Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 12 of 129
Found at i:1755556 original size:13 final size:13
Alignment explanation
Indices: 1755525--1755582 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
1755515 TAAATATATG
*
1755525 ATAATTTAA-AAT
1 ATAATATAATAAT
1755537 ATAATATAATAAT
1 ATAATATAATAAT
*
1755550 ATGATAT-A-AAT
1 ATAATATAATAAT
* *
1755561 ATATTATAAAAAT
1 ATAATATAATAAT
*
1755574 AAAATATAA
1 ATAATATAA
1755583 AATTGACTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
11 8 0.22
12 10 0.27
13 19 0.51
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:1755562 original size:24 final size:24
Alignment explanation
Indices: 1755533--1755583 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1755523 TGATAATTTA
* **
1755533 AAATATAATATAATAATATGATAT
1 AAATATAATATAAAAATAAAATAT
*
1755557 AAATATATTATAAAAATAAAATAT
1 AAATATAATATAAAAATAAAATAT
1755581 AAA
1 AAA
1755584 ATTGACTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATAATATAAAAATAAAATAT
Found at i:1755655 original size:24 final size:25
Alignment explanation
Indices: 1755628--1755702 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 25
1755618 TATAAATTTG
**
1755628 ATAAATATATTATAAATTGTAT-AT
1 ATAAATATATTATAAATAATATGAT
*
1755652 ATAAAT-T-TGAT-AATAATATGAT
1 ATAAATATATTATAAATAATATGAT
**
1755674 ATAAATATATTATAAA-AATAAAAT
1 ATAAATATATTATAAATAATATGAT
1755698 ATAAA
1 ATAAA
1755703 ATTGACTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
21 6 0.15
22 11 0.27
23 2 0.05
24 20 0.49
25 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
ATAAATATATTATAAATAATATGAT
Found at i:1755670 original size:35 final size:33
Alignment explanation
Indices: 1755614--1755679 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 33
1755604 TAATAAAAAT
1755614 TATATATAAATTTGATAAATAT-ATTATAAATTG
1 TATATATAAATTTGATAAATATGA-TATAAATTG
1755647 TATATATAAATTTGATAATAATATGATATAAAT
1 TATATATAAATTTGAT-A-AATATGATATAAAT
1755680 ATATTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 16 0.53
34 1 0.03
35 12 0.40
36 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (33 bp):
TATATATAAATTTGATAAATATGATATAAATTG
Found at i:1755688 original size:33 final size:32
Alignment explanation
Indices: 1755610--1755689 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
1755600 ATTTTAATAA
1755610 AAATTATA-TATAAATTTGATAAATATATTAT
1 AAATTATATTATAAATTTGATAAATATATTAT
*
1755641 AAATTGTATATATAAATTTGAT-AATAATATGATAT
1 AAATTATAT-TATAAATTTGATAAAT-ATAT--TAT
1755676 AAA-TATATTATAAA
1 AAATTATATTATAAA
1755690 AATAAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 7 0.17
32 3 0.07
33 22 0.52
34 4 0.10
35 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (32 bp):
AAATTATATTATAAATTTGATAAATATATTAT
Found at i:1755820 original size:119 final size:118
Alignment explanation
Indices: 1755542--1755766 Score: 366
Period size: 119 Copynumber: 1.9 Consensus size: 118
1755532 AAAATATAAT
*
1755542 ATAATAATATGATATAAATATATTATAAAAATAAAATATAAAATTGACTAGATTTAATATTTTAA
1 ATAATAAAATGATATAAATATATTATAAAAATAAAATATAAAATTGACTAGATTTAATATTTTAA
* * *
1755607 TAAAAATTATATATAAATTTGATAAATATATTATAAATTGTATATATAAATTTG
66 TAAAAATCATATATAAATTTGATAAATATA-TAAAAATTATATATATAAATTTG
*
1755661 ATAATAATATGATATAAATATATTATAAAAATAAAATATAAAATTGACTAGATTTAATATTTTAA
1 ATAATAAAATGATATAAATATATTATAAAAATAAAATATAAAATTGACTAGATTTAATATTTTAA
*
1755726 TAAAAATCGTATATAAATTTGATAAA-ATA-AAAAA-TATATAT
66 TAAAAATCATATATAAATTTGATAAATATATAAAAATTATATAT
1755767 TCATATTTTT
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
115 6 0.06
116 4 0.04
118 3 0.03
119 89 0.87
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (118 bp):
ATAATAAAATGATATAAATATATTATAAAAATAAAATATAAAATTGACTAGATTTAATATTTTAA
TAAAAATCATATATAAATTTGATAAATATATAAAAATTATATATATAAATTTG
Found at i:1756202 original size:3 final size:3
Alignment explanation
Indices: 1756194--1756218 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1756184 TATTTGCATG
1756194 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1756219 GATGCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1759438 original size:21 final size:20
Alignment explanation
Indices: 1759406--1759452 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1759396 TTTTGCCCTT
* *
1759406 TTTTTTAGGTTT-TCTAGTTG
1 TTTTTAAGGTTTAT-TAGTTC
1759426 TTTTTAAGTGTTTATTAGTTC
1 TTTTTAAG-GTTTATTAGTTC
1759447 TTTTTA
1 TTTTTA
1759453 TCATCCTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.66
Consensus pattern (20 bp):
TTTTTAAGGTTTATTAGTTC
Found at i:1761327 original size:2 final size:2
Alignment explanation
Indices: 1761320--1761358 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1761310 TGAATAAAAC
*
1761320 TA TA TA TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1761359 ATGTTGCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1761774 original size:2 final size:2
Alignment explanation
Indices: 1761769--1761799 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1761759 TTTTTATGTG
*
1761769 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1761800 GCTTTTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1765500 original size:44 final size:44
Alignment explanation
Indices: 1765450--1765534 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
1765440 TAGCAATGCA
* *
1765450 ATCCAAAGCCACAATCCT-ACAAACAATTTCACAATTACCCAACT
1 ATCCAAAGCCACAATCCTGA-AAACAATATCACAATCACCCAACT
* * *
1765494 ATCCAAAGTCACAATTCTGAAAACAATATCACCATCACCCA
1 ATCCAAAGCCACAATCCTGAAAACAATATCACAATCACCCA
1765535 GCTCGCCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.20
Consensus pattern (44 bp):
ATCCAAAGCCACAATCCTGAAAACAATATCACAATCACCCAACT
Found at i:1766477 original size:26 final size:25
Alignment explanation
Indices: 1766415--1766477 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 25
1766405 TATTTTAATA
*
1766415 AATATAATAA-ATAATTATTATTTAT
1 AATAT-ATAATATAAATATTATTTAT
*
1766440 -ATTTATTAAATATAAATATTATTTATT
1 AATATA-T-AATATAAATATTATTTA-T
1766467 AATATATAATA
1 AATATATAATA
1766478 ATTAATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
23 1 0.03
24 4 0.13
25 2 0.07
26 17 0.57
27 2 0.07
28 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATATATAATATAAATATTATTTAT
Found at i:1775749 original size:21 final size:20
Alignment explanation
Indices: 1775709--1775750 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1775699 ATCAACTTTT
*
1775709 TAAAATAAAAATAGTAATAA
1 TAAAATAAAAATAATAATAA
*
1775729 TAAAATAAAATTCAATAATAA
1 TAAAATAAAAAT-AATAATAA
1775750 T
1 T
1775751 TTTAATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAAATAAAAATAATAATAA
Found at i:1778050 original size:20 final size:20
Alignment explanation
Indices: 1778017--1778057 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1778007 TTATTATCAT
1778017 ATTTATTTTAAATT-AGTAA
1 ATTTATTTTAAATTAAGTAA
*
1778036 ATTTATTTTTTAATTAAGTAA
1 ATTTA-TTTTAAATTAAGTAA
1778057 A
1 A
1778058 ATAGTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTATTTTAAATTAAGTAA
Found at i:1783146 original size:31 final size:33
Alignment explanation
Indices: 1783108--1783169 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
1783098 TATTAAAATT
*
1783108 TTATGTATT-TATATT-ATATT-TTATAAAAAAA
1 TTATGTATTATA-ATTAATATTAATATAAAAAAA
1783139 TTATGTATTATAATTAATATTAATATAAAAA
1 TTATGTATTATAATTAATATTAATATAAAAA
1783170 TATAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 12 0.44
32 7 0.26
33 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
TTATGTATTATAATTAATATTAATATAAAAAAA
Found at i:1783240 original size:16 final size:17
Alignment explanation
Indices: 1783221--1783259 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1783211 TTTTTATTAA
1783221 AATTATAAATTA-TTTT
1 AATTATAAATTATTTTT
*
1783237 AATT-TATATTATTTTT
1 AATTATAAATTATTTTT
1783253 AATTATA
1 AATTATA
1783260 TTATTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 12 0.60
17 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTATAAATTATTTTT
Found at i:1783249 original size:15 final size:14
Alignment explanation
Indices: 1783229--1783264 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
1783219 AAAATTATAA
1783229 ATTATTTTAATTTAT
1 ATTATTTTAA-TTAT
1783244 ATTATTTTTAATTAT
1 ATTA-TTTTAATTAT
1783259 ATTATT
1 ATTATT
1783265 ACATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTAATTAT
Found at i:1784183 original size:25 final size:25
Alignment explanation
