTTCAATACCTTTATCACA
Found at i:186165 original size:17 final size:17
Alignment explanation
Indices: 186143--186177 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
186133 TATTATATCC
186143 CATATATCATTCAAATT
1 CATATATCATTCAAATT
186160 CATATATCATTCAAATT
1 CATATATCATTCAAATT
186177 C
1 C
186178 TTAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (17 bp):
CATATATCATTCAAATT
Found at i:187441 original size:34 final size:34
Alignment explanation
Indices: 187403--187504 Score: 147
Period size: 34 Copynumber: 3.1 Consensus size: 34
187393 TATCCAATCC
187403 AAAATAATCCAAAGTGGCATAGCCATAACAAAAA
1 AAAATAATCCAAAGTGGCATAGCCATAACAAAAA
* *
187437 AAAATAATCCAAAGCGGCATAGCCACAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCATAACAAAA-A
*
187472 AAAATAATTCAAAGTGGCATA-CC-T-ACAAAAA
1 AAAATAATCCAAAGTGGCATAGCCATAACAAAAA
187503 AA
1 AA
187505 TAAAAACAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
31 3 0.05
32 6 0.10
34 33 0.53
35 20 0.32
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.15
Consensus pattern (34 bp):
AAAATAATCCAAAGTGGCATAGCCATAACAAAAA
Found at i:187485 original size:35 final size:35
Alignment explanation
Indices: 187403--187518 Score: 164
Period size: 35 Copynumber: 3.3 Consensus size: 35
187393 TATCCAATCC
*
187403 AAAATAATCCAAAGTGGCATAGCCATAACAAAA-A
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
*
187437 AAAATAATCCAAAGCGGCATAGCCACAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
* *
187472 AAAATAATTCAAAGTGGCATA-CCTACAAAAAAATA
1 AAAATAATCCAAAGTGGCATAGCC-ACAACAAAATA
*
187507 AAAACAATCCAA
1 AAAATAATCCAA
187519 CGTAGTTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
34 33 0.45
35 40 0.55
ACGTcount: A:0.57, C:0.19, G:0.09, T:0.15
Consensus pattern (35 bp):
AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
Found at i:189866 original size:13 final size:14
Alignment explanation
Indices: 189850--189885 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
189840 TAAGATTTTC
189850 TTTTTGAAAAT-AA
1 TTTTTGAAAATCAA
189863 TTTTTG-AAATCAA
1 TTTTTGAAAATCAA
189876 -TTTTGAAAAT
1 TTTTTGAAAAT
189886 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTTTGAAAATCAA
Found at i:192620 original size:15 final size:15
Alignment explanation
Indices: 192600--192630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
192590 TCTCCTTTAG
192600 TGAAATGATCTCTAA
1 TGAAATGATCTCTAA
*
192615 TGAAATGATGTCTAA
1 TGAAATGATCTCTAA
192630 T
1 T
192631 TTCAATGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAATGATCTCTAA
Found at i:193127 original size:35 final size:35
Alignment explanation
Indices: 193088--193204 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
193078 TATCCAATCC
*
193088 AAAATAATCCAAAGTGGCATAGCCATAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
193123 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
* *
193158 AAAATAATTCAAAGTGGCATA-CCTACAAAAAAATA
1 AAAATAATCCAAAGTGGCATAGCC-ACAACAAAATA
*
193193 AAAACAATCCAA
1 AAAATAATCCAA
193205 CGTAGTTCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
34 2 0.03
35 74 0.97
ACGTcount: A:0.56, C:0.18, G:0.09, T:0.16
Consensus pattern (35 bp):
AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
Found at i:195426 original size:20 final size:20
Alignment explanation
Indices: 195401--195444 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
195391 AATTTAATCG
*
195401 AATATATAAAT-TCAAAATTA
1 AATATA-AAATATAAAAATTA
*
195421 AATATAAAATATAAAAATTC
1 AATATAAAATATAAAAATTA
195441 AATA
1 AATA
195445 ATACTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATAAAATATAAAAATTA
Found at i:195553 original size:13 final size:14
Alignment explanation
Indices: 195537--195572 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
195527 TAAGATTTTC
