Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1431
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: 237145
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
File 1 of 2
Found at i:1066 original size:166 final size:166
Alignment explanation
Indices: 643--1066 Score: 466
Period size: 166 Copynumber: 2.6 Consensus size: 166
633 TTCATTAATC
* * * * **
643 CAAAATTTTTAAAATTCATCAAATATTATTATTTAACTCACAATAAATCAGTTTCAAAAAATTTC
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATCAGTTTTGAAAAA-TTC
* * * *
708 TTTTA-TTTCATTAATTTTTCA-TTTTTCCTTGAAACTCTCCTGTTTTCAAAAAACTAAGTTTTC
65 ATTTATTTTCATGAGTTTTTCATTTTTTCCTTAAAACTCTCCTGTTTTCAAAAAACTAAGTTTTC
**
771 TATTCCATAAAAGTTTTTGCGAGGATTTTTCTCAGTT
130 TATTCCATAAAAGTTTTTGCGAGGAGGTTTCTCAGTT
* * * * **
808 CAAAATTTTTAAAATTTATCAAATATCATCATTTAAATCATATTACATTAGTTTTGAAATTTTCA
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATCAGTTTTGAAAAATTCA
* * * *
873 TTTATTTTCATGAG-TTTTCATTTTTTTCCTTAAAA-TTTCCCT-TTTTCTAAAACATTGAGTTT
66 TTTATTTTCATGAGTTTTTCA-TTTTTTCCTTAAAACTCT-CCTGTTTTC-AAAAAACTAAGTTT
*
935 TCTATTCCATAACAG-TTTT-CGAGGAGGGGTTTCTCAGTT
128 TCTATTCCATAAAAGTTTTTGCGAGGA--GGTTTCTCAGTT
* * * * * **
974 TAAAATTTTTAATATTCATAAAATATCATCATTTAATTTATAGGAAATCAGTTTTGAAAAATTCA
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATCAGTTTTGAAAAATTCA
*
1039 TTCATTTTCATGAGTTTTTCATTTTTTC
66 TTTATTTTCATGAGTTTTTCATTTTTTC
1067 TTACCCTTGT
Statistics
Matches: 215, Mismatches: 36, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
164 19 0.09
165 67 0.31
166 123 0.57
167 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.47
Consensus pattern (166 bp):
CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATCAGTTTTGAAAAATTCA
TTTATTTTCATGAGTTTTTCATTTTTTCCTTAAAACTCTCCTGTTTTCAAAAAACTAAGTTTTCT
ATTCCATAAAAGTTTTTGCGAGGAGGTTTCTCAGTT
Found at i:1598 original size:16 final size:15
Alignment explanation
Indices: 1567--1600 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1557 ATTAAATGAT
*
1567 ATGAAAGAAAATAAA
1 ATGAAAGAAAACAAA
1582 ATGAAAGAAAAACAAA
1 ATGAAAG-AAAACAAA
1598 ATG
1 ATG
1601 GAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (15 bp):
ATGAAAGAAAACAAA
Found at i:1723 original size:10 final size:10
Alignment explanation
Indices: 1705--1748 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
1695 TTTGGCAAGT
*
1705 AAGAAAAAAA
1 AAGAGAAAAA
1715 AAGAGAAAAA
1 AAGAGAAAAA
1725 AAGAGAGAAAA
1 AAGAGA-AAAA
*
1736 AAAAGAAAGAA
1 AAGAGAAA-AA
1747 AA
1 AA
1749 AAGAGAGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAGAAAAA
Found at i:1723 original size:12 final size:12
Alignment explanation
Indices: 1706--1754 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
1696 TTGGCAAGTA
1706 AGAAAAAAAAAG
1 AGAAAAAAAAAG
*
1718 AGAAAAAAAGAG
1 AGAAAAAAAAAG
1730 AG-AAAAAAAAG
1 AGAAAAAAAAAG
*
1741 A-AAGAAAAAAG
1 AGAAAAAAAAAG
1752 AGA
1 AGA
1755 GTAAAAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 18 0.56
12 14 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:1726 original size:13 final size:13
Alignment explanation
Indices: 1708--1750 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1698 GGCAAGTAAG
1708 AAAAAAAAAGAG-
1 AAAAAAAAAGAGA
*
1720 AAAAAAAGAGAGA
1 AAAAAAAAAGAGA
1733 AAAAAAAGAA-AGA
1 AAAAAAA-AAGAGA
1746 AAAAA
1 AAAAA
1751 GAGAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 15 0.56
14 1 0.04
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAGA
Found at i:1733 original size:24 final size:24
Alignment explanation
Indices: 1709--1761 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1699 GCAAGTAAGA
*
1709 AAAAAAAAGAGA-AAAAAAGAGAG
1 AAAAAAAAGAAAGAAAAAAGAGAG
1732 AAAAAAAAGAAAGAAAAAAGAGAG
1 AAAAAAAAGAAAGAAAAAAGAGAG
*
1756 TAAAAA
1 AAAAAA
1762 GGAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAAAAAAGAAAGAAAAAAGAGAG
Found at i:1761 original size:13 final size:12
Alignment explanation
Indices: 1706--1761 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
1696 TTGGCAAGTA
*
1706 AGAAAAAAAAAG
1 AGAAAAAAAGAG
1718 AGAAAAAAAGAG
1 AGAAAAAAAGAG
1730 AGAAAAAAA-AG
1 AGAAAAAAAGAG
*
1741 AAAGAAAAAAGAG
1 AGA-AAAAAAGAG
*
1754 AGTAAAAA
1 AGAAAAAA
1762 GGAAAAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 4 0.11
12 31 0.82
13 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAGAG
Found at i:2467 original size:13 final size:13
Alignment explanation
Indices: 2435--2467 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2425 CCCAAAAATT
2435 CAATGTATCAATA
1 CAATGTATCAATA
*
2448 C-ATGTATCAGTA
1 CAATGTATCAATA
2460 CAATGTAT
1 CAATGTAT
2468 AAATGTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:4932 original size:13 final size:13
Alignment explanation
Indices: 4914--4939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4904 AATTTTTTGG
4914 TGTATCGATACAT
1 TGTATCGATACAT
4927 TGTATCGATACAT
1 TGTATCGATACAT
4940 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7469 original size:20 final size:20
Alignment explanation
Indices: 7444--7484 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7434 GAGGAAGGTT
7444 CGAACTGTTCATATAATCCC
1 CGAACTGTTCATATAATCCC
7464 CGAACTGTTCATATAATCCC
1 CGAACTGTTCATATAATCCC
7484 C
1 C
7485 CTGTATCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (20 bp):
CGAACTGTTCATATAATCCC
Found at i:9601 original size:15 final size:15
Alignment explanation
Indices: 9581--9611 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9571 ATTTCGTTTG
*
9581 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
9596 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
9611 G
1 G
9612 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:13699 original size:13 final size:13
Alignment explanation
Indices: 13681--13706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13671 AATTTTTTGG
13681 TGTATCGATACAT
1 TGTATCGATACAT
13694 TGTATCGATACAT
1 TGTATCGATACAT
13707 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21754 original size:310 final size:309
Alignment explanation
Indices: 20763--21885 Score: 993
Period size: 312 Copynumber: 3.6 Consensus size: 309
20753 TAGTGTCCAC
* * * * *
20763 TAGGGGTATTGTGTACTT-TTACGTCGAAGGTATCCCCTAGGAGCATTTTCATAATTTTCTAGAA
1 TAGGGGTATCGGGTA-TTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAA
* * * * * * * * * * **
20827 CCAACTCCTACGTCGTCGTC-GAGTTTGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCAT
65 TCGAGTCCTAGGTTGTC-ACAGGGTCT-CTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCAT
** * * * * * * * *
20891 CCTTTCTATAATACTTTTTAAGTCCTTTAA-AGATACCGGGATACTTTCACGCCAAAGGTATACC
128 CCCATCTCTAATCCTTTTTAAGTCTTTTAAGGGATACCGAGATACTTTCACGTCGAAGGTATACT
** ** * * * * * * * *
20955 CATAGGGATATTTTGGTAATTTTTTAGAACCAATTCCTAGGTCGTCATTAAGTTTGCTTTTATGC
193 CATAGGGGCATTTTCATAATTTCTTAAAACCAAGTCCTAGATCATCACTAGGTTTGATTTTATGC
* * *
21020 TGAAGATGGGTATTTAGGATAGGTTCATCCTACATATAATTCTTTGTAAGTCCTT
258 TAAAG-TGGGTATTTAGGATAGGTTCATCC--CATCTAATTCTTTTTAAGTCCTT
* * ** * *
21075 TAGGGGCATCGGGTACTGTTATATCGAAGGTATCCCCTAGGGATATTTTCATAATTTTCCAAAAT
1 TAGGGGTATCGGGTATTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAAT
* *
21140 CGAGTCCTAAGTTGTCACTA-GGTCTGCTTTTATGCCAAATGTGGGCATTTAGGATAGGCTT-AT
66 CGAGTCCTAGGTTGTCAC-AGGGTCT-CTTTTATGCCAAAAGTGGGCATTTAGGATAGG-TTCAT
* * *
21203 CCCATCTCTAATCCTTTTTAAGTCCTTT-AGGGATACCGGGATACTTTCACGTTGAAGGTATACT
128 CCCATCTCTAATCCTTTTTAAGTCTTTTAAGGGATACCGAGATACTTTCACGTCGAAGGTATACT
** * * * **
21267 CATAGGGGCATTTTGGTAATTTCTTAAAACCAATTCCTAGGTCGTCACTAGG-TCCATTTT-TGT
193 CATAGGGGCATTTTCATAATTTCTTAAAACCAAGTCCTAGATCATCACTAGGTTTGATTTTATG-
* *
21330 GTCAAAGGTGGGTATTTAGGGTAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTT
257 CT-AAA-GTGGGTATTTAGGATAGGTTCATCCCATC--TAATTCTTTTTAAGTCCTT
* * *
21387 TAGGGGTATCAGGTACTT-TTACGTCAAAGGTATCTCCC-AAGGGTATTTTCATAATTTTCTAAA
1 TAGGGGTATCGGGTA-TTGTTACGTCGAAGGTATC-CCCTAGGGGTATTTTCATAATTTTCTAAA
* * * *
21450 ACCGAGTTCTAGGTTGACACAGGGTCCTTTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCAT
64 ATCGAGTCCTAGGTTGTCACAGGGT-CTCTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCAT
* * * *
21515 CCCATCTCTAATCCTTTTCAAGTTTTTTAAGGG-TATC-AGATACCTTT-ACGTCGAAGGTATCC
128 CCCATCTCTAATCCTTTTTAAGTCTTTTAAGGGATACCGAGATA-CTTTCACGTCGAAGGTATAC
* * * * * *
21577 TC-TAGGGGCATTTTCATAATTT-TTCATACCCGAGTCGTAGATTATCA-TCGGGTTTGATTTTA
192 TCATAGGGGCATTTTCATAATTTCTT-AAAACCAAGTCCTAGATCATCACT-AGGTTTGATTTTA
* * * *
21639 TGCTAAATGTGGGCATTTAGGATAGGTTAATCCCATCTCCAATCCTTTTTAAGTCTTT
255 TGCTAAA-GTGGGTATTTAGGATAGGTTCATCCCATCT--AATTCTTTTTAAGTCCTT
* * ** * *
21697 TAAGGGTATTGGGTATTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTGGTAATTTTTTACAAT
1 TAGGGGTATCGGGTATTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAAT
* * * * * * *
21762 TGAGTCCTAGGTTGTCACCGGGTTCGCTTCTATGCCTAAGGTGAGCATTTAGGATAGGTTCATCC
66 CGAGTCCTAGGTTGTCACAGGG-TCTCTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCATCC
* * * * **
21827 CATCTTTAGTCTTTTTTAAGTCTTTTAA-GGTTACCGAGATACTTTCACACCGAAGGTAT
130 CATCTCTAATCCTTTTTAAGTCTTTTAAGGGATACCGAGATACTTTCACGTCGAAGGTAT
21886 CTTTTAAGGG
Statistics
Matches: 666, Mismatches: 116, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
308 1 0.00
309 10 0.02
310 215 0.32
311 55 0.08
312 372 0.56
313 13 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (309 bp):
TAGGGGTATCGGGTATTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTCTAAAAT
CGAGTCCTAGGTTGTCACAGGGTCTCTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCATCCC
ATCTCTAATCCTTTTTAAGTCTTTTAAGGGATACCGAGATACTTTCACGTCGAAGGTATACTCAT
AGGGGCATTTTCATAATTTCTTAAAACCAAGTCCTAGATCATCACTAGGTTTGATTTTATGCTAA
AGTGGGTATTTAGGATAGGTTCATCCCATCTAATTCTTTTTAAGTCCTT
Found at i:21854 original size:155 final size:155
Alignment explanation
Indices: 20766--21856 Score: 871
Period size: 155 Copynumber: 7.0 Consensus size: 155
20756 TGTCCACTAG
* * * * * * *
20766 GGGTATTGTGTACTTTTACGTCGAAGGTATCCCCTAGGAGCATTTTCATAATTTTCTAGAACCAA
1 GGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAAAACCGA
* * * ** * * * ** **
20831 CTCCTACGTCGTCGTCGAGTTTGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCTTT
66 GTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCAT
* *
20896 CTATAATACTTTTTAAGTCCTTTAA
131 CTCTAATCCTTTTTAAGTCCTTTAA
* * * * * * * * ** *
20921 AGATACCGGGATACTTTCACGCCAAAGGTATACCCATAGGGATATTTTGGTAATTTTTTAGAACC
1 GGGTATCGGG-TACTTTTACGTCGAAGGTAT-CCCCTAGGGGTATTTTCATAATTTTTTAAAACC
* * * **** * ** * * *
20986 AATTCCTAGGTCGTCATTAAGTTTGCTTTTATGCTGAAGATGGGTATTTAGGATAGGTTCATCCT
64 GAGTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCC
* * * *
21051 A-CATATAATTCTTTGTAAGTCCTTTAG
129 ATC-TCTAATCCTTTTTAAGTCCTTTAA
* * ** * ** *
21078 GGGCATCGGGTACTGTTATATCGAAGGTATCCCCTAGGGATATTTTCATAATTTTCCAAAATCGA
1 GGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAAAACCGA
* ** *
21143 GTCCTAAGTTGTCACTAGG-TCTGCTTTTATGCCAAATGTGGGCATTTAGGATAGGCTT-ATCCC
66 GTCCTAGGTTGTCACCGGGTTC-GCTTTTATGCCAAAGGTGGGCATTTAGGATAGG-TTCATCCC
21206 ATCTCTAATCCTTTTTAAGTCCTTT-A
129 ATCTCTAATCCTTTTTAAGTCCTTTAA
* * * * * * ** *
21232 GGGATACCGGGATACTTTCACGTTGAAGGTATACTCATAGGGGCATTTTGGTAATTTCTTAAAAC
1 GGG-TATCGGG-TACTTTTACGTCGAAGGTAT-CCCCTAGGGGTATTTTCATAATTTTTTAAAAC
* * * ** * ** * * * *
21297 CAATTCCTAGGTCGTCACTAGGTCCATTTTTGTGTCAAAGGTGGGTATTTAGGGTAGGTTCATCC
63 CGAGTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCC
* * *
21362 CATCTATAATTCTTTTTAAGTCCTTTAG
128 CATCTCTAATCCTTTTTAAGTCCTTTAA
* * * *
21390 GGGTATCAGGTACTTTTACGTCAAAGGTATCTCCC-AAGGGTATTTTCATAATTTTCTAAAACCG
1 GGGTATCGGGTACTTTTACGTCGAAGGTATC-CCCTAGGGGTATTTTCATAATTTTTTAAAACCG
* * * * ** *
21454 AGTTCTAGGTTGACACAGGGTCCTTTTTTATGCCAAAAGTGGGCATTTAGGATAGGTTCATCCCA
65 AGTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCA
* **
21519 TCTCTAATCCTTTTCAAGTTTTTTAA
130 TCTCTAATCCTTTTTAAGTCCTTTAA
* * * * * * * *
21545 GGGTATCAGATACCTTTACGTCGAAGGTATCCTCTAGGGGCATTTTCATAATTTTTCATACCCGA
1 GGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAAAACCGA
* * * * * * * * *
21610 GTCGTAGATTATCATCGGGTTTGATTTTATGCTAAATGTGGGCATTTAGGATAGGTTAATCCCAT
66 GTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCAT
* *
21675 CTCCAATCCTTTTTAAGTCTTTTAA
131 CTCTAATCCTTTTTAAGTCCTTTAA
* ** * **
21700 GGGTATTGGGTA-TTGTTACGTCGAAGGTATCCCCTAGGGGTATTTTGGTAATTTTTTACAATTG
1 GGGTATCGGGTACTT-TTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAAAACCG
* * *
21764 AGTCCTAGGTTGTCACCGGGTTCGCTTCTATGCCTAAGGTGAGCATTTAGGATAGGTTCATCCCA
65 AGTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCA
* * * *
21829 TCTTTAGTCTTTTTTAAGTCTTTTAA
130 TCTCTAATCCTTTTTAAGTCCTTTAA
21855 GG
1 GG
21857 TTACCGAGAT
Statistics
Matches: 740, Mismatches: 181, Indels: 30
0.78 0.19 0.03
Matches are distributed among these distances:
154 7 0.01
155 450 0.61
156 70 0.09
157 209 0.28
158 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (155 bp):
GGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGTATTTTCATAATTTTTTAAAACCGA
GTCCTAGGTTGTCACCGGGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCAT
CTCTAATCCTTTTTAAGTCCTTTAA
Found at i:26248 original size:20 final size:20
Alignment explanation
Indices: 26223--26276 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
26213 TTTTGCCTGC
*
26223 ATGTATCGATACATTTCTTA
1 ATGTATCGATACATTTCATA
26243 ATGTATCGATACATTTCATA
1 ATGTATCGATACATTTCATA
*
26263 GTGTATCGATACAT
1 ATGTATCGATACAT
26277 CTGGGCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTCATA
Found at i:26332 original size:13 final size:13
Alignment explanation
Indices: 26314--26338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26304 CAAAGATCAG
26314 TGTATCGATACAA
1 TGTATCGATACAA
26327 TGTATCGATACA
1 TGTATCGATACA
26339 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26351 original size:21 final size:21
Alignment explanation
Indices: 26325--26401 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
26315 GTATCGATAC
26325 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
26346 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
***
26367 AATGTATCGATACATTTTCTT
1 AATGTATCGATACATTTGAGT
*
26388 GATGTATCGATACA
1 AATGTATCGATACA
26402 AATCGTTGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:26410 original size:21 final size:21
Alignment explanation
Indices: 26368--26410 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
26358 CATTTGAGTA
**
26368 ATGTATCGATACATTTTCTTG
1 ATGTATCGATACATAATCTTG
26389 ATGTATCGATACA-AATCGTTG
1 ATGTATCGATACATAATC-TTG
26410 A
1 A
26411 ATTTCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATAATCTTG
Found at i:27210 original size:53 final size:52
Alignment explanation
Indices: 27139--28091 Score: 374
Period size: 49 Copynumber: 18.8 Consensus size: 52
27129 AAGATGAATG
* * * * *
27139 CCAATGTGCTGAGACAAGGCCAGTGACATTGGGCTTTAAAGATGACGAAGGCA
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGAC-TTAAAGATGAAGAAGGCA
* * * **
27192 CCAATATGTTGATTCAAGGCCAGCAACATTGGACTTAAA-A--AAGAAGGTG
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* *
27241 CCAATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-ATG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * *
27290 CCAATGTGCTGATTCAAGGCCAGCTACAATGGACTTAAAGGAGATGATGAGAAAAGTG-A
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTT-AA--AGATGA--AG--AAG-GCA
** * * * * * *
27349 TAAAGATGCCAATGTGCTGATTCACGGTCAGCGATATTGGGCTTAAAGATGAGAAAAAGG-A
1 -CCA-AT----A--TGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAGAAGGCA
* * * * * * * *
27410 TGTCAATATGCTGATTCACGGTCAGCTACATTAGACTTGAAGATG-AGAA-GAA
1 --CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * * * **
27462 TGCCAATGTGTTGATTCAAGGCTAGCTACATTGGACTTAAAGAT--A-AAGGTG
1 --CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * *
27513 CCAATATGCCGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AA-AAGTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * **
27562 CCAATATGATGATTCAAGGCCAGCTACATTGGACTTAAAGAT--A-AAGGTG
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * *
27611 CCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAG--GTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * * *
27660 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG-ATG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * *
27709 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG--GTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * * * *
27758 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACATAAAGGTCAAG--GTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * *
27807 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG--GTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * * * * *
27856 CCAATGTGCTGATTCAAGGCTAGCAACATTGGATTTAAAGGTGAATG--TG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GAAGGCA
* * * * * * * * *
27905 CCAATGTACTTATTCAAGGCTAGCTACGTTGGACTTAAAGGTGAAG-ATG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * *
27954 CCAATGTGCTGATTCAAGACCAGCTACATTGGACTTAAAGATGAAG--GTG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAG-GCA
* * * * *
28003 CCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAG-ATG--
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
* * * *
28052 CCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAG
28092 GTGCCAATGT
Statistics
Matches: 772, Mismatches: 88, Indels: 84
0.82 0.09 0.09
Matches are distributed among these distances:
47 1 0.00
48 5 0.01
49 584 0.76
50 11 0.01
51 9 0.01
52 54 0.07
53 28 0.04
54 2 0.00
55 31 0.04
57 2 0.00
58 1 0.00
60 1 0.00
61 6 0.01
62 4 0.01
64 5 0.01
66 4 0.01
67 24 0.03
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAAGAAGGCA
Found at i:27329 original size:49 final size:49
Alignment explanation
Indices: 27088--27329 Score: 236
Period size: 49 Copynumber: 4.9 Consensus size: 49
27078 TGAGAAAATG
* * * * * *
27088 GATGTCAATGTGCTGATTCACGGTCAGCAATATTAGACTTGAAGATG-A
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAA
** ** * *
27136 -ATGCCAATGTGCTGAGACAAGGCCAGTGACATTGGGCTTTAAAGATGAC
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC-TTAAAGATGAA
* * * * *
27185 GAAGGCACCAATATGTTGATTCAAGGCCAGCAACATTGGACTTAAAAAAGAA
1 G-ATG--CCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAA
* * *
27237 GGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAA
* *
27286 GATGCCAATGTGCTGATTCAAGGCCAGCTACAATGGACTTAAAG
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
27330 GAGATGATGA
Statistics
Matches: 153, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
47 27 0.18
48 8 0.05
49 79 0.52
51 3 0.02
52 9 0.06
53 27 0.18
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAA
Found at i:27538 original size:49 final size:49
Alignment explanation
Indices: 27355--28179 Score: 1044
Period size: 49 Copynumber: 16.9 Consensus size: 49
27345 GTGATAAAGA
* * * * *
27355 TGCCAATGTGCTGATTCACGGTCAGCGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---AAGG
* * * * * * *
27409 ATGTCAATATGCTGATTCACGGTCAGCTACATTAGACTTGAAGATGAGAAGAA
1 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--GAAG-G
* * *
27462 TGCCAATGTGTTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
27511 TGCCAATATGCCGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
27560 TGCCAATATGATGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
27609 TGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
27658 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
27707 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
27756 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACATAAAGGTCAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
27805 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * * *
27854 TGCCAATGTGCTGATTCAAGGCTAGCAACATTGGATTTAAAGGTGAATG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * * * *
27903 TGCCAATGTACTTATTCAAGGCTAGCTACGTTGGACTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
27952 TGCCAATGTGCTGATTCAAGACCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
28001 TGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
28050 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
28093 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
28136 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
28180 TGTTAGGATC
Statistics
Matches: 698, Mismatches: 66, Indels: 19
0.89 0.08 0.02
Matches are distributed among these distances:
43 82 0.12
45 1 0.00
47 1 0.00
49 532 0.76
50 3 0.00
52 39 0.06
55 40 0.06
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:28092 original size:22 final size:22
Alignment explanation
Indices: 28067--28135 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
28057 GTGCTGATTC
28067 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
28089 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
28110 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
28132 AAGG
1 AAGG
28136 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:28097 original size:24 final size:24
Alignment explanation
Indices: 28070--28140 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
28060 CTGATTCAAG
28070 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
28094 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
28113 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
28137 GCCA
1 GCCA
28141 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:28113 original size:21 final size:21
Alignment explanation
Indices: 28089--28156 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
28079 ATTGGACTTA
28089 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
28110 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
28132 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
