Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002838.1 Hibiscus syriacus cultivar Beakdansim tig00005842_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: 146411
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:1065 original size:182 final size:182
Alignment explanation
Indices: 1--1190 Score: 1349
Period size: 182 Copynumber: 6.6 Consensus size: 182
* *
1 TTCGAGATGAGGAAATCGGGTCAATCTAGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGA-
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
* * *
65 TGTCT--GGGTGACACTACTTCTTCATGATGA-GAGATCTGGTCGGTTTGATGTT-AAGACGACA
66 TGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGACA
* * ** **
126 CTGCTAATCCGCGATGAAGAGATCGGGTTG-TTTCGATTATGACTTTGTGTTT
131 CTGCTCATCCGCGATGAAGAGATCGGGTCGTTTTCGATTATGACACTGT-TCC
* *
178 TTCGTGATGAGGAAAATCATGTAATCAAGAGAT-AATTTAGGAGACAATACGATTCCTTCGTGAT
1 TTCGTGATGAGG-AAATC--G-------G-G-TCAATCT-GGGGACAATACGATTCCTTCGTGAT
*
242 --GGAAGTCTGATTGTCTGAGGGTGACACTGCTCCTTCGTAATGAGGA-ATCTGGTCGGTTTGAT
53 GAGGAAGTCTGATTGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGAT
* * *
304 GTT-AAGATG--ACTGCTCAT-CGCGATGAAAGAGATCGAGTCGTTTTCGATTATGTCACTGTTC
118 GTTGAAGACGACACTGCTCATCCGCGATG-AAGAGATCGGGTCGTTTTCGATTATGACACTGTTC
365 C
182 C
* * * *
366 TTCGTGATGAGAAAATCAGGTCAATCTGGGGAAATAATACGATTCTTTCGTGA-GA--AAGTCTG
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGG--ACAATACGATTCCTTCGTGATGAGGAAGTCTG
*
428 ATTGTCTGAGGGTG--ACTACTCCTTCGTGATGAGGAGATCTGGTC-GTTTGATGTTGAAGACGA
64 ATTGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGA
* * ** * *
490 CATTG--CATCCGCGATGAAGATATC-GG-CGTTTTTAATAATGAC-GTGTTCC
129 CACTGCTCATCCGCGATGAAGAGATCGGGTCGTTTTCGATTATGACACTGTTCC
*
539 TTCGTGATGAGGAAATCGGGTCAATAT--GGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
* * *
602 TGTCTGAGGGTGTCACTGGTCCTTCGTGATGAGGAGATCTGGTC-ATTTGATGTTG-AGACGAC-
66 TGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGACA
* * * **
664 CTGCTCATCTGCGATGAAGAGACCGGGGTCGTTTTCGATAATGACGTTGTT-C
131 CTGCTCATCCGCGATGAAGAGATC-GGGTCGTTTTCGATTATGACACTGTTCC
* * *
716 TTCATGATGAGGAAATCGAGTCAATCTGGGGACAATACGGTTCCTTCGTGATGAGGAAGTCTGAT
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
* * **
781 TGTCTGAGAGTG-CACTGCTCCTTC---ATGA-GAGATCTGGTTGGTTTGATGTTGAAGATAACA
66 TGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGACA
* * *
841 CTGCTTATCCGCGATGAAAAGATCGGGTCATTTTCGATTATGACACTGTTCC
131 CTGCTCATCCGCGATGAAGAGATCGGGTCGTTTTCGATTATGACACTGTTCC
* * * ** *
893 TTCGTGATGTGGAAATCGGGTAAATATGGGGACAATAC-AGTTTTTTCGTGATGAGGAAGTATGA
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGA-TTCCTTCGTGATGAGGAAGTCTGA
* *
957 TTGTCTGAGGGTGATATTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGAC
65 TTGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGAC
* ** ** *
1022 ACTGCTCATCCGCGATGAAGAGATCAGGTTATTTTTTATTATGACACAT-TTCA
130 ACTGCTCATCCGCGATGAAGAGATCGGGTCGTTTTCGATTATGACAC-TGTTCC
*
1075 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGGTTCCTTCGTGATGAGGAAGTCTGAT
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
* * *
1140 TGTCTAAGGGTGACACTGCTCCTCCGTGATGAGGAGATCTGGTCGATTTGA
66 TGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGA
1191 AATGCTGATA
Statistics
Matches: 858, Mismatches: 101, Indels: 103
0.81 0.10 0.10
Matches are distributed among these distances:
169 18 0.02
170 2 0.00
171 2 0.00
172 23 0.03
173 37 0.04
174 76 0.09
175 44 0.05
176 56 0.07
177 170 0.20
178 52 0.06
179 46 0.05
180 1 0.00
181 4 0.00
182 175 0.20
183 1 0.00
187 23 0.03
188 42 0.05
189 39 0.05
190 45 0.05
191 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (182 bp):
TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
TGTCTGAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGACA
CTGCTCATCCGCGATGAAGAGATCGGGTCGTTTTCGATTATGACACTGTTCC
Found at i:1137 original size:538 final size:531
Alignment explanation
Indices: 1--1190 Score: 1488
Period size: 538 Copynumber: 2.2 Consensus size: 531
*
1 TTCGAGATGAGGAAATCGGGTCAATCTAGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGA-
1 TTCGTGATGAGGAAATCGGGTCAATCT-GGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
* * * *
65 TGTCT-GGGTGACACTACTTCTTCATGATGA-GAGATCTGGTCGGTTTGATGTTAAGACGACACT
65 TGTCTAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGATTTGATGTTAAGACGACACT
* * * * * *
128 GCTAATCCGCGATGAAGAGATCGGGTTGTTTCGATTATGACTTTGTGTTTTTCGTGATGAGGAAA
130 GCTAATCCGCGATGAAGAGACCGGGTCGTTTCGATAATGACTGTGTGTTCTTCATGATGAGGAAA
*
193 ATCATGTAATCAAGAGATAATTTAGGAGACAATACGATTCCTTCGTGATGGAAGTCTGATTGTCT
195 ATCA-GTAATC-----A-AATCTAGGAGACAATACGATTCCTTCGTGATGGAAGTCTGATTGTCT
* *
258 GAGGGTGACACTGCTCCTTCGTAATGAGGAATCTGGTCGGTTTGATGTTAAGATGACTGCTCATC
253 GAGAGTGACACTGCTCCTTC--AATGAGGAATCTGGTCGGTTTGATGTTAAGATCACTGCTCATC
* * *
323 GCGATGAAAGAGATCGAGTCGTTTTCGATTATGTCACTGTTCCTTCGTGATGAGAAAATCAGGTC
316 GCGATGAAAGAGATCGAGTCATTTTCGATTATGACACTGTTCCTTCGTGATGAGAAAATCAGGTA
* * *
388 AATCTGGGGAAATAATACGATTCTTTCGTGAGAAAGTCTGATTGTCTGAGGGTGACTACTCCTTC
381 AATATGGGGAAATAACACGATTCTTTCGTGAGAAAGTATGATTGTCTGAGGGTGACTACTCCTTC
* * *
453 GTGATGAGGAGATCTGGTCGTTTGATGTTGAAGACGACATTGCATCCGCGATGAAGATATCGGCG
446 GTGATGAGGAGATCTGGTCGTTTGATGTTGAAGACGACACTGCATCCGCGATGAAGAGATCGGCA
* *
518 TTTTTAATAATGACGTGTTCC
511 TTTTTAATAATGACATGTTCA
*
539 TTCGTGATGAGGAAATCGGGTCAATAT-GGACAATACGATTCCTTCGTGATGAGGAAGTCTGATT
1 TTCGTGATGAGGAAATCGGGTCAATCTGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGATT
* * *
603 GTCTGAGGGTGTCACTGGTCCTTCGTGATGAGGAGATCTGGTC-ATTTGATGTTGAGACGAC-CT
66 GTCT-AGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGATTTGATGTTAAGACGACACT
* *
666 GCTCATCTGCGATGAAGAGACCGGGGTCGTTTTCGATAATGAC-GT-TGTTCTTCATGATGAGG-
130 GCTAATCCGCGATGAAGAGACC-GGGTCG-TTTCGATAATGACTGTGTGTTCTTCATGATGAGGA
* * *
728 AAATC-G-AGTC-AATCT-GGGGACAATACGGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAG
193 AAATCAGTAATCAAATCTAGGAGACAATACGATTCCTTCGTGAT--GGAAGTCTGATTGTCTGAG
* *
789 AGTG-CACTGCTCCTTC-ATGA-GAGATCTGGTTGGTTTGATGTTGAAGATAACACTGCTTATCC
256 AGTGACACTGCTCCTTCAATGAGGA-ATCTGGTCGGTTTGATGTT-AAGAT--CACTGCTCAT-C
* * * *
851 GCGATGAAA-AGATCGGGTCATTTTCGATTATGACACTGTTCCTTCGTGATGTGGAAATCGGGTA
316 GCGATGAAAGAGATCGAGTCATTTTCGATTATGACACTGTTCCTTCGTGATGAGAAAATCAGGTA
*
915 AATATGGGGACAAT-ACA-G-TTTTTTCGTGATGAGGAAGTATGATTGTCTGAGGGTGA-TATTG
381 AATATGGGGA-AATAACACGATTCTTTCGTGA-GA--AAGTATGATTGTCTGAGGGTGACTA---
976 CTCCTTCGTGATGAGGAGATCTGGTCGGTTTGATGTTGAAGACGACACTGCTCATCCGCGATGAA
439 CTCCTTCGTGATGAGGAGATCTGGTC-GTTTGATGTTGAAGACGACACTG--CATCCGCGATGAA
* * *
1041 GAGATCAGGTTATTTTTTATTATGACACAT-TTCA
501 GAGATC-GG-CATTTTTAATAATG--ACATGTTCA
*
1075 TTCGTGATGAGGAAATCGGGTCAATCTGGGGACAATACGGTTCCTTCGTGATGAGGAAGTCTGAT
1 TTCGTGATGAGGAAATCGGGTCAATCT-GGGACAATACGATTCCTTCGTGATGAGGAAGTCTGAT
*
1140 TGTCTAAGGGTGACACTGCTCCTCCGTGATGAGGAGATCTGGTCGATTTGA
65 TGTCT-AGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGATTTGA
1191 AATGCTGATA
Statistics
Matches: 572, Mismatches: 50, Indels: 59
0.84 0.07 0.09
Matches are distributed among these distances:
523 2 0.00
524 22 0.04
525 15 0.03
526 26 0.05
527 85 0.15
528 56 0.10
530 26 0.05
531 22 0.04
533 18 0.03
534 5 0.01
535 11 0.02
536 64 0.11
537 13 0.02
538 136 0.24
539 48 0.08
540 23 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (531 bp):
TTCGTGATGAGGAAATCGGGTCAATCTGGGACAATACGATTCCTTCGTGATGAGGAAGTCTGATT
GTCTAGGGTGACACTGCTCCTTCGTGATGAGGAGATCTGGTCGATTTGATGTTAAGACGACACTG
CTAATCCGCGATGAAGAGACCGGGTCGTTTCGATAATGACTGTGTGTTCTTCATGATGAGGAAAA
TCAGTAATCAAATCTAGGAGACAATACGATTCCTTCGTGATGGAAGTCTGATTGTCTGAGAGTGA
CACTGCTCCTTCAATGAGGAATCTGGTCGGTTTGATGTTAAGATCACTGCTCATCGCGATGAAAG
AGATCGAGTCATTTTCGATTATGACACTGTTCCTTCGTGATGAGAAAATCAGGTAAATATGGGGA
AATAACACGATTCTTTCGTGAGAAAGTATGATTGTCTGAGGGTGACTACTCCTTCGTGATGAGGA
GATCTGGTCGTTTGATGTTGAAGACGACACTGCATCCGCGATGAAGAGATCGGCATTTTTAATAA
TGACATGTTCA
Found at i:1769 original size:82 final size:82
Alignment explanation
Indices: 1572--1879 Score: 219
Period size: 82 Copynumber: 3.8 Consensus size: 82
1562 GTCATCGAGT
* *
1572 TGAATGGAATCGAACTCGAAGATGTTTGTTGACAGATAACCCTTATCGCCTTGAGTTATGCTGTA
1 TGAAT-GAATCGAACTCGAAG--GTTTGTTGACAAATAACCCTTATCGCCTTGAGCTATGCTGTA
1637 AATTTGACATGTCCTTGAAC
63 AATTTGACATGTCCTTGAAC
* * ** * * *
1657 TGAAT--ATTGAACTAGAAGGTTTGTGTGACAAATAGTCCTTTTTGCCTTGAGCTATGCTGTGAA
1 TGAATGAATCGAACTCGAAGGTTTGT-TGACAAATAACCCTTATCGCCTTGAGCTATGCTGTAAA
** *
1720 -TTG-GTTGTCCTTGAGC
65 TTTGACATGTCCTTGAAC
* * * *
1736 TGAATGAAATCGAACTCGAAGGTTTGATAGAC-AAT----CTTCTCGCCTTGAGTTATACTGTAA
1 TGAATG-AATCGAACTCGAAGGTTTG-TTGACAAATAACCCTTATCGCCTTGAGCTATGCTGTAA
* *
1796 ATTTGATATG-CCTTTGAGC
64 ATTTGACATGTCC-TTGAAC
* * * * * *
1815 TGAGTAT-AATCGAACTCGAAGGTCTTATTGAC--AGAACCCTTTTAGACTTGAGTTATGCTGTA
