Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008751.1 Hibiscus syriacus cultivar Beakdansim tig00111842_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: 806611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:582486 original size:23 final size:23
Alignment explanation
Indices: 582405--582488 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 23
582395 TTAAAAGTCA
*
582405 TTAACATTGA-TT-TATATAGATT
1 TTAACATAGATTTATATATAGA-T
* * *
582427 TTATATATAGATTTA-ACATTGAT
1 TTA-ACATAGATTTATATATAGAT
*
582450 TT-ATATAGATTTTATATATAGAT
1 TTAACATAGA-TTTATATATAGAT
*
582473 TTAACATTGATTTATA
1 TTAACATAGATTTATA
582489 CAATATTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 7 0.15
22 7 0.15
23 22 0.46
24 12 0.25
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (23 bp):
TTAACATAGATTTATATATAGAT
Found at i:586078 original size:17 final size:17
Alignment explanation
Indices: 586056--586093 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
586046 CTTAACACAC
*
586056 AATATT-ATTTTCTTATT
1 AATATTAATTTT-TTATA
586073 AATATTAATTTTTTATA
1 AATATTAATTTTTTATA
586090 AATA
1 AATA
586094 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
AATATTAATTTTTTATA
Found at i:586407 original size:20 final size:20
Alignment explanation
Indices: 586378--586435 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
586368 TTTGGTTCAC
*
586378 GGAATGGAAGATTATCAGTG
1 GGAATGGAAGATTACCAGTG
*
586398 GGAATAGAAGATTACCAGTG
1 GGAATGGAAGATTACCAGTG
586418 GGAATGGAAGATTACCAG
1 GGAATGGAAGATTACCAG
586436 GGAATAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (20 bp):
GGAATGGAAGATTACCAGTG
Found at i:586446 original size:16 final size:18
Alignment explanation
Indices: 586378--586448 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 18
586368 TTTGGTTCAC
*
586378 GGAATGGAAGATTATCAGTG
1 GGAAT-GAAGATTACCAG-G
586398 GGAATAGAAGATTACCAGTG
1 GGAAT-GAAGATTACCAG-G
586418 GGAATGGAAGATTACCA-G
1 GGAAT-GAAGATTACCAGG
586436 GGAAT-AAGATTAC
1 GGAATGAAGATTAC
586449 TGGGAATGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
16 8 0.17
18 6 0.12
20 34 0.71
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.21
Consensus pattern (18 bp):
GGAATGAAGATTACCAGG
Found at i:586665 original size:37 final size:38
Alignment explanation
Indices: 586588--586665 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
586578 ACAAGTTGGA
* *
586588 AAATATTTATATATTTCCTTTAAAAAATTTAAATTCAT
1 AAATATTTATATATTTCCTTTAAAAAATTGAAAATCAT
** *
586626 AAAT-TTTATATAATTTGTTTTACAAAATTGAAAAT-AT
1 AAATATTTATAT-ATTTCCTTTAAAAAATTGAAAATCAT
586663 AAA
1 AAA
586666 AAGGTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 12 0.35
38 22 0.65
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
AAATATTTATATATTTCCTTTAAAAAATTGAAAATCAT
Found at i:597431 original size:21 final size:21
Alignment explanation
Indices: 597405--597445 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
597395 GGCATATGAG
*
597405 ATCTATGTCTCGAAGGACCTC
1 ATCTATGTCCCGAAGGACCTC
597426 ATCTATGTCCCGAAGGACCT
1 ATCTATGTCCCGAAGGACCT
597446 ATGTAACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
ATCTATGTCCCGAAGGACCTC
Found at i:598080 original size:26 final size:24
Alignment explanation
Indices: 598030--598080 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
598020 AAGTCAAATT
**
598030 TATTTTCAAATTTCACTTATCAAC
1 TATTTTCAAATTTCACTTAGAAAC
*
598054 TATTTTCCAAGATTTCATTTAGAAAC
1 TATTTT-CAA-ATTTCACTTAGAAAC
598080 T
1 T
598081 CCTTCTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TATTTTCAAATTTCACTTAGAAAC
Found at i:599136 original size:16 final size:16
Alignment explanation
Indices: 599077--599141 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
599067 AATTTGCCAT
599077 AAATTTAAAATATAAA
1 AAATTTAAAATATAAA
* *
599093 AAATTATAATCATACAAA
1 AAATT-TAA-AATATAAA
* * *
599111 AAAATAAAAATTTAAA
1 AAATTTAAAATATAAA
599127 AAATTTAAAAATATA
1 AAATTT-AAAATATA
599142 TATTCTTATT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
16 14 0.39
17 12 0.33
18 10 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTTAAAATATAAA
Found at i:605999 original size:20 final size:20
Alignment explanation
Indices: 605976--606025 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
605966 GTTCTTACAG
605976 TATCAATACTATATGAACAA
1 TATCAATACTATATGAACAA
605996 TATCAATACTATATGAACAA
1 TATCAATACTATATGAACAA
*
606016 TATCGATACT
1 TATCAATACT
606026 GTTCATATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (20 bp):
TATCAATACTATATGAACAA
Found at i:607782 original size:33 final size:33
Alignment explanation
Indices: 607731--607829 Score: 103
Period size: 33 Copynumber: 3.1 Consensus size: 33
607721 GTTTGGCAAG
* * *
607731 TTGGAAATTTTATATTGGTTGGTAGTCAACTTA
1 TTGGAAAATTCATATTGGTTGGTAGCCAACTTA
* *
607764 TTGGAAAATTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAAATTCATATTGGTTGGTAGCCAACTTA
** * *
607797 TTGGAAAAAGC-T-TTGGTAGGTGGCCAACTTA
1 TTGGAAAATTCATATTGGTTGGTAGCCAACTTA
607828 TT
1 TT
607830 TTTCATCTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.34
32 1 0.02
33 37 0.64
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.38
Consensus pattern (33 bp):
TTGGAAAATTCATATTGGTTGGTAGCCAACTTA
Found at i:607819 original size:31 final size:33
Alignment explanation
Indices: 607757--607829 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 33
607747 GGTTGGTAGT
** *
607757 CAACTTATTGGAAAATTCATCTTGGTTGGTGGC
1 CAACTTATTGGAAAAAGCATCTTGGTAGGTGGC
607790 CAACTTATTGGAAAAAGC-T-TTGGTAGGTGGC
1 CAACTTATTGGAAAAAGCATCTTGGTAGGTGGC
607821 CAACTTATT
1 CAACTTATT
607830 TTTCATCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 20 0.54
32 1 0.03
33 16 0.43
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (33 bp):
CAACTTATTGGAAAAAGCATCTTGGTAGGTGGC
Found at i:611860 original size:33 final size:31
Alignment explanation
Indices: 611812--611910 Score: 101
Period size: 33 Copynumber: 3.1 Consensus size: 31
611802 GTTTTGCAAG
*
611812 TTGGAAATTTTATCTTGATTGGTGGCCAACTTA
1 TTGGAAA-ATTATCTTG-TTGGTGGCCAACTTA
**
611845 TTGGAAAATTCATCTTCGTTGGTGGTTAACTTA
1 TTGGAAAATT-ATCTT-GTTGGTGGCCAACTTA
* *
611878 TTGGAAAAATAT-TTGGTAGGTGGCCAACTTA
1 TTGGAAAATTATCTT-GTTGGTGGCCAACTTA
611909 TT
1 TT
611911 TTTCATCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
31 17 0.30
32 4 0.07
33 34 0.61
34 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (31 bp):
TTGGAAAATTATCTTGTTGGTGGCCAACTTA
Found at i:614947 original size:17 final size:17
Alignment explanation
Indices: 614925--614964 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
614915 CATAGAAACA
614925 TTATTATAATGTATTTT
1 TTATTATAATGTATTTT
*
614942 TTATTATATTGTATTTT
1 TTATTATAATGTATTTT
614959 TTATTA
1 TTATTA
614965 ATACAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTATTATAATGTATTTT
Found at i:621325 original size:19 final size:20
Alignment explanation
Indices: 621303--621341 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
621293 ATTAAATTTT
621303 TAAAACTTTT-AAAAATAAA
1 TAAAACTTTTAAAAAATAAA
*
621322 TAAAATTTTTAAAAAATAAA
1 TAAAACTTTTAAAAAATAAA
621342 AAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAACTTTTAAAAAATAAA
Found at i:622508 original size:17 final size:18
Alignment explanation
Indices: 622474--622516 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
622464 AAAAATAATG
622474 AAAATATATATATAATTT
1 AAAATATATATATAATTT
* *
622492 AAAATATTTAT-TTATTT
1 AAAATATATATATAATTT
622509 AAAA-ATAT
1 AAAATATAT
622517 CAGAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATATATATATAATTT
Found at i:624084 original size:3 final size:3
Alignment explanation
Indices: 624076--624150 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
624066 CTGTAATATG
* * *
624076 TAA TAA TAA TATT TAT TAA TAA TAA TAA AAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
624121 TAA TAA TAA CAA TTA TAA TAA TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
624151 AACGGGCAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:624824 original size:4 final size:4
Alignment explanation
Indices: 624815--624858 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
624805 ATGATGAATA
624815 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
624859 GACACACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:626697 original size:17 final size:16
Alignment explanation
Indices: 626668--626709 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
626658 ATCACAGATC
626668 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
626685 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
626700 AATTATTTTA
1 AATTATTTTA
626710 AAAGTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:629407 original size:14 final size:13
Alignment explanation
Indices: 629390--629447 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
629380 TTTACCATAT
629390 TTAATTTAAAATAA
1 TTAATTTAAAA-AA
*
629404 TTAA-TTAATAAA
1 TTAATTTAAAAAA
* *
629416 TTAAATATCAAAAA
1 TT-AATTTAAAAAA
*
629430 TTAAATTAAAAAA
1 TTAATTTAAAAAA
629443 TTAAT
1 TTAAT
629448 ATCATGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAATTTAAAAAA
Found at i:629448 original size:26 final size:26