28153 AAGG
1 AAGG
28157 CCAGCGACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:28580 original size:13 final size:13
Alignment explanation
Indices: 28562--28587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28552 TACACCAAGT
28562 ATGTATCGATACA
1 ATGTATCGATACA
28575 ATGTATCGATACA
1 ATGTATCGATACA
28588 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28583 original size:32 final size:33
Alignment explanation
Indices: 28544--28607 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
28534 TAGCCAAACT
* **
28544 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
28576 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
28608 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:30839 original size:21 final size:21
Alignment explanation
Indices: 30806--30850 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30796 TTGCAAGTTG
*
30806 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
30828 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
30848 AAA
1 AAA
30851 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:32673 original size:15 final size:15
Alignment explanation
Indices: 32653--32683 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32643 TAAAAATGTC
*
32653 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
32668 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
32683 C
1 C
32684 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:34780 original size:13 final size:13
Alignment explanation
Indices: 34762--34800 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
34752 ACATTTTTCC
34762 TTGTATCGATACA
1 TTGTATCGATACA
34775 TTGTATCGATACA
1 TTGTATCGATACA
34788 TTGTATCGATACA
1 TTGTATCGATACA
34801 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:37362 original size:13 final size:13
Alignment explanation
Indices: 37344--37369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37334 TACACCAAGT
37344 ATGTATCGATACA
1 ATGTATCGATACA
37357 ATGTATCGATACA
1 ATGTATCGATACA
37370 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37367 original size:32 final size:33
Alignment explanation
Indices: 37326--37389 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
37316 TAGCCAAACT
* **
37326 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
37358 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
37390 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:37456 original size:20 final size:19
Alignment explanation
Indices: 37422--37461 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
37412 GGCTATATTT
*
37422 TCAAATATTTATCGATACA
1 TCAAAAATTTATCGATACA
37441 TCAAAAATTGTATCGATACA
1 TCAAAAATT-TATCGATACA
37461 T
1 T
37462 TTACATGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (19 bp):
TCAAAAATTTATCGATACA
Found at i:38193 original size:49 final size:49
Alignment explanation
Indices: 38121--38416 Score: 470
Period size: 49 Copynumber: 6.1 Consensus size: 49
38111 ATAAGCTTTC
*
38121 AAAGATGAAGATTCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
38170 AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
38219 AAAGGTGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
38268 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
38317 AAAGATGAAGATTCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * *
38366 AAAGAT-AATGGTGCCAATATG-TGATTCAAGGCCAGCAATATTGGGCTT
1 AAAGATGAA-GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
38414 AAA
1 AAA
38417 AGGGTTGCCA
Statistics
Matches: 230, Mismatches: 16, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
48 29 0.13
49 201 0.87
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:38494 original size:32 final size:33
Alignment explanation
Indices: 38443--38560 Score: 127
Period size: 32 Copynumber: 3.6 Consensus size: 33
38433 TGTGTGGGCT
38443 TTTGAAAAGAAAAAGGTGCCACGGAGTTATGAAC
1 TTTG-AAAGAAAAAGGTGCCACGGAGTTATGAAC
* *
38477 -TTGAAAGGAAAAGGTGCCACGGAGTTATGGAC
1 TTTGAAAGAAAAAGGTGCCACGGAGTTATGAAC
* ** * *
38509 TTTG-AAGAAAAAGATGCCATTGAGTCATGGAC
1 TTTGAAAGAAAAAGGTGCCACGGAGTTATGAAC
38541 TTTG-AAG-AAAAGGATGCCAC
1 TTTGAAAGAAAAAGG-TGCCAC
38561 TTAGTCGTGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.07
32 62 0.85
33 6 0.08
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (33 bp):
TTTGAAAGAAAAAGGTGCCACGGAGTTATGAAC
Found at i:38559 original size:64 final size:64
Alignment explanation
Indices: 38504--38658 Score: 229
Period size: 66 Copynumber: 2.4 Consensus size: 64
38494 CACGGAGTTA
*
38504 TGGACTTTGAAGAAAAAGATGCCATTGAGTCATGGACTTTGAAGAAAAGGATGCCACTTAGTCG
1 TGGACTTTGAAGAAAAAGATGCCATTGAGTCATGGACTTTGAAGAAAAGGATGCCACTAAGTCG
* * *
38568 TGGACTTTGAGAAGAAAAAAATGCCATTGAGTCATGGACTTGGAAGAAAAAAGATGCCACTAAGT
1 TGGACTTT--GAAGAAAAAGATGCCATTGAGTCATGGACTTTGAAG-AAAAGGATGCCACTAAGT
38633 CG
63 CG
* *
38635 TGGACTTGGAAGAAAAGGATGCCA
1 TGGACTTTGAAGAAAAAGATGCCA
38659 CTAAGTTGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 8 0.10
65 14 0.17
66 34 0.42
67 25 0.31
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (64 bp):
TGGACTTTGAAGAAAAAGATGCCATTGAGTCATGGACTTTGAAGAAAAGGATGCCACTAAGTCG
Found at i:38572 original size:32 final size:32
Alignment explanation
Indices: 38504--38672 Score: 189
Period size: 32 Copynumber: 5.2 Consensus size: 32
38494 CACGGAGTTA
*
38504 TGGACTTTGAAGAAAAAGATGCCA-TTGAGTCA
1 TGGACTTTGAAGAAAAAGATGCCACTT-AGTCG
*
38536 TGGACTTTGAAGAAAAGGATGCCACTTAGTCG
1 TGGACTTTGAAGAAAAAGATGCCACTTAGTCG
* *
38568 TGGACTTTGAGAAGAAAAAAATGCCA-TTGAGTCA
1 TGGACTTT--GAAGAAAAAGATGCCACTT-AGTCG
* *
38602 TGGACTTGGAAGAAAAAAGATGCCACTAAGTCG
1 TGGACTTTGAAG-AAAAAGATGCCACTTAGTCG
* * * *
38635 TGGACTTGGAAGAAAAGGATGCCACTAAGTTG
1 TGGACTTTGAAGAAAAAGATGCCACTTAGTCG
38667 TGGACT
1 TGGACT
38673 CTGAGAAGAG
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
32 63 0.52
33 31 0.26
34 26 0.22
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (32 bp):
TGGACTTTGAAGAAAAAGATGCCACTTAGTCG
Found at i:38697 original size:99 final size:98
Alignment explanation
Indices: 38498--38681 Score: 278
Period size: 99 Copynumber: 1.9 Consensus size: 98
38488 AGGTGCCACG
* * * * * *
38498 GAGTTATGGACTTTGAAGAAAAAGATGCCATTGAGTCATGGACTTTGAAGAAAAGGATGCCACTT
1 GAGTCATGGACTTGGAAGAAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAGGATGCCACTA
*
38563 AGTCGTGGACTTTGAGAAGAAAAAAATGCCATT
66 AGTCGTGGACTCTGAGAAGAAAAAAATGCCATT
*
38596 GAGTCATGGACTTGGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACT
1 GAGTCATGGACTTGGAAG-AAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAGGATGCCACT
*
38661 AAGTTGTGGACTCTGAGAAGA
65 AAGTCGTGGACTCTGAGAAGA
38682 GATTTGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
98 16 0.21
99 60 0.79
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (98 bp):
GAGTCATGGACTTGGAAGAAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAGGATGCCACTA
AGTCGTGGACTCTGAGAAGAAAAAAATGCCATT
Found at i:39647 original size:14 final size:14
Alignment explanation
Indices: 39630--39664 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
39620 TTCCTCTCTC
39630 TCTTTTTTTTTCTT
1 TCTTTTTTTTTCTT
*
39644 TCTTTTTTTTTGTT
1 TCTTTTTTTTTCTT
39658 T-TTTTTT
1 TCTTTTTT
39665 GTGTTGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (14 bp):
TCTTTTTTTTTCTT
Found at i:39933 original size:28 final size:26
Alignment explanation
Indices: 39888--39940 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
39878 TGTTGTTCCC
*
39888 TTTTTGATTTTGTCTTTGCACTCTTTTT
1 TTTTTGATTTTATCTTTG-ACT-TTTTT
* *
39916 TTTTTGGTTTTATTTTTGACTTTTT
1 TTTTTGATTTTATCTTTGACTTTTT
39941 CATCATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 3 0.14
28 15 0.68
ACGTcount: A:0.08, C:0.09, G:0.11, T:0.72
Consensus pattern (26 bp):
TTTTTGATTTTATCTTTGACTTTTTT
Found at i:41519 original size:20 final size:20
Alignment explanation
Indices: 41494--41531 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41484 TCCCGTGTAA
41494 ATGTATCGATACAAATTTTG
1 ATGTATCGATACAAATTTTG
*
41514 ATGTATCGATACATATTT
1 ATGTATCGATACAAATTT
41532 GAAAATGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACAAATTTTG
Found at i:41676 original size:21 final size:21
Alignment explanation
Indices: 41650--41725 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
41640 CTGCCAAGAA
*
41650 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
41671 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
41691 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
41712 ATGTATCGATACAT
1 ATGTATCGATACAT
41726 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:41696 original size:20 final size:20
Alignment explanation
Indices: 41671--41743 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
41661 CATCTTTTTT
41671 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
41691 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
41712 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
41732 ATGTATCGATAC
1 ATGTATCGATAC
41744 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:41707 original size:41 final size:41
Alignment explanation
Indices: 41650--41743 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
41640 CTGCCAAGAA
*
41650 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
41691 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
41732 ATGTATCGATAC
1 ATGTATCGATAC
41744 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:44215 original size:13 final size:13
Alignment explanation
Indices: 44197--44235 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
44187 ATAATCACCC
*
44197 TGTATCGATACAG
1 TGTATCGATACAA
44210 TGTATCGATACAA
1 TGTATCGATACAA
44223 TGTATCGATACAA
1 TGTATCGATACAA
44236 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44246 original size:20 final size:20
Alignment explanation
Indices: 44221--44299 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
44211 GTATCGATAC
44221 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
44241 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
44266 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
44286 CATGTATCGATACA
1 AATGTATCGATACA
44300 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:44450 original size:8 final size:8
Alignment explanation
Indices: 44437--44468 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
44427 CATCATTCAA
44437 CACAAAAT
1 CACAAAAT
44445 CACAAAAT
1 CACAAAAT
44453 CACAAAAT
1 CACAAAAT
44461 CACAAAAT
1 CACAAAAT
44469 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:51965 original size:13 final size:13
Alignment explanation
Indices: 51947--51971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51937 CATTTTATGG
51947 TGTATCGATACAA
1 TGTATCGATACAA
51960 TGTATCGATACA
1 TGTATCGATACA
51972 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:51987 original size:32 final size:33
