Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2280901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:867886 original size:22 final size:22
Alignment explanation
Indices: 867861--867912 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
867851 TATTCGCATT
867861 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
867883 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
867904 GCGATAGTC
1 GCGATAGTC
867913 AGAATCGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:868716 original size:23 final size:23
Alignment explanation
Indices: 868686--868766 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
868676 TGCATGGCCT
868686 TGTGCATCGATGCACATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
* *
868709 TGTGCATCGATGCACCTTCATGG
1 TGTGCATCGATGCACATTCAAGG
*
868732 TGT--ATCGATGCATATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
*
868753 -ATGCATCGATGCAC
1 TGTGCATCGATGCAC
868767 TGTTAGGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.31
22 9 0.18
23 24 0.49
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (23 bp):
TGTGCATCGATGCACATTCAAGG
Found at i:874273 original size:46 final size:45
Alignment explanation
Indices: 874175--874280 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 45
874165 GTGCACTAAG
* * * *
874175 AGTGCAACGATGCATTAAGTGCATTCGATGTTTCAAAATAGCCAG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAC
* * *
874220 AGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCTC
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCAC
*
874266 AGTGCATCGGTGCAT
1 AGTGCATCGATGCAT
874281 GCTATGTGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
45 26 0.51
46 22 0.43
47 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAC
Found at i:875710 original size:8 final size:8
Alignment explanation
Indices: 875697--875741 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
875687 AATTCAGCTC
875697 TTATTTTT
1 TTATTTTT
875705 TTATTTCTT
1 TTATTT-TT
*
875714 TTACTTTT
1 TTATTTTT
875722 TTATTTTAT
1 TTATTTT-T
875731 TTATTTATT
1 TTATTT-TT
875740 TT
1 TT
875742 TCTTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 14 0.44
9 17 0.53
10 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTATTTTT
Found at i:875721 original size:17 final size:16
Alignment explanation
Indices: 875701--875748 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
875691 CAGCTCTTAT
875701 TTTTTTATTTCTTTTA
1 TTTTTTATTTCTTTTA
875717 CTTTTTTATTT-TATTTA
1 -TTTTTTATTTCT-TTTA
*
875734 TTTATT-TTTCTTTTA
1 TTTTTTATTTCTTTTA
875749 AATTTAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
17 14 0.50
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTCTTTTA
Found at i:875736 original size:26 final size:25
Alignment explanation
Indices: 875697--875747 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
875687 AATTCAGCTC
*
875697 TTATTTTTTTATTTCTTTTACTTTT
1 TTATTTTTTTATTTATTTTACTTTT
*
875722 TTATTTTATTTATTTATTTTTCTTTT
1 TTATTTT-TTTATTTATTTTACTTTT
875748 AAATTTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (25 bp):
TTATTTTTTTATTTATTTTACTTTT
Found at i:875753 original size:26 final size:25
Alignment explanation
Indices: 875699--875753 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
875689 TTCAGCTCTT
* **
875699 ATTTTTTTATTTCTTTTACTTTTTT
1 ATTTTTTTATTTATTTTACTTTTAA
*
875724 ATTTTATTTATTTATTTTTCTTTTAA
1 ATTTT-TTTATTTATTTTACTTTTAA
875750 ATTT
1 ATTT
875754 AGATTTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (25 bp):
ATTTTTTTATTTATTTTACTTTTAA
Found at i:882106 original size:37 final size:37
Alignment explanation
Indices: 882046--882329 Score: 361
Period size: 37 Copynumber: 8.1 Consensus size: 37
882036 TTAAAAATAT
*
882046 TTTTGAAATATATATATATTATATAGTTTTTGAAAACA
1 TTTTGAAA-ATATATATAATATATAGTTTTTGAAAACA
882084 TTTTGAAAATATATAT-A-ATATA----TTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
882115 TTTTGAAAACATACATATAATATATAGTTTTTGAAAACA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
882154 TTTTGAAAATATATATAATATATA------G----C-
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
882180 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
882217 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
882254 TATTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
882291 TTTTG-AAATATATATATTATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
882327 TTT
1 TTT
882330 ATATGTACAT
Statistics
Matches: 218, Mismatches: 9, Indels: 40
0.82 0.03 0.15
Matches are distributed among these distances:
26 24 0.11
27 1 0.00
31 15 0.07
32 4 0.02
33 7 0.03
34 1 0.00
35 10 0.05
36 32 0.15
37 99 0.45
38 11 0.05
39 14 0.06
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:882113 original size:31 final size:33
Alignment explanation
Indices: 882075--882139 Score: 107
Period size: 31 Copynumber: 2.0 Consensus size: 33
882065 TATATAGTTT
*
882075 TTGAAAACATTTTG-AAA-ATATATATAATATA
1 TTGAAAACATTTTGAAAACATACATATAATATA
882106 TTGAAAACATTTTGAAAACATACATATAATATA
1 TTGAAAACATTTTGAAAACATACATATAATATA
882139 T
1 T
882140 AGTTTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 14 0.45
32 3 0.10
33 14 0.45
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (33 bp):
TTGAAAACATTTTGAAAACATACATATAATATA
Found at i:882230 original size:28 final size:26
Alignment explanation
Indices: 882154--882217 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
882144 TTTGAAAACA
882154 TTTTGAAAATATATATAATATATAGC
1 TTTTGAAAATATATATAATATATAGC
*
882180 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGC
882206 TTTTGAAAATAT
1 TTTTGAAAATAT
882218 TTTGAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAGC
Found at i:882252 original size:100 final size:96
Alignment explanation
Indices: 882084--882288 Score: 306
Period size: 100 Copynumber: 2.1 Consensus size: 96
882074 TTTGAAAACA
882084 TTTTGAAAATATATATAATATATTGAAAACATTTTGAAAACATACATATAATATATAGTTTTTGA
1 TTTTGAAAATATATATAATATATTGAAAACATTTTGAAAACATACATATAATATATAGTTTTTGA
*
882149 AAACATTTTGAAAATATATATAATATATAGC
66 AAACATATTGAAAATATATATAATATATAGC
* *
882180 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTG-AAA-ATATATATAATATATAGT
1 TTTTGAAAATATATAT-A-ATATA----TTGAAAACATTTTGAAAACATACATATAATATATAGT
*
882243 TTTTGAAAACATATTGAAAATATATATAATATATAGT
60 TTTTGAAAACATATTGAAAATATATATAATATATAGC
882280 TTTTGAAAA
1 TTTTGAAAA
882289 CATTTTGAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
96 16 0.16
97 1 0.01
98 5 0.05
100 61 0.62
101 3 0.03
102 13 0.13
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (96 bp):
TTTTGAAAATATATATAATATATTGAAAACATTTTGAAAACATACATATAATATATAGTTTTTGA
AAACATATTGAAAATATATATAATATATAGC
Found at i:882265 original size:26 final size:26
Alignment explanation
Indices: 882217--882266 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
882207 TTTGAAAATA
* *
882217 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATAGT
882243 TTTTGAAAACATAT-TGAAAATATA
1 TTTTGAAAACATATAT-AAAATATA
882267 TATAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTTGAAAACATATATAAAATATAGT
Found at i:882403 original size:27 final size:27
Alignment explanation
Indices: 882367--882426 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
882357 TGGTTTATTA
* *
882367 TTTATTATTTATTCTT-TTCTTTTCTTTT
1 TTTA-TATTTATT-TTCTTATTTTATTTT
882395 TTTATATTTATTTTCTTATTTTATTTT
1 TTTATATTTATTTTCTTATTTTATTTT
882422 TTTAT
1 TTTAT
882427 TTGGTCCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTATATTTATTTTCTTATTTTATTTT
Found at i:883606 original size:12 final size:12
Alignment explanation
Indices: 883578--883611 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
883568 TTAATCCACG
*
883578 TTTTAATTTAAT
1 TTTTTATTTAAT
883590 TTTTTATTTAAT
1 TTTTTATTTAAT
883602 TTTTTCATTT
1 TTTTT-ATTT
883612 TTTCTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTATTTAAT
Found at i:886381 original size:131 final size:134
Alignment explanation
Indices: 886144--886396 Score: 386
Period size: 131 Copynumber: 1.9 Consensus size: 134
886134 GACGATGCTG
*
886144 ATCCAACTCCTTATGCGATGGATTTGAGCAAAAATAGAAATGTCGATCCACCTCCTTCTGTGATG
1 ATCCAACTCATTATGCGATGGATTTGAGCAAAAATAGAAATGTCGATCCACCTCCTTCTGTGATG
** * *
886209 AAATCGAACGAGATATCGGTGATGATCTATCTCCTTCTGTGATAGAATCGAACAAAAAAGTTGAC
66 AAATCGAACGAGATATCAATGATGATCTACCTCATTCTGTGATAGAATCGAACAAAAAAGTTGAC
886274 ACTA
131 ACTA
* *
886278 ATCCAACTCATTCTGCGATGGATTTGAG-ATAAA-A-AAATGTCGATCCACCTCCTTCTGTGATG
1 ATCCAACTCATTATGCGATGGATTTGAGCAAAAATAGAAATGTCGATCCACCTCCTTCTGTGATG
* * * *
886340 GAATCGAACGAGATGTCAATGCTGATCTACCTCATTCTGTGATAGAATCGAGCAAAA
66 AAATCGAACGAGATATCAATGATGATCTACCTCATTCTGTGATAGAATCGAACAAAA
886397 TATTGGTGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 77 0.71
132 1 0.01
133 4 0.04
134 26 0.24
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (134 bp):
ATCCAACTCATTATGCGATGGATTTGAGCAAAAATAGAAATGTCGATCCACCTCCTTCTGTGATG
AAATCGAACGAGATATCAATGATGATCTACCTCATTCTGTGATAGAATCGAACAAAAAAGTTGAC