195537 TTTTTGAAAAT-AA
1 TTTTTGAAAATCAA
195550 TTTTTG-AAATCAA
1 TTTTTGAAAATCAA
195563 -TTTTGAAAAT
1 TTTTTGAAAAT
195573 TTTGAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTTTGAAAATCAA
Found at i:197904 original size:21 final size:22
Alignment explanation
Indices: 197854--197910 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
197844 TAAACCTAAT
* *
197854 AGGGGGTATCGGTACACATTCA
1 AGGGGGTATCGATACACATACA
* *
197876 A-GGTGTATCGATACATA-ACA
1 AGGGGGTATCGATACACATACA
197896 AGGGGGTATCGATAC
1 AGGGGGTATCGATAC
197911 CTAGTGATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 25 0.86
22 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (22 bp):
AGGGGGTATCGATACACATACA
Found at i:198321 original size:15 final size:15
Alignment explanation
Indices: 198301--198331 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
198291 TCTCCTTTTG
198301 TGAAATGATCTCTAA
1 TGAAATGATCTCTAA
*
198316 TGAAATGATGTCTAA
1 TGAAATGATCTCTAA
198331 T
1 T
198332 TTCAATGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAATGATCTCTAA
Found at i:199044 original size:35 final size:35
Alignment explanation
Indices: 198998--199114 Score: 173
Period size: 35 Copynumber: 3.3 Consensus size: 35
198988 TATCCAATCC
*
198998 AAAATAATCCAAAGTGGCATAGCCATAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
*
199033 AAAATAATCCAAAATGGCATAGCCACAACAAAATA
1 AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
* *
199068 AAAATAATTCAAAGTGGCATA-CCTACAAAAAAATA
1 AAAATAATCCAAAGTGGCATAGCC-ACAACAAAATA
*
199103 AAAACAATCCAA
1 AAAATAATCCAA
199115 CGTAGTTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
34 2 0.03
35 72 0.97
ACGTcount: A:0.57, C:0.18, G:0.09, T:0.16
Consensus pattern (35 bp):
AAAATAATCCAAAGTGGCATAGCCACAACAAAATA
Found at i:203819 original size:21 final size:22
Alignment explanation
Indices: 203769--203825 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
203759 TAAACCTAAT
* *
203769 AGGGGGTATCGGTACACATTCA
1 AGGGGGTATCGATACACATGCA
* *
203791 A-GGTGTATCGATACATA-GCA
1 AGGGGGTATCGATACACATGCA
203811 AGGGGGTATCGATAC
1 AGGGGGTATCGATAC
203826 CTAGTGATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 25 0.86
22 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.23
Consensus pattern (22 bp):
AGGGGGTATCGATACACATGCA
Found at i:204235 original size:15 final size:15
Alignment explanation
Indices: 204215--204245 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
204205 TCTCCTTTAG
204215 TGAAATGATCTCTAA
1 TGAAATGATCTCTAA
*
204230 TGAAATGATGTCTAA
1 TGAAATGATCTCTAA
204245 T
1 T
204246 TTCAATGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAATGATCTCTAA
Found at i:207869 original size:117 final size:117
Alignment explanation
Indices: 207649--207870 Score: 295
Period size: 117 Copynumber: 1.9 Consensus size: 117
207639 CTTTCAAATA
* *
207649 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAATATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTAAAAGCTCTAAATCCTTCTTCAATATTT
* * *
207714 CATTTTGATTTTTAAAATCCATTTTAGTTTCTAGAAGAAGTTTGTTTAATTC
66 CATTTTGATTTTCAAAATCCATATTAGTTTCTAAAAGAAGTTTGTTTAATTC
* * * * *
207766 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTCATTTTTAAAAGTTCTAACTCCTTTTTCAATATT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTAAAAGCTCTAAATCCTTCTTCAATATT
* * *
207830 TCATTTTGATTTTCCAAGTCTATATTAGCTTTC-AAAAGAAG
65 TCATTTTGATTTTCAAAATCCATATTAG-TTTCTAAAAGAAG
207871 AACATTTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
116 1 0.01
117 85 0.94
118 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTAAAAGCTCTAAATCCTTCTTCAATATTT
CATTTTGATTTTCAAAATCCATATTAGTTTCTAAAAGAAGTTTGTTTAATTC
Found at i:220873 original size:39 final size:37
Alignment explanation
Indices: 220824--221018 Score: 144