Alignment explanation
Indices: 51924--51991 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
51914 CGTTACAAGC
**
51924 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
51957 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
51989 CAA
1 CAA
51992 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:52087 original size:20 final size:20
Alignment explanation
Indices: 52045--52094 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
52035 TCTTTTTCAA
*
52045 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
52065 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
52085 GTATCGATAC
1 GTATCGATAC
52095 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:52255 original size:19 final size:19
Alignment explanation
Indices: 52231--52276 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
52221 AACTAGAAAA
52231 CATTTGGTGAATCAAGAAT
1 CATTTGGTGAATCAAGAAT
52250 CATTTGGTGAATCAAGAAT
1 CATTTGGTGAATCAAGAAT
52269 CATTTGGT
1 CATTTGGT
52277 ACAAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (19 bp):
CATTTGGTGAATCAAGAAT
Found at i:58465 original size:52 final size:52
Alignment explanation
Indices: 58359--58474 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
58349 TTTGCCTGCA
* **
58359 TGTATCGATACATCAGGGCAAATTGGCCTGTATGTATCGATACATTTCATAG
1 TGTATCGATACATCAGGGCAAATTGGCCTGCATGTATCGATACATAACATAG
* * *
58411 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAG
1 TGTATCGATACATCAGGGCAAATTGGCCTGCATGTATCGATACATAACAT-AG
*
58463 TGTATCAATACA
1 TGTATCGATACA
58475 ATGTATCGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATCAGGGCAAATTGGCCTGCATGTATCGATACATAACATAG
Found at i:58564 original size:19 final size:19
Alignment explanation
Indices: 58540--58622 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
58530 AGTGATACAT
58540 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
58559 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
58572 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
58591 TGTATCGATATAACACTTA
1 TGTATCGATACAACACTTA
*
58610 TTTATCGATACAA
1 TGTATCGATACAA
58623 ATCGTTGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 6 0.11
18 1 0.02
19 38 0.69
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:58574 original size:32 final size:32
Alignment explanation
Indices: 58533--58600 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
58523 GCTTCATAGT
58533 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
58565 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
58597 GATA
1 GATA
58601 TAACACTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:58577 original size:13 final size:13
Alignment explanation
Indices: 58559--58583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58549 ACAACACTTA
58559 TGTATCGATACAT
1 TGTATCGATACAT
58572 TGTATCGATACA
1 TGTATCGATACA
58584 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61334 original size:16 final size:15
Alignment explanation
Indices: 61284--61334 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
61274 TTTATTATTT
61284 CAAAAAAAAAGTTGG
1 CAAAAAAAAAGTTGG
61299 CAAATAAAAATA-TTGG
1 CAAA-AAAAA-AGTTGG
*
61315 CAAAAAAAAGGTTGG
1 CAAAAAAAAAGTTGG
61330 ACAAA
1 -CAAA
61335 CTAGCAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 13 0.42
16 17 0.55
17 1 0.03
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.16
Consensus pattern (15 bp):
CAAAAAAAAAGTTGG
Found at i:66531 original size:50 final size:50
Alignment explanation
Indices: 66415--66559 Score: 229
Period size: 50 Copynumber: 2.9 Consensus size: 50
66405 TTTTAACTAG
*
66415 ATGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGT-AAAAGACAGA
* *
66466 ATGTATCGATACATTGAAGAATGTATCGATACATCT-GAGTAAAAGATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAG-GTAAAAGACAGA
*
66516 ATGTATCGATACATTGAAAAATGTATAGATACATCTAGGTAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAA
66560 ATCTAGCTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
50 50 0.57
51 37 0.43
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGACAGA
Found at i:68789 original size:11 final size:9
Alignment explanation
Indices: 68764--68824 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
68754 GGATGATAAG
68764 AGGAGAGAT
1 AGGAGAGAT
68773 AGGAGAGAT
1 AGGAGAGAT
*
68782 AGTAGAGAT
1 AGGAGAGAT
*
68791 AGGAGGGAT
1 AGGAGAGAT
* *
68800 --GATAG-G
1 AGGAGAGAT
68806 AGGAGAGAT
1 AGGAGAGAT
*
68815 AGGAAAGAT
1 AGGAGAGAT
68824 A
1 A
68825 ATAGAAAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:68793 original size:42 final size:42
Alignment explanation
Indices: 68734--68829 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
68724 TAGCCTTCAA
* *
68734 AGAGAAAGAAGAGATAGGAGGGATGATAAGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAAGAGGAGAGATAGG
*
68776 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAAGAGGAGAGATAGG
* *
68818 AAAGATAATAGA
1 AGAGATAGTAGA
68830 AAGAGAAGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAAGAGGAGAGATAGG
Found at i:68805 original size:12 final size:11
Alignment explanation
Indices: 68744--68818 Score: 68
Period size: 12 Copynumber: 6.8 Consensus size: 11
68734 AGAGAAAGAA
68744 GAGATAGGAGG
1 GAGATAGGAGG
*
68755 GATGATAAGAGG
1 GA-GATAGGAGG
68767 AGAGATAGGA--
1 -GAGATAGGAGG
*
68777 GAGATAGTA--
1 GAGATAGGAGG
68786 GAGATAGGAGG
1 GAGATAGGAGG
68797 GATGATAGGAGG
1 GA-GATAGGAGG
68809 AGAGATAGGA
1 -GAGATAGGA
68819 AAGATAATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
9 16 0.30
11 4 0.07
12 30 0.56
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:68835 original size:24 final size:24
Alignment explanation
Indices: 68785--68835 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
68775 GAGAGATAGT
** * * *
68785 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAAAGATAATAGAAAG
68809 AGAGATAGGAAAGATAATAGAAAG
1 AGAGATAGGAAAGATAATAGAAAG
68833 AGA
1 AGA
68836 AGAGATGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.39, T:0.12
Consensus pattern (24 bp):
AGAGATAGGAAAGATAATAGAAAG
Found at i:68843 original size:42 final size:42
Alignment explanation
Indices: 68755--68849 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
68745 AGATAGGAGG
* * * * * * *
68755 GATGATAAGAGGAGAGATAGGAGAGATAGTAGAGATAGGAGG
1 GATGATAGGAGGAGAGATAGGAAAGATAATAGAAAGAGAAGA
68797 GATGATAGGAGGAGAGATAGGAAAGATAATAGAAAGAGAAGA
1 GATGATAGGAGGAGAGATAGGAAAGATAATAGAAAGAGAAGA
*
68839 GATGACAGGAG
1 GATGATAGGAG
68850 AAAGAGAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.46, C:0.01, G:0.40, T:0.13
Consensus pattern (42 bp):
GATGATAGGAGGAGAGATAGGAAAGATAATAGAAAGAGAAGA
Found at i:73615 original size:20 final size:20
Alignment explanation
Indices: 73590--73628 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
73580 CCAATTTTTC
73590 TGAATAGTATCCATACATTG
1 TGAATAGTATCCATACATTG
*
73610 TGAATAGTATCGATACATT
1 TGAATAGTATCCATACATT
73629 ACTATTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGAATAGTATCCATACATTG
Found at i:74140 original size:34 final size:35
Alignment explanation
Indices: 74077--74143 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
74067 CTAAGTGATT
*
74077 GAGAGGTTCTATTTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
74113 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
74144 TGTTGTATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 9 0.31
37 12 0.41
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:75989 original size:20 final size:21
Alignment explanation
Indices: 75966--76004 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
75956 ACTGTGAGTG
75966 GAGAG-AAAAACAAGAAAAAT
1 GAGAGTAAAAACAAGAAAAAT
* *
75986 GAGAGTGAAAACATGAAAA
1 GAGAGTAAAAACAAGAAAA
76005 GAGTGCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.05, G:0.23, T:0.08
Consensus pattern (21 bp):
GAGAGTAAAAACAAGAAAAAT
Found at i:82338 original size:18 final size:18
Alignment explanation
Indices: 82317--82354 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
82307 TTTCCTCCTC
*
82317 CTATCATCTATCCTTTCT
1 CTATCATCTATCCTATCT
*
82335 CTATTATCTATCCTATCT
1 CTATCATCTATCCTATCT
82353 CT
1 CT
82355 CCTCCTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (18 bp):
CTATCATCTATCCTATCT
Found at i:82417 original size:24 final size:23
Alignment explanation
Indices: 82345--82420 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 23
82335 CTATTATCTA
82345 TCCTATCTCTCCTCCTATCATCC
1 TCCTATCTCTCCTCCTATCATCC
* * *
82368 TTCT-TATCT-CT-AT-TC-TCTC
1 TCCTATCTCTCCTCCTATCATC-C
*
82387 TCTTATCTCTCCTCCTATCATCGC
1 TCCTATCTCTCCTCCTATCATC-C
82411 TCCTATCTCT
1 TCCTATCTCT
82421 TCTTTCTCTT
Statistics
Matches: 38, Mismatches: 9, Indels: 11
0.66 0.16 0.19
Matches are distributed among these distances:
18 2 0.05
19 5 0.13
20 5 0.13
21 4 0.11
22 5 0.13
23 5 0.13
24 12 0.32
ACGTcount: A:0.12, C:0.41, G:0.01, T:0.46
Consensus pattern (23 bp):
TCCTATCTCTCCTCCTATCATCC
Found at i:82429 original size:42 final size:41
Alignment explanation
Indices: 82311--82420 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 41
82301 TTCTTCTTTC
* * *
82311 CTCCTCCTATCATCTATCCTTTCTCTATTATCTATCCTATCT
1 CTCCTCCTATCATC-CTCCTATCTCTATTATCTCTCCTATCT
* * *
82353 CTCCTCCTATCATCCTTCTTATCTCTATTCTCTCTCTTATCT
1 CTCCTCCTATCATCC-TCCTATCTCTATTATCTCTCCTATCT
82395 CTCCTCCTATCATCGCTCCTATCTCT
1 CTCCTCCTATCATC-CTCCTATCTCT
82421 TCTTTCTCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.14, C:0.39, G:0.01, T:0.46
Consensus pattern (41 bp):
CTCCTCCTATCATCCTCCTATCTCTATTATCTCTCCTATCT
Found at i:89033 original size:41 final size:42
Alignment explanation
Indices: 88986--89079 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 42
88976 AAGAAGAAAT
*
88986 AGGAGGGATGAAAAAAGGAAAGATAGAAGAGATAGTAGAGA-
1 AGGAGGGATGAAAAAAGGAAAGATAGAAGAGATAATAGAGAG
* * ** * *
89027 TGGAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGAG
1 AGGAGGGATGAAAAAAGGAAAGATAGAAGAGATAATAGAGAG
89069 AGGAGGGATGA
1 AGGAGGGATGA
89080 TAGGAGGAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 34 0.77
42 10 0.23
ACGTcount: A:0.46, C:0.00, G:0.43, T:0.12
Consensus pattern (42 bp):
AGGAGGGATGAAAAAAGGAAAGATAGAAGAGATAATAGAGAG
Found at i:89072 original size:18 final size:18
Alignment explanation
Indices: 89045--89095 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
89035 TGATAGGAGG
*
89045 AGAGATAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
89063 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
*
89081 AG-GAGGAAGAGAGAT
1 AGAGA-GAGGAGAGAT
89096 GGAGATGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.45, C:0.00, G:0.43, T:0.12
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:89101 original size:42 final size:44
Alignment explanation
Indices: 89017--89100 Score: 127
Period size: 42 Copynumber: 1.9 Consensus size: 44
89007 GATAGAAGAG
*
