Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007808.1 Hibiscus syriacus cultivar Beakdansim tig00110129_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: 1698870
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:639672 original size:105 final size:103
Alignment explanation
Indices: 638755--639703 Score: 542
Period size: 105 Copynumber: 9.1 Consensus size: 103
638745 TATTCGAAAT
* *** * * *
638755 TATTATCAATATAAATCACGATAAATTTGTTTGACACTAAAAACATA-TTTTGTGACCATCAATA
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACT---AACATATTTTTGTGACCATCAATG
* ** * *
638819 TTATCACACTAAGTATTTTTTAACGA-TCAAATGTTCGACTC
63 TTACCACACTAAGTATTTTTTAGTGACT-AAATGTTTGACAC
* * * *
638860 TATTATCAATACAAATAT-TGATGAATTGT-TTTGACACTGAGAGTATATTTTGTGACCACCAAT
1 TATTATCAATAGAAAT-TGTGATGAATT-TATTTGACACTAACA-TAT-TTTTGTGACCATCAAT
** * * * *
638923 GTTGTCACACTAAGTATTTTTAAATGACCAAATGTTCGACAC
62 GTTACCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
* * * * * * *
638965 TATTATCAATA-AAAATGTGTTGATTTTA-TT-ATACTGAA-AGTATAATTAGTGATCA-CTAAT
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACT-AACA-TAT-TTTTGTGACCATC-AAT
** * * * *
639025 GTTGTCACACTAAGT-GTTTTTAGTGACCAAATGTTAGGCA-
62 GTTACCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
* * * *
639065 TCATTATCAATAGAAATTGTGAT-AATTTTTTTGGCATTGAA-ACTATATTTAGTGACCATCAAT
1 T-ATTATCAATAGAAATTGTGATGAATTTATTTGACACT-AACA-TAT-TTTTGTGACCATCAAT
** * *
639128 GTTGTCACACTAAGTA-TTTTTAGTGACAAAATGTTCGACAC
62 GTTACCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
* * *** * * *
639169 TATTATCAATAAAAATTGTGATGAATTTGTACAACATTGAA-ATATATTTGTGACCA-CTACTGT
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACT-AACATATTTTTGTGACCATC-AATGT
** * * * * * *
639232 TGTCATAC-AAGGTGTTTTTTAATAATTAAAT-ATTGAACAC
64 TACCACACTAA-GTATTTTTTAGTGACTAAATGTTTG-ACAC
* * * * * * *
639272 TATTATCAGTAGAAATTATGATGAATTTATTTGACAGTAACAATATATTTGTTG-TCATTAGTGT
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAAC-ATATTTTTG-TGACCATCAATGT
* *
639336 TACCACATTAAGTATCTTTTAGTGACTAAATGTTTGACAC
64 TACCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
**
639376 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAATTTTATGTTTTGTGACCAT-AGATG
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAA-CATAT-TTTTGTGACCATCA-ATG
* * * * * *
639440 TTACCACAATAAGAATTTTTTTAATAATTAAAT-ATTGAACAC
63 TTACCACACTAAGTA-TTTTTTAGTGACTAAATGTTTG-ACAC
** * * * * * * * *
639482 TATTATCGGTTGAAATTATGATGAATTTATTTGCCAGTAACAATATATTTTTTCG-TCATTAGTG
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAAC-ATAT-TTTTGT-GACCATCAATG
* * * * * *
639546 ATAACACATTTAGTATCTTTTAGTGACTAAATGTTTGACAT
63 TTACCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
* *
639587 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAATCTTATGTTTTGTGAACATCAATGT
1 TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAA-CATAT-TTTTGTGACCATCAATGT
* * * * *
639652 TACCACACTGAG-ATTTTTTTAATAATTAAATATTTGACA-
64 TACCACACTAAGTA-TTTTTTAGTGACTAAATGTTTGACAC
639691 TATTATCAATAGA
1 TATTATCAATAGA
639704 TATTCAGACA
Statistics
Matches: 667, Mismatches: 136, Indels: 83
0.75 0.15 0.09
Matches are distributed among these distances:
100 1 0.00
101 38 0.06
102 74 0.11
103 134 0.20
104 122 0.18
105 217 0.33
106 79 0.12
107 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (103 bp):
TATTATCAATAGAAATTGTGATGAATTTATTTGACACTAACATATTTTTGTGACCATCAATGTTA
CCACACTAAGTATTTTTTAGTGACTAAATGTTTGACAC
Found at i:641304 original size:11 final size:10
Alignment explanation
Indices: 641273--641306 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
641263 TTATTCATCT
641273 TCTTTGTTTA
1 TCTTTGTTTA
641283 TCTTT-TTTA
1 TCTTTGTTTA
641292 TCTTTAGTTTA
1 TCTTT-GTTTA
641303 TCTT
1 TCTT
641307 CATCATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 5 0.23
11 8 0.36
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (10 bp):
TCTTTGTTTA
Found at i:641701 original size:3 final size:3
Alignment explanation
Indices: 641693--641771 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
641683 TAAATCCAAA
641693 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
641741 AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
641772 ATAAAAGGGA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:645569 original size:15 final size:15
Alignment explanation
Indices: 645549--645583 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
645539 GTCTTTTTTT
645549 TTCTTCATTATCTTA
1 TTCTTCATTATCTTA
*
645564 TTCTTCATTGTCTTA
1 TTCTTCATTATCTTA
*
645579 ATCTT
1 TTCTT
645584 AATTTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (15 bp):
TTCTTCATTATCTTA
Found at i:655164 original size:21 final size:21
Alignment explanation
Indices: 655140--655182 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
655130 TTTCAAAGAC
* *
655140 ACTTAGCAAGGTACTTCATCT
1 ACTTACCAAGGTAATTCATCT
655161 ACTTACCAAGGTAATTCATCT
1 ACTTACCAAGGTAATTCATCT
655182 A
1 A
655183 ATTCTACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
ACTTACCAAGGTAATTCATCT
Found at i:655368 original size:114 final size:112
Alignment explanation
Indices: 655164--655368 Score: 288
Period size: 114 Copynumber: 1.8 Consensus size: 112
655154 TTCATCTACT
* *
655164 TACCAAGGTAATTCATCTAATTCTACTTATTCTTCTACTCCACATTCTACCACGAATACTGAATT
1 TACCAAGGTAATTCATCTAATTCCACTTATTCTTCTACTCCACATTCTACCAAGAATACTGAA-T
*
655229 AGACAATGACATCAATGAATACGATGATAGTAGCATTGTAAAATAACA
65 AGAAAATGACATCAATGAATACGATGATAGTAGCATTGTAAAATAACA
* * * *
655277 TACCTAAGGTAATTCATCTACTTCCACTTTTTCTTCTACTCCACTTTCTACCAAGGATACTGAA-
1 TACC-AAGGTAATTCATCTAATTCCACTTATTCTTCTACTCCACATTCTACCAAGAATACTGAAT
655341 ACGAAAAATGACATCGAA-GAATACGATG
65 A-G-AAAATGACATC-AATGAATACGATG
655369 CTAACACCAT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
112 1 0.01
113 5 0.06
114 73 0.90
115 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (112 bp):
TACCAAGGTAATTCATCTAATTCCACTTATTCTTCTACTCCACATTCTACCAAGAATACTGAATA
GAAAATGACATCAATGAATACGATGATAGTAGCATTGTAAAATAACA
Found at i:659472 original size:81 final size:81
Alignment explanation
Indices: 659369--659541 Score: 247
Period size: 81 Copynumber: 2.1 Consensus size: 81
659359 TGTTAATCAT
* * * * *
659369 TTAATATTTTACTCAAAGGCATTTAGTCTTTCATGTAACTTGCAATATTGGAACATTTAAGTCAA
1 TTAATCTTTTACTCAAAAGCATTTAGCCTTTCATCTAACTTGCAATATTGGAACATTTAAGCCAA
659434 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * * **
659450 TTAGTCTTTTACTCAAAAGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAAGCATTTAGCCTTTCATCTAACTTGCAATATTGGAACATTTAAGCCAA
*
659515 ATGTACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
659531 TTAATCTTTTA
1 TTAATCTTTTA
659542 TTTTAAGAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAAGCATTTAGCCTTTCATCTAACTTGCAATATTGGAACATTTAAGCCAA
ATGCACAGCTAGGCAA
Found at i:660265 original size:35 final size:36
Alignment explanation
Indices: 660143--660267 Score: 130
Period size: 37 Copynumber: 3.4 Consensus size: 36
660133 TCATTTTGAA
660143 TATATATATATATATATAATATATGGTTTTTGAAAACAT
1 TATATATA-ATATATATAATATA--GTTTTTGAAAACAT
* * *
660182 TATGA-A-AACATATATAATAAAGGTTTTGAAAACAT
1 TAT-ATATAATATATATAATATAGTTTTTGAAAACAT
* * *
660217 TTTAAAAATATATATATAATATAGTTTTTGAAAAC-T
1 TATATATA-ATATATATAATATAGTTTTTGAAAACAT
660253 TATATATAATATATA
1 TATATATAATATATA
660268 ATTCTTGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
34 1 0.01
35 23 0.32
36 7 0.10
37 35 0.49
38 1 0.01
39 4 0.06
40 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (36 bp):
TATATATAATATATATAATATAGTTTTTGAAAACAT
Found at i:660266 original size:28 final size:28
Alignment explanation
Indices: 660216--660309 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
660206 TTTGAAAACA
660216 TTTT-AAAA-ATATATAT-ATAATATAGT
1 TTTTGAAAACATATATATAAT-ATATAGT
* *
660242 TTTTGAAAACTTATATATAATATATAAT
1 TTTTGAAAACATATATATAATATATAGT
* *
660270 TCTTGAAAACATAAATATAATATATAGT
1 TTTTGAAAACATATATATAATATATAGT
660298 TTTTGAAAACAT
1 TTTTGAAAACAT
660310 TTTGAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.07
27 4 0.07
28 48 0.83
29 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (28 bp):
TTTTGAAAACATATATATAATATATAGT
Found at i:660317 original size:39 final size:39
Alignment explanation
Indices: 660272--660414 Score: 195
Period size: 37 Copynumber: 3.8 Consensus size: 39
660262 TATATAATTC
*
660272 TTGAAAACATAAATATAATATATAGTTTTTGAAAACATT
1 TTGAAAACATATATATAATATATAGTTTTTGAAAACATT
* * *
660311 TTGAAAAAATATATATAATATATAGTTTTTG-ATA-GTT
1 TTGAAAACATATATATAATATATAGTTTTTGAAAACATT
660348 TTGAAAACATATATATAATATATAGTTTTTGAAAACATT
1 TTGAAAACATATATATAATATATAGTTTTTGAAAACATT
* * *
660387 TT-TAAA-ATATATGTATTATATAGTTTTT
1 TTGAAAACATATATATAATATATAGTTTTT
660415 TTGAAAATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
37 52 0.57
38 7 0.08
39 33 0.36
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (39 bp):
TTGAAAACATATATATAATATATAGTTTTTGAAAACATT
Found at i:660395 original size:28 final size:27
Alignment explanation
Indices: 660342--660398 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
660332 ATAGTTTTTG
*
660342 ATAGTTTTGAAAACATATATATAATAT
1 ATAGTTTTGAAAACATATATAAAATAT
* *
660369 ATAGTTTTTGAAAACATTTTTAAAATAT
1 ATAG-TTTTGAAAACATATATAAAATAT
660397 AT
1 AT
660399 GTATTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
ATAGTTTTGAAAACATATATAAAATAT
Found at i:660418 original size:76 final size:75
Alignment explanation
Indices: 660272--660414 Score: 234
Period size: 76 Copynumber: 1.9 Consensus size: 75