ACTA
Found at i:886416 original size:44 final size:44
Alignment explanation
Indices: 886319--886484 Score: 188
Period size: 44 Copynumber: 3.8 Consensus size: 44
886309 AAAAAATGTC
* * * * * *** *
886319 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCAATGCT
1 GATCCACCTCCTTCTGTGATAGAATCGAGCAAAATATTGGTGTT
* *
886363 GATCTACCTCATTCTGTGATAGAATCGAGCAAAATATTGGTGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAGCAAAATATTGGTGTT
* *
886407 GGTCCACCTCCTTCTGTGATAGAATCGAGCAAAATGTTGGTGTT
1 GATCCACCTCCTTCTGTGATAGAATCGAGCAAAATATTGGTGTT
* * *
886451 GATCTACATCCTTCTGTGATAGAATCGAGAAAAA
1 GATCCACCTCCTTCTGTGATAGAATCGAGCAAAA
886485 AGTTGAACAA
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATAGAATCGAGCAAAATATTGGTGTT
Found at i:886425 original size:88 final size:88
Alignment explanation
Indices: 886321--886484 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
886311 AAAATGTCGA
* * * *
886321 TCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCAATGCTGATCTACCTCATTCTGTGATAGA
1 TCCACCTCCTTCTGTGATAGAATCGAACAAAATGTCAATGCTGATCTACATCATTCTGTGATAGA
*
886386 ATCGAGCAAAATATTGGTGTTGG
66 ATCGAGAAAAATATTGGTGTTGG
* *** * *
886409 TCCACCTCCTTCTGTGATAGAATCGAGCAAAATGTTGGTGTTGATCTACATCCTTCTGTGATAGA
1 TCCACCTCCTTCTGTGATAGAATCGAACAAAATGTCAATGCTGATCTACATCATTCTGTGATAGA
886474 ATCGAGAAAAA
66 ATCGAGAAAAA
886485 AGTTGAACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (88 bp):
TCCACCTCCTTCTGTGATAGAATCGAACAAAATGTCAATGCTGATCTACATCATTCTGTGATAGA
ATCGAGAAAAATATTGGTGTTGG
Found at i:886954 original size:21 final size:20
Alignment explanation
Indices: 886913--886954 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
886903 GTTTCAAGAG
*
886913 AAACTGTTTCAAGAGAGACA
1 AAACTGTTTCAAGAGAAACA
*
886933 AAACATGTTTCAAGGGAAACA
1 AAAC-TGTTTCAAGAGAAACA
886954 A
1 A
886955 TCTCAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACTGTTTCAAGAGAAACA
Found at i:886970 original size:66 final size:67
Alignment explanation
Indices: 886889--887018 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 67
886879 AGTGAAACTG
* *
886889 TCTCAAAGGTTGGTGTTTCAAGAGAAACTGTTTCAAGAGAGACAAAACAT-GTTTCAAG-GGAAA
1 TCTCAAAGGTGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TCGTTTCAAGTGGAAA
886952 CAA
65 CAA
* *
886955 TCTCAAATGTGGGTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCGTTTCAAGTGGAAA
1 TCTCAAAGGTGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTCGTTTCAAGTGGAAA
887019 TGATTCAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 1 0.02
66 52 0.90
67 5 0.09
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (67 bp):
TCTCAAAGGTGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTCGTTTCAAGTGGAAAC
AA
Found at i:887106 original size:36 final size:36
Alignment explanation
Indices: 887066--887456 Score: 162
Period size: 39 Copynumber: 10.6 Consensus size: 36
887056 AAATTCTATG
* * * *
887066 TTTCAAGAGAAACTGTCTAAAGGAAGAAAAAATTTA
1 TTTCAAGGGAAACTATCTCAAGGAAGACAAAATTTA
887102 TTTCAAGGGAAACTATCTCAAGAGAA-ACAAAATTTA
1 TTTCAAGGGAAACTATCTCAAG-GAAGACAAAATTTA
**
887138 TTTCAAGGGAAACTATCTCAA-GAGAGACAAAATTCG
1 TTTCAAGGGAAACTATCTCAAGGA-AGACAAAATTTA
* *** *
887174 TTTCAAGGGAAAC-ACTTTC-A--AAG--TTTATGT-
1 TTTCAAGGGAAACTA-TCTCAAGGAAGACAAAATTTA
* * *
887204 TTT-AAGAGAAACTGTCTCAAAGG-AGACAAAAATTTG
1 TTTCAAGGGAAACTATCTC-AAGGAAGAC-AAAATTTA
* * * * *
887240 TTTCGAGGGAAACTGTCTCAAGGGAGATAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGGAAGACAAAA--TT-TA
** * *
887279 TTTTGAGTGAAACTATCTCAAGCG-AGACAAAAACTTCTG
1 TTTCAAGGGAAACTATCTCAAG-GAAGAC-AAAA-TT-TA
* *
887318 TTTCGAGGAAAACTATCTCAAGTG-AGACAAAATCTTCTA
1 TTTCAAGGGAAACTATCTCAAG-GAAGACAAAA--TT-TA
* * * ** * *
887357 CTTCGAGTGAAACTATCTCAAGCCAGACAGAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGGAAGACA-AA-ATT-TA
* *
887396 TTTCGAGGGAAACTATCTCAAGCG-AGACAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAG-GAAGACAAAA--TT-TA
*
887435 TTTCGAGGGAAACTATCTCAAG
1 TTTCAAGGGAAACTATCTCAAG
887457 CGAGATAAAA
Statistics
Matches: 287, Mismatches: 41, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
29 11 0.04
30 3 0.01
31 3 0.01
32 2 0.01
33 2 0.01
34 3 0.01
35 6 0.02
36 84 0.29
37 19 0.07
38 8 0.03
39 139 0.48
40 7 0.02
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGGAAGACAAAATTTA
Found at i:887292 original size:39 final size:39
Alignment explanation
Indices: 887211--887472 Score: 341
Period size: 39 Copynumber: 6.8 Consensus size: 39
887201 TGTTTTAAGA
* *
887211 GAAACTGTCTCAAAG-GAGACAAAA-ATT-TGTTTCGAGG
1 GAAACTATCTC-AAGCGAGACAAAATCTTCTGTTTCGAGG
* * * * *
887248 GAAACTGTCTCAAGGGAGATAAAATCTTCTGTTTTGAGT
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
*
887287 GAAACTATCTCAAGCGAGACAAAAACTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* * ** *
887326 AAAACTATCTCAAGTGAGACAAAATCTTCTACTTCGAGT
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
887365 GAAACTATCTCAAGCCAGACAGAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
887404 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
1 GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
* *
887443 GAAACTATCTCAAGCGAGATAAAACCTTCT
1 GAAACTATCTCAAGCGAGACAAAATCTTCT
887473 TTAAAAACAA
Statistics
Matches: 195, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
36 3 0.02
37 19 0.10
38 2 0.01
39 171 0.88
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (39 bp):
GAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCGAGG
Found at i:887566 original size:76 final size:76
Alignment explanation
Indices: 887451--887670 Score: 281
Period size: 76 Copynumber: 2.9 Consensus size: 76
887441 GGGAAACTAT
* * *
887451 CTCAAGCGAGATAAAACCTTCTTT---AAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGA
1 CTCAAGCGAGACAAATCTTTCTTTAAGAAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGA
887513 GTAAAAACCGC
66 GTAAAAACCGC
*
887524 CTCAAGCGAGACAAATCTTGT-TTTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CTTCTCGTTT
1 CTCAAGCGAGACAAATCTT-TCTTTAAGAAAAACAATCTTGAGTGAAATGAAATGCCT-TC-TTT
* *
887586 CGAGTAAAAACTGT
63 CGAGTAAAAACCGC
* * * *
887600 CTCAAGTGAGACAAATCTTTCTTTAAGAAAAATAATCTTGAGTCAAATGAAATGTCTTCTTTCGA
1 CTCAAGCGAGACAAATCTTTCTTTAAGAAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGA
887665 GTAAAA
66 GTAAAA
887671 TAATCTCAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
73 19 0.15
74 3 0.02
75 7 0.06
76 91 0.72
77 6 0.05
78 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (76 bp):
CTCAAGCGAGACAAATCTTTCTTTAAGAAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGA
GTAAAAACCGC
Found at i:887712 original size:75 final size:74
Alignment explanation
Indices: 887475--887712 Score: 284
Period size: 76 Copynumber: 3.1 Consensus size: 74
887465 AACCTTCTTT
* * *
887475 AAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAACCGCCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAA-CGTCTCAAGTGAGACAAAT
887540 CTTGTTTTAAG
65 C-TGTTTTAAG
*
887551 AAAAACAATCTTGAGTGAAAT-AAATCT-TCTCGTTTCGAGTAAAAACTGTCTCAAGTGAGACAA
1 AAAAACAATCTTGAGTGAAATGAAATGTCT-TC-TTTCGAGTAAAAAC-GTCTCAAGTGAGACAA
*
887614 ATCTTTCTTTAAG
63 ATCTGT-TTTAAG
* * * * **
887627 AAAAATAATCTTGAGTCAAATGAAATGTCTTCTTTCGAGTAAAATA-ATCTCAAGTTAGACATTG
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAA-ACGTCTCAAGTGAGACA-AA
887691 TCTGTTTTAAG
64 TCTGTTTTAAG
887702 AAAAACAATCT
1 AAAAACAATCT
887713 CTAGTGAGAT
Statistics
Matches: 140, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
74 1 0.01
75 38 0.27
76 92 0.66
77 8 0.06
78 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (74 bp):
AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACGTCTCAAGTGAGACAAATC
TGTTTTAAG
Found at i:887725 original size:151 final size:146
Alignment explanation
Indices: 887425--887727 Score: 351
Period size: 151 Copynumber: 2.0 Consensus size: 146
887415 AAGCGAGACA
** *
887425 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAACCTTCTTTAAAAACAATCTTGAG
1 AAATCTTCTGTTTCGAGAAAAACTATCTCAAGCGAGACAAAACCTTCTTTAAAAACAATCTTGAG
* *
887490 TGAAATGAAATGCCTTCTTTCGAGTAAAAACCGCCTCAAGCGAGACAAATCTTGTTTTAAGAAAA
66 TCAAATGAAATGCCTTCTTTCGAGTAAAAA-CACCTCAAGCGAGACAAATCTTGTTTTAAGAAAA
887555 ACAATCTTGAGTGAAAT
130 ACAATCTTGAGTGAAAT
* * * * *
887572 AAATCTTCTCGTTTCGAGTAAAAACTGTCTCAAGTGAGACAAATCTTTCTTTAAGAAAAATAATC
1 AAATCTTCT-GTTTCGAG-AAAAACTATCTCAAGCGAGACAAAACCTTCTTT---AAAAACAATC
* * ** * *
887637 TTGAGTCAAATGAAATGTCTTCTTTCGAGTAAAATA-ATCTCAAGTTAGAC-ATTGTCTGTTTTA
61 TTGAGTCAAATGAAATGCCTTCTTTCGAGTAAAA-ACACCTCAAGCGAGACAAATCT-TGTTTTA
*
887700 AGAAAAACAATCTCT-AGTGAGAT
124 AGAAAAACAATCT-TGAGTGAAAT
887723 AAATC
1 AAATC
887728 CTTTGTGTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
147 9 0.07
148 8 0.06
149 26 0.20
150 3 0.02
151 42 0.32
152 42 0.32
153 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (146 bp):
AAATCTTCTGTTTCGAGAAAAACTATCTCAAGCGAGACAAAACCTTCTTTAAAAACAATCTTGAG