Indices: 1784155--1784206 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
1784145 ATTAAAAATA
* **
1784155 TTTTTAATCATAATTATTATAATTT
1 TTTTTAATCACAATTACAATAATTT
*
1784180 TTTTTAATTACAATTACAATAATTT
1 TTTTTAATCACAATTACAATAATTT
1784205 TT
1 TT
1784207 ATTATTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTTAATCACAATTACAATAATTT
Found at i:1789457 original size:2 final size:2
Alignment explanation
Indices: 1789450--1789502 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
1789440 GCGAAAGCCC
* *
1789450 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
1789492 AG AG AG GG AG A
1 AG AG AG AG AG A
1789503 AGTTGTTCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1791769 original size:32 final size:33
Alignment explanation
Indices: 1791709--1791770 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1791699 TTATGACACA
1791709 TAATTTTTATACAATATATAAATATATAAAATT
1 TAATTTTTATACAATATATAAATATATAAAATT
*
1791742 TAATATTTTATACGATA-A-AAATATATAAA
1 TAAT-TTTTATACAATATATAAATATATAAA
1791771 TATCACATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.41
33 5 0.19
34 11 0.41
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (33 bp):
TAATTTTTATACAATATATAAATATATAAAATT
Found at i:1803225 original size:19 final size:19
Alignment explanation
Indices: 1803201--1803240 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1803191 TCTTTTTAAT
1803201 AATCCAAACCAAAGGCAAC
1 AATCCAAACCAAAGGCAAC
1803220 AATCCAAACCAAAGGCAAC
1 AATCCAAACCAAAGGCAAC
1803239 AA
1 AA
1803241 CTTTAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.30, G:0.10, T:0.05
Consensus pattern (19 bp):
AATCCAAACCAAAGGCAAC
Found at i:1806910 original size:26 final size:26
Alignment explanation
Indices: 1806850--1806910 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
1806840 ATTTTTATTT
* * *
1806850 AAATTATTCATGTTATGTTCATATTA
1 AAATTATTTATGTTATATTCATATCA
**
1806876 AAATTATTTATGTTATATTTGTATCA
1 AAATTATTTATGTTATATTCATATCA
1806902 AAATTATTT
1 AAATTATTT
1806911 GAATCTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (26 bp):
AAATTATTTATGTTATATTCATATCA
Found at i:1811216 original size:4 final size:4
Alignment explanation
Indices: 1811209--1811244 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
1811199 GCGTGGTTTG
*
1811209 TTTA TTTA TTCTT TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTT
1811245 GGGTGTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1812859 original size:13 final size:12
Alignment explanation
Indices: 1812829--1812856 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1812819 ACTTGAATTC
1812829 TTTTGGTAATAT
1 TTTTGGTAATAT
1812841 TTTTGGTAATAT
1 TTTTGGTAATAT
1812853 TTTT
1 TTTT
1812857 TGGAAGTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (12 bp):
TTTTGGTAATAT
Found at i:1817161 original size:52 final size:52
Alignment explanation
Indices: 1817082--1817187 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
1817072 ATTAAACACA
*
1817082 GATGGCTCAGCATAAGGCAATCATGGGAAAGTAGGAGCTGGAACCATTATTC
1 GATGGCTCAGCATAAGGCAACCATGGGAAAGTAGGAGCTGGAACCATTATTC
* * *
1817134 GATGGCTCAGCATTAGGCAACCCTGGGAAAGTAGGAGTTGGAACCATTATTC
1 GATGGCTCAGCATAAGGCAACCATGGGAAAGTAGGAGCTGGAACCATTATTC
1817186 GA
1 GA
1817188 GATAGTGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (52 bp):
GATGGCTCAGCATAAGGCAACCATGGGAAAGTAGGAGCTGGAACCATTATTC
Found at i:1817920 original size:2 final size:2
Alignment explanation
Indices: 1817913--1817942 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1817903 CCAAATAGGC
*
1817913 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1817943 GTCATCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1827179 original size:30 final size:30
Alignment explanation
Indices: 1827140--1827196 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1827130 TTTTAATTAT
* * *
1827140 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
1827170 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
1827197 ATTAATTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:1829846 original size:53 final size:50
Alignment explanation
Indices: 1829766--1829869 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 50
1829756 AAAAACACAT
1829766 TATCATAAAAAAAGATAACCAAATGATACTTGCAAGCTCTATTGTGATTTCTA
1 TATCATAAAAAAAGATAACCAAATGATACTTGCAAG-T-T-TTGTGATTTCTA
**
1829819 TATCATAAACGAAG-TAACCAAAATGATACTTGCAAGTTTTGTGATTTCTA
1 TATCATAAAAAAAGATAACC-AAATGATACTTGCAAGTTTTGTGATTTCTA
1829869 T
1 T
1829870 CACTAATAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
50 13 0.27
51 1 0.02
52 6 0.12
53 28 0.58
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (50 bp):
TATCATAAAAAAAGATAACCAAATGATACTTGCAAGTTTTGTGATTTCTA
Found at i:1833338 original size:17 final size:15
Alignment explanation
Indices: 1833301--1833343 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1833291 TTTTTATGAA
1833301 ATTAAAATTTTTAAT
1 ATTAAAATTTTTAAT
1833316 -TT-AAATGTATTTAAT
1 ATTAAAAT-T-TTTAAT
1833331 ATTAAAATTTTTA
1 ATTAAAATTTTTA
1833344 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.17
14 3 0.12
15 10 0.42
16 3 0.12
17 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTAAAATTTTTAAT
Found at i:1833349 original size:23 final size:24
Alignment explanation
Indices: 1833323--1833386 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 24
1833313 AATTTAAATG
*
1833323 TATTTAATATTAAAATTT-TTATT
1 TATTTAATATTAAAATTTCTTAAT
*
1833346 TATTTTATAAAATTAAAATTTCTTAAT
1 TA--TT-TAATATTAAAATTTCTTAAT
*
1833373 T-TTTAATATGAAAA
1 TATTTAATATTAAAA
1833387 AGTAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
23 11 0.33
24 2 0.06
25 2 0.06
26 13 0.39
27 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTTAATATTAAAATTTCTTAAT
Found at i:1838810 original size:34 final size:33
Alignment explanation
Indices: 1838771--1838835 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
1838761 ATTATTTATG
1838771 TATTTATATTATATAAAATATTAATAATTTATTA
1 TATTTATATTATATAAAATATT-ATAATTTATTA
* ***
1838805 TATTTATGTTATATTTTATATTATAATTTAT
1 TATTTATATTATATAAAATATTATAATTTAT
1838836 ATTGATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TATTTATATTATATAAAATATTATAATTTATTA
Found at i:1838828 original size:12 final size:12
Alignment explanation
Indices: 1838800--1838843 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1838790 ATTAATAATT
1838800 TATTATA-TTTA
1 TATTATATTTTA
*
1838811 TGTTATATTTTA
1 TATTATATTTTA
*
1838823 TATTATAATTTA
1 TATTATATTTTA
1838835 TATTGATAT
1 TATT-ATAT
1838844 AAAAAGATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 6 0.22
12 18 0.67
13 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:1839473 original size:2 final size:2
Alignment explanation
Indices: 1839466--1839496 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
1839456 GTCTCACCGG
1839466 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
1839497 TAATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1839526 original size:11 final size:11
Alignment explanation
Indices: 1839512--1839548 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1839502 TTAATAAATT
1839512 ATTTAAATTTA
1 ATTTAAATTTA
**
1839523 ATTTAAATAAA
1 ATTTAAATTTA
1839534 ATTTAAATTTA
1 ATTTAAATTTA
1839545 ATTT
1 ATTT
1839549 GATTATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:1839675 original size:18 final size:19
Alignment explanation
Indices: 1839652--1839687 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1839642 GTCTAATCAA
1839652 ATTTTTA-TATTTAAATTT
1 ATTTTTATTATTTAAATTT
*
1839670 ATTTTTATTATTTTAATT
1 ATTTTTATTATTTAAATT
1839688 AATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTATTATTTAAATTT
Found at i:1847693 original size:26 final size:27
Alignment explanation
Indices: 1847659--1847726 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
1847649 AATAAAAAAT
* *
1847659 TTAAATTTAAATTTGGTTCAAAATTTG-
1 TTAATTTTAAATTTGATTC-AAATTTGA
*
1847686 TT-ATTTTAAATTTGATTCGAATTTGA
1 TTAATTTTAAATTTGATTCAAATTTGA
1847712 TTGAATTTTAAATTT
1 TT-AATTTTAAATTT
1847727 TATATTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 6 0.17
26 16 0.46
27 2 0.06
28 11 0.31
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (27 bp):
TTAATTTTAAATTTGATTCAAATTTGA
Found at i:1847844 original size:20 final size:21
Alignment explanation
Indices: 1847819--1847860 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
1847809 TTAATTCTCA
1847819 TATTTG-ATTTCAAAC-TAAAT