660262 TATATAATTC
660272 TTGAAAACATAAATATAATATATAGTTTTTGAAAACATTTTGAAAAAATATATATAATATATAGT
1 TTGAAAACATAAATATAATATATAGTTTTTGAAAACATTTT-AAAAAATATATATAATATATAGT
660337 TTTTGATAGTT
65 TTTTGATAGTT
* * * *
660348 TTGAAAACATATATATAATATATAGTTTTTGAAAACATTTT-TAAAATATATGTATTATATAGTT
1 TTGAAAACATAAATATAATATATAGTTTTTGAAAACATTTTAAAAAATATATATAATATATAGTT
660412 TTT
66 TTT
660415 TTGAAAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 23 0.37
76 40 0.63
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (75 bp):
TTGAAAACATAAATATAATATATAGTTTTTGAAAACATTTTAAAAAATATATATAATATATAGTT
TTTGATAGTT
Found at i:660447 original size:12 final size:12
Alignment explanation
Indices: 660421--660486 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
660411 TTTTTTGAAA
660421 ATATT-TATATGT
1 ATATTATATAT-T
660433 ATATTATATATT
1 ATATTATATATT
*
660445 ATA-GA-ATA--
1 ATATTATATATT
660453 ATATTATATATT
1 ATATTATATATT
660465 ATATTATAT-TT
1 ATATTATATATT
*
660476 AT-TTATTTATT
1 ATATTATATATT
660487 TTTTTCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 3 0.07
9 1 0.02
10 11 0.24
11 7 0.16
12 18 0.40
13 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATATTATATATT
Found at i:660485 original size:14 final size:17
Alignment explanation
Indices: 660421--660485 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 17
660411 TTTTTTGAAA
660421 ATAT-TTATATGTATATT
1 ATATATTATAT-TATATT
*
660438 ATATATTATAGAATAATATT
1 ATATATTAT---ATTATATT
660458 ATATATTATATTATATT
1 ATATATTATATTATATT
660475 -TAT-TTAT-TTAT
1 ATATATTATATTAT
660486 TTTTTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.10
15 4 0.10
16 3 0.07
17 11 0.26
18 4 0.10
20 14 0.33
21 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
ATATATTATATTATATT
Found at i:673542 original size:39 final size:39
Alignment explanation
Indices: 673494--673602 Score: 191
Period size: 39 Copynumber: 2.8 Consensus size: 39
673484 TAATATATAT
*
673494 AAAATCATTTTGAAAACATATATATAATATATGGCTTTTG
1 AAAA-CATTTTGAAAACATATATATAATATATAGCTTTTG
*
673534 AAAACATTTTGAAAACATATATATAATATATAGTTTTTG
1 AAAACATTTTGAAAACATATATATAATATATAGCTTTTG
673573 AAAACATTTTGAAAACATATATATAATATA
1 AAAACATTTTGAAAACATATATATAATATA
673603 GTTTTTTGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 63 0.94
40 4 0.06
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (39 bp):
AAAACATTTTGAAAACATATATATAATATATAGCTTTTG
Found at i:673612 original size:27 final size:27
Alignment explanation
Indices: 673579--673674 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 27
673569 TTTGAAAACA
673579 TTTTGAAAACATATATATAATATAGTT
1 TTTTGAAAACATATATATAATATAGTT
* *
673606 TTTTGAAAAAATATATATATAATATA-TAGC
1 TTTTG--AAAACATATATATAATATAGT--T
673636 TTTTGAAAACATATATATATATATAG-T
1 TTTTGAAAACATATATATA-ATATAGTT
673663 TTTTGAAAACAT
1 TTTTGAAAACAT
673675 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 17 0.29
28 14 0.24
29 23 0.39
30 5 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTTGAAAACATATATATAATATAGTT
Found at i:673688 original size:95 final size:96
Alignment explanation
Indices: 673540--673718 Score: 297
Period size: 95 Copynumber: 1.9 Consensus size: 96
673530 TTTGAAAACA
673540 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATAGT
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATAGT
673605 TTTTTGAAAAAATATATATATAATATATAGC
66 TTTTTGAAAAAATATATATATAATATATAGC
* * *
673636 TTTTGAAAACATATATAT-ATATATAGTTTTTGAAAACATTTTTAAAATATATATATTATATAGT
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATAGT
* * *
673700 TTTTTTAAAATATTTATAT
66 TTTTTGAAAAAATATATAT
673719 GTGTATTATA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 59 0.77
96 18 0.23
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (96 bp):
TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATAGT
TTTTTGAAAAAATATATATATAATATATAGC
Found at i:673794 original size:22 final size:24
Alignment explanation
Indices: 673744--673796 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
673734 TAGTATAATA
673744 TTATATATTATATTATTTTAATTTAT
1 TTAT-TATTATATTATTTT-ATTTAT
*
673770 TTATTATT-TATTATTTT-TTTTT
1 TTATTATTATATTATTTTATTTAT
673792 TTATT
1 TTATT
673797 TGGCCCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 9 0.35
24 9 0.35
25 4 0.15
26 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TTATTATTATATTATTTTATTTAT
Found at i:675291 original size:24 final size:23
Alignment explanation
Indices: 675232--675281 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 23
675222 TTTGTTTTTG
*
675232 TTCTATTTATTTCTATTTTTGTCA
1 TTCTA-TTATTTCTATTTTTGGCA
675256 TTCTATTAATTTCTATTTCTTGGCA
1 TTCTATT-ATTTCTATTT-TTGGCA
675281 T
1 T
675282 GTGTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 15 0.65
25 6 0.26
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.62
Consensus pattern (23 bp):
TTCTATTATTTCTATTTTTGGCA
Found at i:679717 original size:17 final size:17
Alignment explanation
Indices: 679695--679728 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
679685 GTATCAAACA
*
679695 CATAAAATGGCTCAACC
1 CATAAAAGGGCTCAACC
679712 CATAAAAGGGCTCAACC
1 CATAAAAGGGCTCAACC
679729 ACTTCCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.15
Consensus pattern (17 bp):
CATAAAAGGGCTCAACC
Found at i:683289 original size:90 final size:89
Alignment explanation
Indices: 683131--683305 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
683121 CCTAACACAC
* * * * *
683131 CCTTTTATAGCCAAGTTACTCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTCT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
683196 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
*
683221 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
683286 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
683306 ATATTCGAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:689115 original size:15 final size:15
Alignment explanation
Indices: 689082--689116 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
689072 TAAGATGAGA
* *
689082 AGATAAATACAATAT
1 AGATAAATACAACAG
689097 AGATAAATACAACAG
1 AGATAAATACAACAG
689112 AGATA
1 AGATA
689117 TAGAAAGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (15 bp):
AGATAAATACAACAG
Found at i:690176 original size:90 final size:90
Alignment explanation
Indices: 690023--690200 Score: 286
Period size: 90 Copynumber: 2.0 Consensus size: 90
690013 CCTAACACAC
* *
690023 CCTTTTATAGCCAAGTTACCCTAGTCATCATAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATCATAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
690088 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* *
690113 CCTTTTGTATCCAAGTTACCCTAATCAT-ATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATCAT-AGGGATTTTATTATTTCAAATTAATTAAATCTA
690177 TATTTAATTAATTGAAATTAAATA
65 TATTTAATTAATTGAAATTAAATA
690201 TTCAGGATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 2 0.02
90 79 0.98
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATCATAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:697649 original size:3 final size:3
Alignment explanation
Indices: 697588--697631 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
697578 ATATGAAAAA
* *
697588 AAT AA- AAT AAA AAT AA- ATT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
697632 TAACATGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 3 0.09
3 32 0.91
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:697756 original size:23 final size:26
Alignment explanation
Indices: 697729--697786 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
697719 TTTTTGAAAC
*
697729 TAATATATAT-TTTTCAAAAATCTAA
1 TAATATATATATTTTCAAAAATATAA
697754 -ATATAATATATATTTTCAAAAATAT-A
1 TA-AT-ATATATATTTTCAAAAATATAA
697780 TAATATA
1 TAATATA
697787 CTACTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
24 1 0.04
25 5 0.18
26 9 0.32
27 13 0.46
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATATATATATTTTCAAAAATATAA
Found at i:697769 original size:28 final size:28
Alignment explanation
Indices: 697729--697786 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
697719 TTTTTGAAAC
*
697729 TAATATATATTTTTCAAAAATCTA-AATA
1 TAATATATA-TTTTCAAAAATATATAATA
697757 TAATATATATTTTCAAAAATATATAATA
1 TAATATATATTTTCAAAAATATATAATA
697785 TA
1 TA
697787 CTACTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATATATATTTTCAAAAATATATAATA
Found at i:713963 original size:15 final size:16
Alignment explanation
Indices: 713935--713964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
713925 ATTATTGGAA
713935 TTTTTCATTAGTGTTC
1 TTTTTCATTAGTGTTC
713951 TTTTTCATT-GTGTT
1 TTTTTCATTAGTGTT
713965 TGTCTTCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.10, C:0.10, G:0.13, T:0.67
Consensus pattern (16 bp):
TTTTTCATTAGTGTTC
Found at i:714160 original size:26 final size:26
Alignment explanation
Indices: 714122--714172 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
714112 CTTGGGATTT
*
714122 ATGAATTCAATTAAGTTCATTCATTG
1 ATGAATTCAATTAAGTTCATCCATTG
* *
714148 ATGAATTCTATTAATTTCATCCATT
1 ATGAATTCAATTAAGTTCATCCATT
714173 CATTTTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (26 bp):
ATGAATTCAATTAAGTTCATCCATTG
Found at i:759238 original size:2 final size:2
Alignment explanation
Indices: 759231--759277 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
759221 TAGTTGGATG
*
759231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
759273 AT AT A
1 AT AT A