TCAAATGAAATGCCTTCTTTCGAGTAAAAACACCTCAAGCGAGACAAATCTTGTTTTAAGAAAAA
CAATCTTGAGTGAAAT
Found at i:895034 original size:31 final size:29
Alignment explanation
Indices: 894984--895050 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
894974 TATTTAAAAA
*
894984 AAAAATAAAAGAATGTAAAAATTATTAATAT
1 AAAAATAAAAGAATATAAAAATTATT-AT-T
* * * *
895015 AAAAATAAGAGACTATAAAATTTGTTATT
1 AAAAATAAAAGAATATAAAAATTATTATT
895044 AAAAATA
1 AAAAATA
895051 CTTTATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.26
30 2 0.06
31 21 0.68
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAAATAAAAGAATATAAAAATTATTATT
Found at i:898934 original size:17 final size:17
Alignment explanation
Indices: 898912--898946 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
898902 AGCCTGTTAA
898912 AAATTTGAATCGAGTTC
1 AAATTTGAATCGAGTTC
* *
898929 AAATTTGAGTCTAGTTC
1 AAATTTGAATCGAGTTC
898946 A
1 A
898947 TTCGATTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (17 bp):
AAATTTGAATCGAGTTC
Found at i:902522 original size:16 final size:16
Alignment explanation
Indices: 902501--902554 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
902491 GGTATTACCC
902501 GACCTGGTTTCAACCT
1 GACCTGGTTTCAACCT
* *
902517 GACCT-GTTATGAATCT
1 GACCTGGTT-TCAACCT
* *
902533 GACATGTTTTCAACCT
1 GACCTGGTTTCAACCT
902549 GACCTG
1 GACCTG
902555 TAAATGATCG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.83
17 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (16 bp):
GACCTGGTTTCAACCT
Found at i:903936 original size:14 final size:15
Alignment explanation
Indices: 903903--903944 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
903893 TGAACAAATG
903903 TATGTGAAAAGACTC
1 TATGTGAAAAGACTC
*
903918 TATGTGAAAATAC-C
1 TATGTGAAAAGACTC
903932 TATGTGAATAAGA
1 TATGTGAA-AAGA
903945 GAACTTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
TATGTGAAAAGACTC
Found at i:904069 original size:21 final size:21
Alignment explanation
Indices: 904043--904135 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 21
904033 GTCGAGGGTG
*
904043 TTATGTGGTC-CTCTGGGACAA
1 TTATGTGGTCATTC-GGGACAA
904064 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
* * *
904085 ATATGT-GACACTTTGGTG-CAAA
1 TTATGTGGTCA-TTCGG-GAC-AA
* *
904107 CCTATGTGGTCATTCGAGACAA
1 -TTATGTGGTCATTCGGGACAA
904129 TTATGTG
1 TTATGTG
904136 ACACTTCGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
20 3 0.05
21 33 0.59
22 8 0.14
23 9 0.16
24 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Found at i:904114 original size:44 final size:44
Alignment explanation
Indices: 904065--904150 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
904055 CTGGGACAAT
* *
904065 TATGTGGTCATTCGGGACAAATATGTGACACTTTGGTGCAAACC
1 TATGTGGTCATTCGAGACAAATATGTGACACTTCGGTGCAAACC
*
904109 TATGTGGTCATTCGAGACAATTATGTGACACTTCGGTGCAAA
1 TATGTGGTCATTCGAGACAAATATGTGACACTTCGGTGCAAA
904151 TTACGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
TATGTGGTCATTCGAGACAAATATGTGACACTTCGGTGCAAACC
Found at i:905116 original size:18 final size:18
Alignment explanation
Indices: 905093--905127 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
905083 ACTAAAAATT
905093 TGTCCCAAAGGACCACTA
1 TGTCCCAAAGGACCACTA
*
905111 TGTCCCCAAGGACCACT
1 TGTCCCAAAGGACCACT
905128 TATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:906864 original size:18 final size:18
Alignment explanation
Indices: 906838--906873 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
906828 ATGTGTGGGC
*
906838 ATGTGTATAATATATAGT
1 ATGTATATAATATATAGT
*
906856 ATGTATATAGTATATAGT
1 ATGTATATAATATATAGT
906874 TGGCATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
ATGTATATAATATATAGT
Found at i:907015 original size:15 final size:15
Alignment explanation
Indices: 906978--907016 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
906968 TAATAGTTGC
*
906978 ATTGCATATCATATA
1 ATTGCATATCAAATA
* *
906993 GTTTCATATCAAATA
1 ATTGCATATCAAATA
907008 ATTGCATAT
1 ATTGCATAT
907017 TATATTTGAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (15 bp):
ATTGCATATCAAATA
Found at i:907034 original size:27 final size:28
Alignment explanation
Indices: 906978--907046 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
906968 TAATAGTTGC
906978 ATTGCATATCATATAGTTTCATATCAAATA
1 ATTGCATAT--TATAGTTTCATATCAAATA
* *
907008 ATTGCATATTATA-TTTGATATTAAATA
1 ATTGCATATTATAGTTTCATATCAAATA
*
907035 ATTAGTATATTA
1 ATT-GCATATTA
907047 CATAGTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.43
28 11 0.31
30 9 0.26
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (28 bp):
ATTGCATATTATAGTTTCATATCAAATA
Found at i:907045 original size:28 final size:28
Alignment explanation
Indices: 906989--907074 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 28
906979 TTGCATATCA
* *
906989 TATAGTTTCATATCAAATAATT-GCATAT
1 TATAGTTT-ATATTAAATAATTAGTATAT
907017 TATA-TTTGATATTAAATAATTAGTATAT
1 TATAGTTT-ATATTAAATAATTAGTATAT
* *
907045 TACATAGTTTATATTATATAGTTAGTATAT
1 T--ATAGTTTATATTAAATAATTAGTATAT
907075 ACTATATAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.31
28 10 0.20
30 21 0.43
31 3 0.06
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (28 bp):
TATAGTTTATATTAAATAATTAGTATAT
Found at i:907046 original size:16 final size:16
Alignment explanation
Indices: 907025--907074 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
907015 ATTATATTTG
*
907025 ATATTAAATAATTAGT
1 ATATTAAATAGTTAGT
*
907041 ATATTACATAGTT--T
1 ATATTAAATAGTTAGT
*
907055 ATATTATATAGTTAGT
1 ATATTAAATAGTTAGT
907071 ATAT
1 ATAT
907075 ACTATATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 13 0.45
16 16 0.55
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (16 bp):
ATATTAAATAGTTAGT
Found at i:907075 original size:18 final size:18
Alignment explanation
Indices: 907049--907085 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
907039 GTATATTACA
* *
907049 TAGTTTATATTATATAGT
1 TAGTATATACTATATAGT
907067 TAGTATATACTATATAGT
1 TAGTATATACTATATAGT
907085 T
1 T
907086 TGCATGTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (18 bp):
TAGTATATACTATATAGT
Found at i:907346 original size:31 final size:33
Alignment explanation
Indices: 907305--907370 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
907295 TGATTTTGGG
907305 TTTTTATTT-GGGGGGGATTTTGTTGCTTTGAA
1 TTTTTATTTGGGGGGGGATTTTGTTGCTTTGAA
907337 TTTTT-TTTGGGGGGGGGGATTTTGTTGCTTTGAA
1 TTTTTATTT--GGGGGGGGATTTTGTTGCTTTGAA
907371 AAGTCAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 3 0.10
32 5 0.16
34 23 0.74
ACGTcount: A:0.11, C:0.03, G:0.35, T:0.52
Consensus pattern (33 bp):
TTTTTATTTGGGGGGGGATTTTGTTGCTTTGAA
Found at i:908409 original size:14 final size:15
Alignment explanation
Indices: 908390--908423 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
908380 TACTTTTAAT
908390 TTATATAA-TATAAA
1 TTATATAAGTATAAA
908404 TTATATAAGTATAAA
1 TTATATAAGTATAAA
*
908419 CTATA
1 TTATA
908424 GTATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
TTATATAAGTATAAA
Found at i:908423 original size:27 final size:27
Alignment explanation
Indices: 908405--908457 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
908395 TAATATAAAT
*
908405 TATATAAGTATAAACTATAGTATATAA
1 TATATAAATATAAACTATAGTATATAA
*
908432 TATATAAATATCAACTATAGTATATA
1 TATATAAATATAAACTATAGTATATA
908458 GTTTATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (27 bp):
TATATAAATATAAACTATAGTATATAA
Found at i:908636 original size:32 final size:29
Alignment explanation
Indices: 908595--908654 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 29
908585 TAGTATATAG
*
908595 TATATAATTTATCAACTATAATATATAGTTTT
1 TATATAATTTAT--ACTAT-ATAAATAGTTTT
908627 TATATAATTTATACTATATAAATAGTTT
1 TATATAATTTATACTATATAAATAGTTT
908655 ATTTAGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.37
30 5 0.19
32 12 0.44
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (29 bp):
TATATAATTTATACTATATAAATAGTTTT
Found at i:908685 original size:24 final size:24
Alignment explanation
Indices: 908658--908704 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
908648 ATAGTTTATT
*
908658 TAGTTCATTAA-TAAATTATATATA
1 TAGTTCA-TAAGTAAACTATATATA
908682 TAGTTCATAAGTAAACTATATAT
1 TAGTTCATAAGTAAACTATATAT
908705 GTTATATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (24 bp):
TAGTTCATAAGTAAACTATATATA
Found at i:908765 original size:21 final size:20
Alignment explanation
Indices: 908729--908820 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 20
908719 AAATATCAAC
908729 TATAGTATATAGTTTATATA
1 TATAGTATATAGTTTATATA
*
908749 TATA-TATATAGTTTTTATA
1 TATAGTATATAGTTTATATA
* * *
908768 TATAAT-TCATA-TGTAAACTA
1 TATAGTAT-ATAGTTTATA-TA
*
908788 TATAGTATATATAATTTATATA
1 TATAG--TATATAGTTTATATA
*
908810 TGTAGTATATA
1 TATAGTATATA
908821 CTATATAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
19 22 0.39
20 20 0.35
22 10 0.18
23 5 0.09
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (20 bp):