89017 ATAGTAGAGATGGAGGGATGATAGGAGGAGAGATAGGAGAGATA
1 ATAGTAGAGATGGAGGGATGATAGGAGGAGAGAGAGGAGAGATA
89061 ATAG-AGAGA-GGAGGGATGATAGGAGGAAGAGAGATGGAGA
1 ATAGTAGAGATGGAGGGATGATAGGAGG-AGAGAGA-GGAGA
89101 TGGAAGAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 17 0.46
43 11 0.30
44 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.13
Consensus pattern (44 bp):
ATAGTAGAGATGGAGGGATGATAGGAGGAGAGAGAGGAGAGATA
Found at i:91469 original size:40 final size:40
Alignment explanation
Indices: 91414--91495 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
91404 AAATGTACAT
91414 TTTGTAAGGATCATGTAGTTTTTCTTGGCTTTGTTGTTGA
1 TTTGTAAGGATCATGTAGTTTTTCTTGGCTTTGTTGTTGA
91454 TTTGTAAGGATCATGTAGTTTTTCTTGGCTTTGTTGTTGA
1 TTTGTAAGGATCATGTAGTTTTTCTTGGCTTTGTTGTTGA
91494 TT
1 TT
91496 CTAAAGGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.07, G:0.24, T:0.54
Consensus pattern (40 bp):
TTTGTAAGGATCATGTAGTTTTTCTTGGCTTTGTTGTTGA
Found at i:102566 original size:42 final size:42
Alignment explanation
Indices: 102498--102578 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
102488 TCACTCTTCC
* * * *
102498 ATCTTCTTCTATCCTCCTCTTGTCATCCTTCCTCTCTCTATT
1 ATCTTCTTCTATCCTCCTCCTATCATCCCTCCTATCTCTATT
*
102540 ATCTT-TTCTATCTCTCTTCCTATCATCCCTCCTATCTCT
1 ATCTTCTTCTATC-CTCCTCCTATCATCCCTCCTATCTCT
102579 TCTTCTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 7 0.21
42 26 0.79
ACGTcount: A:0.11, C:0.38, G:0.01, T:0.49
Consensus pattern (42 bp):
ATCTTCTTCTATCCTCCTCCTATCATCCCTCCTATCTCTATT
Found at i:103350 original size:15 final size:15
Alignment explanation
Indices: 103330--103358 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
103320 CGATATTTTT
103330 AAATGAGTGCTTTCC
1 AAATGAGTGCTTTCC
103345 AAATGAGTGCTTTC
1 AAATGAGTGCTTTC
103359 TGACAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (15 bp):
AAATGAGTGCTTTCC
Found at i:107837 original size:23 final size:23
Alignment explanation
Indices: 107807--107855 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
107797 TGTATGTGGA
107807 AACATCCAAGCAGCTTTCCATGT
1 AACATCCAAGCAGCTTTCCATGT
*
107830 AACATCCAAGTAGCTTTCCATGT
1 AACATCCAAGCAGCTTTCCATGT
107853 AAC
1 AAC
107856 CTTTTCATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (23 bp):
AACATCCAAGCAGCTTTCCATGT
Found at i:114566 original size:20 final size:19
Alignment explanation
Indices: 114540--114613 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
114530 TAAAAAGATG
114540 AAATGTATCGATACATTGA
1 AAATGTATCGATACATTGA
* *
114559 AGAATGTATTGATACATTCA
1 A-AATGTATCGATACATTGA
*
114579 TACATGTATCGATACATTGAA
1 -AAATGTATCGATACATTG-A
114600 AAATGTATCGATAC
1 AAATGTATCGATAC
114614 GTCTAGGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
19 1 0.02
20 43 0.93
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (19 bp):
AAATGTATCGATACATTGA
Found at i:115562 original size:28 final size:28
Alignment explanation
Indices: 115527--116358 Score: 772
Period size: 28 Copynumber: 28.8 Consensus size: 28
115517 CACTAATTTG
115527 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
115555 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
115583 TGTGGGCTTGGAAAAGATGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
115611 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115639 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
115667 TGTGGATTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115695 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
115723 TGTGGGCTTT-AAGAAGATGCCACCGAGT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
*
115751 TGTGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
115780 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
115808 TGTGGGCTTTGAAAAGATACCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115836 TGTGGGCTTTGAAAAGGATTCCACCGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
115865 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
115893 TGTGGGCTTTAAAAAGG-TGCCACTGATT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
115921 TGTGGGCTTTGAAATGGGTTGCCACTGGCT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* **
115951 TGTGTGAGCTTTGAAATGGGTTGCCACCAACTT
1 TGTG-G-GCTTTGAAA--GGATGCCACTGAC-T
* * **
115984 GTGTGGGCTTAGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
116016 GTGTGGGCTTTCAAATGAGTTGCCACTGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* *
116048 GTGTGGGCTTTGAAATGATGCCATTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
116077 TATAGGCTTTGAAATGGGTTGTCACTGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* *
116107 TGTGTGGCCTTTGAAATGGGTTGCCACCGACT
1 TGTG-GG-CTTTGAAA--GGATGCCACTGACT
* * * *
116139 TGTGTGCTTGGAAAAGAGGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
116167 TGTGCGCTTTGAAAAGATGCCA-TCGACT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * *
116195 TATGGGCTTTGAAAAGGATGCCACCGAAT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
116224 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
116252 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
116280 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
116308 TATGGGCTTTGATAAGAATGCCACCGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
116337 TATGGACTTTAAAAGGGTGCCA
1 TGTGGGCTTTGAAAGGATGCCA
116359 TGGAGTTATG
Statistics
Matches: 679, Mismatches: 102, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.01
28 398 0.59
29 105 0.15
30 44 0.06
31 5 0.01
32 111 0.16
33 2 0.00
34 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:115802 original size:85 final size:85
Alignment explanation
Indices: 115527--116351 Score: 809
Period size: 85 Copynumber: 9.5 Consensus size: 85
115517 CACTAATTTG
* *
115527 TGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
115592 GGAAAA-GATGCCATTAACT
66 TGAAAAGGATGCCACTGACT
* **
115611 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT-AAAATGATGCCACTGACTTGTGGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCT
115675 TTG-AAAGGATGCCACTGACT
65 TTGAAAAGGATGCCACTGACT
* * * *
115695 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAGAAGATGCCACCGAGTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA-AAGATGCCACTGACTTGTGGGCT
*
115759 TTGAAAAGGATGCCACTAACT
65 TTGAAAAGGATGCCACTGACT
* * * *
115780 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATACCACCGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* *
115845 TGAAAAGGATTCCACCGACT
66 TGAAAAGGATGCCACTGACT
* * * *
115865 TGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGATTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
115930 TGAAATGGGTTGCCACTGGCT
66 TGAAA-AGGATGCCACTGACT
* ** * * * **
115951 TGTGTGAGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTAGAAATGGGTTGCCACCAACTT
1 TGTG-G-GCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * *
116016 GTGTGGGCTTTCAAATGAGTTGCCACTGACTT
57 -TGTGGGCTTTGAAAAG-GATGCCACTGAC-T
* * * * * * *
116048 GTGTGGGCTTTGAAATGATGCCATTGACTTATAGGCTTTGAAATGGGTTGTCACTGACTTGTGTG
1 -TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--AGATGCCACTGACTTGTG-G
* * *
116113 GCCTTTGAAATGGGTTGCCACCGACT
62 G-CTTTGAAA-AGGATGCCACTGACT
* * * * * *
116139 TGTGTGCTTGGAAAAGAGGCCACTGACTTGTGCGCTTTGAAAAGATGCCA-TCGACTTATGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT-GACTTGTGGGCT
* *
116203 TTGAAAAGGATGCCACCGAAT
65 TTGAAAAGGATGCCACTGACT
* * * *
116224 TGTGGACTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
*
116289 TGAAAA-GATGCCACCGACT
66 TGAAAAGGATGCCACTGACT
* * * * *
116308 TATGGGCTTTGATAAGAATGCCACCGACTTATGGACTTT-AAAAG
1 TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAAG
116352 GGTGCCATGG
Statistics
Matches: 618, Mismatches: 98, Indels: 50
0.81 0.13 0.07
Matches are distributed among these distances:
83 7 0.01
84 150 0.24
85 247 0.40
86 25 0.04
87 4 0.01
88 20 0.03
90 48 0.08
91 5 0.01
92 53 0.09
93 2 0.00
94 16 0.03
95 2 0.00
96 33 0.05
97 2 0.00
98 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
TGAAAAGGATGCCACTGACT
Found at i:116367 original size:28 final size:28
Alignment explanation
Indices: 116201--116517 Score: 219
Period size: 28 Copynumber: 11.2 Consensus size: 28
116191 GACTTATGGG
* *
116201 CTTTGAAAAGGATGCCACCGAATTGTGGA
1 CTTT-AAAAGGATGCCACGGAGTTGTGGA
* * *
116230 CTTTGAAAGGATGCCACTGACTTGTAGG-
1 CTTTAAAAGGATGCCACGGAGTTGT-GGA
* * * * *
116258 CTTTGAAAGGGTGCCACTGACTTGTGGG
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* * * *
116286 CTTTGAAAA-GATGCCACCGACTTATGGG
1 CTTT-AAAAGGATGCCACGGAGTTGTGGA
* * * * *
116314 CTTTGATAAGAATGCCACCGACTTATGGA
1 CTTT-AAAAGGATGCCACGGAGTTGTGGA
* * * *
116343 CTTTAAAAGGGTGCCATGGAGTTATGGT
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* * * *
116371 TTTTAAAAAGATACCATGGAGTTGTGGA
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* *
116399 C-TTAAAAGGATGCCACGAAGTTGTAGA
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* *
116426 CTATAAAAGGATGCCACGGAATTGTGGA
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* *
116454 C-TTAAAAGGATGCTACGAAGTTGTGGA
1 CTTTAAAAGGATGCCACGGAGTTGTGGA
* ** *
116481 CTTTGAAAAGAAATGCCATTGAATTGTGGA
1 CTTT-AAAAG-GATGCCACGGAGTTGTGGA
116511 CTTTAAA
1 CTTTAAA
116518 GAGGTCACAA
Statistics
Matches: 236, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
27 47 0.20
28 134 0.57
29 38 0.16
30 17 0.07
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (28 bp):
CTTTAAAAGGATGCCACGGAGTTGTGGA
Found at i:116396 original size:113 final size:113
Alignment explanation
Indices: 115533--116466 Score: 485
Period size: 113 Copynumber: 8.1 Consensus size: 113
115523 TTTGTGTGGG
* ** * * * * *
115533 CTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTGGAAAA
1 CTTTAAAAGGATGCCACTGACTTATAGGCTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAAA
*** * * * * *
115598 GATGCCATTAACTTGTGGGCTTTGAAAAG-ATGCCACTGACTTGTGGG
66 GATGCCACCGACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
* * * * * *
115645 CTTTAAAATGATGCCACTGACTTGT-GGATTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
1 CTTTAAAAGGATGCCACTGACTTATAGG-CTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAA
* * ** * * * *
115709 GGGTGCCACTAACTTGTGGGCTTT-AAGAAG-ATGCCACCGAGTTGTGGG
65 AGATGCCACCGACTTATGGGCTTTGAA-AAGAATGCCACCGAATTATGGA
* * * * * *
115757 CTTTGAAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1 CTTT-AAAAGGATGCCACTGACTTATAGGCTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAA
* * * * * *
115822 AGATACCACCGACTTGTGGGCTTTGAAAAGGATTCCACCGACTTGTGGA
65 AGATGCCACCGACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
* * * * * *
115871 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGATTTGTGGGCTTTGAAAT
1 CTTTAAAAGGATGCCACTGACTTATAGGCTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAA-
* * * * * * ** * *
115936 GGGTTGCCACTGGCTTGTGTGAGCTTTGAAATGGGTTGCCACC-AACTTGTGTGGG