1 TGA--ATGAATCGAACTCGAAGGT-TTGTTGACAAATAACCCTTATCGCCTTGAGCTATGCTGTA
1877 AAT
63 AAT
1880 GGTGCCTTTG
Statistics
Matches: 179, Mismatches: 29, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
77 21 0.12
78 6 0.03
79 46 0.26
80 11 0.06
81 36 0.20
82 53 0.30
83 1 0.01
85 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (82 bp):
TGAATGAATCGAACTCGAAGGTTTGTTGACAAATAACCCTTATCGCCTTGAGCTATGCTGTAAAT
TTGACATGTCCTTGAAC
Found at i:1976 original size:79 final size:80
Alignment explanation
Indices: 1676--2077 Score: 313
Period size: 79 Copynumber: 5.0 Consensus size: 80
1666 AACTAGAAGG
* * * * * * *
1676 TTTGTGTGACAAATAGTCCTTTTTGCCTTGAGCTATGCTGTGAATTGGTTGTCC-TTGAGCTGAA
1 TTTGT-TGACAAATACT-CTTCTAGCCTTGAGTTATTCTGT-AAATGG-TG-CCTTTGAGCTGAG
*
1740 TGAAATCGAACTCGAAGG--
61 TGTAATCGAACTCGAAGGTC
* * * *
1758 TTTGATAGAC--A-A-TCTTCTCGCCTTGAGTTATACTGTAAATTTGATATGCCTTTGAGCTGAG
1 TTTG-TTGACAAATACTCTTCTAGCCTTGAGTTATTCTGTAAA--TG--GTGCCTTTGAGCTGAG
*
1819 TATAATCGAACTCGAAGGTC
61 TGTAATCGAACTCGAAGGTC
* * * * * * *
1839 -TTATTGACAGA-ACCCTTTTAGACTTGAGTTATGCTGTAAATGGTGCCTTTGAGATGAGTGTAA
1 TTTGTTGACAAATACTCTTCTAGCCTTGAGTTATTCTGTAAATGGTGCCTTTGAGCTGAGTGTAA
* *
1902 TCAAACTTGAAGGTC
66 TCGAACTCGAAGGTC
* * *
1917 TTTGTTGACAAATACTCTTCTAGCCTTAAGTTATTCTGT-ACTGGTGCCTTTAAGCTGAGTGTAA
1 TTTGTTGACAAATACTCTTCTAGCCTTGAGTTATTCTGTAAATGGTGCCTTTGAGCTGAGTGTAA
*
1981 TCGATCTCGAAGGTC
66 TCGAACTCGAAGGTC
* * * * * *
1996 TTTGTTGA-AAGATAATCATTCTTGCCTTGAGCTATTCTGCAAATGATATGCATTTGAGCTGAGT
1 TTTGTTGACAA-ATACTC-TTCTAGCCTTGAGTTATTCTGTAAATG--GTGCCTTTGAGCTGAGT
2060 GTAATCGAACTCGAAGGT
62 GTAATCGAACTCGAAGGT
2078 ATTTTGTTAG
Statistics
Matches: 257, Mismatches: 45, Indels: 35
0.76 0.13 0.10
Matches are distributed among these distances:
76 2 0.01
77 19 0.07
78 38 0.15
79 88 0.34
80 44 0.17
81 5 0.02
82 29 0.11
83 32 0.12
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (80 bp):
TTTGTTGACAAATACTCTTCTAGCCTTGAGTTATTCTGTAAATGGTGCCTTTGAGCTGAGTGTAA
TCGAACTCGAAGGTC
Found at i:2481 original size:32 final size:32
Alignment explanation
Indices: 2406--2486 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
2396 TTCGCATCAG
* * *
2406 GATGTTGAATCCCCAAGCATGCCCCAATATTC
1 GATGTTGAATCTCCAAACATGCCCCAACATTC
* * * *
2438 AATGTTGAATCTCCAAATATGCCCTAACATTT
1 GATGTTGAATCTCCAAACATGCCCCAACATTC
*
2470 GATGTTGAATCTTCAAA
1 GATGTTGAATCTCCAAA
2487 GATGTCCTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCCAAACATGCCCCAACATTC
Found at i:4664 original size:8 final size:8
Alignment explanation
Indices: 4633--4666 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
4623 TGAAATGCAT
4633 ATGC-AAA
1 ATGCAAAA
*
4640 ATGCAAAG
1 ATGCAAAA
4648 ATGCAAAA
1 ATGCAAAA
4656 ATGCAAAA
1 ATGCAAAA
4664 ATG
1 ATG
4667 TTGATCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (8 bp):
ATGCAAAA
Found at i:16440 original size:15 final size:15
Alignment explanation
Indices: 16420--16450 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16410 ATCAAAGATC
16420 GAATTAACGTCGCAT
1 GAATTAACGTCGCAT
16435 GAATTAACGTCGCAT
1 GAATTAACGTCGCAT
16450 G
1 G
16451 GGACATGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (15 bp):
GAATTAACGTCGCAT
Found at i:16506 original size:29 final size:29
Alignment explanation
Indices: 16473--16530 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
16463 CCCAAAACAC
* *
16473 AGGTCGCCATGCCCTCCGGGCGACCAAGG
1 AGGTCGCCAAGCACTCCGGGCGACCAAGG
16502 AGGTCGCCAAGCACTCCGGGCGACCAAGG
1 AGGTCGCCAAGCACTCCGGGCGACCAAGG
16531 TGGTAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.36, G:0.34, T:0.09
Consensus pattern (29 bp):
AGGTCGCCAAGCACTCCGGGCGACCAAGG
Found at i:16544 original size:29 final size:29
Alignment explanation
Indices: 16479--16544 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
16469 ACACAGGTCG
* **
16479 CCATGCCCTCCGGGCGACCAAGGAGGTCG
1 CCATGCACTCCGGGCGACCAAGGAGGTAA
* *
16508 CCAAGCACTCCGGGCGACCAAGGTGGTAA
1 CCATGCACTCCGGGCGACCAAGGAGGTAA
*
16537 CTATGCAC
1 CCATGCAC
16545 GCTAGGTTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.35, G:0.30, T:0.12
Consensus pattern (29 bp):
CCATGCACTCCGGGCGACCAAGGAGGTAA
Found at i:16623 original size:22 final size:22
Alignment explanation
Indices: 16588--16636 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
16578 TTTGGCCCTA
*
16588 CTCCCCGCTACATGCTCGCCTG
1 CTCCCCACTACATGCTCGCCTG
*
16610 CTCCCCACTGCATGCTCGCCTG
1 CTCCCCACTACATGCTCGCCTG
16632 CTCCC
1 CTCCC
16637 GCTGCTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.08, C:0.53, G:0.16, T:0.22
Consensus pattern (22 bp):
CTCCCCACTACATGCTCGCCTG
Found at i:17169 original size:30 final size:30
Alignment explanation
Indices: 17101--17204 Score: 133
Period size: 30 Copynumber: 3.4 Consensus size: 30
17091 TTTAGTTAAT
*
17101 TAGTTT-TTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
*
17132 TCA-TTTATTAGTTTAAGTTATATTAAAGAA
1 T-AGTTTATTAGTTGAAGTTATATTAAAGAA
17162 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
17192 TAGTTTATTAGTT
1 TAGTTTATTAGTT
17205 CTTTAAAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
29 1 0.02
30 51 0.77
31 8 0.12
32 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:17200 original size:15 final size:16
Alignment explanation
Indices: 17147--17201 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
17137 TATTAGTTTA
17147 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
17163 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
17177 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
17193 AGTT-TATTA
1 AGTTATATTA
17202 GTTCTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:17286 original size:15 final size:16
Alignment explanation
Indices: 17258--17291 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
17248 GTTTGTTACT
17258 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
17274 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
17289 TTA
1 TTA
17292 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:19818 original size:3 final size:3
Alignment explanation
Indices: 19803--19899 Score: 58
Period size: 3 Copynumber: 33.7 Consensus size: 3
19793 CTATTAAATC
* * * *
19803 ATT ATT ATC ATT ATT ATT ATT A-A ATT ATT ATT A-A ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
19849 A-A ATC ATT ATT ATA ATG ATT ATT ATT A-A ATC ATT ATT ATA ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19895 ATT AT
1 ATT AT
19900 CAAATCATTA
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
2 4 0.06
3 67 0.94
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (3 bp):
ATT
Found at i:19825 original size:26 final size:26
Alignment explanation
Indices: 19728--20323 Score: 413
Period size: 26 Copynumber: 23.8 Consensus size: 26
19718 TTTAGTAATA
* * *
19728 ATTATTA-AATCATTAATATTAAATT
1 ATTATTATAATGATTATTATTAAATC
* * * *
19753 ATTATTATAA-AATCATTACTAAATA
1 ATTATTATAATGATTATTATTAAATC
* *
19778 ATTATTA-AATAATTACTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
19803 ATTATTATCATTATTATTATTAAATT
1 ATTATTATAATGATTATTATTAAATC
*
19829 ATTATTA-AATCATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
19854 ATTATTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
19880 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
* * * *
19906 ATTACTA-AATCATCAAATCATT-AA--
1 ATTATTATAATGAT--TATTATTAAATC
*
19930 A-TATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
19952 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
19978 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
20004 ATTATTA-AATCATCAAATCATTAAAT-
1 ATTATTATAATGAT--TATTATTAAATC
* *
20030 A-T-TTA-AATCATTA-TA-T-AATG
1 ATTATTATAATGATTATTATTAAATC
* *
20050 ATTATTATCAA--ATCATTATTATAATG
1 ATTATTAT-AATGATTATTATTA-AATC
* *
20076 ATTATTATCAA--ATCATTATTATAATG
1 ATTATTAT-AATGATTATTATTA-AATC
* *
20102 ATTATTATCAA--ATCATTACTAAATC
1 ATTATTAT-AATGATTATTATTAAATC
*
20127 ATTAAATATTTAA--ATTATTATTAAATC
1 ATT--AT-TATAATGATTATTATTAAATC
*
20154 ATTA-TATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
20179 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
*
20205 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATTAAATC
* * * *
20231 ATTACTA-AATCATCAAATCATT-AA--
1 ATTATTATAATGAT--TATTATTAAATC
*
20255 A-TATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
20277 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
20303 ATTATTATAATAATT-TTATTA
1 ATTATTATAATGATTATTATTA
20324 TTATTAATAA
Statistics
Matches: 472, Mismatches: 58, Indels: 82
0.77 0.09 0.13
Matches are distributed among these distances:
19 13 0.03
20 6 0.01
21 6 0.01
22 9 0.02
23 24 0.05
24 22 0.05
25 109 0.23
26 246 0.52
27 35 0.07
28 2 0.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTATAATGATTATTATTAAATC
Found at i:19829 original size:98 final size:100
Alignment explanation