Alignment explanation
Indices: 629402--629451 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
629392 AATTTAAAAT
*
629402 AATTAATTAATAAATTAAATATCAAA
1 AATTAATTAAAAAATTAAATATCAAA
629428 AATTAAATTAAAAAATT-AATATCA
1 AATT-AATTAAAAAATTAAATATCA
629452 TGAAAAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTAATTAAAAAATTAAATATCAAA
Found at i:629671 original size:19 final size:19
Alignment explanation
Indices: 629630--629673 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
629620 TAAAAATTTT
**
629630 AAATTTTTAAAAAGAAATG
1 AAATTTTTAAAAAGAAAAA
629649 AAATTTTTAAAAA-ATAAAA
1 AAATTTTTAAAAAGA-AAAA
629668 AAATTT
1 AAATTT
629674 AATAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATTTTTAAAAAGAAAAA
Found at i:631450 original size:145 final size:146
Alignment explanation
Indices: 631181--631478 Score: 440
Period size: 145 Copynumber: 2.0 Consensus size: 146
631171 CCGAAGTGCA
631181 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAGGACCACATATCATTCCTTAAGAATC
1 CGTAGAATTACACCGTAGTGCCA-ATAATAATGTCCATAGGACCACATATCATTCCTTAAGAATC
* * * * * * * *
631246 ATATACATATACTAGGGATCAAGTATTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
65 ATATACATATACTAAGGACCAAGTATTGCCTCACAAGACCTCACAAATGTTCCAAAGAATATACA
631311 TATATCCCGAAGGACCG
130 TATATCCCGAAGGACCG
* *
631328 CGTAGAATTGCACCGTAGTGCC-ATAATAATGTCCATAAGG-CCGCATATCATTCCTTAAGAATC
1 CGTAGAATTACACCGTAGTGCCAATAATAATGTCCAT-AGGACCACATATCATTCCTTAAGAATC
*
631391 ATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCATAAATGTTCCAAAGAATATAC
65 ATATACATATACTAAGGACCAAGTAT-TGCCTCACAAGACCTCACAAATGTTCCAAAGAATATAC
*
631455 ATATGTCCCGAAGGACCG
129 ATATATCCCGAAGGACCG
631473 CGTAGA
1 CGTAGA
631479 CCTCCGACTC
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
145 108 0.79
146 8 0.06
147 21 0.15
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (146 bp):
CGTAGAATTACACCGTAGTGCCAATAATAATGTCCATAGGACCACATATCATTCCTTAAGAATCA
TATACATATACTAAGGACCAAGTATTGCCTCACAAGACCTCACAAATGTTCCAAAGAATATACAT
ATATCCCGAAGGACCG
Found at i:631857 original size:191 final size:194
Alignment explanation
Indices: 631532--631915 Score: 738
Period size: 191 Copynumber: 2.0 Consensus size: 194
631522 CACATAACAT
631532 GGCATTATCATTTATTTCATTTCAAAATATTCACATAAACATGTAATTCACTTTCACATATCACG
1 GGCATTATCATTTATTTCATTTCAAAATATTCACATAAACATGTAATTCACTTTCACATATCACG
631597 TATCACATAGCTTCTTTTCATATTATCACATAGTCACATAGTTCACTTACACGTTGATCATTTCC
66 TATCACATAGCTTCTTTTCATATTATCACATAGTCACATAGTTCACTTACACGTTGATCATTTCC
631662 ATATAATCACATGT-CATATCGCA-GTTCTTGTATTCATATAACATATAATCACATAGATTATG
131 ATATAATCACATGTACATATCGCATGTTCTTGTATTCATATAACATATAATCACATAGATTATG
631724 GGCATTATCATTTATTTCATTTC-AAATATTCACATAAACATGTAATTCACTTTCACATATCACG
1 GGCATTATCATTTATTTCATTTCAAAATATTCACATAAACATGTAATTCACTTTCACATATCACG
631788 TATCACATAGCTTCTTTTCATATTATCACATAGTCACATAGTTCACTTACACGTTGATCATTTCC
66 TATCACATAGCTTCTTTTCATATTATCACATAGTCACATAGTTCACTTACACGTTGATCATTTCC
631853 ATATAATCACATGTCACATATCGCATGTTCTTGTATTCATATAACATATAATCACATAGATTA
131 ATATAATCACATGT-ACATATCGCATGTTCTTGTATTCATATAACATATAATCACATAGATTA
631916 CTTTCATATA
Statistics
Matches: 189, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
191 120 0.63
192 23 0.12
193 9 0.05
194 37 0.20
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.39
Consensus pattern (194 bp):
GGCATTATCATTTATTTCATTTCAAAATATTCACATAAACATGTAATTCACTTTCACATATCACG
TATCACATAGCTTCTTTTCATATTATCACATAGTCACATAGTTCACTTACACGTTGATCATTTCC
ATATAATCACATGTACATATCGCATGTTCTTGTATTCATATAACATATAATCACATAGATTATG
Found at i:633088 original size:64 final size:62
Alignment explanation
Indices: 632983--633139 Score: 154
Period size: 64 Copynumber: 2.5 Consensus size: 62
632973 TAATGAAGGT
* * * * * **
632983 ATGCATCGATGTACTACTGATGCATCGGTGTATCAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATCAAATGCATTCGATGTTTCTATT-TTA-AAAG
* * *
633047 ATGCATCGATGCATGACTTATGCATCGATGCATTAATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCATCAAATGCATTCGATGTTTCTATTTTAAAAG
*
633110 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
633140 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
63 4 0.05
64 67 0.86
65 7 0.09
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATCAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:638132 original size:64 final size:62
Alignment explanation
Indices: 638027--638183 Score: 163
Period size: 64 Copynumber: 2.5 Consensus size: 62
638017 TAATGAAGGT
* * * * **
638027 ATGCATCGATGCACTACTGATGCATCGGTGTATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* * *
638091 ATGCATCGATGCATGACTTATGCATCGATGCATTAATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
*
638154 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
638184 ACTCCTTCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 4 0.05
64 68 0.86
65 7 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:650468 original size:18 final size:18
Alignment explanation
Indices: 650441--650490 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
650431 ATTTTATGTT
* *
650441 AATAATTAAATTTTTAAA
1 AATAAATAAATTTTAAAA
650459 AATAAATAAAAATTTTAAAA
1 AATAAAT--AAATTTTAAAA
*
650479 AATAAAAAAATT
1 AATAAATAAATT
650491 AAAAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.41
20 16 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATAAATTTTAAAA
Found at i:650476 original size:19 final size:19
Alignment explanation
Indices: 650448--650488 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
650438 GTTAATAATT
*
650448 AAATTTTTAAAAATAAATAA
1 AAATTTTAAAAAATAAA-AA
650468 AAATTTTAAAAAATAAAAA
1 AAATTTTAAAAAATAAAAA
650487 AA
1 AA
650489 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATTTTAAAAAATAAAAA
Found at i:650485 original size:25 final size:26
Alignment explanation
Indices: 650455--650508 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
650445 ATTAAATTTT
* *
650455 TAAAAATAAATAAAAATTTTA-AAAAA
1 TAAAAA-AATTAAAAATTTAATAAAAA
650481 TAAAAAAATTAAAAATTTAATAAAAA
1 TAAAAAAATTAAAAATTTAATAAAAA
650507 TA
1 TA
650509 TATTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
TAAAAAAATTAAAAATTTAATAAAAA
Found at i:650492 original size:16 final size:16
Alignment explanation
Indices: 650462--650495 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
650452 TTTTAAAAAT
**
650462 AAATAAAAATTTTAAA
1 AAATAAAAAAATTAAA
650478 AAATAAAAAAATTAAA
1 AAATAAAAAAATTAAA
650494 AA
1 AA
650496 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAAAAATTAAA
Found at i:650722 original size:43 final size:42
Alignment explanation
Indices: 650673--650851 Score: 148
Period size: 43 Copynumber: 4.2 Consensus size: 42
650663 GCGTTAAGAC
**
650673 AAACGCCGCAGTAGGAATTGATATTTAGCGGCGTTTGTCATAA
1 AAACGCCGCAGTAGGTGTTGATATTTAGCGGCGTTT-TCATAA
* * ** * *
650716 AAACGCCGCAATAGGTGTTAATATTTAGTAGCGTTTTTCAGAC
1 AAACGCCGCAGTAGGTGTTGATATTTAGCGGCG-TTTTCATAA
* * *
650759 AAACGCCACAAG-AGGT-TATGATGTTTAGCGGCGTTTTCGCT-A
1 AAACGCCGC-AGTAGGTGT-TGATATTTAGCGGCGTTTTC-ATAA
* * * *
650801 AAACGCCGCCGTAGGTGTTGATGTTTTGCGGCGTTTCTGATAA
1 AAACGCCGCAGTAGGTGTTGATATTTAGCGGCGTTT-TCATAA
650844 AAACGCCG
1 AAACGCCG
650852 GTACAAGTCT
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 36 0.34
43 65 0.61
44 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
AAACGCCGCAGTAGGTGTTGATATTTAGCGGCGTTTTCATAA
Found at i:651319 original size:12 final size:12
Alignment explanation
Indices: 651270--651350 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
651260 CTGTGTTGCC
651270 GCTGCTTCT-CT
1 GCTGCTTCTGCT
* *
651281 -CTG-TGCTGCC
1 GCTGCTTCTGCT
*
651291 GCTGCTTCTTTCT
1 GCTGCTTC-TGCT
651304 -CTGCTTCTGCT
1 GCTGCTTCTGCT
651315 GCTGC-TCTG--
1 GCTGCTTCTGCT
651324 GCTGCTTCTGCT
1 GCTGCTTCTGCT
651336 GCTGCTCTCTG-T
1 GCTGCT-TCTGCT
651348 GCT
1 GCT
651351 TCCCTTGCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
9 8 0.15
10 8 0.15
11 10 0.18
12 23 0.42
13 6 0.11
ACGTcount: A:0.00, C:0.35, G:0.23, T:0.42
Consensus pattern (12 bp):
GCTGCTTCTGCT
Found at i:651351 original size:21 final size:21
Alignment explanation
Indices: 651248--651352 Score: 106
Period size: 21 Copynumber: 5.0 Consensus size: 21
651238 TGTTCTGATA
651248 TGCTGCTTCTCTCTGTG-TTGC
1 TGCTGCTTCTCTCTGTGCTT-C
* *
651269 CGCTGCTTCTCTCTGTGCTGC
1 TGCTGCTTCTCTCTGTGCTTC
* * *
651290 CGCTGCTTCTTTCTCTGCTTC
1 TGCTGCTTCTCTCTGTGCTTC
* *
651311 TGCTGCTGCTCT-GGCTGCTTC
1 TGCTGCTTCTCTCTG-TGCTTC
*
651332 TGCTGCTGCTCTCTGTGCTTC
1 TGCTGCTTCTCTCTGTGCTTC
651353 CCTTGCTTCA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 68 0.97
22 2 0.03
ACGTcount: A:0.00, C:0.34, G:0.23, T:0.43
Consensus pattern (21 bp):
TGCTGCTTCTCTCTGTGCTTC
Found at i:653187 original size:16 final size:16
Alignment explanation
Indices: 653166--653200 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
653156 CCAGACAAAT
653166 AAATTGAAACACCATA
1 AAATTGAAACACCATA
*
653182 AAATTGAAACACCGTA
1 AAATTGAAACACCATA
653198 AAA
1 AAA
653201 GTAGGTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (16 bp):
AAATTGAAACACCATA
Found at i:654458 original size:41 final size:42
Alignment explanation
