Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 7 of 133
Found at i:1626882 original size:13 final size:13
Alignment explanation
Indices: 1626842--1626882 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1626832 ACCACTGTCA
1626842 CCATACCCTACAC
1 CCATACCCTACAC
1626855 CCAT-CCC--CA-
1 CCATACCCTACAC
1626864 CCATACCCTACAC
1 CCATACCCTACAC
1626877 CCATAC
1 CCATAC
1626883 TTCACCATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
12 5 0.21
13 10 0.42
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (13 bp):
CCATACCCTACAC
Found at i:1626895 original size:23 final size:22
Alignment explanation
Indices: 1626839--1626896 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1626829 GGCACCACTG
1626839 TCACCATACCCTACACCCATCC
1 TCACCATACCCTACACCCATCC
* *
1626861 CCACCATACCCTACACCCATACT
1 TCACCATACCCTACACCCAT-CC
*
1626884 TCACCATGCCCTA
1 TCACCATACCCTA
1626897 TCCCACACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.28, C:0.52, G:0.02, T:0.19
Consensus pattern (22 bp):
TCACCATACCCTACACCCATCC
Found at i:1627859 original size:22 final size:21
Alignment explanation
Indices: 1627828--1627874 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1627818 AAGTATTTTT
*
1627828 TTTTATATTTATGCATGATAAG
1 TTTTAAATTTAT-CATGATAAG
* *
1627850 TTTTAAATTTGTTATGATAAG
1 TTTTAAATTTATCATGATAAG
1627871 TTTT
1 TTTT
1627875 TTAATTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTAAATTTATCATGATAAG
Found at i:1628229 original size:31 final size:31
Alignment explanation
Indices: 1628189--1628264 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
1628179 TTCTAAAACC
* *
1628189 CCTT-AAAATCCGAAATCATTTAAATCTAAA
1 CCTTCAAAATCCGAAATCACTTAAATCCAAA
* *
1628219 TCC-TCAAAATCCAAAATCCCTTAAATCCAAA
1 -CCTTCAAAATCCGAAATCACTTAAATCCAAA
*
1628250 CCTTTAAAATCCGAA
1 CCTTCAAAATCCGAA
1628265 TCTTCAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (31 bp):
CCTTCAAAATCCGAAATCACTTAAATCCAAA
Found at i:1629902 original size:26 final size:24
Alignment explanation
Indices: 1629854--1629902 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
1629844 CTAGTTACTT
*
1629854 TTAAAATATTTATATTTGAATTTA
1 TTAAAATATTTATATTTAAATTTA
*
1629878 TTAAAATATTTGTTTATTTAAATTT
1 TTAAAATA-TT-TATATTTAAATTT
1629903 TTTATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 2 0.10
26 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTAAAATATTTATATTTAAATTTA
Found at i:1637919 original size:20 final size:20
Alignment explanation
Indices: 1637881--1637922 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1637871 CGAATTAAAT
*
1637881 TATATATTTTATTAATTTTA
1 TATATATTTTATAAATTTTA
1637901 TATATATTTTA-AAATTTT-
1 TATATATTTTATAAATTTTA
1637919 TATA
1 TATA
1637923 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATTTTATAAATTTTA
Found at i:1637983 original size:22 final size:22
Alignment explanation
Indices: 1637940--1637995 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
1637930 AATCATTATT
*
1637940 TATATATAAATTTATTTAAAT-A
1 TATATA-AAAATTATTTAAATAA
1637962 TAT-TAAAAATTATATTATAATAA
1 TATATAAAAATTAT-TTA-AATAA
1637985 TATATAAAAAT
1 TATATAAAAAT
1637996 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 6 0.21
23 4 0.14
24 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATAAAAATTATTTAAATAA
Found at i:1650526 original size:50 final size:51
Alignment explanation
Indices: 1650451--1650553 Score: 181
Period size: 50 Copynumber: 2.0 Consensus size: 51
1650441 ACCATGGCTA
*
1650451 AAGAATCAGTATCTAAAATCAATAGAA-AAAAGGAAATGAAATTATCAAGG
1 AAGAATCAGTATCTAAAACCAATAGAAGAAAAGGAAATGAAATTATCAAGG
*
1650501 AAGAATTAGTATCTAAAACCAATAGAAGAAAAGGAAATGAAATTATCAAGG
1 AAGAATCAGTATCTAAAACCAATAGAAGAAAAGGAAATGAAATTATCAAGG
1650552 AA
1 AA
1650554 TATCATCTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 25 0.50
51 25 0.50
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (51 bp):
AAGAATCAGTATCTAAAACCAATAGAAGAAAAGGAAATGAAATTATCAAGG
Found at i:1655264 original size:34 final size:34
Alignment explanation
Indices: 1655216--1655303 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
1655206 TACGTAAATC
1655216 TCAAAAATAAATTTTTGAAAG-CTATATTACATTA
1 TCAAAAATAAATTTTTGAAAGTC-ATATTACATTA
* * * * *
1655250 TCAAAAATAGATTTTCGATAGTCATATTATATTT
1 TCAAAAATAAATTTTTGAAAGTCATATTACATTA
**
1655284 TCAAAAATTTATTTTTGAAA
1 TCAAAAATAAATTTTTGAAA
1655304 ATACATAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 43 0.98
35 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (34 bp):
TCAAAAATAAATTTTTGAAAGTCATATTACATTA
Found at i:1658206 original size:101 final size:103
Alignment explanation
Indices: 1658082--1658298 Score: 361
Period size: 102 Copynumber: 2.1 Consensus size: 103
1658072 AATTTTATCA
*
1658082 ATAATTATTAATATGTTTAATAAAATTTAAAAAA-ATA-TTTTTATTTTTTATATTAATATAAAT
1 ATAATTATTAATATATTTAATAAAATTTAAAAAATATATTTTTTA-TTTTTATATTAATATAAAT
1658145 TATAATATATAATTTTTATATAAAATATGATA-GAATAT
65 TATAATATATAATTTTTATATAAAATATGATATGAATAT
1658183 ATAATTATTAATATATGTT-ATAAAATTTAAAAAATATATTTTTTATTTTTATATTAATATAAAT
1 ATAATTATTAATATAT-TTAATAAAATTTAAAAAATATATTTTTTATTTTTATATTAATATAAAT
*
1658247 TATAATATATAATTTTTATATAAAATATGGTATGAATAT
65 TATAATATATAATTTTTATATAAAATATGATATGAATAT
1658286 ATAAATTATTAAT
1 AT-AATTATTAAT
1658299 TTTTTATAAG
Statistics
Matches: 109, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
101 30 0.28
102 55 0.50
103 14 0.13
104 10 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (103 bp):
ATAATTATTAATATATTTAATAAAATTTAAAAAATATATTTTTTATTTTTATATTAATATAAATT
ATAATATATAATTTTTATATAAAATATGATATGAATAT
Found at i:1666838 original size:15 final size:17
Alignment explanation
Indices: 1666818--1666850 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
1666808 ATTAATCAAC
1666818 AAAAAAG-GAAA-AAAA
1 AAAAAAGAGAAAGAAAA
1666833 AAAAAAGAGAAAGAAAA
1 AAAAAAGAGAAAGAAAA
1666850 A
1 A
1666851 CTTACAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAGAAAA
Found at i:1668492 original size:21 final size:20
Alignment explanation
Indices: 1668468--1668511 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1668458 TTTTATTTGA
*
1668468 AATTATCAAAGATTAAAATTT
1 AATTA-CAAAGATTAAAAATT
**
1668489 AATTACTGAGATTAAAAATT
1 AATTACAAAGATTAAAAATT
1668509 AAT
1 AAT
1668512 CACTTTACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (20 bp):
AATTACAAAGATTAAAAATT
Found at i:1673098 original size:22 final size:22
Alignment explanation
Indices: 1673073--1673116 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1673063 ATTTTTTGTT
1673073 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
1673095 CTTAATTCTAGCGATACAAATA
1 CTTAATTCTAGAGATACAAATA
1673117 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:1673783 original size:12 final size:12
Alignment explanation
Indices: 1673766--1673790 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1673756 ACTATGCATA
1673766 AATTGACTTACC
1 AATTGACTTACC
1673778 AATTGACTTACC
1 AATTGACTTACC
1673790 A
1 A
1673791 CACTCATAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AATTGACTTACC
Found at i:1683097 original size:23 final size:22
Alignment explanation
Indices: 1683048--1683099 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1683038 TTTTTTTTGT
* *
1683048 TAAAAAAAAAGTAGAAAGGAAG
1 TAAAAAAAAAGTAAAAAGAAAG
* *
1683070 AAAAAATAAAAGTAAAAATAAAG
1 TAAAAA-AAAAGTAAAAAGAAAG
1683093 TAAAAAA
1 TAAAAAA
1683100 CGAAAAGCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (22 bp):
TAAAAAAAAAGTAAAAAGAAAG
Found at i:1683770 original size:42 final size:42
Alignment explanation
Indices: 1683715--1683801 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
1683705 TAAAAACTTA
1683715 AAAGAAATCCCTTCAGCTGAAGCTAATACAAGAAGAAGAAAG
1 AAAGAAATCCCTTCAGCTGAAGCTAATACAAGAAGAAGAAAG
*
1683757 AAAGAAATCCCTTCAGCTGAAGCTAATACAAGAAGTAGAAAG
1 AAAGAAATCCCTTCAGCTGAAGCTAATACAAGAAGAAGAAAG
1683799 AAA
1 AAA
1683802 TACGGGTCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.15
Consensus pattern (42 bp):
AAAGAAATCCCTTCAGCTGAAGCTAATACAAGAAGAAGAAAG
Found at i:1686305 original size:21 final size:21
Alignment explanation
Indices: 1686273--1686314 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1686263 ATCCAAGAAG
1686273 ACAAAAAAGTAA-AGAAAAAA
1 ACAAAAAAGTAAGAGAAAAAA
*
1686293 ACAAAAAATGTAAGAGATAAAA
1 ACAAAAAA-GTAAGAGAAAAAA
1686315 GCTGTGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.74, C:0.05, G:0.12, T:0.10
Consensus pattern (21 bp):
ACAAAAAAGTAAGAGAAAAAA
Found at i:1687529 original size:18 final size:18
Alignment explanation
Indices: 1687486--1687541 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
1687476 TTTTTTTAGT
*
1687486 TTTTTACTTTATTTTT-A
1 TTTTTAATTTATTTTTAA
*
1687503 --TTAAATTTATTTTTAA
1 TTTTTAATTTATTTTTAA
1687519 TTTTTAATTTATTTTTAA
1 TTTTTAATTTATTTTTAA
1687537 TTTTT
1 TTTTT
1687542 TTATTAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 12 0.36
16 1 0.03
18 20 0.61
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTAATTTATTTTTAA
Found at i:1687545 original size:33 final size:34
Alignment explanation
Indices: 1687473--1687546 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
1687463 AAAACTTACC
* *
1687473 TTTTT-TTTTTAGTTTTTTACTTTATTTTTATTA
1 TTTTTATTTTTAGATTTTTAATTTATTTTTATTA
**
1687506 AATTTATTTTTA-ATTTTTAATTTATTTTTAATT-
1 TTTTTATTTTTAGATTTTTAATTTATTTTT-ATTA
1687539 TTTTTATT
1 TTTTTATT
1687547 AGATAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (34 bp):
TTTTTATTTTTAGATTTTTAATTTATTTTTATTA
Found at i:1688410 original size:7 final size:8
Alignment explanation
Indices: 1688396--1688424 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1688386 ATTTGAAAAG
1688396 ATTTTTTT
1 ATTTTTTT
1688404 ATTTTTTT
1 ATTTTTTT
1688412 ATTTTTTT
1 ATTTTTTT
1688420 ATTTT
1 ATTTT
1688425 CAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1689419 original size:3 final size:3
Alignment explanation
Indices: 1689413--1689447 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1689403 AATAATAATA