1 TATTTGTATTT-AAACTTAAAT
1847839 TATTTGTATTTAAACTTAAAT
1 TATTTGTATTTAAACTTAAAT
1847860 T
1 T
1847861 CAAATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTTGTATTTAAACTTAAAT
Found at i:1859839 original size:2 final size:2
Alignment explanation
Indices: 1859832--1859858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1859822 ATCTAACCAA
1859832 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1859859 GGAAAGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1875835 original size:21 final size:21
Alignment explanation
Indices: 1875810--1875853 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1875800 TAGCACACAA
1875810 AAAAAAAGAGTCACTGCTCCC
1 AAAAAAAGAGTCACTGCTCCC
*
1875831 AAAAAAAGAGTCACTGCTTCC
1 AAAAAAAGAGTCACTGCTCCC
1875852 AA
1 AA
1875854 TTGCCATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAAAAAGAGTCACTGCTCCC
Found at i:1878266 original size:14 final size:14
Alignment explanation
Indices: 1878249--1878293 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1878239 TAAATTTATC
1878249 AATTTATCAATTTT
1 AATTTATCAATTTT
*
1878263 AATTT-TTAATTTT
1 AATTTATCAATTTT
1878276 -ATTTAATCAATTTT
1 AATTT-ATCAATTTT
1878290 AATT
1 AATT
1878294 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.15
13 7 0.27
14 12 0.46
15 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTATCAATTTT
Found at i:1878303 original size:27 final size:26
Alignment explanation
Indices: 1878250--1878303 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
1878240 AAATTTATCA
*** *
1878250 ATTTATCAATTTTAATTTTTAATTTT
1 ATTTATCAATTTTAATTAAAAAATTT
1878276 ATTTAATCAATTTTAATTAAAAAATTT
1 ATTT-ATCAATTTTAATTAAAAAATTT
1878303 A
1 A
1878304 CGTAATTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTATCAATTTTAATTAAAAAATTT
Found at i:1880698 original size:37 final size:37
Alignment explanation
Indices: 1880648--1880725 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
1880638 CTTTCCATAG
1880648 TCCTCCACCCAAACCCTAAATAATATTTTATTGTTCA
1 TCCTCCACCCAAACCCTAAATAATATTTTATTGTTCA
*
1880685 TCCTCCACCCAAACCCTAGATAATATTTTATTGTTCA
1 TCCTCCACCCAAACCCTAAATAATATTTTATTGTTCA
1880722 TCCT
1 TCCT
1880726 AATTGATGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.36
Consensus pattern (37 bp):
TCCTCCACCCAAACCCTAAATAATATTTTATTGTTCA
Found at i:1881160 original size:13 final size:13
Alignment explanation
Indices: 1881144--1881173 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1881134 TTAAATTTAC
1881144 ATATAAAAAAATT
1 ATATAAAAAAATT
*
1881157 ATATAAAATAATT
1 ATATAAAAAAATT
1881170 ATAT
1 ATAT
1881174 CATGTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAAAAAAATT
Found at i:1881430 original size:1 final size:1
Alignment explanation
Indices: 1881424--1881451 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
1881414 GCTCAAACGT
1881424 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1881452 TCATATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1881949 original size:12 final size:13
Alignment explanation
Indices: 1881932--1881978 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
1881922 AAATTTGTTG
*
1881932 TTTGAAATTT-GA
1 TTTGAAATTTAAA
1881944 TTTGAAAATTTAAA
1 TTTG-AAATTTAAA
1881958 TTT-AAATTTAAA
1 TTTGAAATTTAAA
1881970 TTT-AAATTT
1 TTTGAAATTT
1881979 GATTTGGGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 22 0.69
13 6 0.19
14 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (13 bp):
TTTGAAATTTAAA
Found at i:1881960 original size:6 final size:6
Alignment explanation
Indices: 1881949--1881978 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1881939 TTTGATTTGA
1881949 AAATTT AAATTT AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT
1881979 GATTTGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:1882089 original size:30 final size:30
Alignment explanation
Indices: 1882049--1882120 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
1882039 AAATTTAATT
* * *
1882049 TTTATATTTAATTTTAAATTTGAT-TATATG
1 TTTAAATTTAAATTTAAA-TTAATATATATG
*
1882079 TTTAAATTTAAATTTGAATTAATATATATG
1 TTTAAATTTAAATTTAAATTAATATATATG
* *
1882109 TATAAATATAAA
1 TTTAAATTTAAA
1882121 ATGATAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 4 0.11
30 31 0.89
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATTAATATATATG
Found at i:1882099 original size:25 final size:25
Alignment explanation
Indices: 1882038--1882105 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
1882028 TAATAAAAAA
* *
1882038 TAAATTT-AATTTTTATATTTAATTT
1 TAAATTTGAA-TTATATATTTAAATT
*
1882063 TAAATTTG-ATTATATGTTTAAATT
1 TAAATTTGAATTATATATTTAAATT
1882087 TAAATTTGAATTAATATAT
1 TAAATTTGAATT-ATATAT
1882106 ATGTATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.56
25 11 0.31
26 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TAAATTTGAATTATATATTTAAATT
Found at i:1890646 original size:20 final size:21
Alignment explanation
Indices: 1890618--1890669 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1890608 AAAATGGACC
* *
1890618 ATTTTTTTTATTTTGTTT-TT
1 ATTTATTTTATTTCGTTTATT
*
1890638 ATTTGTTTT-TTTCGTTTATT
1 ATTTATTTTATTTCGTTTATT
1890658 ATTTATTTTATT
1 ATTTATTTTATT
1890670 ATTTACTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.26
20 18 0.67
21 2 0.07
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (21 bp):
ATTTATTTTATTTCGTTTATT
Found at i:1890667 original size:12 final size:12
Alignment explanation
Indices: 1890652--1890711 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
1890642 GTTTTTTTCG
1890652 TTTATTATTTAT
1 TTTATTATTTAT
1890664 TTTATTATTTACT
1 TTTATTATTTA-T
* *
1890677 GTTAAATTATTAAT
1 -TT-TATTATTTAT
*
1890691 TATATTA-TTAT
1 TTTATTATTTAT
1890702 TATTATTATT
1 T-TTATTATT
1890712 ATTATTTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
11 4 0.11
12 20 0.54
13 3 0.08
14 3 0.08
15 7 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:1890688 original size:3 final size:3
Alignment explanation
Indices: 1890682--1890717 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
1890672 TTACTGTTAA
1890682 ATT ATT AATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1890718 TGATTGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1891449 original size:10 final size:10
Alignment explanation
Indices: 1891436--1891460 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1891426 TTTTTGGTAT
1891436 TTTTTATTTA
1 TTTTTATTTA
1891446 TTTTTATTTA
1 TTTTTATTTA
1891456 TTTTT
1 TTTTT
1891461 TTAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:1891539 original size:15 final size:15
Alignment explanation
Indices: 1891509--1891537 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1891499 ATGATTTAAT
1891509 TAATAAATAATAAAA
1 TAATAAATAATAAAA
1891524 TAATAAA-AATAAAA
1 TAATAAATAATAAAA
1891538 ATTTTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:1891723 original size:16 final size:17
Alignment explanation
Indices: 1891702--1891733 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1891692 ATCTTCAACC
1891702 AAAAAAATA-AAAAATG
1 AAAAAAATATAAAAATG
1891718 AAAAAAATATAAAAAT
1 AAAAAAATATAAAAAT
1891734 TTTGGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAAAATATAAAAATG
Found at i:1893501 original size:20 final size:21
Alignment explanation
Indices: 1893476--1893518 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1893466 TTTTCGCTGC
1893476 TAGGCTTTG-ATCTTCTACAA
1 TAGGCTTTGAATCTTCTACAA
1893496 TAGGCTTTGAATCTTCTACAA
1 TAGGCTTTGAATCTTCTACAA
1893517 TA
1 TA
1893519 AACTGGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (21 bp):
TAGGCTTTGAATCTTCTACAA
Found at i:1896028 original size:76 final size:77
Alignment explanation
Indices: 1895887--1896041 Score: 285
Period size: 76 Copynumber: 2.0 Consensus size: 77
1895877 CATCTGCTCA
*
1895887 CATAATGTAAACAGATGAAATATTGGTAGATGTATGATATACATACTGCAAACCAGTTTGTATGC
1 CATAATGTAAACAGATGAAATATTGGTAGATGTATAATATACATACTGCAAACCAGTTTGTATGC
1895952 ACAAGCAGAATT
66 ACAAGCAGAATT
*
1895964 CATAATGTAAACAGATGGAATATTGGTAGAT-TATAATATACATACTGCAAACCAGTTTGTATGC
1 CATAATGTAAACAGATGAAATATTGGTAGATGTATAATATACATACTGCAAACCAGTTTGTATGC
1896028 ACAAGCAGAATT
66 ACAAGCAGAATT
1896040 CA
1 CA
1896042 CTCTGTATTT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 46 0.61
77 30 0.39
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (77 bp):
CATAATGTAAACAGATGAAATATTGGTAGATGTATAATATACATACTGCAAACCAGTTTGTATGC
ACAAGCAGAATT
