Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 90 of 444
Found at i:21481201 original size:138 final size:138
Alignment explanation
Indices: 21481050--21481489 Score: 451
Period size: 138 Copynumber: 3.2 Consensus size: 138
21481040 GACTGAAGCT
* * * * * * *
21481050 ACAAATCTCATCTCCCTGAAGTTACAATGGAGTAGATTGAAACAACAAATCTTATCTCCTTGAAG
1 ACAAAACTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
* * * *
21481115 TTGTAGTGGAGTAAGA-CAAAGCTACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAA
66 TTGCAGTGGAGT-AGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAA
* ** *
21481179 TTTATTATA
130 TCTACAACA
** * * ** * *
21481188 GTAAAACTTATCTCCTTCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATCCTATATCCCTGAA
1 ACAAAACTTATCTCCTTGAAGTTGCAGTGGAG-TAGATTGAAACTACAAATCTTATCTCCCTGAA
* **
21481252 GTTGCAGTGGA-TCAGATTAAAGCTACAATTCCTATACCCCTGAAGTTGT-GATGCATTAGAATG
65 GTTGCAGTGGAGT-AGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAG-TGGGTTAGAATG
21481315 AATCTACAACA
128 AATCTACAACA
* * * * * *
21481326 ACAAATCTTATCTCCTTGAAGTTGTAGTGAAGTAGATTGAATCTACAAATCTCATCTCCCTAAAG
1 ACAAAACTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
* *
21481391 TTGCAGTGGAGTAGATTGAAA-CTACAATTCCTATACCCCTGAAGTTGCAGTGGGTTAGAAT-AA
66 TTGCAGTGGAGTAGA-TCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAA
*
21481454 GGCTACAACA
130 -TCTACAACA
* *
21481464 ACAAATCTTATCTCTTTGAAGTTGCA
1 ACAAAACTTATCTCCTTGAAGTTGCA
21481490 ATAGAGCAAG
Statistics
Matches: 247, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
137 10 0.04
138 228 0.92
139 9 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (138 bp):
ACAAAACTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGTAGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAAT
CTACAACA
Found at i:21481298 original size:182 final size:182
Alignment explanation
Indices: 21480884--21481300 Score: 409
Period size: 182 Copynumber: 2.3 Consensus size: 182
21480874 CTTATCTCTT
* * * * *
21480884 TGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATTAGA
1 TGAAGTTGCAGTGGATC-AGATTAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGATAAGA
* * * * * *
21480948 TTAAAGATACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACAACAAATC
65 TCAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAAAAC
* * * *
21481013 TTATCTCTCTGAAGTTGTAGTGGAGTAGACTGAAGCTACAAATCTCATCTCCC
130 TTATCTCTCTCAAGTTGCAGTGGAGGAGACTGAAGCTACAAATCTCATATCCC
* * * * *
21481066 TGAAGTTACAATGGAGT-AGATTGAAA-CAACAAATCTTAT-CTCCTTGAAGTTGTAGTGGAGTA
1 TGAAGTTGCAGTGGA-TCAGATT-AAAGCTACAAATCCTATAC-CCCTGAAGTTGTAGTGGA-TA
* * * * ** ** * **
21481128 AGA-CAAAGCTACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAATTTATTATAGTAA
62 AGATCAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAA
*
21481192 AACTTATCTC-CTTCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATC-CTATATCCC
127 AACTTATCTCTC-TCAAGTTGCAGTGGAG-GAGACTGAAGCTACAAATCTC-ATATCCC
*
21481248 TGAAGTTGCAGTGGATCAGATTAAAGCTACAATTCCTATACCCCTGAAGTTGT
1 TGAAGTTGCAGTGGATCAGATTAAAGCTACAAATCCTATACCCCTGAAGTTGT
21481301 GATGCATTAG
Statistics
Matches: 186, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
181 9 0.05
182 167 0.90
183 10 0.05
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (182 bp):
TGAAGTTGCAGTGGATCAGATTAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGATAAGAT
CAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAAAACT
TATCTCTCTCAAGTTGCAGTGGAGGAGACTGAAGCTACAAATCTCATATCCC
Found at i:21481461 original size:320 final size:320
Alignment explanation
Indices: 21480818--21481443 Score: 950
Period size: 320 Copynumber: 2.0 Consensus size: 320
21480808 CAGTGAAACC
* * *
21480818 ACAATTCCTATACTCCTGAAATTACAGTGGGTTAGATTGAATTTATTATAGCAAATCTTATCTCT
1 ACAATTCCTATACCCCTGAAATTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* *
21480883 TTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATTAGA
66 TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * * **
21480948 TTAAAGATACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGATGCATTAGAATGAAGCTACAACAACAAATC
* *
21481013 TTATCTCTCTGAAGTTGTAGTGGAGTAGACTGAAGCTACAAATCTCATCTCCCTGAAGTTACAAT
196 TTATCTCTCTGAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
* * *
21481078 GGAGTAGATTGAAACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGACAAAGCT
261 GGAGTAGATTGAAACAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAAGACAAAGCT
* * * *
21481138 ACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAATTTATTATAGTAAAACTTATCTCC
1 ACAATTCCTATACCCCTGAAATTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* *
21481203 TTCAAGTTGCAGTGGAGCGAGATGAAGTTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
66 TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * *
21481268 TTAAAGCTACAATTCCTATACCCCTGAAGTTGTGATGCATTAGAATGAATCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGATGCATTAGAATGAAGCTACAACAACAAATC
* * * *
21481333 TTATCTC-CTTGAAGTTGTAGTGAAGTAGATTGAATCTACAAATCTCATCTCCCTAAAGTTGCAG
196 TTATCTCTC-TGAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAA
* *
21481397 TGGAGTAGATTGAAACTACAATTCCTATAC-CCCTGAAGTTGCAGTGG
260 TGGAGTAGATTGAAACAACAAATCCTAT-CTCCCTGAAGTTGCAGTGG
21481444 GTTAGAATAA
Statistics
Matches: 274, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
319 1 0.00
320 272 0.99
321 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (320 bp):
ACAATTCCTATACCCCTGAAATTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
TTAAAGATACAATTCCTATACCCCTGAAGTTGGGATGCATTAGAATGAAGCTACAACAACAAATC
TTATCTCTCTGAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
GGAGTAGATTGAAACAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAAGACAAAGCT
Found at i:21481742 original size:4 final size:4
Alignment explanation
Indices: 21481733--21481759 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
21481723 AACAGAAACC
21481733 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
21481760 AGTCCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:21483164 original size:3 final size:3
Alignment explanation
Indices: 21483158--21483189 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21483148 TTTTTTGCTT
21483158 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21483190 CACATTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21484449 original size:16 final size:17
Alignment explanation
Indices: 21484430--21484463 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21484420 ATAAAATCAA
21484430 TTAA-AAATTAATATTT
1 TTAATAAATTAATATTT
*
21484446 TTAATAATTTAATATTT
1 TTAATAAATTAATATTT
21484463 T
1 T
21484464 ACACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATAAATTAATATTT
Found at i:21492523 original size:40 final size:39
Alignment explanation
Indices: 21492479--21492573 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
21492469 TATCATAGAT
*
21492479 GGTACCATTAGGAGTTGTACCATGGATGC-TACCATGGAAG
1 GGTACCATTAGGAGTTGTAACATGG--GCATACCATGGAAG
* * * *
21492519 GGTACCATTAAGAATTGTAACATGGGCAATACCGTGGAGG
1 GGTACCATTAGGAGTTGTAACATGGGC-ATACCATGGAAG
21492559 GGTACCATTAGGAGT
1 GGTACCATTAGGAGT
21492574 CATATCATGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.04
40 44 0.96
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (39 bp):
GGTACCATTAGGAGTTGTAACATGGGCATACCATGGAAG
Found at i:21493212 original size:67 final size:62
Alignment explanation
Indices: 21493106--21493235 Score: 163
Period size: 67 Copynumber: 2.0 Consensus size: 62
21493096 AATATTAAAT
* *
21493106 TAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATA
1 TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAA-C-TACTAAAATAATA
* *
21493170 TAATATAATGTTTATCTACAAGATAAACATTTA-ATTTAATTTAATATTAAACTACTAAAATAAT
1 TAATATAATATTTA--T-CAAGATAAACA-TTAGATTAAATTTAATATTAAACTACTAAAATAAT
21493234 A
62 A
21493235 T
1 T
21493236 TATTTTTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
64 13 0.22
65 13 0.22
66 2 0.03
67 27 0.47
68 3 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (62 bp):
TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAACTACTAAAATAATA
Found at i:21496900 original size:42 final size:46
Alignment explanation
Indices: 21496835--21496937 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
21496825 ACTAATTATG
* *
21496835 GGCACTTGGTGTGC-AGAATCGAGATA-ATTT-C-AGATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAGATTTACTAGATATATATT
* *
21496877 GGCACTTAGTGTGCGAG-ACCGAGATAGTTTTAGCTATATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAGATTTA-CTAGATATATATT
*
21496923 GGTACTTAGTGTGCG
1 GGCACTTAGTGTGCG
21496938 TGATTGAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 21 0.41
43 5 0.10
45 1 0.02
46 24 0.47
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (46 bp):
GGCACTTAGTGTGCGAGAACCGAGATAGATTTACTAGATATATATT
Found at i:21496960 original size:46 final size:46
Alignment explanation
Indices: 21496868--21496967 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 46
21496858 ATAATTTCAG
***
21496868 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTTTTAGCTAT
1 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTCCGAGCTAT
* * **
21496914 ATATATATTGGTACTTAGTGTGCGTGATTGAGATAGCTCCGA-CTAT
1 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAG-TCCGAGCTAT
*
21496960 ATAAATAT
1 ATATATAT
21496968 ATATATATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (46 bp):
ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTCCGAGCTAT
Found at i:21497218 original size:24 final size:24
Alignment explanation
Indices: 21497191--21497239 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
21497181 CTGGTGAATG
21497191 AAATTGTAATAAGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
*
21497215 AAATTGTAATAGGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
21497239 A
1 A
21497240 TATATGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
AAATTGTAATAAGATGATGATTCC
Found at i:21498904 original size:40 final size:39
Alignment explanation
Indices: 21498860--21498948 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
21498850 AGTTGTGTCG
21498860 TGGATGGTACTATAAAAGGGTACCATTAGGAGACATACCA
1 TGGATGGTAC-ATAAAAGGGTACCATTAGGAGACATACCA