759278 AATTTCTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:759452 original size:69 final size:69
Alignment explanation
Indices: 759290--759452 Score: 166
Period size: 69 Copynumber: 2.4 Consensus size: 69
759280 TTTCTATGAC
** *** * *
759290 TAATCATAATTATTTTTTGTGACTCACATGGGAGCTCTGAAGGGTTATAGTGTCTCACACGGGAG
1 TAATCATAATTATTTTGAGTGACTCACACAAGAGCTCTGAAGGGTTAGAGTGTCTCACACGAGAG
*
759355 AACC
66 AACA
* * * * *
759359 TACTCATAATTATTTTGGGAGACTCACACAAGAGGCTC-GAAGGGTTAGAGTGTCTTATACGAGA
1 TAATCATAATTATTTTGAGTGACTCACACAAGA-GCTCTGAAGGGTTAGAGTGTCTCACACGAGA
* *
759423 GCATA
65 GAACA
*
759428 TAATCATAATTATTCTGAGTGACTC
1 TAATCATAATTATTTTGAGTGACTC
759453 GTATGGGAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
69 71 0.95
70 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (69 bp):
TAATCATAATTATTTTGAGTGACTCACACAAGAGCTCTGAAGGGTTAGAGTGTCTCACACGAGAG
AACA
Found at i:759482 original size:31 final size:31
Alignment explanation
Indices: 759444--759515 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
759434 TAATTATTCT
759444 GAGTGACTCGTATGGGAATCTAGAAGGGTTA
1 GAGTGACTCGTATGGGAATCTAGAAGGGTTA
*
759475 GAGTGACTTGTATGGGAATCTAGAAGGGTTA
1 GAGTGACTCGTATGGGAATCTAGAAGGGTTA
*
759506 GAGTGCCTCG
1 GAGTGACTCG
759516 CACGGGATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.36, T:0.26
Consensus pattern (31 bp):
GAGTGACTCGTATGGGAATCTAGAAGGGTTA
Found at i:762939 original size:30 final size:31
Alignment explanation
Indices: 762892--762963 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
762882 TCTACAGGCC
* * * *
762892 TTAGAAAATTTTGGGGACC-ATTCTATAATT
1 TTAGAAAAGTTGGGGGACCTAATCTAAAATT
**
762922 TTTTAAAAGTTGGGGGACCTAATCTAAAATT
1 TTAGAAAAGTTGGGGGACCTAATCTAAAATT
762953 TTAGAAAAGTT
1 TTAGAAAAGTT
762964 ACTGATTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (31 bp):
TTAGAAAAGTTGGGGGACCTAATCTAAAATT
Found at i:769702 original size:19 final size:19
Alignment explanation
Indices: 769660--769704 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
769650 GTTAAATAAT
*
769660 GTATAAAGCATGTATCTTT
1 GTATAAAGCATGTATCTTG
* *
769679 ATATAATGCATGTATCTTG
1 GTATAAAGCATGTATCTTG
769698 GTATAAA
1 GTATAAA
769705 AACATTGTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (19 bp):
GTATAAAGCATGTATCTTG
Found at i:770138 original size:23 final size:23
Alignment explanation
Indices: 770104--770208 Score: 158
Period size: 23 Copynumber: 4.6 Consensus size: 23
770094 ACACACTGGT
* **
770104 ACTAATA-TAGAGTGCACAAAGC
1 ACTAATACAAGAGTGCTGAAAGC
*
770126 ACTAATGCAAGAGTGCTGAAAGC
1 ACTAATACAAGAGTGCTGAAAGC
*
770149 ACTAATACAAGAGTGCTGAAATC
1 ACTAATACAAGAGTGCTGAAAGC
770172 ACTAATACAAGAGTGCTGAAAGC
1 ACTAATACAAGAGTGCTGAAAGC
770195 ACTAATACAAGAGT
1 ACTAATACAAGAGT
770209 ACACAAATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
22 6 0.08
23 69 0.92
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (23 bp):
ACTAATACAAGAGTGCTGAAAGC
Found at i:770164 original size:46 final size:46
Alignment explanation
Indices: 770104--770317 Score: 164
Period size: 46 Copynumber: 4.6 Consensus size: 46
770094 ACACACTGGT
* *
770104 ACTAATA-TAGAGTGCACAAAGCACTAATGCAAGAGTGCTGAAAGC
1 ACTAATACAAGAGTGCACAAAGCACTAATACAAGAGTGCTGAAAGC
** *
770149 ACTAATACAAGAGTGCTGAAATCACTAATACAAGAGTGCTGAAAGC
1 ACTAATACAAGAGTGCACAAAGCACTAATACAAGAGTGCTGAAAGC
* * * * *
770195 ACTAATACAAGAGTACACAAATGTACTAGAATA-AGGAGTGCTTGAATGT
1 ACTAATACAAGAGTGCACAAA-GCACT--AATACAAGAGTGC-TGAAAGC
* * * * * * **
770244 ACTAATTCTATAGTGCA-AAATTACATTAATACAGGAGTGCACAAATGC
1 ACTAATACAAGAGTGCACAAA--GCACTAATACAAGAGTGCTGAAA-GC
* *
770292 ACGAATACATGAGTGCACAAAGCACT
1 ACTAATACAAGAGTGCACAAAGCACT
770318 GATAAATAAG
Statistics
Matches: 129, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
45 7 0.05
46 51 0.40
47 12 0.09
48 31 0.24
49 28 0.22
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (46 bp):
ACTAATACAAGAGTGCACAAAGCACTAATACAAGAGTGCTGAAAGC
Found at i:770298 original size:24 final size:23
Alignment explanation
Indices: 770271--770316 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
770261 AAATTACATT
770271 AATACAGGAGTGCACAAATGCACG
1 AATACAGGAGTGCACAAA-GCACG
*
770295 AATACATGAGTGCACAAAGCAC
1 AATACAGGAGTGCACAAAGCAC
770317 TGATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (23 bp):
AATACAGGAGTGCACAAAGCACG
Found at i:770329 original size:23 final size:24
Alignment explanation
Indices: 770279--770329 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
770269 TTAATACAGG
* *
770279 AGTGCACAAATGCACGAATACATG
1 AGTGCACAAATGCACGAATAAATA
770303 AGTGCACAAA-GCACTG-ATAAATA
1 AGTGCACAAATGCAC-GAATAAATA
770326 AGTG
1 AGTG
770330 TGTAGAGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (24 bp):
AGTGCACAAATGCACGAATAAATA
Found at i:774528 original size:81 final size:81
Alignment explanation
Indices: 774417--774583 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 81
774407 TTGTTTAAAA
* *
774417 TAAAAGATTAATAGCCTAGTTTTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTTTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAG
774482 GTTAAAAACCTTTGAG
66 GTTAAAAACCTTTGAG
* * ** *
774498 TAAAAGATTAATAGTCTTGTTTTGTTTTTGACTGAAATGTGTCAATTATGACAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTTTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAG
*
774563 GTTAAACACCTTTGAG
66 GTTAAAAACCTTTGAG
774579 TAAAA
1 TAAAA
774584 TAAATATGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (81 bp):
TAAAAGATTAATAGCCTAGTTTTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAG
GTTAAAAACCTTTGAG
Found at i:780176 original size:81 final size:81
Alignment explanation
Indices: 779684--780174 Score: 644
Period size: 81 Copynumber: 6.1 Consensus size: 81
779674 TTGTTTCAAA
* *
779684 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGTTGTCATTTATGCCAGTTAGATGAAAG
1 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
779749 GTTAAATACTTTTGAG
66 GTTAAATACCTTTGAG
* * *
779765 TAAACTATTAATAGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTACATGAAAG
1 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
779830 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
779846 TAAAATATTAATAGCCTAGTTGTGTATTTGACACAAATGTGTCAATTATGCCAGTTAGATGAAAT
1 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
779911 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
779927 T-CAATGATTAATAGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAAA
1 TAAAAT-ATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
779991 GGCTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* ** * * *
780008 TAAAATATTAATAGCCTAGCTGTGCAATTGACAGAAATATGCCAATAATGCGAGTTAGATGAAAG
1 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
780073 ATTACAA-ACCTTTGAG
66 GTTA-AATACCTTTGAG
* * * * ** *
780089 TAAAAGATTAATAGCCTAGCTATGCATTTGATAGAAAGGTGTCAATCATGTAAGTTATATGAAAG
1 TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
** * *
780154 GCCAAATGCCTTTGGG
66 GTTAAATACCTTTGAG
780170 TAAAA
1 TAAAA
780175 GACTAAAGAA
Statistics
Matches: 357, Mismatches: 49, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
80 5 0.01
81 347 0.97
82 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (81 bp):
TAAAATATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:780315 original size:45 final size:46
Alignment explanation
Indices: 780220--780335 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 46
780210 CCGCATTAAC
* * *
780220 GGTATGAAATGATGCCATATAT-AAAATGTAAAACAATGAATAATT
1 GGTATGAAAGGATGCCATAAATGAAAATGTAAAACAATGAATAAGT
* * * *
780265 AGTATGAAAGGATGCCATAAATGAAAATGT-AAATAGTGCATAAGT
1 GGTATGAAAGGATGCCATAAATGAAAATGTAAAACAATGAATAAGT
*
780310 GGTATGAAAGGATGCCACAAATGAAA
1 GGTATGAAAGGATGCCATAAATGAAA
780336 TAATAAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 54 0.89
46 7 0.11
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (46 bp):
GGTATGAAAGGATGCCATAAATGAAAATGTAAAACAATGAATAAGT
Found at i:800210 original size:30 final size:30
Alignment explanation
Indices: 800157--800215 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
800147 ATGCTTATGA
**
800157 TATGTTTATGCATCATTCTTTAGCTCATTT
1 TATGTTTATGCATCATTAGTTAGCTCATTT
800187 TATGTTTATGCACTCA-TAGTTAGCTCATT
1 TATGTTTATGCA-TCATTAGTTAGCTCATT
800216 AGCATCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (30 bp):
TATGTTTATGCATCATTAGTTAGCTCATTT
Found at i:800526 original size:19 final size:19
Alignment explanation
Indices: 800502--800545 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
800492 GATTTAAGGC
800502 AGCTAGAGTGCAACTAGGT
1 AGCTAGAGTGCAACTAGGT
800521 AGCTAGAGTGCAACTAGGT
1 AGCTAGAGTGCAACTAGGT
*
800540 ACCTAG
1 AGCTAG
800546 CTAGCTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (19 bp):
AGCTAGAGTGCAACTAGGT
Found at i:800554 original size:12 final size:12
Alignment explanation
Indices: 800534--800582 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
800524 TAGAGTGCAA
*
800534 CTAGGTACCTAG
1 CTAGCTACCTAG
800546 CTAGCTACCTA-
1 CTAGCTACCTAG
800557 C-A-CTACCTAG
1 CTAGCTACCTAG
*
800567 TTAGCTACCTAAG
1 CTAGCTACCT-AG
800580 CTA
1 CTA
800583 CATATATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 2 0.07
12 16 0.53
13 4 0.13
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (12 bp):
CTAGCTACCTAG
Found at i:803221 original size:16 final size:16
Alignment explanation
Indices: 803193--803225 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
803183 TTTGAGGGTG
803193 TGTTGTATATTTGTGT
1 TGTTGTATATTTGTGT
803209 TGTT-TATATTTTGTGT
1 TGTTGTATA-TTTGTGT
803225 T
1 T