65 -AGATGCCACCGACTTATG-G-GCTTTGAAA-AGAATGCCACCGAA--T-TATGGA
* ** * * * * *
115991 C-TTAGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACTGACTTGTGTGGG
1 CTTTA-AAA--GGATGCCACTGAC-T-TATAGGCTTT-AAA-AAGATACCACTGAC-T-TGTGGG
* ** * * ** * * * * *
116055 CTTTGAAATGATGCCATTGACTTATAGGCTTTGAAATGGGTTGTCACTGACTTGTGTGGC
57 CTTTGAAAAGATGCCACCGACTTATGGGCTTTGAAA-AGAATGCCACCGA-AT-TATGGA
* * * * ** ** *
116115 CTTTGAAATGGGTTGCCACCGACTTGT-GTGCTTGGAAAAGAGGCCACTGACTTGTGCGCTTTGA
1 CTTT-AAA-AGGATGCCACTGACTTATAG-GCTTTAAAAAGATACCACTGACTTGTGGGCTTTGA
* * *
116179 AAAGATGCCATCGACTTATGGGCTTTGAAAAGGATGCCACCGAATTGTGGA
63 AAAGATGCCACCGACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
* * * * * *
116230 CTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
1 CTTTAAAAGGATGCCACTGACTTATAGGCTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAAA
* *
116295 GATGCCACCGACTTATGGGCTTTGATAAGAATGCCACCGACTTATGGA
66 GATGCCACCGACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
* * * * *
116343 CTTTAAAAGGGTGCCA-TGGAGTTAT-GGTTTTTAAAAAGATACCA-TGGAGTTGTGGAC-TT-A
1 CTTTAAAAGGATGCCACT-GACTTATAGG-CTTTAAAAAGATACCACT-GACTTGTGGGCTTTGA
* * * * * * * *
116403 AAAGGATGCCA-CGAAGTTGTAGACTAT-AAAAGGATGCCACGGAATTGTGGA
63 AAA-GATGCCACCG-ACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
116454 C-TTAAAAGGATGC
1 CTTTAAAAGGATGC
116467 TACGAAGTTG
Statistics
Matches: 678, Mismatches: 109, Indels: 72
0.79 0.13 0.08
Matches are distributed among these distances:
110 11 0.02
111 30 0.04
112 119 0.18
113 260 0.38
114 26 0.04
115 22 0.03
116 2 0.00
117 19 0.03
118 46 0.07
119 4 0.01
120 20 0.03
121 3 0.00
122 17 0.03
123 2 0.00
124 49 0.07
125 9 0.01
126 24 0.04
127 1 0.00
128 14 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (113 bp):
CTTTAAAAGGATGCCACTGACTTATAGGCTTTAAAAAGATACCACTGACTTGTGGGCTTTGAAAA
GATGCCACCGACTTATGGGCTTTGAAAAGAATGCCACCGAATTATGGA
Found at i:116420 original size:27 final size:27
Alignment explanation
Indices: 116390--116518 Score: 145
Period size: 27 Copynumber: 4.6 Consensus size: 27
116380 GATACCATGG
116390 AGTTGTGGACTTAAAAGGATGCCACGA
1 AGTTGTGGACTTAAAAGGATGCCACGA
*
116417 AGTTGTAGACTATAAAAGGATGCCACGGA
1 AGTTGTGGACT-TAAAAGGATGCCAC-GA
*
116446 A-TTGTGGACTTAAAAGGATGCTACGA
1 AGTTGTGGACTTAAAAGGATGCCACGA
* *
116472 AGTTGTGGACTTTGAAAAGAAATGCCATTGA
1 AGTTGTGGAC-TT-AAAAG-GATGCCA-CGA
*
116503 A-TTGTGGACTTTAAAG
1 AGTTGTGGACTTAAAAG
116519 AGGTCACAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 13
0.81 0.06 0.12
Matches are distributed among these distances:
26 3 0.03
27 31 0.35
28 28 0.32
29 10 0.11
30 13 0.15
31 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGATGCCACGA
Found at i:116476 original size:55 final size:55
Alignment explanation
Indices: 116374--116518 Score: 182
Period size: 55 Copynumber: 2.6 Consensus size: 55
116364 TTATGGTTTT
* * *
116374 TAAAAAGATACCATGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTAGACTA
1 TAAAAGGATGCCATGGAATTGTGGACTTAAAAGGATGCCACGAAGTTGTAGACTA
* * * *
116429 TAAAAGGATGCCACGGAATTGTGGACTTAAAAGGATGCTACGAAGTTGTGGACTT
1 TAAAAGGATGCCATGGAATTGTGGACTTAAAAGGATGCCACGAAGTTGTAGACTA
* * *
116484 TGAAAAGAAATGCCATTGAATTGTGGACTTTAAAG
1 T-AAAAG-GATGCCATGGAATTGTGGACTTAAAAG
116519 AGGTCACAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 49 0.64
56 5 0.06
57 23 0.30
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.26
Consensus pattern (55 bp):
TAAAAGGATGCCATGGAATTGTGGACTTAAAAGGATGCCACGAAGTTGTAGACTA
Found at i:116704 original size:147 final size:147
Alignment explanation
Indices: 116455--116748 Score: 543
Period size: 147 Copynumber: 2.0 Consensus size: 147
116445 AATTGTGGAC
* *
116455 TTAAAAGGATGCTACGAAGTTGTGGACTTTGAAAAGAAATGCCATTGAATTGTGGACTTTAAAGA
1 TTAAAAGGATGCCACGAAGTTGTGGACTTTGAAAAGAAATGCCACTGAATTGTGGACTTTAAAGA
*
116520 GGTCACAATACTAGGGAGGTCAAGCTCTTTAGGGATTTCACATAATTGTGATGAATGAACTTAGT
66 GGTCACAATACTAGGGAGGTCAAGCTCTATAGGGATTTCACATAATTGTGATGAATGAACTTAGT
116585 GCCACCAGTATTGGCTA
131 GCCACCAGTATTGGCTA
*
116602 TTAAAAGGATGCCACGAAGTTGTGGACTTTGAAAAGAAATGCCACTGAATTGTGGACTTTGAAGA
1 TTAAAAGGATGCCACGAAGTTGTGGACTTTGAAAAGAAATGCCACTGAATTGTGGACTTTAAAGA
*
116667 GGTCACAATACTAGGGAGGTCAAGCTCTATAGGGATTTGACATAATTGTGATGAATGAACTTAGT
66 GGTCACAATACTAGGGAGGTCAAGCTCTATAGGGATTTCACATAATTGTGATGAATGAACTTAGT
116732 GCCACCAGTATTGGCTA
131 GCCACCAGTATTGGCTA
116749 ACTTTGAGAA
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 142 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (147 bp):
TTAAAAGGATGCCACGAAGTTGTGGACTTTGAAAAGAAATGCCACTGAATTGTGGACTTTAAAGA
GGTCACAATACTAGGGAGGTCAAGCTCTATAGGGATTTCACATAATTGTGATGAATGAACTTAGT
GCCACCAGTATTGGCTA
Found at i:119252 original size:13 final size:13
Alignment explanation
Indices: 119234--119258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119224 AAATTGCACA
119234 GTATCGATACATT
1 GTATCGATACATT
119247 GTATCGATACAT
1 GTATCGATACAT
119259 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:119271 original size:20 final size:21
Alignment explanation
Indices: 119246--119298 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
119236 ATCGATACAT
**
119246 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
119266 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
119287 TGTATCGATACA
1 TGTATCGATACA
119299 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:119349 original size:53 final size:53
Alignment explanation
Indices: 119286--119457 Score: 274
Period size: 53 Copynumber: 3.2 Consensus size: 53
119276 CTTGAAAAGA
* *
119286 ATGTATCGATACAGGTCATTGGCAGTAGCTAAATTAGTATCGATACACACAAT
1 ATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGTATCGATACACACAAT
* *
119339 ATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATTGATACACACAAT
1 ATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGTATCGATACACACAAT
* *
119392 ATGTATCGATACAGGTCATTGGTAGTAGCCAAATTTGTATCGATACAC-CAAAA
1 ATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGTATCGATACACAC-AAT
119445 ATGTATCGATACA
1 ATGTATCGATACA
119458 TTGGCTTGTA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
52 1 0.01
53 109 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (53 bp):
ATGTATCGATACAGGTCATTGGCAGTAGCCAAATTTGTATCGATACACACAAT
Found at i:120624 original size:20 final size:20
Alignment explanation
Indices: 120599--120636 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
120589 AGCAGTGGAT
120599 TTCTTGTTTGATTCGGGTAC
1 TTCTTGTTTGATTCGGGTAC
120619 TTCTTGTTTGATTCGGGT
1 TTCTTGTTTGATTCGGGT
120637 GACTCTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.13, G:0.26, T:0.53
Consensus pattern (20 bp):
TTCTTGTTTGATTCGGGTAC
Found at i:122819 original size:61 final size:61
Alignment explanation
Indices: 122738--122870 Score: 221
Period size: 61 Copynumber: 2.2 Consensus size: 61
122728 GCAAATGCGA
* *
122738 AGGGTTACTCACGAGAGCATAGGTAGTTTACATCCTGGAATTTATTGCTATGCCTGTGTGG
1 AGGGTTACTCACGAGAGCATAGGTAGTTTACATCCTGGAAGTTATTGCTATGCCTATGTGG
* * *
122799 AGGGTTACTTAGGAGAGCATAGGTAGTTTACATCCTGGAAGTTATTGCTATGCCTATGTTG
1 AGGGTTACTCACGAGAGCATAGGTAGTTTACATCCTGGAAGTTATTGCTATGCCTATGTGG
122860 AGGGTTACTCA
1 AGGGTTACTCA
122871 TGAAGGCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (61 bp):
AGGGTTACTCACGAGAGCATAGGTAGTTTACATCCTGGAAGTTATTGCTATGCCTATGTGG
Found at i:126398 original size:20 final size:20
Alignment explanation
Indices: 126373--126410 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
126363 ATTTTAACTA
126373 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
126393 GATGTATCGATACATTAT
1 GATGTATCGATACATTAT
126411 GTATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:126414 original size:15 final size:15
Alignment explanation
Indices: 126394--126422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
126384 ACATTATTCG
126394 ATGTATCGATACATT
1 ATGTATCGATACATT
126409 ATGTATCGATACAT
1 ATGTATCGATACAT
126423 CTAGGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:126467 original size:20 final size:19
Alignment explanation
Indices: 126437--126514 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 19
126427 GTAAAAAGAC
*
126437 AAAATGCATCGATACATTG
1 AAAATGTATCGATACATTG
*
126456 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
126476 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
126496 AAAAATGTATCAATACATT
1 -AAAATGTATCGATACATT
126515 TGGGTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 46 0.92
21 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:127479 original size:28 final size:28
Alignment explanation
Indices: 127439--128368 Score: 706
Period size: 28 Copynumber: 32.5 Consensus size: 28
127429 CACTAATTTG
127439 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
127467 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
** *
127495 TGTGGGCTCAGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
127523 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
127551 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* ** *
127580 TGTAGATTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
127608 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
127636 TGTGGGCTTTAAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* **
127664 TATGGGCTTTGAAAAGGATGCCACCAACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
127693 TGTAGGCTTTGAAAAGGTGCCAATGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
127721 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
127749 TATGGGCTTTTAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
127777 TGTGGGCTTTGAAAGGGTTCTACTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * **
127805 TGTGAGCTTTGAAATGGGTTGCCACCAACAT
1 TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * * **
127836 GTTTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * *
127868 GTGTGGGCTTTCAAATGAGTTGCCACTAACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
*
127900 GTGTGGGCTTTGAAATGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
127929 TGTGGGCTTTGAAATGGGCTGCCACCGACT
1 TGTGGGCTTTGAAA--AGATGCCACTGACT
* * *
127959 TGTATGGGCTTTGAAATGGGTTGCCACCGACT
1 TG--TGGGCTTTGAAA--AGATGCCACTGACT
* * *
127991 TGTGTGCTTGGAAAAGATGCAACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
128019 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
128047 TGTGGGCTTGGAAATGGATGCCACCGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
* * *
128076 TGTAGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
128104 TGTAGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
128132 TGTGGGCTTTGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
128160 TATGGTCTTTGAAAAAGATACCA-TCGACT
1 TGTGGGCTTTG-AAAAGATGCCACT-GACT
* * * *
128189 TGTGGACTTT-AAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * * * *
128217 TGTGGTCTTTAAAAAGATACCACGGAGT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*** * * *