* ** * *
21498900 TGGATGGTACGTGGAGGGGTACCATTAGGAGCCATACCA
1 TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
*
21498939 AGGATAGGTA
1 TGGAT-GGTA
21498949 TTGTAACGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.67
40 14 0.33
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (39 bp):
TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
Found at i:21500522 original size:17 final size:18
Alignment explanation
Indices: 21500509--21500633 Score: 91
Period size: 19 Copynumber: 6.9 Consensus size: 18
21500499 TAATCTTCAA
21500509 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
21500528 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
21500545 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
21500564 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
21500580 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
* *
21500599 TGAT-TGCAATATTAGATA
1 TGATATGCAATCTTAGA-G
*
21500617 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
21500634 AGATATGATT
Statistics
Matches: 89, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.27
18 27 0.30
19 29 0.33
20 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:21500578 original size:35 final size:35
Alignment explanation
Indices: 21500516--21500633 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
21500506 CAATGATATG
*
21500516 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
21500552 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
21500587 CAATCTTAGATATGATTGCAATATTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
21500624 CAATCTTAGA
1 CAATCTTAGA
21500634 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:21501926 original size:25 final size:26
Alignment explanation
Indices: 21501881--21502003 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
21501871 CCTCTTTAAT
*
21501881 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
21501906 AACTGGGACATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
21501932 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
21501957 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
21501983 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21502004 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
25 32 0.37
26 55 0.63
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:21501962 original size:51 final size:51
Alignment explanation
Indices: 21501881--21502003 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
21501871 CCTCTTTAAT
*
21501881 AACTGGGGCAAAGCCCTTTTTAATAAACTGGGACATAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGACATAAGCCCTTTTCGATA
* * *
21501932 AACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGACATAAGCCCTTTTCGATA
21501983 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
21502004 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 56 0.85
52 10 0.15
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGACATAAGCCCTTTTCGATA
Found at i:21502078 original size:20 final size:20
Alignment explanation
Indices: 21502053--21502147 Score: 151
Period size: 20 Copynumber: 4.8 Consensus size: 20
21502043 TTATGAATTC
*
21502053 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
21502073 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21502093 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21502113 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
21502133 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
21502148 TCCCACGTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
18 8 0.11
20 63 0.86
21 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21502084 original size:11 final size:11
Alignment explanation
Indices: 21502053--21502128 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
21502043 TTATGAATTC
21502053 ATCATGTGCAT
1 ATCATGTGCAT
* *
21502064 TTCA--TACAT
1 ATCATGTGCAT
21502073 ATCATGTGCAT
1 ATCATGTGCAT
*
21502084 ATCA--TACAT
1 ATCATGTGCAT
21502093 ATCATGTGCAT
1 ATCATGTGCAT
*
21502104 ATCA--TACAT
1 ATCATGTGCAT
21502113 ATCATGTGCAT
1 ATCATGTGCAT
21502124 ATCAT
1 ATCAT
21502129 ATCAATCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:21502093 original size:9 final size:9
Alignment explanation
Indices: 21502065--21502117 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
21502055 CATGTGCATT
21502065 TCATACATA
1 TCATACATA
*
21502074 TCATGTGCATA
1 TCA--TACATA
21502085 TCATACATA
1 TCATACATA
*
21502094 TCATGTGCATA
1 TCA--TACATA
21502105 TCATACATA
1 TCATACATA
21502114 TCAT
1 TCAT
21502118 GTGCATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATACATA
Found at i:21507519 original size:27 final size:27
Alignment explanation
Indices: 21507489--21507694 Score: 144
Period size: 27 Copynumber: 7.6 Consensus size: 27
21507479 CAAATTGTAA
*
21507489 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
** *
21507516 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
***
21507543 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** *
21507570 AATTACTGTTTTACCCTTGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
21507597 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * * * *
21507624 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * *
21507651 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
21507678 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
21507695 AGTCTGTAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 154 0.99
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:21507639 original size:54 final size:54
Alignment explanation
Indices: 21507500--21507657 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
21507490 ATTACCAAAG
* *
21507500 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
* * *
21507554 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
* * *** * *
21507608 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACC
21507658 AAAATACCCT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
Found at i:21507666 original size:54 final size:54
Alignment explanation
Indices: 21507608--21507926 Score: 243
Period size: 54 Copynumber: 5.9 Consensus size: 54
21507598 ATTACTGTTT
** *
21507608 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
** * * ** * *
21507662 TACCCTCGATCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * *** **
21507715 TACCC-CTGGTTTGTAAACTTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * *
21507769 TACCC-CTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTC-AAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAAATTACCAAAA
* * * *
21507823 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAA
* * * *** *
21507877 TACCATTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTGGTTTACAAAATTA
21507927 TTGAAATACG
Statistics
Matches: 206, Mismatches: 50, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
52 1 0.00
53 42 0.20
54 130 0.63
55 6 0.03
56 27 0.13
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:21507666 original size:81 final size:81
Alignment explanation
Indices: 21507487--21507671 Score: 199
Period size: 81 Copynumber: 2.3 Consensus size: 81
21507477 CTCAAATTGT
* * **
21507487 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAA
** *
21507552 TTTACCCTCGATTTAT
66 AATACCCTCGATTTAC
* ***** * ** *
21507568 AGAATTACTGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAA
* *
21507633 AATACCCTTGGTTTAC
66 AATACCCTCGATTTAC
21507649 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCCTCGAT
21507672 CAGTAAAATT
Statistics
Matches: 79, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCAA
AATACCCTCGATTTAC
Found at i:21507729 original size:27 final size:27
Alignment explanation
Indices: 21507622--21507857 Score: 219
Period size: 27 Copynumber: 8.8 Consensus size: 27
21507612 CTCGATTTAC
* * **
21507622 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
21507649 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
21507676 AAAATTACCAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
21507702 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
21507729 AAACTTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
21507756 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
21507783 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
21507810 CAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
21507837 AAAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
21507858 ATTTACAAAG
Statistics
Matches: 168, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 26 0.15
27 134 0.80
28 8 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:21507871 original size:27 final size:27
Alignment explanation
Indices: 21507610--21507880 Score: 122
Period size: 27 Copynumber: 10.0 Consensus size: 27
21507600 TACTGTTTTA
*
21507610 CCCTCGATTTACAAAATTACTAAAATA-
1 CCCTCGATTTAC-AAATTACCAAAATAC
* *
21507637 CCCTTGGTTTACAAAATTACCAAAATA-
1 CCCTCGATTTAC-AAATTACCAAAATAC
*
21507664 CCCTCGATCAGTA-AAATTACCAAAATA-
1 CCCTCGAT--TTACAAATTACCAAAATAC
* * *
21507691 CCCTAG-TCTGTA-AAATTGCTAAAATAC
1 CCCTCGAT-T-TACAAATTACCAAAATAC
* * * *
21507718 CCCTGGTTTGTA-AACTTACCGAAATA-
1 CCCTCGATT-TACAAATTACCAAAATAC
*
21507744 CCCTCAATTTGTA-AAATTACCAAAATAC
1 CCCTCGA-TT-TACAAATTACCAAAATAC
* *
21507772 CCCTAGTTTGTA-AAATTACCAAAATA-
1 CCCTCGATT-TACAAATTACCAAAATAC
* * * * *
21507798 CCATTGGTTTGTCAAATTACCGAAATA-
1 CCCTCGATTT-ACAAATTACCAAAATAC
*
21507825 CCCTCAATTTGTA-AAATTACCAAAATAC
1 CCCTCGA-TT-TACAAATTACCAAAATAC
21507853 CCCT-GATTTACAAAGTTA-CAGAAATAC
1 CCCTCGATTTACAAA-TTACCA-AAATAC
21507880 C
1 C
21507881 ATTGACTTTC
Statistics
Matches: 193, Mismatches: 36, Indels: 30
0.75 0.14 0.12
Matches are distributed among these distances:
25 3 0.02
26 32 0.17
27 144 0.75
28 11 0.06
29 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
CCCTCGATTTACAAATTACCAAAATAC
Found at i:21507881 original size:81 final size:81
Alignment explanation
Indices: 21507622--21507884 Score: 324
Period size: 81 Copynumber: 3.3 Consensus size: 81
21507612 CTCGATTTAC
* * * * **
21507622 AAAATTACTAAAATACCCTTGGTTT-ACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCATTGGTTTGTC-AAATTACCGAAATACCCTCAATTTGTAAAATTACCA
21507686 AAATA-CCCTAG-TCTGT