*
1689413 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1689448 AATATAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:1689448 original size:6 final size:6
Alignment explanation
Indices: 1689404--1689472 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
1689394 AAAAATGATA
* * * * *
1689404 ATAATA ATAATG ATGATG ATGATG ATGATG ATGATG ATAATG ATAAT-
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
*
1689451 ATAATTG -TAATA ATAAT- ATAAT
1 ATAA-TG ATAATG ATAATG ATAAT
1689473 ATGGTATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
5 10 0.18
6 46 0.82
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
ATAATG
Found at i:1690202 original size:114 final size:114
Alignment explanation
Indices: 1689997--1690268 Score: 285
Period size: 114 Copynumber: 2.4 Consensus size: 114
1689987 TAATGTTGCT
* * * * *
1689997 AGTCTGAAAGTGACTAAAATCGAGTCAAGGTCGTAGATGAATAATCAAAACAATGTCATGAGTCT
1 AGTCTAAAAGTGACCAAAATCGAGTCAAAGTCATAGATGAATAATCAAAACAATGTCATAAGTCT
*** *
1690062 AAAAATAATCTAGCCTAAGTTGAGATCGGATGACTGAAACAATGCCACG
66 AAAAATAATCTAGCCTAAGCCAAGATCGAATGACTGAAACAATGCCACG
* * * *
1690111 AGTCTAAAAGTGACCAAGATCGAGTTAAAGTTATAGATGAATAATCAAAACGATG-CTATAAGTC
1 AGTCTAAAAGTGACCAAAATCGAGTCAAAGTCATAGATGAATAATCAAAACAATGTC-ATAAGTC
* * * * ** ** * **
1690175 TGAAAATGATCTATCTTAAGCCAAGATCGAATGACTGGGATGATGTCGTG
65 TAAAAATAATCTAGCCTAAGCCAAGATCGAATGACTGAAACAATGCCACG
* * *
1690225 AGTCTAAAAATAATCAAAATCGAGTCAAAGTCATAGATGAATAA
1 AGTCTAAAAGTGACCAAAATCGAGTCAAAGTCATAGATGAATAA
1690269 CTAGGACGAT
Statistics
Matches: 127, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
113 1 0.01
114 126 0.99
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (114 bp):
AGTCTAAAAGTGACCAAAATCGAGTCAAAGTCATAGATGAATAATCAAAACAATGTCATAAGTCT
AAAAATAATCTAGCCTAAGCCAAGATCGAATGACTGAAACAATGCCACG
Found at i:1690446 original size:114 final size:111
Alignment explanation
Indices: 1690110--1690461 Score: 346
Period size: 114 Copynumber: 3.1 Consensus size: 111
1690100 ACAATGCCAC
* * * * * *
1690110 GAGTCTAAAAGTGACCAAGATCGAGTTAAAGTTATAGATGAATAATCAAAACGATGCTATAAGTC
1 GAGTCTAAAAATAACCAAGATCGAGTTAAAGTCATAGATGAATAATCAAGACGATGC-ATGAGTT
* *
1690175 TGAAAATGATCTATCTTAAGCCAAGATCGAATGACTGGGATGATGTCGT
65 TGAAAATGATTTA-CTTAAGCCAAGATCGGATGACTGGGATGATGT-GT
* * * * *
1690224 GAGTCTAAAAATAATCAAAATCGAGTCAAAGTCATAGATGAATAA-CTAGGACGATGTCACGAGT
1 GAGTCTAAAAATAACCAAGATCGAGTTAAAGTCATAGATGAATAATC-AAGACGATG-CATGAGT
* * * *
1690288 TTGAAAATGATTTAACTTGATCCGAGATCGGATAACTGGGATGATGTGGT
64 TTGAAAATGATTT-ACTTAAGCCAAGATCGGATGACTGGGATGATGT-GT
* * * * * *
1690338 GAGTTTGAAAATAACCAAGATCAAGTTAAGGTCATAGATGAATAATCGAGATGATGCGATGAGTT
1 GAGTCTAAAAATAACCAAGATCGAGTTAAAGTCATAGATGAATAATCAAGACGATGC-ATGAGTT
* * * * *
1690403 TGAAAATGGTTTGACATAAGCCAAGATTGGATGACTAGAATGATGATGT
65 TGAAAATGATTT-ACTTAAGCCAAGATCGGATGACTGGGATGATG-TGT
*
1690452 GAGTATAAAA
1 GAGTCTAAAA
1690462 GTGACTAAGA
Statistics
Matches: 191, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
113 2 0.01
114 185 0.97
115 4 0.02
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (111 bp):
GAGTCTAAAAATAACCAAGATCGAGTTAAAGTCATAGATGAATAATCAAGACGATGCATGAGTTT
GAAAATGATTTACTTAAGCCAAGATCGGATGACTGGGATGATGTGT
Found at i:1690575 original size:114 final size:114
Alignment explanation
Indices: 1690451--1690670 Score: 264
Period size: 114 Copynumber: 1.9 Consensus size: 114
1690441 AATGATGATG
* * * ** * **
1690451 TGAGTATAAAAGTGA-CTAAGACCTAGTCGAGATTGTAAATGAAT-AACAGAGATGATGTTTTAA
1 TGAGTATAAAAATGATC-AAGACCGAGTAGAGATCATAAATGAATGAAC-GAGATGATATCATAA
*
1690514 GTCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTTA
64 ATCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTTA
* * * *
1690565 TGAGTCTAAAAATGATCAAGATCGAGTAGAGATCATAGATGAATGATCGAGATGATATCATAAAT
1 TGAGTATAAAAATGATCAAGACCGAGTAGAGATCATAAATGAATGAACGAGATGATATCATAAAT
* * *
1690630 CTAAAAATGATCTGACTTGAGTCATGATCGGATGATTGAGA
66 CTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGA
1690671 TGATGTCGCA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
114 85 0.97
115 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (114 bp):
TGAGTATAAAAATGATCAAGACCGAGTAGAGATCATAAATGAATGAACGAGATGATATCATAAAT
CTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTTA
Found at i:1690691 original size:114 final size:114
Alignment explanation
Indices: 1690515--1690764 Score: 302
Period size: 114 Copynumber: 2.2 Consensus size: 114
1690505 ATGTTTTAAG
* **
1690515 TCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTTATGAGTCTAAAAATGA
1 TCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTCACAAGTCTAAAAATGA
* * * *
1690580 TCAAGATCGAGTAGAGATCATAGATGAATGATCGAGATGATATCATAAA
66 CCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAA
* * * ** * * *
1690629 TCTAAAAATGATCTGACTTGAGTCATGATCGGATGATTGAGATGATGTCGCAAGTTTGAAAATGA
1 TCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTCACAAGTCTAAAAATGA
* * * * * * *
1690694 CCAAAATTGAGTCGATATCATAGATGAATGATCGAGATAATGCCTTGAG
66 CCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAA
1690743 TCTAAAAATGATCTGACTTGAG
1 TCTAAAAATGATCTGACTTGAG
1690765 CTGAGATTGA
Statistics
Matches: 114, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (114 bp):
TCTAAAAATGATCTGACTTGAGTCAAGATAGGATGACTGAGACAATGTCACAAGTCTAAAAATGA
CCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAA
Found at i:1690779 original size:114 final size:114
Alignment explanation
Indices: 1690573--1690789 Score: 283
Period size: 114 Copynumber: 1.9 Consensus size: 114
1690563 TATGAGTCTA
* * * *
1690573 AAAATGATCAAGATCGAGTAGAGATCATAGATGAATGATCGAGATGATATCATAAATCTAAAAAT
1 AAAATGACCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAATCTAAAAAT
* *
1690638 GATCTGACTTGAGTCATGATCGGATGATTGAGATGATGTCGCAAGTTTG
66 GATCTGACTTGAGTCATGATCGAATGATTAAGATGATGTCGCAAGTTTG
* * * * * * *
1690687 AAAATGACCAAAATTGAGTCGATATCATAGATGAATGATCGAGATAATGCCTTGAGTCTAAAAAT
1 AAAATGACCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAATCTAAAAAT
* *
1690752 GATCTGACTTGAGCTGA-GATTGAATGATTAAGATGATG
66 GATCTGACTTGAG-TCATGATCGAATGATTAAGATGATG
1690790 CAGCGAATCT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
114 85 0.98
115 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (114 bp):
AAAATGACCAAAATCGAGTAGAGATCATAGATGAATGATCGAGATAATACCATAAATCTAAAAAT
GATCTGACTTGAGTCATGATCGAATGATTAAGATGATGTCGCAAGTTTG
Found at i:1701367 original size:31 final size:31
Alignment explanation
Indices: 1701331--1701404 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
1701321 ATAAATAAAT
* * *
1701331 AAATAACTAATTAAGCAAGTATAGGCAA-TGA
1 AAATAAATAAATAAGCAAGTATAAG-AATTGA
**
1701362 AAATAAATAAATAATTAAGTATAAGAATTGA
1 AAATAAATAAATAAGCAAGTATAAGAATTGA
*
1701393 AAATAAAAAAAT
1 AAATAAATAAAT
1701405 CTCAAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 2 0.06
31 34 0.94
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (31 bp):
AAATAAATAAATAAGCAAGTATAAGAATTGA
Found at i:1702429 original size:18 final size:19
Alignment explanation
Indices: 1702387--1702439 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 19
1702377 AGCTTAAAAC
*
1702387 AAATAACAAATCAAAATCAAA
1 AAATAA-AAATAAAAAT-AAA
1702408 AAATAAAAATAAAAAT-AA
1 AAATAAAAATAAAAATAAA
1702426 AAAT-AAAATAAAAA
1 AAATAAAAATAAAAA
1702440 AAGAAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 10 0.32
18 6 0.19
20 9 0.29
21 6 0.19
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:1702440 original size:12 final size:11
Alignment explanation
Indices: 1702405--1702441 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1702395 AATCAAAATC
1702405 AAAAAATAAAA
1 AAAAAATAAAA
1702416 ATAAAAATAAAA
1 A-AAAAATAAAA
*
1702428 ATAAAATAAAA
1 AAAAAATAAAA
1702439 AAA
1 AAA
1702442 GAAAACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:1702446 original size:6 final size:6
Alignment explanation
Indices: 1702387--1702439 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
1702377 AGCTTAAAAC
*
1702387 AAATAA CAAATCA AAATCAAA AAATAA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA -AAATAA AAAT--AA AAATAA AAATAA AAATAA AAATAA AAATAA
1702437 AAA
1 AAA
1702440 AAGAAAACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.12
6 26 0.63
7 5 0.12
8 5 0.12
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:1702446 original size:18 final size:18
Alignment explanation
Indices: 1702382--1702446 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 18
1702372 AAATAAGCTT
*
1702382 AAAACAAATAACAAATCAAA
1 AAAAAAAATAA-AAAT-AAA
*
1702402 ATCAAAAAATAAAAATAAA
1 A-AAAAAAATAAAAATAAA
*
1702421 AATAAAAAT-AAAATAAA
1 AAAAAAAATAAAAATAAA
1702438 AAAAGAAAA
1 AAAA-AAAA
1702447 CCTACGATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 4 0.11
20 5 0.13
21 8 0.21
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAAAATAAAAATAAA
Found at i:1703217 original size:13 final size:13
Alignment explanation
Indices: 1703199--1703224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1703189 ATTATGTTGA
1703199 TGAGATTTTGATT
1 TGAGATTTTGATT
1703212 TGAGATTTTGATT
1 TGAGATTTTGATT
1703225 CCTTTATTTA
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
TGAGATTTTGATT
Found at i:1705089 original size:28 final size:28
Alignment explanation
Indices: 1705020--1705089 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1705010 CCAAATTCCT
* * *
1705020 TAGAATT-AGGGATTGTATCTTAGTTCC
1 TAGAATTAAGGGATTATATCTTAGCTCA
* * *
1705047 TAAAATCAAGAGATTATATCTTAGCTCA
1 TAGAATTAAGGGATTATATCTTAGCTCA
1705075 TAGAATTAAGGGATT
1 TAGAATTAAGGGATT
1705090 TAACCATTGT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (28 bp):
TAGAATTAAGGGATTATATCTTAGCTCA
Found at i:1705646 original size:3 final size:3
Alignment explanation
Indices: 1705640--1705673 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1705630 CTCTTTTTTT
1705640 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1705674 GGCCATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1705864 original size:20 final size:19