Indices: 654396--654484 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 42
654386 TATTACGGCA
* *
654396 TTTATTACGAAAATGCCACTAACGGAGAAAACAATTGCAACG
1 TTTATTACGAAAAAGCCACTAAAGGAGAAAACAATTGCAACG
* *
654438 TTTATTAC-AAAAAGCCACTAAAGGAGAATACAATTGCGACG
1 TTTATTACGAAAAAGCCACTAAAGGAGAAAACAATTGCAACG
654479 TTTATT
1 TTTATT
654485 TAAAAATGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 35 0.81
42 8 0.19
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (42 bp):
TTTATTACGAAAAAGCCACTAAAGGAGAAAACAATTGCAACG
Found at i:654515 original size:41 final size:41
Alignment explanation
Indices: 654470--654656 Score: 162
Period size: 41 Copynumber: 4.5 Consensus size: 41
654460 GGAGAATACA
* *
654470 ATTGCGACGTTTATTTAAAAATGCCGCAAAATATTATATCT
1 ATTGCGGCGTTTATTTAAAAATGCCACAAAATATTATATCT
*
654511 ATTGCGGCGTTTATCTAGAAAAATGCCACAAAATATTATATCT
1 ATTGCGGCGTTTAT-T-TAAAAATGCCACAAAATATTATATCT
* * * ** *
654554 ATTGCGGCGTTTATCTAAAAACGCCACTAAAGTACGA-GTCT
1 ATTGCGGCGTTTATTTAAAAATGCCAC-AAAATATTATATCT
* * * * * * *
654595 ATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTA-GTCT
1 ATTGCGGCGTTTATTTAAAAATGCCAC-AAAATATTATATCT
* *
654636 ATCGCGGCGTTTATATAAAAA
1 ATTGCGGCGTTTATTTAAAAA
654657 CGCTGCTAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 82 0.65
42 7 0.06
43 38 0.30
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (41 bp):
ATTGCGGCGTTTATTTAAAAATGCCACAAAATATTATATCT
Found at i:654543 original size:43 final size:42
Alignment explanation
Indices: 654470--654574 Score: 167
Period size: 43 Copynumber: 2.5 Consensus size: 42
654460 GGAGAATACA
* * *
654470 ATTGCGACGTTTAT-TTAAAAATGCCGCAAAATATTATATCT
1 ATTGCGGCGTTTATCTAAAAAATGCCACAAAATATTATATCT
654511 ATTGCGGCGTTTATCTAGAAAAATGCCACAAAATATTATATCT
1 ATTGCGGCGTTTATCTA-AAAAATGCCACAAAATATTATATCT
654554 ATTGCGGCGTTTATCTAAAAA
1 ATTGCGGCGTTTATCTAAAAA
654575 CGCCACTAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
41 13 0.22
42 5 0.08
43 41 0.69
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (42 bp):
ATTGCGGCGTTTATCTAAAAAATGCCACAAAATATTATATCT
Found at i:654657 original size:41 final size:41
Alignment explanation
Indices: 654551--654894 Score: 408
Period size: 41 Copynumber: 8.4 Consensus size: 41
654541 AAATATTATA
* * * *
654551 TCTATTGCGGCGTTTATCTAAAAACGCCACTAAAGTACGAG
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
654592 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
* * **
654633 TCTATCGCGGCGTTTATATAAAAACGCTGCTAAAGTA-TGAG
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-AG
* *
654674 TTTATAGCGGCGTTTAG-ATTCAAAACGCCACTAAAGTA-TGAG
1 TCTATAGCGGCGTTT-GTA-TAAAAACGCCACTAAAGTACT-AG
* * *
654716 TATATAGTGGCGTTTGTATAGAAACGCCACTAAAGTACTAG
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
* *
654757 TATATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAG
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
* * * *
654798 TATATAGCGGCGTTTGTATAAAAACGCCACTAACGTACGAT
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
* *
654839 TCTATAACGGCGTTTGTATAAAAACACCACTAAAGTACTTA-
1 TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAC-TAG
* *
654880 CCTATAGCAGCGTTT
1 TCTATAGCGGCGTTT
654895 ATTGCGAAAA
Statistics
Matches: 266, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.00
41 229 0.86
42 36 0.14
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
TCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAG
Found at i:654728 original size:124 final size:123
Alignment explanation
Indices: 654557--654877 Score: 439
Period size: 124 Copynumber: 2.6 Consensus size: 123
654547 TATATCTATT
* *
654557 GCGGCGTTTATCTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
* * ** *
654622 TAAAGTACTAGTCTATCGCGGCGTTTATATAAAAACGCTGCTAAAGTA-TGAGTTTATA
66 TAAAGTACTAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGTACT-AGTATATA
* * * * *
654680 GCGGCGTTTAG-ATTCAAAACGCCACTAAAGTATGAGTATATAGTGGCGTTTGTATAGAAACGCC
1 GCGGCGTTT-GTA-TAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* *
654744 ACTAAAGTACTAGTATATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAGTATATA
64 ACTAAAGTACTAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGTACTAGTATATA
* * * *
654804 GCGGCGTTTGTATAAAAACGCCACTAACGTACGATTCTATAACGGCGTTTGTATAAAAACACCAC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
654869 TAAAGTACT
66 TAAAGTACT
654878 TACCTATAGC
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
123 63 0.37
124 107 0.63
125 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (123 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
TAAAGTACTAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGTACTAGTATATA
Found at i:654765 original size:165 final size:164
Alignment explanation
Indices: 654572--654875 Score: 450
Period size: 165 Copynumber: 1.8 Consensus size: 164
654562 GTTTATCTAA
* *
654572 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTCTA
1 AAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATA
* ** * * *
654637 TCGCGGCGTTTATATAAAAACGCTGCTAAAGTATGAGTT-TATAGCGGCGTTTAG-ATTCAAAAC
66 TAGCGGCGTTTATATAAAAACGCCACTAAAGTACGA-TTCTATAACGGCGTTT-GTA-TAAAAAC
*
654700 GCCACTAAAGTATGAGTATATAGTGGCGTTTGTATAG
128 ACCACTAAAGTATGAGTATATAGTGGCGTTTGTATAG
* *
654737 AAACGCCACTAAAGTACTAGTATATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACTAGTATA
1 AAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATA
* *
654802 TAGCGGCGTTTGTATAAAAACGCCACTAACGTACGATTCTATAACGGCGTTTGTATAAAAACACC
66 TAGCGGCGTTTATATAAAAACGCCACTAAAGTACGATTCTATAACGGCGTTTGTATAAAAACACC
654867 ACTAAAGTA
131 ACTAAAGTA
654876 CTTACCTATA
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
164 20 0.16
165 104 0.84
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (164 bp):
AAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATA
TAGCGGCGTTTATATAAAAACGCCACTAAAGTACGATTCTATAACGGCGTTTGTATAAAAACACC
ACTAAAGTATGAGTATATAGTGGCGTTTGTATAG
Found at i:656365 original size:41 final size:40
Alignment explanation
Indices: 656299--656376 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
656289 GTTTATACAA
* * *
656299 AAAAAATGCCATTATTGATTACACTATTGTGGCGTTTGTT
1 AAAAAACGCCACTATTGATTACACTATTGCGGCGTTTGTT
*
656339 AAAAAACGCCACTATTTATTATCACTATTGCGGCGTTT
1 AAAAAACGCCACTATTGATTA-CACTATTGCGGCGTTT
656377 TAAGAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 18 0.55
41 15 0.45
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (40 bp):
AAAAAACGCCACTATTGATTACACTATTGCGGCGTTTGTT
Found at i:656428 original size:42 final size:40
Alignment explanation
Indices: 656363--656496 Score: 112
Period size: 42 Copynumber: 3.2 Consensus size: 40
656353 TTTATTATCA
** * *
656363 CTATTGCGGCGTTTTAAGAATAAATGCCACTATATGTGTAAT
1 CTATTGCGGC-TTTTTGGTATAAACGCCACTATATGT-TAAT
*
656405 CTATTGCGGCATTTTTGGTATAAACGCCGCTA-AT-TTACTGAT
1 CTATTGCGGC-TTTTTGGTATAAACGCCACTATATGTTA---AT
* * *
656447 TTATTACGGCGTTTTGGCTA-AAACGCCACTATATGTTAAT
1 CTATTGCGGCTTTTTGG-TATAAACGCCACTATATGTTAAT
656487 CTATTGCGGC
1 CTATTGCGGC
656497 GTTTATAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.03
40 11 0.15
41 18 0.24
42 40 0.54
43 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (40 bp):
CTATTGCGGCTTTTTGGTATAAACGCCACTATATGTTAAT
Found at i:656430 original size:84 final size:82
Alignment explanation
Indices: 656342--656496 Score: 181
Period size: 84 Copynumber: 1.9 Consensus size: 82
656332 GTTTGTTAAA
* * *
656342 AAACGCCACT-ATTTA-TTATCACTATTGCGGCGTTTTAAGAAT-AAATGCCACTATATGTGTAA
1 AAACGCCACTAATTTACTGAT--CTATTACGGCGTTTT--GAATAAAACGCCACTATATGT-TAA
656404 TCTATTGCGGCATTTTTGGTAT
61 TCTATTGCGGCATTTTTGGTAT
* * **
656426 AAACGCCGCTAATTTACTGATTTATTACGGCGTTTTGGCTAAAACGCCACTATATGTTAATCTAT
1 AAACGCCACTAATTTACTGATCTATTACGGCGTTTTGAATAAAACGCCACTATATGTTAATCTAT
656491 TGCGGC
66 TGCGGC
656497 GTTTATAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
82 16 0.26
83 15 0.25
84 22 0.36
85 5 0.08
86 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (82 bp):
AAACGCCACTAATTTACTGATCTATTACGGCGTTTTGAATAAAACGCCACTATATGTTAATCTAT
TGCGGCATTTTTGGTAT
Found at i:656529 original size:77 final size:80
Alignment explanation
Indices: 656388--656537 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 80
656378 AAGAATAAAT
* * *
656388 GCCACTATATGTGTAATCTATTGCGGCATTTTTGGTATAAACGCCGCTAATTTACTGATTTATTA
1 GCCACTATATGTGTAATCTATTGCGGC--TGTT-GTATAAACGCCGCTAATTTACTCATCTATTA
*
656453 CGGCGTTTTGGCTAAAAC
63 CGCCGTTTTGGCTAAAAC
656471 GCCACTATATGT-TAATCTATTGCGGC-GTT-TATAAACGCCGCTAATTTAC-CACTCTATTACG
1 GCCACTATATGTGTAATCTATTGCGGCTGTTGTATAAACGCCGCTAATTTACTCA-TCTATTACG
656532 CCGTTT
65 CCGTTT
656538 GTTAAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
76 1 0.02
77 33 0.53
79 2 0.03
82 14 0.23
83 12 0.19
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (80 bp):
GCCACTATATGTGTAATCTATTGCGGCTGTTGTATAAACGCCGCTAATTTACTCATCTATTACGC
CGTTTTGGCTAAAAC
Found at i:666597 original size:18 final size:19
Alignment explanation
Indices: 666553--666597 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
666543 CTCATTTTAA
666553 GAGTATCGATACTCAAAGG
1 GAGTATCGATACTCAAAGG
666572 GTAGTATCGATACTC-AAGG
1 G-AGTATCGATACTCAAAGG
666591 GAGTATC