65 AAATACCCCTAGAT-TGT
* **
21507702 AAAATTGCTAAAATACCCCTGGTTTGT-AAACTTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACCATTGGTTTGTCAAA-TTACCGAAATACCCTCAATTTGTAAAATTACCA
*
21507766 AAATACCCCTAGTTTGT
65 AAATACCCCTAGATTGT
*
21507783 AAAATTACCAAAATACCATTGGTTTGTCAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCATTGGTTTGTCAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
21507848 AATACCCCT-GATT-T
66 AATACCCCTAGATTGT
21507862 ACAAAGTTAC-AGAAATACCATTG
1 A-AAA-TTACTA-AAATACCATTG
21507885 ACTTTCTAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
79 5 0.03
80 64 0.39
81 90 0.55
82 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCATTGGTTTGTCAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGATTGT
Found at i:21507932 original size:27 final size:27
Alignment explanation
Indices: 21507893--21507944 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
21507883 TGACTTTCTA
21507893 AAAATTATGGAAATAC-CATTGGTTTAC
1 AAAATTATGGAAATACGC-TTGGTTTAC
*
21507920 AAAATTATTGAAATACGCTTGGTTT
1 AAAATTATGGAAATACGCTTGGTTT
21507945 GTAGATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACGCTTGGTTTAC
Found at i:21508041 original size:27 final size:27
Alignment explanation
Indices: 21508011--21508111 Score: 159
Period size: 27 Copynumber: 3.7 Consensus size: 27
21508001 AAAAAGACTA
* *
21508011 TAAAGCCCCTATAGGGTAAAGTGATCG
1 TAAAGCCCCTGTAGGGTAAAGTGACCG
21508038 TAAAGCCCCTGTAGGGTAAAGTGACCG
1 TAAAGCCCCTGTAGGGTAAAGTGACCG
21508065 TAAAGCCCCTGTAGGGTAAAGTGACCG
1 TAAAGCCCCTGTAGGGTAAAGTGACCG
*
21508092 TAATA-CCCCTGTATGGTAAA
1 TAA-AGCCCCTGTAGGGTAAA
21508112 ATGATGAATA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (27 bp):
TAAAGCCCCTGTAGGGTAAAGTGACCG
Found at i:21508468 original size:20 final size:20
Alignment explanation
Indices: 21508443--21508490 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
21508433 GTTGGGCCTT
21508443 AATGGGCTGAAATTGGGCCC
1 AATGGGCTGAAATTGGGCCC
21508463 AATGGGCTGAAATTGGGCCC
1 AATGGGCTGAAATTGGGCCC
21508483 AATGGGCT
1 AATGGGCT
21508491 TTTGGACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (20 bp):
AATGGGCTGAAATTGGGCCC
Found at i:21508968 original size:26 final size:26
Alignment explanation
Indices: 21508939--21509113 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
21508929 GAGGAAGTGC
**
21508939 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21508965 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
21508991 GAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
21509017 AAAAAGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21509043 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21509069 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21509094 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21509114 ATTAAAGAGG
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 30 0.23
26 100 0.77
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21509018 original size:52 final size:52
Alignment explanation
Indices: 21508939--21509113 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
21508929 GAGGAAGTGC
21508939 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* * *
21508991 GAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21509043 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21509094 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21509114 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 22 0.19
52 83 0.72
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21509323 original size:42 final size:42
Alignment explanation
Indices: 21509258--21509349 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
21509248 TAGTCTCCCC
* * ** *
21509258 AAATGGGCTTGCATAGATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
21509300 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
21509342 AAATGGGC
1 AAATGGGC
21509350 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:21509409 original size:29 final size:29
Alignment explanation
Indices: 21509372--21509445 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
21509362 CCGTTTACAG
* *
21509372 TAAAGGCTTCGGCCCAATGATATGATTTA
1 TAAAAGCTTCGGCCCAATAATATGATTTA
*
21509401 TAAAAGCTTTGGCCCAATAATATGATTTA
1 TAAAAGCTTCGGCCCAATAATATGATTTA
21509430 TGAAAAGGCTTCGGCC
1 T-AAAA-GCTTCGGCC
21509446 TAGTAACCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 27 0.69
30 4 0.10
31 8 0.21
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (29 bp):
TAAAAGCTTCGGCCCAATAATATGATTTA
Found at i:21511731 original size:27 final size:27
Alignment explanation
Indices: 21511712--21511830 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
21511702 ATTACCAAAG
21511712 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
21511739 TACCATCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
21511766 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
21511793 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
21511820 CACCCTCGATT
1 TACCCTCGATT
21511831 ACAAAATTAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:21511850 original size:26 final size:26
Alignment explanation
Indices: 21511821--21512064 Score: 114
Period size: 27 Copynumber: 9.1 Consensus size: 26
21511811 TTACTGTTTC
*
21511821 ACCCTCGATTACAAAATTACTAAAAT
1 ACCCTCGATTATAAAATTACTAAAAT
* *
21511847 ACCCTCGATCAATAAAATTACCAAAAT
1 ACCCTCGAT-TATAAAATTACTAAAAT
* * * *
21511874 ACCTTAGTTTGTAAAATTACTAAAAT
1 ACCCTCGATTATAAAATTACTAAAAT
* * * **
21511900 ACCCCTGGTTTGTAAAATTACCGAAAT
1 A-CCCTCGATTATAAAATTACTAAAAT
** * * *
21511927 ACCCTTAATTTGTGAAATTACCAAAAT
1 ACCCTCGA-TTATAAAATTACTAAAAT
* * * *
21511954 ACCCCTAGTTTGTAAAATTACCAAAAT
1 A-CCCTCGATTATAAAATTACTAAAAT
* * * * *
21511981 ACCACTGGTTTGTGAAATTACTGAAAT
1 ACC-CTCGATTATAAAATTACTAAAAT
** * *
21512008 ACCCTTAATTTGTAAAATTACCAAAAT
1 ACCCTCGA-TTATAAAATTACTAAAAT
*
21512035 ACCC-CTGATTTATAAAGTTAC-AGAAAT
1 ACCCTC-GA-TTATAAAATTACTA-AAAT
21512062 ACC
1 ACC
21512065 TTTGACTTTC
Statistics
Matches: 174, Mismatches: 36, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
26 33 0.19
27 137 0.79
28 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
ACCCTCGATTATAAAATTACTAAAAT
Found at i:21511918 original size:27 final size:27
Alignment explanation
Indices: 21511859--21512151 Score: 241
Period size: 27 Copynumber: 10.8 Consensus size: 27
21511849 CCTCGATCAA
*
21511859 TAAAATTACCAAAATA-CCTTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* *
21511885 TAAAATTACTAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* **
21511912 TAAAATTACCGAAATACCCTTAATTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * *
21511939 TGAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
21511966 TAAAATTACCAAAATACCAC-TGGTTTG
1 TAAAATTACCAAAATACC-CTTGGTTTG
* ** **
21511993 TGAAATTACTGAAATACCCTTAATTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * *
21512020 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCTTGGTTTG
* * * *
21512047 TAAAGTTA-CAGAAATACCTTTGACTTTC
1 TAAAATTACCA-AAATACCCTTG-GTTTG
*** * *
21512075 TAAAAATTATGGAAATACCATTGGTTTA
1 T-AAAATTACCAAAATACCCTTGGTTTG
* **
21512103 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * *
21512130 TAGATTTACCAAAACACCCTTG
1 TAAAATTACCAAAATACCCTTG
21512152 TAGGATGAAA
Statistics
Matches: 213, Mismatches: 47, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 18 0.08
27 171 0.80
28 8 0.04
29 16 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGGTTTG
Found at i:21511993 original size:81 final size:81
Alignment explanation
Indices: 21511859--21512040 Score: 303
Period size: 81 Copynumber: 2.3 Consensus size: 81
21511849 CCTCGATCAA
* * *
21511859 TAAAATTACCAAAATA-CCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCG
21511923 AAATACCCTTAATTTG
66 AAATACCCTTAATTTG
* * *
21511939 TGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCG
21512004 AAATACCCTTAATTTG
66 AAATACCCTTAATTTG
21512020 TAAAATTACCAAAATACCCCT
1 TAAAATTACCAAAATACCCCT
21512041 GATTTATAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 15 0.16
81 79 0.84
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCG
AAATACCCTTAATTTG
Found at i:21512062 original size:81 final size:80
Alignment explanation
Indices: 21511859--21512064 Score: 299
Period size: 81 Copynumber: 2.5 Consensus size: 80
21511849 CCTCGATCAA
* *
21511859 TAAAATTACCAAAATA-CCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTAC-AAAATACCACTGGTTTGTAAAATTACCG
21511923 AAATACCCTTAATTTG
65 AAATACCCTTAATTTG
* * *
21511939 TGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTG
1 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CAAAATACCACTGGTTTGTAAAATTACCG
21512004 AAATACCCTTAATTTG
65 AAATACCCTTAATTTG
* *
21512020 TAAAATTACCAAAATACCCCT-GATTTATAAAGTTACAGAAATACC
1 TAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACA-AAATACC
21512065 TTTGACTTTC
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
80 18 0.16
81 95 0.83
82 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAATACCACTGGTTTGTAAAATTACCGA
AATACCCTTAATTTG
Found at i:21512212 original size:27 final size:27
Alignment explanation
Indices: 21512182--21512273 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
21512172 ACCCCTATTA
*
21512182 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
21512209 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
21512236 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
21512263 GGTAAAATGAC
1 GGTAAAATGAC
21512274 GAATATGCCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:21513102 original size:26 final size:26
Alignment explanation
Indices: 21513073--21513246 Score: 230
Period size: 26 Copynumber: 6.8 Consensus size: 26
21513063 GAGGAAGTGC
**
21513073 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21513099 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
21513125 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21513151 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21513177 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21513203 AAAAAGGCTTTAT---CCAGTTTACCG
1 AAAAGGGC-TTATGCCCCAGTTTACCG
*
21513227 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
21513247 ATTAAAGAGG
Statistics