Found at i:1897989 original size:62 final size:62
Alignment explanation
Indices: 1897918--1898042 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
1897908 TTTCTATGTG
1897918 AAACTTTGCAAATTCAAATAAAAGAAAGAAGTCCCTGTCCTTTTGAATAACGATGGATGTTT
1 AAACTTTGCAAATTCAAATAAAAGAAAGAAGTCCCTGTCCTTTTGAATAACGATGGATGTTT
1897980 AAACTTTGCAAATTCAAATAAAAGAAAGAAGTCCCTGTCCTTTTGAATAACGATGGATGTTT
1 AAACTTTGCAAATTCAAATAAAAGAAAGAAGTCCCTGTCCTTTTGAATAACGATGGATGTTT
1898042 A
1 A
1898043 TAGCTTTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (62 bp):
AAACTTTGCAAATTCAAATAAAAGAAAGAAGTCCCTGTCCTTTTGAATAACGATGGATGTTT
Found at i:1901505 original size:6 final size:6
Alignment explanation
Indices: 1901494--1901562 Score: 102
Period size: 6 Copynumber: 11.5 Consensus size: 6
1901484 GATTGTTGAA
* * * *
1901494 ATATAT ATATAT ATATAT ATATAT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1901542 ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATA
1901563 GTTCATGACT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
ATATTT
Found at i:1909639 original size:19 final size:19
Alignment explanation
Indices: 1909615--1909667 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1909605 ATTATATATA
1909615 TATTTAATAAATTAATTTT
1 TATTTAATAAATTAATTTT
*
1909634 TATTTAAT-AATATAAATTT
1 TATTTAATAAAT-TAATTTT
1909653 TATTT--TAAATTAATT
1 TATTTAATAAATTAATT
1909668 AAAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTAATAAATTAATTTT
Found at i:1909840 original size:18 final size:18
Alignment explanation
Indices: 1909810--1909845 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1909800 AGTTTGAAAT
1909810 TATAAATACAAAAATAAA
1 TATAAATACAAAAATAAA
1909828 TATAATATA-AAAAATAAA
1 TATAA-ATACAAAAATAAA
1909846 AAATAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
TATAAATACAAAAATAAA
Found at i:1915071 original size:315 final size:327
Alignment explanation
Indices: 1914487--1915131 Score: 1109
Period size: 315 Copynumber: 2.0 Consensus size: 327
1914477 TGAAAGCGGA
1914487 ATGGAGAAAAGCTGACATAATACTGCTTATAACTCTTATTGCGTTTGATAGGTGGTATATTTGGA
1 ATGGAGAAAAGCTGACATAATACTGCTTATAACTCTTATTGCGTTTGATAGGTGGTATATTTGGA
*
1914552 TAGGATGTTGTGCCTTTAGGAATGCCAAACTGAAGGAACATATTTAGACGCTTACCAAAGAAGGC
66 TAGGATGTTGTGCCTTTAGGAATGCCAAACTGAAGGAACATATTTAGACGCTTACCAAACAAGGC
* *
1914617 GTATACCTGAAGAATCAGTTAACTGTAAGCTGGTAGTGGTGCAATTGGGGCGTCGTTCTGAATGG
131 GTACACCTGAAGAATCAGTTAACCGTAAGCTGGTAGTGGTGCAATTGGGGCGTCGTTCTGAATGG
1914682 AGTTTGTGGGTTTGTGACCTTTGTATAAGCAAATACTTTTCCTTGTTACATTTGGTTGAAAAATG
196 AGTTTGTGGGTTTGTGACCTTTGTATAAGCAAATACTTTTCCTTGTTACATTTGGTTGAAAAATG
1914747 TGTTGGTACTGATTGTTTTCATTCCAGCGTAGAAATTTATGCTAAGCAGTGATGAGCTGTGTGCA
261 TGTTGGTACTGATTGTTTTCATTCCAGCGTAGAAATTTATGCTAAGCAGTGATGAGCTGTGTGCA
1914812 AT
326 AT
*
1914814 ATGGAGAAAAGCTGACATAATACTGCTTATAACTCTTATTGC-TTTGATATGT-GTATATTT-GA
1 ATGGAGAAAAGCTGACATAATACTGCTTATAACTCTTATTGCGTTTGATAGGTGGTATATTTGGA
1914876 TAGGATGTTGTGCCTTTAGGAATGCCAAAACTG-AGG-ACATATTTAGACGC-TA-CAAACAAGG
66 TAGGATGTTGTGCCTTTAGGAATGCC-AAACTGAAGGAACATATTTAGACGCTTACCAAACAAGG
* * *
1914937 C-TACACGTG-AGACTTAGTTAACCGTAAGCTGGTAGTGGTGCAATTGGGGC-TCGTTC-GAATG
130 CGTACACCTGAAGAATCAGTTAACCGTAAGCTGGTAGTGGTGCAATTGGGGCGTCGTTCTGAATG
**
1914998 GAGTTT-TGTTTTTGTGA-CTTTGTATAAGCAAATACTTTTCCTTGTTACATTTGGTTGAAAAAT
195 GAGTTTGTGGGTTTGTGACCTTTGTATAAGCAAATACTTTTCCTTGTTACATTTGGTTGAAAAAT
1915061 GTGTTGGTACTGATTGTTTTCATTCCAGCGTAGAAATTTATGCTAAGCAGTGATGAGCTGTGTGC
260 GTGTTGGTACTGATTGTTTTCATTCCAGCGTAGAAATTTATGCTAAGCAGTGATGAGCTGTGTGC
1915126 AAT
325 AAT
1915129 ATG
1 ATG
1915132 CGGGTGGGGT
Statistics
Matches: 308, Mismatches: 9, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
315 117 0.38
316 9 0.03
317 11 0.04
318 6 0.02
319 38 0.12
320 6 0.02
321 9 0.03
322 2 0.01
323 14 0.05
324 31 0.10
325 14 0.05
326 9 0.03
327 42 0.14
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (327 bp):
ATGGAGAAAAGCTGACATAATACTGCTTATAACTCTTATTGCGTTTGATAGGTGGTATATTTGGA
TAGGATGTTGTGCCTTTAGGAATGCCAAACTGAAGGAACATATTTAGACGCTTACCAAACAAGGC
GTACACCTGAAGAATCAGTTAACCGTAAGCTGGTAGTGGTGCAATTGGGGCGTCGTTCTGAATGG
AGTTTGTGGGTTTGTGACCTTTGTATAAGCAAATACTTTTCCTTGTTACATTTGGTTGAAAAATG
TGTTGGTACTGATTGTTTTCATTCCAGCGTAGAAATTTATGCTAAGCAGTGATGAGCTGTGTGCA
AT
Found at i:1923409 original size:19 final size:20
Alignment explanation
Indices: 1923354--1923414 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
1923344 TAAAAAAATA
*
1923354 TAAAATTTTTTAATT-TTAT
1 TAAAATTTTATAATTATTAT
*
1923373 TAAATTTATATATAATTATTAT
1 TAAAATT-T-TATAATTATTAT
1923395 TAAAATTTTAT-ATTA-TAT
1 TAAAATTTTATAATTATTAT
1923413 TA
1 TA
1923415 TATTATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.14
19 10 0.28
20 4 0.11
21 7 0.19
22 10 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAATTTTATAATTATTAT
Found at i:1923429 original size:12 final size:12
Alignment explanation
Indices: 1923399--1923436 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1923389 TATTATTAAA
1923399 ATTTTATATTAT
1 ATTTTATATTAT
1923411 A--TTATATTAT
1 ATTTTATATTAT
*
1923421 ATTTTATATCAT
1 ATTTTATATTAT
1923433 ATTT
1 ATTT
1923437 ATGTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.43
12 13 0.57
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:1923434 original size:22 final size:23
Alignment explanation
Indices: 1923279--1923435 Score: 77
Period size: 22 Copynumber: 6.9 Consensus size: 23
1923269 ATATTGTAAA
1923279 TATTAAAA-TTTATATAT-TTA-
1 TATTAAAATTTTATATATATTAT
*
1923299 TA-TAAAATTTTATATGAAAATTAT
1 TATTAAAATTTTATAT--ATATTAT
* ** *
1923323 GTATTATAATTTATATTAATATAAAAA
1 -TATTAAAATTT-TA-T-ATATATTAT
*
1923350 AATATAAAATTTT-T-TA-ATT-T
1 TAT-TAAAATTTTATATATATTAT
1923370 TATT-AAA-TTTATATATAATTAT
1 TATTAAAATTTTATATAT-ATTAT
1923392 TATTAAAATTTTATATTATATTA-
1 TATTAAAATTTTATA-TATATTAT
*
1923415 TATT-ATATTTTATATCATATT
1 TATTAAAATTTTATAT-ATATT
1923436 TATGTTAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
17 3 0.03
18 4 0.04
19 8 0.08
20 11 0.11
21 5 0.05
22 22 0.21
23 10 0.10
24 11 0.11
25 5 0.05
26 10 0.10
27 12 0.12
28 1 0.01
29 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
TATTAAAATTTTATATATATTAT
Found at i:1924687 original size:17 final size:18
Alignment explanation
Indices: 1924651--1924689 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1924641 ACATAATGTG
* *
1924651 CAAACAAATTAGAATTAC
1 CAAACAAATAAGAATGAC
1924669 CAAAC-AATAAGAATGAC
1 CAAACAAATAAGAATGAC
1924686 CAAA
1 CAAA
1924690 AAAAATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.59, C:0.18, G:0.08, T:0.15
Consensus pattern (18 bp):
CAAACAAATAAGAATGAC
Found at i:1929140 original size:96 final size:96
Alignment explanation
Indices: 1928969--1929157 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 96
1928959 CAGGCTGTTG
* *
1928969 CAGTGAAGTTTCTTTGAACATGCCCATGAAATATGGTGGAAAAAACTATTACTATGAACCTGAAA
1 CAGTGAAATTTCTTTGAACATGCCCATGAAATATGGTAGAAAAAACTATTACTATGAACCTGAAA
* * * *
1929034 TTTCCTTATCTTTACACAAAAAGTAATTGAT
66 TGTCCATATCTTAACACAAAAAATAATTGAT
* *
1929065 CAGTGAAATTTCTTTGAACATGCCCATGATATATGGTAGAAAAAACTATTATTATGAACCT-AAC
1 CAGTGAAATTTCTTTGAACATGCCCATGAAATATGGTAGAAAAAACTATTACTATGAACCTGAA-
1929129 ATGTCCATATCTTAACACAAAAAATAATT
65 ATGTCCATATCTTAACACAAAAAATAATT
1929158 TATGTAGTTG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 2 0.02
96 82 0.98
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (96 bp):
CAGTGAAATTTCTTTGAACATGCCCATGAAATATGGTAGAAAAAACTATTACTATGAACCTGAAA
TGTCCATATCTTAACACAAAAAATAATTGAT
Found at i:1931277 original size:14 final size:14
Alignment explanation
Indices: 1931258--1931285 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1931248 GACTTAATTC
1931258 ATGTTGATTTGTAT
1 ATGTTGATTTGTAT
1931272 ATGTTGATTTGTAT
1 ATGTTGATTTGTAT
1931286 CTAACCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (14 bp):
ATGTTGATTTGTAT
Found at i:1935539 original size:11 final size:12
Alignment explanation
Indices: 1935523--1935555 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1935513 AAGACATGAT
1935523 AATATAATAT-A
1 AATATAATATAA
1935534 AATATAATATGAA
1 AATATAATAT-AA
1935547 AATATAATA
1 AATATAATA
1935556 CGAAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
AATATAATATAA
Found at i:1935551 original size:13 final size:13
Alignment explanation
Indices: 1935518--1935560 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1935508 AAAACAAGAC
*
1935518 ATGATAATATAAT
1 ATGAAAATATAAT
1935531 AT--AAATATAAT