Alignment explanation
Indices: 1705841--1705878 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1705831 TCCAGAACTT
1705841 TAAAGAAAGAAAAAGAAAAG
1 TAAAGAAA-AAAAAGAAAAG
*
1705861 TAAAGAAAAAAAATAAAA
1 TAAAGAAAAAAAAGAAAA
1705879 AATGAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (19 bp):
TAAAGAAAAAAAAGAAAAG
Found at i:1705879 original size:20 final size:20
Alignment explanation
Indices: 1705841--1705879 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1705831 TCCAGAACTT
*
1705841 TAAAGAAAGAAAAAGAAAAG
1 TAAAGAAAGAAAAAAAAAAG
1705861 TAAAGAAA-AAAAATAAAAA
1 TAAAGAAAGAAAAA-AAAAA
1705880 ATGAAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (20 bp):
TAAAGAAAGAAAAAAAAAAG
Found at i:1712625 original size:17 final size:17
Alignment explanation
Indices: 1712603--1712641 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1712593 AGCAACCCTC
1712603 TTTTTTTTCATTCTTTA
1 TTTTTTTTCATTCTTTA
* *
1712620 TTTTTTTTTATTTTTTA
1 TTTTTTTTCATTCTTTA
1712637 TTTTT
1 TTTTT
1712642 AGATAGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCATTCTTTA
Found at i:1712906 original size:20 final size:21
Alignment explanation
Indices: 1712870--1712921 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1712860 AAAGTTTTTG
**
1712870 CTTTTTTTTTTCCTTTTT-AT
1 CTTTTTTTTTTAATTTTTAAT
1712890 CTTTTTTTTTTAATTTTTAAT
1 CTTTTTTTTTTAATTTTTAAT
*
1712911 -TTTATTTTTTA
1 CTTTTTTTTTTA
1712922 TTAGATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (21 bp):
CTTTTTTTTTTAATTTTTAAT
Found at i:1724501 original size:22 final size:22
Alignment explanation
Indices: 1724474--1724525 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1724464 AAATATATTT
*
1724474 TTATTTTTATC-AAA-TTTATA
1 TTATTTTTATCAAAATTTTAAA
* *
1724494 TAATATTTATCAAAATTTTAAA
1 TTATTTTTATCAAAATTTTAAA
1724516 TTATTTTTAT
1 TTATTTTTAT
1724526 TTTTATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 9 0.36
21 3 0.12
22 13 0.52
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTTTTATCAAAATTTTAAA
Found at i:1725554 original size:24 final size:25
Alignment explanation
Indices: 1725525--1725573 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
1725515 AAAATTTTAA
1725525 TTTTAT-TATTTTATT-TAAATAAAT
1 TTTTATAT-TTTTATTGTAAATAAAT
*
1725549 TTTTATATTTTTATTGTAATTAAAT
1 TTTTATATTTTTATTGTAAATAAAT
1725574 AAGTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATATTTTTATTGTAAATAAAT
Found at i:1725562 original size:29 final size:28
Alignment explanation
Indices: 1725530--1725635 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
1725520 TTTAATTTTA
* *
1725530 TTATTTTATTTAAATAAATTTTTATATTT
1 TTATTTTATCTAAATAAATTTTTA-ATAT
* * *
1725559 TTATTGTAAT-TAAATAAGTATTTAATAT
1 TTATT-TTATCTAAATAAATTTTTAATAT
*
1725587 TTATTTTATACCTAAATAAATTTGTAA-AT
1 TTATTTTAT--CTAAATAAATTTTTAATAT
1725616 TTATTTGTATCTAAATAAAT
1 TTATTT-TATCTAAATAAAT
1725636 AAAATAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 3 0.05
28 18 0.28
29 25 0.39
30 18 0.28
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATTTTATCTAAATAAATTTTTAATAT
Found at i:1726989 original size:3 final size:3
Alignment explanation
Indices: 1726981--1727024 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1726971 AGGCTGGAGA
* *
1726981 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG ATG GAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1727025 AGCAAAGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:1730197 original size:10 final size:10
Alignment explanation
Indices: 1730184--1730227 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
1730174 TCAAATCAAA
1730184 TTATATATTT
1 TTATATATTT
1730194 TTAT-TAGTTT
1 TTATATA-TTT
1730204 TTATATATTT
1 TTATATATTT
*
1730214 TTA-AAATTT
1 TTATATATTT
1730223 TTATA
1 TTATA
1730228 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATATATTT
Found at i:1730224 original size:20 final size:20
Alignment explanation
Indices: 1730184--1730227 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1730174 TCAAATCAAA
**
1730184 TTATATATTTTTATTAGTTT
1 TTATATATTTTTAAAAGTTT
1730204 TTATATATTTTTAAAA-TTT
1 TTATATATTTTTAAAAGTTT
1730223 TTATA
1 TTATA
1730228 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTAAAAGTTT
Found at i:1742780 original size:14 final size:15
Alignment explanation
Indices: 1742761--1742790 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1742751 TGTATTAAAT
1742761 AATAAAATA-TTATA
1 AATAAAATATTTATA
1742775 AATAAAATATTTATA
1 AATAAAATATTTATA
1742790 A
1 A
1742791 TATTGACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAAATATTTATA
Found at i:1742792 original size:14 final size:13
Alignment explanation
Indices: 1742759--1742792 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1742749 GTTGTATTAA
1742759 ATAATAAAATATT
1 ATAATAAAATATT
1742772 ATAAATAAAATATTT
1 AT-AATAAAATA-TT
1742787 ATAATA
1 ATAATA
1742793 TTGACCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 13 0.68
15 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAAAATATT
Found at i:1745165 original size:335 final size:335
Alignment explanation
Indices: 1744395--1745324 Score: 1445
Period size: 335 Copynumber: 2.8 Consensus size: 335
1744385 AGAGGGCCCT
* * * * ** *
1744395 TCATGATCAATATCTGAGTCAGGATGAGGGTTTGTCCTCCTTAAAAAGCCAATGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1744460 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
*
1744525 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTTGGTGTCCATCTTGGG
* * * *
1744590 ACATTAGCTGAAGAAT-CAGTTCTTAAATTTAATCCTGACAAAAAGTTGATGGATATGAGACGAG
196 ACATTAACTGAAGAATCCA-TGCTTAAATTTAATCCTG-GAAAAAGTTGATGGATATGAGATGAG
* *
1744654 ATTGAGATCAGAAGCTATGGCGGATCGGACTTGGGTTATCAATGACTATATATGGATGAATAAGA
259 ATTGAGATCAGAAGCTATAGCGGATCGGACTTGGGTTATCAATGACTATATAAGGATGAATAAGA
*
1744719 TCAATGACGACA
324 TCAATGACCACA
* *
1744731 TCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1744796 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
* * *
1744861 AGGCATCATGAGCAAGTTCAGGCTCCTTTCGAGGTGATCTTGCAGGGCTAGGTATCCATCTTGGG
131 AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTTGGTGTCCATCTTGGG
* * *
1744926 ACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATATAAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATATGAGATGAGAT
* * * *
1744991 TGAGATTAGAAGCTATAGCGGATTGGATTTGGGTTATCAATGACTATA-AAGGAATGAATATGAT
261 TGAGATCAGAAGCTATAGCGGATCGGACTTGGGTTATCAATGACTATATAAGG-ATGAATAAGAT
*
1745055 CAATGACCATA
325 CAATGACCACA
*
1745066 TCATGATCAATACCTGAGTCAGAAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * * * *
1745131 ATTTGTTTCCATATTGTTAGAAAAGCTATAGTTATCTTGTTCAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
** * *
1745196 AGGCATCATGAGCTCGTTCAGGCTCCTTTTGAGGTGATCTTGCGGGGTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTTGGTGTCCATCTTGGG
*
1745261 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCT-GACAAAAGTTGAT-GAGATGAGATGAGA
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGA-AAAAGTTGATGGATATGAGATGAGA
1745324 T
260 T
1745325 CAGAAGCTAT
Statistics
Matches: 544, Mismatches: 47, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
334 18 0.03
335 312 0.57
336 212 0.39
337 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (335 bp):
TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTTGGTGTCCATCTTGGG
ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATATGAGATGAGAT
TGAGATCAGAAGCTATAGCGGATCGGACTTGGGTTATCAATGACTATATAAGGATGAATAAGATC
AATGACCACA
Found at i:1747025 original size:20 final size:20
Alignment explanation
Indices: 1746974--1747039 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
1746964 TTTAAAATTA
1746974 ATAAAATATTATTTTTTTAAT
1 ATAAAATATTA-TTTTTTAAT
1746995 AT-AAA-A--A-TTTTTAAT
1 ATAAAATATTATTTTTTAAT
* *
1747010 TTAAAATATTATTTTTTAAA
1 ATAAAATATTATTTTTTAAT
1747030 ATATAAATAT
1 ATA-AAATAT
1747040 AAAATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 2 0.06
19 2 0.06
20 12 0.33
21 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:1747057 original size:16 final size:16
Alignment explanation
Indices: 1747032--1747093 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
1747022 TTTTTAAAAT
1747032 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
* * *
1747048 ATAAACATAAAACATAT
1 ATAAATATAAAA-TTAA
1747065 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
*
1747081 ATAAATAAAAAAT
1 ATAAATATAAAAT
1747094 ATATATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Found at i:1747089 original size:31 final size:33
Alignment explanation
Indices: 1747030--1747098 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1747020 ATTTTTTAAA
*
1747030 ATATAAATATAAAATTAAATAAACATAAAACAT
1 ATATAAATATAAAATTAAATAAACATAAAAAAT
1747063 ATATAAATATAAAATTAAAT-AA-ATAAAAAAT
1 ATATAAATATAAAATTAAATAAACATAAAAAAT
1747094 ATATA
1 ATATA
1747099 TTATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 13 0.37
32 2 0.06
33 20 0.57
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (33 bp):
ATATAAATATAAAATTAAATAAACATAAAAAAT
Found at i:1751595 original size:335 final size:336
Alignment explanation
Indices: 1750784--1753765 Score: 4615
Period size: 335 Copynumber: 8.9 Consensus size: 336
1750774 AGAGGGCTCT
* * * * *
1750784 TCATGATCAATATCTGAGTCAGGATGAGAGTTTGTGCTCCTTGCAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
*
1750849 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * * * *
1750914 AGGCATCATGAGCAGGTTCAGGCTCCTTTGGAAGTGATCTTGCGGGGCTTGGTGTCCATCTTCGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
* *
1750979 ATATTAACTGAAGAATCCATGCTTAAATTTAATCCTGACAAAAGTTGATGGATATGAGATGAGA-
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
* *
1751043 TGAGATCAGAAGCCATGGCGGA-TCGGATTTGGGTTATCAATGACTATATATGGATGAATATGAT
261 TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
*
1751107 CAATGACGTTA
326 CAATGACGATA
* * *
1751118 TCATGCTGAATACCTGAGTCGGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