Indices: 19727--20330 Score: 465
Period size: 98 Copynumber: 6.1 Consensus size: 100
19717 TTTTAGTAAT
* * *
19727 AATTATTAAATCATTAATATTAAATTATTATTATAA-AATCATTACTAAATAATTATTA-AATAA
1 AATTATTAAATCATTAATATTAAATCATTATTATAATAATCATTACTAAATCATTATTATAATGA
* * *
19790 TTACTATTAAATCATTATTATCATTATTATTATTAA
66 TTATTATCAAATCATTATTATCATAATTATTATT-A
* * * *
19826 ATTATTATTAAATCATTATTATTAAATCATTATTATAATGATTATTATTAAATCATTATTATAAT
1 A--ATTATTAAATCATTAATATTAAATCATTATTATAATAATCATTACTAAATCATTATTATAAT
* *
19891 GATTATTATCAAATCATTACTAAATCATCAA--ATCATTA
64 GATTATTATCAAATCATTA-T-TATCAT-AATTATTATTA
* *
19929 AA-TATTTAAATCA-T--TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATG
1 AATTA-TTAAATCATTAATATTAAATCATTATTATAATAATCATTACTAAATCATTATTATAATG
*
19990 ATTATTATCAAATCATTATTAAATCATCAA--ATCATTA
65 ATTATTATCAAATCATTATT--ATCAT-AATTATTATTA
* * * *
20027 AA-TATTTAAATCATT-ATA-T-AATGATTATTATCA-AATCATTATTATAATGATTATTATCAA
1 AATTA-TTAAATCATTAATATTAAATCATTATTATAATAATCATTACTA-AATCATTATTAT--A
* * * *
20087 ATCATTATTAT--AATGATTATTATCA-AATCATTACTA
62 ATGATTATTATCAAATCATTATTATCATAATTATTATTA
* * *
20123 AATCATTAAAT-ATTTAAATTATTATTAAATCATTA-TATAATGATTATTACTAAATCATTATTA
1 AATTATTAAATCA-TT--A--A-TATTAAATCATTATTATAATAATCATTACTAAATCATTATTA
* * *
20186 TAATGATTATTATCAAATCATTATTATAATGATTATTATCA
60 TAATGATTATTATCAAATCATTATTATCATAATTATTATTA
* * * * * *
20227 AATCATT--A-C-TAAATCATCAAATCATTA-AATATTTAAATCATTATTAAATCATTATTATAA
1 AATTATTAAATCATTAAT-ATTAAATCATTATTATA-AT-AATCATTACTAAATCATTATTATAA
*
20287 TGATTATTA-CTAAATCATTATTATAATAATT-TTATT-
63 TGATTATTATC-AAATCATTATTATCATAATTATTATTA
20323 -ATTATTAA
1 AATTATTAA
20331 TAATTACTAA
Statistics
Matches: 419, Mismatches: 48, Indels: 78
0.77 0.09 0.14
Matches are distributed among these distances:
94 2 0.00
95 7 0.02
96 34 0.08
97 16 0.04
98 175 0.42
99 3 0.01
100 17 0.04
101 54 0.13
102 21 0.05
103 49 0.12
104 35 0.08
105 5 0.01
106 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (100 bp):
AATTATTAAATCATTAATATTAAATCATTATTATAATAATCATTACTAAATCATTATTATAATGA
TTATTATCAAATCATTATTATCATAATTATTATTA
Found at i:20346 original size:20 final size:22
Alignment explanation
Indices: 20273--20360 Score: 69
Period size: 26 Copynumber: 3.9 Consensus size: 22
20263 ATCATTATTA
20273 AATCATTATTATAATGATTATTACT
1 AATCATTATTATAAT-A--ATTACT
20298 AAATCATTATTATAATAATT--T
1 -AATCATTATTATAATAATTACT
20319 --T-ATTATTATTAATAATTACT
1 AATCATTATTA-TAATAATTACT
*
20339 AATCATTACTATCAAATAATTA
1 AATCATTATTAT--AATAATTA
20361 AATATTAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
17 7 0.13
18 9 0.17
20 1 0.02
21 1 0.02
22 2 0.04
23 9 0.17
24 8 0.15
25 1 0.02
26 15 0.28
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (22 bp):
AATCATTATTATAATAATTACT
Found at i:20349 original size:112 final size:110
Alignment explanation
Indices: 19728--20310 Score: 543
Period size: 115 Copynumber: 5.0 Consensus size: 110
19718 TTTAGTAATA
* * * * * * *
19728 ATTATTAAATCATTAATATTAAATTATTATTATAAAATCATTACTAAATAATTATTAAATAAT-T
1 ATTATCAAATCATTATTA-T-AATGATTATTATCAAATCATTACTAAATCA-TA--AAATCATAA
* * * * *
19792 ACTATTAAATCATTATTATCATTATTATTATTAAATTATTATTA-AATCATT
61 AATATTAAATCATTA-TATAATCATTATTA-TAAATCATTATTATAATGATT
* * * *
19843 ATTATTAAATCATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCAT
1 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTA--CTAA--ATCA-TA--AAATCA-
*
19908 TACTAAATCATCAAATCATTAAATATTTAAATCATTA-T-TAAATCATTATTATAATGATT
58 TA--AAAT-ATTAAATCATT--ATA--T-AATCATTATTATAAATCATTATTATAATGATT
* * *
19967 ATTA-CTAAATCATTATTATAATGATTATTATCAAATCATTATTAAATCATCAAATCATTAAATA
1 ATTATC-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATAAAATCATAAAATA
*
20031 TTTAAATCATTATATAATGATTATTATCAAATCATTATTATAATGATT
65 -TTAAATCATTATATAATCATTATTAT-AAATCATTATTATAATGATT
*
20079 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATTAAATAT-TTAAATT
1 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCA-TAAA-ATCATAAA--
*
20143 ATTATTAAATCATTATATAATGATTATTACTAAATCATTATTATAATGATT
62 A-TATTAAATCATTATATAATCATTATTA-TAAATCATTATTATAATGATT
* *
20194 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
1 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATAAAATCATAAAATA-
* *
20259 TTAAATCATTAT-TAAATCATTATTAT-AATGATTATTACTAAATCATT
65 TTAAATCATTATAT-AATCATTATTATAAATCATTATTA-T-AATGATT
20306 ATTAT
1 ATTAT
20311 AATAATTTTA
Statistics
Matches: 404, Mismatches: 32, Indels: 67
0.80 0.06 0.13
Matches are distributed among these distances:
109 7 0.02
110 12 0.03
111 6 0.01
112 103 0.25
113 30 0.07
114 22 0.05
115 115 0.28
116 4 0.01
117 18 0.04
118 1 0.00
119 1 0.00
120 3 0.01
121 2 0.00
122 13 0.03
123 14 0.03
124 45 0.11
125 2 0.00
126 6 0.01
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (110 bp):
ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATAAAATCATAAAATAT
TAAATCATTATATAATCATTATTATAAATCATTATTATAATGATT
Found at i:20407 original size:227 final size:224
Alignment explanation
Indices: 19728--20409 Score: 615
Period size: 227 Copynumber: 3.0 Consensus size: 224
19718 TTTAGTAATA
* * * * * * *
19728 ATTATTAAATCATTAATATTAAATTATTATTATAAAATCATTACTAAATAATTATTAAATAATT-
1 ATTACTAAATCATTATTA-T-AATGATTATTATCAAATCATTACT--A-AATCATCAAATCATTA
* * * * *
19792 ACTA-TTAAATCATTATTATCATTATTATTATTAAATTATTATTA-AATCATTATTATTAAATCA
61 AATATTTAAATCATTA-TATAATCATTATTA-TAAATCATTATTATAATCATTATTATAAAATCA
* * * * *
19855 TTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATC
124 TTATTATAATAATAATTATCAAATCATTACTA-AAT-A--A-T-T-AAAT-ATT--TAAATAAT-
19920 AA--ATCATTAAATATTTAAATCATTA-T--TAAATCATTATTATAATGATT
178 AATTATCATT--ATA--T-AATCATTACTACTAAATCATTATTATAATGATT
*
19967 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTATTAAATCATCAAATCATTAAATAT
1 ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
* * *
20032 TTAAATCATTATATAATGATTATTATCAAATCATTATTATAATGATTATTATCAAATCATTATTA
66 TTAAATCATTATATAATCATTATTAT-AAATCATTATTATAATCATTATTATAAAATCATTATTA
* * * * *
20097 TAATGATTATTATCAAATCATTACTAAATCATTAAATATTTAAATTATTATTAAATCATTATATA
130 TAATAATAATTATCAAATCATTACTAAATAATTAAATATTTAAATAATAATT--ATCATTATATA
* *
20162 ATGATTATTACTAAATCATTATTATAATGATT
193 ATCATTACTACTAAATCATTATTATAATGATT
20194 ATTA-TCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATA
1 ATTACT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATA
* *
20258 TTTAAATCATTAT-TAAATCATTATTAT-AATGATTATTACTAAATCATTATTATAATAAT-TTT
65 TTTAAATCATTATAT-AATCATTATTATAAATCATTATTA-T-AATCATTATTATAA-AATCATT
* *
20320 ATTATTATTAATAATTA-CTAATCATTACTATCAAATAATTAAATA-TT-AATAATAATT-TCAT
126 ATTA-TAATAATAATTATCAAATCATTAC--T-AAATAATTAAATATTTAAATAATAATTATCAT
20381 TATTACTAATCATTACTA-TCAAATCATTA
187 TA-TA-TAATCATTACTACT-AAATCATTA
20410 AATATTAATA
Statistics
Matches: 385, Mismatches: 35, Indels: 58
0.81 0.07 0.12
Matches are distributed among these distances:
224 7 0.02
225 19 0.05
226 13 0.03
227 156 0.41
228 23 0.06
229 13 0.03
230 13 0.03
231 1 0.00
232 1 0.00
234 13 0.03
235 30 0.08
236 58 0.15
237 21 0.05
238 1 0.00
239 16 0.04
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (224 bp):
ATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
TTAAATCATTATATAATCATTATTATAAATCATTATTATAATCATTATTATAAAATCATTATTAT
AATAATAATTATCAAATCATTACTAAATAATTAAATATTTAAATAATAATTATCATTATATAATC
ATTACTACTAAATCATTATTATAATGATT
Found at i:21613 original size:16 final size:17
Alignment explanation
Indices: 21559--21607 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
21549 CAAAATATTT
21559 TTTTTTTAAACAACACTAAA
1 TTTTTTTAAAC-ACA--AAA
*
21579 TATTTTTAAACACAAAA
1 TTTTTTTAAACACAAAA
21596 TTTTTTTAAACA
1 TTTTTTTAAACA
21608 GAAATTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 14 0.52
19 3 0.11
20 10 0.37
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTTTTAAACACAAAA
Found at i:22610 original size:65 final size:65
Alignment explanation
Indices: 22541--22679 Score: 224
Period size: 65 Copynumber: 2.1 Consensus size: 65
22531 TACAGCTACG
* *
22541 GATGCAGGAATCTCCCAGCTATGGATGCAGCGCATGCATGAGTGATAGGGTTAAAGCTTGGTCGC
1 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
* * *
22606 GATGCAGCAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGTTTGGTCGT
1 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
*
22671 GGTGCAGGA
1 GATGCAGGA
22680 CTCCACAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (65 bp):
GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
Found at i:22838 original size:20 final size:20
Alignment explanation
Indices: 22789--22840 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
22779 GCTCGTTGGT
22789 CACCGATCTCCCCATGCATG
1 CACCGATCTCCCCATGCATG
22809 CA-CGATCTCCCCATGCATG
1 CACCGATCTCCCCATGCATG
*
22828 CACCTATCTCCCC
1 CACCGATCTCCCC