TATAGTATATAGTTTATATA
Found at i:908880 original size:20 final size:19
Alignment explanation
Indices: 908844--908886 Score: 50
Period size: 22 Copynumber: 2.1 Consensus size: 19
908834 TTATTAATTA
*
908844 ATGTATTTAACTATATAGT
1 ATGTATTTAAATATATAGT
908863 ATGTACTTTAAATTTATATAGT
1 ATGTA-TTTAAA--TATATAGT
908885 AT
1 AT
908887 AAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
22 10 0.50
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (19 bp):
ATGTATTTAAATATATAGT
Found at i:908891 original size:15 final size:15
Alignment explanation
Indices: 908871--908910 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
908861 GTATGTACTT
908871 TAAATT-TATATAGTA
1 TAAATTATATA-AGTA
908886 TAAATTATATAAGTA
1 TAAATTATATAAGTA
*
908901 TAAACTATAT
1 TAAATTATAT
908911 TATATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (15 bp):
TAAATTATATAAGTA
Found at i:908915 original size:34 final size:34
Alignment explanation
Indices: 908876--909035 Score: 116
Period size: 34 Copynumber: 4.7 Consensus size: 34
908866 TACTTTAAAT
*
908876 TTATATAGTATAAATTATATAAGTATAAACTATA
1 TTATATAGTATAAATTATATAAATATAAACTATA
* *
908910 TTATATAATATATAA-TATATAAATATCAACTATA
1 TTATATAGTATA-AATTATATAAATATAAACTATA
* * ***
908944 GTATATAGTATAAA-TATA-AACTATAGTTTATA
1 TTATATAGTATAAATTATATAAATATAAACTATA
* * *
908976 TATATATA-TATATATATATATATATATATA-TATA
1 T-TATATAGTATAAAT-TATATAAATATAAACTATA
* *
909010 TATATATA-TATTATAGTATATAAATA
1 T-TATATAGTA-TAAATTATATAAATA
909036 GTTTATATAG
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
32 14 0.14
33 12 0.12
34 65 0.64
35 11 0.11
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (34 bp):
TTATATAGTATAAATTATATAAATATAAACTATA
Found at i:908916 original size:7 final size:7
Alignment explanation
Indices: 908877--909306 Score: 97
Period size: 7 Copynumber: 58.6 Consensus size: 7
908867 ACTTTAAATT
*
908877 TATATAG
1 TATATAA
908884 TATA-AA
1 TATATAA
908890 TTATATAA
1 -TATATAA
908898 GTATA-AA
1 -TATATAA
908905 CTATAT--
1 -TATATAA
908911 TATATAA
1 TATATAA
908918 TATATAA
1 TATATAA
908925 TATATAA
1 TATATAA
908932 -ATATCAA
1 TATAT-AA
908939 CTATAGTATA
1 -TATA-TA-A
908949 TAGTATAA
1 TA-TATAA
908957 -ATATAA
1 TATATAA
*
908963 -ACTATAG
1 TA-TATAA
*
908970 TTTATATA
1 TATATA-A
908978 TATATATA
1 TATATA-A
908986 TATATATA
1 TATATA-A
908994 TATATATA
1 TATATA-A
909002 TATATATA
1 TATATA-A
909010 TATATATA
1 TATATA-A
*
909018 TATTATAG
1 TA-TATAA
909026 TATATAA
1 TATATAA
*
909033 -ATAGTTTA
1 TATA--TAA
*
909041 TATAGTTCA
1 TATA--TAA
*
909050 TATGTAAA
1 TATAT-AA
* *
909058 CTTTATAG
1 -TATATAA
909066 TATATAA
1 TATATAA
*
909073 TTTAT-A
1 TATATAA
*
909079 TATGTAA
1 TATATAA
*
909086 TATATAC
1 TATATAA
909093 TATATAA
1 TATATAA
*
909100 T-TAGTTTA
1 TATA--TAA
*
909108 TATATAC
1 TATATAA
*
909115 TATATAG
1 TATATAA
*
909122 TTTATATA
1 TATATA-A
* *
909130 TAGTTTAT
1 TA-TATAA
909138 TAATATAA
1 T-ATATAA
909146 TTATATAAA
1 -TATAT-AA
909155 CTATATATA
1 -TATATA-A
*
909164 TATATAT
1 TATATAA
* *
909171 TACATAG
1 TATATAA
*
909178 TTTAT-A
1 TATATAA
909184 TATAT-A
1 TATATAA
909190 TATATTACA
1 TATA-TA-A
*
909199 TAGT-TTA
1 TA-TATAA
**
909206 TATATGG
1 TATATAA
909213 TATATAA
1 TATATAA
*
909220 AACTATAA
1 TA-TATAA
909228 -ATATAAA
1 TATAT-AA
* *
909235 CAATATAG
1 -TATATAA
*
909243 TTTAT-A
1 TATATAA
*
909249 TATATTA
1 TATATAA
909256 TAT-TAA
1 TATATAA
909262 TATAT-A
1 TATATAA
909268 TATAT-A
1 TATATAA
909274 TATAT-A
1 TATATAA
909280 TATATATA
1 TATATA-A
909288 TATATATA
1 TATATA-A
*
909296 TATATAT
1 TATATAA
909303 TATA
1 TATA
909307 ATTGTTTTAA
Statistics
Matches: 324, Mismatches: 56, Indels: 86
0.70 0.12 0.18
Matches are distributed among these distances:
5 5 0.02
6 60 0.19
7 112 0.35
8 95 0.29
9 47 0.15
10 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:908922 original size:2 final size:2
Alignment explanation
Indices: 908906--909306 Score: 216
Period size: 2 Copynumber: 200.0 Consensus size: 2
908896 AAGTATAAAC
*
908906 TA TA T- TA TA TA -A TA TA TA -A TA TA TA AA TA TCA -A CTA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA -TA
* * *
908947 TA TA GTA TA AA TA TA AA CTA TA GTT 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
908990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * * *
909032 AA TA GTT TA TA TA GT- TCA TA TG TA AA CTT TA TA GTA TA TA -A TT
1 TA TA -TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA
* *
909075 TA TA TA TG TA -A TA TA TA CTA TA TA -A T- TA GTT TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA
* * *
909117 TA TA GTT TA TA TA TA GTT TA T- TA -A TA TA -A T- TA TA TA AA CTA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
909158 TA TA TA TA TA TA T- TA CA TA GTT TA TA TA TA TA TA TA T- TA CA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
909199 TA GTT TA TA TA TGG TA TA TA -A AA CTA TA AA TA TA AA CA -A TA
1 TA -TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
909240 TA GTT TA TA TA TA T- TA TA T- TA -A 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 TA
909280 TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
909307 ATTGTTTTAA
Statistics
Matches: 307, Mismatches: 47, Indels: 90
0.69 0.11 0.20
Matches are distributed among these distances:
1 22 0.07
2 257 0.84
3 28 0.09
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:909143 original size:13 final size:11
Alignment explanation
Indices: 908965--909210 Score: 56
Period size: 11 Copynumber: 22.3 Consensus size: 11
908955 AAATATAAAC
908965 TATAGTTTATA
1 TATAGTTTATA
908976 TATA-TATATATA
1 TATAGT-T-TATA
908988 TATA-TATATATA
1 TATAGT-T-TATA
*
909000 TATA-TATATA
1 TATAGTTTATA
*
909010 TATA-TATATA
1 TATAGTTTATA
*
909020 TTATAGTATATA
1 -TATAGTTTATA
*
909032 AATAG-TT-TA
1 TATAGTTTATA
*
909041 TATAGTTCATATG
1 TATAGTT--TATA
* *
909054 TAAACTTTATAGTA
1 TATA-GTT-TA-TA
*
909068 TATAATTTATA
1 TATAGTTTATA
*
909079 TAT-G-TAATA
1 TATAGTTTATA
* *
909088 TATACTATATA
1 TATAGTTTATA
909099 -ATTAGTTTATA
1 TA-TAGTTTATA
*
909110 TATA----CTA
1 TATAGTTTATA
909117 TATAGTTTATA
1 TATAGTTTATA
909128 TATAGTTTATTAA
1 TATAGTTTA-T-A
*
909141 TATA-ATTATA
1 TATAGTTTATA
* * *
909151 TAAACTATATA
1 TATAGTTTATA
*
909162 TATA-TATATTA
1 TATAGTTTA-TA
*
909173 CATAGTTTATA
1 TATAGTTTATA
909184 TATA-TATATATTA
1 TATAGT-T-TA-TA
*
909197 CATAGTTTATA
1 TATAGTTTATA
909208 TAT
1 TAT
909211 GGTATATAAA
Statistics
Matches: 179, Mismatches: 29, Indels: 54
0.68 0.11 0.21
Matches are distributed among these distances:
7 6 0.03
9 13 0.07
10 27 0.15
11 64 0.36
12 42 0.23
13 20 0.11
14 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:909159 original size:41 final size:40
Alignment explanation
Indices: 908980--909309 Score: 159
Period size: 41 Copynumber: 8.0 Consensus size: 40
908970 TTTATATATA
*
908980 TATATATA-TATATA-TATATATATATATATATATATATATAT
1 TATATATACTATATAGTTTATATATATATAT-TA-ATATA-AT
* * *
909021 TATAGTATA-TAAATAGTTTATATAGT-TCATATGTAAACTTTATAG
1 TATA-TATACTATATAGTTTATATA-TAT-ATAT-T-AA-TATA-AT
* * *
909066 TATATA-ATTTATATA-TGTA-ATATATACTATATAAT-TAGTT
1 TATATATA-CTATATAGTTTATATATATA-TAT-TAATATA-AT
*
909106 TATATATACTATATAGTTTATATATAGTTTATTAATATAAT
1 TATATATACTATATAGTTTATATATA-TATATTAATATAAT
* * * *
909147 TATATAAACTATATA-TATATATATTACATAGTTTATAT-A-
1 TATATATACTATATAGTTTATATA-TATATA-TTAATATAAT
* * * *
909186 TATATATATTACATAGTTTATATATGGTATATAAAACTATAA-
1 TATATATACTATATAGTTTATATAT-ATATAT-TAA-TATAAT
* *
909228 -ATATAAACAATATAGTTTATATATATTATATTAATATATAT
1 TATATATACTATATAGTTTATATATA-TATATTAATATA-AT
* *
909269 ATATATATA-TATATA-TATATATATATATATATATTATAAT
1 -TATATATACTATATAGTTTATATATATATAT-TAATATAAT
909309 T
1 T
909310 GTTTTAATTT
Statistics
Matches: 223, Mismatches: 38, Indels: 58
0.70 0.12 0.18
Matches are distributed among these distances:
39 19 0.09
40 45 0.20
41 79 0.35
42 29 0.13
43 24 0.11
44 12 0.05
45 15 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (40 bp):
TATATATACTATATAGTTTATATATATATATTAATATAAT
Found at i:913734 original size:44 final size:44
Alignment explanation
Indices: 913674--913764 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
913664 ATGGGGTTGA
913674 AAACAGATTATTAATAGGAAATATTTGAAATATATGAAATTTTG
1 AAACAGATTATTAATAGGAAATATTTGAAATATATGAAATTTTG
913718 AAACAGATTATTAATAGGAAATATTTGAAATATATGAAATTTTG
1 AAACAGATTATTAATAGGAAATATTTGAAATATATGAAATTTTG
913762 AAA
1 AAA
913765 ATTTCAGGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.35
Consensus pattern (44 bp):
AAACAGATTATTAATAGGAAATATTTGAAATATATGAAATTTTG
Found at i:916144 original size:17 final size:17
Alignment explanation
Indices: 916112--916143 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
916102 TTATATATCA
916112 ATAAAAAAATATAAAAT
1 ATAAAAAAATATAAAAT
916129 ATAAAAAAAT-TAAAA
1 ATAAAAAAATATAAAA
916144 AAATTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAAAATATAAAAT
Found at i:918473 original size:2 final size:2
Alignment explanation
Indices: 918466--918508 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