Matches: 129, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 16 0.12
25 5 0.04
26 101 0.78
27 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21513151 original size:52 final size:52
Alignment explanation
Indices: 21513073--21513246 Score: 284
Period size: 52 Copynumber: 3.4 Consensus size: 52
21513063 GAGGAAGTGC
21513073 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21513125 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21513177 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGCTTTAT---CCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGC-TTATGCCCCAGTTTACCG
*
21513227 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
21513247 ATTAAAGAGG
Statistics
Matches: 117, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
49 9 0.08
50 21 0.18
52 83 0.71
53 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21513450 original size:42 final size:42
Alignment explanation
Indices: 21513391--21513482 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
21513381 TAGTCTCCCC
* * ** * *
21513391 AAATGAGCTTGCATACATTCATTGGTATTTCATGTGCTATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21513433 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21513475 AAATGGGC
1 AAATGGGC
21513483 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21513544 original size:31 final size:31
Alignment explanation
Indices: 21513506--21513584 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
21513496 CGTTTACAGT
*
21513506 AAAGGCTTCGGACTAATGATATGATTTATGA
1 AAAGGCTTCGGACCAATGATATGATTTATGA
* * *
21513537 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGACCAATGATATGATTTATGA
* *
21513568 AAAGGCTTTGGCCCAAT
1 AAAGGCTTCGGACCAAT
21513585 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGACCAATGATATGATTTATGA
Found at i:21517856 original size:51 final size:51
Alignment explanation
Indices: 21517782--21517919 Score: 235
Period size: 51 Copynumber: 2.7 Consensus size: 51
21517772 GCCTAGCCTC
*
21517782 TTTAAT-AACTGGGGCA-AAGCCCTTTTCTGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
*
21517831 TTTAATAAACTGGGACATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
*
21517882 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTG
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTG
21517920 AGGTATAAGC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
49 6 0.07
50 9 0.11
51 68 0.82
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (51 bp):
TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
Found at i:21517927 original size:26 final size:26
Alignment explanation
Indices: 21517788--21517932 Score: 188
Period size: 25 Copynumber: 5.7 Consensus size: 26
21517778 CCTCTTTAAT
*
21517788 AACTGGGGCA-AAGCCCTTTTCTGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
21517813 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
21517838 AACTGGGACATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
21517864 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
21517889 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
21517915 AACTGAGGTATAAGCCCT
1 AACTGGGGCATAAGCCCT
21517933 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
25 54 0.52
26 50 0.48
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:21518011 original size:20 final size:20
Alignment explanation
Indices: 21517982--21518038 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
21517972 TTATGAATTC
* *
21517982 ATCATTTGCATTTCA-ATCA
1 ATCATGTGCATATCATATCA
21518001 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
21518022 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
21518039 CCACGTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 20 0.59
21 4 0.12
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:21518034 original size:18 final size:20
Alignment explanation
Indices: 21517997--21518038 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
21517987 TTGCATTTCA
21517997 ATCATATCATGTGCATATCAT
1 ATCATATCATGT-CATATCAT
21518018 ATCA-ATCATGT-ATATCAT
1 ATCATATCATGTCATATCAT
21518036 ATC
1 ATC
21518039 CCACGTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (20 bp):
ATCATATCATGTCATATCAT
Found at i:21520486 original size:13 final size:13
Alignment explanation
Indices: 21520468--21520492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21520458 ATTTTTTTTA
21520468 CATATGTTTGTTG
1 CATATGTTTGTTG
21520481 CATATGTTTGTT
1 CATATGTTTGTT
21520493 ATTGTTTACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
CATATGTTTGTTG
Found at i:21523691 original size:10 final size:10
Alignment explanation
Indices: 21523676--21523701 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21523666 TCCATTTCAA
21523676 AAAAAAAAAG
1 AAAAAAAAAG
21523686 AAAAAAAAAG
1 AAAAAAAAAG
21523696 AAAAAA
1 AAAAAA
21523702 GATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:21525203 original size:18 final size:19
Alignment explanation
Indices: 21525180--21525228 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
21525170 ACTTTTATTC
*
21525180 AAAAAATAAAAAAA-AGGA
1 AAAAAATAAAAAAAGAGAA
21525198 AAAAAATAAAAAAAGAGAA
1 AAAAAATAAAAAAAGAGAA
21525217 AAAAAATAAAAA
1 AAAAAATAAAAA
21525229 GAAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (19 bp):
AAAAAATAAAAAAAGAGAA
Found at i:21525236 original size:18 final size:18
Alignment explanation
Indices: 21525180--21525237 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
21525170 ACTTTTATTC
*
21525180 AAAAAATAAAAAAAAGGA
1 AAAAAATAAAAAAAAGAA
21525198 AAAAAATAAAAAAAGAGAA
1 AAAAAATAAAAAAA-AGAA
21525217 AAAAAATAAAAAGAAA-AA
1 AAAAAATAAAAA-AAAGAA
21525235 AAA
1 AAA
21525238 GAAAAAATGG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 19 0.51
19 16 0.43
20 2 0.05
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAAAATAAAAAAAAGAA
Found at i:21525238 original size:9 final size:9
Alignment explanation
Indices: 21525180--21525244 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 9
21525170 ACTTTTATTC
*
21525180 AAAAAATAA
1 AAAAAAGAA
*
21525189 AAAAAAGGA
1 AAAAAAGAA
*
21525198 AAAAAA-TA
1 AAAAAAGAA
*
21525206 AAAAAAGAG
1 AAAAAAGAA
21525215 AAAAAA-AA
1 AAAAAAGAA
*
21525223 TAAAAAGAA
1 AAAAAAGAA
21525232 AAAAAAGAA
1 AAAAAAGAA
21525241 AAAA
1 AAAA
21525245 TGGAGAGCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 13 0.28
9 33 0.72
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:21526228 original size:43 final size:41
Alignment explanation
Indices: 21526180--21526306 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 41
21526170 TTGAAAATTA
21526180 CAAAATTCAGTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
1 CAAAATT--GTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
* *
21526223 CAAAATTGTGGATCTT-ATCTCCCTAAGCAGTAGTGG-AACAGAT
1 CAAAATTGT-G-CCTTAATC-CCCTAAGCAGTAG-GGTAACAGGT
* * * *
21526266 CGAAGA-TGCGCCTTAACCCCCTAAGCAGTAGGATAACAGGT
1 C-AAAATTGTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
21526307 TAAAGTATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
40 1 0.01
41 24 0.35
42 7 0.10
43 32 0.46
44 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
CAAAATTGTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
Found at i:21526788 original size:207 final size:207
Alignment explanation
Indices: 21526433--21527356 Score: 1499
Period size: 207 Copynumber: 4.5 Consensus size: 207
21526423 GACGGAGAGT
* ** *
21526433 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGACGAAGCAAATCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* * *
21526498 CATCTTTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACAC
66 CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACAC
21526563 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
131 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
21526628 CTTACAAGGAAC
196 CTTACAAGGAAC
* * *
21526640 AAATCGAAGACGTAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAGCCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* *
21526705 CATCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCCCCATATTCGACGGAGGGCAGACAC
66 CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACAC
21526770 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
131 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
21526835 CTTACAAGGAAC
196 CTTACAAGGAAC
* *
21526847 AAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGCAAGTCTAAGATTATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* * *
21526912 CATCTTTATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAAACGGAGGGCAGACA
66 CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTC-GACGGAGGGCAGACA
*
21526977 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGC
130 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
21527042 GCTTACAAGGAAC
195 GCTTACAAGGAAC
* *
21527055 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTCTATGTTGAAGCAAGTCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* * *
21527120 CATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACAT
66 CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACAC
** * * * * *
21527185 ATAGCAGATCTAACCTTTAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCTTTGTG
131 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
*
21527249 CTTACAAGGAGC
196 CTTACAAGGAAC
* * * *
21527261 AAATCGAAGACATAGCTAATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* *
21527326 CATCTCTGTATTGTCAGGGAACAAATTGAAG
66 CATCTCTGTATTGTCAGAGAACAAATCGAAG
21527357 AAGCAGATTT
Statistics
Matches: 665, Mismatches: 51, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
206 123 0.18
207 344 0.52
208 198 0.30
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACAC
ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGGAAC
Found at i:21527269 original size:414 final size:414
Alignment explanation
Indices: 21526433--21527356 Score: 1535
Period size: 415 Copynumber: 2.2 Consensus size: 414
21526423 GACGGAGAGT
* *
21526433 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGACGAAGCAAATCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
* * *
21526498 CATCTTTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGTAGACAC
66 CATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACAC
*
21526563 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
131 ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGCG
* *
21526628 CTTACAAGGAACAAATCGAAGACGTAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAGCCT
196 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTCTATGTTGAAGCAAGCCT
**
21526693 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCCCCATATTCGACG
261 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCCCCATATTCGACG
* ** * *
21526758 GAGGGCAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTT
326 GAGGACAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTTT
21526823 GGCATCCTTGTGCTTACAAGGAAC
391 GGCATCCTTGTGCTTACAAGGAAC
* * * *
21526847 AAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGCAAGTCTAAGATTATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
*
21526912 CATCTTTATATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAAACGGAGGGCAGACA
66 CATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTC-AACGGAGGGCAGACA
21526977 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGC
130 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGC
*
21527042 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTCTATGTTGAAGCAAGTC
195 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTCTATGTTGAAGCAAGCC
*
21527107 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGAC
260 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCCCCATATTCGAC
* *
21527172 GGAGGACAGACATATAGCAGATCTAACCTTTAGATGATTAGACTGAAGC-AGATCCAAGATGGTT
325 GGAGGACAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTT
* * *
21527236 TGGTATCTTTGTGCTTACAAGGAGC
390 TGGCATCCTTGTGCTTACAAGGAAC
* * *
21527261 AAATCGAAGACATAGCTAATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGG
1 AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
* * *
21527326 CATCTCTGTATTGTCAGGGAACAAATTGAAG
66 CATCTTTGTATTGTCAGAGAACAAATCGAAG
21527357 AAGCAGATTT
Statistics
Matches: 472, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
414 229 0.49
415 243 0.51
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (414 bp):
AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGG
CATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACAC
ATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGCG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTCTATGTTGAAGCAAGCCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCCCCATATTCGACG
GAGGACAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTTT
GGCATCCTTGTGCTTACAAGGAAC
Found at i:21527753 original size:17 final size:19
Alignment explanation
Indices: 21527731--21527880 Score: 147
Period size: 18 Copynumber: 8.4 Consensus size: 19
21527721 ATGGAAATAT
21527731 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
21527748 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
21527767 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
21527784 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
*
21527802 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
*
21527820 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
* * *
21527837 AACCTTAGATATGAT-TAC
1 AATCTTACATATGATATGC
* *
21527855 AATCTTAGATATGATATAC
1 AATCTTACATATGATATGC
21527874 AATCTTA
1 AATCTTA
21527881 GAAGATATGA
Statistics
Matches: 122, Mismatches: 3, Indels: 14
0.88 0.02 0.10
Matches are distributed among these distances:
17 37 0.30
18 50 0.41
19 35 0.29
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:21527810 original size:35 final size:37
Alignment explanation
Indices: 21527747--21527882 Score: 208
Period size: 35 Copynumber: 3.8 Consensus size: 37
21527737 CAATGATATG
*
21527747 CAATCTTAGATATGATATGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGATATACAATCTTAGATATGATTA
* *
21527783 CAATCTTAGATATGAT-TGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATATACAATCTTAGATATGATTA
*
21527819 CAATCTTAGATATG--ATACAACCTTAGATATGATTA
1 CAATCTTAGATATGATATACAATCTTAGATATGATTA
21527854 CAATCTTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATGATATACAATCTTAGA
21527883 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
35 48 0.53
36 31 0.34
37 12 0.13
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATACAATCTTAGATATGATTA
Found at i:21527826 original size:53 final size:54
Alignment explanation
Indices: 21527739--21527882 Score: 245
Period size: 53 Copynumber: 2.7 Consensus size: 54
21527729 ATAATCTTCA
*
21527739 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAACCTTAGAT
21527794 ATGATTGCAATCTTAGATATGAT-TGCAATCTTAGATATGATACAACCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAACCTTAGAT
* *
21527847 ATGATTACAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
21527883 AGATATGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 51 0.60
54 29 0.34
55 5 0.06
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAACCTTAGAT
Found at i:21527891 original size:22 final size:18
Alignment explanation
Indices: 21527747--21527882 Score: 204
Period size: 18 Copynumber: 7.6 Consensus size: 18
21527737 CAATGATATG
*
21527747 CAATCTTAGATATGATATG
1 CAATCTTAGATATGAT-TA
21527766 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
21527783 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
*
21527801 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
21527819 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
21527836 CAACCTTAGATATGATTA
1 CAATCTTAGATATGATTA
21527854 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
21527873 CAATCTTAGA
1 CAATCTTAGA
21527883 AGATATGATT
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
17 31 0.28
18 51 0.47
19 27 0.25
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:21554468 original size:21 final size:20
Alignment explanation
Indices: 21554428--21554478 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
21554418 CCTTTGCTTG
**
21554428 AGTATCGATATTTGGGGATAA
1 AGTATCGATATTTCAGGAT-A
*
21554449 AGTATCGATATTTCATGATA
1 AGTATCGATATTTCAGGATA
*
21554469 AGTACCGATA
1 AGTATCGATA
21554479 ATTTTTGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
AGTATCGATATTTCAGGATA
Found at i:21558178 original size:43 final size:43
Alignment explanation
Indices: 21558117--21558198 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
21558107 TGACAAAGCA
*
21558117 AATGTAGTTGTTGATGCTTTAAGTAGAAAGCAAATGGCAGACG
1 AATGTAGTTGCTGATGCTTTAAGTAGAAAGCAAATGGCAGACG
* *
21558160 AATGTAGTTGCTGATGCTTTAAGTAGAGAGTAAATGGCA
1 AATGTAGTTGCTGATGCTTTAAGTAGAAAGCAAATGGCA
21558199 AAGTTAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (43 bp):
AATGTAGTTGCTGATGCTTTAAGTAGAAAGCAAATGGCAGACG
Found at i:21568621 original size:18 final size:19
Alignment explanation
Indices: 21568584--21568622 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21568574 AAATCATATT
21568584 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
21568603 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
21568621 TA
1 TA
21568623 AAAAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:21569734 original size:34 final size:38
Alignment explanation
Indices: 21569652--21569749 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 38
21569642 GTTATATAAC
*
21569652 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TCTTTAGCGGCGTTTTAACAAAAGCGCCGC--A-GCTCTGG
*
21569693 TCTTTAGCGGCGTTTTATCAAAAGCG-C-C-GCTCT-G
1 TCTTTAGCGGCGTTTTAACAAAAGCGCCGCAGCTCTGG
*
21569727 TTTTTAGCGGCGTTTTAACAAAA
1 TCTTTAGCGGCGTTTTAACAAAA
21569750 AATGCCCATA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
34 22 0.41
35 5 0.09
39 1 0.02
40 1 0.02
41 25 0.46
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (38 bp):
TCTTTAGCGGCGTTTTAACAAAAGCGCCGCAGCTCTGG
Found at i:21571401 original size:35 final size:35
Alignment explanation
Indices: 21571356--21571433 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
21571346 GATATAAACC
21571356 TTCAT-GCATGTCTAATCTCAAAAGAAACTAAGTT
1 TTCATGGCATGTCTAATCTCAAAAGAAACTAAGTT
21571390 TTCATGGCATGTCTAATCTCAAAAGAAACTAAGTT
1 TTCATGGCATGTCTAATCTCAAAAGAAACTAAGTT
21571425 TTCATGGCA
1 TTCATGGCA
21571434 AACATTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 5 0.12
35 38 0.88
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (35 bp):
TTCATGGCATGTCTAATCTCAAAAGAAACTAAGTT
Found at i:21580546 original size:43 final size:43
Alignment explanation
Indices: 21580479--21580652 Score: 215
Period size: 43 Copynumber: 4.1 Consensus size: 43
21580469 TTAGCGGCGT
* *
21580479 TAAAGGCCAGGACATTTAGCGGCGCTTTTATAAAAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
* * ** *
21580522 TAAAAACCAGGACCTTTAGCGGCGCTTCTA-AAAAAATTCCGT
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
21580564 TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
* * * * ** *
21580607 TACAGACCTGTACTTTTAGCAACGCTTTTTTAAAAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
21580650 TAA
1 TAA
21580653 TTTGCCCAGT
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 37 0.34
43 73 0.66
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
TAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGC
Found at i:21580642 original size:85 final size:85
Alignment explanation
Indices: 21580476--21580633 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
21580466 ATATTAGCGG
*
21580476 CGTTAAAGGCCAGGACATTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAACCAGGACCTTTAG
1 CGTTAAAGACCAGGACATTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAACCAGGACCTTTAG
**
21580541 CGGCGCTTCTAAAAAAATTC
66 CAACGCTTCTAAAAAAATTC
* * * * * *
21580561 CGTTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTACAGACCTGTACTTTTAG
1 CGTTAAAGACCAGGACATTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAACCAGGACCTTTAG
21580626 CAACGCTT
66 CAACGCTT
21580634 TTTTAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (85 bp):
CGTTAAAGACCAGGACATTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAACCAGGACCTTTAG
CAACGCTTCTAAAAAAATTC
Found at i:21580969 original size:21 final size:21
Alignment explanation
Indices: 21580945--21580992 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
21580935 TCCTGTTCTG