22841 CCCTCATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.19, C:0.48, G:0.12, T:0.21
Consensus pattern (20 bp):
CACCGATCTCCCCATGCATG
Found at i:22924 original size:29 final size:29
Alignment explanation
Indices: 22886--22994 Score: 200
Period size: 29 Copynumber: 3.8 Consensus size: 29
22876 CACCCCGAGT
22886 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
22915 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
*
22944 GTGCATGGCGACCTCTTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
*
22973 GTGCATGGCGACCTCTTTGGTC
1 GTGCATGGCGACCTCCTTGGTC
22995 ACTGTAGAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.07, C:0.27, G:0.37, T:0.29
Consensus pattern (29 bp):
GTGCATGGCGACCTCCTTGGTCGTTGGGC
Found at i:24471 original size:18 final size:18
Alignment explanation
Indices: 24443--24484 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24433 TTAAGAAAAC
24443 AATGTATAGCA-CAGCTGAT
1 AATG-ATAGCAGCAG-TGAT
24462 AATGATAGCAGCAGTGAT
1 AATGATAGCAGCAGTGAT
*
24480 GATGA
1 AATGA
24485 GGGTGTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (18 bp):
AATGATAGCAGCAGTGAT
Found at i:24566 original size:29 final size:29
Alignment explanation
Indices: 24532--24590 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24522 CCTAAATTAA
24532 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
24561 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
24590 T
1 T
24591 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:29243 original size:29 final size:29
Alignment explanation
Indices: 29209--29267 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
29199 CCTAAATTAA
29209 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
29238 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
29267 T
1 T
29268 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:30826 original size:5 final size:5
Alignment explanation
Indices: 30816--30855 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
30806 AGTTTAAATA
*
30816 TTTAT TTTAT TTTAT TTTAT TTCTAA TTTAT TCTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TT-TAT TTTAT T-TTAT TTT
30856 TTAACTAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:30831 original size:10 final size:10
Alignment explanation
Indices: 30816--30855 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
30806 AGTTTAAATA
30816 TTTATTTTAT
1 TTTATTTTAT
30826 TTTATTTTAT
1 TTTATTTTAT
*
30836 TTCTAATTTAT
1 TT-TATTTTAT
30847 TCTTATTTT
1 T-TTATTTT
30856 TTAACTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 12 0.46
11 13 0.50
12 1 0.04
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:30863 original size:22 final size:21
Alignment explanation
Indices: 30821--30863 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
30811 AAATATTTAT
*
30821 TTTATTTTATTTTATTTCTAA
1 TTTATTTTATTTTATTACTAA
30842 TTTATTCTTATTTT-TTAACTAA
1 TTTATT-TTATTTTATT-ACTAA
30864 CCCTTCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTTTATTACTAA
Found at i:30904 original size:18 final size:19
Alignment explanation
Indices: 30875--30934 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
30865 CCTTCTACTT
30875 TTTTTACTTTATTCAT-TTTA
1 TTTTT-CTTTATT-ATCTTTA
*
30895 -TTTTCTTTATTTTCTTTA
1 TTTTTCTTTATTATCTTTA
*
30913 TTTTTCTTTATTTTCTTT-
1 TTTTTCTTTATTATCTTTA
30931 TTTT
1 TTTT
30935 ACTAACTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 1 0.03
18 15 0.41
19 21 0.57
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTATTATCTTTA
Found at i:30917 original size:19 final size:19
Alignment explanation
Indices: 30891--30934 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
30881 CTTTATTCAT
30891 TTTA-TTTTCTTTATTTTC
1 TTTATTTTTCTTTATTTTC
30909 TTTATTTTTCTTTATTTTC
1 TTTATTTTTCTTTATTTTC
30928 TTT-TTTT
1 TTTATTTT
30935 ACTAACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTATTTTTCTTTATTTTC
Found at i:33690 original size:95 final size:96
Alignment explanation
Indices: 33518--33704 Score: 268
Period size: 95 Copynumber: 2.0 Consensus size: 96
33508 ATATTATAAT
* * *
33518 ATTATATATATACAATAAAGCTCGAGGTGTCCCTCTAAAGTAATTGGTTAAGCTCCACAGCTTTA
1 ATTATATATATACAATAAAGCTCGAGGTGTCCCTCTAAAGTAATTGGTTAAACGCCACAGCTATA
* *
33583 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
66 TGGATAAGATTCAACTAACCTGATAAAGGTG
* * * * *
33614 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGTAATTGGTTAAACGCCCCTGCTATA
1 ATTATATATATACAATAAAGCTCGAGGTGTCCCTCTAAAGTAATTGGTTAAACGCCACAGCTATA
*
33678 TGGATAATATTCAACTAACCTGATAAA
66 TGGATAAGATTCAACTAACCTGATAAA
33705 TGTGTTTACA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 74 0.93
96 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTCGAGGTGTCCCTCTAAAGTAATTGGTTAAACGCCACAGCTATA
TGGATAAGATTCAACTAACCTGATAAAGGTG
Found at i:37016 original size:23 final size:23
Alignment explanation
Indices: 36933--37008 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
36923 CATTATTATA
36933 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
36956 TGGCACTACGGTGTAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
36979 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
37002 CGGCACT
1 TGGCACT
37009 TCGATGCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:37024 original size:23 final size:23
Alignment explanation
Indices: 36934--37024 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
36924 ATTATTATAT
* * *
36934 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGATGCAATTATACGC
* * * *
36957 GGCACTACGGTGTAATTCTACGT
1 GGCACTACGATGCAATTATACGC
* *
36980 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGATGCAATTATACGC
* *
37003 GGCACTTCGATGCATTTATACG
1 GGCACTACGATGCAATTATACG
37025 AGCTGTGGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGC
Found at i:38078 original size:84 final size:84
Alignment explanation
Indices: 37948--38740 Score: 905
Period size: 84 Copynumber: 9.4 Consensus size: 84
37938 AATTTTTTCT
* *
37948 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
38013 CTCAGCTCCAATGCACATC
66 CTCAGCTCCAAGGCACATC
* ** *
38032 ATTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGCCAATAAAAGACCTTAGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
38097 CTCAGCTCCAAGGCACAAC
66 CTCAGCTCCAAGGCACATC
* * * * *
38116 ATTTGTAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
38181 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * * * *
38201 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACATTTGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
38265 CTCAGCTCAAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
38284 ATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCATATACATTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
38349 CTCAGCTTCGAGGGCATATC
66 CTCAGC-TCCAAGGCACATC
* *
38369 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
38433 CTCAGCTCAAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * *
38452 ATTTTCAAG-ATAACTTAAGTCGATAAGGGCTATCTGCCAACCAAAGACCTCCGAGTTCGACTAC
1 ATTTGC-AGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
38516 GCTCAGCTCCAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* * * * * * * *
38536 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAATGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
38601 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * * *
38621 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-TAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
38685 CTCAGCT-CAGAGGTA-AGTC
66 CTCAGCTCCA-AGGCACA-TC
* * *
38704 AAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCT
1 --ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCT
38741 ATCAATAAAA
Statistics
Matches: 609, Mismatches: 89, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
82 2 0.00
83 93 0.15
84 348 0.57
85 166 0.27
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:38416 original size:252 final size:250
Alignment explanation
Indices: 37954--38740 Score: 1069
Period size: 252 Copynumber: 3.1 Consensus size: 250
37944 TTCTATTTGT
*
37954 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * ** * *
38019 TCCAATGCACATCATTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGCCAATAAAAGACCTTA
66 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAA-CCAATACCTTC
* * * * * *
38084 GAGTTCGACTACGCTCAGC-TCCAAGGCACAACATTTGTAGCATAACTCAAGGCTAAAAGGGTTA
130 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTA
38148 TCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC
195 TCTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGC-TC-AGGGCACATCATTTAC
* * * * * *
38207 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACATTTGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
38271 TCAAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCATATACATTC
66 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCA-ATACCTTC
* *
38336 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
130 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTA
* * * *
38401 TCTGCCAACAAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACATCATTTTC
195 TCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTC-AGGGCACATCATTTAC
* * * * *
38458 AAG-ATAACTTAAGTCGATAAGGGCTATCTGCCAACCAAAGACCTCCGAGTTCGACTACGCTCAG
1 -AGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
38522 CTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAATGACCTT
65 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCAAT-ACCTT
38587 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTT
129 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTT
* * * *
38652 ATCTGCCAATAAAGACCTTTGAGTTCGATTACACTCAGCTCAGAGGTA-AGTCAAATTTAC
194 ATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCAG-GGCACA-TC--ATTTAC
* *
38712 AGCATAGCTCAAGGCAAGAAGGGCTATCT
1 AGCATAACTCAAGGCTAGAAGGGCTATCT
38741 ATCAATAAAA
Statistics
Matches: 467, Mismatches: 57, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
251 46 0.10
252 312 0.67
253 83 0.18
254 26 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (250 bp):
AGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCAATACCTTCG
AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTAT
CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCAGGGCACATCATTTAC
Found at i:40148 original size:5 final size:5
Alignment explanation
Indices: 40133--40184 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
40123 AGTTTAAATA
*
40133 TTTATT TTTAT TTTAT TTTAT TTCTAG TTTAT TCTTAT TCTTAT TTTAT
1 TTTA-T TTTAT TTTAT TTTAT TT-TAT TTTAT T-TTAT T-TTAT TTTAT
40182 TTT
1 TTT
40185 TCTTAACTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
5 23 0.55
6 19 0.45
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:40149 original size:11 final size:11
Alignment explanation
Indices: 40133--40185 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
40123 AGTTTAAATA
40133 TTTATTTTTAT
1 TTTATTTTTAT
40144 TTTA-TTTTAT
1 TTTATTTTTAT
*
40154 TTCTA-GTTTAT
1 TT-TATTTTTAT
*
40165 TCTTATTCTTAT
1 T-TTATTTTTAT
40177 TTTATTTTT
1 TTTATTTTT
40186 CTTAACTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.23
11 21 0.60
12 6 0.17
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:40228 original size:18 final size:17
Alignment explanation
Indices: 40207--40251 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
40197 CTTTTACTCT
40207 TTTTTTTTACTTTATTCA
1 TTTTTTTTACTTTATT-A
40225 TTTTATTTT-CTTTATTA
1 TTTT-TTTTACTTTATTA
40242 TTTTTGTTTA
1 TTTTT-TTTA
40252 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 11 0.46
19 4 0.17
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTTTTACTTTATTA
Found at i:52202 original size:15 final size:15
Alignment explanation
Indices: 52182--52214 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
52172 TGAGACATTA
*
52182 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
52197 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
52212 CCC
1 CCC
52215 ACCCAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.70, G:0.15, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:55310 original size:100 final size:100
Alignment explanation
Indices: 55137--55335 Score: 398
Period size: 100 Copynumber: 2.0 Consensus size: 100
55127 ACGAACTCAC
55137 GGTTTTATATTAGAGGATAAATTCTTAAAATTTTAAGAATAGACAAACTTATAAAATTTTAGGAG
1 GGTTTTATATTAGAGGATAAATTCTTAAAATTTTAAGAATAGACAAACTTATAAAATTTTAGGAG
55202 AACGAAAATAATTTTTTAATAAAAATAAAATATAA
66 AACGAAAATAATTTTTTAATAAAAATAAAATATAA
55237 GGTTTTATATTAGAGGATAAATTCTTAAAATTTTAAGAATAGACAAACTTATAAAATTTTAGGAG
1 GGTTTTATATTAGAGGATAAATTCTTAAAATTTTAAGAATAGACAAACTTATAAAATTTTAGGAG
55302 AACGAAAATAATTTTTTAATAAAAATAAAATATA
66 AACGAAAATAATTTTTTAATAAAAATAAAATATA
55336 TAATAATTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (100 bp):
GGTTTTATATTAGAGGATAAATTCTTAAAATTTTAAGAATAGACAAACTTATAAAATTTTAGGAG
AACGAAAATAATTTTTTAATAAAAATAAAATATAA
Found at i:55804 original size:5 final size:5
Alignment explanation
Indices: 55794--56039 Score: 376
Period size: 5 Copynumber: 48.6 Consensus size: 5
55784 CAGCCTTACC
55794 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TATATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA-ATA
55845 TAATA TAATA TAATA T-ATA TAATA T-ATA TAATA TAATA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
55892 TATAAA TAATA TAATA TAATA TAATA TAATA -ATATA TAATA TAATATA
1 TA-ATA TAATA TAATA TAATA TAATA TAATA TA-ATA TAATA T-A-ATA
55940 TAATA TAATAA TATATAA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAAT-A TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA
55988 T-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
56037 TAA
1 TAA
56040 AGTTTACCTC
Statistics
Matches: 227, Mismatches: 2, Indels: 24
0.90 0.01 0.09
Matches are distributed among these distances:
4 17 0.07
5 183 0.81
6 17 0.07
7 10 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:57539 original size:31 final size:30
Alignment explanation
Indices: 57504--57605 Score: 73
Period size: 31 Copynumber: 3.2 Consensus size: 30
57494 GTCGGTGTTG
57504 AACCTATAAAAGGAATTACCAGTATCGACTA
1 AACCTATAAAAGGAATTACCAG-ATCGACTA
*
57535 AACCTGTCAGAGATAGGAATTACCAG-TCGA-TGCA
1 AACCTAT-A-A-A-AGGAATTACCAGATCGACT--A
* * *
57569 GAACCTATACAAGGAATTACCAGCAACGACTG
1 -AACCTATAAAAGGAATTACCAG-ATCGACTA
57601 AACCT
1 AACCT
57606 GCCAGAGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
31 23 0.41
32 3 0.05
33 8 0.14
34 4 0.07
35 18 0.32
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (30 bp):
AACCTATAAAAGGAATTACCAGATCGACTA
Found at i:57589 original size:66 final size:66
Alignment explanation
Indices: 57483--57612 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
57473 TAGGTCCATA
* * ** * * *
57483 AGGAATTATCAGTCGGTGTTGAACCTATAAAAGGAATTACCAGTATCGACTAAACCTGTCAGAGA
1 AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTGCCAGAGA
57548 T
66 T
* *
57549 AGGAATTACCAGTCGATGCAGAACCTATACAAGGAATTACCAGCAACGACTGAACCTGCCAGAG
1 AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTGCCAGAG
57613 TCTTCATACA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (66 bp):
AGGAATTACCAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTGCCAGAGA
T
Found at i:58899 original size:15 final size:13
Alignment explanation
Indices: 58862--58907 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
58852 GACTTTTTCA
58862 GTCAAAGTCAACG
1 GTCAAAGTCAACG
* *
58875 GTCAAGGTCAGACCT
1 GTCAAAGTCA-A-CG
58890 GTCAAAGTCAACG
1 GTCAAAGTCAACG
58903 GTCAA
1 GTCAA
58908 CTCTGACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 15 0.56
14 2 0.07
15 10 0.37
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (13 bp):
GTCAAAGTCAACG
Found at i:58917 original size:22 final size:21
Alignment explanation
Indices: 58875--58917 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
58865 AAAGTCAACG
*
58875 GTCAAGGTCAGACCTGTCAAA
1 GTCAAGGTCAGACCTGACAAA
58896 GTCAACGGTCA-ACTCTGACAAA
1 GTCAA-GGTCAGAC-CTGACAAA
58918 AGTAAACAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (21 bp):
GTCAAGGTCAGACCTGACAAA
Found at i:61210 original size:75 final size:77
Alignment explanation
Indices: 61083--61290 Score: 300
Period size: 75 Copynumber: 2.8 Consensus size: 77
61073 CCGTTGTACA
* *
61083 AGGGGGGAATCGGTACCTCCT-TGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
**
61146 -CAAAACTGTTT
66 CCAAAACCATTT
*
61157 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA-TCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
61220 CCAAAACCATTT
66 CCAAAACCATTT
* * *
61232 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
61291 TTTGGCTTTG
Statistics
Matches: 120, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
73 18 0.15
74 15 0.12
75 35 0.29
76 21 0.17
77 30 0.25
78 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
CCAAAACCATTT
Found at i:61899 original size:17 final size:17
Alignment explanation
Indices: 61879--61922 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
61869 TTCATAAATT
61879 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
61896 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
61913 -AAATATCCAA
1 CAAA-ATCCAA
61923 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:67779 original size:22 final size:21
Alignment explanation
Indices: 67737--67776 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67727 GAGTTTGTTT
*
67737 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
67758 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
67777 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:69821 original size:80 final size:78
Alignment explanation