Period size: 39 Copynumber: 5.3 Consensus size: 37
220814 AAAACATTTA
*
220824 TATATTATATAGTTTTTAAAAAATCTTTTTGAAAAAAT
1 TATATAATATAGTTTTTAAAAAATCTTTTTG-AAAAAT
* *
220862 ATATATAATATATAGTTTTT-TAAAA-CATTTTG-AAAA-
1 -TATAT-A-ATATAGTTTTTAAAAAATCTTTTTGAAAAAT
*
220898 TA-AT-ATATAG-TTTT-GAAAA-CTATTTTGAAAAACT
1 TATATAATATAGTTTTTAAAAAATCT-TTTTGAAAAA-T
*
220932 TATATAATATATAGTTTTTAAAAACATATTTTTGAAAAAT
1 TATAT-A-ATATAGTTTTTAAAAA-ATCTTTTTGAAAAAT
*
220972 TATATAATATA-TAATTTTAAAAACAT-TTTTT-AAAACT
1 TATATAATATAGT--TTTTAAAAA-ATCTTTTTGAAAAAT
221009 TATATAATAT
1 TATATAATAT
221019 TTTTACATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 34
0.76 0.05 0.20
Matches are distributed among these distances:
30 9 0.07
31 11 0.08
32 4 0.03
34 4 0.03
35 4 0.03
37 20 0.15
38 16 0.12
39 28 0.21
40 13 0.10
41 22 0.17
42 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATAATATAGTTTTTAAAAAATCTTTTTGAAAAAT
Found at i:220937 original size:31 final size:31
Alignment explanation
Indices: 220866--220928 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
220856 AAAAATATAT
*
220866 ATAATATATAGTTTTTTAAAACATTTTGAAA
1 ATAATATATAGTTTTTGAAAACATTTTGAAA
220897 ATAATATATAG-TTTTGAAAACTATTTTGAAA
1 ATAATATATAGTTTTTGAAAAC-ATTTTGAAA
220928 A
1 A
220929 ACTTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (31 bp):
ATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:220939 original size:38 final size:38
Alignment explanation
Indices: 220897--221018 Score: 167
Period size: 39 Copynumber: 3.2 Consensus size: 38
220887 CATTTTGAAA
*
220897 ATAATATATAGTTTTGAAAACTATTTTGAAAAACTTAT
1 ATAATATATAGTTTTAAAAACTATTTTGAAAAACTTAT
220935 ATAATATATAGTTTTTAAAAACATATTTTTGAAAAA-TTAT
1 ATAATATATAG-TTTTAAAAAC-TA-TTTTGAAAAACTTAT
* **
220975 ATAATATATAATTTTAAAAAC-ATTTTTTAAAACTTAT
1 ATAATATATAGTTTTAAAAACTATTTTGAAAAACTTAT
221012 ATAATAT
1 ATAATAT
221019 TTTTACATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
36 8 0.11
37 12 0.16
38 11 0.14
39 19 0.25
40 16 0.21
41 10 0.13
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (38 bp):
ATAATATATAGTTTTAAAAACTATTTTGAAAAACTTAT
Found at i:221014 original size:110 final size:109
Alignment explanation
Indices: 220787--221057 Score: 322
Period size: 110 Copynumber: 2.5 Consensus size: 109
220777 TTAAATATAT
* * *
220787 ATAATATATAGATTTGAAAACATTTT-AAAAACATTTATATATTATATAGTTTTTAAAAAATCTT
1 ATAATATATAGTTTTGAAAACATTTTGAAAAAC--TTATATAATATATAGTTTTTAAAAAATATT
* *
220851 TTTGAAAAAATATATATAATATATAGTTTTTTAAAACATTTTGAAA
64 TTTGAAAAAATATATATAATATATAGATTTTAAAAACATTTTGAAA
220897 ATAATATATAGTTTTGAAAACTATTTTGAAAAACTTATATAATATATAGTTTTTAAAAACATATT
1 ATAATATATAGTTTTGAAAAC-ATTTTGAAAAACTTATATAATATATAGTTTTTAAAAA-ATATT
*
220962 TTTG-AAAAAT-TATATAATATATA-ATTTTAAAAACATTTTTTAAA
64 TTTGAAAAAATATATATAATATATAGATTTTAAAAACA-TTTTGAAA
* * * * *
221006 ACTTATATAATA-TTTTTACATCATTTTTG-AAAAC-TATATAAAATATAGTTTT
1 A-TAATAT-ATAGTTTTGAAAACA-TTTTGAAAAACTTATATAATATATAGTTTT
221058 GAAATTTTTT
Statistics
Matches: 143, Mismatches: 11, Indels: 16
0.84 0.06 0.09
Matches are distributed among these distances:
108 27 0.19
109 27 0.19
110 67 0.47
111 16 0.11
112 6 0.04
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (109 bp):
ATAATATATAGTTTTGAAAACATTTTGAAAAACTTATATAATATATAGTTTTTAAAAAATATTTT
TGAAAAAATATATATAATATATAGATTTTAAAAACATTTTGAAA
Found at i:221100 original size:32 final size:31
Alignment explanation
Indices: 221041--221108 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
221031 TTTGAAAACT
** *
221041 ATATAAAATATAGTTTTGAAATTTTTTTAAGA
1 ATATAAAATATAGTTTAAAAATATTTTTAA-A
*
221073 ATATAATAA-ATAGTTTAAAAATATTTTTGAA
1 ATATAA-AATATAGTTTAAAAATATTTTTAAA
221104 ATATA
1 ATATA
221109 TATATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 6 0.19
32 23 0.74