803226 AAATATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.67
Consensus pattern (16 bp):
TGTTGTATATTTGTGT
Found at i:809679 original size:32 final size:32
Alignment explanation
Indices: 809643--809727 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
809633 AATGGAGTAC
809643 CTTGGGGCCTCAGAGCCTACCGAATAAAGTTT
1 CTTGGGGCCTCAGAGCCTACCGAATAAAGTTT
809675 CTTGGGGCCTCAGAGCCTACCGAATAAAGTTT
1 CTTGGGGCCTCAGAGCCTACCGAATAAAGTTT
* *
809707 ATTGGGGCCTTAGAGCCTACC
1 CTTGGGGCCTCAGAGCCTACC
809728 CAAGGGTCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (32 bp):
CTTGGGGCCTCAGAGCCTACCGAATAAAGTTT
Found at i:810107 original size:35 final size:35
Alignment explanation
Indices: 810062--810130 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
810052 ACCTTAGGTC
*
810062 TATAAAGAATTACCAGCTCGATCGATCTGAACCTA
1 TATAAAGAATTACCAGCTCGATCGAGCTGAACCTA
* * **
810097 TATAATGAATTACCAGTTTTATCGAGCTGAACCT
1 TATAAAGAATTACCAGCTCGATCGAGCTGAACCT
810131 CCATACTCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (35 bp):
TATAAAGAATTACCAGCTCGATCGAGCTGAACCTA
Found at i:813953 original size:29 final size:29
Alignment explanation
Indices: 813911--813975 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
813901 AACCTAGGCT
813911 CTGATACCACTAAATGTAACACCCTCAGA
1 CTGATACCACTAAATGTAACACCCTCAGA
813940 CTGATACCACTAAATGTAACACCCTCAGA
1 CTGATACCACTAAATGTAACACCCTCAGA
813969 CTGATAC
1 CTGATAC
813976 GGGTGACCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.22
Consensus pattern (29 bp):
CTGATACCACTAAATGTAACACCCTCAGA
Found at i:821298 original size:22 final size:22
Alignment explanation
Indices: 821270--821313 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
821260 ATAGTAGCAC
821270 ATACAAGTGATAAGGAAAATGT
1 ATACAAGTGATAAGGAAAATGT
821292 ATACAAGTGATAAGGAAAATGT
1 ATACAAGTGATAAGGAAAATGT
821314 TGTGGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (22 bp):
ATACAAGTGATAAGGAAAATGT
Found at i:830236 original size:24 final size:24
Alignment explanation
Indices: 830209--830259 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
830199 CTACCTCTTG
830209 TTCT-CTCTAGGATCTCAACTCTAC
1 TTCTCCTCT-GGATCTCAACTCTAC
* *
830233 TTCTCCTCTGGATCTCAGCTCTTC
1 TTCTCCTCTGGATCTCAACTCTAC
830257 TTC
1 TTC
830260 CTTCTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.14, C:0.35, G:0.10, T:0.41
Consensus pattern (24 bp):
TTCTCCTCTGGATCTCAACTCTAC
Found at i:836562 original size:27 final size:27
Alignment explanation
Indices: 836505--836563 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
836495 TACTTTTATT
* * ** *
836505 TTAAAAATCTTTTAAAATTTTATTATT
1 TTAAAAATATTTTAAAATATTAAAATA
836532 TTAAAAATATTTTAAAATATTAAAATA
1 TTAAAAATATTTTAAAATATTAAAATA
836559 TTAAA
1 TTAAA
836564 TTATTTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAAAAATATTTTAAAATATTAAAATA
Found at i:836647 original size:16 final size:17
Alignment explanation
Indices: 836617--836654 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
836607 TAATAAAGTT
*
836617 ATAAAAATATGTAAAAA
1 ATAAAAATATATAAAAA
836634 ATAAAAAT-TATAAAAA
1 ATAAAAATATATAAAAA
836650 A-AAAA
1 ATAAAA
836655 CATTTAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
ATAAAAATATATAAAAA
Found at i:836986 original size:3 final size:3
Alignment explanation
Indices: 836978--837079 Score: 158
Period size: 3 Copynumber: 35.0 Consensus size: 3
836968 GTTTGATATC
836978 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
837026 -AT AAT AAT AAT AAT AAT AAT AAT AAT AA- ATT AA- AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
837069 AAT AA- AAT AAT
1 AAT AAT AAT AAT
837080 TAGGACTAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
2 7 0.08
3 82 0.89
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:839329 original size:29 final size:29
Alignment explanation
Indices: 839297--839440 Score: 164
Period size: 29 Copynumber: 5.0 Consensus size: 29
839287 TGAAAAATCA
*
839297 TGTACTTTATTGTAATTTATAAATAGTAT
1 TGTACTTTATTGTAATTTATAAATAGTTT
** *
839326 TGTACTTTATTACAATTTGTAAATAGTTT
1 TGTACTTTATTGTAATTTATAAATAGTTT
* ** * *
839355 TCTGTTTTATTATAATTTATAAAAAGTTT
1 TGTACTTTATTGTAATTTATAAATAGTTT
*
839384 T-TAACTTTATTGTAATTTATAAATAATTT
1 TGT-ACTTTATTGTAATTTATAAATAGTTT
* *
839413 TATACTTTATTGTAATTTATAAAAAGTT
1 TGTACTTTATTGTAATTTATAAATAGTT
839441 ATATCCTTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
28 1 0.01
29 94 0.98
30 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (29 bp):
TGTACTTTATTGTAATTTATAAATAGTTT
Found at i:839449 original size:29 final size:29
Alignment explanation
Indices: 839243--839452 Score: 144
Period size: 29 Copynumber: 7.2 Consensus size: 29
839233 TATTTTGTCC
**
839243 CTTTATTGT-ATTCTATAAAAAAATATAT-
1 CTTTATTGTAATT-TATAAAAAGTTATATA
** * *
839271 CATTTATCATAATTTATGAAAAA-TCATGTA
1 C-TTTATTGTAATTTAT-AAAAAGTTATATA
* *
839301 CTTTATTGTAATTTATAAATAG-TATTGTA
1 CTTTATTGTAATTTATAAAAAGTTA-TATA
** * * * * *
839330 CTTTATTACAATTTGTAAATAGTTTTCTG
1 CTTTATTGTAATTTATAAAAAGTTATATA
* * *
839359 TTTTATTATAATTTATAAAAAGTT-TTTAA
1 CTTTATTGTAATTTATAAAAAGTTATAT-A
*
839388 CTTTATTGTAATTTATAAATAA-TTTTATA
1 CTTTATTGTAATTTATAAA-AAGTTATATA
*
839417 CTTTATTGTAATTTATAAAAAGTTATATC
1 CTTTATTGTAATTTATAAAAAGTTATATA
839446 CTTTATT
1 CTTTATT
839453 ATAAAGTCTA
Statistics
Matches: 145, Mismatches: 26, Indels: 21
0.76 0.14 0.11
Matches are distributed among these distances:
28 10 0.07
29 121 0.83
30 14 0.10
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (29 bp):
CTTTATTGTAATTTATAAAAAGTTATATA
Found at i:839450 original size:58 final size:58
Alignment explanation
Indices: 839243--839456 Score: 186
Period size: 58 Copynumber: 3.7 Consensus size: 58
839233 TATTTTGTCC
** * ** *
839243 CTTTATTGT-ATTCTATAAAAAAATATAT-CATTTATCATAATTTATGAAA-AATCATGTA
1 CTTTATTGTAATT-TATAAAAAGTTATATAC-TTTATTATAATTTAT-AAATAATTTTATA
* * * * * * *
839301 CTTTATTGTAATTTATAAATAG-TATTGTACTTTATTACAATTTGTAAATAGTTTTCTG
1 CTTTATTGTAATTTATAAAAAGTTA-TATACTTTATTATAATTTATAAATAATTTTATA
* * * *
839359 TTTTATTATAATTTATAAAAAGTT-TTTAACTTTATTGTAATTTATAAATAATTTTATA
1 CTTTATTGTAATTTATAAAAAGTTATAT-ACTTTATTATAATTTATAAATAATTTTATA
*
839417 CTTTATTGTAATTTATAAAAAGTTATATCCTTTATTATAA
1 CTTTATTGTAATTTATAAAAAGTTATATACTTTATTATAA
839457 AGTCTAAAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
57 7 0.06
58 109 0.89
59 7 0.06
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (58 bp):
CTTTATTGTAATTTATAAAAAGTTATATACTTTATTATAATTTATAAATAATTTTATA
Found at i:839451 original size:87 final size:87
Alignment explanation
Indices: 839243--839456 Score: 227
Period size: 87 Copynumber: 2.5 Consensus size: 87
839233 TATTTTGTCC
** *
839243 CTTTATTGT-ATTCTATAAAAAAATATATCATTTATCATAATTTATGAAAAATCATGTACTTTAT
1 CTTTATTGTAATT-TATAAAAAGTTATATCATTTATTATAATTTATGAAAAATCATGTACTTTAT
* *
839307 TGTAATTTATAAATAGTATTGTA
65 TGTAATTTATAAATAATATTATA
** * * * * ** * *
839330 CTTTATTACAATTTGTAAATAGTTTTCTGTTTTATTATAATTTAT-AAAAAGT-TTTTAACTTTA
1 CTTTATTGTAATTTATAAAAAGTTATATCATTTATTATAATTTATGAAAAA-TCATGT-ACTTTA
*
839393 TTGTAATTTATAAATAATTTTATA
64 TTGTAATTTATAAATAATATTATA
*
839417 CTTTATTGTAATTTATAAAAAGTTATATCCTTTATTATAA
1 CTTTATTGTAATTTATAAAAAGTTATATCATTTATTATAA
839457 AGTCTAAAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
86 7 0.07
87 90 0.90
88 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (87 bp):
CTTTATTGTAATTTATAAAAAGTTATATCATTTATTATAATTTATGAAAAATCATGTACTTTATT
GTAATTTATAAATAATATTATA
Found at i:839470 original size:58 final size:58
Alignment explanation
Indices: 839360--839470 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
839350 AGTTTTCTGT
* * ** *
839360 TTTATTATAATTTATAAAAAGTTTTTAACTTTATTGTAATTTATAAATAATTTTATAC
1 TTTATTATAATTTATAAAAAGTTTATAACTTTATTATAAAGTATAAAAAATTTTATAC
* * *
839418 TTTATTGTAATTTATAAAAAG-TTATATCCTTTATTATAAAGTCTAAAAAATTT
1 TTTATTATAATTTATAAAAAGTTTATA-ACTTTATTATAAAGTATAAAAAATTT
839471 AGCCTTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 4 0.09
58 40 0.91
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (58 bp):
TTTATTATAATTTATAAAAAGTTTATAACTTTATTATAAAGTATAAAAAATTTTATAC
Found at i:846606 original size:29 final size:29
Alignment explanation
Indices: 846561--846695 Score: 143
Period size: 29 Copynumber: 4.7 Consensus size: 29
846551 ACCCGACCCA
846561 ATGACATTTTGGGAATTATTTTGAAAAAT
1 ATGACATTTTGGGAATTATTTTGAAAAAT
*
846590 ATGACATTTTGGAAATTATTTTGAAAAA-
1 ATGACATTTTGGGAATTATTTTGAAAAAT
* * **
846618 AGTGTCA-TCTGGGAATT-TTTTTTAAAAT
1 A-TGACATTTTGGGAATTATTTTGAAAAAT
* * * *
846646 AGTGACATTCTGGTAATTATTTT-TAAAAC
1 A-TGACATTTTGGGAATTATTTTGAAAAAT
846675 ATGACATTTTGGGAATTATTT
1 ATGACATTTTGGGAATTATTT
846696 GTAAAACGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
27 8 0.09
28 33 0.36
29 46 0.51
30 4 0.04
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (29 bp):
ATGACATTTTGGGAATTATTTTGAAAAAT
Found at i:846664 original size:57 final size:57
Alignment explanation
Indices: 846560--846725 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
846550 GACCCGACCC
* * *
846560 AATGACATTTTGGGAATTATTTTGAAAAATA-TGACATTTTGGAAATTATTTTGAAAA
1 AATGACATTCTGGGAATT-TTTTGTAAAATAGTGACATTTTGGTAATTATTTTGAAAA
* * * *
846617 AAGTGTCA-TCTGGGAATTTTTTTTAAAATAGTGACATTCTGGTAATTATTTTTAAAA
1 AA-TGACATTCTGGGAATTTTTTGTAAAATAGTGACATTTTGGTAATTATTTTGAAAA
* * * ** *
846674 CATGACATTTTGGGAATTATTTGTAAAACGGTGATATTTTGGTAATTATTTT
1 AATGACATTCTGGGAATTTTTTGTAAAATAGTGACATTTTGGTAATTATTTT
846726 TAATAAAGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