918456 ATTATTGATA
918466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918508 A
1 A
918509 CCCTACAGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:920246 original size:75 final size:75
Alignment explanation
Indices: 920123--920270 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 75
920113 AACAATCGCC
* *
920123 TTCTTAGTTGCCAGGCTCTCAACCCTAAGACCCCACTCGGTTTCTGACATGAATTATTTAAACAA
1 TTCTTAGTTGCCAGGCTCTCAACCCTAAAACCCCACTCAGTTTCTGACATGAATTATTTAAACAA
920188 GTTTTTGTTT
66 GTTTTTGTTT
*
920198 TTCTTAGTTGCCCGGCTCTCAACCCTAAAACCCCACTCAGTTTCTGACATGAATTATTTAAACAA
1 TTCTTAGTTGCCAGGCTCTCAACCCTAAAACCCCACTCAGTTTCTGACATGAATTATTTAAACAA
920263 GTTTTTGT
66 GTTTTTGT
920271 CATTATGAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (75 bp):
TTCTTAGTTGCCAGGCTCTCAACCCTAAAACCCCACTCAGTTTCTGACATGAATTATTTAAACAA
GTTTTTGTTT
Found at i:921733 original size:2 final size:2
Alignment explanation
Indices: 921726--921750 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
921716 CCCTCGATCA
921726 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 A
921751 CACGTTGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:927983 original size:23 final size:23
Alignment explanation
Indices: 927957--928025 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
927947 CACCACAGCT
*
927957 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
927980 CGTAGAATTACACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
* * *
928003 CGTAGATTTACACTGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
928026 TATAATAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:928212 original size:103 final size:103
Alignment explanation
Indices: 928041--928253 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
928031 TAATGTCCAT
* * *
928041 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATGTGTCTCACCA
928106 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
928144 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATAAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATGTGTCTCACCA
928209 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
928247 AAGGACC
1 AAGGACC
928254 GTGTAGACCC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATAAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:929097 original size:20 final size:20
Alignment explanation
Indices: 929069--929112 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
929059 CTCTTTATAA
*
929069 ACATTTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
929089 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
929109 ACAT
1 ACAT
929113 TTCTCGACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:930874 original size:57 final size:57
Alignment explanation
Indices: 930805--930918 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
930795 ACCTTTATCG
930805 TGTCTGATCCTTTAACTCAATCCCATTTCATTTCTTTATTCCATTCTTTCTTTATTT
1 TGTCTGATCCTTTAACTCAATCCCATTTCATTTCTTTATTCCATTCTTTCTTTATTT
930862 TGTCTGATCCTTTAACTCAATCCCATTTCATTTCTTTATTCCATTCTTTCTTTATTT
1 TGTCTGATCCTTTAACTCAATCCCATTTCATTTCTTTATTCCATTCTTTCTTTATTT
930919 ATTCCTTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.54
Consensus pattern (57 bp):
TGTCTGATCCTTTAACTCAATCCCATTTCATTTCTTTATTCCATTCTTTCTTTATTT
Found at i:933110 original size:23 final size:23
Alignment explanation
Indices: 933084--933152 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
933074 CACCACAGCT
933084 CGTATAATTGCACCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* * *
933107 CGTAGAATTGAACCGAAGTGCCG
1 CGTATAATTGCACCGAAGTGCCA
* *
933130 CGTATAATTACACCGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
933153 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:933339 original size:103 final size:103
Alignment explanation
Indices: 933168--933380 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
933158 TAATGTCCAT
* * *
933168 AAGGACCACATATCATTCCTTAAGATTCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
933233 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
933271 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
933336 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
933374 AAGGACC
1 AAGGACC
933381 GTATAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:938776 original size:23 final size:23
Alignment explanation
Indices: 938750--938827 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
938740 CACCACAGCT
938750 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
938773 CATATAATTGCACCGAAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
938796 CGTAGAATTGCACC-ATAGTGCCA
1 CATATAATTGCACCGA-AGTGCCA
*
938819 TATAATAAT
1 CAT-ATAAT
938828 GTCCATAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
22 1 0.02
23 41 0.89
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:939053 original size:18 final size:18
Alignment explanation
Indices: 939030--939065 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
939020 GAATACATAT
939030 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
939048 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
939066 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:939141 original size:121 final size:121
Alignment explanation
Indices: 938927--939292 Score: 669
Period size: 121 Copynumber: 3.0 Consensus size: 121
938917 GAATACATAT
938927 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
938992 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
939048 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
*
939113 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACA
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
* ** *
939169 ATATCCCGAACAACCATATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
* *
939234 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAAATGTCCCGAAAGACCACA
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
939290 ATG
1 ATG
939293 ACCCTTGACT
Statistics
Matches: 236, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 236 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (121 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
Found at i:941631 original size:20 final size:20
Alignment explanation
Indices: 941603--941646 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
941593 CTCTTTATAA
941603 ACATATATTTCTATTTCCCT
1 ACATATATTTCTATTTCCCT
*
941623 ACATCTATTTCTATTTCCCT
1 ACATATATTTCTATTTCCCT
941643 ACAT
1 ACAT
941647 TTCTCGACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (20 bp):
ACATATATTTCTATTTCCCT
Found at i:946098 original size:12 final size:12
Alignment explanation
Indices: 946083--946186 Score: 50
Period size: 12 Copynumber: 8.7 Consensus size: 12
946073 CGGAGATATA
946083 AGAAATCAAAAC
1 AGAAATCAAAAC
* * *
946095 AGAATTCATATC
1 AGAAATCAAAAC
* * *
946107 ATATATCATAAC
1 AGAAATCAAAAC
*
946119 AG-AATCCAAATC
1 AGAAAT-CAAAAC
*
946131 AGAAATCAGAAC
1 AGAAATCAAAAC
* * * *
946143 ATAATTCAGATC
1 AGAAATCAAAAC
*
946155 AGAAATCAGAAC
1 AGAAATCAAAAC
*
946167 A-AAATTCAAATC
1 AGAAA-TCAAAAC
946179 AGAAATCA
1 AGAAATCA
946187 GATAAAACAT
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
11 5 0.07
12 56 0.84
13 6 0.09
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (12 bp):
AGAAATCAAAAC
Found at i:946105 original size:24 final size:24
Alignment explanation
Indices: 946083--946188 Score: 131
Period size: 24 Copynumber: 4.4 Consensus size: 24
946073 CGGAGATATA
* *
946083 AGAAATCAAAACAGAATTCATATC
1 AGAAATCAGAACAGAATTCAAATC
* * * *
946107 ATATATCATAACAGAATCCAAATC
1 AGAAATCAGAACAGAATTCAAATC
* *
946131 AGAAATCAGAACATAATTCAGATC
1 AGAAATCAGAACAGAATTCAAATC
*
946155 AGAAATCAGAACAAAATTCAAATC
1 AGAAATCAGAACAGAATTCAAATC
946179 AGAAATCAGA
1 AGAAATCAGA
946189 TAAAACATTC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (24 bp):
AGAAATCAGAACAGAATTCAAATC
Found at i:949575 original size:16 final size:16
Alignment explanation
Indices: 949554--949584 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
949544 ATAAATAAAC
949554 GAACATAAACGAACAT
1 GAACATAAACGAACAT
949570 GAACATAAACGAACA
1 GAACATAAACGAACA
949585 AATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (16 bp):
GAACATAAACGAACAT
Found at i:949675 original size:16 final size:16
Alignment explanation
Indices: 949654--949698 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
949644 TAATAAATAA
949654 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
949670 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
949686 ACGAACATAAACG
1 ACGAACATAAACG
949699 TTGGAGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:950776 original size:14 final size:14
Alignment explanation
Indices: 950735--950788 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
950725 AATGAACATA
*
950735 AACGAACATAACCG
1 AACGAACATGACCG
*
950749 AACAAACAT-A---
1 AACGAACATGACCG
950759 AACGAACATGACCG
1 AACGAACATGACCG
950773 AACGAACATGACCG
1 AACGAACATGACCG
950787 AA
1 AA