128245 TGTACAC-TTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
128272 TGT-GGATTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* **
128299 TGTGGAC-TT-AAAAGTATGCCA-TGGGGT
1 TGTGGGCTTTGAAAAG-ATGCCACT-GACT
** * *
128326 TGTGAACTTTGAAAAGAAACGCCACTGAAT
1 TGTGGGCTTTGAAAAG--ATGCCACTGACT
*
128356 TGTGGACTTTGAA
1 TGTGGGCTTTGAA
128369 GAGGTCACAA
Statistics
Matches: 756, Mismatches: 121, Indels: 48
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.01
27 65 0.09
28 422 0.56
29 104 0.14
30 59 0.08
31 2 0.00
32 99 0.13
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:127620 original size:85 final size:85
Alignment explanation
Indices: 127439--128368 Score: 734
Period size: 85 Copynumber: 10.8 Consensus size: 85
127429 CACTAATTTG
*
127439 TGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
** * **
127503 CAGAAAAGATGCCATTGACT
66 TTGAAAGGATGCCACCGACT
* * **
127523 TGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTAGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
*
127588 TTGAAAGGATGCCACTGACT
66 TTGAAAGGATGCCACCGACT
* * * * *
127608 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAAGATGCCACCGACTTATGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
*
127672 TTGAAAAGGATGCCACCAACT
66 TTG-AAAGGATGCCACCGACT
* * * *
127693 TGTAGGCTTTGAAAAGGTGCCAATGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
* * *
127757 TTTAAAGGGTGCCACTGACT
66 TTGAAAGGATGCCACCGACT
* * * * * * * * ** *
127777 TGTGGGCTTTGAAAGGGTTCTACTGATTTGTGAGCTTTGAAATGGGTTGCCACCAACATGTTTGG
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGG
* *
127842 GCTTTGAAATGGGTTGCCACCAACTT
63 GCTTTGAAA--GGATGCCACCGAC-T
* * * *
127868 GTGTGGGCTTTCAAATGAGTTGCCACTAACTTGTGTGGGCTTTG-AAATGATGCCACTGACTTGT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGT
*
127932 GGGCTTTGAAATGGGCTGCCACCGACT
61 GGGCTTTGAAA--GGATGCCACCGACT
* * * * * *
127959 TGTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGCTTGGAAAA-GATGCAACTGACTTGTG
1 TG--TGGGCTTTGAAA--AGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
*
128023 GGCTTTGAAAAGATGCCACCGACT
62 GGCTTTGAAAGGATGCCACCGACT
* * * * * *
128047 TGTGGGCTTGGAAATGGATGCCACCGACTTGTAGACTTTG-AAAGGATGCCACTGACTTGTAGGC
1 TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGC
* * *
128111 TTTGGAAGGGTGCCACTGACT
65 TTTGAAAGGATGCCACCGACT
* * * * * *
128132 TGTGGGCTTTGAAAAGATGCCACCGACTTATGGTCTTTGAAAAAGATACCA-TCGACTTGTGGAC
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACT-GACTTGTGGGC
* * * *
128196 TTTAAAAGGGTGCCACGGAGT
65 TTTGAAAGGATGCCACCGACT
* * * * * *** * * * *
128217 TGTGGTCTTTAAAAAGATACCACGGAGTTGTACAC-TT-AAAAAGATGCCACGGAGTTGT-GGAT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
* * *
128279 TTAAAAGGATGCCACGGAGT
66 TTGAAAGGATGCCACCGACT
* ** ** * * *
128299 TGTGGAC-TT-AAAAGTATGCCA-TGGGGTTGTGAACTTTGAAAAGAAACGCCACTGAATTGTGG
1 TGTGGGCTTTGAAAAG-ATGCCACT-GACTTGTGGGCTTTGAAAAG-GATGCCACTGACTTGTGG
*
128361 ACTTTGAA
63 GCTTTGAA
128369 GAGGTCACAA
Statistics
Matches: 694, Mismatches: 124, Indels: 55
0.79 0.14 0.06
Matches are distributed among these distances:
80 5 0.01
81 15 0.02
82 29 0.04
83 21 0.03
84 154 0.22
85 274 0.39
86 24 0.03
87 1 0.00
88 26 0.04
90 47 0.07
91 6 0.01
92 62 0.09
93 1 0.00
94 16 0.02
95 3 0.00
96 10 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (85 bp):
TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
TTGAAAGGATGCCACCGACT
Found at i:127629 original size:113 final size:112
Alignment explanation
Indices: 127439--128303 Score: 759
Period size: 113 Copynumber: 7.5 Consensus size: 112
127429 CACTAATTTG
*
127439 TGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCT
** * * * *
127503 CAGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAGATGCCACCGACT
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
* **
127551 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTAGATTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* *
127616 TTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGATGCCACCGACT
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
* ** * *
127664 TATGGGCTTTGAAAAGGATGCCACCAACTTGTAGGCTTTGAAAAGG-TGCCAATGACTTGTGGGC
1 TGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGC
* * * * * *
127728 TTTGAAAAGATGCCACTGACTTATGGGCTTTTAAAGGGTGCCACTGACT
64 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
* * * * * * * ** *
127777 TGTGGGCTTTGAAAGGGTTCTACTGATTTGTGAGCTTTGAAATGGGTTGCCACCAACATGTTTGG
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGG
** * * *
127842 GCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACTAACTT
62 GCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * *
127900 GTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAATGGGCTGCCACCGACTTGTATG
1 -TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGACTTG--TG
* * * *
127965 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGCTTGGAAAAGATGCAACTGACT
61 GGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
* * * * *
128019 TGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTGGAAATGGATGCCACCGACTTGTAGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCT
* * * * *
128084 TTGAAAGGATGCCACTGACTTGTAGGCTTTGGAAGGGTGCCACTGACT
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
* * * * * *
128132 TGTGGGCTTTGAAAAGATGCCACCGACTTATGGTCTTTGAAAAAGATACCA-TCGACTTGTGGAC
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACT-GACTTGTGGGC
* * * * * * * *
128196 TTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAAGATACCACGGAGT
64 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
*** * * * * * * *
128245 TGTACAC-TTAAAAAGATGCCACGGAGTTGT-GGATTTAAAAGGATGCCACGGAGTTGTGG
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
128304 ACTTAAAAGT
Statistics
Matches: 620, Mismatches: 112, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
110 17 0.03
111 7 0.01
112 55 0.09
113 313 0.50
114 17 0.03
115 11 0.02
116 13 0.02
117 16 0.03
118 47 0.08
119 2 0.00
120 22 0.04
122 22 0.04
123 3 0.00
124 75 0.12
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (112 bp):
TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:127846 original size:32 final size:32
Alignment explanation
Indices: 127777--127996 Score: 240
Period size: 32 Copynumber: 7.1 Consensus size: 32
127767 GCCACTGACT
* **
127777 TGTGGGCTTTGAAA-GGGTT-CTACTGA-TT-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
127805 TGTGAGCTTTGAAATGGGTTGCCACCAACATG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
127837 TTTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
127869 TGTGGGCTTTCAAATGAGTTGCCACTAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* **
127901 TGTGGGCTTTGAAAT--GATGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
127929 TGTGGGCTTTGAAATGGGCTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
127961 TATGGGCTTTGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
127993 TGTG
1 TGTG
127997 CTTGGAAAAG
Statistics
Matches: 164, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
28 28 0.17
29 6 0.04
30 24 0.15
31 2 0.01
32 104 0.63
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
Found at i:128266 original size:27 final size:27
Alignment explanation
Indices: 128143--128334 Score: 163
Period size: 27 Copynumber: 7.0 Consensus size: 27
128133 GTGGGCTTTG
* * * *
128143 AAAAGATGCCACCGACTTATGGTCTTTGA
1 AAAAGATGCCACGGAGTTGTGGAC-TT-A
* *
128172 AAAAGATACCATC-GACTTGTGGACTTTA
1 AAAAGATGCCA-CGGAGTTGTGGAC-TTA
* * *
128200 AAAGGGTGCCACGGAGTTGTGGTCTTTA
1 AAAAGATGCCACGGAGTTGTGGAC-TTA
* **
128228 AAAAGATACCACGGAGTTGTACACTTA
1 AAAAGATGCCACGGAGTTGTGGACTTA
*
128255 AAAAGATGCCACGGAGTTGTGGATTTA
1 AAAAGATGCCACGGAGTTGTGGACTTA
*
128282 AAAGGATGCCACGGAGTTGTGGACTT-
1 AAAAGATGCCACGGAGTTGTGGACTTA
* * *
128308 AAAAGTATGCCATGGGGTTGTGAACTT
1 AAAAG-ATGCCACGGAGTTGTGGACTT
128335 TGAAAAGAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.03
27 69 0.51
28 40 0.29
29 22 0.16
30 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (27 bp):
AAAAGATGCCACGGAGTTGTGGACTTA
Found at i:128308 original size:54 final size:55
Alignment explanation
Indices: 128143--128329 Score: 191
Period size: 54 Copynumber: 3.4 Consensus size: 55
128133 GTGGGCTTTG
* * * * *
128143 AAAAGATGCCACCGACTTATGGTCTTTGAAAAAGATACCATC-GACTTGTGGACTTTA
1 AAAAGATGCCACGGAGTTGTGGTATTT-AAAAAGATACCA-CGGAGTTGTGGAC-TTA
* * * **
128200 AAAGGGTGCCACGGAGTTGTGGTCTTTAAAAAGATACCACGGAGTTGTACACTTA
1 AAAAGATGCCACGGAGTTGTGGTATTTAAAAAGATACCACGGAGTTGTGGACTTA
* *
128255 AAAAGATGCCACGGAGTTGTGG-ATTTAAAAGGATGCCACGGAGTTGTGGACTT-
1 AAAAGATGCCACGGAGTTGTGGTATTTAAAAAGATACCACGGAGTTGTGGACTTA
* *
128308 AAAAGTATGCCATGGGGTTGTG
1 AAAAG-ATGCCACGGAGTTGTG
128330 AACTTTGAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.05
54 40 0.36
55 24 0.22
56 20 0.18
57 22 0.20
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (55 bp):
AAAAGATGCCACGGAGTTGTGGTATTTAAAAAGATACCACGGAGTTGTGGACTTA
Found at i:132113 original size:13 final size:13
Alignment explanation
Indices: 132095--132119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132085 ATAATGCACA
132095 GTATCGATACATT
1 GTATCGATACATT
132108 GTATCGATACAT
1 GTATCGATACAT
132120 GACCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:132231 original size:15 final size:14
Alignment explanation
Indices: 132211--132243 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
132201 GTATCGATAC
132211 ATACAAGATGTATCG
1 ATACAA-ATGTATCG
132226 ATAC-AATGTATCG
1 ATACAAATGTATCG
132239 ATACA
1 ATACA
132244 TGACCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
ATACAAATGTATCG
Found at i:132236 original size:13 final size:13
Alignment explanation
Indices: 132218--132243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132208 TACATACAAG
132218 ATGTATCGATACA
1 ATGTATCGATACA
132231 ATGTATCGATACA
1 ATGTATCGATACA
132244 TGACCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132262 original size:34 final size:32
Alignment explanation
Indices: 132200--132264 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
132190 CTTAACTGTT
132200 TGTATCGATACATACAAGATGTATCGATACAA
1 TGTATCGATACATACAAGATGTATCGATACAA
132232 TGTATCGATACATGACCAA-ATTGTATCGATACA
1 TGTATCGATACAT-A-CAAGA-TGTATCGATACA
132265 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 15 0.50
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATACAAGATGTATCGATACAA
Found at i:140233 original size:33 final size:33
Alignment explanation
Indices: 140191--140259 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
140181 GAAAATAAAT
*
140191 TAATTTATTACAAAAAGGGGAAGAGAATTTTTG
1 TAATTTATTACAAAAAGGGGAAGACAATTTTTG
*
140224 TAATTTATTACAAAAAGGGGGAGACAATTTTTG
1 TAATTTATTACAAAAAGGGGAAGACAATTTTTG
140257 TAA
1 TAA
140260 ATAAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (33 bp):