1 GAGTATC
666598 TATATTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 13 0.52
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
GAGTATCGATACTCAAAGG
Found at i:677671 original size:45 final size:45
Alignment explanation
Indices: 677607--677694 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
677597 ATGATGTATC
*
677607 ATTGCTTAGGTTTATGAATCTCATGAAATATAGTAGAATAGATAT
1 ATTGCTTAGGTTTATGAATCTCATGAAATATAATAGAATAGATAT
*
677652 ATTGCTTATGTTTATGAATCTCATGAAATATAATAGAATAGAT
1 ATTGCTTAGGTTTATGAATCTCATGAAATATAATAGAATAGAT
677695 GTATACTACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (45 bp):
ATTGCTTAGGTTTATGAATCTCATGAAATATAATAGAATAGATAT
Found at i:678153 original size:23 final size:23
Alignment explanation
Indices: 678118--678161 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
678108 GTAGTTGTGA
* *
678118 TAATCATTTTTTTATAAAACAAT
1 TAATCATTATTTTAAAAAACAAT
*
678141 TAATTATTATTTTAAAAAACA
1 TAATCATTATTTTAAAAAACA
678162 GTTATGACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATCATTATTTTAAAAAACAAT
Found at i:679242 original size:29 final size:29
Alignment explanation
Indices: 679174--679293 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 29
679164 TGAAGGGCTA
*
679174 AAATAGCT-AAAACAGAAATTTAAAAGG-CT
1 AAATAG-TAAAAACAGAAACTT-AAAGGACT
* **
679203 AAACAACAAAAACAGAAACTTAAAGGACT
1 AAATAGTAAAAACAGAAACTTAAAGGACT
* * *
679232 AAATAGTAAAAATAGAAAGTTAAAGGAAT
1 AAATAGTAAAAACAGAAACTTAAAGGACT
* * * * *
679261 AAAATGGAAAAAATAAAAACTTAAGGGACT
1 -AAATAGTAAAAACAGAAACTTAAAGGACT
679291 AAA
1 AAA
679294 ATGGTATTAA
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 5 0.07
29 44 0.61
30 23 0.32
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (29 bp):
AAATAGTAAAAACAGAAACTTAAAGGACT
Found at i:679275 original size:30 final size:30
Alignment explanation
Indices: 679210--679297 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
679200 GCTAAACAAC
* * *
679210 AAAAACAGAAACTTAAAGGACT-AAATAGT
1 AAAAATAGAAACTTAAAGGACTAAAATGGA
* *
679239 AAAAATAGAAAGTTAAAGGAATAAAATGGA
1 AAAAATAGAAACTTAAAGGACTAAAATGGA
* *
679269 AAAAATAAAAACTTAAGGGACTAAAATGG
1 AAAAATAGAAACTTAAAGGACTAAAATGG
679298 TATTAACAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 19 0.39
30 30 0.61
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (30 bp):
AAAAATAGAAACTTAAAGGACTAAAATGGA
Found at i:680871 original size:3 final size:3
Alignment explanation
Indices: 680863--680924 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
680853 ATATTTTTGT
*
680863 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
680909 TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TA
680925 TAAAAAAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:683037 original size:14 final size:15
Alignment explanation
Indices: 683018--683046 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
683008 TATTTTAGAT
683018 CTTTTA-ATTTTTAA
1 CTTTTACATTTTTAA
683032 CTTTTACATTTTTAA
1 CTTTTACATTTTTAA
683047 TGTTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTTTACATTTTTAA
Found at i:683903 original size:22 final size:22
Alignment explanation
Indices: 683872--683925 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
683862 AAACGAACGA
*
683872 TAAACAAACACCAAA-ACAATGC
1 TAAACGAACACCAAATA-AATGC
* *
683894 TAAACGAACACTAAATAAATGT
1 TAAACGAACACCAAATAAATGC
683916 TAAACGAACA
1 TAAACGAACA
683926 TGTTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.20, G:0.07, T:0.15
Consensus pattern (22 bp):
TAAACGAACACCAAATAAATGC
Found at i:683982 original size:23 final size:24
Alignment explanation
Indices: 683934--683983 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
683924 CATGTTCATA
* * *
683934 AACATGTTCGTGAACGTATAAACG
1 AACACGTTCGCGAACATATAAACG
683958 AACACGTTCGCGAACAT-TAAACG
1 AACACGTTCGCGAACATATAAACG
683981 AAC
1 AAC
683984 GCTAAACGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (24 bp):
AACACGTTCGCGAACATATAAACG
Found at i:686225 original size:28 final size:27
Alignment explanation
Indices: 686193--686246 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
686183 TTTAGGATTA
686193 TCTTTTATT-TTTCAAGTTTTCATTTTTT
1 TCTTTT-TTATTTCAAGTTTT-ATTTTTT
*
686221 TCTTTTTTATTTTAAGTTTTATTTTT
1 TCTTTTTTATTTCAAGTTTTATTTTT
686247 AAATATGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (27 bp):
TCTTTTTTATTTCAAGTTTTATTTTTT
Found at i:692125 original size:19 final size:19
Alignment explanation
Indices: 692097--692136 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
692087 ATTTTTTTGC
692097 AAATATAAAA-AATGAAAA
1 AAATATAAAATAATGAAAA
*
692115 AAATAATAAAATGATGAAAA
1 AAAT-ATAAAATAATGAAAA
692135 AA
1 AA
692137 TAAAATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAATATAAAATAATGAAAA
Found at i:692137 original size:19 final size:16
Alignment explanation
Indices: 692101--692141 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 16
692091 TTTTGCAAAT
692101 ATAAAAAATGAAAAAA
1 ATAAAAAATGAAAAAA
692117 ATAATAAAATGATGAAAAA
1 ATAA-AAAATGA--AAAAA
692136 ATAAAA
1 ATAAAA
692142 TAAGGAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 2 0.09
19 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
ATAAAAAATGAAAAAA
Found at i:692473 original size:148 final size:148
Alignment explanation
Indices: 692205--692502 Score: 517
Period size: 148 Copynumber: 2.0 Consensus size: 148
692195 AAAAGAGGAA
692205 TAAAAATAAAGGCTTGGGTTTAATTATGTGGTAAAAACAAAGAAAAATGATAAAGGCTCAAAAAG
1 TAAAAATAAAGGCTTGGGTTTAATTATGTGGTAAAAACAAAGAAAAATGATAAAGGCTCAAAAAG
* * * *
692270 TGCTTCACTAGTGGATATATAAATGGTAGGCTTTTTTGGGAAAAGTGGGTTTAATCCTAATTG-T
66 TGCTTCACTAGTGGATATATAAAGGGTAGGCTTTTTAGGGAAAAATGGGTTTAATCCTAATTGCC
692334 TCATATAACATTAAAACAT
131 TC-TATAACATTAAAACAT
*
692353 TAAAAATAAAGGTTTGGGTTTAATTATGTGGTAAAAACAAAGAAAAATGATAAAGGCTCAAAAAG
1 TAAAAATAAAGGCTTGGGTTTAATTATGTGGTAAAAACAAAGAAAAATGATAAAGGCTCAAAAAG
*
692418 TGGTTCACTAGTGGATATATAAAGGGTAGGCTTTTTAGGGAAAAATGGGTTTAATCCTAATTGCC
66 TGCTTCACTAGTGGATATATAAAGGGTAGGCTTTTTAGGGAAAAATGGGTTTAATCCTAATTGCC
*
692483 TCTATCACATTAAAACAT
131 TCTATAACATTAAAACAT
692501 TA
1 TA
692503 TGCCCAACAT
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 140 0.99
149 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (148 bp):
TAAAAATAAAGGCTTGGGTTTAATTATGTGGTAAAAACAAAGAAAAATGATAAAGGCTCAAAAAG
TGCTTCACTAGTGGATATATAAAGGGTAGGCTTTTTAGGGAAAAATGGGTTTAATCCTAATTGCC
TCTATAACATTAAAACAT
Found at i:693438 original size:28 final size:27
Alignment explanation
Indices: 693403--693455 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
693393 CATACATCAT
693403 AAAAAACAGTTCAACCTTACTTAGTTA
1 AAAAAACAGTTCAACCTTACTTAGTTA
*
693430 AAAAGAACAGTTCAACCTTAGTTAGT
1 AAAA-AACAGTTCAACCTTACTTAGT
693456 GTGGACGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAAAACAGTTCAACCTTACTTAGTTA
Found at i:702965 original size:12 final size:12
Alignment explanation
Indices: 702948--702980 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
702938 TTAACATCTT
702948 AAAAATAAAAAG
1 AAAAATAAAAAG
702960 AAAAATAAAAAG
1 AAAAATAAAAAG
702972 AAAAA-AAAA
1 AAAAATAAAA
702981 CTTTTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:702970 original size:18 final size:17
Alignment explanation
Indices: 702947--702980 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
702937 TTTAACATCT
*
702947 TAAAAATAAAAAGAAAAA
1 TAAAAAGAAAAA-AAAAA
702965 TAAAAAGAAAAAAAAA
1 TAAAAAGAAAAAAAAA
702981 CTTTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
TAAAAAGAAAAAAAAAA
Found at i:713231 original size:39 final size:39
Alignment explanation
Indices: 713184--713261 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
713174 AAGATTGTTT
713184 CTATTATTTTTTTATTTAAGTTTGGATATATCTTTCTTA
1 CTATTATTTTTTTATTTAAGTTTGGATATATCTTTCTTA
713223 CTATTATTTTTTTATTTAAGTTTGGATATATCTTTCTTA
1 CTATTATTTTTTTATTTAAGTTTGGATATATCTTTCTTA
713262 ATAATTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (39 bp):
CTATTATTTTTTTATTTAAGTTTGGATATATCTTTCTTA
Found at i:713943 original size:21 final size:21
Alignment explanation
Indices: 713919--713981 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
713909 GCAAATTCGC
713919 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
713940 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
713960 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
713981 G
1 G
713982 CCTATAGTTG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:713999 original size:22 final size:22
Alignment explanation
Indices: 713971--714064 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
713961 TTTCATTTCG
*
713971 CGTTGCGATAGCCTATAGTTGT
1 CGTTGCGATAGCCTACAGTTGT
** *
713993 CGTTGCGATTTTCC-A-A-AT-T
1 CGTTGCGA-TAGCCTACAGTTGT
*
714012 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGCCTACAGTTGT
* *
714034 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGCCTACAGTTGT
714056 CGTTGCGAT
1 CGTTGCGAT
714065 TTTGCAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.03
19 10 0.17
20 2 0.03
21 2 0.03
22 39 0.67
23 3 0.05
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGCCTACAGTTGT
Found at i:714138 original size:41 final size:39