1 ATGAAAATATAAT
1935542 ATGAAAATATAAT
1 ATGAAAATATAAT
*
1935555 ACGAAA
1 ATGAAA
1935561 TTAACACGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGAAAATATAAT
Found at i:1935983 original size:2 final size:2
Alignment explanation
Indices: 1935976--1936015 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1935966 GGTATGGGCT
1935976 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1936016 ATTTATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1936570 original size:17 final size:17
Alignment explanation
Indices: 1936538--1936571 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1936528 TTATTATTAC
**
1936538 GGTTGAAAAATTTTTTG
1 GGTTGAAAAAAATTTTG
1936555 GGTTGAAAAAAATTTTG
1 GGTTGAAAAAAATTTTG
1936572 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
GGTTGAAAAAAATTTTG
Found at i:1936688 original size:22 final size:23
Alignment explanation
Indices: 1936660--1936704 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
1936650 AAAAACCTAC
1936660 AAAAATAT-GATAATAAAATATT
1 AAAAATATAGATAATAAAATATT
1936682 AAAAATATAAAGATAATAAAATA
1 AAAAATAT--AGATAATAAAATA
1936705 ATTTTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
25 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
AAAAATATAGATAATAAAATATT
Found at i:1937401 original size:14 final size:14
Alignment explanation
Indices: 1937368--1937410 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1937358 TTATAGTCCA
*
1937368 ATATATTTTAATATT
1 ATATA-TTTAAAATT
*
1937383 TTATATTTAAAATT
1 ATATATTTAAAATT
*
1937397 ATATAATTAAAATT
1 ATATATTTAAAATT
1937411 TTAATGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATTTAAAATT
Found at i:1940339 original size:21 final size:22
Alignment explanation
Indices: 1940304--1940350 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
1940294 GATGACGTAT
* *
1940304 TTTGTTTCAATTTTATTTATTTA
1 TTTGTTT-AATTTTATGTATCTA
1940327 TTTGTTT-ATTTTATGTATCTA
1 TTTGTTTAATTTTATGTATCTA
1940348 TTT
1 TTT
1940351 TATTTGCGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
23 7 0.32
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTGTTTAATTTTATGTATCTA
Found at i:1946565 original size:6 final size:6
Alignment explanation
Indices: 1946554--1946580 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1946544 TTTCGACCAA
1946554 TGGAGG TGGAGG TGGAGG TGGAGG TGG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGG
1946581 GTATTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.19
Consensus pattern (6 bp):
TGGAGG
Found at i:1948017 original size:73 final size:74
Alignment explanation
Indices: 1947893--1948039 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 74
1947883 GGTGGTTGAA
* * *
1947893 TCTTTGACTTTAAACAAAAAACTGGACAAAATGGGTGTTTACAACTTATTTT-TTTGCGCATTTT
1 TCTTTGACTTTAAACAAAAAACTCGACAAAATGGGTGTTTACAACTTATTTTCTTTACACATTTT
1947957 CTATGAAAT
66 CTATGAAAT
1947966 TCTTTGA-TTGTAAACAAAAAACTCGACAAAATGGGTGTTTACAA-TTGATTTTCTTTACACATT
1 TCTTTGACTT-TAAACAAAAAACTCGACAAAATGGGTGTTTACAACTT-ATTTTCTTTACACATT
*
1948029 TTCTGTGAAAT
64 TTCTATGAAAT
1948040 AAGAATCGTG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
72 4 0.06
73 45 0.67
74 18 0.27
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (74 bp):
TCTTTGACTTTAAACAAAAAACTCGACAAAATGGGTGTTTACAACTTATTTTCTTTACACATTTT
CTATGAAAT
Found at i:1950250 original size:123 final size:123
Alignment explanation
Indices: 1950118--1950489 Score: 546
Period size: 123 Copynumber: 3.0 Consensus size: 123
1950108 AAGGTGGTGC
* * * *
1950118 TGCTGGGTATGGAGGAACTGGTGGACATGGAGGTGGTGGTGGCAGTGGTGGGGGCGGTGGTAGCG
1 TGCTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCG
*
1950183 CAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTGGCGG
66 CAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTAGCGG
*
1950241 TGCTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAGTGGTGGTGGTGGAGGTAGCG
1 TGCTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCG
*
1950306 CAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTAGTGG
66 CAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTAGCGG
* * * *
1950364 TGCTGGATATGGAGGAGCCGGCGGATATGGAGGTGGTGGTGGTGGAGGCAATGGTGGTGGCGGAG
1 TGCTGGGTATGGAGGAGCCGGTGGACATGGA---GGTGGTGGT---GGCAGTGGTGGTGGCGGAG
* * * * *
1950429 GTAGTGCAGGTGGAGCTTCTGGATATGGAAGTGGAGGAGGTGAAGGTGGTGGAGCAGGTAG
60 GTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTAG
1950490 TGGAGTTGGT
Statistics
Matches: 226, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
123 144 0.64
126 9 0.04
129 73 0.32
ACGTcount: A:0.18, C:0.09, G:0.53, T:0.21
Consensus pattern (123 bp):
TGCTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCG
CAGGTGGAGCTTCTGGATACGGAAGTGGAGGTGGTGAAGGAGGTGGAGCTGGTAGCGG
Found at i:1950513 original size:21 final size:21
Alignment explanation
Indices: 1950463--1950522 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
1950453 ATGGAAGTGG
*
1950463 AGGAGGTGAAGGTGGTGGAGC
1 AGGAGGTGGAGGTGGTGGAGC
*
1950484 AGGTA-GTGGAGTTGGTGGA-C
1 AGG-AGGTGGAGGTGGTGGAGC
* *
1950504 ATGGAGGTGGTGGCGGTGG
1 A-GGAGGTGGAGGTGGTGG
1950523 TGGTAGTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.18, C:0.05, G:0.57, T:0.20
Consensus pattern (21 bp):
AGGAGGTGGAGGTGGTGGAGC
Found at i:1950524 original size:3 final size:3
Alignment explanation
Indices: 1950509--1950555 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1950499 TGGACATGGA
* * * *
1950509 GGT GGT GGC GGT GGT GGT AGT GGT GGT GGT GGT GGT AGT GGG GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1950556 AGCTGCTGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.04, C:0.02, G:0.66, T:0.28
Consensus pattern (3 bp):
GGT
Found at i:1950532 original size:129 final size:126
Alignment explanation
Indices: 1950149--1950540 Score: 479
Period size: 129 Copynumber: 3.1 Consensus size: 126
1950139 TGGACATGGA
* *
1950149 GGTGGTGGTGGCAGTGGTGGGGGCGGTGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
1 GGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
* * ** *
1950214 TGGTGAAGGAGGTGGAGCTGGT-G-GCGGTGCTGGGTATGGA--GGAGCCGGTGGACATGGA
66 TGGTGAAGGAGGTGGAGCTGGTAGTG-GGTGCTGGATATGGAGGGGAGGCGGTGGAGGTGGT
*
1950272 GGTGGTGGTGGCAGTGGTGGTGGTGGAGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
1 GGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
**
1950337 TGGTGAAGGAGGTGGAGCTGGTAGT-GGTGCTGGATATGGAGGAGCCGGCGGATATGGAGGTGGT
66 TGGTGAAGGAGGTGGAGCTGGTAGTGGGTGCTGGATATGGAGG-GGAGGCGG---TGGAGGTGGT
* * * *
1950401 GGTGGTGGAGGCAATGGTGGTGGCGGAGGTAGTGCAGGTGGAGCTTCTGGATATGGAAGTGGAGG
1 GGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
* * * * * * * *
1950466 AGGTGAAGGTGGTGGAGCAGGTAGTGGAGTTGGTGGACATGGAGGTGGTGGCGGTGGTGGTAGT
66 TGGTGAAGGAGGTGGAGCTGGTAGTGG-G-TGCTGGATATGGAGG-GGAGGCGGTGGAGGTGGT
1950530 GGTGGTGGTGG
1 GGTGGTGGTGG
1950541 TGGTAGTGGG
Statistics
Matches: 232, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
123 98 0.42
124 1 0.00
126 5 0.02
129 107 0.46
130 1 0.00
131 1 0.00
132 19 0.08
ACGTcount: A:0.16, C:0.08, G:0.54, T:0.21
Consensus pattern (126 bp):
GGTGGTGGTGGCAGTGGTGGTGGCGGAGGTAGCGCAGGTGGAGCTTCTGGATACGGAAGTGGAGG
TGGTGAAGGAGGTGGAGCTGGTAGTGGGTGCTGGATATGGAGGGGAGGCGGTGGAGGTGGT
Found at i:1965874 original size:19 final size:19
Alignment explanation
Indices: 1965850--1965889 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1965840 ATGCTAAATG
1965850 TAAATGAGATTGTCTTGGA
1 TAAATGAGATTGTCTTGGA
* *
1965869 TAAATGAGGTTGTTTTGGA
1 TAAATGAGATTGTCTTGGA
1965888 TA
1 TA
1965890 TTATATAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (19 bp):
TAAATGAGATTGTCTTGGA
Found at i:1966325 original size:31 final size:31
Alignment explanation
Indices: 1966290--1966350 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
1966280 CACAGGCAAC
*
1966290 TGTAACCATTTAAATATCTATCAACTATTTA
1 TGTAACCATTTAAATACCTATCAACTATTTA
1966321 TGTAACCATTTAAATACCTATCAACTATTT
1 TGTAACCATTTAAATACCTATCAACTATTT
1966351 CCATAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (31 bp):
TGTAACCATTTAAATACCTATCAACTATTTA
Found at i:1968630 original size:14 final size:14
Alignment explanation
Indices: 1968611--1968640 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1968601 TAATATTTTT
*
1968611 AAAATTAATAAATA
1 AAAATTAAAAAATA
1968625 AAAATTAAAAAATA
1 AAAATTAAAAAATA
1968639 AA
1 AA
1968641 TTTATTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATTAAAAAATA
Found at i:1972256 original size:27 final size:27