56 14 0.16
57 72 0.80
58 4 0.04
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (57 bp):
AATGACATTCTGGGAATTTTTTGTAAAATAGTGACATTTTGGTAATTATTTTGAAAA
Found at i:846700 original size:28 final size:28
Alignment explanation
Indices: 846561--846724 Score: 134
Period size: 29 Copynumber: 5.8 Consensus size: 28
846551 ACCCGACCCA
* *
846561 ATGACATTTTGGGAATTATTTTGAAAAAT
1 ATGACATTTTGGGAATTA-TTTGTAAAAC
* *
846590 ATGACATTTTGGAAATTATTT-TGAAAAA
1 ATGACATTTTGGGAATTATTTGT-AAAAC
* * * * *
846618 AGTGTCA-TCTGGGAATTTTTTTTAAAAT
1 A-TGACATTTTGGGAATTATTTGTAAAAC
* * *
846646 AGTGACATTCTGGTAATTATTTTTAAAAC
1 A-TGACATTTTGGGAATTATTTGTAAAAC
846675 ATGACATTTTGGGAATTATTTGTAAAAC
1 ATGACATTTTGGGAATTATTTGTAAAAC
* * *
846703 GGTGATATTTTGGTAATTATTT
1 -ATGACATTTTGGGAATTATTT
846725 TTAATAAAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
28 53 0.47
29 59 0.53
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.43
Consensus pattern (28 bp):
ATGACATTTTGGGAATTATTTGTAAAAC
Found at i:846722 original size:29 final size:29
Alignment explanation
Indices: 846562--846754 Score: 117
Period size: 29 Copynumber: 6.7 Consensus size: 29
846552 CCCGACCCAA
* ***
846562 TGACATTTTGGGAATTATTT-TGAAAAATA
1 TGACATTTTGGTAATTATTTGT-AAAACGG
* **
846591 TGACATTTTGGAAATTATTT-TGAAAAAAG
1 TGACATTTTGGTAATTATTTGT-AAAACGG
* * * * * **
846620 TGTCA-TCTGGGAATTTTTTTTAAAATAG
1 TGACATTTTGGTAATTATTTGTAAAACGG
* * *
846648 TGACATTCTGGTAATTATTTTTAAAAC-A
1 TGACATTTTGGTAATTATTTGTAAAACGG
*
846676 TGACATTTTGGGAATTATTTGTAAAACGG
1 TGACATTTTGGTAATTATTTGTAAAACGG
* * *
846705 TGATATTTTGGTAATTATTTTTAATAAAGG
1 TGACATTTTGGTAATTATTTGTAA-AACGG
* *
846735 TGATATTTTTGTAATT-TTTG
1 TGACATTTTGGTAATTATTTG
846755 AATGTTGACT
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
28 45 0.33
29 73 0.53
30 19 0.14
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (29 bp):
TGACATTTTGGTAATTATTTGTAAAACGG
Found at i:854060 original size:5 final size:5
Alignment explanation
Indices: 854050--854091 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
854040 AAACCGATAT
854050 GACCC GACCC GACCC GACCC GACCC GTTGACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC ---GACCC GACCC GACC
854092 GAGTGACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 29 0.85
8 5 0.15
ACGTcount: A:0.19, C:0.55, G:0.21, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:854137 original size:29 final size:29
Alignment explanation
Indices: 854094--854233 Score: 124
Period size: 29 Copynumber: 4.8 Consensus size: 29
854084 ACCCGACCGA
*
854094 GTGACATTTTTGGAATTATTTTAAAAAAT
1 GTGACATTTTGGGAATTATTTTAAAAAAT
*
854123 GTGACATTTTGGGAATTTTTTTAAAAACA-
1 GTGACATTTTGGGAATTATTTTAAAAA-AT
* * *
854152 GTGACATTCTGGTAATTATTTT-TAAAAT
1 GTGACATTTTGGGAATTATTTTAAAAAAT
* * **
854180 GATGAAATTTTGGGACTTATTTGT-AAAACG
1 G-TGACATTTTGGGAATTATTT-TAAAAAAT
* *
854210 GTGATATTTTGGTAATTAGTTTTA
1 GTGACATTTTGGGAATTA-TTTTA
854234 TTAAAGATGA
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.01
28 4 0.04
29 75 0.84
30 9 0.10
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (29 bp):
GTGACATTTTGGGAATTATTTTAAAAAAT
Found at i:854190 original size:58 final size:58
Alignment explanation
Indices: 854093--854260 Score: 173
Period size: 58 Copynumber: 2.9 Consensus size: 58
854083 GACCCGACCG
* * *
854093 AGTGACATTTTTGG-AATTATTTTAAAAAATG-TGACATTTTGGGAATTTTTTTAAAAAC
1 AGTGACA-TTTTGGTAATTATTTTATAAAATGATGAAATTTTGGGAATTTTTGT-AAAAC
* *
854151 AGTGACATTCTGGTAATTATTTT-TAAAATGATGAAATTTTGGGACTTATTTGTAAAAC
1 AGTGACATTTTGGTAATTATTTTATAAAATGATGAAATTTTGGGAATT-TTTGTAAAAC
* * * * * *
854209 GGTGATATTTTGGTAATTAGTTTTATTAAA-GATGATATTTTTGTAATTTTTG
1 AGTGACATTTTGGTAATTA-TTTTATAAAATGATGAAATTTTGGGAATTTTTG
854261 AATGTGGACT
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
57 11 0.12
58 55 0.60
59 22 0.24
60 4 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (58 bp):
AGTGACATTTTGGTAATTATTTTATAAAATGATGAAATTTTGGGAATTTTTGTAAAAC
Found at i:854719 original size:30 final size:30
Alignment explanation
Indices: 854683--854746 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
854673 GATACTTAGC
* *
854683 TCAGAGACGACAGTAGTTCGAGGACCTGGT
1 TCAGAGACGACAGCAGTTCCAGGACCTGGT
*
854713 TCAGAGACGATAGCAGTTCCAGGACCTGGT
1 TCAGAGACGACAGCAGTTCCAGGACCTGGT
854743 TCAG
1 TCAG
854747 GGAGACATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (30 bp):
TCAGAGACGACAGCAGTTCCAGGACCTGGT
Found at i:860351 original size:13 final size:13
Alignment explanation
Indices: 860336--860407 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
860326 GCTCAATGAA
*
860336 CGTCATAAATGCA
1 CGTCATAAATGCG
* *
860349 CGTAATAAATGTG
1 CGTCATAAATGCG
*
860362 TGTCATAAATGCG
1 CGTCATAAATGCG
* *
860375 CGTAATAAATGTG
1 CGTCATAAATGCG
*
860388 TGTCATAAATGCG
1 CGTCATAAATGCG
860401 CGTCATA
1 CGTCATA
860408 GATTAATGAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:860400 original size:26 final size:26
Alignment explanation
Indices: 860337--860403 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
860327 CTCAATGAAC
*
860337 GTCATAAATGCACGTAATAAATGTGT
1 GTCATAAATGCGCGTAATAAATGTGT
860363 GTCATAAATGCGCGTAATAAATGTGT
1 GTCATAAATGCGCGTAATAAATGTGT
860389 GTCATAAATGCGCGT
1 GTCATAAATGCGCGT
860404 CATAGATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (26 bp):
GTCATAAATGCGCGTAATAAATGTGT
Found at i:860778 original size:39 final size:39
Alignment explanation
Indices: 860724--860804 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
860714 CATACCTCAG
* *
860724 CACATTACGGATTACTTCAAGGAGAGATATGTTGATCTT
1 CACATTACGAATTACTTCAAGGAGAGATACGTTGATCTT
* *
860763 CACATTTCGAATTACTTTAAGGAGAGATACGTTGATCTT
1 CACATTACGAATTACTTCAAGGAGAGATACGTTGATCTT
860802 CAC
1 CAC
860805 CTTTAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (39 bp):
CACATTACGAATTACTTCAAGGAGAGATACGTTGATCTT
Found at i:861032 original size:27 final size:26
Alignment explanation
Indices: 860998--861115 Score: 139
Period size: 27 Copynumber: 4.5 Consensus size: 26
860988 CCTCTTATTC
860998 TCTCTAGGATCTCGGCTCTACTTCTT
1 TCTCTAGGATCTCGGCTCTACTTCTT
861024 ATCTCTAGGATCTCGGCTCTACTTCTT
1 -TCTCTAGGATCTCGGCTCTACTTCTT
* *
861051 CTCTTTAGGATCTCAGCTCTACTTC-T
1 -TCTCTAGGATCTCGGCTCTACTTCTT
* * * *
861077 TCTCTGGGATCTTGGCTCTTCTTCCT
1 TCTCTAGGATCTCGGCTCTACTTCTT
*
861103 TCTTTTAGGATCT
1 TC-TCTAGGATCT
861116 TGCACCTACA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.24
26 4 0.05
27 56 0.71
ACGTcount: A:0.12, C:0.29, G:0.15, T:0.44
Consensus pattern (26 bp):
TCTCTAGGATCTCGGCTCTACTTCTT
Found at i:861088 original size:52 final size:55
Alignment explanation
Indices: 860995--861115 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 55
860985 CTACCTCTTA
* *
860995 TTCTCTCTAGGATCTCGGCTCTACTTCTTATCTCTAGGATCTCGGCTCTACTT-C
1 TTCTCTTTAGGATCTCAGCTCTACTTCTTATCTCTAGGATCTCGGCTCTACTTCC
* * *
861049 TTCTCTTTAGGATCTCAGCTCTACTTC-T-TCTCTGGGATCTTGGCTCTTCTTCC
1 TTCTCTTTAGGATCTCAGCTCTACTTCTTATCTCTAGGATCTCGGCTCTACTTCC
861102 TTCT-TTTAGGATCT
1 TTCTCTTTAGGATCT
861116 TGCACCTACA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 30 0.49
53 6 0.10
54 25 0.41
ACGTcount: A:0.12, C:0.29, G:0.15, T:0.45
Consensus pattern (55 bp):
TTCTCTTTAGGATCTCAGCTCTACTTCTTATCTCTAGGATCTCGGCTCTACTTCC
Found at i:862962 original size:53 final size:53
Alignment explanation
Indices: 862894--863129 Score: 282
Period size: 53 Copynumber: 4.5 Consensus size: 53
862884 ATTATGTGTA
* * *
862894 ATATCGGCACTATGTGTGCAACCATGAAATTCATAATGAGTTTATGAATTACC
1 ATATCGGCACTATATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACC
* *
862947 ATATCGGCACTATGTGT-CTAACCATGGAATTCATAATGAGTTTTTGAATTACC
1 ATATCGGCACTATATGTGC-AACCATGGAATTCATAATGAGTTTGTGAATTACC
* * *
863000 --ATCAGCACTATATGTGTAACCATGGAATTCATAATGAGTTTGTGAATTATC
1 ATATCGGCACTATATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACC
* * * * *
863051 ATATCGACATTATATGTGCAACAATGGAATTCATAATTAGTTTGTGAATTCCC
1 ATATCGGCACTATATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACC
* * *
863104 TTATCGGTACT-TAGGTGCAACTCATG
1 ATATCGGCACTATATGTGCAAC-CATG
863130 TACCATGCAT
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
51 45 0.29
52 10 0.06
53 102 0.65
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (53 bp):
ATATCGGCACTATATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACC
Found at i:863080 original size:104 final size:104
Alignment explanation
Indices: 862900--863100 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 104
862890 TGTAATATCG
* * *
862900 GCACTATGTGTGCAACCATGAAATTCATAATGAGTTTATGAATTACCATATCGGCACTATGTGTC
1 GCACTATATGTGCAACCATGAAATTCATAATGAGTTTATGAATTACCATATCGACACTATATGTC
* *
862965 TAACCATGGAATTCATAATGAGTTTTTGAATTACCATCA
66 TAACAATGGAATTCATAATGAGTTTGTGAATTACCATCA
* * * * *
863004 GCACTATATGTGTAACCATGGAATTCATAATGAGTTTGTGAATTATCATATCGACATTATATGTG
1 GCACTATATGTGCAACCATGAAATTCATAATGAGTTTATGAATTACCATATCGACACTATATGT-
*
863069 C-AACAATGGAATTCATAATTAGTTTGTGAATT
65 CTAACAATGGAATTCATAATGAGTTTGTGAATT
863101 CCCTTATCGG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 84 0.99
105 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (104 bp):
GCACTATATGTGCAACCATGAAATTCATAATGAGTTTATGAATTACCATATCGACACTATATGTC
TAACAATGGAATTCATAATGAGTTTGTGAATTACCATCA
Found at i:870137 original size:53 final size:53
Alignment explanation
Indices: 869974--870142 Score: 266
Period size: 53 Copynumber: 3.2 Consensus size: 53
869964 CTATGTGTAC
* *
869974 TATCGCCACTATGTGTGCAACCATGGAATTAATAATGAGTTTGTGAATTACCA