Alignment explanation
Indices: 714110--714292 Score: 253
Period size: 41 Copynumber: 4.5 Consensus size: 39
714100 ATTCGCGTTG
714110 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG--TTTC
*
714151 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG--TTTC
714192 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG--TTTC
*
714233 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG--TTTC
*
714274 CATTT--CGTTGCGACAGTTG
1 CATTTCGCGTTGCGATAGTTG
714293 TCGTTGCGTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.09
41 125 0.91
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (39 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTC
Found at i:714148 original size:82 final size:82
Alignment explanation
Indices: 714056--714292 Score: 241
Period size: 82 Copynumber: 2.9 Consensus size: 82
714046 CTACAGTTGT
* * * ** *
714056 CGTTGCGATTTTGCAAATTCGCATTGCGAT-CTCCACTATCGCAAATT-CG-CGTTGCATTTCGC
1 CGTTGCGATTTT-CCATTTCGCGTTGCGATACTCCAAAATCGC--ATTACGACGTTCCATTTCGC
714118 GTTGCGATAGTTGAAAATCG
63 GTTGCGATAGTTGAAAATCG
* ** * **
714138 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTCCATTTCGCGTT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATACTCCAAAATCGCATTACGACGTTCCATTTCGCGTT
714203 GCGATAGTTGAAAATCG
66 GCGATAGTTGAAAATCG
* ** * **
714220 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATTT--CGTT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATACTCCAAAATCGCATTACGACGTTCCATTTCGCGTT
*
714283 GCGACAGTTG
66 GCGATAGTTG
714293 TCGTTGCGTT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.11
81 16 0.12
82 106 0.77
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (82 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATACTCCAAAATCGCATTACGACGTTCCATTTCGCGTT
GCGATAGTTGAAAATCG
Found at i:714160 original size:20 final size:20
Alignment explanation
Indices: 714135--714280 Score: 112
Period size: 20 Copynumber: 7.2 Consensus size: 20
714125 TAGTTGAAAA
714135 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
714155 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
714176 TCGCGTTACGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
714196 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
714217 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
714237 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
714258 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
714278 TCG
1 TCG
714281 TTGCGACAGT
Statistics
Matches: 90, Mismatches: 33, Indels: 6
0.70 0.26 0.05
Matches are distributed among these distances:
20 47 0.52
21 43 0.48
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:714266 original size:21 final size:21
Alignment explanation
Indices: 714114--714269 Score: 138
Period size: 21 Copynumber: 7.6 Consensus size: 21
714104 GCGTTGCATT
714114 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
714135 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
714155 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
714176 TCGCGTTACGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
714196 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
714217 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
714237 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
714258 TCGCATTGCGAT
1 TCGCGTTGCGAT
714270 TTTCCATTTC
Statistics
Matches: 99, Mismatches: 33, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
20 44 0.44
21 55 0.56
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:714411 original size:6 final size:6
Alignment explanation
Indices: 714400--714448 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
714390 GACACGTATT
714400 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
714448 A
1 A
714449 GACGAGACGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:714969 original size:6 final size:6
Alignment explanation
Indices: 714953--715026 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
714943 TCTCTTCTCG
714953 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
715000 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
715027 AATACGTGTC
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 63 0.93
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:715185 original size:19 final size:19
Alignment explanation
Indices: 715163--715227 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
715153 ACTGTAGACT
715163 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
715182 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
715201 ATCGCAACGACA--TGGAAA
1 ATCGCAACGA-ATTTGGAAA
715219 ATCGCAACG
1 ATCGCAACG
715228 CGATTTTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
18 15 0.33
19 29 0.64
20 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:715218 original size:18 final size:18
Alignment explanation
Indices: 715163--715288 Score: 101
Period size: 20 Copynumber: 6.5 Consensus size: 18
715153 ACTGTAGACT
715163 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAA-TTGGAAA
715182 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAA-TTGGAAA
715201 ATCGCAACGACA-TGGAAA
1 ATCGCAACGA-ATTGGAAA
* ** *
715219 ATCGCAACGCGATTTTCAACT
1 ATCGCAA--CGAATTGGAA-A
*
715240 ATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAATTGGAAA
*
715260 ATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAATTGGAAA
715280 ATCGCAACG
1 ATCGCAACG
715289 TGATTTTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.16
19 29 0.31
20 34 0.37
21 15 0.16
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (18 bp):
ATCGCAACGAATTGGAAA
Found at i:715287 original size:61 final size:61
Alignment explanation
Indices: 715195--715332 Score: 244
Period size: 61 Copynumber: 2.3 Consensus size: 61
715185 GCAACGAATT
*
715195 TGGAAAATCGCAA--CGACATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
*
715254 TGGAAAATCGCAACGCGAAATGGAAAATCGCAACGTGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
715315 TGGAAAATCGCAACGCGA
1 TGGAAAATCGCAACGCGA
715333 TTTTCAACTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
59 13 0.17
61 62 0.83
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (61 bp):
TGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
Found at i:715366 original size:61 final size:61
Alignment explanation
Indices: 715195--715401 Score: 177
Period size: 61 Copynumber: 3.4 Consensus size: 61
715185 GCAACGAATT
* * ** * *
715195 TGGAAAATCGCAA--CGACATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
* * ** * *
715254 TGGAAAATCGCAACGCGAAATGGAAAATCGCAACGTGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
** * * * **
715315 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-AATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
** *
715376 TTCAACTATCGCAACGCGAAATGCAA
1 TGGAA-AATCGCAACGCGAAATGCAA
715402 TGCGAATTTG
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
59 13 0.11
61 80 0.65
62 30 0.24
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (61 bp):
TGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACAATCGCAACGCGAAA
Found at i:715415 original size:41 final size:41
Alignment explanation
Indices: 715260--715398 Score: 269
Period size: 41 Copynumber: 3.4 Consensus size: 41
715250 GAAATGGAAA
*
715260 ATCGCAACGCGAAATGGAAAATCGCAACGTGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
715301 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
715342 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
715383 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
715399 CAATGCGAAT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:717042 original size:11 final size:11
Alignment explanation
Indices: 717026--717062 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
717016 GGGCATCAGT
717026 TTTTCATTAAG
1 TTTTCATTAAG
*
717037 TTTTCATTAGG
1 TTTTCATTAAG
*
717048 TTTTCTTTAAG
1 TTTTCATTAAG
717059 TTTT
1 TTTT
717063 TCTTTTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (11 bp):
TTTTCATTAAG
Found at i:717067 original size:12 final size:12
Alignment explanation
Indices: 717023--717064 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
717013 CTAGGGCATC
717023 AGTTTTTCATTA
1 AGTTTTTCATTA
717035 AG-TTTTCATT-
1 AGTTTTTCATTA
* *
717045 AGGTTTTCTTTA
1 AGTTTTTCATTA
717057 AGTTTTTC
1 AGTTTTTC
717065 TTTTGGTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 15 0.58
12 9 0.35
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.60
Consensus pattern (12 bp):
AGTTTTTCATTA
Found at i:727019 original size:20 final size:21
Alignment explanation
Indices: 726977--727029 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
726967 TAATAATAAC
726977 ATTTTTAAAAAATAATTTATT
1 ATTTTTAAAAAATAATTTATT
* * *
726998 ATTTTTAATAAGTTATTT-TT
1 ATTTTTAAAAAATAATTTATT
727018 ATTTTTAAAAAA
1 ATTTTTAAAAAA
727030 ATAAATAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAAAATAATTTATT
Found at i:735358 original size:21 final size:21
Alignment explanation
Indices: 735332--735450 Score: 168
Period size: 21 Copynumber: 5.7 Consensus size: 21
735322 GCATTTACCA
735332 CTATTGCGGCCATAGCGGATG
1 CTATTGCGGCCATAGCGGATG
735353 CTATTGCGGCCATAGCGGATG