950789 AGTTCACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.52, C:0.26, G:0.15, T:0.07
Consensus pattern (14 bp):
AACGAACATGACCG
Found at i:950788 original size:24 final size:24
Alignment explanation
Indices: 950728--950781 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
950718 ATAAATGAAT
950728 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* *
950752 AAACATAAACGAACATGACCGAAC
1 GAACATAAACGAACATAACCGAAC
950776 GAACAT
1 GAACAT
950782 GACCGAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.54, C:0.24, G:0.13, T:0.09
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:952439 original size:2 final size:2
Alignment explanation
Indices: 952428--952501 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
952418 CGGTTCTTTC
952428 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952469 AT AT AT 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 AT AT AT A
952502 ATTCCAAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 70 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:954186 original size:38 final size:40
Alignment explanation
Indices: 954112--954187 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
954102 AAGTTGGTTG
954112 GTGGCCAACTTGTACACATGAGAAAATTCATCTTTGGTAT
1 GTGGCCAACTTGTACACATGAGAAAATTCATCTTTGGTAT
* * *
954152 GTGGTCAACTT-TGCACATGAG-AATTTCATCTTTGGT
1 GTGGCCAACTTGTACACATGAGAAAATTCATCTTTGGT
954188 CCCTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.42
39 9 0.27
40 10 0.30
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
GTGGCCAACTTGTACACATGAGAAAATTCATCTTTGGTAT
Found at i:958860 original size:17 final size:17
Alignment explanation
Indices: 958835--958868 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
958825 TTCAAATTGT
*
958835 CAAATTTGACAAGTTGG
1 CAAAGTTGACAAGTTGG
958852 CAAAGTTGACAAGTTGG
1 CAAAGTTGACAAGTTGG
958869 TTTGTGGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (17 bp):
CAAAGTTGACAAGTTGG
Found at i:962533 original size:13 final size:13
Alignment explanation
Indices: 962512--962592 Score: 63
Period size: 13 Copynumber: 6.2 Consensus size: 13
962502 CCCTGAGCCG
962512 AGCCACCGAGTCA
1 AGCCACCGAGTCA
* * *
962525 AGCCGCCGAGCCG
1 AGCCACCGAGTCA
962538 AGCCACCGAGTCA
1 AGCCACCGAGTCA
** *
962551 AGCCGTCGAGCCA
1 AGCCACCGAGTCA
* * *
962564 AACCACCGAGCCG
1 AGCCACCGAGTCA
* *
962577 AGCAACCGAGCCA
1 AGCCACCGAGTCA
962590 AGC
1 AGC
962593 TGACTGAGCC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.28, C:0.41, G:0.27, T:0.04
Consensus pattern (13 bp):
AGCCACCGAGTCA
Found at i:962535 original size:26 final size:26
Alignment explanation
Indices: 962506--962573 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
962496 CTGAGTCCCT
962506 GAGCCGAGCCACCGAGTCAAGCCGCC
1 GAGCCGAGCCACCGAGTCAAGCCGCC
*
962532 GAGCCGAGCCACCGAGTCAAGCCGTC
1 GAGCCGAGCCACCGAGTCAAGCCGCC
* *
962558 GAGCCAAACCACCGAG
1 GAGCCGAGCCACCGAG
962574 CCGAGCAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.40, G:0.29, T:0.04
Consensus pattern (26 bp):
GAGCCGAGCCACCGAGTCAAGCCGCC
Found at i:965049 original size:18 final size:18
Alignment explanation
Indices: 965023--965064 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
965013 ATCAATCCTA
*
965023 CTTGCCGTGGCATTTCTC
1 CTTGACGTGGCATTTCTC
965041 CTTGACGTGGCATTTCTC
1 CTTGACGTGGCATTTCTC
965059 CTTGAC
1 CTTGAC
965065 AAGACTGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.31, G:0.21, T:0.38
Consensus pattern (18 bp):
CTTGACGTGGCATTTCTC
Found at i:971532 original size:18 final size:18
Alignment explanation
Indices: 971509--971553 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
971499 TATTCATCTT
971509 CTTCCCACTTTCCACGAC
1 CTTCCCACTTTCCACGAC
*
971527 CTTCCCACTTTCCACGAG
1 CTTCCCACTTTCCACGAC
971545 CTTCCCACT
1 CTTCCCACT
971554 GAAGATCCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
CTTCCCACTTTCCACGAC
Found at i:975214 original size:29 final size:30
Alignment explanation
Indices: 975174--975237 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
975164 AAAAAAGTTG
975174 AAAAAAACTGTTCACTG-TTCGAACAGCAA
1 AAAAAAACTGTTCACTGTTTCGAACAGCAA
* * *
975203 AAAAAAATTGTTCACTGTTTTGAATAGCAA
1 AAAAAAACTGTTCACTGTTTCGAACAGCAA
975233 AAAAA
1 AAAAA
975238 GAAAAAACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAAAAACTGTTCACTGTTTCGAACAGCAA
Found at i:989428 original size:12 final size:12
Alignment explanation
Indices: 989411--989447 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
989401 CTCAATCTCC
989411 TCGAAAGACA-CT
1 TCGAAAGA-ATCT
989423 TCGAAAGAATCT
1 TCGAAAGAATCT
989435 TCGAAAGAATCT
1 TCGAAAGAATCT
989447 T
1 T
989448 GTACATCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 1 0.04
12 23 0.96
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (12 bp):
TCGAAAGAATCT
Found at i:1019499 original size:16 final size:16
Alignment explanation
Indices: 1019478--1019515 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
1019468 CTGACAGTAT
1019478 TATAACT-ATACAAAAA
1 TATAACTAATA-AAAAA
1019494 TATAACTAAATAAAAAA
1 TATAACT-AATAAAAAA
1019511 TATAA
1 TATAA
1019516 TAAAGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 10 0.50
18 3 0.15
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAACTAATAAAAAA
Found at i:1022764 original size:21 final size:21
Alignment explanation
Indices: 1022735--1022778 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1022725 ATTCTGACTA
1022735 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1022756 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
1022777 TC
1 TC
1022779 ACAAAGCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1022858 original size:20 final size:20
Alignment explanation
Indices: 1022809--1022854 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1022799 GCAACGCGAA
*
1022809 TACGTATTCGCGTTGCGATT
1 TACGTAATCGCGTTGCGATT
1022829 TACGTAATCGCGTTGCGATT
1 TACGTAATCGCGTTGCGATT
1022849 TA-GTAA
1 TACGTAA
1022855 ATCGAAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
TACGTAATCGCGTTGCGATT
Found at i:1026346 original size:19 final size:19
Alignment explanation
Indices: 1026324--1026402 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
1026314 GCAACGAGAG
*
1026324 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
1026343 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1026362 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1026376 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1026395 AATCGCAA
1 AATCGCAA
1026403 CGAGGGAATC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.15
16 6 0.11
17 6 0.11
19 33 0.62
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1026368 original size:52 final size:53
Alignment explanation
Indices: 1026291--1026404 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 53
1026281 CTTATTGTCT
* ** *
1026291 ATCGCAACGCGGAAATTACTATCGCAACGAGAGAATCGCAATGCAAAATGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCAAAATGAAA
*
1026344 ATCGCAACGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCAAAATGAAA
1026396 ATCGCAACG
1 ATCGCAACG
1026405 AGGGAATCGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 46 0.82
53 10 0.18
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (53 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCAAAATGAAA
Found at i:1026380 original size:33 final size:33
Alignment explanation
Indices: 1026343--1026437 Score: 136
Period size: 33 Copynumber: 2.9 Consensus size: 33
1026333 GCAAAATGAA
*
1026343 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAAAGCGAAATGAAAATCGCAACGAAAG
* **
1026376 AATCGCAATGCGAAATGAAAATCGCAACGAGGG
1 AATCGCAAAGCGAAATGAAAATCGCAACGAAAG
* *
1026409 AATCGGAAAGCGAAATAAAAATCGCAACG
1 AATCGCAAAGCGAAATGAAAATCGCAACG
1026438 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
AATCGCAAAGCGAAATGAAAATCGCAACGAAAG
Found at i:1026459 original size:19 final size:19
Alignment explanation
Indices: 1026437--1026478 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1026427 AAATCGCAAC
*
1026437 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCATT
* *
1026456 GCGATTTTCGTTTCGCATT
1 GCGAATTTAGTTTCGCATT
1026475 GCGA
1 GCGA
1026479 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCATT
Found at i:1026479 original size:19 final size:19
Alignment explanation
Indices: 1026446--1026512 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
1026436 CGCGAATTTA
*
1026446 GTTTCGCGTTGCGATTTTC
1 GTTTCGCATTGCGATTTTC
1026465 GTTTCGCATTGCGA--TTC
1 GTTTCGCATTGCGATTTTC
*
1026482 -TCTCG--TTGCGATTTTC
1 GTTTCGCATTGCGATTTTC
*
1026498 ATTTCGCATTGCGAT
1 GTTTCGCATTGCGAT
1026513 AGTCATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.15
16 7 0.17
17 7 0.17
19 20 0.50
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
GTTTCGCATTGCGATTTTC
Found at i:1026638 original size:14 final size:14
Alignment explanation
Indices: 1026619--1026655 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1026609 CATCAATTAA