1 TATCGACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* * *
870027 TATCAAAACTATGTGTGCAACCATGGAATTCATAAAGAGTTTGTGAATTACCA
1 TATCGACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* * *
870080 TATCGACACTATGTGTGCAACAATTGAATTCATAATGAGTTTATGAATTACCA
1 TATCGACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
870133 TATCGACACT
1 TATCGACACT
870143 CAAGTGTTGG
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 105 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (53 bp):
TATCGACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
Found at i:872342 original size:19 final size:18
Alignment explanation
Indices: 872320--872395 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
872310 ACATTTCTTT
*
872320 ATTTTCATATTAATAACTT
1 ATTTT-ATATTAATAACTC
* *
872339 ATTTTAGATTAATAACAC
1 ATTTTATATTAATAACTC
* * *
872357 ATTTTTTATTCATAGCTC
1 ATTTTATATTAATAACTC
*
872375 ATTTTCATATTCATAACTC
1 ATTTT-ATATTAATAACTC
872394 AT
1 AT
872396 ATTCACATTC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
18 28 0.61
19 18 0.39
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTTATATTAATAACTC
Found at i:872400 original size:19 final size:19
Alignment explanation
Indices: 872363--872408 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
872353 ACACATTTTT
* *
872363 TATTCATAGCTCATTTTCA
1 TATTCATAACTCATATTCA
872382 TATTCATAACTCATATTCA
1 TATTCATAACTCATATTCA
*
872401 CATTCATA
1 TATTCATA
872409 GCCCAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (19 bp):
TATTCATAACTCATATTCA
Found at i:879492 original size:16 final size:16
Alignment explanation
Indices: 879471--879507 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
879461 GTTTATACAA
879471 GGCATCCTCTTCTGGT
1 GGCATCCTCTTCTGGT
879487 GGCATCCTCTTCTGGT
1 GGCATCCTCTTCTGGT
879503 GGCAT
1 GGCAT
879508 TATCTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.30, G:0.27, T:0.35
Consensus pattern (16 bp):
GGCATCCTCTTCTGGT
Found at i:879513 original size:16 final size:16
Alignment explanation
Indices: 879471--879513 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
879461 GTTTATACAA
*
879471 GGCATCCTCTTCTGGT
1 GGCATCATCTTCTGGT
*
879487 GGCATCCTCTTCTGGT
1 GGCATCATCTTCTGGT
*
879503 GGCATTATCTT
1 GGCATCATCTT
879514 GTTCTCCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.09, C:0.28, G:0.23, T:0.40
Consensus pattern (16 bp):
GGCATCATCTTCTGGT
Found at i:883088 original size:14 final size:14
Alignment explanation
Indices: 883069--883099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
883059 GCTGATCAGG
*
883069 AAATCGGGTAGATT
1 AAATCGGGTACATT
883083 AAATCGGGTACATT
1 AAATCGGGTACATT
883097 AAA
1 AAA
883100 GGGTGTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (14 bp):
AAATCGGGTACATT
Found at i:888142 original size:24 final size:24
Alignment explanation
Indices: 888115--888167 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
888105 TTAAAAGGTT
* *
888115 ATATTTAGACACT-TGAAAATCCTC
1 ATATTTAAACAATGTGAAAAT-CTC
*
888139 ATATCTAAACAATGTGAAAATCTC
1 ATATTTAAACAATGTGAAAATCTC
888163 ATATT
1 ATATT
888168 GTTTAGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (24 bp):
ATATTTAAACAATGTGAAAATCTC
Found at i:889177 original size:2 final size:2
Alignment explanation
Indices: 889170--889194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
889160 TTTGGACTTA
889170 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
889195 ATTGTTCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:891315 original size:35 final size:35
Alignment explanation
Indices: 891240--891315 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
891230 TAATTTTTTT
*
891240 TAAAATTATTTATTATAAACATAAAATACTATAAA
1 TAAAATTATTTATTATAAACATAAAATACTAGAAA
* *
891275 TAAAATTATTTATTAATAAA-ATACTAATATTAGAAA
1 TAAAATTATTTATT-ATAAACATA-AAATACTAGAAA
891311 -AAAAT
1 TAAAAT
891316 AATATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (35 bp):
TAAAATTATTTATTATAAACATAAAATACTAGAAA
Found at i:891429 original size:31 final size:35
Alignment explanation
Indices: 891393--891455 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 35
891383 CATATCTATA
891393 ATTTTA-T-AAATAAAAA-TATTAT-GATTATTAT
1 ATTTTATTAAAATAAAAATTATTATAGATTATTAT
891424 ATTTTATTAAAATAAAAATTATTATAGATTAT
1 ATTTTATTAAAATAAAAATTATTATAGATTAT
891456 ATTAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.21
32 1 0.04
33 9 0.32
34 6 0.21
35 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (35 bp):
ATTTTATTAAAATAAAAATTATTATAGATTATTAT
Found at i:891465 original size:34 final size:33
Alignment explanation
Indices: 891389--891465 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
891379 ATACCATATC
891389 TATAATT-TTATAAATAAAAATATTATGATTAT
1 TATAATTATTATAAATAAAAATATTATGATTAT
*
891421 TATATTTTATTA-AAATAAAAATTATTATAGATTA-
1 TATA-ATTATTATAAATAAAAA-TATTAT-GATTAT
891455 TATTAATTATT
1 TA-TAATTATT
891466 TGTTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
32 4 0.11
33 11 0.29
34 16 0.42
35 7 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (33 bp):
TATAATTATTATAAATAAAAATATTATGATTAT
Found at i:891497 original size:42 final size:42
Alignment explanation
Indices: 891443--891523 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
891433 AAATAAAAAT
* * *
891443 TATTATAGATTATATTAATTATTTGTTAAAATAAGAATAATA
1 TATTATAGATTATATTAATTAATTATCAAAATAAGAATAATA
*
891485 TATTATTA-ATTATATTAATTAATTATCAAAATAATAATA
1 TATTA-TAGATTATATTAATTAATTATCAAAATAAGAATA
891524 TTACTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (42 bp):
TATTATAGATTATATTAATTAATTATCAAAATAAGAATAATA
Found at i:893074 original size:48 final size:45
Alignment explanation
Indices: 893022--893187 Score: 151
Period size: 48 Copynumber: 3.6 Consensus size: 45
893012 GGAAAACACT
* *
893022 TAGTTTTGAAATATATATATATATATATTATACTTTAAAAAGGATATA
1 TAGTTTTGAAA-ATAT-TATATATAT-TTATATTTTAAAAAAGATATA
* *
893070 TAGTTTTTATAAAATATTATATATATTATATATTTTAAAAAATATATA
1 TAG-TTTT-GAAAATATTATATATATT-TATATTTTAAAAAAGATATA
* * * *
893118 TGGATTTTGTAAAA-A-TATATTATCTTTAT-TTTTTAAAACG-TATA
1 TAG-TTTTG-AAAATATTATA-TATATTTATATTTTAAAAAAGATATA
893162 TAGTTTTGAAAATATTATATATATTT
1 TAGTTTTGAAAATATTATATATATTT
893188 TGGAAACATG
Statistics
Matches: 98, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
42 4 0.04
43 12 0.12
44 10 0.10
45 8 0.08
46 7 0.07
47 7 0.07
48 39 0.40
49 8 0.08
50 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (45 bp):
TAGTTTTGAAAATATTATATATATTTATATTTTAAAAAAGATATA
Found at i:893114 original size:21 final size:22
Alignment explanation
Indices: 893090--893140 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
893080 AAAATATTAT
*
893090 ATATATTATATATTTT-AAAAA
1 ATATATTATAGATTTTGAAAAA
* *
893111 ATATA-TATGGATTTTGTAAAA
1 ATATATTATAGATTTTGAAAAA
893132 ATATATTAT
1 ATATATTAT
893141 CTTTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 14 0.56
22 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (22 bp):
ATATATTATAGATTTTGAAAAA
Found at i:893115 original size:46 final size:45
Alignment explanation
Indices: 893030--893186 Score: 142
Period size: 46 Copynumber: 3.4 Consensus size: 45
893020 CTTAGTTTTG
*
893030 AAATATATATATATATATATTATACTTTAAAAAGGATATATAGTTTTTATA
1 AAATAT-TATATATAT-TA-TATATTTTAAAAA--ATATATAGTTTTTA-A
893081 AAATATTATATATATTATATATTTTAAAAAATATATATGGATTTTGTAA
1 AAATATTATATATATTATATATTTTAAAAAATATATA--G-TTTT-TAA
* * ** *
893130 AAATA-TAT-TATCTT-TATTTTTTAAAACGTATATAG-TTTTGA
1 AAATATTATATATATTATATATTTTAAAAAATATATAGTTTTTAA
893171 AAATATTATATATATT
1 AAATATTATATATATT
893187 TTGGAAACAT
Statistics
Matches: 93, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
41 7 0.08
42 6 0.06
43 5 0.05
44 1 0.01
46 24 0.26
47 5 0.05
48 16 0.17
49 12 0.13
50 11 0.12
51 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.48
Consensus pattern (45 bp):
AAATATTATATATATTATATATTTTAAAAAATATATAGTTTTTAA
Found at i:893421 original size:29 final size:29
Alignment explanation
Indices: 893379--893448 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
893369 AAAGTTTAAG
* * *
893379 GTTTAAGATTTAGAGTTTATAAGACTATA
1 GTTTAAGGTTTAGAGGTTACAAGACTATA
* **
893408 GTTTAAGGTTTAGAGGTTACATGGTTATA
1 GTTTAAGGTTTAGAGGTTACAAGACTATA
893437 GTTTAAGGTTTA
1 GTTTAAGGTTTA
893449 TAATTAAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (29 bp):
GTTTAAGGTTTAGAGGTTACAAGACTATA
Found at i:894946 original size:21 final size:20
Alignment explanation
Indices: 894907--894947 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
894897 TTTTGCAGTG
* *
894907 TTTTATTTTTTTCTTACTTA
1 TTTTATTTTTTTATAACTTA
894927 TTTTATTTTTTTATGAACTTA
1 TTTTATTTTTTTAT-AACTTA
894948 ATTGAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTATTTTTTTATAACTTA
Found at i:896602 original size:51 final size:51
Alignment explanation
Indices: 896526--896637 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
896516 ACTACTGAAT
* * * * *
896526 AAAATAATAATAAAGTAAAGATAATATTTTGATTCTACCCTAATTCCTAAG
1 AAAATAATAATAAACTAAAAATAATATTTTAACTCTACACTAATTCCTAAG
* * *
896577 AAAATAATAATAAACTAAAAATAATATTTTAACTCTATATTAATTCCTAAT
1 AAAATAATAATAAACTAAAAATAATATTTTAACTCTACACTAATTCCTAAG
896628 AAAATAATAA
1 AAAATAATAA
896638 ATATAATCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.34
Consensus pattern (51 bp):
AAAATAATAATAAACTAAAAATAATATTTTAACTCTACACTAATTCCTAAG
Found at i:904355 original size:54 final size:54
Alignment explanation
Indices: 904297--904670 Score: 409
Period size: 54 Copynumber: 7.0 Consensus size: 54