1 CTATTGCGGCCATAGCGGATG
*
735374 CTATTGCGGCCATAGCGGGTG
1 CTATTGCGGCCATAGCGGATG
* *
735395 CTATTGCAGCCATAGCGGGTG
1 CTATTGCGGCCATAGCGGATG
* * *
735416 CTATTGCGGCTATAACAGG-CG
1 CTATTGCGGCCATAGC-GGATG
735437 CTATTGCGGCCATA
1 CTATTGCGGCCATA
735451 ACAGGCGTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
21 88 0.98
22 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.24
Consensus pattern (21 bp):
CTATTGCGGCCATAGCGGATG
Found at i:735462 original size:21 final size:21
Alignment explanation
Indices: 735332--735471 Score: 122
Period size: 21 Copynumber: 6.7 Consensus size: 21
735322 GCATTTACCA
* *
735332 CTATTGCGGCCATAGC-GGATG
1 CTATTGCGGCCATAACAGG-CG
* *
735353 CTATTGCGGCCATAGC-GGATG
1 CTATTGCGGCCATAACAGG-CG
* * *
735374 CTATTGCGGCCATAGCGGGTG
1 CTATTGCGGCCATAACAGGCG
* * * *
735395 CTATTGCAGCCATAGCGGGTG
1 CTATTGCGGCCATAACAGGCG
*
735416 CTATTGCGGCTATAACAGGCG
1 CTATTGCGGCCATAACAGGCG
735437 CTATTGCGGCCATAACAGGCG
1 CTATTGCGGCCATAACAGGCG
* *
735458 TTATTGCGGGCATA
1 CTATTGCGGCCATA
735472 GAGGGTATAT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
21 107 0.98
22 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (21 bp):
CTATTGCGGCCATAACAGGCG
Found at i:735472 original size:63 final size:63
Alignment explanation
Indices: 735332--735477 Score: 177
Period size: 63 Copynumber: 2.3 Consensus size: 63
735322 GCATTTACCA
* * * * * *
735332 CTATTGCGGCCATAGCGGATGCTATTGCGGCCATAGCGGATGCTATTGCGGCCATAGCGGGTG
1 CTATTGCGGCCATAGCGGGTGCTATTGCGGCCATAACGGACGCTATTGCGGCCATAACAGGCG
* *
735395 CTATTGCAGCCATAGCGGGTGCTATTGCGGCTATAACAGG-CGCTATTGCGGCCATAACAGGCG
1 CTATTGCGGCCATAGCGGGTGCTATTGCGGCCATAAC-GGACGCTATTGCGGCCATAACAGGCG
* * *
735458 TTATTGCGGGCATAGAGGGT
1 CTATTGCGGCCATAGCGGGT
735478 ATATCGGAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
63 68 0.97
64 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.24
Consensus pattern (63 bp):
CTATTGCGGCCATAGCGGGTGCTATTGCGGCCATAACGGACGCTATTGCGGCCATAACAGGCG
Found at i:739209 original size:22 final size:23
Alignment explanation
Indices: 739162--739223 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
739152 CGATTCCCCT
739162 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
*
739185 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCATTCAA
* *
739207 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
739224 TCTGCCCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCATTCAA
Found at i:746417 original size:17 final size:17
Alignment explanation
Indices: 746387--746423 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
746377 ATTCAAACTC
*
746387 TAAAAAATATTATCTTT
1 TAAAAAATAATATCTTT
*
746404 TAAAAGATAATATCTTT
1 TAAAAAATAATATCTTT
746421 TAA
1 TAA
746424 TTTGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAAAAATAATATCTTT
Found at i:746565 original size:36 final size:35
Alignment explanation
Indices: 746518--746628 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 35
746508 AAATATTCAA
*
746518 ATTTAAAAAGATAATAAATATCTTTTACTTTAAGAT
1 ATTTAAAAAGATAATAAATATCTTTTAATTT-AGAT
* *
746554 ATTTAAAAAGAT-ATAATTATCATATTAATATTCA-A-
1 ATTTAAAAAGATAATAAATATC-TTTTAAT-TT-AGAT
* *
746589 ATGTAAAGAGATAATAAATATCTTTTAATTTAGAAT
1 ATTTAAAAAGATAATAAATATCTTTTAATTTAG-AT
746625 ATTT
1 ATTT
746629 CATCAATGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
33 1 0.02
34 2 0.03
35 25 0.42
36 29 0.48
37 3 0.05
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (35 bp):
ATTTAAAAAGATAATAAATATCTTTTAATTTAGAT
Found at i:746617 original size:35 final size:35
Alignment explanation
Indices: 746465--746617 Score: 130
Period size: 35 Copynumber: 4.2 Consensus size: 35
746455 TTGAATAACA
* * * *
746465 TTTTAATATTTAAATTTATAAAGATAATAAAAAATT
1 TTTTAATATTCAAATTTAAAAAGATAAT-AAATATC
746501 TAGTTTAAAATATTCAAATTTAAAAAGATAATAAATATC
1 T--TTT--AATATTCAAATTTAAAAAGATAATAAATATC
* * *
746540 TTTTACT-TTAAGATATTTAAAAAGAT-ATAATTATC
1 TTTTAATATTCA-A-ATTTAAAAAGATAATAAATATC
* * *
746575 ATATTAATATTCAAATGTAAAGAGATAATAAATATC
1 -TTTTAATATTCAAATTTAAAAAGATAATAAATATC
746611 TTTTAAT
1 TTTTAAT
746618 TTAGAATATT
Statistics
Matches: 94, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
34 3 0.03
35 27 0.29
36 27 0.29
37 6 0.06
38 3 0.03
39 6 0.06
40 22 0.23
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (35 bp):
TTTTAATATTCAAATTTAAAAAGATAATAAATATC
Found at i:747700 original size:18 final size:17
Alignment explanation
Indices: 747646--747694 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
747636 TTGGACCCTT
* *
747646 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
747664 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
747682 AGTGCATTCGATG
1 AGTGCA-TCGATG
747695 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:756016 original size:45 final size:45
Alignment explanation
Indices: 755952--756076 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 45
755942 CGGTGCACTA
* * *
755952 AGAGTGCAACAATGCATCAAGTGCATTCGATGTTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCC
* *
755997 AGAGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCC
** *
756043 TCAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTT
756077 CAATTTAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 30 0.43
46 36 0.52
47 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCC
Found at i:756806 original size:44 final size:44
Alignment explanation
Indices: 756743--756830 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
756733 AAGCATATGT
756743 ATAGATTTATTATTTTAACCTTATTTTGAACAAATATTGACTTA
1 ATAGATTTATTATTTTAACCTTATTTTGAACAAATATTGACTTA
*
756787 ATAGATTTATTGTTTTAACCTTATTTTGAACAAATATTGACTTA
1 ATAGATTTATTATTTTAACCTTATTTTGAACAAATATTGACTTA
756831 CATTCATTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (44 bp):
ATAGATTTATTATTTTAACCTTATTTTGAACAAATATTGACTTA
Found at i:757865 original size:34 final size:34
Alignment explanation
Indices: 757822--757946 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
757812 TTCGTCCTAC
757822 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
757856 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
757891 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
757920 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
757947 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:758342 original size:18 final size:17
Alignment explanation
Indices: 758303--758345 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
758293 ATTATATGGA
758303 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
758319 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
758337 TATTATTAT
1 TATTATTAT
758346 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:762596 original size:22 final size:22
Alignment explanation
Indices: 762573--762634 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
762563 CAAAAAGGGC
762573 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
762596 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
762617 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
762635 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:762625 original size:20 final size:20
Alignment explanation
Indices: 762573--762642 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
762563 CAAAAAGGGC
*
762573 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
762596 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
762617 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
762637 AAAAAG
1 AAAAAG
762643 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:764240 original size:36 final size:36
Alignment explanation
Indices: 764197--764478 Score: 285
Period size: 36 Copynumber: 8.0 Consensus size: 36
764187 ACTAGAAGAG
764197 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
764233 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
764269 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
764305 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
764341 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
*** * * ** * *
764370 TACCGTCTCCCTTGAGACCGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
764407 TTTTGTCTCTCTTGAGACAGATTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
764442 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
764479 ATCTTTGAAT
Statistics
Matches: 200, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 141 0.70
37 30 0.15
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:764240 original size:71 final size:73
Alignment explanation
Indices: 764155--764340 Score: 229
Period size: 72 Copynumber: 2.6 Consensus size: 73
764145 GTTTTTCTTA
* * * * * *
764155 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
764217 TTTCCCTTG
65 TTTCCCTTG
* *
764226 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
764290 TTCCCTTG
66 TTCCCTTG
* * *
764298 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
764341 ATATTTGAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
70 8 0.08
71 25 0.25
72 69 0.68
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:764470 original size:138 final size:137
Alignment explanation
Indices: 764223--764541 Score: 379