33 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (31 bp):
ATATAAAATATAGTTTAAAAATATTTTTAAA
Found at i:221151 original size:18 final size:20
Alignment explanation
Indices: 221103--221152 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
221093 ATATTTTTGA
*
221103 AATATATATATTATATAGTT
1 AATATATATATTATATAATT
*
221123 TATAT-TATATTAT-TAATT
1 AATATATATATTATATAATT
221141 AATATAT-TATTA
1 AATATATATATTA
221153 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.50
19 9 0.35
20 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATATATATATTATATAATT
Found at i:222029 original size:19 final size:20
Alignment explanation
Indices: 221986--222031 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
221976 AATGAGTATT
221986 AAGGAGTTAAAGTATGAGTA
1 AAGGAGTTAAAGTATGAGTA
*
222006 GAGGAGTT-AAGTAT-AGGTA
1 AAGGAGTTAAAGTATGA-GTA
222025 AAGGAGT
1 AAGGAGT
222032 GAAATAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (20 bp):
AAGGAGTTAAAGTATGAGTA
Found at i:222116 original size:22 final size:22
Alignment explanation
Indices: 222088--222132 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
222078 ACTATAATTT
*
222088 CTGGGCAGAGGGTATCGATACC
1 CTGGGCAGAGGGCATCGATACC
222110 CTGGGCAGAGGGCATCGATACC
1 CTGGGCAGAGGGCATCGATACC
222132 C
1 C
222133 CCCTTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.16
Consensus pattern (22 bp):
CTGGGCAGAGGGCATCGATACC
Found at i:222270 original size:20 final size:20
Alignment explanation
Indices: 222223--222260 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
222213 TTTTAGAATG
222223 TAGATA-GGTATCTATACCC
1 TAGATAGGGTATCTATACCC
222242 TAGATAGGGTATCTATACC
1 TAGATAGGGTATCTATACC
222261 TCAGTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
TAGATAGGGTATCTATACCC
Found at i:222665 original size:59 final size:58
Alignment explanation
Indices: 222599--222979 Score: 247
Period size: 59 Copynumber: 6.5 Consensus size: 58
222589 ATGGCACTTT
* *
222599 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATGG-GCACTGA
* * *** * *
222658 GTATGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGAT-GGGCA-CTGA
* * ** *
222717 -TGTGCTAAAATGGTAAAGG-AATCATACTGAGTGAATGGATTTCCAGATAAAGCACTAA
1 GTGTGCTAAAATGAT-AAGGAAATCATACTGAGTGTATGGATTTCCAGAT-GGGCACTGA
* * * * * * * **
222775 GGGTGCTACAAGGATAAGGAAATCATACTAAGGGTATGGATTTTCACATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGAT-GGGCACTGA
* * * * * * *
222834 TTGTGCTAAAATGGTAATGAATTCATACT-AATGGTATGGATTTTC-GAATAGGGCACTTCA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCAG-AT-GGGCAC-TGA
* * **
222894 -TGTGCTAAAATGA-AAGAGAAATCATACTAAGTGTAT-GATCTTTCAGATAAAGCACTGA
1 GTGTGCTAAAATGATAAG-GAAATCATACTGAGTGTATGGAT-TTCCAGAT-GGGCACTGA
* * * *
222952 GAGTGCTAATATTATAAGGAAATTATAC
1 GTGTGCTAAAATGATAAGGAAATCATAC
222980 AAATTGTATG
Statistics
Matches: 251, Mismatches: 56, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
58 57 0.23
59 183 0.73
60 11 0.04
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (58 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATGGGCACTGA
Found at i:222860 original size:118 final size:116
Alignment explanation
Indices: 222591--222862 Score: 323
Period size: 117 Copynumber: 2.3 Consensus size: 116
222581 ATTACCAAAT
* * * * **
222591 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCACTTTTTGTGCTAAAATGGTAAGG-AATCATACTGAGTGAATAGATTTCCAGATAAAGCACT
* * * * *
222656 GAGTATGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
65 AAGGATGCTAAAGGATAAGGAAATCATACTGAAAATATGGATTTCCACATAG
*
222708 GGCA-TTTTATGTGCTAAAATGGTAAAGGAATCATACTGAGTGAATGGATTTCCAGATAAAGCAC
1 GGCACTTTT-TGTGCTAAAATGGT-AAGGAATCATACTGAGTGAATAGATTTCCAGATAAAGCAC
* ** *
222772 TAAGGGTGCTACAAGGATAAGGAAATCATACT-AAGGGTATGGATTTTCACATAG