904287 CTTTGGGGTA
* * * * * *
904297 CACACGTAGTGCCGATACGATCATTCATAAGCTCATTATGAATTTTGTGAGTTG
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTTG
* *
904351 CACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAA---TGTGGGTTG
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTTG
* * * * *
904402 CACACCTAGTGTCGGTACGGTCGTTCATAAACTTATTATGAATTCTATGGGTTG
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTTG
* *
904456 TACACTTAGTGCCGATA-TAGTCGTTCATAAACTTATTATGAATT-TCGTGGGTTG
1 CACACTTAGTGCCGATACGA-TCGTTCATAAACTTATTATGAATTCT-GTGGGTTG
* * * *
904510 CACACTTAGTGTCGATATGGTCGTTCATAATCTTATTATGAATTCTGTGGGTTG
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTTG
* * * *
904564 CACACTTAATGCCGATACGATTGTTCATAAAATTATTATGAATTAC-GTGGGTTA
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATT-CTGTGGGTTG
* * * * * * *
904618 CACACTTTGTGCTGATATGGTTGTTCATAAACTTATTATGAATACCGTGGGTT
1 CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTT
904671 CTAAGCTTAG
Statistics
Matches: 274, Mismatches: 37, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
51 48 0.18
53 2 0.01
54 222 0.81
55 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (54 bp):
CACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAATTCTGTGGGTTG
Found at i:904659 original size:162 final size:159
Alignment explanation
Indices: 904277--904670 Score: 470
Period size: 159 Copynumber: 2.5 Consensus size: 159
904267 TTTTCATAAC
* * * * * * *
904277 ATTAT-AAGTTCTTTGGGGTACACACGTAGTGCCGATA-CGATCATTCATAAGCTCATTATGAAT
1 ATTATGAA-TTCTATGGGTTACACACTTAGTGCCGATATAG-TCGTTCATAAACTTATTATGAAT
* *
904340 TTTGTGAGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATGTGGGTTGCAC
64 TTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATGTGGGTTGCAC
* * * * *
904405 ACCTAGTGTCGGTACGGTCGTTCATAAACTT
129 ACCTAATGCCGATACGATCGTTCATAAAATT
**
904436 ATTATGAATTCTATGGGTTGTACACTTAGTGCCGATATAGTCGTTCATAAACTTATTATGAATTT
1 ATTATGAATTCTATGGGTTACACACTTAGTGCCGATATAGTCGTTCATAAACTTATTATGAATTT
* *
904501 CGTGGGTTGCACACTTAGTGTCGATATGGTCGTTCATAATCTTATTATGAATTCTGTGGGTTGCA
66 CGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAA---TGTGGGTTGCA
* *
904566 CACTTAATGCCGATACGATTGTTCATAAAATT
128 CACCTAATGCCGATACGATCGTTCATAAAATT
* * * * * *
904598 ATTATGAATTAC-GTGGGTTACACACTTTGTGCTGATATGGTTGTTCATAAACTTATTATGAATA
1 ATTATGAATT-CTATGGGTTACACACTTAGTGCCGATATAGTCGTTCATAAACTTATTATGAATT
*
904662 CCGTGGGTT
65 TCGTGGGTT
904671 CTAAGCTTAG
Statistics
Matches: 200, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
159 98 0.49
160 3 0.01
162 98 0.49
163 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (159 bp):
ATTATGAATTCTATGGGTTACACACTTAGTGCCGATATAGTCGTTCATAAACTTATTATGAATTT
CGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATGTGGGTTGCACAC
CTAATGCCGATACGATCGTTCATAAAATT
Found at i:910034 original size:54 final size:54
Alignment explanation
Indices: 909969--910477 Score: 639
Period size: 54 Copynumber: 9.4 Consensus size: 54
909959 ATAAGTTCTT
* * * * *
909969 TGGGATGCACACGTAGTGCCGATACAGTCCTTCATAAACTCATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * *
910023 TGGGTTCCACACTTAGTGCCGATACGGTTGTTCATAAACTTATTATGAATT-TCA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTAT-G
* * * * *
910077 TGGATTGCAAACTTAGTGCCGATATGGTCGTTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
*
910131 TGGGTTGCACACTTAGTGCTGATACGGTCGTTCATAAACTTATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTAT-G
* * * *
910185 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATAATGAATTACG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * * * *
910239 TGGGTTGCGCACTTACTGCTGATACGGTCGTTCATAAACTTATTA-AAATTCTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * *
910292 TGGGTTGCACACTTAGTTCTGATACAGTCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
* * * *
910346 TGAGTTGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATT-TCA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTAT-G
* * * *
910400 TGGGTTACACACTTAGTGCTGATACGATCATTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
* *
910454 TGGGTTGTACACGTAGTGCCGATA
1 TGGGTTGCACACTTAGTGCCGATA
910478 GTACACATAG
Statistics
Matches: 391, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
53 49 0.13
54 340 0.87
55 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTATG
Found at i:921381 original size:5 final size:5
Alignment explanation
Indices: 921371--921397 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
921361 TATATTCTTC
921371 TCTCT TCTCT TCTCT TCTCT TCTCT TC
1 TCTCT TCTCT TCTCT TCTCT TCTCT TC
921398 CACTCTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
TCTCT
Found at i:923646 original size:17 final size:18
Alignment explanation
Indices: 923620--923657 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
923610 CTTTAATTAA
923620 TTTTACTTA-TTTAATAGT
1 TTTTACTTATTTTAATA-T
923638 TTTTA-TTATTTTAATAT
1 TTTTACTTATTTTAATAT
923655 TTT
1 TTT
923658 CTTACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTACTTATTTTAATAT
Found at i:927838 original size:15 final size:15
Alignment explanation
Indices: 927818--927857 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
927808 AAAAGACATG
*
927818 AAAGAAGAAAA-TGGA
1 AAAGAA-AAAAGTGAA
927833 AAAGAAAAAAGTGAA
1 AAAGAAAAAAGTGAA
927848 AAAGAAAAAA
1 AAAGAAAAAA
927858 AAATGCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAGAAAAAAGTGAA
Found at i:929548 original size:17 final size:18
Alignment explanation
Indices: 929522--929559 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
929512 CTTTAATTGA
929522 TTTTACTTA-TTTAATCAT
1 TTTTACTTATTTTAAT-AT
929540 TTTTA-TTATTTTAATAT
1 TTTTACTTATTTTAATAT
929557 TTT
1 TTT
929560 CTTACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTACTTATTTTAATAT
Found at i:935064 original size:45 final size:44
Alignment explanation
Indices: 935000--935200 Score: 285
Period size: 45 Copynumber: 4.5 Consensus size: 44
934990 TATCCTTTAT
* *
935000 TTTCATTTATAGCATCCTTTCATGCTTATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCGT-TAATGCACCGTTATGCA
* *
935045 TTTCATTTATGTCATCCTTTCATGCCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
* *
935090 TTTCATTTATGGCATCATTTCATGCCGTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CGTTAATGCACCGTTATGCA
* *
935135 TTTCATTTATGGCATCCTTTCAATTCGTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTC-ATGCGTTAATGCACCGTTATGCA
*
935180 TTTCATTTATGGCACCCTTTC
1 TTTCATTTATGGCATCCTTTC
935201 CATACACATA
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
45 140 0.98
46 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (44 bp):
TTTCATTTATGGCATCCTTTCATGCGTTAATGCACCGTTATGCA
Found at i:945439 original size:44 final size:45
Alignment explanation
Indices: 945345--945543 Score: 244
Period size: 44 Copynumber: 4.5 Consensus size: 45
945335 TATCATTTAT
* * * **
945345 TTTCAATTATAGCATCCTTTCATG-CTTATAATGCAATGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGTC-GATAATGCACCGTTATGCA
* * *
945390 TTTCATTTATGGCATCATTTCATGTCGAT-ATACACCGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCA
* *
945434 TTTCATTTATGGCATCCTTTCATGTCGTTAATGCACCGTTGTGCA
1 TTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCA
* *
945479 TTTCATTTATGGTAT-CTTTCATG-CCATTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGTCGA-TAATGCACCGTTATGCA
945523 TTTCATTTATGGCATCCTTTC
1 TTTCATTTATGGCATCCTTTC
945544 CATACACATA
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 76 0.58
45 54 0.41
46 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCA
Found at i:945467 original size:89 final size:89
Alignment explanation
Indices: 945345--945543 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 89
945335 TATCATTTAT
* * * *
945345 TTTCAATTATAGCATCCTTTCATGCTTATAATGCAATGTTATGCATTTCATTTATGGCATCATTT
1 TTTCATTTATGGCATCCTTTCATGCGTATAATGCAACGTTATGCATTTCATTTATGGCATC-TTT
* *
945410 CATGTCGA-T-ATACACCGTTATGTA
65 CATG-CCATTAATACACCGTTATGCA
* * *
945434 TTTCATTTATGGCATCCTTTCATGTCGT-TAATGCACCGTTGTGCATTTCATTTATGGTATCTTT
1 TTTCATTTATGGCATCCTTTCATG-CGTATAATGCAACGTTATGCATTTCATTTATGGCATCTTT
*
945498 CATGCCATTAATGCACCGTTATGCA
65 CATGCCATTAATACACCGTTATGCA
945523 TTTCATTTATGGCATCCTTTC
1 TTTCATTTATGGCATCCTTTC
945544 CATACACATA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
87 2 0.02
88 8 0.08
89 85 0.88
90 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (89 bp):
TTTCATTTATGGCATCCTTTCATGCGTATAATGCAACGTTATGCATTTCATTTATGGCATCTTTC
ATGCCATTAATACACCGTTATGCA
Found at i:946018 original size:20 final size:20
Alignment explanation
Indices: 945990--946067 Score: 52
Period size: 20 Copynumber: 3.8 Consensus size: 20
945980 GTAATTCATT
*
945990 GTATTGATACCTTTCTCTTA
1 GTATCGATACCTTTCTCTTA
* * *
946010 GTATCGATACTTTTATACTATG
1 GTATCGATACCTTTCT-CT-TA
* *
946032 GTATCGTTA-CTCTCT-TTCA
1 GTATCGATACCTTTCTCTT-A
946051 GTATCGATACCATTTCT
1 GTATCGATACC-TTTCT
946068 ACATTCTCGA
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
18 1 0.02
19 9 0.21
20 14 0.33
21 9 0.21
22 9 0.21
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (20 bp):
GTATCGATACCTTTCTCTTA
Found at i:950981 original size:18 final size:18
Alignment explanation
Indices: 950958--950997 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
950948 CTTACTCTCG
*
950958 AAAGTTACTTTCAACTTC
1 AAAGTTACTTTAAACTTC
*
950976 AAAGTTATTTTAAACTTC
1 AAAGTTACTTTAAACTTC
950994 AAAG
1 AAAG
950998 ATTGAATTAT
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:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (18 bp):