Alignment explanation
Indices: 1972190--1972262 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
1972180 AATTGGATTC
* *
1972190 AAATATA-AAAAT-AATATTTTAATATT
1 AAATATATAAAATCAA-ATTTAAACATT
* *
1972216 AAATTAAATCAAATCAAATTTAAACATT
1 AAA-TATATAAAATCAAATTTAAACATT
1972244 AAATATATAAAATCAAATT
1 AAATATATAAAATCAAATT
1972263 AGATTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.08
27 17 0.45
28 16 0.42
29 2 0.05
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATATATAAAATCAAATTTAAACATT
Found at i:1977755 original size:33 final size:31
Alignment explanation
Indices: 1977704--1977786 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 31
1977694 AAAATATCTT
* **
1977704 TTTTATATTTAACGTATTTTTATAATATAAT-AA
1 TTTTATATTTTATATATTTTT-TAA-A-AATAAA
1977737 TTTTATATTTTATATATTTTTTAAAAATAAA
1 TTTTATATTTTATATATTTTTTAAAAATAAA
*
1977768 TATTATATATATTATATAT
1 T-TT-TATATTTTATATAT
1977787 ACATATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.07
31 4 0.09
32 5 0.12
33 31 0.72
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTTATATTTTATATATTTTTTAAAAATAAA
Found at i:1978512 original size:19 final size:20
Alignment explanation
Indices: 1978471--1978512 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
1978461 AACAATGTTT
* *
1978471 ATTTTTATTAAATTCAATCA
1 ATTTTAATTAAATTAAATCA
*
1978491 ATTTTAATT-AATTAAATTA
1 ATTTTAATTAAATTAAATCA
1978510 ATT
1 ATT
1978513 ATATTCACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTAATTAAATTAAATCA
Found at i:1979096 original size:17 final size:17
Alignment explanation
Indices: 1979074--1979130 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1979064 ATCGTATCAT
1979074 TTATATATATATTTTTA
1 TTATATATATATTTTTA
* *
1979091 TTATATTTATATCGTATTA
1 TTATATATATAT--TTTTA
1979110 TTATATCATAT-TTTTTA
1 TTATAT-ATATATTTTTA
1979127 TTAT
1 TTAT
1979131 TAAATCTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 19 0.58
19 11 0.33
20 3 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATATATATTTTTA
Found at i:1979125 original size:36 final size:37
Alignment explanation
Indices: 1979059--1979130 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
1979049 TTATTAAAAT
1979059 TTTAAATCGTATCATTTATATATATATTTTTATTATA
1 TTTAAATCGTATCATTTATATATATATTTTTATTATA
* *
1979096 TTTATATCGTATTA-TTATATCATAT-TTTTTATTAT
1 TTTAAATCGTATCATTTATAT-ATATATTTTTATTAT
1979131 TAAATCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (37 bp):
TTTAAATCGTATCATTTATATATATATTTTTATTATA
Found at i:1980447 original size:82 final size:82
Alignment explanation
Indices: 1980310--1980475 Score: 332
Period size: 82 Copynumber: 2.0 Consensus size: 82
1980300 GAGCTAAATT
1980310 AGTGGGATGTCAAGGTTCTTAATGAGCTTGCTTAACAATGATTAATACCAATAGTTTTATTTTTG
1 AGTGGGATGTCAAGGTTCTTAATGAGCTTGCTTAACAATGATTAATACCAATAGTTTTATTTTTG
1980375 TCTTTATCGGTGCAAGG
66 TCTTTATCGGTGCAAGG
1980392 AGTGGGATGTCAAGGTTCTTAATGAGCTTGCTTAACAATGATTAATACCAATAGTTTTATTTTTG
1 AGTGGGATGTCAAGGTTCTTAATGAGCTTGCTTAACAATGATTAATACCAATAGTTTTATTTTTG
1980457 TCTTTATCGGTGCAAGG
66 TCTTTATCGGTGCAAGG
1980474 AG
1 AG
1980476 AATATTGGGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (82 bp):
AGTGGGATGTCAAGGTTCTTAATGAGCTTGCTTAACAATGATTAATACCAATAGTTTTATTTTTG
TCTTTATCGGTGCAAGG
Found at i:1987270 original size:117 final size:115
Alignment explanation
Indices: 1987084--1987474 Score: 513
Period size: 117 Copynumber: 3.3 Consensus size: 115
1987074 TTGTGCAGAG
* * *
1987084 AAAATTGATACTTTCAACTTTTTC-CAAAAATATTCTTTT-GAAA-CTTTAATTTCAAGGAAAAT
1 AAAATTGATACTTTCAA-TTTTTCTCAAAAATATTTTTTTGGAAACCTTGATTTTCAAGGAAAAT
1987146 TGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTA-TTAAGA
65 TGATACTTTCAACTTTTCCTCAAAAA-TT-TTTTTTTGAAAATTTATTTAAGA
*
1987198 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTGGAAACCTTGATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAATTTTT-CTCAAAAATATTTTTTTGGAAACCTTGATTTTCAAGGAAAAT
****
1987263 TGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTGAAAATTTATTTTTAAGA
65 TGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTA--TTTAAGA
* * *
1987316 AAAATTGATACTTGCAATTTTTTCTCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAA-TTTTTCTCAAAAATATTTTTTTGGAAACCTTGATTTTCAAGGAAAAT
* *
1987380 TAATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTTGAAAATTTATTTTTAAGG
65 TGATACTTTCAACTTTTCCTC-AAAAA-TTTTTTTTTGAAAATTTA--TTTAAGA
*
1987435 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAATTTTTCT-CAAAAATATTTTTTT
1987475 TTATTTTTAT
Statistics
Matches: 245, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
113 5 0.02
114 18 0.07
115 28 0.11
116 4 0.02
117 90 0.37
118 43 0.18
119 51 0.21
120 6 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (115 bp):
AAAATTGATACTTTCAATTTTTCTCAAAAATATTTTTTTGGAAACCTTGATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTAAGA
Found at i:1987271 original size:60 final size:58
Alignment explanation
Indices: 1987083--1987474 Score: 481
Period size: 60 Copynumber: 6.7 Consensus size: 58
1987073 TTTGTGCAGA
* * * * *
1987083 GAAAATTGATACTTTCAACTTTTTC-CAAAAATATTCTTTTGAAACTTTAATTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
1987140 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTA---TTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAAG
* * * *
1987197 AAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTGGAAACCTTGATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAA-ATTTATTTTTAAG
****
1987257 GAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
* * * * *
1987315 AAAAATTGATACTTGCAATTTTTTCTCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTT-ATTTTTAAG
* *
1987374 GAAAATTAATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAA-TATTTTTTTGAAAATTTATTTTTAAG
1987434 GAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTT
1987475 TTATTTTTAT
Statistics
Matches: 288, Mismatches: 33, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
55 9 0.03
56 4 0.01
57 71 0.25
58 56 0.19
59 41 0.14
60 92 0.32
61 4 0.01
62 11 0.04
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG
Found at i:1987524 original size:17 final size:16
Alignment explanation
Indices: 1987503--1987598 Score: 74
Period size: 17 Copynumber: 5.9 Consensus size: 16
1987493 AATAGAATAA
1987503 TAAAACAAAATAAAAG
1 TAAAACAAAATAAAAG
*
1987519 TGAAAAC-AAATAAAAA
1 T-AAAACAAAATAAAAG
*
1987535 TAAAAAATAAAATAAAA-
1 T--AAAACAAAATAAAAG
*
1987552 T-AAAGAAAA-AAAAG
1 TAAAACAAAATAAAAG
*
1987566 TAAAACAAAAATAAAAA
1 TAAAAC-AAAATAAAAG
*
1987583 TAAAATAAAGATAAAA
1 TAAAACAAA-ATAAAA
1987599 AGAATATTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
13 4 0.06
14 8 0.12
15 3 0.05
16 17 0.26
17 25 0.38
18 8 0.12
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (16 bp):
TAAAACAAAATAAAAG
Found at i:1987537 original size:6 final size:6
Alignment explanation
Indices: 1987526--1987599 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
1987516 AAGTGAAAAC
* *
1987526 AAATAA AAATAA AAA-ATA AAAT-A AAATAA AGAAAAA AAAGT-A AAACAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA A-AATAA AAA-TAA AAATAA
*
1987574 AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
1987600 GAATATTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 11 0.20
6 39 0.71
7 5 0.09
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:1987542 original size:47 final size:47
Alignment explanation
Indices: 1987491--1987587 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 47
1987481 TTATTTAAAG
* *
1987491 AAAATAGAATAATA-AAACAAAATAAAAGTGAAAAC-AAATAAAAATAA
1 AAAATAAAATAAAATAAACAAAA-AAAAGT-AAAACAAAATAAAAATAA
*
1987538 AAAATAAAATAAAATAAAGAAAAAAAAGTAAAACAAAAATAAAAATAA
1 AAAATAAAATAAAATAAACAAAAAAAAGTAAAAC-AAAATAAAAATAA
1987586 AA
1 AA
1987588 TAAAGATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
46 5 0.11
47 18 0.41
48 21 0.48
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (47 bp):
AAAATAAAATAAAATAAACAAAAAAAAGTAAAACAAAATAAAAATAA
Found at i:1987546 original size:5 final size:5
Alignment explanation
Indices: 1987501--1987598 Score: 62
Period size: 5 Copynumber: 19.4 Consensus size: 5
1987491 AAAATAGAAT
* * *
1987501 AATAA AACAA AATAA AAGTGAA AA-CA AATAA AA-AT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* *
1987550 AATAA AGA-AA AA-AA AGTAA AACAAA AATAAA AATAA AATAA AGATAA
1 AATAA A-ATAA AATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA
1987597 AA
1 AA