21580945 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
21580966 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
21580987 CTCCGC
1 CTCCGC
21580993 TCTAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:21583017 original size:27 final size:26
Alignment explanation
Indices: 21582953--21583063 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
21582943 AGCATGGATG
* ** * *
21582953 CCAGAGCAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAAAGCCA
*
21582979 CCAGATATAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAAAGCCA
21583007 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
* *
21583034 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAAAGCCA
21583061 CCA
1 CCA
21583064 AGACGCTTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.71
28 15 0.21
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:21584509 original size:24 final size:24
Alignment explanation
Indices: 21584482--21584528 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
21584472 CTAGATTTCC
**
21584482 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
21584506 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
21584529 CTCCTGTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:21588064 original size:12 final size:12
Alignment explanation
Indices: 21588047--21588074 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21588037 CTCAGCCACG
21588047 TCCACGGCCTCT
1 TCCACGGCCTCT
21588059 TCCACGGCCTCT
1 TCCACGGCCTCT
21588071 TCCA
1 TCCA
21588075 TGAGTGGTTC
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:0.11, C:0.50, G:0.14, T:0.25
Consensus pattern (12 bp):
TCCACGGCCTCT
Found at i:21589426 original size:27 final size:27
Alignment explanation
Indices: 21589396--21589502 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
21589386 GGCTGCCAAA
* *
21589396 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
21589423 ACAGATAATCGTGGCAGAGCCACTAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
21589450 ACAGATATATGTGGCAGAGCCACCAAAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
21589478 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
21589503 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.75
28 16 0.23
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:21589484 original size:54 final size:54
Alignment explanation
Indices: 21589395--21589499 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
21589385 TGGCTGCCAA
* *
21589395 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACTAG
1 AACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCACTAG
* * *
21589449 AACAGATATATGTGGCAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCAC
1 AACAGATA-ATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCAC
21589500 CAGGACGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 28 0.62
55 17 0.38
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCACTAG
Found at i:21597180 original size:464 final size:470
Alignment explanation
Indices: 21596064--21597306 Score: 2304
Period size: 464 Copynumber: 2.6 Consensus size: 470
21596054 TTATACAAAT
21596064 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAA-AAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
21596128 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
*
21596193 TAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGT
*
21596258 GGCGTTGTTACACCTAGGTAGGATCCATTATATCTTGTAGCTCGATATAAGGCAACCCGTCAGGT
196 GGCGTTGTTACACCTAGG-AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
21596323 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATA
260 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATA
21596388 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
325 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
*
21596453 CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATACTAATTAATACTATTTTGATAA
390 CCAAAATAT--AAA--TA-T-ATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
21596518 AAATTAGTTATAACTTTTAAAG
449 AAATTAGTTATAACTTTTAAAG
21596540 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
21596605 AATAATATCAAAAAAGAAT-GTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
21596669 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGT
21596734 GGCGTTGTTACACCTAGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTT
196 GGCGTTGTTACACCTAGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTT
*
21596799 TCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGTAAGCTACATAT
261 TCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATAT
*
21596864 ATGGTAATAAAATTAATTCGTACTTATTCATACTTAAGTTG-ATCAAATAATAATTAAGTTGAAC
326 ATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAAC
21596928 CAAAATAT-AA-A-A-ACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAG
391 CAAAATATAAATATATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAG
21596989 TTATAACTTTTAAAG
456 TTATAACTTTTAAAG
21597004 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
21597069 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
21597134 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTT-AATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGT
*
21597198 GGCATTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
196 GGCGTTGTTACACCTA-GGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
21597263 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
260 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
21597307 TTGGAGAGAA
Statistics
Matches: 758, Mismatches: 6, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
464 186 0.25
465 178 0.23
468 1 0.00
471 2 0.00
474 31 0.04
475 150 0.20
476 172 0.23
477 38 0.05
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (470 bp):
ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGT
GGCGTTGTTACACCTAGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTT
TCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATAT
ATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAAC
CAAAATATAAATATATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAG
TTATAACTTTTAAAG
Found at i:21601706 original size:15 final size:15
Alignment explanation
Indices: 21601688--21601719 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21601678 AAATAATAAT
*
21601688 TTATATATATTTATC
1 TTATATACATTTATC
21601703 TTATATACATTTATC
1 TTATATACATTTATC
21601718 TT
1 TT
21601720 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:21601716 original size:25 final size:24
Alignment explanation
Indices: 21601655--21601700 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21601645 ACCACTTTTC
*
21601655 ATATATATATTTATATATTTTTAAA
1 ATATATA-ATTTATATATATTTAAA
21601680 ATA-ATAATTTATATATATTTA
1 ATATATAATTTATATATATTTA
21601701 TCTTATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 3 0.15
25 3 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATAATTTATATATATTTAAA
Found at i:21602823 original size:40 final size:40
Alignment explanation
Indices: 21602687--21602895 Score: 249
Period size: 41 Copynumber: 5.1 Consensus size: 40
21602677 GTTATATGAC
* * * *
21602687 TTTTAGCAGCGTTTTACCAAAAGTGCCACTAATGCTATGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* * *
21602728 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATACGCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
21602769 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
21602809 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * **
21602849 TTTTAGCGGCATTTTTTACTAAAA-CGCCGCTGTTGCTCTGT
1 TTTTAGCGGC--GTTTTACCAAAAGCGCCGCTAATGCTCTGT
21602890 ATTTTA
1 -TTTTA
21602896 AAATTTTTGC
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
40 49 0.32
41 87 0.58
42 15 0.10
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:21602839 original size:81 final size:80
Alignment explanation
Indices: 21602687--21602895 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 80
21602677 GTTATATGAC
* * * *
21602687 TTTTAGCAGCGTTTTACCAAAAGTGCCACTAATGCTATGGTTTTTAGCAGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCAGCGTTTTACCAAAAGC
21602752 GCCGCTAATACGCTGGT
65 GCCGCTAATACGCT-GT
* *
21602769 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGTGTTTTACCAAAAGCG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCAGCGTTTTACCAAAAGCG
* * *
21602834 CCGCTATTGCTCTGT
66 CCGCTAATACGCTGT
* * **
21602849 TTTTAGCGGCATTTTTTACTAAAA-CGCCGCTGTTGCTCTGTATTTTA
1 TTTTAGCGGC--GTTTTACCAAAAGCGCCGCTAATGCTCTGT-TTTTA
21602896 AAATTTTTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 12 0.11
81 50 0.45
82 49 0.44
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (80 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCAGCGTTTTACCAAAAGCG
CCGCTAATACGCTGT
Found at i:21604854 original size:24 final size:24
Alignment explanation
Indices: 21604819--21604865 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21604809 CTGTCAGGAG
* **
21604819 AGGATTTTGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
21604843 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
21604866 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:21606381 original size:27 final size:27
Alignment explanation
Indices: 21606277--21606381 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
21606267 AGGAAGCGTC
*
21606277 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
21606304 CTGGTGGCTCTGCCACATATATCTAT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
* *
21606331 CTGGTGGTTC-GCCAGATTATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTGTAT
* *
21606357 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
21606382 TTGGCAGCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
25 6 0.09
26 17 0.26
27 42 0.65
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:21614214 original size:27 final size:27
Alignment explanation
Indices: 21614108--21614214 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
21614098 AGGAAGCGTC
*
21614108 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
21614135 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
* * *
21614162 CTGGTGGTTCGGCCAGGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTGTAT
* *
21614190 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