AAAGTTACTTTAAACTTC
Found at i:951122 original size:18 final size:18
Alignment explanation
Indices: 951099--951155 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
951089 TATATTTTCC
951099 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
*
951117 AACAATTGATATCATTTTGTT
1 AACAATTGGTATC--TTT-TT
*
951138 AACAAATGGTATCTTTTT
1 AACAATTGGTATCTTTTT
951156 CATTAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.42
19 3 0.09
20 3 0.09
21 13 0.39
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
AACAATTGGTATCTTTTT
Found at i:951388 original size:19 final size:20
Alignment explanation
Indices: 951364--951413 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
951354 AAAATGTTTT
951364 TATGAATAGTATT-ATACTG
1 TATGAATAGTATTGATACTG
*
951383 TATGAATAGTATTGGTACTG
1 TATGAATAGTATTGATACTG
*
951403 TATAAATAGTA
1 TATGAATAGTA
951414 CCAATACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (20 bp):
TATGAATAGTATTGATACTG
Found at i:954002 original size:21 final size:20
Alignment explanation
Indices: 953972--954017 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
953962 AACAGTTGGT
953972 ATTTTTTAACAATTGATATC
1 ATTTTTTAACAATTGATATC
*
953992 ATTTTGTTAACAATTGGTATC
1 ATTTT-TTAACAATTGATATC
954013 -TTTTT
1 ATTTTT
954018 CATTAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 9 0.38
21 14 0.58
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTTTTTAACAATTGATATC
Found at i:954266 original size:20 final size:20
Alignment explanation
Indices: 954229--954280 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
954219 AAAATATTTT
* *
954229 TATGAATAGTA-TTGTACTG
1 TATGAATAGTACCTGTACTA
954248 TATGAATAGTACCTGTACTA
1 TATGAATAGTACCTGTACTA
*
954268 TATAAATAGTACC
1 TATGAATAGTACC
954281 AATATTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TATGAATAGTACCTGTACTA
Found at i:954364 original size:19 final size:20
Alignment explanation
Indices: 954340--954381 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
954330 AATGTAAAAT
*
954340 GTGTATTGAT-ACTGCTACA
1 GTGTATCGATAACTGCTACA
954359 GTGTATCGATACACTGCTACA
1 GTGTATCGATA-ACTGCTACA
954380 GT
1 GT
954382 AATTTCAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GTGTATCGATAACTGCTACA
Found at i:956721 original size:21 final size:19
Alignment explanation
Indices: 956680--956735 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 19
956670 ACAATTGGTG
956680 ACAATTGGTATC-TTTTTA
1 ACAATTGGTATCTTTTTTA
*
956698 ACAATTGATATCATTTTGTTA
1 ACAATTGGTATC-TTTT-TTA
956719 ACAATTGGTATCTTTTT
1 ACAATTGGTATCTTTTT
956736 CATTAAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 1 0.03
20 7 0.21
21 14 0.42
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
ACAATTGGTATCTTTTTTA
Found at i:957089 original size:21 final size:19
Alignment explanation
Indices: 957049--957090 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
957039 AATGTAAAAT
*
957049 GTGTATCGATACTGCTACA
1 GTGTATCGATACTACTACA
957068 GTGTATCGATACACTACTACA
1 GTGTATCGAT--ACTACTACA
957089 GT
1 GT
957091 AATTTCAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (19 bp):
GTGTATCGATACTACTACA
Found at i:959147 original size:185 final size:188
Alignment explanation
Indices: 958835--959208 Score: 718
Period size: 185 Copynumber: 2.0 Consensus size: 188
958825 TGTCTGATGG
958835 TTGTATCCGCCTGATAAGGACCACTACCACCTGTAAAGATAAACCTCATGCACAAAATATGACTT
1 TTGTATCCGCCTGATAAGGACCACTACCACCTGTAAAGATAAACCTCATGCACAAAATATGACTT
958900 TATGGGTATGATGGGAATTTTGAGTGCAAAATCTCAAGATTACCTTGGAAATTTTTCTTATTACA
66 TATGGGTATGATGGGAATTTTGAGTGCAAAATCTCAAGATTACCTTGGAAATTTTTCTTATTACA
958965 GGACACCTCACAA-AGAGAGAGATG-ATATACTTCGGTAG-AAAATCTTTACCTTCTT
131 GGACACCTCACAATAGAGAGAGATGAATATACTTCGGTAGAAAAATCTTTACCTTCTT
959020 TTGTATCCGCCTGATAAGGACCACTACCACCTGTAAAGATAAACCTCATGCACAAAATATGACTT
1 TTGTATCCGCCTGATAAGGACCACTACCACCTGTAAAGATAAACCTCATGCACAAAATATGACTT
959085 TATGGGTATGATGGGAATTTTGAGTGCAAAATCTCAAGATTACCTTGGAAATTTTTCTTATTACA
66 TATGGGTATGATGGGAATTTTGAGTGCAAAATCTCAAGATTACCTTGGAAATTTTTCTTATTACA
959150 GGACACCTCACAATAGAGAGAGATGATATATACTTCGGTAGAAAAATCTTTACCTTCTT
131 GGACACCTCACAATAGAGAGAGATGA-ATATACTTCGGTAGAAAAATCTTTACCTTCTT
959209 CATCTTCCCC
Statistics
Matches: 185, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
185 143 0.77
186 11 0.06
188 14 0.08
189 17 0.09
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (188 bp):
TTGTATCCGCCTGATAAGGACCACTACCACCTGTAAAGATAAACCTCATGCACAAAATATGACTT
TATGGGTATGATGGGAATTTTGAGTGCAAAATCTCAAGATTACCTTGGAAATTTTTCTTATTACA
GGACACCTCACAATAGAGAGAGATGAATATACTTCGGTAGAAAAATCTTTACCTTCTT
Found at i:965156 original size:12 final size:13
Alignment explanation
Indices: 965127--965157 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
965117 TTAAACTATA
965127 AAAAAAGTGAAAT
1 AAAAAAGTGAAAT
965140 AAAAAAGTGAAAT
1 AAAAAAGTGAAAT
965153 AAAAA
1 AAAAA
965158 TACTATGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAAAAGTGAAAT
Found at i:965251 original size:21 final size:21
Alignment explanation
Indices: 965225--965266 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
965215 CTTGTTCGTG
965225 TTTTGTGTGTACTATAAATTA
1 TTTTGTGTGTACTATAAATTA
965246 TTTTGTGTGTACTATAAATTA
1 TTTTGTGTGTACTATAAATTA
965267 CGTGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTTGTGTGTACTATAAATTA
Found at i:970928 original size:2 final size:2
Alignment explanation
Indices: 970921--970945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
970911 ATTTATAAAA
970921 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
970946 AACAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:971663 original size:3 final size:3
Alignment explanation
Indices: 971655--971679 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
971645 AGGCCTCTCT
971655 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
971680 CTGTTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:972598 original size:12 final size:13
Alignment explanation
Indices: 972573--972602 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
972563 TTTGTTTCTG
972573 TTACCTGTTTTTT
1 TTACCTGTTTTTT
972586 TTACCTGTTTTTT
1 TTACCTGTTTTTT
972599 TTAC
1 TTAC
972603 AATGTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (13 bp):
TTACCTGTTTTTT
Found at i:981523 original size:18 final size:18
Alignment explanation
Indices: 981500--981588 Score: 81
Period size: 18 Copynumber: 4.7 Consensus size: 18
981490 ACTGGATATG
981500 TCCCGAAGGACCATTACA
1 TCCCGAAGGACCATTACA
**
981518 TCCCGAAGGACCACTGGATATG
1 TCCCGAAGGACCA-T---TACA
*
981540 TCCCGAAGGACCATTACG
1 TCCCGAAGGACCATTACA
*
981558 TCCCTAAGGACCATTA-A
1 TCCCGAAGGACCATTACA
*
981575 GTCCCTAAGGACCA
1 -TCCCGAAGGACCA
981589 CTGGATTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
18 44 0.72
19 1 0.02
21 1 0.02
22 15 0.25
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.18
Consensus pattern (18 bp):
TCCCGAAGGACCATTACA
Found at i:981525 original size:40 final size:40
Alignment explanation
Indices: 981458--981570 Score: 190
Period size: 40 Copynumber: 2.8 Consensus size: 40
981448 ACTAAATATT
* *
981458 TGTCCCGAAGGACCACTACGTCTCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCATTACGTCCCGAAGGACCACTGGATA
*
981498 TGTCCCGAAGGACCATTACATCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCATTACGTCCCGAAGGACCACTGGATA
*
981538 TGTCCCGAAGGACCATTACGTCCCTAAGGACCA
1 TGTCCCGAAGGACCATTACGTCCCGAAGGACCA
981571 TTAAGTCCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (40 bp):
TGTCCCGAAGGACCATTACGTCCCGAAGGACCACTGGATA
Found at i:981561 original size:58 final size:57
Alignment explanation
Indices: 981499--981651 Score: 182
Period size: 58 Copynumber: 2.6 Consensus size: 57
981489 CACTGGATAT
*
981499 GTCCCGAAGGACCATTACA-TCCCGAAGGACCACTGGATATGTCCCGAAGGACCATTAC
1 GTCCCGAAGGACCATTA-AGTCCCGAAGGACCACTGGAT-TGTCCCGAAAGACCATTAC
* * * *
981557 GTCCCTAAGGACCATTAAGTCCCTAAGGACCACTGGATTGTCCTGAAAGACCATTAT
1 GTCCCGAAGGACCATTAAGTCCCGAAGGACCACTGGATTGTCCCGAAAGACCATTAC
* *
981614 ATCCCGAAAGACCATTGCATATGTCCCGAAGGACCACT
1 GTCCCGAAGGACCATT--A-A-GTCCCGAAGGACCACT
981652 ATGACCCTCG
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
57 30 0.37
58 34 0.42
59 1 0.01
60 1 0.01
61 15 0.19
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (57 bp):
GTCCCGAAGGACCATTAAGTCCCGAAGGACCACTGGATTGTCCCGAAAGACCATTAC
Found at i:982272 original size:63 final size:64
Alignment explanation
Indices: 982201--982356 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 64
982191 TCCATAACTT
* *
982201 GTGCATCGATGCACTACCTGTGCATC-AGTACACAAATCACCTTCGATG-TTTTACTTTT-AAGG
1 GTGCATCGATGCACTACCTGTGCATCGA-TACACAAATCACATTCGATGTTTTTA-TTTTAAAAG
*
982263 G
64 A
** *
982264 GTGCATCGATGCACTA-CTGGTGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAAAGA
1 GTGCATCGATGCACTACCT-GTGCATCGATACACAAATCACATTCGATGTTTTTATTTTAAAAGA
* *
982328 GTGCATCGATGCACTTCATGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
982357 GCACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
62 2 0.03
63 43 0.54
64 34 0.43
65 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTTTTATTTTAAAAGA
Found at i:982352 original size:19 final size:20
Alignment explanation
Indices: 982328--982365 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
982318 TTTTAAAAGA
982328 GTGCATCGATGCA-CTTCAT
1 GTGCATCGATGCACCTTCAT
982347 GTGCATCGATGCACCTTCA
1 GTGCATCGATGCACCTTCA
982366 ACAATTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCACCTTCAT
Done.