1026619 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1026633 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1026647 ACAAATCAA
1 ACAAATCAA
1026656 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1026909 original size:40 final size:40
Alignment explanation
Indices: 1026854--1026981 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
1026844 AACCAAATAT
* * *
1026854 TTTACGTATTGTCGTTGCGATTTACGGATACGCATTGCGA
1 TTTACGTATTCTCGTTGCGATTTACGAATACGCGTTGCGA
**
1026894 TTTACGTATTCTCGTTGCGATTTAAAAATACGCGTTGCGA
1 TTTACGTATTCTCGTTGCGATTTACGAATACGCGTTGCGA
* * *
1026934 TTTAAGTAATCGCGTTGCGATTTACGTAAT-CGCGTTGCGA
1 TTTACGTATTCTCGTTGCGATTTACG-AATACGCGTTGCGA
1026974 TTTACGTA
1 TTTACGTA
1026982 ATCGCAATGC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 73 0.96
41 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (40 bp):
TTTACGTATTCTCGTTGCGATTTACGAATACGCGTTGCGA
Found at i:1026994 original size:20 final size:20
Alignment explanation
Indices: 1026866--1026986 Score: 147
Period size: 20 Copynumber: 6.0 Consensus size: 20
1026856 TACGTATTGT
*
1026866 CGTTGCGATTTACG-GATACG
1 CGTTGCGATTTACGTAAT-CG
* * *
1026886 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTAATCG
**
1026906 CGTTGCGATTTA-AAAATACG
1 CGTTGCGATTTACGTAAT-CG
*
1026926 CGTTGCGATTTAAGTAATCG
1 CGTTGCGATTTACGTAATCG
1026946 CGTTGCGATTTACGTAATCG
1 CGTTGCGATTTACGTAATCG
1026966 CGTTGCGATTTACGTAATCG
1 CGTTGCGATTTACGTAATCG
1026986 C
1 C
1026987 AATGCGATAG
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
19 2 0.02
20 80 0.93
21 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATTTACGTAATCG
Found at i:1027005 original size:40 final size:40
Alignment explanation
Indices: 1026909--1027013 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
1026899 GTATTCTCGT
* **
1026909 TGCGATTTA-AAAATACGCGTTGCGATTTAAGTAATCGCGT
1 TGCGATGTACAAAAT-CGCGTTGCGATTTAAGTAATCGCAA
* ** *
1026949 TGCGATTTACGTAATCGCGTTGCGATTTACGTAATCGCAA
1 TGCGATGTACAAAATCGCGTTGCGATTTAAGTAATCGCAA
1026989 TGCGATAGT-CAAAATCGCGTTGCGA
1 TGCGAT-GTACAAAATCGCGTTGCGA
1027014 ATCTGGAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 51 0.93
41 4 0.07
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TGCGATGTACAAAATCGCGTTGCGATTTAAGTAATCGCAA
Found at i:1030703 original size:21 final size:21
Alignment explanation
Indices: 1030679--1030733 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1030669 CCCATAACAT
1030679 GGTGCATCGATACACCATTAA
1 GGTGCATCGATACACCATTAA
*
1030700 GGTGCATCGGTACACCATTAA
1 GGTGCATCGATACACCATTAA
1030721 GGTGCATCGATAC
1 GGTGCATCGATAC
1030734 CCCTTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
GGTGCATCGATACACCATTAA
Found at i:1031145 original size:21 final size:21
Alignment explanation
Indices: 1031121--1031160 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1031111 ATGTTTAATG
1031121 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
1031142 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
1031161 CCAATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:1032729 original size:29 final size:29
Alignment explanation
Indices: 1032684--1032748 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
1032674 GAAATCATGA
* *
1032684 ATCTATTGAGTTTCTTCAAGATCTTGACC
1 ATCTCTTGAGTTCCTTCAAGATCTTGACC
1032713 ATCTCTTGAGTTCCTTCAAGATCTTGACC
1 ATCTCTTGAGTTCCTTCAAGATCTTGACC
1032742 ATCTCTT
1 ATCTCTT
1032749 CTTCTTGTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (29 bp):
ATCTCTTGAGTTCCTTCAAGATCTTGACC
Found at i:1034374 original size:35 final size:35
Alignment explanation
Indices: 1034314--1034383 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
1034304 TCAATGTTTG
*
1034314 AGTGCATGAATGCACAGCAGGGTGCATCGATGCAC
1 AGTGCATGAATGCACAGCAGAGTGCATCGATGCAC
* *
1034349 AGTGCATGAATGCATTA-CAGAGTGCATGGATGCAC
1 AGTGCATGAATGCA-CAGCAGAGTGCATCGATGCAC
1034384 TTTGACACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (35 bp):
AGTGCATGAATGCACAGCAGAGTGCATCGATGCAC
Found at i:1034643 original size:22 final size:22
Alignment explanation
Indices: 1034614--1034674 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
1034604 GGGTCTACGC
*
1034614 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACAAATACAGA
* *
1034636 TGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACAGA
*
1034658 GGTTCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
1034675 TTCACATGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:1040048 original size:41 final size:41
Alignment explanation
Indices: 1039991--1040070 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
1039981 GCGTTGCGAT
*
1039991 TTTGGAAAATTGCAACGACAACTGTAGACTATCACAACGAA
1 TTTGGAAAATCGCAACGACAACTGTAGACTATCACAACGAA
* *
1040032 TTTGGAAAATCGCAACGAGAACTGTAGACTATCGCAACG
1 TTTGGAAAATCGCAACGACAACTGTAGACTATCACAACG
1040071 CGAACTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (41 bp):
TTTGGAAAATCGCAACGACAACTGTAGACTATCACAACGAA
Found at i:1040067 original size:22 final size:22
Alignment explanation
Indices: 1040002--1040077 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
1039992 TTGGAAAATT
*
1040002 GCAACGACAACTGTAGACTATC
1 GCAACGAGAACTGTAGACTATC
* * * **
1040024 ACAAC--GAA-TTTGGAAAATC
1 GCAACGAGAACTGTAGACTATC
1040043 GCAACGAGAACTGTAGACTATC
1 GCAACGAGAACTGTAGACTATC
*
1040065 GCAACGCGAACTG
1 GCAACGAGAACTG
1040078 AAAAATCGCA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 3 0.08
22 23 0.59
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (22 bp):
GCAACGAGAACTGTAGACTATC
Found at i:1040081 original size:41 final size:42
Alignment explanation
Indices: 1039993--1040235 Score: 150
Period size: 40 Copynumber: 6.0 Consensus size: 42
1039983 GTTGCGATTT
* * * *
1039993 TGGAAAATTGCAACGACAACTGTAGACTATCACAA--CGAATT
1 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAA-A
*
1040034 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAAC
1 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAAA
* * * ** *
1040076 TGAAAAATCGCAACGTGAAATG-A-AAAATCGCAACGTGAAA
1 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAAA
* * ** *
1040116 TGGAAAATCGCAAC--GAA-TTTGGAAAATCGCAACG-GCAAC
1 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCG-AAA
** * **
1040155 TGTAGACTATCGCAACGCGAACTG--GAAAATCGCAACGCGAAA
1 TG--GAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAAA
* **
1040197 TGGAAAATCGCAACGCGAACTG--GAAAATCGCAACGCGAA
1 TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAA
1040236 TTTGCGATAG
Statistics
Matches: 170, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 4 0.02
39 16 0.09
40 61 0.36
41 43 0.25
42 36 0.21
43 8 0.05
44 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (42 bp):
TGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAAA
Found at i:1040087 original size:20 final size:20
Alignment explanation
Indices: 1040034--1040235 Score: 212
Period size: 20 Copynumber: 9.9 Consensus size: 20
1040024 ACAACGAATT
*
1040034 TGGAAAATCGCAACGAGAAC
1 TGGAAAATCGCAACGCGAAC
**
1040054 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
* * *
1040076 TGAAAAATCGCAACGTGAAA
1 TGGAAAATCGCAACGCGAAC
* * *
1040096 TGAAAAATCGCAACGTGAAA
1 TGGAAAATCGCAACGCGAAC
*
1040116 TGGAAAATCGCAA--CGAATT
1 TGGAAAATCGCAACGCGAA-C
1040135 TGGAAAATCGCAACG-GCAAC
1 TGGAAAATCGCAACGCG-AAC
**
1040155 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
*
1040177 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
1040197 TGGAAAATCGCAACGCGAAC
1 TGGAAAATCGCAACGCGAAC
1040217 TGGAAAATCGCAACGCGAA
1 TGGAAAATCGCAACGCGAA
1040236 TTTGCGATAG
Statistics
Matches: 155, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.02
19 13 0.08
20 103 0.66
21 2 0.01
22 33 0.21
23 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:1040156 original size:101 final size:101
Alignment explanation
Indices: 1040025--1040231 Score: 353
Period size: 101 Copynumber: 2.0 Consensus size: 101
1040015 TAGACTATCA
1040025 CAACGAATTTGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAACTGAAAAATCGCAAC
1 CAACGAATTTGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAACTGAAAAATCGCAAC
* *
1040090 GTGAAATGAAAAATCGCAACGTGAAATGGAAAATCG
66 GCGAAATGAAAAATCGCAACGCGAAATGGAAAATCG
*
1040126 CAACGAATTTGGAAAATCGCAACG-GCAACTGTAGACTATCGCAACGCGAACTGGAAAATCGCAA
1 CAACGAATTTGGAAAATCGCAACGAG-AACTGTAGACTATCGCAACGCGAACTGAAAAATCGCAA
* *
1040190 CGCGAAATGGAAAATCGCAACGCGAACTGGAAAATCG
65 CGCGAAATGAAAAATCGCAACGCGAAATGGAAAATCG
1040227 CAACG
1 CAACG
1040232 CGAATTTGCG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 1 0.01
101 99 0.99
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (101 bp):
CAACGAATTTGGAAAATCGCAACGAGAACTGTAGACTATCGCAACGCGAACTGAAAAATCGCAAC
GCGAAATGAAAAATCGCAACGCGAAATGGAAAATCG
Found at i:1040186 original size:81 final size:81
Alignment explanation
Indices: 1040082--1040231 Score: 230
Period size: 81 Copynumber: 1.8 Consensus size: 81
1040072 GAACTGAAAA
* * *