*
1751183 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * * * * *
1751248 AGGCATCATGAGCAAGTTCAGGCCCCTTTTGAGGTGATCTTGCAGATCTAGGTATCCATCTTGTG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
* * * *
1751313 ACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGGAAAAGTTGATGGATATAAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
*
1751378 TGAGATTAGAAGCTATGGCGGACT-GGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
261 TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
* *
1751442 CGATGACTATA
326 CAATGACGATA
* *
1751453 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTACTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * *
1751518 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTTAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * *
1751583 AGGCATCATGAGCTGGTTCAGGTTCCTTTTGAGGTGATCTTGCAGGTTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
*
1751648 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGA-
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
* * * *
1751712 TGAGATCAGAAGCTATGACGAACTCGGATTTGGGTTATCAATGACTGTATATGGATGAATATGAT
261 TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
1751777 CAATGACGATA
326 CAATGACGATA
* * *
1751788 TCATGGTGAATACCTGAGTCAGGAGGAGGATTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* *
1751853 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCGGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * * *
1751918 AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTATCCATCTTGGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
* * *
1751983 ACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATATGAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
* *
1752048 TGAGATTAGAAGCTATGGCGGA-TTGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
261 TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
1752112 CAATGACGATA
326 CAATGACGATA
* *
1752123 TCATGATCAATACCTGAGTCAGGAGGAGGGCTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * *
1752188 ATTTGTTTCCATATTGTTAGAAAAGCCGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
*
1752253 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGT-TTGGTGTCCATCTTGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCA-GGTCTTGGTGTCCATCTTGG
* *
1752317 GACTTTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGA
195 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGA
** * *
1752382 -TGAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGA
260 TTGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGA
1752446 TCAATGACGATA
325 TCAATGACGATA
* * *
1752458 TCATGGTGAATACCTGAGCCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * *
1752523 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTAGGCTTCGAACCTTCG
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * * *
1752588 AGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTATCCATCTTGGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
* * * * *
1752653 ACCTTAACTGCAGAATCCATGCTTAAATTTAACCCTGGAAAAAGTTGATGGATATAAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
* * *
1752718 TGAGATTAGAAGCTATGGCGGA-TTGGATTTGGGTTAACAATGACTATAAATGGATGAATATGAT
261 TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
* *
1752782 CAATCACTATA
326 CAATGACGATA
* * *
1752793 TCATGATCAATACCTGAGTCAGGATGAGGGTTAGTGCTCCTTGTTAAGCCAGTACTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * *
1752858 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTGTTCAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
* * *
1752923 AGGCATCATGAACTGGTTCAGGCTCCTTTCGAGGTGATCTTGCAGGGT-TTGGTGTCCATCTTGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCA-GGTCTTGGTGTCCATCTTGG
* *
1752987 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGGTGGATATGAGTTGAGA
195 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGA
** * *
1753052 TT-AGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGA
260 TTGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGA
*
1753116 TCATTGACGATA
325 TCAATGACGATA
* *
1753128 TCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* *
1753193 ATTTATTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTCCGAACCAT-C
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACC-TCC
* * *
1753257 AAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTGTCCATCTTGG
130 AAGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGG
* * *
1753322 GACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATATGAGATGAGA
195 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGA
* * *
1753387 TTGAGATTAGAAGCTATGGCGGA-TTGGATTTGGGTTATCAATGATTATAAATGGATGAATATGA
260 TTGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGA
*
1753451 TCAATGACTATA
325 TCAATGACGATA
* *
1753463 TCATGATCACTACCTGAGTCAGAAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
* * * *
1753528 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACTTCTA
66 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
*
1753593 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGT-TTGGTGTCCATCTTGG
131 AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCA-GGTCTTGGTGTCCATCTTGG
* * *
1753657 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGTTATGAGAAGAGA
195 GACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGA
** *
1753722 -TGAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGA
260 TTGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGA
1753766 GTACTATATA
Statistics
Matches: 2397, Mismatches: 235, Indels: 31
0.90 0.09 0.01
Matches are distributed among these distances:
334 312 0.13
335 2024 0.84
336 61 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (336 bp):
TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTCCA
AGGCATCATGAGCAGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGTCTTGGTGTCCATCTTGGG
ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGATGGATATGAGATGAGAT
TGAGATCAGAAGCTATGGCGGACTCGGATTTGGGTTATCAATGACTATAAATGGATGAATATGAT
CAATGACGATA
Found at i:1751778 original size:27 final size:27
Alignment explanation
Indices: 1751748--1751799 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
1751738 GATTTGGGTT
1751748 ATCAATGACTG-TAT-ATGGATGAATATG
1 ATCAATGAC-GATATCATGG-TGAATATG
1751775 ATCAATGACGATATCATGGTGAATA
1 ATCAATGACGATATCATGGTGAATA
1751800 CCTGAGTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
27 18 0.78
28 4 0.17
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (27 bp):
ATCAATGACGATATCATGGTGAATATG
Found at i:1752063 original size:670 final size:670
Alignment explanation
Indices: 1750784--1753783 Score: 5282
Period size: 670 Copynumber: 4.5 Consensus size: 670
1750774 AGAGGGCTCT
* * * * **
1750784 TCATGATCAATATCTGAGTCAGGATGAGAGTTTGTGCTCCTTGCAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
* * *
1750849 ATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTCGAACCTTCA
66 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
* * * * * *
1750914 AGGCATCATGAGCAGGTTCAGGCTCCTTTGGAAGTGATCTTGCGGGGCTTGGTGTCCATCTTCGG
131 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
* * *
1750979 ATATTAACTGAAGAATCCATGCTTAAATTTAATCCTGACAAAAGTTGATGGATATGAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
* ** *
1751044 GAGATCAGAAGCCATGGCGGA-TCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
261 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
* *
1751108 AATGACGTTATCATGCTGAATACCTGAGTCGGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
326 AATGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
1751173 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
391 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
* **
1751238 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCCCCTTTTGAGGTGATCTTGCAGATCTAGGTAT
456 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
* *
1751303 CCATCTTGTGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGGAAAAGTTGATGGATAT
521 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
*
1751368 AAGATGAGATTGAGATTAGAAGCTATGGCGGACTGGATTTGGGTTATCAATGACTATAAATGGAT
586 AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
*
1751433 GAATATGATCGATGACTATA
651 GAATATGATCAATGACTATA
*
1751453 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTACTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
*
1751518 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTTAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
* *
1751583 AGGCATCATGAGCTGGTTCAGGTTCCTTTTGAGGTGATCTTGCAGGTTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
1751648 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
* *
1751713 GAGATCAGAAGCTATGACGAACTCGGATTTGGGTTATCAATGACTGTATATGGATGAATATGATC
261 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
* *
1751778 AATGACGATATCATGGTGAATACCTGAGTCAGGAGGAGGATTAGTGCTCCTTGTAAAGCCAGTGC
326 AATGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
*
1751843 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCGGAAACTATGCTT
391 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
1751908 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
456 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
1751973 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
521 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
*
1752038 GAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
586 AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
*
1752103 GAATATGATCAATGACGATA
651 GAATATGATCAATGACTATA
*
1752123 TCATGATCAATACCTGAGTCAGGAGGAGGGCTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
*
1752188 ATTTGTTTCCATATTGTTAGAAAAGCCGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
1752253 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
*
1752318 ACTTTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
1752383 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
261 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
* *