64 TAAGGATGCTA-AAGGATAAGGAAATCATACTGAA-AATATGGATTTCCACATAG
*
222826 GGCACTTTTTGTGCTAAAATGGTAATGAATTCATACT
1 GGCACTTTTTGTGCTAAAATGGTAAGGAA-TCATACT
222863 AATGGTATGG
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
116 3 0.02
117 63 0.48
118 62 0.47
119 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (116 bp):
GGCACTTTTTGTGCTAAAATGGTAAGGAATCATACTGAGTGAATAGATTTCCAGATAAAGCACTA
AGGATGCTAAAGGATAAGGAAATCATACTGAAAATATGGATTTCCACATAG
Found at i:222873 original size:118 final size:116
Alignment explanation
Indices: 222591--222876 Score: 326
Period size: 118 Copynumber: 2.4 Consensus size: 116
222581 ATTACCAAAT
* * * * **
222591 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCACTTTTTGTGCTAAAATGGTAAGG-AATCATACTGAGTGTATGGATTTCCAGATAAAGCACT
* * * * *
222656 GAGTATGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
65 AAGGATGCTAAAGGATAAGGAAATCATACTGAAAATATGGATTTCCACATAG
*
222708 GGCA-TTTTATGTGCTAAAATGGTAAAGGAATCATACTGAGTGAATGGATTTCCAGATAAAGCAC
1 GGCACTTTT-TGTGCTAAAATGGT-AAGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCAC
* ** *
222772 TAAGGGTGCTACAAGGATAAGGAAATCATACT-AAGGGTATGGATTTTCACATAG
64 TAAGGATGCTA-AAGGATAAGGAAATCATACTGAA-AATATGGATTTCCACATAG
* *
222826 GGCACTTTTTGTGCTAAAATGGTAATGAATTCATACT-AATGGTATGGATTT
1 GGCACTTTTTGTGCTAAAATGGTAAGGAA-TCATACTGAGT-GTATGGATTT
222877 TCGAATAGGG
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
116 3 0.02
117 65 0.45
118 71 0.50
119 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (116 bp):
GGCACTTTTTGTGCTAAAATGGTAAGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTA
AGGATGCTAAAGGATAAGGAAATCATACTGAAAATATGGATTTCCACATAG
Found at i:222890 original size:118 final size:114
Alignment explanation
Indices: 222591--222938 Score: 321
Period size: 118 Copynumber: 3.0 Consensus size: 114
222581 ATTACCAAAT
* * * *
222591 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCACTTTTTGTGCTAAAATGGTAAGG-AATCATACTGAGTGTATGGATTTCAATA-GG-GCACT
* * * * * *
222656 GAGTATGCTAAATGATAAGGAAATCATATTGAA-AATATGGATTTCCAGATAG
63 AAGTGTGCTAAATGATAAGGAAATCATACT-AAGAGTATGGATTTTCACATAG
* **
222708 GGCA-TTTTATGTGCTAAAATGGTAAAGGAATCATACTGAGTGAATGGATTTCCAGATAAAGCAC
1 GGCACTTTT-TGTGCTAAAATGGT-AAGGAATCATACTGAGTGTATGGATTT-CA-ATAGGGCAC
* * *
222772 TAAGGGTGCTACAAGGATAAGGAAATCATACTAAGGGTATGGATTTTCACATAG
62 TAAGTGTGCTA-AATGATAAGGAAATCATACTAAGAGTATGGATTTTCACATAG
* *
222826 GGCACTTTTTGTGCTAAAATGGTAATGAATTCATACT-AATGGTATGGATTTTCGAATAGGGCAC
1 GGCACTTTTTGTGCTAAAATGGTAAGGAA-TCATACTGAGT-GTATGGA-TTTC-AATAGGGCAC
* *
222890 TTCA-TGTGCTAAAATGA-AAGAGAAATCATACTAAGTGTAT-GATCTTTCA
62 -TAAGTGTGCT-AAATGATAAG-GAAATCATACTAAGAGTATGGAT-TTTCA
222939 GATAAAGCAC
Statistics
Matches: 191, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
116 3 0.02
117 65 0.34
118 109 0.57
119 14 0.07
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (114 bp):
GGCACTTTTTGTGCTAAAATGGTAAGGAATCATACTGAGTGTATGGATTTCAATAGGGCACTAAG
TGTGCTAAATGATAAGGAAATCATACTAAGAGTATGGATTTTCACATAG
Found at i:224578 original size:20 final size:20
Alignment explanation
Indices: 224537--224580 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
224527 AATCATATTA
*
224537 TTATTATTATTATTTACCTC
1 TTATTATTATTATTTACATC
224557 TTATTATTATTTATTT-CATC
1 TTATTATTA-TTATTTACATC
224577 TTAT
1 TTAT
224581 ATTTTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTATTATTATTTACATC
Found at i:224631 original size:5 final size:5
Alignment explanation
Indices: 224602--224682 Score: 51
Period size: 5 Copynumber: 15.2 Consensus size: 5
224592 TATTTAATAC
*
224602 TTATT ATTATT ATTATT TGTATT TTATT TTATT TT-TAT TAATT TT-TCCT
1 TTATT -TTATT -TTATT T-TATT TTATT TTATT TTAT-T TTATT TTAT--T
*
224651 TTGATT AGT-TT TTATT TTATT TTATT TTATT T
1 TT-ATT -TTATT TTATT TTATT TTATT TTATT T