1987599 AGAATATTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
4 13 0.18
5 41 0.55
6 16 0.22
7 4 0.05
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (5 bp):
AATAA
Found at i:1987562 original size:11 final size:10
Alignment explanation
Indices: 1987530--1987591 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 10
1987520 GAAAACAAAT
1987530 AAAAATAAAA
1 AAAAATAAAA
1987540 AATAAA-ATAAA
1 AA-AAATA-AAA
* *
1987551 ATAAAGAAAA
1 AAAAATAAAA
*
1987561 AAAAGTAAAA
1 AAAAATAAAA
1987571 CAAAAATAAAA
1 -AAAAATAAAA
1987582 ATAAAATAAA
1 A-AAAATAAA
1987592 GATAAAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.82, C:0.02, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:1988554 original size:21 final size:21
Alignment explanation
Indices: 1988485--1988559 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
1988475 AATTTTCAGC
1988485 CAGATAAATCAAAAAAA-TAA
1 CAGATAAATCAAAAAAATTAA
* * *
1988505 AAGAAAAAATCAAACGAAAATAAA
1 CAG-ATAAATCAAA--AAAATTAA
1988529 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATTAA
1988551 CAGATAAAT
1 CAGATAAAT
1988560 TAAGATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.05
21 18 0.41
22 7 0.16
23 4 0.09
24 11 0.25
25 2 0.05
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATTAA
Found at i:1988654 original size:66 final size:66
Alignment explanation
Indices: 1988576--1988705 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
1988566 TAAATAACAG
* * * *
1988576 ATAATTACATAAATA-TTAACAGAAAAAAAAAGAAGAAAAAAAAATAATAAAGATATATACATAT
1 ATAAATACATAAATACCTAACAGAAAAAAAAAGAAGAAAAAAAAAGAA-AAAAATATATACATAT
1988640 TA
65 TA
* * * * * *
1988642 ATAAATACATAAATACCTAAGATAAAAAATAATAATAAAAGAAAAGAAAAAAATATATACATAT
1 ATAAATACATAAATACCTAACAGAAAAAAAAAGAAGAAAAAAAAAGAAAAAAATATATACATAT
1988706 ATAAAATAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 29 0.55
67 24 0.45
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (66 bp):
ATAAATACATAAATACCTAACAGAAAAAAAAAGAAGAAAAAAAAAGAAAAAAATATATACATATT
A
Found at i:1988719 original size:6 final size:6
Alignment explanation
Indices: 1988708--1988767 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
1988698 ATACATATAT
* * *
1988708 AAAATA ATAATA AAAATA AAAATA AAACA-A AAATGTA AAATACAA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAA-ATA AAA-A-TA AAAATA
1988759 AAAATA AAA
1 AAAATA AAA
1988768 TGAAGAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 33 0.75
7 7 0.16
8 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:1988739 original size:11 final size:11
Alignment explanation
Indices: 1988706--1988768 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
1988696 ATATACATAT
*
1988706 ATAAAATAATA
1 ATAAAATAAAA
1988717 ATAAAAATAAAA
1 AT-AAAATAAAA
*
1988729 ATAAAACAAAA
1 ATAAAATAAAA
*
1988740 ATGTAAAAT-ACA
1 A--TAAAATAAAA
1988752 A-AAAATAAAA
1 ATAAAATAAAA
1988762 ATAAAAT
1 ATAAAAT
1988769 GAAGAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 5 0.12
10 3 0.07
11 16 0.38
12 13 0.31
13 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:1988781 original size:27 final size:27
Alignment explanation
Indices: 1988725--1988786 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1988715 TAATAAAAAT
* *
1988725 AAAAATAAAACAAAAATGTAAAATACA
1 AAAAATAAAACAAAAATGAAAAAGACA
*
1988752 AAAAATAAAA-ATAAAATGAAGAAAGAAA
1 AAAAATAAAACA-AAAATGAA-AAAGACA
1988780 AAAAATA
1 AAAAATA
1988787 TATAAACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 17 0.57
28 12 0.40
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAAATAAAACAAAAATGAAAAAGACA
Found at i:1989144 original size:83 final size:84
Alignment explanation
Indices: 1989038--1989387 Score: 404
Period size: 83 Copynumber: 4.2 Consensus size: 84
1989028 ACAACTTTGA
* * * *
1989038 AAAAAATAAATTGCTTCTCTAAACAAAGGCACCACGAC-TTTGAAAAGTAAATTACTCCTCCAAA
1 AAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAA
*
1989102 TAGAGGCACCACGACTTTT
66 CAGAGGCACCACGACTTTT
* * * * * *
1989121 AAAAAGTAAATTGCTCATCTAAACAGAGGCACCGCGACTTTTAAAAAGTAAATTGCTCTTCTAAG
1 AAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAA
* *
1989186 CAGAGGCACCATGACTTTG
66 CAGAGGCACCACGACTTTT
* * * * * *
1989205 GAAAA-TAAATTGCTCCTCTAAATAGAGGCACCACAACTTTTGGAAAGTAAATTTCTCCTCTAAA
1 AAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAA
*
1989269 CAGAAGCACCACGACTTTT
66 CAGAGGCACCACGACTTTT
** * *
1989288 GGAAAGTAAATTTCTCCTCTAAACAGAA-GCACCAAGAC-TTTGAAAAGTAAATTGCTCCTCTAA
1 AAAAAGTAAATTGCTCCTCTAAACA-AAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAA
*
1989351 ACAGAGGCACCACAAC-TTT
65 ACAGAGGCACCACGACTTTT
** *
1989370 GGAAAGTAAATTACTCCT
1 AAAAAGTAAATTGCTCCT
1989388 TGACAATCAT
Statistics
Matches: 227, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
82 20 0.09
83 140 0.62
84 66 0.29
85 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (84 bp):
AAAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAA
CAGAGGCACCACGACTTTT
Found at i:1989149 original size:42 final size:42
Alignment explanation
Indices: 1989039--1989387 Score: 436
Period size: 42 Copynumber: 8.4 Consensus size: 42
1989029 CAACTTTGAA
* * *
1989039 AAAAATAAATTGCTTCTCTAAACAAAGGCACCACGAC-TTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* * * *
1989080 AAAAGTAAATTACTCCTCCAAATAGAGGCACCACGACTTTTA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* * *
1989122 AAAAGTAAATTGCTCATCTAAACAGAGGCACCGCGACTTTTA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* * * *
1989164 AAAAGTAAATTGCTCTTCTAAGCAGAGGCACCATGACTTTGG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* *
1989206 AAAA-TAAATTGCTCCTCTAAATAGAGGCACCACAACTTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* * *
1989247 GAAAGTAAATTTCTCCTCTAAACAGAAGCACCACGACTTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* * * *
1989289 GAAAGTAAATTTCTCCTCTAAACAGAAGCACCAAGAC-TTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
*
1989330 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
* *
1989371 GAAAGTAAATTACTCCT
1 AAAAGTAAATTGCTCCT
1989388 TGACAATCAT
Statistics
Matches: 269, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
41 120 0.45
42 149 0.55
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (42 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
Found at i:1989202 original size:125 final size:125
Alignment explanation
Indices: 1989038--1989369 Score: 452
Period size: 125 Copynumber: 2.7 Consensus size: 125
1989028 ACAACTTTGA
* * * * *
1989038 AAAAAATAAATTGCT-TCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATTACTCCTCCAAA
1 AAAAAGTAAATTGCTCT-TCTAAACAGAGGCACCAAGACTTTGAAAAGTAAATTGCTCCTCTAAA
* * *
1989102 TAGAGGCACCACGACTTTTAAAAAGTAAATTGCTCATCTAAACAGAGGCACCGCGACTTTT
65 TAGAGGCACCACAACTTTTAAAAAGTAAATTGCTCATCTAAACAGAAGCACCACGACTTTT
* *
1989163 AAAAAGTAAATTGCTCTTCTAAGCAGAGGCACCATGACTTTGGAAAA-TAAATTGCTCCTCTAAA
1 AAAAAGTAAATTGCTCTTCTAAACAGAGGCACCAAGACTTT-GAAAAGTAAATTGCTCCTCTAAA
** * *
1989227 TAGAGGCACCACAACTTTTGGAAAGTAAATTTCTCCTCTAAACAGAAGCACCACGACTTTT
65 TAGAGGCACCACAACTTTTAAAAAGTAAATTGCTCATCTAAACAGAAGCACCACGACTTTT
** * * * *
1989288 GGAAAGTAAATTTCTCCTCTAAACAGAAGCACCAAGACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AAAAAGTAAATTGCTCTTCTAAACAGAGGCACCAAGACTTTGAAAAGTAAATTGCTCCTCTAAAT
1989353 AGAGGCACCACAACTTT
66 AGAGGCACCACAACTTT
1989370 GGAAAGTAAA
Statistics
Matches: 183, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 5 0.03
125 172 0.94
126 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (125 bp):
AAAAAGTAAATTGCTCTTCTAAACAGAGGCACCAAGACTTTGAAAAGTAAATTGCTCCTCTAAAT
AGAGGCACCACAACTTTTAAAAAGTAAATTGCTCATCTAAACAGAAGCACCACGACTTTT
Found at i:1990670 original size:21 final size:21
Alignment explanation
Indices: 1990646--1990686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1990636 CATTTTCTCA
1990646 TTTTTTCCTTCTTTTTTTTTC
1 TTTTTTCCTTCTTTTTTTTTC
**
1990667 TTTTTTTTTTCTTTTTTTTT
1 TTTTTTCCTTCTTTTTTTTT
1990687 TCATTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTTTCCTTCTTTTTTTTTC
Found at i:1990672 original size:10 final size:10
Alignment explanation
Indices: 1990654--1990686 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
1990644 CATTTTTTCC
1990654 TTCTTTTTTT
1 TTCTTTTTTT
1990664 TTCTTTTTTTT
1 TTC-TTTTTTT
1990675 TTCTTTTTTT
1 TTCTTTTTTT
1990685 TT
1 TT
1990687 TCATTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1990687 original size:11 final size:11
Alignment explanation