1752448 AATGACGATATCATGGTGAATACCTGAGCCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
326 AATGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
*
1752513 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTAGGCTT
391 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
*
1752578 CGAACCTTCGAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
456 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
*
1752643 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAACCCTGGAAAAAGTTGATGGATAT
521 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
*
1752708 AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTAACAATGACTATAAATGGAT
586 AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
*
1752773 GAATATGATCAATCACTATA
651 GAATATGATCAATGACTATA
* *
1752793 TCATGATCAATACCTGAGTCAGGATGAGGGTTAGTGCTCCTTGTTAAGCCAGTACTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
*
1752858 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTGTTCAGAAACTATGCTTTGAACCTCCA
66 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
* *
1752923 AGGCATCATGAACTGGTTCAGGCTCCTTTCGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
* * *
1752988 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAGTTGGTGGATATGAGTTGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
*
1753053 TAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
261 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
*
1753118 ATTGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
326 AATGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
* *
1753183 TAAACGGGAAATTTATTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTC
391 TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
* *
1753248 CGAACCATCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTGT
456 CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
1753313 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
521 CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
* *
1753378 GAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGATTATAAATGGAT
586 AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
1753443 GAATATGATCAATGACTATA
651 GAATATGATCAATGACTATA
* * *
1753463 TCATGATCACTACCTGAGTCAGAAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGCTAAACGGGAA
1 TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
* *
1753528 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACTTCTA
66 ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
1753593 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
131 AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
* *
1753658 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGTTATGAGAAGAGAT
196 ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
*
1753723 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGAGTACTATATATAGATGAA
261 GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAAT--G-ACTATATATGGATGAA
1753784 CATGGCGGTG
Statistics
Matches: 2225, Mismatches: 102, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
669 256 0.12
670 1953 0.88
672 1 0.00
673 15 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (670 bp):
TCATGATCAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTTAAGCCAGTGCTAAACGGGAA
ATTTGTTTCCATATTGTTAGAAAAGCTGTAGTTATCTTCTTCAGAAACTATGCTTTGAACCTCCA
AGGCATCATGAGCTGGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGTTTGGTGTCCATCTTGGG
ACATTAACTGAAGAATCCATGCTTAAATTTAATCCTGGCAAAAATTGATGGATATGAGATGAGAT
GAGATCAGAAGCTATGAAGAACTCGGATTTGGGTTATCAATGACTATATATGGATGAATATGATC
AATGACGATATCATGCTGAATACCTGAGTCAGGAGGAGGGTTAGTGCTCCTTGTAAAGCCAGTGC
TAAACGGGAAATTTGTTTCCATATTGTTAGAGAAGCTGTAGTTATCTTCTTCAGAAACTATGCTT
CGAACCTTCAAGGCATCATGAGCAAGTTCAGGCTCCTTTTGAGGTGATCTTGCAGGGCTAGGTAT
CCATCTTGGGACCTTAACTGCAGAATCCATGCTTAAATTTAATCCTGGAAAAAGTTGATGGATAT
AAGATGAGATTGAGATTAGAAGCTATGGCGGATTGGATTTGGGTTATCAATGACTATAAATGGAT
GAATATGATCAATGACTATA
Found at i:1752448 original size:27 final size:27
Alignment explanation
Indices: 1752418--1752469 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
1752408 GATTTGGGTT
*
1752418 ATCAATGACTATAT-ATGGATGAATATG
1 ATCAATGACGATATCATGG-TGAATATG
1752445 ATCAATGACGATATCATGGTGAATA
1 ATCAATGACGATATCATGGTGAATA
1752470 CCTGAGCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (27 bp):
ATCAATGACGATATCATGGTGAATATG
Found at i:1755347 original size:13 final size:13
Alignment explanation
Indices: 1755329--1755354 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1755319 TGGATTGGAC
1755329 TTAAAATTTAAAG
1 TTAAAATTTAAAG
1755342 TTAAAATTTAAAG
1 TTAAAATTTAAAG
1755355 GGAATCAAAA
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTAAAATTTAAAG
Found at i:1756465 original size:13 final size:13
Alignment explanation
Indices: 1756447--1756472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1756437 AAATAGTGAA
1756447 AGAATTTAAATTT
1 AGAATTTAAATTT
1756460 AGAATTTAAATTT
1 AGAATTTAAATTT
1756473 GTCATGAGAT
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AGAATTTAAATTT
Found at i:1757824 original size:20 final size:20
Alignment explanation
Indices: 1757799--1757858 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 20
1757789 TTTAAAATTA
1757799 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTTAAT
*
1757819 AT-AAA-A--ATTTTTT-AC
1 ATAAAATATTATTTTTTAAT
1757834 ATAAAATATTA-TTTTTACAT
1 ATAAAATATTATTTTTTA-AT
1757854 ATAAA
1 ATAAA
1757859 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 3 0.09
16 10 0.31
17 1 0.03
18 6 0.19
19 4 0.12
20 8 0.25
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:1757876 original size:35 final size:37
Alignment explanation
Indices: 1757788--1757874 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 37
1757778 AATTGATTTG
1757788 ATTTAAAATT-AATAAAATATTATTTTTTAATATAAAA
1 ATTTAAAATTAAATAAAATATTATTTTTTAATAT-AAA
* *
1757825 ATTT---TTTACATAAAATATTA-TTTTTACATAT-AA
1 ATTTAAAATTAAATAAAATATTATTTTTTA-ATATAAA
1757858 ATTTAAAATTAAATAAA
1 ATTTAAAATTAAATAAA
1757875 TAATAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
33 6 0.15
34 8 0.20
35 15 0.37
36 8 0.20
37 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTAAAATTAAATAAAATATTATTTTTTAATATAAA
Found at i:1758064 original size:15 final size:15
Alignment explanation
Indices: 1758044--1758075 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1758034 ACGAATTCAG
1758044 TTTCGATTGTCAACC
1 TTTCGATTGTCAACC
1758059 TTTCGATTGTCAACC
1 TTTCGATTGTCAACC
1758074 TT
1 TT
1758076 AACTGGGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (15 bp):
TTTCGATTGTCAACC
Found at i:1766677 original size:33 final size:33
Alignment explanation
Indices: 1766635--1766736 Score: 150
Period size: 33 Copynumber: 3.1 Consensus size: 33
1766625 CATCAACCAA
* * *
1766635 ATCAGCCTCTAAAGCCACTTCTGAGATTTTTTC
1 ATCAGCCTCTGAAGCCACTTCCGAGATCTTTTC
1766668 ATCAGCCTCTGAAGCCACTTCCGAGATCTTTTC
1 ATCAGCCTCTGAAGCCACTTCCGAGATCTTTTC
* * *
1766701 ATCTGCCTCTGAAGCTACTTCCAAGATCTTTTC
1 ATCAGCCTCTGAAGCCACTTCCGAGATCTTTTC
1766734 ATC
1 ATC
1766737 TGTCCCATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (33 bp):
ATCAGCCTCTGAAGCCACTTCCGAGATCTTTTC
Found at i:1788876 original size:26 final size:26
Alignment explanation
Indices: 1788824--1788879 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
1788814 AAATAGTAAT
* *
1788824 AAAAATTATTGTAAATATGATTAAAA
1 AAAAATTACTGTAAATATAATTAAAA
* * *
1788850 AAAAATTACTGTAATTGTAATTGAAA
1 AAAAATTACTGTAAATATAATTAAAA
1788876 AAAA
1 AAAA
1788880 TTCAATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (26 bp):
AAAAATTACTGTAAATATAATTAAAA
Found at i:1789006 original size:96 final size:98
Alignment explanation
Indices: 1788840--1789039 Score: 368
Period size: 96 Copynumber: 2.1 Consensus size: 98
1788830 TATTGTAAAT
*
1788840 ATGATTAAAAAAAAATTACTGTAATTGTAATTGAAAAAAATTCAATAAAAAATTTATACTGAATA
1 ATGATTAAAAAAAAATTACTGTAACTGTAATTGAAAAAAATTCAATAAAAAATTTATACTGAATA
1788905 AATATTTTTGAAATTAACATTTAAATTCAACTG
66 AATATTTTTGAAATTAACATTTAAATTCAACTG
1788938 ATGATT-AAAAAAAATTACTGTAACTGTAATTG-AAAAAATTCAATAAAAAATTTATACTGAATA
1 ATGATTAAAAAAAAATTACTGTAACTGTAATTGAAAAAAATTCAATAAAAAATTTATACTGAATA
*
1789001 AATATTTTTGAAATTAACATTTGAATTCAACTG
66 AATATTTTTGAAATTAACATTTAAATTCAACTG
1789034 ATGATT
1 ATGATT
1789040 CAATAAATTC
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
96 69 0.69
97 25 0.25
98 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (98 bp):
ATGATTAAAAAAAAATTACTGTAACTGTAATTGAAAAAAATTCAATAAAAAATTTATACTGAATA
AATATTTTTGAAATTAACATTTAAATTCAACTG
Found at i:1800941 original size:187 final size:187
Alignment explanation
Indices: 1800623--1800992 Score: 607
Period size: 187 Copynumber: 2.0 Consensus size: 187
1800613 TAAATGTCAA
*
1800623 ACATTTAAACCAGCTATTAATCATTTTGCTCGAAGCAGGTAGCTACATGAATTAGATTAAGAGAT
1 ACATTTAAACCAGCTATTAATCATTTTGCTCGAAGCAGGTAGCAACATGAATTAGATTAAGAGAT
* *
1800688 TGACTACAACTTCAAATACTTAGCAATTCATGGCAATGTTCTAACAATACCAAGCCAACAGATGA
66 TGACTACAACTTCAAATACTTAGCAATTCAAGGCAATGTTCTAACAACACCAAGCCAACAGATGA
* * *
1800753 TGCATGCTTTCTATTTAGGAACTGAATTCAACAACTAATAGAATTCTGTCACCACAT
131 TGCATGCTTTCTATGTAGGAAATGAATTCAACAACTAATAGAATTCTCTCACCACAT
* *
1800810 ACATTTAAACCGGCTATTAATCATTTTGCTCTAAGCAGGTAGCAACATGAATTAGATTAAGAGAT
1 ACATTTAAACCAGCTATTAATCATTTTGCTCGAAGCAGGTAGCAACATGAATTAGATTAAGAGAT
* * * * *
1800875 TGACTGCAACTTTAAATACTTGGCAATTCAAGGCATTGTTCTAACAACA-CAAGGCCAACGGATG
66 TGACTACAACTTCAAATACTTAGCAATTCAAGGCAATGTTCTAACAACACCAA-GCCAACAGATG
1800939 ATGCATGCTTTCTATGTAGGAAATGAATTCAACAACTAATAGAATTCTCTCACC
130 ATGCATGCTTTCTATGTAGGAAATGAATTCAACAACTAATAGAATTCTCTCACC
1800993 GCATCAGTAT
Statistics
Matches: 169, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 3 0.02
187 166 0.98
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (187 bp):
ACATTTAAACCAGCTATTAATCATTTTGCTCGAAGCAGGTAGCAACATGAATTAGATTAAGAGAT
TGACTACAACTTCAAATACTTAGCAATTCAAGGCAATGTTCTAACAACACCAAGCCAACAGATGA
TGCATGCTTTCTATGTAGGAAATGAATTCAACAACTAATAGAATTCTCTCACCACAT
Found at i:1801098 original size:32 final size:32