224683 AAAATATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
4 3 0.05
5 36 0.58
6 21 0.34
7 1 0.02
8 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:228807 original size:96 final size:98
Alignment explanation
Indices: 228545--228812 Score: 260
Period size: 100 Copynumber: 2.7 Consensus size: 98
228535 CCATATTATA
* * *
228545 ATTATAAATAT-ATACAATAAAGCTTGAGATGTCCCTCTAAAGGAATT-CGTTAAACGCGCCGGC
1 ATTAT-AATATCATACAAGAAA-CTTGAGATGTCCCTCTAAAGCAATTGC-TTAAACGCCCCGGC
228608 TTTATGGATAAGATTCAACTAAGCCTGATAAAGATG
63 TTTATGGATAAGATTCAACTAAGCCTGATAAAGATG
* * * * * ** ** *
228644 ATTATAATATCTATACAATAAAGCTTGAGTTGTCCCTCTACAGTAATTGGTTAGTCATCCCAGCT
1 ATTATAATATC-ATACAAGAAA-CTTGAGATGTCCCTCTAAAGCAATTGCTTAAACGCCCCGGCT
* * *
228709 TTATGGATAATATTTAGCT-AGCCTGATAAA-ACTG
64 TTATGGATAAGATTCAACTAAGCCTGATAAAGA-TG
* * *
228743 ATTATAATATC-TACAACGATA-TTGAGCTGTCCCTCTAGAGCAATTGCTTAAACGCCCCGGCTT
1 ATTATAATATCATACAA-GAAACTTGAGATGTCCCTCTAAAGCAATTGCTTAAACGCCCCGGCTT
228806 TATGGAT
65 TATGGAT
228813 TCAGTTAGGC
Statistics
Matches: 140, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
96 40 0.29
97 5 0.04
98 8 0.06
99 29 0.21
100 58 0.41
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (98 bp):
ATTATAATATCATACAAGAAACTTGAGATGTCCCTCTAAAGCAATTGCTTAAACGCCCCGGCTTT
ATGGATAAGATTCAACTAAGCCTGATAAAGATG
Found at i:230028 original size:84 final size:84
Alignment explanation
Indices: 229838--230962 Score: 1294
Period size: 84 Copynumber: 13.5 Consensus size: 84
229828 CATAGAAACT
* * * *
229838 ATCATTT-CAGCATAACTCAAGGCTAGAGGGGCTATCTGCCACCAAAAGACCTTCGAGTTC-A--
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
229899 ACGTTCAGCTCTAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* *
229918 ATCATTTGCACCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
229983 ATGCTCAACTCCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* ** * * * * * * *
230002 ATCATTTGCAATATAGGTAAAGGCTAGAAGGGCTATTTGCCATCAAAATACCTTCAAGTTTGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
230067 AAGTTCAGCTCCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
** * * * *
230086 ATCATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTTGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
*
230151 ACGCTCAGCCCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * * * * *
230170 ATCATTTGCAGCATAGCTAAAAGGTTAGAAGGGTTATTTTCC-ACAAAAGACCTTCGAGTTTGAC
1 ATCATTTGCAACATAACT-CAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAC
*
230234 TACGCTCAGCTCCAAGGCAT
65 TACGCTCAGCTCCAAGGCAC
** * * * *
230254 ATCATTTGTGACATAACTCAAGGCTAGAAGGGTTATCTGTCAGCCAAATACCTTCGAGTTCGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* *
230319 ACGCTCAGCTACAAGGCAG
66 ACGCTCAGCTCCAAGGCAC
* * * * * * *
230338 ATCATTTGCAATATAGCTCAAGG-TAAGAAGGTTTATTTGCCAACTAAAGACCTTTGAGTTTGAC
1 ATCATTTGCAACATAACTCAAGGCT-AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAC
*
230402 TACGCTCAGCTCTAAGGCAC
65 TACGCTCAGCTCCAAGGCAC
** * *
230422 GCCATTTACAACATAACTCAAGGCTAGAAGGTTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
*
230487 ACGCTCAGCTCCAAGGTAC
66 ACGCTCAGCTCCAAGGCAC
* * * * * *
230506 ATCATTTGTAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCAAGTTTGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
** *
230571 ACGCTCAGCTCCCTGGCAT
66 ACGCTCAGCTCCAAGGCAC
*
230590 ATCATTTGCAGA-TTAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAC
1 ATCATTTGCA-ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAC
*
230654 TACGCTCAGCTCTAAGGCAC
65 TACGCTCAGCTCCAAGGCAC
* * * * * * **
230674 ATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACATTCGAGTTTAACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
230739 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