21614215 TTTGGCAGCC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 51 0.76
28 14 0.21
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:21621672 original size:19 final size:19
Alignment explanation
Indices: 21621648--21621709 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
21621638 AATCTTTAAG
21621648 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21621667 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
21621686 TATATACAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
21621707 GAT
1 GAT
21621710 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 30 0.79
21 8 0.21
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21628181 original size:23 final size:22
Alignment explanation
Indices: 21628155--21628215 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
21628145 TTTTAAGTTT
21628155 AATATATATATTATTAAATAATA
1 AATAT-TATATTATTAAATAATA
* *
21628178 AATATCTTTATTATTTAATAATA
1 AATAT-TATATTATTAAATAATA
*
21628201 TATATTATATTATTA
1 AATATTATATTATTA
21628216 TATTATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTATATTATTAAATAATA
Found at i:21629562 original size:21 final size:21
Alignment explanation
Indices: 21629536--21629597 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
21629526 GGCTTTGCCG
21629536 ATCAGGCACTTTATGTGTCGC
1 ATCAGGCACTTTATGTGTCGC
* ** **
21629557 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGC
*
21629578 TTCAGGCACTTTATGTGTCG
1 ATCAGGCACTTTATGTGTCG
21629598 TATATTGCTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGC
Found at i:21630315 original size:26 final size:26
Alignment explanation
Indices: 21630286--21630389 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
21630276 TGATACAAAT
21630286 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
21630312 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21630338 TGATAATGGGTTA---AAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21630361 TGATAAT-GTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21630386 TGAT
1 TGAT
21630390 GGGAATTTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.06
23 16 0.23
25 14 0.20
26 36 0.51
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21630363 original size:49 final size:49
Alignment explanation
Indices: 21630286--21630389 Score: 156
Period size: 48 Copynumber: 2.1 Consensus size: 49
21630276 TGATACAAAT
21630286 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTA-G-AAATGTTCCATGATAAT-GATTAGGTAAATATTCCA
* *
21630338 TGATAATGGGTTA-AAATGTTCCATGATAATGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGAAATGTTCCATGATAATGATTAGGTAAATATTCCA
21630386 TGAT
1 TGAT
21630390 GGGAATTTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
48 20 0.40
49 17 0.34
52 13 0.26
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (49 bp):
TGATAATGGGTTAGAAATGTTCCATGATAATGATTAGGTAAATATTCCA
Found at i:21631854 original size:28 final size:26
Alignment explanation
Indices: 21631823--21631897 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
21631813 AAAAGTAGCT
*
21631823 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTA-G-ATGCA
* *
21631851 AAATTACTGTTATACCCCTAGATGCA
1 AAATTACTATAATACCCCTAGATGCA
** *
21631877 AAATTACCGTTATACCCCTAG
1 AAATTACTATAATACCCCTAG
21631898 GGTTAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGATGCA
Found at i:21631888 original size:26 final size:27
Alignment explanation
Indices: 21631834--21631897 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
21631824 AATTACTATA
* *
21631834 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-GTATGCAAAATTACCGTT
21631862 ATACCCCTAG-ATGCAAAATTACCGTT
1 ATACCCCTAGTATGCAAAATTACCGTT
21631888 ATACCCCTAG
1 ATACCCCTAG
21631898 GGTTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 24 0.71
27 1 0.03
28 9 0.26
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (27 bp):
ATACCCCTAGTATGCAAAATTACCGTT
Found at i:21632042 original size:27 final size:26
Alignment explanation
Indices: 21632002--21632167 Score: 190
Period size: 27 Copynumber: 6.2 Consensus size: 26
21631992 AGGAAGCATC
*
21632002 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
21632029 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
21632056 CTGGTGGCTATGCCACAAATATCTTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
21632083 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
21632109 CTGGTGGATCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
21632137 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
21632163 CTGGT
1 CTGGT
21632168 AGCCATGCTG
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
26 31 0.26
27 73 0.61
28 15 0.13
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:21632085 original size:54 final size:54
Alignment explanation
Indices: 21632002--21632167 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
21631992 AGGAAGCATC
*
21632002 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATATCTGTT
*
21632056 CTGGTGGCTATGCCACAAATATCTTATCTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATATCTGTT
* * * * *
21632109 CTGGTGGATCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-TATCTGGTGGCTCTGCCACATATATCTGTT
21632163 CTGGT
1 CTGGT
21632168 AGCCATGCTG
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 27 0.26
54 75 0.74
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:21637430 original size:26 final size:25
Alignment explanation
Indices: 21637401--21637455 Score: 101
Period size: 26 Copynumber: 2.2 Consensus size: 25
21637391 TGATACAAAT
21637401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATG-TCCA
21637427 TGATAATGGGTTAGGTAAATGTCCA
1 TGATAATGGGTTAGGTAAATGTCCA
21637452 TGAT
1 TGAT
21637456 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTCCA
Found at i:21639089 original size:27 final size:26
Alignment explanation
Indices: 21639049--21639215 Score: 190
Period size: 27 Copynumber: 6.2 Consensus size: 26
21639039 AGGAAGCGTC
*
21639049 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
21639076 CTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
21639103 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
21639130 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
21639157 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
21639185 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
21639211 CTGGT
1 CTGGT
21639216 AGCCATGCTG
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
26 8 0.07
27 94 0.79
28 17 0.14
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:21639131 original size:54 final size:54
Alignment explanation
Indices: 21639049--21639215 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
21639039 AGGAAGCGTC
*
21639049 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
21639103 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
21639157 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
21639211 CTGGT
1 CTGGT
21639216 AGCCATGCTG
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 85 0.83
55 18 0.17
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:21639207 original size:81 final size:81
Alignment explanation
Indices: 21639049--21639215 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 81
21639039 AGGAAGCGTC
*
21639049 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGTATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGTATATCTGTTCTGGTGACTAT
21639114 GCCACAAATATCTGAT
66 GCCACAAATATCTGAT
* * *
21639130 CTGGTGGCTCTGCCAC-ATATATTTGTTCTGGTGGCTCTGCCACG-ATTATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACGTA-TATCTGT-TCTGGTGAC
* * * *
21639193 TCTGTCAC-ATTATCTGTT
63 TATGCCACAAATATCTGAT
21639211 CTGGT
1 CTGGT
21639216 AGCCATGCTG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.04
81 58 0.77
82 14 0.19
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACGTATATCTGTTCTGGTGACTAT
GCCACAAATATCTGAT
Found at i:21643540 original size:14 final size:14
Alignment explanation
Indices: 21643521--21643549 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21643511 TAATCAGTGC
21643521 ATGTTTATTCTTCT
1 ATGTTTATTCTTCT
21643535 ATGTTTATTCTTCT
1 ATGTTTATTCTTCT
21643549 A
1 A
21643550 AGATAGCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.07, T:0.62
Consensus pattern (14 bp):
ATGTTTATTCTTCT
Found at i:21647284 original size:44 final size:45
Alignment explanation
Indices: 21647195--21647291 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 45
21647185 AACGGCTCGT
* * * *
21647195 GATTACACGTTATAGTATGTGGCAACCATTGGCATGATAGTCCAA
1 GATTACACGTTATAGTATATGGCAACCATTGACATGACAGCCCAA
* * * *
21647240 GATTACACGTTGT-TTATATGGCAACCATTGACCTGACCGCCCAA
1 GATTACACGTTATAGTATATGGCAACCATTGACATGACAGCCCAA
21647284 GATTACAC
1 GATTACAC
21647292 ATATATGTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
GATTACACGTTATAGTATATGGCAACCATTGACATGACAGCCCAA
Found at i:21669392 original size:13 final size:13
Alignment explanation
Indices: 21669374--21669399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21669364 AGTTTACGAA
21669374 TTAATTTTTTTTT
1 TTAATTTTTTTTT
21669387 TTAATTTTTTTTT
1 TTAATTTTTTTTT
21669400 CAATTCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTAATTTTTTTTT
Found at i:21672094 original size:25 final size:25
Alignment explanation
Indices: 21672066--21672127 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
21672056 TTTCTAACTA
* *
21672066 ATCACTAAATTGATAAAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
** *
21672091 ATCAATATTTTCATACAATTTTCCT
1 ATCAATAAATTCATAAAATTTTCCT
21672116 ATCATATAAATT
1 ATCA-ATAAATT
21672128 TTCAAGCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
ATCAATAAATTCATAAAATTTTCCT
Found at i:21673117 original size:21 final size:21
Alignment explanation
Indices: 21673091--21673135 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
21673081 TGGGTACTTC
*
21673091 TAGATATGACTTGACGAATTA
1 TAGATATGAATTGACGAATTA
21673112 TAGATATGAATTGACGAATTA
1 TAGATATGAATTGACGAATTA
21673133 TAG
1 TAG
21673136 TAGTGTACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (21 bp):
TAGATATGAATTGACGAATTA
Found at i:21674813 original size:2 final size:2
Alignment explanation