Period size: 138 Copynumber: 2.3 Consensus size: 137
764213 ACAGTTTCCC
*** *
764223 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
* *
764288 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
66 GATTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
764353 GTTTTCT
131 GTTTTCT
* * * * * *
764360 TTGAAACAAATACCGTCTCCCTTGAGACCGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
* * *
764425 AGATTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
65 AGATTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAAT
* * * *
764489 TTATTTCCC
129 ATGTTTTCT
* * **** *
764498 CTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
764542 CAAAATCTTC
Statistics
Matches: 151, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
137 43 0.28
138 108 0.72
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
GATTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
GTTTTCT
Found at i:764570 original size:67 final size:68
Alignment explanation
Indices: 764453--764609 Score: 212
Period size: 68 Copynumber: 2.4 Consensus size: 68
764443 TTTCGTCTAT
* **
764453 CTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCCTAAAACA-AATTTTATC
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
764515 TCC
66 TCC
* * * *
764518 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
764583 TCC
66 TCC
* *
764586 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
764610 ACAGATATCT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 17 0.22
66 2 0.03
67 29 0.37
68 31 0.39
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTATC
TCC
Found at i:765946 original size:34 final size:34
Alignment explanation
Indices: 765903--766027 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
765893 TTCGTCCTAC
765903 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
765937 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
765972 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
766001 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
766028 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:766422 original size:18 final size:17
Alignment explanation
Indices: 766383--766425 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
766373 ATTATATGGA
766383 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
766399 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
766417 TATTATTAT
1 TATTATTAT
766426 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:768886 original size:31 final size:31
Alignment explanation
Indices: 768819--768886 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
768809 AATGACCATG
** * *
768819 TATTAATTAAAATAAAATGAAAGTGACCACA
1 TATTAATTAAAATAAAACAAAAATAACCACA
* *
768850 CATTAATTAAAATAAAACAAAAATAATCACA
1 TATTAATTAAAATAAAACAAAAATAACCACA
768881 TATTAA
1 TATTAA
768887 CTTTTTTATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.26
Consensus pattern (31 bp):
TATTAATTAAAATAAAACAAAAATAACCACA
Found at i:769373 original size:2 final size:2
Alignment explanation
Indices: 769366--769412 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
769356 ATAATGAAGA
* *
769366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT TT A- AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
769408 AT AT A
1 AT AT A
769413 ATTTGCAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:772328 original size:2 final size:2
Alignment explanation
Indices: 772321--772404 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
772311 TATAAAGCTC
772321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
772363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
772405 CAAAACCAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:777225 original size:18 final size:19
Alignment explanation
Indices: 777189--777227 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
777179 CAACTTATGA
*
777189 AACATAAAATATCATAATC
1 AACATAAAATATCAAAATC
*
777208 AACATCAAA-ATCAAAATC
1 AACATAAAATATCAAAATC
777226 AA
1 AA
777228 GTCGTTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AACATAAAATATCAAAATC
Found at i:779352 original size:2 final size:2
Alignment explanation
Indices: 779347--779722 Score: 217
Period size: 2 Copynumber: 195.5 Consensus size: 2
779337 TATTATGTAG
*
779347 TA TA TA T- TA T- TT TA TA TA GTA TA TA T- TA TA TA GTA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* *
779387 TA TA TA GTA TGG TA TA T- TA TA TA TA -A TA TA TA TT TA TA T- TA
1 TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
779428 TA AA GTA TA TA TA TA TA TA TA TA TA TA TG T- TA TA TA GTA -A GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
* *
779471 T- TA TA TA TA TG TGA TA -A TA CTA TA T- TA TA TA GTA TA CA TA
1 TA TA TA TA TA TA T-A TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* *
779511 T- TA TA TA GTA TG TA T- TA CA TA TA TA TCA TA T- TA -A TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
779550 TA TA TA T- TA TA CTA TA TA T- TA TA T- TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
779588 TA CTA TA TA TA T- TA TA T- TT TA TA TA TA T- TA TA -A TA GTA T-
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
779627 TA TA TCA TA TA GTT TA TA TA TA TA T- TA TA TA GTA TG TA T- TA
1 TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
779668 CA TA T- TA AA TA T- TA TA TA TA TA TA TA TA TA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
779706 TA TA CTA TA TA T- TA TA T
1 TA TA -TA TA TA TA TA TA T
779723 TTTATTAATA
Statistics
Matches: 296, Mismatches: 25, Indels: 106
0.69 0.06 0.25
Matches are distributed among these distances:
1 34 0.11
2 229 0.77
3 33 0.11
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:779361 original size:19 final size:19
Alignment explanation
Indices: 779334--779723 Score: 203
Period size: 19 Copynumber: 21.4 Consensus size: 19
779324 CGGATTTTTT
*
779334 TTATATTATGTAGTATATA
1 TTATATTATATAGTATATA
*
779353 TTATTTTATATAGTATATA
1 TTATATTATATAGTATATA
*
779372 TTATATAGTATATATTATATA
1 TTATAT--TATATAGTATATA
* **
779393 GTATGGTATATTA-TATATAA
1 TTATATTATA-TAGTATAT-A
* *
779413 TATATATT-TATATTATAAA
1 T-TATATTATATAGTATATA
*
779432 GTATATATATATA-TATATA
1 TTATAT-TATATAGTATATA
*
779451 TATATGTTATATAGTA-AGTA
1 T-TATATTATATAGTATA-TA
779471 TTATA-TATAT-GTGATAATA
1 TTATATTATATAGT-AT-ATA
*
779490 CTATATTATATAG--TATA
1 TTATATTATATAGTATATA
* *
779507 -CATATTATATAGTATGTA
1 TTATATTATATAGTATATA
* *
779525 TTACA-TATATA-T-CATA
1 TTATATTATATAGTATATA
779541 TTA-A-TATAT--TATATA
1 TTATATTATATAGTATATA
*
779556 TTATACTATATA-T-TATA
1 TTATATTATATAGTATATA
779573 TTATATTATATTA-TATACTA
1 TTATATTATA-TAGTATA-TA
*
779593 TATATATTATAT--TTTATA
1 T-TATATTATATAGTATATA
*
779611 -TATATTATA-A-TA-GTA
1 TTATATTATATAGTATATA
* *
779626 TTATATCATATAGTTTATA
1 TTATATTATATAGTATATA
*
779645 TATATATTATATAGTATGTA
1 T-TATATTATATAGTATATA
*
779665 TTACA-TAT-TA--A-ATA
1 TTATATTATATAGTATATA
779679 TTATATATATATA-TATATA
1 TTATAT-TATATAGTATATA
* * *
779698 TAATATAATATACTATATA
1 TTATATTATATAGTATATA
779717 TTATATT
1 TTATATT
779724 TTATTAATAT
Statistics
Matches: 291, Mismatches: 41, Indels: 78
0.71 0.10 0.19
Matches are distributed among these distances:
14 7 0.02
15 15 0.05
16 38 0.13
17 29 0.10
18 37 0.13
19 88 0.30
20 48 0.16
21 29 0.10
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (19 bp):
TTATATTATATAGTATATA
Found at i:779375 original size:33 final size:33
Alignment explanation
Indices: 779335--779722 Score: 199
Period size: 33 Copynumber: 11.3 Consensus size: 33
779325 GGATTTTTTT
*
779335 TATATTATGTAGTATATATTATTTTATATAGTA
1 TATATTATATAGTATATATTATTTTATATAGTA
* *
779368 TATATTATATAGTATATATTA-TATAGTATGGTA
1 TATATTATATAGTATATATTATTTTA-TATAGTA
* * *
779401 TAT-TATATATAATATATATTTATATTATAAAGTA
1 TATAT-TATATAGTATATA-TTATTTTATATAGTA
*
779435 TATA-TATATA-TATATATATATGTTATATAGTA
1 TATATTATATAGTATATAT-TATTTTATATAGTA
* *
779467 -AGTATTATATATATGTGATAATACTATATTATATAGTA
1 TA-TA-T-TATATA-GT-AT-ATATTATTTTATATAGTA
* * *
779505 TACATATTATATAGTATGTATTACATATATATCATATTAA
1 T--ATATTATATAGTATATATT--AT-TTTAT-ATAGT-A
* *
779545 TATATTATATATTATACTA-TATATTATATTA-TA
1 TATATTATATAGTATA-TATTATTTTATA-TAGTA
* * *
779578 TTATATTATATACTATATA-TATTATATTTTA-TA
1 -TATATTATATAGTATATATTATTTTA-TATAGTA
*
779611 TATATTATAATAGTATTATATCATATAGTT-TATA-TA
1 TATATTAT-ATAGTA-TATAT--TAT-TTTATATAGTA
* * * *
779647 TATATTATATAGTATGTATTACATATTAAATATTA
1 TATATTATATAGTATATATT--ATTTTATATAGTA
* * * *
779682 TATA-TATATA-TATATATAATATAATATACTA
1 TATATTATATAGTATATATTATTTTATATAGTA
779713 TATATTATAT
1 TATATTATAT
779723 TTTATTAATA
Statistics
Matches: 281, Mismatches: 37, Indels: 75
0.72 0.09 0.19
Matches are distributed among these distances:
31 16 0.06
32 38 0.14
33 72 0.26
34 48 0.17
35 28 0.10
36 17 0.06
37 8 0.03
38 39 0.14
39 10 0.04
40 4 0.01
41 1 0.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (33 bp):
TATATTATATAGTATATATTATTTTATATAGTA
Found at i:779426 original size:6 final size:6
Alignment explanation
Indices: 779347--779722 Score: 217
Period size: 5 Copynumber: 65.2 Consensus size: 6
779337 TATTATGTAG
*
779347 TATATA T-TAT- TTTATA TAGTATA TAT-TA TATAGTA TATAT- TATATA