Indices: 69698--69902 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 78
69688 CCGTTGTACA
* * *
69698 AGGGGGGAATCGGTACCCCCT-TCGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATCGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
**
69761 G-CAAAACTGTTT
66 GCCAAAACCATTT
*
69773 AGGGGGAACCGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCT
1 AGGGGG----GAATCGGTTCCTCCTATCGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCT
*
69837 CGGGGCCAAAACCATTT
62 CGGAGCCAAAACCATTT
* *
69854 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATCGGGGGGAATCGGTTCCCTCCGAGCA
69903 ATCTGTAATT
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
75 6 0.05
77 17 0.15
78 24 0.21
79 19 0.17
80 33 0.29
81 15 0.13
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (78 bp):
AGGGGGGAATCGGTTCCTCCTATCGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
GCCAAAACCATTT
Found at i:71924 original size:180 final size:180
Alignment explanation
Indices: 71622--71982 Score: 686
Period size: 180 Copynumber: 2.0 Consensus size: 180
71612 AAAATGCATA
*
71622 TTAATAAAATGTTTTTTTGATCTGATATCCGGAAAGGAGAAGCTGACATGTCTTTCTCCTCTTTG
1 TTAATAAAATGTTTTTCTGATCTGATATCCGGAAAGGAGAAGCTGACATGTCTTTCTCCTCTTTG
71687 CTCCTCAATCTTCTCGAAACCTACGTGTGAAACACTCACACGCTAAGTTGATGACTTAGTGAGGC
66 CTCCTCAATCTTCTCGAAACCTACGTGTGAAACACTCACACGCTAAGTTGATGACTTAGTGAGGC
* *
71752 ATATAAAATGACTACGGAAAACCTTAATTATCTAACAATACACGGACAAT
131 ATATAAAATAACTACGGAAAACCTTAATTATCTAACAATAAACGGACAAT
*
71802 TTAATAAAATGTTTTTCTGATCTGATATCTGGAAAGGAGAAGCTGACATGTCTTTCTCCTCTTTG
1 TTAATAAAATGTTTTTCTGATCTGATATCCGGAAAGGAGAAGCTGACATGTCTTTCTCCTCTTTG
71867 CTCCTCAATCTTCTCGAAACCTACGTGTGAAACACTCACACGCTAAGTTGATGACTTAGTGAGGC
66 CTCCTCAATCTTCTCGAAACCTACGTGTGAAACACTCACACGCTAAGTTGATGACTTAGTGAGGC
71932 ATATAAAATAACTACGGAAAACCTTAATTATCTAACAATAAACGGACAAT
131 ATATAAAATAACTACGGAAAACCTTAATTATCTAACAATAAACGGACAAT
71982 T
1 T
71983 CACACACTAA
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (180 bp):
TTAATAAAATGTTTTTCTGATCTGATATCCGGAAAGGAGAAGCTGACATGTCTTTCTCCTCTTTG
CTCCTCAATCTTCTCGAAACCTACGTGTGAAACACTCACACGCTAAGTTGATGACTTAGTGAGGC
ATATAAAATAACTACGGAAAACCTTAATTATCTAACAATAAACGGACAAT
Found at i:72373 original size:23 final size:24
Alignment explanation
Indices: 72320--72373 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
72310 CACTAGGGGA
* *
72320 ACATAGAATTTGTCCCGAAGGACC
1 ACATAGAATATGTCCCGAAGAACC
* *
72344 GCGTAGAA-ATGTCCCGAAGAACC
1 ACATAGAATATGTCCCGAAGAACC
72367 ACATAGA
1 ACATAGA
72374 TGTCCCCAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (24 bp):
ACATAGAATATGTCCCGAAGAACC
Found at i:72478 original size:42 final size:42
Alignment explanation
Indices: 72401--72486 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
72391 CCTTAAGGAT
* * *
72401 CACATATATATTCCAAATGAGTAAATATGTGTCCCGAAGAAC
1 CACATATATATTCCAAAGGAGTAAATATATATCCCGAAGAAC
* * * *
72443 CACATATATGTTCCAAAGGATTACATATATATCCCGAAGGAC
1 CACATATATATTCCAAAGGAGTAAATATATATCCCGAAGAAC
72485 CA
1 CA
72487 TGTAGAACCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (42 bp):
CACATATATATTCCAAAGGAGTAAATATATATCCCGAAGAAC
Found at i:72482 original size:21 final size:21
Alignment explanation
Indices: 72444--72483 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
72434 CCGAAGAACC
* *
72444 ACATATATGTTCCAAAGGATT
1 ACATATATATCCCAAAGGATT
*
72465 ACATATATATCCCGAAGGA
1 ACATATATATCCCAAAGGA
72484 CCATGTAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (21 bp):
ACATATATATCCCAAAGGATT
Found at i:75866 original size:20 final size:20
Alignment explanation
Indices: 75823--75866 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
75813 TGCATGATTT
* **
75823 TATATTAAAAAATTACAATT
1 TATATTAAAAAATTAAAAGA
*
75843 TATATTAAAAATTTAAAAGA
1 TATATTAAAAAATTAAAAGA
75863 TATA
1 TATA
75867 AAAATATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TATATTAAAAAATTAAAAGA
Found at i:75890 original size:17 final size:16
Alignment explanation
Indices: 75865--75896 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
75855 TTAAAAGATA
75865 TAAAAATATAAAATTT
1 TAAAAATATAAAATTT
75881 TAAAAGATATAAAATT
1 TAAAA-ATATAAAATT
75897 AAATAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
TAAAAATATAAAATTT
Found at i:81481 original size:46 final size:46
Alignment explanation
Indices: 81410--81500 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
81400 TTAACAAAAC
** * *
81410 AACACCCTATAATTAGGAAATCATTTTGTAACTTTTAATAGTCGAT
1 AACACCCTATAATTAAAAAACCATTTTGTAACTTATAATAGTCGAT
*
81456 AACACCCTATAATTAAAAAACCATTTTGTAACTTATAATATTCGA
1 AACACCCTATAATTAAAAAACCATTTTGTAACTTATAATAGTCGA
81501 GAGACTTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (46 bp):
AACACCCTATAATTAAAAAACCATTTTGTAACTTATAATAGTCGAT
Found at i:84380 original size:18 final size:18
Alignment explanation
Indices: 84357--84401 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
84347 CCAGTAATCC
84357 TATTCCCTGGTAATCTTT
1 TATTCCCTGGTAATCTTT
*
84375 TATTCCCACTGGTAATTTTT
1 TATT-CC-CTGGTAATCTTT
84395 TATTCCC
1 TATTCCC
84402 ACAGGTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 15 0.62
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.49
Consensus pattern (18 bp):
TATTCCCTGGTAATCTTT
Found at i:84388 original size:20 final size:20
Alignment explanation
Indices: 84363--84413 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
84353 ATCCTATTCC
84363 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
84383 CTGGTAATTTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
84403 CAGGTAATCTT
1 CTGGTAATCTT
84414 ACATTTCGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:87689 original size:19 final size:19
Alignment explanation
Indices: 87647--87689 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
87637 TTATAGTCAA
*
87647 GAGAAATAGAAGTAGAATT
1 GAGAAATAGAAGTAGAATC
*
87666 TAGAAATAGGAA-TAGAATC
1 GAGAAATA-GAAGTAGAATC
87685 GAGAA
1 GAGAA
87690 GATGAAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (19 bp):
GAGAAATAGAAGTAGAATC
Found at i:92920 original size:19 final size:19
Alignment explanation
Indices: 92878--92931 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
92868 TTATAGTCAA
* *
92878 GAGAAATAGAAGTAGAATT
1 GAGAAATAGAAATAGAATC
*
92897 TAGAAATAGAAATAGAATC
1 GAGAAATAGAAATAGAATC
92916 GAGAAGAT-GAAATAGA
1 GAGAA-ATAGAAATAGA
92932 GAATTTAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.24, T:0.19
Consensus pattern (19 bp):
GAGAAATAGAAATAGAATC
Found at i:98209 original size:3 final size:3
Alignment explanation
Indices: 98203--98232 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
98193 TGCAAAGGAG
*
98203 GAA GAA GAC GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
98233 ATGAAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:99022 original size:21 final size:21
Alignment explanation
Indices: 98998--99100 Score: 79
Period size: 21 Copynumber: 4.9 Consensus size: 21
98988 GAAGTTCGCG
98998 TTGCGTTGCGATAGTCCAAGT
1 TTGCGTTGCGATAGTCCAAGT
* * * *
99019 TTGCGTTACGATTTATTTCAA-A
1 TTGCGTTGCGA--TAGTCCAAGT
*
99041 TT-CGCTGCGATAGTCCAAGT
1 TTGCGTTGCGATAGTCCAAGT
* *
99061 TCGCGTTGCGATTTATTCCAAG-
1 TTGCGTTGCGA--TAGTCCAAGT
99083 TT-CGTTGCGATAGTCCAA
1 TTGCGTTGCGATAGTCCAA
99101 AATCGCAACG
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
19 13 0.21
20 1 0.02
21 31 0.50
22 3 0.05
23 14 0.23
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (21 bp):
TTGCGTTGCGATAGTCCAAGT
Found at i:99050 original size:42 final size:42
Alignment explanation
Indices: 99004--99100 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
98994 CGCGTTGCGT
* *
99004 TGCGATAGTCCAAGTTTGCGTTACGATTTATTTCAAATTCGC
1 TGCGATAGTCCAAGTTCGCGTTACGATTTATTCCAAATTCGC
* * *
99046 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGCGTTACGATTTATTCCAAATTCGC
99088 TGCGATAGTCCAA
1 TGCGATAGTCCAA
99101 AATCGCAACG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TGCGATAGTCCAAGTTCGCGTTACGATTTATTCCAAATTCGC
Found at i:99293 original size:5 final size:5
Alignment explanation
Indices: 99192--99280 Score: 124
Period size: 5 Copynumber: 17.2 Consensus size: 5
99182 CACATATTAC
* * *
99192 CACGA CCACGA CCACGA CCACCA CACGA CCCGA CACGA CACGA CCCGA
1 CACGA -CACGA -CACGA -CACGA CACGA CACGA CACGA CACGA CACGA
99240 CACGA CACGA CACGA CACGA CACGA CACGA CACGA CACGA C
1 CACGA CACGA CACGA CACGA CACGA CACGA CACGA CACGA C
99281 CCGAGACGAG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
5 61 0.79
6 16 0.21
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (5 bp):
CACGA
Found at i:100011 original size:40 final size:40
Alignment explanation
Indices: 99935--100327 Score: 624
Period size: 40 Copynumber: 9.6 Consensus size: 40
99925 TTTGGAATAA
*