** * * * *
230758 ATCATTTGCAACATAGTTCAAGGC-AAAAGGGATATTTGCAAACAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
230822 ACACTCAGCTCCATGGCAT
66 ACGCTCAGCTCCAAGGCAC
* * * *
230841 ATCATTTGCAGCATAACTAAAGGCTAGAAGGGTTATCTGCCTACAAAAGACCTTCGAGTTCAACT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
230906 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * *
230925 ATCATTTGTAACATAGCTCAAGGCAAGAAGGGCTATCT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCT
230963 ATCAACCAAA
Statistics
Matches: 879, Mismatches: 155, Indels: 18
0.84 0.15 0.02
Matches are distributed among these distances:
80 7 0.01
81 48 0.05
82 1 0.00
83 89 0.10
84 712 0.81
85 22 0.03
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCAC
Found at i:231622 original size:11 final size:11
Alignment explanation
Indices: 231608--231632 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
231598 TATAATATAG
231608 TTTTGAAAACA
1 TTTTGAAAACA
231619 TTTTGAAAACA
1 TTTTGAAAACA
231630 TTT
1 TTT
231633 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:231636 original size:38 final size:36
Alignment explanation
Indices: 231556--231928 Score: 232
Period size: 38 Copynumber: 10.5 Consensus size: 36
231546 TATATATATG
* * ** *
231556 TATATAGTAATTTAGTTTTTTAAAATGTTTTTGAAATA
1 TATATA-TAATATAG-TTTTAAAAACATTTTTGAAAAA
*
231594 TATATATAATATAGTTTTGAAAACA-TTTTGAAAACA
1 TATATATAATATAGTTTTAAAAACATTTTTGAAAA-A
*
231630 TTTATATATTATATAGTTTTTAAAAA-ATCATTTTGAAAAATA
1 --TATATATAATATAG-TTTTAAAAACAT--TTTTG-AAAA-A
* *
231672 TATATATAATATATTTTTTCAAAACA-TTTTG--AAA
1 TATATATAATATA-GTTTTAAAAACATTTTTGAAAAA
**
231706 -ATA-AT-ATATAGTTTTGAAAAGTATTTTTGAAAAA
1 TATATATAATATAGTTTT-AAAAACATTTTTGAAAAA
*
231740 CT-TATATAATATATAGTTTTAAAAACATTTTTCAAAAA
1 -TATATAT-A-ATATAGTTTTAAAAACATTTTTGAAAAA
* * *
231778 CTATATA-ATATATAATTTTAAAAACATTTTTTAAAAC
1 -TATATATA-ATATAGTTTTAAAAACATTTTTGAAAAA
** *
231815 T-TATATAATAT--TTTT-AATTCATTTTTGAAAAC
1 TATATATAATATAGTTTTAAAAACATTTTTGAAAAA
* *
231847 TATATA-ATATATAGTTTTGAAAAC-TTTTT-AAGAA
1 TATATATA-ATATAGTTTTAAAAACATTTTTGAAAAA
*
231881 TATA-AT-ATATAG-TTTAAAAATATTTTTG--AAA
1 TATATATAATATAGTTTTAAAAACATTTTTGAAAAA
*
231912 TATATATTATATAGTTT
1 TATATATAATATAGTTT
231929 ATATTATATA
Statistics
Matches: 271, Mismatches: 31, Indels: 70
0.73 0.08 0.19
Matches are distributed among these distances:
30 4 0.01
31 22 0.08
32 36 0.13
33 22 0.08
34 13 0.05
35 29 0.11
36 16 0.06
37 34 0.13
38 42 0.15
39 22 0.08
40 20 0.07
41 6 0.02
42 5 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATATAATATAGTTTTAAAAACATTTTTGAAAAA
Found at i:231697 original size:68 final size:67
Alignment explanation
Indices: 231619--231769 Score: 155
Period size: 68 Copynumber: 2.2 Consensus size: 67
231609 TTTGAAAACA
* * *
231619 TTTTGAAAACATTT-ATATATTATATAGTTTTTAAAAAATCA-TTTTGAAAAATATATATATAAT
1 TTTTAAAAACATTTAAAATAATATATAG-TTTTAAAAAAT-ATTTTTGAAAAA-AT-TATATAAT
*
231682 ATAT-T
62 ATATAG
* * * *
231687 TTTTCAAAACATTTTGAAAATAATATATAGTTTTGAAAAGTATTTTTGAAAAACTTATATAATAT
1 TTTTAAAAACA-TTT-AAAATAATATATAGTTTTAAAAAATATTTTTGAAAAAATTATATAATAT
231752 ATAG
64 ATAG
231756 TTTTAAAAACATTT
1 TTTTAAAAACATTT
231770 TTCAAAAACT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
68 25 0.36
69 15 0.21
70 19 0.27
71 11 0.16
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (67 bp):
TTTTAAAAACATTTAAAATAATATATAGTTTTAAAAAATATTTTTGAAAAAATTATATAATATAT
AG
Found at i:231783 original size:37 final size:35
Alignment explanation
Indices: 231583--231928 Score: 236
Period size: 32 Copynumber: 9.8 Consensus size: 35
231573 TTTTAAAATG
* *
231583 TTTTTGAAA-TATATATATAATATAGTTTTGAAAACA
1 TTTTTAAAACTATATA-AT-ATATAGTTTTAAAAACA
* *
231619 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAAATCA
1 TTTTTAAAAC---TATATAATATATAG-TTTT-AAAAA-CA
* * * *
231660 TTTTGAAAAATATATATATAATATATTTTTTCAAAACA
1 TTTTTAAAACTATATA-AT-ATATA-GTTTTAAAAACA
* **
231698 -TTTT-GAA--A-ATAATATATAGTTTTGAAAAGTA
1 TTTTTAAAACTATATAATATATAGTTTT-AAAAACA
231729 TTTTTGAAAAACTTATATAATATATAGTTTTAAAAACA
1 TTTTT--AAAAC-TATATAATATATAGTTTTAAAAACA
*
231767 TTTTTCAAAAACTATATAATATATAATTTTAAAAACA
1 TTTTT--AAAACTATATAATATATAGTTTTAAAAACA
* **
231804 TTTTTTAAAACT-TAT-ATA-ATA-TTTTTAATTCA
1 -TTTTTAAAACTATATAATATATAGTTTTAAAAACA
*
231836 TTTTTGAAAACTATATAATATATAGTTTTGAAAAC-
1 TTTTT-AAAACTATATAATATATAGTTTTAAAAACA
* *
231871 TTTTTAAGA--ATATAATATATAG-TTTAAAAATA
1 TTTTTAAAACTATATAATATATAGTTTTAAAAACA
* *
231903 TTTTTGAAA-TATATATTATATAGTTT
1 TTTTTAAAACTATATAATATATAGTTT
231929 ATATTATATA
Statistics
Matches: 251, Mismatches: 31, Indels: 58
0.74 0.09 0.17
Matches are distributed among these distances:
30 4 0.02
31 21 0.08
32 40 0.16
33 21 0.08
34 12 0.05
35 13 0.05
36 22 0.09
37 27 0.11
38 36 0.14
39 25 0.10
40 19 0.08
41 11 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (35 bp):
TTTTTAAAACTATATAATATATAGTTTTAAAAACA
Found at i:231889 original size:68 final size:68
Alignment explanation
Indices: 231743--231928 Score: 206
Period size: 68 Copynumber: 2.8 Consensus size: 68
231733 TGAAAAACTT
* * *
231743 ATATAATATATAGTTTTAAAAACATTTTTCAAAAACTATATAATATATAATTTTAAAAACATTTT
1 ATATAATATATAGTTTTAAAATCATTTTT-GAAAACTATATAATATATAGTTTTAAAAACA-TTT
231808 TTAAA
64 TTAAA
* * *
231813 ACT-T-ATATAATA-TTTTTAATTCATTTTTGAAAACTATATAATATATAGTTTTGAAAAC-TTT
1 A-TATAATAT-ATAGTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTAAAAACATTT
231874 TTAAGA
64 TTAA-A
* *
231880 ATATAATATATAGTTTAAAAAT-ATTTTTG-AAA-TATATATTATATAGTTT
1 ATATAATATATAGTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTT
231929 ATATTATATA
Statistics
Matches: 100, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
65 16 0.16
66 11 0.11
67 13 0.13
68 37 0.37
69 17 0.17
70 5 0.05
71 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (68 bp):
ATATAATATATAGTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTT
AAA
Found at i:231907 original size:32 final size:32
Alignment explanation
Indices: 231673--231929 Score: 127
Period size: 37 Copynumber: 7.6 Consensus size: 32
231663 TGAAAAATAT
** *
231673 ATATATAATATATTTTTTCAAAACA-TTTTG-A
1 ATATATAATATATAGTTT-AAAAAATTTTTGAA
*
231704 A-A-ATAATATATAGTTTTGAAAAGTATTTTTGAAAA
1 ATATATAATATATAG-TTT-AAAA-AATTTTTG--AA
*
231739 ACTTATATAATATATAGTTTTAAAAACATTTTTCAAAA
1 A--TATATAATATATAG-TTTAAAAA-ATTTTT--GAA
* *
231777 ACTATATAATATATAATTTTAAAAACATTTTTTAAA
1 A-TATATAATATAT-AGTTTAAAAA-A-TTTTTGAA
***
231813 ACTTATATAATAT-T--TTTAATTCATTTTTGAAA
1 A--TATATAATATATAGTTTAAAAAATTTTTG-AA
* *
231845 ACTATATAATATATAGTTTTGAAAACTTTTT-AA
1 A-TATATAATATATAG-TTTAAAAAATTTTTGAA
231878 GA-ATATAATATATAGTTTAAAAATATTTTTGAA
1 -ATATATAATATATAGTTTAAAAA-ATTTTTGAA
*
231911 ATATATATTATATAGTTTA
1 ATATATAATATATAGTTTA
231930 TATTATATAG
Statistics
Matches: 179, Mismatches: 22, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
29 9 0.05
30 8 0.04
31 24 0.13
32 29 0.16
33 25 0.14
34 1 0.01
35 11 0.06
36 5 0.03
37 32 0.18
38 20 0.11
39 15 0.08
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (32 bp):
ATATATAATATATAGTTTAAAAAATTTTTGAA
Found at i:231924 original size:7 final size:7
Alignment explanation
Indices: 231912--231952 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
231902 ATTTTTGAAA
231912 TATATAT
1 TATATAT
231919 TATATAGT
1 TATATA-T
231927 T-TATAT
1 TATATAT
*
231933 TATATAG
1 TATATAT
231940 TATATAT
1 TATATAT
231947 TATATA
1 TATATA
231953 GTTTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 2 0.07
7 26 0.87
8 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (7 bp):
TATATAT
Done.