1 TATATA TATATA TATATA TA-TATA TATATA TATA-TA TATATA TATATA
* * *
779393 GTATGGTA TAT-TA TATATA -ATATA TATTTA TAT-TA TAAAGTA TATATA
1 -TAT-ATA TATATA TATATA TATATA TATATA TATATA TATA-TA TATATA
* *
779441 TATATA TATATA TATGT- TATATA GTA-AGTA T-TATA TATATG TGATA-A
1 TATATA TATATA TATATA TATATA -TATA-TA TATATA TATATA T-ATATA
* * *
779488 TACTATA T-TATA TAGTATA CATAT- TATATA GTATGTA T-TACA TATATA
1 TA-TATA TATATA TA-TATA TATATA TATATA -TATATA TATATA TATATA
779536 TCATAT- TA-ATA TAT-TA TATAT- TATACTA TATAT- TATAT- TATAT-
1 T-ATATA TATATA TATATA TATATA TATA-TA TATATA TATATA TATATA
*
779579 TATAT- TATATA CTATATA TAT-TA TAT-TT TATATA TAT-TA TA-ATA
1 TATATA TATATA -TATATA TATATA TATATA TATATA TATATA TATATA
* * *
779623 GTAT-TA TATCATA TAGTTTA TATATA TAT-TA TATAGTA TGTAT- TACATA
1 -TATATA TAT-ATA TA-TATA TATATA TATATA TATA-TA TATATA TATATA
*
779672 T-TAAA TAT-TA TATATA TATATA TATATA -ATATA -ATATA CTATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA -TATATA
779717 T-TATA T
1 TATATA T
779723 TTTATTAATA
Statistics
Matches: 298, Mismatches: 25, Indels: 95
0.71 0.06 0.23
Matches are distributed among these distances:
4 3 0.01
5 130 0.44
6 88 0.30
7 74 0.25
8 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:779727 original size:7 final size:7
Alignment explanation
Indices: 779335--779741 Score: 235
Period size: 7 Copynumber: 55.9 Consensus size: 7
779325 GGATTTTTTT
779335 TATATTA
1 TATATTA
* *
779342 TGTAGTA
1 TATATTA
779349 TATATTA
1 TATATTA
779356 T-T-TTA
1 TATATTA
*
779361 TATAGTA
1 TATATTA
779368 TATATTA
1 TATATTA
*
779375 TATAGTA
1 TATATTA
779382 TATATTA
1 TATATTA
*
779389 TATAGTATGG
1 TATA-T-T-A
779399 TATATTA
1 TATATTA
779406 TATATAATA
1 TATAT--TA
779415 TATATT-
1 TATATTA
779421 TATATTA
1 TATATTA
* *
779428 TAAAGTA
1 TATATTA
779435 TATA-TA
1 TATATTA
779441 TATA-TA
1 TATATTA
779447 TATA-TA
1 TATATTA
*
779453 TATGTTA
1 TATATTA
*
779460 TATAGTA
1 TATATTA
779467 -AGTATTA
1 TA-TATTA
*
779474 TATATATG
1 TATAT-TA
*
779482 TGATAATA
1 T-ATATTA
779490 CTATATTA
1 -TATATTA
779498 TATAGTATA
1 TATA-T-TA
*
779507 CATATTA
1 TATATTA
*
779514 TATAGTA
1 TATATTA
*
779521 TGTATTA
1 TATATTA
*
779528 CATATATA
1 TATAT-TA
779536 TCATATTAA
1 T-ATATT-A
779545 TATATTA
1 TATATTA
779552 TATA-T-
1 TATATTA
*
779557 TATACTA
1 TATATTA
779564 TATATTA
1 TATATTA
779571 TAT-TATA
1 TATAT-TA
779578 TTATATTA
1 -TATATTA
779586 TATACTATA
1 TATA-T-TA
779595 TATATTA
1 TATATTA
*
779602 TATTTTA
1 TATATTA
779609 TATA-TA
1 TATATTA
*
779615 T-TATAA
1 TATATTA
779621 TAGTATTA
1 TA-TATTA
779629 TATCATATA
1 TAT-AT-TA
*
779638 GTTTATATA
1 -TATAT-TA
779647 TATATTA
1 TATATTA
*
779654 TATAGTA
1 TATATTA
*
779661 TGTATTA
1 TATATTA
*
779668 CATATTA
1 TATATTA
*
779675 AATATTA
1 TATATTA
779682 TATATATA
1 TATAT-TA
779690 TATATATA
1 TATAT-TA
*
779698 TAATATAA
1 T-ATATTA
*
779706 TATACTA
1 TATATTA
779713 TATATTA
1 TATATTA
*
779720 TATTTTA
1 TATATTA
779727 TTAATATTA
1 -T-ATATTA
*
779736 TTTATT
1 TATATT
779742 TGTTTTTAAT
Statistics
Matches: 314, Mismatches: 50, Indels: 72
0.72 0.11 0.17
Matches are distributed among these distances:
5 10 0.03
6 34 0.11
7 162 0.52
8 55 0.18
9 47 0.15
10 6 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:779761 original size:22 final size:23
Alignment explanation
Indices: 779722--779764 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
779712 ATATATTATA
*
779722 TTTTATTAATATTATTTATTTGT
1 TTTTAATAATATTATTTATTTGT
*
779745 TTTTAATAATGTT-TTTATTT
1 TTTTAATAATATTATTTATTT
779765 TTTAGGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTAATAATATTATTTATTTGT
Found at i:780682 original size:31 final size:31
Alignment explanation
Indices: 780644--780768 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
780634 CCCGAAGGAC
* * *
780644 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
780675 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
780706 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
780737 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
780768 C
1 C
780769 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:784791 original size:31 final size:31
Alignment explanation
Indices: 784753--784877 Score: 166
Period size: 31 Copynumber: 4.0 Consensus size: 31
784743 CCCGAAGGAC
* *
784753 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
*
784784 CAGTCCATATGTCCCGAA-AGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGA-ACATAGGTAAA
*
784815 CAGTCCATATGTACCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
784846 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
784877 C
1 C
784878 CCTCGACCCT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
30 3 0.04
31 80 0.94
32 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:785708 original size:21 final size:21
Alignment explanation
Indices: 785684--785728 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
785674 TGTTGTTCGT
* *
785684 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
785705 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
785726 TTG
1 TTG
785729 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:799524 original size:19 final size:19
Alignment explanation
Indices: 799497--799754 Score: 148
Period size: 18 Copynumber: 13.4 Consensus size: 19
799487 GAATTTCTTT
*
799497 TTATATTATGTAGTATATA
1 TTATATTATATAGTATATA
*
799516 TTATTTTATATAGTATATA
1 TTATATTATATAGTATATA
*
799535 TTATATAGTATATTTGT-TATA
1 TTATAT--TATA-TAGTATATA
* *
799556 GTCT-TTATATAGTCTATAGTA
1 TTATATTATATAG--TATA-TA
*
799577 TTATATATTATATAGTATGTA
1 -T-TATATTATATAGTATATA
* *
799598 TTACA-TATATATTATATTA
1 TTATATTATATAGTATA-TA
*
799617 ATATATTATATAG--TATA
1 TTATATTATATAGTATATA
799634 -TATATTATATATGTA-ATA
1 TTATATTATATA-GTATATA
* *
799652 -CATACTATATAGTAAATATA
1 TTATATTATATAGT--ATATA
799672 TTATATTATATA-TATATA
1 TTATATTATATAGTATATA
*
799690 -TATATATATTATAGTATGTA
1 TTATAT-TA-TATAGTATATA
*
799710 TTACA-TAT-TA-TATATA
1 TTATATTATATAGTATATA
799726 TATATATTATAATA-TATTATA
1 T-TATATTAT-ATAGTA-TATA
799747 TTATATTA
1 TTATATTA
799755 ATATTATTTA
Statistics
Matches: 187, Mismatches: 24, Indels: 55
0.70 0.09 0.21
Matches are distributed among these distances:
16 17 0.09
17 17 0.09
18 38 0.20
19 38 0.20
20 30 0.16
21 31 0.17
22 6 0.03
23 2 0.01
24 8 0.04
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (19 bp):
TTATATTATATAGTATATA
Found at i:799527 original size:2 final size:2
Alignment explanation
Indices: 799510--799752 Score: 125
Period size: 2 Copynumber: 127.5 Consensus size: 2
799500 TATTATGTAG
* * *
799510 TA TA TA T- TA T- TT TA TA TA GTA TA TA T- TA TA TA GTA TA TT TG
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * *
799551 T- TA TA GTC TT TA TA TA GTC TA TA GTA T- TA TA TA T- TA TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* *
799591 GTA TG TA T- TA CA TA TA TA T- TA TA T- TA -A TA TA T- TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
799629 GTA TA TA TA T- TA TA TA TG TA -A TA CA TA CTA TA TA GTA AA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
*
799670 TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA T- TA TA GTA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
799710 T- TA CA TA T- TA TA TA TA TA TA TA T- TA TA -A TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
799747 T- TA TA T
1 TA TA TA T
799753 TAATATTATT
Statistics
Matches: 187, Mismatches: 22, Indels: 64
0.68 0.08 0.23
Matches are distributed among these distances:
1 22 0.12
2 147 0.79
3 18 0.10
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:799534 original size:7 final size:6
Alignment explanation
Indices: 799510--799752 Score: 125
Period size: 5 Copynumber: 42.5 Consensus size: 6
799500 TATTATGTAG
* * *
799510 TATATA T-TAT- TTTATA TAGTATA TAT-TA TATAGTA TATTTG T-TATA
1 TATATA TATATA TATATA TA-TATA TATATA TATA-TA TATATA TATATA
* * * * *
799556 GTCTTTA TATAGTC TATAGTA T-TATA TAT-TA TATAGTA TGTAT- TACATA
1 -TATATA TATA-TA TATA-TA TATATA TATATA TATA-TA TATATA TATATA
*
799605 TATAT- TATAT- TA-ATA TAT-TA TATAGTA TATATA T-TATA TATGTA
1 TATATA TATATA TATATA TATATA TATA-TA TATATA TATATA TATATA
* *
799649 -ATACA TACTATA TAGTAAA TATAT- TATAT- TATATA TATATA TATATA
1 TATATA TA-TATA TA-TATA TATATA TATATA TATATA TATATA TATATA
* *
799696 TAT-TA TAGTATG TAT-TA CATAT- TATATA TATATA TAT-TA TA-ATA
1 TATATA TA-TATA TATATA TATATA TATATA TATATA TATATA TATATA
799740 TAT-TA TAT-TA TAT
1 TATATA TATATA TAT
799753 TAATATTATT
Statistics
Matches: 186, Mismatches: 25, Indels: 53
0.70 0.09 0.20
Matches are distributed among these distances:
4 3 0.02
5 85 0.46
6 52 0.28
7 46 0.25
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:801013 original size:7 final size:6
Alignment explanation
Indices: 800984--801020 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
800974 TGGATCAAAT
800984 ATTTTA ATTTTA ATTTTA ATTTTCA ATTTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTT-A A-TTTTA ATTTT
801021 CGCATTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.72
7 4 0.14
8 4 0.14
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTA
Done.