99935 ATCGCAACGAATTTGGAATAAATCGCAACGCTAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
* *
99977 ATCGCAACGAATTTGGAAAATCGCAAAGCGAACTTTGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
*
100017 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
* * * *
100059 ATCACAATGAATTTAGAAAATCGCAAAGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
100099 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
100141 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
*
100181 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
*
100223 ATCGCAACGAATTTGGAAAATCGCAACGTGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
100263 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
100303 ATCGCAACGAATTTGGAAAATCGCA
1 ATCGCAACGAATTTGGAAAATCGCA
100328 TTACGAGATC
Statistics
Matches: 326, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
40 194 0.60
41 7 0.02
42 125 0.38
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (40 bp):
ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:100028 original size:82 final size:82
Alignment explanation
Indices: 99935--100327 Score: 682
Period size: 82 Copynumber: 4.8 Consensus size: 82
99925 TTTGGAATAA
*
99935 ATCGCAACGAATTTGGAATAAATCGCAACGCTAACTTCGACTATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
*
100000 CAAAGCGAACTTTGACT
66 CAAAGCGAACTTCGACT
* * *
100017 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCACAATGAATTTAGAAAATCG
1 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
100082 CAAAGCGAACTTCGACT
66 CAAAGCGAACTTCGACT
*
100099 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
*
100164 CAACGCGAACTTCGACT
66 CAAAGCGAACTTCGACT
100181 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
* *
100246 CAACGTGAACTTCGACT
66 CAAAGCGAACTTCGACT
*
100263 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
100326 CA
66 CA
100328 TTACGAGATC
Statistics
Matches: 298, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
80 47 0.16
81 1 0.00
82 250 0.84
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (82 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCG
CAAAGCGAACTTCGACT
Found at i:100406 original size:21 final size:21
Alignment explanation
Indices: 100377--100429 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
100367 AATATGTAAA
*
100377 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
100398 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
100419 TCGCGTTGCGA
1 TCGCGTTGCGA
100430 ATCTGGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:104488 original size:21 final size:21
Alignment explanation
Indices: 104462--104517 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
104452 CCGTGAACAT
*
104462 TGCTACAGTATACCGATGTAC
1 TGCTACAGTGTACCGATGTAC
*
104483 TGCTACAGTGTACTGATGTAC
1 TGCTACAGTGTACCGATGTAC
*
104504 TGCTAGAGTGTACC
1 TGCTACAGTGTACC
104518 AATGCATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGTAC
Found at i:104589 original size:21 final size:21
Alignment explanation
Indices: 104551--104590 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104541 AATTGTGTAT
**
104551 CGATGCACTGCTTTAGTACAC
1 CGATGCACTGCTACAGTACAC
104572 CGATGCACTGCTACAGTAC
1 CGATGCACTGCTACAGTAC
104591 TGCACATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (21 bp):
CGATGCACTGCTACAGTACAC
Found at i:106889 original size:32 final size:32
Alignment explanation
Indices: 106781--107036 Score: 351
Period size: 32 Copynumber: 8.1 Consensus size: 32
106771 ACTCGTATAA
* *
106781 TAAT-CTGTTCATATGTCCCG-AAGAACATAGT
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
*
106812 TAA-ACTATCCATATGTCCCG-AAGAACATAGG
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
106843 TAA-ACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
106874 TAATATTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
106906 TAATACTGTCCATATGTCTCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
* *
106938 TAATACTGTCCATATGTCTCGAAAGATATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
106970 TAATACTGTCCATATGTCTCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
* * * *
107002 TAATCCTGTCCATGTGTCCCGAAAGATATAAG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
107034 TAA
1 TAA
107037 CCCTCGACTC
Statistics
Matches: 208, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
31 56 0.27
32 152 0.73
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (32 bp):
TAATACTGTCCATATGTCCCGAAAGACATAGG
Found at i:112978 original size:18 final size:18
Alignment explanation
Indices: 112955--113007 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
112945 ACTGAATATT
112955 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
112973 TGTCCCAAAGGACCATTA
1 TGTCCCGAAGGACCACTA
*
112991 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
113008 CCTTAAGAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:116008 original size:10 final size:9
Alignment explanation
Indices: 115982--116006 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
115972 TTCACTTCTC
115982 TGTTTTTAT
1 TGTTTTTAT
115991 TGTTTTTAT
1 TGTTTTTAT
116000 TGTTTTT
1 TGTTTTT
116007 TAAGGTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (9 bp):
TGTTTTTAT
Found at i:118868 original size:34 final size:34
Alignment explanation
Indices: 118830--118927 Score: 160
Period size: 34 Copynumber: 2.9 Consensus size: 34
118820 CTAGAATCTA
* *
118830 AATTTAATTTATATTCATTATATGTATAAAATTT
1 AATTTTATTTATATTCATTCTATGTATAAAATTT
*
118864 AATTTTATTTATATTCGTTCTATGTATAAAATTT
1 AATTTTATTTATATTCATTCTATGTATAAAATTT
*
118898 AATTTTATTTATATTCATTCCATGTATAAA
1 AATTTTATTTATATTCATTCTATGTATAAA
118928 TTTTTTATGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (34 bp):
AATTTTATTTATATTCATTCTATGTATAAAATTT
Found at i:125233 original size:3 final size:3
Alignment explanation
Indices: 125225--125252 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
125215 TAAAATTGTT
125225 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
125253 ATAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:125264 original size:12 final size:13
Alignment explanation
Indices: 125227--125265 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
125217 AAATTGTTAT
125227 AATAATAATAAT-
1 AATAATAATAATA
125239 AATAATAATAATA
1 AATAATAATAATA
*
125252 AATAA-AATGATA
1 AATAATAATAATA
125264 AA
1 AA
125266 CTACTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:125972 original size:182 final size:182
Alignment explanation
Indices: 125679--126325 Score: 929
Period size: 182 Copynumber: 3.6 Consensus size: 182
125669 TACAAATGAA
* * * * *
125679 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATAATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
* ** *
125743 AACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTC
125808 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
*
125861 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
*
125926 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTCG
66 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* * * *
125991 TAATTTAAAAGAGAAAAAGTAATAGCACCTAAAAAGTGTCAATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
126043 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACATGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * * * * *
126108 ATCGGTAAAAAGATACCGAATATATTGAAAGTGTCAATAAATTAATATAAGTATCGACACTTTCA
66 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
*
126173 TAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * ** * * * * *
126225 AAACGTATCAATCCATAATAATATAATAGGTAAAAATATGACAAAACTGGTATTGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
** * *
126290 ACCGATAAAGCGCTACCGGTTATGTTGAAAGTGTCG
66 ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCG
126326 TTACTTTAAT
Statistics
Matches: 415, Mismatches: 48, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
182 413 1.00
183 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGATAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:128228 original size:22 final size:22
Alignment explanation
Indices: 128175--128232 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
128165 GAATGTTTTT
*
128175 TATTTTTTTATATAAAATGATGG
1 TATTTTATTATATAAAATGAT-G
*
128198 TATAGTTATTATATAAAATGAT-
1 TAT-TTTATTATATAAAATGATG
128220 TAATTTTATTATA
1 T-ATTTTATTATA
128233 AATGCAGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TATTTTATTATATAAAATGATG
Found at i:128535 original size:15 final size:15
Alignment explanation
Indices: 128512--128541 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
128502 TTGGAGGGGT
128512 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
128527 GGATTACGGTCAGGG
1 GGATGACGGTCAGGG
128542 AAAACAGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:128919 original size:18 final size:18
Alignment explanation