Indices: 21674806--21674834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21674796 ACTAATAAGC
21674806 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
21674835 CTCATATCCA
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:21676744 original size:16 final size:17
Alignment explanation
Indices: 21676708--21676751 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
21676698 TTAAAACTCT
21676708 TTTTATTTTTATTTATTA
1 TTTTA-TTTTATTTATTA
*
21676726 TTTTCTTTTATTT-TTA
1 TTTTATTTTATTTATTA
21676742 TTTTATTTTA
1 TTTTATTTTA
21676752 GTTAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 8 0.33
18 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:21677827 original size:118 final size:118
Alignment explanation
Indices: 21677619--21677849 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
21677609 TGTTTTCCAT
* *
21677619 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATT
21677684 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
** *
21677737 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATT
****
21677802 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
21677850 ACCGGAAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:21677997 original size:18 final size:17
Alignment explanation
Indices: 21677975--21678021 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 17
21677965 AATAAAATTT
21677975 AAAAAAAAATCAAAAAAAG
1 AAAAAAAAA--AAAAAAAG
21677994 AAAAAAAGAAAAAAAAAG
1 AAAAAAA-AAAAAAAAAG
21678012 AAGAAAAAAA
1 AA-AAAAAAA
21678022 TAAGTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.46
19 12 0.46
20 2 0.08
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:21678005 original size:13 final size:13
Alignment explanation
Indices: 21677975--21678021 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
21677965 AATAAAATTT
*
21677975 AAAAAAAAATCAA-
1 AAAAAAAAA-GAAG
*
21677988 AAAAAGAAAAAAAG
1 AAAAA-AAAAGAAG
21678002 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
21678015 AAAAAAA
1 AAAAAAA
21678022 TAAGTACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 21 0.70
14 9 0.30
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:21686002 original size:40 final size:40
Alignment explanation
Indices: 21685958--21686103 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
21685948 AGCTTAGTCA
* *
21685958 AGCCATACCTATTGAATCTACTGAAATGTATGCACTTTTG
1 AGCCATACCTACTGAATCTACTGAAACGTATGCACTTTTG
* * *
21685998 AGCCATGCTTACTGAATCTACTAAAACGTATGCGA-TTTTG
1 AGCCATACCTACTGAATCTACTGAAACGTATGC-ACTTTTG
* * *
21686038 AGCCACACCTACTGAATCTACTGAAACGTATGCCCTTTCG
1 AGCCATACCTACTGAATCTACTGAAACGTATGCACTTTTG
* *
21686078 AGCCATACATACTGAATCCACTGAAA
1 AGCCATACCTACTGAATCTACTGAAA
21686104 AGAATGCTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 89 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (40 bp):
AGCCATACCTACTGAATCTACTGAAACGTATGCACTTTTG
Found at i:21689319 original size:17 final size:18
Alignment explanation
Indices: 21689286--21689320 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21689276 CCGTGTGACG
21689286 TACCCGTGTTGACCCACA
1 TACCCGTGTTGACCCACA
21689304 TACCCGTGTT-ACCCACA
1 TACCCGTGTTGACCCACA
21689321 CGCCCAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (18 bp):
TACCCGTGTTGACCCACA
Found at i:21689447 original size:12 final size:12
Alignment explanation
Indices: 21689430--21689459 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21689420 GTGTCGTTGT
*
21689430 ACACGGCCTTCC
1 ACACGGCCTACC
21689442 ACACGGCCTACC
1 ACACGGCCTACC
21689454 ACACGG
1 ACACGG
21689460 TCGTGTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.47, G:0.20, T:0.10
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:21689827 original size:16 final size:14
Alignment explanation
Indices: 21689799--21689829 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21689789 AATTTTGAAA
21689799 AAAAAGAAAATAAT
1 AAAAAGAAAATAAT
21689813 AAAAAGAAAAT-AT
1 AAAAAGAAAATAAT
21689826 AAAA
1 AAAA
21689830 GATGTGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAGAAAATAAT
Found at i:21692466 original size:16 final size:16
Alignment explanation
Indices: 21692413--21692466 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
21692403 ATTTACTATT
21692413 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
**
21692428 T-TAATTAAG-TAACTA
1 TATAA-TAAGATATTTA
*
21692443 TATTATAAGATATTTA
1 TATAATAAGATATTTA
21692459 TATAATAA
1 TATAATAA
21692467 ATAAATTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 16 0.55
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:21693962 original size:18 final size:18
Alignment explanation
Indices: 21693941--21693983 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21693931 TAAGCAACTG
21693941 TTACTGAATAAATGATTA
1 TTACTGAATAAATGATTA
*
21693959 TTACTGAATAACTGATTA
1 TTACTGAATAAATGATTA
*
21693977 ATACTGA
1 TTACTGA
21693984 TGACTGACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (18 bp):
TTACTGAATAAATGATTA
Found at i:21694046 original size:29 final size:29
Alignment explanation
Indices: 21694010--21694065 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
21694000 AACAATAAAG
21694010 ATCAATTGATTGTTACTAAAGAATATTGA
1 ATCAATTGATTGTTACTAAAGAATATTGA
21694039 ATCAATTGATTGTTACTAAAGAATATT
1 ATCAATTGATTGTTACTAAAGAATATT
21694066 AACTGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (29 bp):
ATCAATTGATTGTTACTAAAGAATATTGA
Found at i:21704530 original size:14 final size:15
Alignment explanation
Indices: 21704510--21704569 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 15
21704500 TATTATAATT
21704510 TATAAATTTTAATAA
1 TATAAATTTTAATAA
*
21704525 TA-AAATTTTTATAA
1 TATAAATTTTAATAA
21704539 TATAAA--TT-ATAA
1 TATAAATTTTAATAA
21704551 -AT--ATTTTAATAA
1 TATAAATTTTAATAA
21704563 TATAAAT
1 TATAAAT
21704570 ATAAGTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
9 1 0.03
11 4 0.11
12 8 0.22
13 4 0.11
14 13 0.35
15 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATTTTAATAA
Found at i:21704557 original size:23 final size:23
Alignment explanation
Indices: 21704524--21704579 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
21704514 AATTTTAATA
*
21704524 ATAAA-ATTTTTATAATATAAATT
1 ATAAATATTTTAATAATATAAA-T
21704547 ATAAATATTTTAATAATATAAAT
1 ATAAATATTTTAATAATATAAAT
*
21704570 ATAAGTATTT
1 ATAAATATTT
21704580 GTTTAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATAAATATTTTAATAATATAAAT
Found at i:21704557 original size:38 final size:37
Alignment explanation
Indices: 21704498--21704569 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
21704488 TATTAAATTA
* *
21704498 TATATTATAATTTATAAATTTTAATAATA-AAATTTT
1 TATAATATAAATTATAAATTTTAATAATATAAATTTT
21704534 TATAATATAAATTATAAATATTTTAATAATATAAAT
1 TATAATATAAATTAT-AA-ATTTTAATAATATAAAT
21704570 ATAAGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 13 0.42
37 2 0.06
38 12 0.39
39 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
TATAATATAAATTATAAATTTTAATAATATAAATTTT
Found at i:21722586 original size:16 final size:16
Alignment explanation
Indices: 21722560--21722592 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21722550 TGATGGTCAC
21722560 TTTTTCATTTTCCGTTT
1 TTTTTCATTTTCC-TTT
21722577 TTTTTC-TTTTCCTTT
1 TTTTTCATTTTCCTTT
21722592 T
1 T
21722593 GTCTTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTCCTTT
Found at i:21723288 original size:33 final size:33
Alignment explanation
Indices: 21723237--21723299 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
21723227 AACCATATGG
* *
21723237 CAAGTCGTGTGCACCACACAGGCGTTTGTGTGT
1 CAAGTCGTATGCACCACACAGGCGTGTGTGTGT
* * *
21723270 CAAGTCGTATGGAGCACACGGGCGTGTGTG
1 CAAGTCGTATGCACCACACAGGCGTGTGTG
21723300 ATTACACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.24
Consensus pattern (33 bp):
CAAGTCGTATGCACCACACAGGCGTGTGTGTGT
Found at i:21726518 original size:2 final size:2
Alignment explanation
Indices: 21726511--21726549 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
21726501 AGAATATACG
*
21726511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21726550 GTTGGGTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21740739 original size:23 final size:23
Alignment explanation
Indices: 21740704--21740753 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
21740694 GAAGAGAATG
21740704 AAAAAAAAAAGAA-AAAAAAGTT
1 AAAAAAAAAAGAAGAAAAAAGTT
* *
21740726 AAAAAAACATAGAAGGAAAAAATTT
1 AAAAAAA-AAAGAA-GAAAAAAGTT
21740751 AAA
1 AAA
21740754 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 5 0.22
25 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAAAAAAAAGAAGAAAAAAGTT
Found at i:21741351 original size:2 final size:2
Alignment explanation
Indices: 21741344--21741384 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
21741334 ACATTTATTC
*
21741344 AT AT AT AT AC 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 AT AT AT AT A
21741385 AAACATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21749910 original size:34 final size:34
Alignment explanation
Indices: 21749867--21749933 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
21749857 GAACCCTAGC
21749867 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
1 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
21749901 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCG
1 CGCCAGCATGTGCTCCCCTCTGCTCCACCACCG
21749934 TTTACCTGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.51, G:0.18, T:0.18
Consensus pattern (34 bp):
CGCCAGCATGTGCTCCCCTCTGCTCCACCACCGA
Found at i:21752360 original size:74 final size:74
Alignment explanation
Indices: 21752277--21752434 Score: 298
Period size: 74 Copynumber: 2.1 Consensus size: 74
21752267 AAAGGATCGG
21752277 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
*
21752342 ATGACAGCT
66 ACGACAGCT
*
21752351 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCTAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
21752416 ACGACAGCT
66 ACGACAGCT
21752425 TGGCGACTCC
1 TGGCGACTCC
21752435 ACTGGGGACA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (74 bp):
TGGCGACTCCCGTTCTTTTATTTTCAAAAATCCAGGTCGATTCCCGTTTTTTCAAAAAAATGGTT
ACGACAGCT
Done.