1040082 ATCGCAACGTGAAATGAAAAATCGCAACGTGAAATGGAAAATCGCAA-CGAATTTGGAAAATCGC
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGAAATGGAAAATCGCAACCGAA-CTGGAAAATCGC
1040146 AACGGCAACTGTAGACT
65 AACGGCAACTGTAGACT
* *
1040163 ATCGCAACGCGAACTGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAACTGGAAAATCGC
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGAAATGGAAAATCGCAAC-CGAACTGGAAAATCGC
1040228 AACG
65 AACG
1040232 CGAATTTGCG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 43 0.69
82 15 0.24
83 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (81 bp):
ATCGCAACGCGAAATGAAAAATCGCAACGCGAAATGGAAAATCGCAACCGAACTGGAAAATCGCA
ACGGCAACTGTAGACT
Found at i:1040242 original size:28 final size:28
Alignment explanation
Indices: 1040211--1040265 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1040201 AAATCGCAAC
1040211 GCGA-ACTGGAAAATCGCAACGCGAATTT
1 GCGATACTGG-AAATCGCAACGCGAATTT
* * *
1040239 GCGATAGTGGAGATCGCAATGCGAATT
1 GCGATACTGGAAATCGCAACGCGAATT
1040266 AGAGATCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (28 bp):
GCGATACTGGAAATCGCAACGCGAATTT
Found at i:1041723 original size:2 final size:2
Alignment explanation
Indices: 1041716--1041744 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1041706 CCTTAATTTG
1041716 AT 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 AT A
1041745 GATGGGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
AT
Found at i:1047623 original size:29 final size:29
Alignment explanation
Indices: 1047579--1047635 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
1047569 TTTGCATGAG
*
1047579 CCATGCACGTCCAATGGGTAGATCGCCAT
1 CCATGCACGTCAAATGGGTAGATCGCCAT
*
1047608 CCATGCACGTCAAATGGGTAGGTCGCCA
1 CCATGCACGTCAAATGGGTAGATCGCCA
1047636 GTGTAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (29 bp):
CCATGCACGTCAAATGGGTAGATCGCCAT
Found at i:1048843 original size:20 final size:21
Alignment explanation
Indices: 1048818--1048857 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1048808 GTCGAGGGTT
1048818 TCATAGGTCCTTC-GGACAAC
1 TCATAGGTCCTTCGGGACAAC
1048838 TCATAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
1048858 ATTTCATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:1049352 original size:11 final size:11
Alignment explanation
Indices: 1049336--1049370 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1049326 TTTTTACGGA
1049336 AGTACTGTAGC
1 AGTACTGTAGC
*
1049347 AGTACTATAGC
1 AGTACTGTAGC
1049358 AGTACTGTAGC
1 AGTACTGTAGC
1049369 AG
1 AG
1049371 GGGAATCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (11 bp):
AGTACTGTAGC
Found at i:1050624 original size:30 final size:31
Alignment explanation
Indices: 1050570--1050629 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
1050560 TTTTAGTAGT
1050570 AAATTATAATTAAAAAATTATTTATTAGTTA
1 AAATTATAATTAAAAAATTATTTATTAGTTA
*
1050601 AAATTAT-ATTAAATAA-TAGTTTATTAGTT
1 AAATTATAATTAAAAAATTA-TTTATTAGTT
1050630 TAATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.07
30 18 0.67
31 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (31 bp):
AAATTATAATTAAAAAATTATTTATTAGTTA
Found at i:1050930 original size:22 final size:21
Alignment explanation
Indices: 1050880--1050943 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
1050870 AGTCGAGGGT
1050880 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
* *
1050901 CTCATAGGTCCTACGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
1050923 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
1050944 ATTTTATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:1051360 original size:25 final size:23
Alignment explanation
Indices: 1051319--1051367 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
1051309 CTGGTATGGT
*
1051319 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
1051344 AATGA-TATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
1051367 A
1 A
1051368 TGTCCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:1057207 original size:22 final size:21
Alignment explanation
Indices: 1057153--1057216 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
1057143 AGTCGAGGGT
1057153 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
1057174 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
1057196 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
1057217 ATTTCATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:1057731 original size:11 final size:11
Alignment explanation
Indices: 1057715--1057749 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1057705 TTTTTACGGA
1057715 AGTACTGTAGC
1 AGTACTGTAGC
1057726 AGTACTGTAGC
1 AGTACTGTAGC
*
1057737 AGTACTGCAGC
1 AGTACTGTAGC
1057748 AG
1 AG
1057750 GGGAATCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (11 bp):
AGTACTGTAGC
Found at i:1058491 original size:46 final size:46
Alignment explanation
Indices: 1058441--1058551 Score: 204
Period size: 46 Copynumber: 2.4 Consensus size: 46
1058431 ATTTTAAATT
*
1058441 ATTAGTTTGTTAGTTTATGGTTTAAGGTAAAACAAAAATTTAGTTA
1 ATTAGTTTGTTAGTTTAAGGTTTAAGGTAAAACAAAAATTTAGTTA
*
1058487 ATTAGTTTGTTAGTTTAAGGTTTAAGGTAAAACAAAATTTTAGTTA
1 ATTAGTTTGTTAGTTTAAGGTTTAAGGTAAAACAAAAATTTAGTTA
1058533 ATTAGTTTGTTAGTTTAAG
1 ATTAGTTTGTTAGTTTAAG
1058552 TTATATCATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (46 bp):
ATTAGTTTGTTAGTTTAAGGTTTAAGGTAAAACAAAAATTTAGTTA
Found at i:1058667 original size:44 final size:44
Alignment explanation
Indices: 1058596--1058680 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
1058586 GTTTGTTTGA
1058596 TAGTTATATATTAAAAAATAATTAATTAGTGTGTTAGTTAGTCGT
1 TAGTTATATATTAAAAAATAATTAATTAGTGTG-TAGTTAGTCGT
* *
1058641 TAGTTATATA-TAAAAAATATTTAATTAGTTTGTAGTTAGT
1 TAGTTATATATTAAAAAATAATTAATTAGTGTGTAGTTAGT
1058681 TAAATAGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 8 0.21
44 20 0.53
45 10 0.26
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (44 bp):
TAGTTATATATTAAAAAATAATTAATTAGTGTGTAGTTAGTCGT
Found at i:1058689 original size:44 final size:45
Alignment explanation
Indices: 1058595--1058690 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 45
1058585 AGTTTGTTTG
**
1058595 ATAGTTATATATTAAAAAATAATTAATTAGTGTGTTAGTTAGTCG
1 ATAGTTATATATTAAAAAATAATTAATTAGTGTGTTAGTTAGTAA
* * *
1058640 TTAGTTATATA-TAAAAAATATTTAATTAGTTTG-TAGTTAGTTAA
1 ATAGTTATATATTAAAAAATAATTAATTAGTGTGTTAGTTAG-TAA
1058684 ATAGTTA
1 ATAGTTA
1058691 AGTTATATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 7 0.16
44 27 0.61
45 10 0.23
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (45 bp):
ATAGTTATATATTAAAAAATAATTAATTAGTGTGTTAGTTAGTAA
Found at i:1058925 original size:21 final size:21
Alignment explanation
Indices: 1058900--1058939 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1058890 GTTAATTAGT
1058900 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
1058921 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
1058940 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:1059187 original size:30 final size:32
Alignment explanation
Indices: 1059115--1059192 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 32
1059105 AAATTTAGTT
* *
1059115 AATTAGTTTTTTAGTAGAAAATTATAATTAAAA
1 AATTAGTTTATTAGT-TAAAATTATAATTAAAA
*
1059148 AATTA-TTTATTAGTTAAAATTAT-ATTAAAT
1 AATTAGTTTATTAGTTAAAATTATAATTAAAA
1059178 AA-TAGTTTATTAGTT
1 AATTAGTTTATTAGTT
1059193 TAATATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.05
30 18 0.44
31 8 0.20
32 8 0.20
33 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AATTAGTTTATTAGTTAAAATTATAATTAAAA
Found at i:1061607 original size:35 final size:35
Alignment explanation
Indices: 1061512--1061650 Score: 126
Period size: 35 Copynumber: 3.9 Consensus size: 35
1061502 GTATCAAATC
* *
1061512 ATCATTATAATTTCATTATTAGTAATCATTAGTATCAA
1 ATCATTATAA--TCATTATTA-TAATCATTATTATCCA
*
1061550 ATCATTA-AAT-ATTAATAATAAATCATTATTATCCA
1 ATCATTATAATCATT-ATTAT-AATCATTATTATCCA
1061585 ATCATTACTAATCATTATTA-AATCATTATTAT-C-
1 ATCATTA-TAATCATTATTATAATCATTATTATCCA
* *
1061618 ATTATTATTAAATCATTATTATAATTATTATTA
1 ATCATTA-T-AATCATTATTATAATCATTATTA
1061651 CTAAATCATT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
33 7 0.08
34 16 0.18
35 46 0.53
37 8 0.09
38 10 0.11
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (35 bp):
ATCATTATAATCATTATTATAATCATTATTATCCA
Found at i:1061628 original size:23 final size:23
Alignment explanation
Indices: 1061588--1061676 Score: 115
Period size: 23 Copynumber: 3.7 Consensus size: 23
1061578 TTATCCAATC
*
1061588 ATTACTAATCATTATTAAATCATT
1 ATTA-TAATTATTATTAAATCATT
*
1061612 ATTATCATTATTATTAAATCATT
1 ATTATAATTATTATTAAATCATT
1061635 ATTATAATTATTATTACTAAATCATT
1 ATTATAATTATTA-T--TAAATCATT
*
1061661 ATTATAATGATTATTA
1 ATTATAATTATTATTA
1061677 TCAAATCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
23 31 0.53
24 5 0.09
25 1 0.02
26 21 0.36
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTATAATTATTATTAAATCATT
Done.