Indices: 128896--128934 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
128886 GAGAAAATTT
128896 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
128914 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
128932 GAA
1 GAA
128935 ATGAAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:130428 original size:19 final size:19
Alignment explanation
Indices: 130404--130453 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
130394 AAATGTAGGG
130404 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
130423 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
130442 ATAATTTTGTAT
1 TTAATTTTGTAT
130454 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:131078 original size:203 final size:200
Alignment explanation
Indices: 130728--131528 Score: 973
Period size: 198 Copynumber: 4.0 Consensus size: 200
130718 TTTGTCCAAG
* * **
130728 TATACTTTGTGTCCAGAATGATGTCCTTCCCAA-GTGCATGGA-AATGTGTCGATACATTTATAA
1 TATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CA-CCATAATGTGTCGATACATTTATAA
* *
130791 AAAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA
64 AAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAA
*
130856 CCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTTAATTT
129 CCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATTT
130921 GTGTCGA
194 GTGTCGA
* *
130928 TCCCATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATCTATA
1 T---ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATA
130993 AAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTA
63 AAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTA
* * * *
131058 ACCGGTCTAATTACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGACACTCTTTGAATT
128 ACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATT
131123 TGTGTCG-
193 TGTGTCGA
* *
131130 -ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAAGGTTTCGATACATTTATAAAA
1 TATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAA
131194 AGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACC
66 AGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACC
*
131259 AGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAA-TATCGACACTTTTTGAATTTG
131 GGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT-AAAGTATCGACACTTTTTGAATTTG
*
131323 TATCG-
195 TGTCGA
* ** ** * * * * * *
131328 -ATACTTTTTGTCCAGAATGTAAATGGTCA-AAAAGTGCACAAAAAAGTGTCGATACATTTATAA
1 TATACTTTGTGTCCAGAATG-ATTTCCTTACCAAGGT-CACCATAATGTGTCGATACATTTATAA
* * ** * * *
131391 AAAGTATCGATCC-TAAAACAAT-GAAATTCATAATT-TGAATGTAATAGGT-CATTTTGCAATG
64 AAAGTATCGATCCAAAAAAC-ATCGAGACCCATAATTAT-AATGTAATAGGTAAATTAT-CAATC
* * ** ** * * * *
131452 TAACCGGTATAAATATACCTATTTAATTTG-AAACAGGT-CACCATAATGTATCGACACATTTTA
126 TAACCGGTCTAAATACACCGGTTT-ATGAGAAAACAGGTGTA-CATAAAGTATCGACACTTTTTG
*
131515 AAGTTGTGTCGA
189 AATTTGTGTCGA
131527 TA
1 TA
131529 CATTTTTAAA
Statistics
Matches: 530, Mismatches: 55, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
197 8 0.02
198 290 0.55
199 47 0.09
200 2 0.00
202 1 0.00
203 180 0.34
204 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (200 bp):
TATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAA
AGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACC
GGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTGAATTTGT
GTCGA
Found at i:131241 original size:198 final size:198
Alignment explanation
Indices: 130729--131408 Score: 988
Period size: 198 Copynumber: 3.4 Consensus size: 198
130719 TTGTCCAAGT
* * **
130729 ATACTTTGTGTCCAGAATGATGTCCTTCCCAA-GTGCATGGA-AATGTGTCGATACATTTATAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CA-CCATAATGTGTCGATACATTTATAAA
* *
130792 AAGTATCGATCCCAAAAACATCAAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
64 AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
* *
130857 CGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTTTTTAATTTG
129 CGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTG
130922 TGTCG
194 TGTCG
* *
130927 ATCCCATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATCTAT
1 -----ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTAT
130992 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
61 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
* * *
131057 AACCGGTCTAATTACACCGGTTTATAAGAAAACAGGTGTACATGAAGTATCGACACTCTTTGAAT
126 AACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAAT
131122 TTGTGTCG
191 TTGTGTCG
* *
131130 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAAGGTTTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
*
131195 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCA
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* *
131260 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAATATCGACACTTTTTGAATTTGTA
131 GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
131325 TCG
196 TCG
* ** ** * * * * * *
131328 ATACTTTTTGTCCAGAATGTAAATGGTCA-AAAAGTGCACAAAAAAGTGTCGATACATTTATAAA
1 ATACTTTGTGTCCAGAATG-ATTTCCTTACCAAGGT-CACCATAATGTGTCGATACATTTATAAA
*
131392 AAGTATCGATCCTAAAA
64 AAGTATCGATCCAAAAA
131409 CAATGAAATT
Statistics
Matches: 437, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
198 210 0.48
199 44 0.10
202 1 0.00
203 180 0.41
204 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (198 bp):
ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
GTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
TCG
Found at i:131880 original size:15 final size:15
Alignment explanation
Indices: 131831--131883 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
131821 AAGAATCGGG
131831 GCTCTTCTCAACCCA
1 GCTCTTCTCAACCCA
* *
131846 TCTATTCTCAACCCA
1 GCTCTTCTCAACCCA
* *
131861 CCTCTTCTCAACCTA
1 GCTCTTCTCAACCCA
131876 GCTCTTCT
1 GCTCTTCT
131884 GAGGAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.43, G:0.04, T:0.34
Consensus pattern (15 bp):
GCTCTTCTCAACCCA
Found at i:137264 original size:200 final size:196
Alignment explanation
Indices: 136912--137435 Score: 567
Period size: 200 Copynumber: 2.6 Consensus size: 196
136902 TTAGATTTTA
* * ** * *
136912 TGTCGATACATTTATAACAAGTATCGATCC-CAAAATCAAAGAGACCCATAATTATAATGTAATA
1 TGTCGATACATTT-TAAAAAGTATCGATCCTCGAAA-CATCGAAACCGATAATTATAATGTAATA
* *
136976 GGTAAATTTTCAATGTAACCGG-TAGAAATATACCGGGTTCATGAGAGAATAGGTCAACATAAGT
64 GGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAGAGAATAGGTCAACATAAGT
* * * * * * *
137040 ATCGATACTTTTTTAATTTGTGTCGATACATTTTTTTTCAAAATGAATG-AAAAACGAGGTGTAC
127 ATCGACACTCTTTAAATATGTGTCGATAC--TTTTTTCCAAAAT-AAAGCAAAAACGAGGTGCAC
137104 GCATAAAG
189 GCATAAAG
* * *
137112 TGTCGATACATTTGTAAAAAGTATCGATCCTCGAAACATCGAAATCGATAATTATTATGTAACAG
1 TGTCGATACATTT-TAAAAAGTATCGATCCTCGAAACATCGAAACCGATAATTATAATGTAATAG
* * *
137177 GTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGCA-AATAGGTCTACATTATGTA
65 GTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAG-AGAATAGGTCAACA-TAAGTA
* *
137241 TCGACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAATAAAGCACAAACGAGTTGCACGCAT
128 TCGACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAATAAAGCAAAAACGAGGTGCACGCAT
137306 AAAG
193 AAAG
* * *
137310 TGTCGATACA-TTTAAAATTGTATCGATACT-GAAAACATCGAAACCGAT-ATACATAATGTAAT
1 TGTCGATACATTTTAAAA-AGTATCGATCCTCG-AAACATCGAAACCGATAAT-TATAATGTAAT
* * * * * * * *
137372 AGGTCAATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTTAATATAAG
63 AGGTAAATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAGAGAATAGGTCAACATAAG
137436 CGCTACATTG
Statistics
Matches: 274, Mismatches: 40, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
196 8 0.03
197 75 0.27
198 57 0.21
199 19 0.07
200 109 0.40
201 6 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (196 bp):
TGTCGATACATTTTAAAAAGTATCGATCCTCGAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAGAATAGGTCAACATAAGTATCG
ACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAATAAAGCAAAAACGAGGTGCACGCATAAA
G
Found at i:137498 original size:23 final size:23
Alignment explanation
Indices: 137472--137530 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
137462 CGGTTAAATG
*
137472 CCTATTTTATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
*
137495 CCTATTACATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
*
137518 CCTAATATATTAT
1 CCTATTATATTAT
137531 TGTGCTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (23 bp):
CCTATTATATTATATAAGCGCTA
Found at i:140504 original size:20 final size:20
Alignment explanation
Indices: 140479--140516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
140469 CACCTGTTAA
*
140479 AGAATGCATCAATGCACTGT
1 AGAATGCACCAATGCACTGT
*
140499 AGAATGCACCGATGCACT
1 AGAATGCACCAATGCACT
140517 TCAATGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (20 bp):
AGAATGCACCAATGCACTGT
Done.