Indices: 1990657--1990688 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
1990647 TTTTTCCTTC
1990657 TTTTTTTTTCT
1 TTTTTTTTTCT
1990668 TTTTTTTTTCT
1 TTTTTTTTTCT
1990679 TTTTTTTTTC
1 TTTTTTTTTC
1990689 ATTATCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:1990687 original size:17 final size:17
Alignment explanation
Indices: 1990676--1990708 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1990666 CTTTTTTTTT
1990676 TCTTTTTTTTTTCATTA
1 TCTTTTTTTTTTCATTA
1990693 TCTTTTTTTTTTCATT
1 TCTTTTTTTTTTCATT
1990709 TTTCATCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTTTTTTTTTCATTA
Found at i:1990711 original size:11 final size:11
Alignment explanation
Indices: 1990638--1990691 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
1990628 TCTTTTTTCA
*
1990638 TTTTCTCATTT
1 TTTTTTCATTT
*
1990649 TTTCCTTC-TTT
1 TTT-TTTCATTT
*
1990660 TTTTTTCTTTT
1 TTTTTTCATTT
*
1990671 TTTTTTCTTTT
1 TTTTTTCATTT
1990682 TTTTTTCATT
1 TTTTTTCATT
1990692 ATCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.08
11 32 0.86
12 2 0.05
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:1990719 original size:28 final size:28
Alignment explanation
Indices: 1990665--1990721 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1990655 TCTTTTTTTT
* ** *
1990665 TCTTTTTTTTTTCTTTTTTTTTTCATTA
1 TCTTTTTTTTTTCATTTTTCATCCATTA
1990693 TCTTTTTTTTTTCATTTTTCATCCATTA
1 TCTTTTTTTTTTCATTTTTCATCCATTA
1990721 T
1 T
1990722 TGATATCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (28 bp):
TCTTTTTTTTTTCATTTTTCATCCATTA
Found at i:1994721 original size:17 final size:18
Alignment explanation
Indices: 1994701--1994735 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1994691 TGATTTTTTT
1994701 GAAAATT-TATTTTTAAG
1 GAAAATTATATTTTTAAG
1994718 GAAAATTGATATTTTTAA
1 GAAAATT-ATATTTTTAA
1994736 CTTTTCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
GAAAATTATATTTTTAAG
Found at i:1994738 original size:60 final size:58
Alignment explanation
Indices: 1994599--1994997 Score: 414
Period size: 60 Copynumber: 6.7 Consensus size: 58
1994589 TTTTGTGCAG
* *
1994599 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTGAGAAAATTTA---TTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-TTATTTTTT-TGAAAATTTATTTTTAA
*
1994657 GAAAAATTGATACTTTCAACTTTTCCTCAAAAGTTGATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-TT-ATTTTTTTGAAAATTTATTTTTAA
* * * * * * *
1994717 GGAAAATTGATATTTTTAACTTTTCTTCAAAAATATTTTTTTGGAAACCTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAATTATTTTTTT-GAAA-ATTTATTTTTAA
****
1994777 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAATTATTTTTTTGAAAATTTATTTTTAA
* * * *
1994835 GGAAAATTAATACTTTCAACTTTTTCC-CAAAAATA-TTCTTTGAAAACTTTAATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAATTATTTTTTTGAAAA-TTT-ATTTTTAA
* * *
1994894 GGAAAATTGATATTTTTAACTTTTCCTCAAAAAACTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC--AAAA-TTATTTTTTTGAAAATTTATTTTTAA
* *
1994955 -GAAAATTGATATTTTCAACTTTTCCCCAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAT-TATTTTTTT
1994998 ATTTTTATTT
Statistics
Matches: 290, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
57 25 0.09
58 85 0.29
59 53 0.18
60 102 0.35
61 11 0.04
62 4 0.01
63 10 0.03
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAATTATTTTTTTGAAAATTTATTTTTAA
Found at i:1994738 original size:118 final size:117
Alignment explanation
Indices: 1994599--1994996 Score: 461
Period size: 118 Copynumber: 3.4 Consensus size: 117
1994589 TTTTGTGCAG
* * * *
1994599 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTGAGAAAATTTATT-AAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATATTTTTTGAGAAACTTTATTCAAGGAAAA
1994663 TTGATACTTTCAACTTTTCCTCAAAAGTTGATTTTTTTGAAAATTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAA-TT-ATTTTTTTGAAAATTTATTTTTAA
* * * *
1994717 GGAAAATTGATATTTTTAAC-TTTTCTTCAAAAATAT-TTTTTTG-GAAACCTTGATTTTCAAGG
1 GGAAAATTGATACTTTCAACTTTTTC-CCAAAAATATATTTTTTGAGAAA-CTT--TATTCAAGG
****
1994779 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAA
62 AAAATTGATACTTTCAACTTTTCCTCAAAATTATTTTTTTGAAAATTTATTTTTAA
* *
1994835 GGAAAATTAATACTTTCAACTTTTTCCC-AAAA-ATATTCTTTGA-AAACTTTAATTTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATATTTTTTGAGAAACTTT-A--TTCAAGGA
* * *
1994897 AAATTGATATTTTTAACTTTTCCTCAAAAAACTTTTTTTTTTGAAAATTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCTC--AAAA-TTATTTTTTTGAAAATTTATTTTTAA
* *
1994955 -GAAAATTGATATTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATATTTTTT
1994997 TATTTTTATT
Statistics
Matches: 238, Mismatches: 26, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
114 1 0.00
116 9 0.04
117 58 0.24
118 67 0.28
119 36 0.15
120 59 0.25
121 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATATTTTTTGAGAAACTTTATTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAATTATTTTTTTGAAAATTTATTTTTAA
Found at i:1995058 original size:6 final size:6
Alignment explanation
Indices: 1995030--1995116 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
1995020 ATAATAAAAC
* *
1995030 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAA-A TAAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA
* * *
1995075 AAGAAAA GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1995117 GAATATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.06
5 11 0.17
6 41 0.64
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:1995062 original size:17 final size:18
Alignment explanation
Indices: 1995019--1995116 Score: 87
Period size: 17 Copynumber: 5.4 Consensus size: 18
1995009 AAGAAAATAG
*
1995019 AATAATAAAACAAAATAAA
1 AATAA-AAAATAAAATAAA
* *
1995038 AGT-GAAAAT-AAATAAA
1 AATAAAAAATAAAATAAA
1995054 AATAAAAAATAAAAT-AA
1 AATAAAAAATAAAATAAA
*
1995071 AATAAAGAAAAGTAAAACAAA
1 AAT-AA-AAAA-TAAAATAAA
1995092 AAT-AAAAATAAAATAAA
1 AATAAAAAATAAAATAAA
*
1995109 GATAAAAA
1 AATAAAAA
1995117 GAATATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
16 9 0.14
17 24 0.38
18 14 0.22
19 7 0.11
20 5 0.08
21 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (18 bp):
AATAAAAAATAAAATAAA
Found at i:1995067 original size:5 final size:5
Alignment explanation
Indices: 1995022--1995115 Score: 70
Period size: 5 Copynumber: 18.4 Consensus size: 5
1995012 AAAATAGAAT
* *
1995022 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-AT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* *
1995071 AATAA AGA-AA AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA A-ATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
1995116 AGAATATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
4 10 0.14
5 41 0.57
6 17 0.24
7 4 0.06
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:1995146 original size:4 final size:4
Alignment explanation
Indices: 1995139--1995185 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
1995129 AACCTAATCT
* * * *
1995139 AATA AATA AAAA AATA AATA AAAA AACA AATA AACA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
1995186 TCAAAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (4 bp):
AATA
Found at i:1995155 original size:8 final size:8
Alignment explanation
Indices: 1995142--1995200 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
1995132 CTAATCTAAT
1995142 AAATAAAA
1 AAATAAAA
1995150 AAATAAATA
1 AAATAAA-A
*
1995159 AAA-AAAC
1 AAATAAAA
*
1995166 AAATAAAC
1 AAATAAAA
*
1995174 AAATAAAT
1 AAATAAAA
**
1995182 AAATTCAA
1 AAATAAAA
1995190 AAA-AAAA
1 AAATAAAA
1995197 AAAT
1 AAAT
1995201 CGGAGCGGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 8 0.20
8 29 0.71
9 4 0.10
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:1995156 original size:12 final size:12
Alignment explanation
Indices: 1995139--1995184 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
1995129 AACCTAATCT
1995139 AATAAATAAAAA
1 AATAAATAAAAA
1995151 AATAAATAAAAA
1 AATAAATAAAAA
* *
1995163 AACAAATAAACA
1 AATAAATAAAAA
1995175 AATAAATAAA
1 AATAAATAAA
1995185 TTCAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:1995557 original size:19 final size:19
Alignment explanation
Indices: 1995529--1995566 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1995519 GATTCTAGAT
* *
1995529 TTTTTTGCCGAAATCTGGG
1 TTTTTCGCCGAAAACTGGG
1995548 TTTTTCGCCGAAAACTGGG
1 TTTTTCGCCGAAAACTGGG
1995567 CAGCTCGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (19 bp):
TTTTTCGCCGAAAACTGGG
Done.