Alignment explanation
Indices: 1801062--1801128 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
1801052 TTCGGCCTGT
*
1801062 AGTTCAAAACAGCTGATATTAGTAATTTCTAA
1 AGTTCAAAAAAGCTGATATTAGTAATTTCTAA
1801094 AGTTCAAAAAAGCTGATATTAGTAATTTCTAA
1 AGTTCAAAAAAGCTGATATTAGTAATTTCTAA
1801126 AGT
1 AGT
1801129 AAATCTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (32 bp):
AGTTCAAAAAAGCTGATATTAGTAATTTCTAA
Found at i:1810710 original size:10 final size:10
Alignment explanation
Indices: 1810697--1810742 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
1810687 ATTGATTTAA
1810697 ATAAAATTTT
1 ATAAAATTTT
1810707 ATAAAA-TTT
1 ATAAAATTTT
1810716 -TAAAATTTAT
1 ATAAAATTT-T
* *
1810726 ATAAAAATTA
1 ATAAAATTTT
1810736 ATAAAAT
1 ATAAAAT
1810743 ATAATTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.17
9 5 0.17
10 13 0.43
11 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:1810736 original size:18 final size:18
Alignment explanation
Indices: 1810698--1810736 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1810688 TTGATTTAAA
*
1810698 TAAAATTTTATAAAATTT
1 TAAAATTTTATAAAATAT
1810716 TAAAATTTATATAAAA-AT
1 TAAAATTT-TATAAAATAT
1810734 TAA
1 TAA
1810737 TAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATTTTATAAAATAT
Found at i:1811853 original size:6 final size:7
Alignment explanation
Indices: 1811836--1811862 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1811826 GGCTACGATT
1811836 TTTTTTC
1 TTTTTTC
1811843 TTTTTTC
1 TTTTTTC
1811850 TTTTTTC
1 TTTTTTC
1811857 TTTTTT
1 TTTTTT
1811863 TAGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:1813952 original size:16 final size:16
Alignment explanation
Indices: 1813913--1813951 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1813903 TATCAAAATT
* *
1813913 TATTGAAATTATTTAT
1 TATTAAAATTATTTAA
1813929 TATTAAAATTA-TTAA
1 TATTAAAATTATTTAA
1813944 TATTAAAA
1 TATTAAAA
1813952 AATAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TATTAAAATTATTTAA
Found at i:1814097 original size:5 final size:5
Alignment explanation
Indices: 1814080--1814120 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
1814070 CAATAAATTA
1814080 ATAAT ATTAAT ATAAT ATAAT ATAAT AT-AT -TAAT ATAAT AT
1 ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1814121 TATTTATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 23 0.70
6 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:1814113 original size:23 final size:23
Alignment explanation
Indices: 1814071--1814129 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
1814061 TTATTTATTC
1814071 AATA-AATTAATAATATTAATAT
1 AATATAATTAATAATATTAATAT
1814093 AATATAATATAAT-ATATTAATAT
1 AATATAAT-TAATAATATTAATAT
* *
1814116 AATATTATTTATAA
1 AATATAATTAATAA
1814130 GTAAAACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.22
23 21 0.66
24 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATAATTAATAATATTAATAT
Found at i:1814115 original size:13 final size:13
Alignment explanation
Indices: 1814078--1814120 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1814068 TTCAATAAAT
1814078 TAATAATATTAATA
1 TAAT-ATATTAATA
1814092 T-A-ATA-TAATA
1 TAATATATTAATA
1814102 TAATATATTAATA
1 TAATATATTAATA
1814115 TAATAT
1 TAATAT
1814121 TATTTATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.23
11 4 0.15
12 3 0.12
13 12 0.46
14 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATATATTAATA
Found at i:1814461 original size:22 final size:25
Alignment explanation
Indices: 1814421--1814471 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
1814411 TATATATTTA
*
1814421 ATAAATATATTTTTATTAAA-TAAT
1 ATAAATATATTATTATTAAATTAAT
1814445 ATAAAT-TATTATT-TTAAATTAAT
1 ATAAATATATTATTATTAAATTAAT
1814468 -TAAA
1 ATAAA
1814472 ATTAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 10 0.40
24 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAAATATATTATTATTAAATTAAT
Found at i:1814504 original size:27 final size:27
Alignment explanation
Indices: 1814424--1814519 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
1814414 ATATTTAATA
1814424 AATATATTTTTATTAAATAATATAAATT
1 AATATATTTTTATTAAA-AATATAAATT
* *
1814452 -AT-TATTTTAAATT--AATTA-AAATT
1 AATATATTTT-TATTAAAAATATAAATT
*
1814475 AATATATTTTTATTAAAAATATATATT
1 AATATATTTTTATTAAAAATATAAATT
*
1814502 AATATATATTTA-TAAAAA
1 AATATATTTTTATTAAAAA
1814520 GTACCTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
23 5 0.09
24 8 0.14
25 7 0.12
26 16 0.29
27 20 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATATTTTTATTAAAAATATAAATT
Found at i:1818201 original size:7 final size:8
Alignment explanation
Indices: 1818161--1818194 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
1818151 ATTATTTTTT
1818161 AAATATAA
1 AAATATAA
1818169 AATATATAA
1 AA-ATATAA
1818178 AAATATAA
1 AAATATAA
1818186 AAAT-TAA
1 AAATATAA
1818193 AA
1 AA
1818195 TTAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.20
8 12 0.48
9 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATATAA
Found at i:1826166 original size:54 final size:54
Alignment explanation
Indices: 1826084--1826188 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
1826074 ATCATGTTGT
1826084 ATTATGAATCACGGCTCTTCCTACTCAAATCTTCTAACTTGTAGTACTATATGA
1 ATTATGAATCACGGCTCTTCCTACTCAAATCTTCTAACTTGTAGTACTATATGA
*
1826138 ATTATGAATCACGGCTCTTTCTACTCAAATCTTCTAACTTGTAGTACTATA
1 ATTATGAATCACGGCTCTTCCTACTCAAATCTTCTAACTTGTAGTACTATA
1826189 ATTCTATGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (54 bp):
ATTATGAATCACGGCTCTTCCTACTCAAATCTTCTAACTTGTAGTACTATATGA
Found at i:1827541 original size:21 final size:24
Alignment explanation
Indices: 1827515--1827563 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 24
1827505 GTGTGTAAAA
1827515 TTTAAAAATTTTTA-ATA-A-ATT
1 TTTAAAAATTTTTAGATAGATATT
*
1827536 TTT-AAATTTTTTAGATAGATATT
1 TTTAAAAATTTTTAGATAGATATT
1827559 TTTAA
1 TTTAA
1827564 TAAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 6 0.26
22 1 0.04
23 6 0.26
24 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTAAAAATTTTTAGATAGATATT
Found at i:1827899 original size:25 final size:27
Alignment explanation
Indices: 1827857--1827916 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
1827847 TTGTCTGACA
*
1827857 AAAAAAATATTATTAAATACAAAATA-C
1 AAAAAAATATCA-TAAATACAAAATACC
*
1827884 AAAAAAATATCA-AAATACAAGATACC
1 AAAAAAATATCATAAATACAAAATACC
1827910 AAAAAAA
1 AAAAAAA
1827917 AATAAAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 11 0.37
26 8 0.27
27 11 0.37
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (27 bp):
AAAAAAATATCATAAATACAAAATACC
Found at i:1827914 original size:27 final size:27
Alignment explanation
Indices: 1827854--1827917 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
1827844 AATTTGTCTG
*
1827854 ACAAAAAAAATATTATTAAATACAAAAT
1 ACAAAAAAAATATCA-TAAATACAAAAT
*
1827882 AC-AAAAAAATATCA-AAATACAAGAT
1 ACAAAAAAAATATCATAAATACAAAAT
1827907 ACCAAAAAAAA
1 A-CAAAAAAAA
1827918 ATAAAACAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.34
26 1 0.03
27 18 0.56
28 2 0.06
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.17
Consensus pattern (27 bp):
ACAAAAAAAATATCATAAATACAAAAT
Found at i:1827923 original size:25 final size:25
Alignment explanation
Indices: 1827871--1827923 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
1827861 AAATATTATT
*
1827871 AAATACAAAATACAAAAAAATATCA
1 AAATACAAAATACAAAAAAAAATCA
*
1827896 AAATACAAGATACCAAAAAAAAAT-A
1 AAATACAAAATA-CAAAAAAAAATCA
1827921 AAA
1 AAA
1827924 CAGACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (25 bp):
AAATACAAAATACAAAAAAAAATCA
Found at i:1829075 original size:18 final size:19
Alignment explanation
Indices: 1829042--1829079 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1829032 TAATTTTTAA
1829042 AATAAACTTAAATAATAAT
1 AATAAACTTAAATAATAAT
*
1829061 AATAAA-TTTAATAATAAT
1 AATAAACTTAAATAATAAT
1829079 A
1 A
1829080 CAAAAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAACTTAAATAATAAT
Found at i:1829108 original size:12 final size:11
Alignment explanation
Indices: 1829081--1829107 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1829071 ATAATAATAC
1829081 AAAAATAAGAA
1 AAAAATAAGAA
1829092 AAAAATAAGAA
1 AAAAATAAGAA
1829103 AAAAA
1 AAAAA
1829108 AGAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAATAAGAA
Found at i:1833865 original size:95 final size:95
Alignment explanation
Indices: 1833758--1834045 Score: 461
Period size: 95 Copynumber: 3.0 Consensus size: 95
1833748 AAAAGATACC
1833758 AGTGCCAGAGAGAAGATGAAGTTATTGAAAGAAAGGTTTAGGGCTGTAGAGAAAATAAATTTTTA
1 AGTGCCAGAGAGAAGATGAAGTTATTGAAAGAAAGGTTTAGGGCTGTAGAGAAAATAAATTTTTA
*
1833823 TGGCTCCACAGATGCGGCTGACCTTTGTTT
66 TGACTCCACAGATGCGGCTGACCTTTGTTT
* * * *
1833853 AGTGCCAGAGAGAAAATAAAGTTATTGAAAGAAAGGCTTAGGGCTGTAGA-AGAAATGAATTTTT
1 AGTGCCAGAGAGAAGATGAAGTTATTGAAAGAAAGGTTTAGGGCTGTAGAGA-AAATAAATTTTT
*
1833917 ATGACTCCACAGATGCGGTTGACCTTTGTTT
65 ATGACTCCACAGATGCGGCTGACCTTTGTTT
* * *
1833948 AGTGCCAGAGAGAAGATGAAGTTGTTGAAAAAAAGGTTTAGAGCTGTAGAGAAAATAAATTTTTA
1 AGTGCCAGAGAGAAGATGAAGTTATTGAAAGAAAGGTTTAGGGCTGTAGAGAAAATAAATTTTTA
* *
1834013 TGACTCTACAAATGCGGCTGACCTTTGTTT
66 TGACTCCACAGATGCGGCTGACCTTTGTTT
1834043 AGT
1 AGT
1834046 TTCAGATGTA
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 173 0.99
96 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (95 bp):
AGTGCCAGAGAGAAGATGAAGTTATTGAAAGAAAGGTTTAGGGCTGTAGAGAAAATAAATTTTTA
TGACTCCACAGATGCGGCTGACCTTTGTTT
Found at i:1846606 original size:21 final size:22
Alignment explanation
Indices: 1846576--1846616 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1846566 AACATATATC
*
1846576 ATTTAATTTTTAATTAATTTTG
1 ATTTAATTTTTAATCAATTTTG
1846598 ATTT-ATTTTTAATCAATTT
1 ATTTAATTTTTAATCAATTT
1846617 GAGGTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTAATTTTTAATCAATTTTG
Found at i:1848696 original size:18 final size:18
Alignment explanation