TAATTTATTACAAAAAGGGGAAGACAATTTTTG
Found at i:141035 original size:13 final size:13
Alignment explanation
Indices: 141017--141065 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
141007 ACATACAAGA
141017 TGTATCGATACAT
1 TGTATCGATACAT
141030 TGTATCGATACA-
1 TGTATCGATACAT
*
141042 TG-A-CCA-A-AT
1 TGTATCGATACAT
141051 TGTATCGATACAT
1 TGTATCGATACAT
141064 TG
1 TG
141066 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:141060 original size:34 final size:32
Alignment explanation
Indices: 140997--141065 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
140987 CCTTAACTAT
140997 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
141029 TTGTATCGATACATGACCAA-ATTGTATCGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
141063 TTG
1 TTG
141066 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 2 0.06
34 18 0.53
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:146235 original size:20 final size:20
Alignment explanation
Indices: 146210--146249 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
146200 GTGTTTGGAG
146210 GTGTTTCTTTTGGGAGCTAT
1 GTGTTTCTTTTGGGAGCTAT
146230 GTGTTTCTTTTGGGAGCTAT
1 GTGTTTCTTTTGGGAGCTAT
146250 AGGGAGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.30, T:0.50
Consensus pattern (20 bp):
GTGTTTCTTTTGGGAGCTAT
Found at i:146795 original size:20 final size:20
Alignment explanation
Indices: 146770--146847 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
146760 GGTAAAAGGC
*
146770 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTCA
146790 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTCA
* *
146810 TA-CATGTATCGATACATTCT
1 -AGAATGTATCGATACATTCA
**
146830 TCAATGTATCGATACATT
1 AGAATGTATCGATACATT
146848 AGGGTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 50 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (20 bp):
AGAATGTATCGATACATTCA
Found at i:148806 original size:144 final size:144
Alignment explanation
Indices: 148638--148904 Score: 340
Period size: 144 Copynumber: 1.9 Consensus size: 144
148628 AACCTAGCCC
* * * *
148638 TATGAAACTATCGAGTCACTTCTATGCC-GAGGTACGTATGAGGCAAAGGTTTGTTTTTACTTTT
1 TATGAAACCATCGAGTCACTTCTATGCCAG-GGTACATATGAGGCAAAGGTTAGCTTTTACTTTT
* * *
148702 TCAAGTCCTCTTGGATCACCGA-GCACTTCTAAGTCAATGGTAGACCCTAGGGACCTTTTAGTAT
65 TCAAGTCCTCTAGGATCA-CGAGGCACCTATAAGTCAATGGTAGACCCTAGGGACCTTTTAGTAT
148766 TTTTCCTTCGAAACCT
129 TTTTCCTTCGAAACCT
* * * * * ***
148782 TATGAAACCATCGATTCGCTTCTATGTCAGGGTACATCTTAGGTGCAGGTTAGCTTTTACTTTTT
1 TATGAAACCATCGAGTCACTTCTATGCCAGGGTACATATGAGGCAAAGGTTAGCTTTTACTTTTT
* * *
148847 CAAGTCCTCTAGGATCACTAGGCACCTATAAGTCGATGGTAGACCTTAGGGACCTTTT
66 CAAGTCCTCTAGGATCACGAGGCACCTATAAGTCAATGGTAGACCCTAGGGACCTTTT
148905 TGGCATTTTC
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
143 2 0.02
144 100 0.97
145 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (144 bp):
TATGAAACCATCGAGTCACTTCTATGCCAGGGTACATATGAGGCAAAGGTTAGCTTTTACTTTTT
CAAGTCCTCTAGGATCACGAGGCACCTATAAGTCAATGGTAGACCCTAGGGACCTTTTAGTATTT
TTCCTTCGAAACCT
Found at i:151998 original size:58 final size:58
Alignment explanation
Indices: 151889--151999 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
151879 TATTTAGTGA
* * *
151889 TGTTCATCATCCATAAAAAAAAGAAAAAAAAATATGTTCCAGTGTTTTAACCCGTTGT
1 TGTTCATCATACATAAAAAAAAGAAAAAAAAATATGTTCCAATGTTATAACCCGTTGT
*
151947 TGTTCATCATACATAAAAAAAAGCAAAAAAAAAGT-T-TTCTAATGTTATAACCC
1 TGTTCATCATACATAAAAAAAAG-AAAAAAAAA-TATGTTCCAATGTTATAACCC
152000 TTTTCCATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 36 0.77
59 10 0.21
60 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (58 bp):
TGTTCATCATACATAAAAAAAAGAAAAAAAAATATGTTCCAATGTTATAACCCGTTGT
Found at i:158056 original size:20 final size:20
Alignment explanation
Indices: 158031--158069 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
158021 TACTGCCAAG
158031 GAAATGTATCGATACATTAC
1 GAAATGTATCGATACATTAC
158051 GAAATGTATCGATACATTA
1 GAAATGTATCGATACATTA
158070 TATCGATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
GAAATGTATCGATACATTAC
Found at i:159054 original size:20 final size:20
Alignment explanation
Indices: 159017--159055 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
159007 TAAACCTTGA
*
159017 TCATGCATTTTTACCATGCT
1 TCATGCATTTATACCATGCT
*
159037 TCATGCATTTATAGCATGC
1 TCATGCATTTATACCATGC
159056 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (20 bp):
TCATGCATTTATACCATGCT
Found at i:165991 original size:9 final size:9
Alignment explanation
Indices: 165979--166039 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
165969 CTCTCTCTAT
165979 TATCTCTCC
1 TATCTCTCC
165988 TATCTCTCC
1 TATCTCTCC
* *
165997 T-CCTAT-C
1 TATCTCTCC
*
166004 -ATCCCTCC
1 TATCTCTCC
*
166012 TATCTCTAC
1 TATCTCTCC
166021 TATCTCTCC
1 TATCTCTCC
*
166030 TATATCTCC
1 TATCTCTCC
166039 T
1 T
166040 CCTATCATCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.15, C:0.43, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:165997 original size:42 final size:42
Alignment explanation
Indices: 165950--166069 Score: 186
Period size: 42 Copynumber: 2.9 Consensus size: 42
165940 CTTCTTCTCT
* * * *
165950 TCTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATC
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATA
165992 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATA
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATA
* *
166034 TCTCCTCCTATCATCCCTCCTATCTCTTCTTTCTCT
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
166070 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.12, C:0.44, G:0.01, T:0.43
Consensus pattern (42 bp):
TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATA
Found at i:165999 original size:12 final size:12
Alignment explanation
Indices: 165984--166060 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
165974 TCTATTATCT
165984 CTCCTATCTCTC
1 CTCCTATCTCTC
165996 CTCCTATCATC-C
1 CTCCTATC-TCTC
166008 CTCCTA--TCT-
1 CTCCTATCTCTC
*
166017 CTACTA--TCT-
1 CTCCTATCTCTC
*
166026 CTCCTATATCTC
1 CTCCTATCTCTC
166038 CTCCTATCATC-C
1 CTCCTATC-TCTC
166050 CTCCTATCTCT
1 CTCCTATCTCT
166061 TCTTTCTCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
9 15 0.27
11 5 0.09
12 31 0.56
13 4 0.07
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:171715 original size:12 final size:11
Alignment explanation
Indices: 171696--171784 Score: 87
Period size: 12 Copynumber: 8.0 Consensus size: 11
171686 AGAGAAAGAA
171696 GAGATAGGAGG
1 GAGATAGGAGG
171707 GATGATAGGAGG
1 GA-GATAGGAGG
171719 AGAGATAGGA--
1 -GAGATAGGAGG
*
171729 GAGATAGTA--
1 GAGATAGGAGG
171738 GAGATAGGAGG
1 GAGATAGGAGG
171749 GATGATAGGAGG
1 GA-GATAGGAGG
171761 AGAGATAGGAGG
1 -GAGATAGGAGG
*
171773 GATGACAGGAGG
1 GA-GATAGGAGG
171785 AGAAGAGAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
9 16 0.24
11 6 0.09
12 42 0.62
13 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.48, T:0.12
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:171726 original size:24 final size:24
Alignment explanation
Indices: 171695--171787 Score: 126
Period size: 24 Copynumber: 4.1 Consensus size: 24
171685 AAGAGAAAGA
171695 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
*
171719 AGAGATAGGA--GA-GAT---AGT
1 AGAGATAGGAGGGATGATAGGAGG
171737 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
*
171761 AGAGATAGGAGGGATGACAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
171785 AGA
1 AGA
171788 AGAGAAGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
18 12 0.20
20 2 0.03
21 6 0.10
22 2 0.03
24 38 0.63
ACGTcount: A:0.40, C:0.01, G:0.47, T:0.12
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGGAGG
Found at i:171730 original size:9 final size:9
Alignment explanation
Indices: 171716--171747 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
171706 GGATGATAGG
171716 AGGAGAGAT
1 AGGAGAGAT
171725 AGGAGAGAT
1 AGGAGAGAT
*
171734 AGTAGAGAT
1 AGGAGAGAT
171743 AGGAG
1 AGGAG
171748 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:171745 original size:42 final size:42
Alignment explanation
Indices: 171686--171771 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
171676 TAGCCCTCAA
171686 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* *
171728 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
171770 AG
1 AG
171772 GGATGACAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.12
Consensus pattern (42 bp):
AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:177560 original size:18 final size:20
Alignment explanation
Indices: 177518--177567 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
177508 TCCATCTTCT
177518 TCTCTCCTC-CTC-ATGTCA
1 TCTCTCCTCTCTCTATGTCA
*
177536 TCCCTCCTCTCTCTAT-T-A
1 TCTCTCCTCTCTCTATGTCA
*
177554 TCTCTCCTATCTCT
1 TCTCTCCTCTCTCT
177568 CCTCCTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.78
19 4 0.15
20 2 0.07
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.44
Consensus pattern (20 bp):
TCTCTCCTCTCTCTATGTCA
Found at i:177564 original size:9 final size:9
Alignment explanation
Indices: 177552--177612 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
177542 CTCTCTCTAT
177552 TATCTCTCC
1 TATCTCTCC
177561 TATCTCTCC
1 TATCTCTCC
* *
177570 T-CCTAT-C
1 TATCTCTCC
*
177577 -ATCCCTCC
1 TATCTCTCC
*
177585 TATCTCTAC
1 TATCTCTCC
177594 TATCTCTCC
1 TATCTCTCC
177603 TATCTCTCC
1 TATCTCTCC
177612 T
1 T
177613 CCTATCATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:177572 original size:12 final size:12
Alignment explanation
Indices: 177557--177633 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
177547 TCTATTATCT
177557 CTCCTATCTCTC
1 CTCCTATCTCTC
177569 CTCCTATCATC-C
1 CTCCTATC-TCTC
177581 CTCCTA--TCT-
1 CTCCTATCTCTC
*
177590 CTACTA--TCT-
1 CTCCTATCTCTC
177599 CTCCTATCTCTC
1 CTCCTATCTCTC
177611 CTCCTATCATC-C
1 CTCCTATC-TCTC
*
177623 CTCCTGTCTCT
1 CTCCTATCTCT
177634 TTTTTCTCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
9 15 0.27
11 5 0.09
12 31 0.56
13 4 0.07
ACGTcount: A:0.12, C:0.47, G:0.01, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:177579 original size:42 final size:42
Alignment explanation
Indices: 177518--177642 Score: 178
Period size: 42 Copynumber: 2.9 Consensus size: 42
177508 TCCATCTTCT
*
177518 TCTCTCCTCCTCATGTCATCCCTCCTCTCTCTATTATCTCTCCTA
1 TCTCTCCTCCT-A--TCATCCCTCCTATCTCTATTATCTCTCCTA
*
177563 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTA
1 TCTCTCCTCCTATCATCCCTCCTATCTCTATTATCTCTCCTA
* * *
177605 TCTCTCCTCCTATCATCCCTCCTGTCTCTTTTTTCTCT
1 TCTCTCCTCCTATCATCCCTCCTATCTCTATTATCTCT
177643 TTGAGGGCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 62 0.84
44 1 0.01
45 11 0.15
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.44
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCCTATCTCTATTATCTCTCCTA
Done.