Indices: 1848651--1848707 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
1848641 ATTATTTTTT
*
1848651 TAATATATTTTAATTAATTA
1 TAATATATTTT-ATTAA-AA
1848671 TAA-A-ATTTTATTAAAA
1 TAATATATTTTATTAAAA
*
1848687 TAATATATTTTAAT-AAA
1 TAATATATTTTATTAAAA
1848704 TAAT
1 TAAT
1848708 TAATAGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 13 0.39
18 12 0.36
19 1 0.03
20 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATATATTTTATTAAAA
Found at i:1850573 original size:43 final size:44
Alignment explanation
Indices: 1850494--1850586 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 44
1850484 TCTTCTAAAA
* *
1850494 CTATAAATAATAATTATATGAGTCAATGGATTCTTATTAATTAT
1 CTATAAATAATAATTACATGAATCAATGGATTCTTATTAATTAT
* *
1850538 CTATAAATAATAATTGCAT-AATCAATGGATTCTTATTAGTTAT
1 CTATAAATAATAATTACATGAATCAATGGATTCTTATTAATTAT
1850581 CTATAA
1 CTATAA
1850587 GAATCTAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 28 0.62
44 17 0.38
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (44 bp):
CTATAAATAATAATTACATGAATCAATGGATTCTTATTAATTAT
Found at i:1851121 original size:33 final size:33
Alignment explanation
Indices: 1851084--1851185 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 33
1851074 CAAACATTAA
1851084 TTAATCTTGAAATTTAGTCTTAATTAATTCTTG
1 TTAATCTTGAAATTTAGTCTTAATTAATTCTTG
** ** * ** *
1851117 TTAA--TTGGCATCCAATCTT--TTTTTTCTTTAA
1 TTAATCTTGAAATTTAGTCTTAATTAATTC-TT-G
1851148 TTAATCTTGAAATTTAGTCTTAATTAATTCTTG
1 TTAATCTTGAAATTTAGTCTTAATTAATTCTTG
1851181 TTAAT
1 TTAAT
1851186 TGGCATCCAA
Statistics
Matches: 47, Mismatches: 16, Indels: 12
0.63 0.21 0.16
Matches are distributed among these distances:
29 5 0.11
30 2 0.04
31 14 0.30
33 19 0.40
34 2 0.04
35 5 0.11
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (33 bp):
TTAATCTTGAAATTTAGTCTTAATTAATTCTTG
Found at i:1851154 original size:64 final size:64
Alignment explanation
Indices: 1851080--1851205 Score: 252
Period size: 64 Copynumber: 2.0 Consensus size: 64
1851070 TATACAAACA
1851080 TTAATTAATCTTGAAATTTAGTCTTAATTAATTCTTGTTAATTGGCATCCAATCTTTTTTTTCT
1 TTAATTAATCTTGAAATTTAGTCTTAATTAATTCTTGTTAATTGGCATCCAATCTTTTTTTTCT
1851144 TTAATTAATCTTGAAATTTAGTCTTAATTAATTCTTGTTAATTGGCATCCAATCTTTTTTTT
1 TTAATTAATCTTGAAATTTAGTCTTAATTAATTCTTGTTAATTGGCATCCAATCTTTTTTTT
1851206 TTCTTTTTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (64 bp):
TTAATTAATCTTGAAATTTAGTCTTAATTAATTCTTGTTAATTGGCATCCAATCTTTTTTTTCT
Found at i:1855330 original size:15 final size:15
Alignment explanation
Indices: 1855247--1855332 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 15
1855237 TGTCATGTAT
*
1855247 TATTTTATATTTTATG
1 TATTTTAT-TTATATG
1855263 TATTTTA-TTATTATG
1 TATTTTATTTA-TATG
*
1855278 TA-TATATTTAT-T-
1 TATTTTATTTATATG
*
1855290 TATTTTTTTTAT-TAG
1 TATTTTATTTATAT-G
**
1855305 -ATTAGATTTATATG
1 TATTTTATTTATATG
1855319 TATTTTATTTATAT
1 TATTTTATTTATAT
1855333 AGTTACATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.04
13 9 0.17
14 15 0.28
15 21 0.39
16 7 0.13
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TATTTTATTTATATG
Found at i:1855358 original size:56 final size:55
Alignment explanation
Indices: 1855255--1855359 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 55
1855245 ATTATTTTAT
* * *
1855255 ATTTTATGTATTTTATTATTATGTATATATTTATTTATTTTTTTTATTAGATTAG
1 ATTTTATGTATTTTATTATTATGTACATATTTATTTATTTATATTATTAGATTAG
1855310 ATTTATATGTATTTTATT-TATATAGTTACATATTTA-TTA-TTATATTATTA
1 ATTT-TATGTATTTTATTAT-TAT-G-TACATATTTATTTATTTATATTATTA
1855360 TTATTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
55 5 0.12
56 25 0.58
57 4 0.09
58 9 0.21
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (55 bp):
ATTTTATGTATTTTATTATTATGTACATATTTATTTATTTATATTATTAGATTAG
Found at i:1856341 original size:1 final size:1
Alignment explanation
Indices: 1856335--1856381 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
1856325 CCGCTCCAGG
* ** *
1856335 TTTTTTTTTTTTTTTTTTTTTTTCTTTGATTTTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1856382 ATTTCTTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.04, C:0.02, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:1856350 original size:10 final size:10
Alignment explanation
Indices: 1856335--1856420 Score: 70
Period size: 9 Copynumber: 8.2 Consensus size: 10
1856325 CCGCTCCAGG
1856335 TTTTTTTTT-
1 TTTTTTTTTA
1856344 TTTTTTTTT-
1 TTTTTTTTTA
*
1856353 TTTTTCTTTGA
1 TTTTT-TTTTA
1856364 TTTTTTTTTA
1 TTTTTTTTTA
1856374 -TTTTTTTTA
1 TTTTTTTTTA
1856383 TTTCTTTGTTTA
1 TTT-TTT-TTTA
1856395 TTTGTTTATTTTAA
1 -TT-TTT-TTTT-A
*
1856409 TTTTTATTTA
1 TTTTTTTTTA
1856419 TT
1 TT
1856421 AGATTAGGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
9 23 0.35
10 12 0.18
11 11 0.17
12 7 0.11
13 9 0.14
14 3 0.05
ACGTcount: A:0.10, C:0.02, G:0.03, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:1856377 original size:28 final size:27
Alignment explanation
Indices: 1856336--1856406 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 27
1856326 CGCTCCAGGT
* *
1856336 TTTTTTTTTTTTTTTTTTTTTTCTTTG
1 TTTTTTTTTATTTTTTTTATTTCTTTG
1856363 ATTTTTTTTTATTTTTTTTATTTCTTTG
1 -TTTTTTTTTATTTTTTTTATTTCTTTG
1856391 TTTATTTGTTTATTTT
1 TTT-TTT-TTTATTTT
1856407 AATTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 3 0.08
28 28 0.72
29 8 0.21
ACGTcount: A:0.07, C:0.03, G:0.04, T:0.86
Consensus pattern (27 bp):
TTTTTTTTTATTTTTTTTATTTCTTTG
Found at i:1856564 original size:58 final size:57
Alignment explanation
Indices: 1856489--1856891 Score: 506
Period size: 58 Copynumber: 6.8 Consensus size: 57
1856479 TAAAAATACG
* * *
1856489 AAATTTCCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1856546 AAATTTCAAAAGAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAAT
1 AAATTTCAAAA-AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AAT
1856604 AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
1 AAATTT-CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAAT
*
1856667 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGACAT
1 AAATTT-C---AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
1856728 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAAT
1 AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
** * *
1856785 AAATTTTCAAAAAAGGGATTTTT-GAGGAAAAGTTGAAGGTATCAATTTTTCTT-GAAAAT
1 AAA-TTTCAAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* *
1856844 CGAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTT
1 --AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
1856892 CATAATACAA
Statistics
Matches: 309, Mismatches: 18, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
57 60 0.19
58 98 0.32
59 69 0.22
60 11 0.04
61 13 0.04
63 13 0.04
64 1 0.00
66 44 0.14
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:1856816 original size:182 final size:174
Alignment explanation
Indices: 1856489--1856891 Score: 562
Period size: 182 Copynumber: 2.3 Consensus size: 174
1856479 TAAAAATACG
*
1856489 AAATTTCCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
1 AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
1856554 AAAGAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAA
66 AAAGAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAA
*
1856619 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT-
131 GATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT----G-AAAATC
* *
1856667 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGACATAAAT
1 AAATTTCC----AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
* * *
1856732 TTCCAAA-AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATA-AATAAATTTTCAA
62 TTCAAAAGAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAA
* * *
1856795 AAAAGGGATTTTT-GAGGAAAAGTTGAAGGTATCAATTTTTCTTGAAAATC
126 AAAA-AGATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
*
1856845 GAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTT
1 -AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
1856892 CATAATACAA
Statistics
Matches: 205, Mismatches: 11, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
175 37 0.18
177 5 0.02
178 9 0.04
179 8 0.04
181 57 0.28
182 89 0.43
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (174 bp):
AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
AAAGAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAA
GATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
Found at i:1869784 original size:2 final size:2
Alignment explanation
Indices: 1869777--1869807 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1869767 GGCCATGTAC
1869777 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1869808 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1869797 original size:15 final size:15
Alignment explanation
Indices: 1869777--1869805 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1869767 GGCCATGTAC
1869777 ATATATATATATATT
1 ATATATATATATATT
1869792 ATATATATATATAT
1 ATATATATATATAT
1869806 ATTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATATATATT
Found at i:1871599 original size:29 final size:30
Alignment explanation
Indices: 1871536--1871600 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
1871526 ATGGATATAG
*
1871536 AAAATTTTAAAAGATCATAAATATAAAAAT
1 AAAATTTTAAAAGATCATAAATATAAAAAA
*
1871566 TAAATTTTAAAA-ATCATAAATA-AAAATAA
1 AAAATTTTAAAAGATCATAAATATAAAA-AA
1871595 AAAATT
1 AAAATT
1871601 ACCTAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 16 0.52
30 11 0.35
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAATTTTAAAAGATCATAAATATAAAAAA
Found at i:1872496 original size:3 final size:3
Alignment explanation
Indices: 1872488--1872528 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1872478 CTGCCATTTA
1872488 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1872529 GTATAGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1879338 original size:22 final size:22
Alignment explanation
Indices: 1879311--1879353 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1879301 ATAATTCAAT
1879311 TTTAA-TCGAATCAATCGATCGA
1 TTTAATTC-AATCAATCGATCGA
*
1879333 TTTAATTCAATTAATCGATCG
1 TTTAATTCAATCAATCGATCG
1879354 GTCATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (22 bp):
TTTAATTCAATCAATCGATCGA
Found at i:1880157 original size:47 final size:47
Alignment explanation
Indices: 1880084--1880177 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
1880074 AAATACGATG
1880084 AATGGGTACATATGAGTATATATTTGTTTGTGTTGAAATGG-TGCACA
1 AATGGGTACATATGAGTATATATTTGTTTGTGTTGAAA-GGATGCACA
* * * *
1880131 AATGGGTACATTTGGGTATGTGTTTGTTTGTGTTGAAAGGATGCACA
1 AATGGGTACATATGAGTATATATTTGTTTGTGTTGAAAGGATGCACA
1880178 TGGATTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 2 0.05
47 40 0.95
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.38
Consensus pattern (47 bp):
AATGGGTACATATGAGTATATATTTGTTTGTGTTGAAAGGATGCACA
Found at i:1886729 original size:26 final size:26
Alignment explanation
Indices: 1886693--1886749 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
1886683 ATTGGTGCAC
1886693 AGGTAAGTTTTATTTAGCAATTTGTT
1 AGGTAAGTTTTATTTAGCAATTTGTT
*
1886719 AGGTAAGTTTTCTTTAGCAATTTGTT
1 AGGTAAGTTTTATTTAGCAATTTGTT
1886745 AGGTA
1 AGGTA
1886750 TTATATATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (26 bp):
AGGTAAGTTTTATTTAGCAATTTGTT
Found at i:1903955 original size:12 final size:12
Alignment explanation
Indices: 1903940--1903978 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1903930 GCTACTTTCT
*
1903940 CCACCTCCTCCG
1 CCACCTCCTCCA
*
1903952 CCACCTTCTCCA
1 CCACCTCCTCCA
*
1903964 CCACCTCCACCA
1 CCACCTCCTCCA
1903976 CCA
1 CCA
1903979 ATTCAGCAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.64, G:0.03, T:0.15
Consensus pattern (12 bp):
CCACCTCCTCCA
Found at i:1903962 original size:21 final size:21
Alignment explanation
Indices: 1903936--1903977 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1903926 ATCTGCTACT
* *
1903936 TTCTCCACCTCCTCCGCCACC
1 TTCTCCACCACCTCCACCACC
1903957 TTCTCCACCACCTCCACCACC
1 TTCTCCACCACCTCCACCACC
1903978 AATTCAGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.62, G:0.02, T:0.21
Consensus pattern (21 bp):
TTCTCCACCACCTCCACCACC
Found at i:1905093 original size:114 final size:114
Alignment explanation
Indices: 1904893--1905121 Score: 424
Period size: 114 Copynumber: 2.0 Consensus size: 114
1904883 CAGCTAATGG
* *
1904893 TAACATGGAAACCTTGGAAGCTTTAGCTGTGTCTCTTGGAACATGGTGGAGCAAAAATACATTTC
1 TAACATGGAAACCTTGGAAGCTTTAGCTGTGTCCCTTGGAACATGGTCGAGCAAAAATACATTTC
1904958 GTTCAAACTTTGTGAAAACTTGCCATGTAAGAGTAGTACTCCACTTGGT
66 GTTCAAACTTTGTGAAAACTTGCCATGTAAGAGTAGTACTCCACTTGGT
1905007 TAACATGGAAACCTTGGAAGCTTTAGCTG-GTTCCCTTGGAACATGGTCGAGCAAAAATACATTT
1 TAACATGGAAACCTTGGAAGCTTTAGCTGTG-TCCCTTGGAACATGGTCGAGCAAAAATACATTT
1905071 CGTTCAAACTTTGTGAAAACTTGCCATGTAAGAGTAGTACTCCACTTGGT
65 CGTTCAAACTTTGTGAAAACTTGCCATGTAAGAGTAGTACTCCACTTGGT
1905121 T
1 T
1905122 TGATTAAAAT
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
113 1 0.01
114 111 0.99
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (114 bp):
TAACATGGAAACCTTGGAAGCTTTAGCTGTGTCCCTTGGAACATGGTCGAGCAAAAATACATTTC
GTTCAAACTTTGTGAAAACTTGCCATGTAAGAGTAGTACTCCACTTGGT
Found at i:1908433 original size:20 final size:20
Alignment explanation
Indices: 1908394--1908430 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
1908384 TTTTATTTAT
*
1908394 ATATATTTATATTAAAAATA
1 ATATATTTACATTAAAAATA
1908414 ATAT-TTTACATTAAAAA
1 ATATATTTACATTAAAAA
1908431 ATATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATATTTACATTAAAAATA
Found at i:1908435 original size:17 final size:19
Alignment explanation
Indices: 1908394--1908438 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
1908384 TTTTATTTAT
*
1908394 ATATATTTATATTAAAAATA
1 ATAT-TTTACATTAAAAATA
1908414 ATATTTTACATT-AAAA-A
1 ATATTTTACATTAAAAATA
1908431 ATATTTTA
1 ATATTTTA
1908439 TTAATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 7 0.29
20 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTTTACATTAAAAATA
Found at i:1913680 original size:18 final size:18
Alignment explanation
Indices: 1913657--1913700 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1913647 ACTTTTTTTT
* *
1913657 TAACTTGTCAATGAATTC
1 TAACTTGCCAATGAATTA
1913675 TAACTTGCCAATGAATTA
1 TAACTTGCCAATGAATTA
1913693 TAACTTGC
1 TAACTTGC
1913701 TTTCTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (18 bp):
TAACTTGCCAATGAATTA
Found at i:1914880 original size:6 final size:6
Alignment explanation
Indices: 1914869--1914921 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
1914859 TTCCCATTAC
* * *
1914869 ATATAT ATATAT ATATAT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1914917 ATATT
1 ATATT
1914922 GCAGTTCTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
ATATTT
Found at i:1921556 original size:3 final size:3
Alignment explanation
Indices: 1921543--1921575 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1921533 AGAAAAAATG
1921543 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1921576 GTTAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:1934102 original size:14 final size:14
Alignment explanation
Indices: 1934064--1934103 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
1934054 TTTATTATTC
1934064 ATTTATTGTTTTTA
1 ATTTATTGTTTTTA
*
1934078 ATTTAAT-TTTTTA
1 ATTTATTGTTTTTA
1934091 ATTTATTGTTTTT
1 ATTTATTGTTTTT
1934104 TTTTCTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (14 bp):
ATTTATTGTTTTTA
Found at i:1941574 original size:19 final size:18
Alignment explanation
Indices: 1941536--1941586 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
1941526 GTTTTTTTCG
*
1941536 AAAATAATTTTTTATTTTT
1 AAAA-AATTTTATATTTTT
**
1941555 ATTAAATTTTATATTTTTT
1 AAAAAATTTTATA-TTTTT
1941574 AAAAAATTTTATA
1 AAAAAATTTTATA
1941587 AATTAAACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAAAATTTTATATTTTT
Found at i:1946216 original size:117 final size:117
Alignment explanation
Indices: 1946092--1946322 Score: 426
Period size: 117 Copynumber: 2.0 Consensus size: 117
1946082 AAATCAAATA
* **
1946092 TAAGAACTACATTCTTATAAGTACAAATTAAAAATATGTATTTTTTATTTAGGTCAAATGTGAGT
1 TAAGAACTACATTCTTATAAGTACAAATTAAAAAAAAATATTTTTTATTTAGGTCAAATGTGAGT
*
1946157 CAAAAATAATTTTTTTTTCTGAATCTTAAAAAACTATAAAAGGAGAGTGGTG
66 CAAAAATAATTTTTCTTTCTGAATCTTAAAAAACTATAAAAGGAGAGTGGTG
1946209 TAAGAACTACATTCTTATAAGTACAAATTAAAAAAAAATATTTTTTATTTAGGTCAAATGTGAGT
1 TAAGAACTACATTCTTATAAGTACAAATTAAAAAAAAATATTTTTTATTTAGGTCAAATGTGAGT
1946274 CAAAAATAATTTTTCTTTCTGAATCTTAAAAAACTATAAAAGGAGAGTG
66 CAAAAATAATTTTTCTTTCTGAATCTTAAAAAACTATAAAAGGAGAGTG
1946323 ATTTTTTATT
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (117 bp):
TAAGAACTACATTCTTATAAGTACAAATTAAAAAAAAATATTTTTTATTTAGGTCAAATGTGAGT
CAAAAATAATTTTTCTTTCTGAATCTTAAAAAACTATAAAAGGAGAGTGGTG
Found at i:1946520 original size:2 final size:2
Alignment explanation
Indices: 1946515--1946553 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1946505 CATATGTGTG
1946515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1946554 TGAAATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1950599 original size:34 final size:34
Alignment explanation
Indices: 1950552--1950617 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
1950542 GGGTCTGATT
1950552 TTTCAAAAACATCAGCTCTGA-TTAAATCTTAATA
1 TTTCAAAAACATCAGCT-TGAGTTAAATCTTAATA
* *
1950586 TTTCCAAAACATCAGCTTTAGTTAAATCTTAA
1 TTTCAAAAACATCAGCTTGAGTTAAATCTTAA
1950618 ATCCTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 27 0.93
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (34 bp):
TTTCAAAAACATCAGCTTGAGTTAAATCTTAATA
Found at i:1952667 original size:13 final size:14
Alignment explanation
Indices: 1952649--1952677 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1952639 TCATAACGCA
1952649 TTAATTTTAT-TTT
1 TTAATTTTATATTT
1952662 TTAATTTTATATTT
1 TTAATTTTATATTT
1952676 TT
1 TT
1952678 TTAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTAATTTTATATTT
Found at i:1955368 original size:24 final size:23
Alignment explanation
Indices: 1955313--1955369 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1955303 GTTAATATAA
1955313 TATT-AAATTTAAATTTAAATTC
1 TATTCAAATTTAAATTTAAATTC
* *
1955335 GATTCTAAATTTAAATTTAAAATTT
1 TATTC-AAATTTAAATTT-AAATTC
1955360 TATTCAAATT
1 TATTCAAATT
1955370 CGATCAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTCAAATTTAAATTTAAATTC
Found at i:1963437 original size:6 final size:6
Alignment explanation
Indices: 1963426--1963470 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
1963416 GAGTTGATGA
* * * *
1963426 TGGGGT TGGGGT TGGGGT TGGGGA TGGCGT TGGAGC TGGGGT TGG
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGG
1963471 TGATGCCTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.04, C:0.04, G:0.62, T:0.29
Consensus pattern (6 bp):
TGGGGT
Found at i:1963441 original size:12 final size:12
Alignment explanation
Indices: 1963424--1963475 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
1963414 AGGAGTTGAT
1963424 GATGGGGTTGGG
1 GATGGGGTTGGG
*
1963436 GTTGGGGTTGGG
1 GATGGGGTTGGG
* *
1963448 GATGGCGTTGGA
1 GATGGGGTTGGG
* *
1963460 GCTGGGGTTGGT
1 GATGGGGTTGGG
1963472 GATG
1 GATG
1963476 CCTTTGGAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.08, C:0.04, G:0.60, T:0.29
Consensus pattern (12 bp):
GATGGGGTTGGG
Found at i:1963451 original size:24 final size:24
Alignment explanation
Indices: 1963424--1963502 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 24
1963414 AGGAGTTGAT
* * *
1963424 GATGGGGTTGGGGTTGGGGTTGGG
1 GATGGCGTTGGAGCTGGGGTTGGG
*
1963448 GATGGCGTTGGAGCTGGGGTTGGT
1 GATGGCGTTGGAGCTGGGGTTGGG
* * ** *
1963472 GATGCCTTTGGAGAAGGTGTTGGG
1 GATGGCGTTGGAGCTGGGGTTGGG
*
1963496 GCTGGCG
1 GATGGCG
1963503 GAGTAGCAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.09, C:0.08, G:0.56, T:0.28
Consensus pattern (24 bp):
GATGGCGTTGGAGCTGGGGTTGGG
Done.