Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 29 of 325
Found at i:10820720 original size:7 final size:7
Alignment explanation
Indices: 10820708--10820735 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10820698 CCGCTCTTCT
10820708 CTTTTCC
1 CTTTTCC
10820715 CTTTTCC
1 CTTTTCC
10820722 CTTTTCC
1 CTTTTCC
10820729 CTTTTCC
1 CTTTTCC
10820736 TTACCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
CTTTTCC
Found at i:10842258 original size:2 final size:2
Alignment explanation
Indices: 10842251--10842284 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10842241 ACTACACTCA
10842251 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10842285 TCTATATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10843122 original size:31 final size:29
Alignment explanation
Indices: 10843054--10843133 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
10843044 AATATTATTA
* *
10843054 AAATTATTTTGTTATATTTATATTTATTAT
1 AAATTATTTT-TTATATTTATATTAATAAT
10843084 AATATTATTTTTTA-ATTATATAATTAATAAGT
1 AA-ATTATTTTTTATATT-TAT-ATTAATAA-T
10843116 AAATTATTTTTTAT-TTTA
1 AAATTATTTTTTATATTTA
10843134 AAATATCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
29 3 0.07
30 10 0.23
31 27 0.63
32 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
AAATTATTTTTTATATTTATATTAATAAT
Found at i:10853050 original size:16 final size:16
Alignment explanation
Indices: 10853031--10853076 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
10853021 AAGCAACCCC
10853031 TTTTAAACTTCCTTAA
1 TTTTAAACTTCCTTAA
10853047 TTTT-AA-TTCCTCTAA
1 TTTTAAACTTCCT-TAA
*
10853062 TTTGAAATCTTCCTT
1 TTTTAAA-CTTCCTT
10853077 CCTTGTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 6 0.24
17 1 0.04
18 5 0.20
ACGTcount: A:0.26, C:0.20, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTAAACTTCCTTAA
Found at i:10853322 original size:20 final size:20
Alignment explanation
Indices: 10853297--10853346 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10853287 TGGCTTAAAA
10853297 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10853317 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10853334 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10853347 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10857951 original size:20 final size:20
Alignment explanation
Indices: 10857926--10857975 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10857916 TGGCTTAAAA
10857926 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10857946 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10857963 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10857976 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10872135 original size:86 final size:86
Alignment explanation
Indices: 10871986--10872249 Score: 375
Period size: 86 Copynumber: 3.1 Consensus size: 86
10871976 AGTAAAAATT
* * * * * *
10871986 GAAGATAAACATTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGTCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
10872051 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
10872072 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
10872137 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
10872158 GAAGACAAACCTTGCCTCTCTCATTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTACTTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
10872223 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
*
10872245 AAAGA
1 GAAGA
10872250 TGGCAGATTT
Statistics
Matches: 157, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 137 0.87
87 20 0.13
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:10872369 original size:134 final size:134
Alignment explanation
Indices: 10872197--10872472 Score: 473
Period size: 134 Copynumber: 2.1 Consensus size: 134
10872187 GCAGAGCTGG
*
10872197 TTGAAGATATCAGATCTTACTTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATATCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
10872262 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCATGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
10872327 TAGA
131 TAGA
* * *
10872331 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTT
1 TTGAAGATAT-CAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
* *
10872395 ACCTCCATGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTTGCAGTGGA
65 ACCTCCATGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
10872460 ATAGA
130 ATAGA
10872465 TTGAAGAT
1 TTGAAGAT
10872473 CAAAGATGGC
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 1 0.01
134 133 0.99
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (134 bp):
TTGAAGATATCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCATGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:10872489 original size:95 final size:95
Alignment explanation
Indices: 10872374--10872662 Score: 490
Period size: 95 Copynumber: 3.0 Consensus size: 95
10872364 GCAGCGAAGT
* * *
10872374 AGATCGAAGATGGCAGATTTTACCTCCATGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
10872439 CTCCCTGTATTTTGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
10872469 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGAAAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
10872534 CTCTCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
10872564 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT-GGAGTACATTGAAGCCGATAACTCTA
10872628 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
10872659 AGAT
1 AGAT
10872663 TACAGATCTT
Statistics
Matches: 181, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 1 0.01
95 180 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:10872828 original size:132 final size:132
Alignment explanation
Indices: 10872665--10873779 Score: 1793
Period size: 132 Copynumber: 8.4 Consensus size: 132
10872655 TTGAAGATTA
* *
10872665 CAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * * *
10872730 TGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
10872795 TG
131 TG
*
10872797 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
*
10872862 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTAGATCCAAGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
10872927 TG
131 TG
*
10872929 TAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCATG-TCTTGTCTTCATGTA
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA-GATCTTGTCTTCATGTA
*
10872993 TTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTAACTTCCTATATTGATAGGAAGTGGATCCAAG
65 TTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAG
10873058 ATG
130 ATG
*
10873061 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGGTCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
10873126 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
*
10873191 TA
131 TG
*
10873193 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * * * * *
10873258 TGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
*
10873323 CG
131 TG
10873325 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * * * * *
10873390 TGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
*
10873455 TA
131 TG
*
10873457 CAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
*
10873522 TGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
*
10873587 TA
131 TG
* * ** * *
10873589 CAGATCTTGTCTTCCAATACTGGTGGTAAAGTAGATTGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * * * * * * *
10873654 TGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAGAAAGTGGATCGACGA
66 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
10873719 TG
131 TG
*
10873721 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCACG-ATGCAGATCTTGTCTTC
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGATCTTGTCTTC
10873780 CCATATTAGT
Statistics
Matches: 922, Mismatches: 58, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 919 1.00
133 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGA
TG
Found at i:10873841 original size:441 final size:440
Alignment explanation
Indices: 10873308--10874198 Score: 1424
Period size: 441 Copynumber: 2.0 Consensus size: 440
10873298 ATAATGATTG
* *
10873308 GAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTAGATCGACGACGCAGATCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGCAGAAAGCAG
*
10873373 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGAT
66 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGAT
* * *
10873438 TGGAAGTGGATCGACGATACAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAGC
131 AGGAAGTGGATCGACGATACAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
* *
10873503 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAA-ATAGCAGGTCCTATCTTCCTATATT
196 AGACCTTGTCTTCATGTATTGGCGTGAAGTAGATC-AAAGATAGCAAGTCCTATCTTCCTATATT
* *
10873567 GATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCAATACTGGTGGTAAAGTAGATTGAAGAA
260 GATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAGATCGAAGAA
* *
10873632 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATA
325 AGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAAGTCTTGTCTTCCTATA
* * * *
10873697 TTGGTAGAAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGC
390 TTGATAGAAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
*
10873748 GAAGTAGATCGCACGATGCAGATCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGCAGAAAGCA
1 GAAGTAGATCG-ACGACGCAGATCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGCAGAAAGCA
** * * * *
10873813 GATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGG
65 GATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGA
*
10873878 TAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAG
130 TAGGAAGTGGATCGACGATACAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAG
* * *
10873943 CAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAAGTCTTGTCTTCCTATATT
195 CAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAAGTCCTATCTTCCTATATT
* * * * * * * *
10874008 GGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
260 GATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAGATCGAAGAA
10874073 AGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAAGTCTTGTCTTCCTATA
325 AGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAAGTCTTGTCTTCCTATA
* *
10874138 TTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGT
390 TTGATAGAAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
10874189 GAAGTAGATC
1 GAAGTAGATC
10874199 AAAAAAAAAA
Statistics
Matches: 412, Mismatches: 37, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
440 13 0.03
441 399 0.97
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (440 bp):
GAAGTAGATCGACGACGCAGATCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGCAGAAAGCAG
ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGAT
AGGAAGTGGATCGACGATACAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
AGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAAGTCCTATCTTCCTATATTG
ATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCAATACTGGTGGCAAAGTAGATCGAAGAAA
GCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAAGTCTTGTCTTCCTATAT
TGATAGAAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
Found at i:10873907 original size:264 final size:263
Alignment explanation
Indices: 10872665--10874175 Score: 1675
Period size: 264 Copynumber: 5.7 Consensus size: 263
10872655 TTGAAGATTA
* *
10872665 CAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
** *
10872730 TGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66 TGGCG-GAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATATTGG-AGGAAGTGGATCAAAGA
*
10872795 T-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATG
129 TAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATG
*
10872859 TATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTAGATCCA
194 TATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCA
10872924 AGATG
259 AGATG
*
10872929 TAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCATG-TCTTGTCTTCATGTA
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA-GATCTTGTCTTCATGTA
* * * * *
10872993 TTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTAACTTCCTATATTGATAGGAAGTGGATCCAAG
65 TTGGCG-GAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATATTG-GAGGAAGTGGATCAAAG
*
10873058 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGGTCTTGTCTTCAT
128 ATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCAT
10873122 GTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCC
193 GTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCC
*
10873187 AAGATA
258 AAGATG
*
10873193 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * * * *
10873258 TGGCGTGAAGTAGATCAAAGATAA-CAGGTCCTATCTTCCTATAAT-GATTGGAAGTGGATCGAC
66 TGGCG-GAAGTAGATCGAAGA-AAGCAGATCCTATCTTCCTATATTGGA--GGAAGTGGATCAAA
*
10873321 GA-CGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCA
127 GATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCA
* * * *
10873385 TGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATC
192 TGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATC
* * *
10873450 GACGATA
257 CAAGATG
*
10873457 CAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
* * *
10873522 TGGCGTGAAGTAGATCGAA-AATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAG
66 TGGCG-GAAGTAGATCGAAGAA-AGCAGATCCTATCTTCCTATATTG-GAGGAAGTGGATCAAAG
* * ** * *
10873586 ATA-CAGATCTTGTCTTCCAATACTGGTGGTAAAGTAGATTGAAGAAAGCAGATCTTGTCTTCAT
128 ATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCAT
* * * * * * *
10873650 GTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAGAAAGTGGATCG
193 GTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCC
*
10873715 ACGATG
258 AAGATG
*
10873721 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCACG-ATGCAGATCTTGTCTTCCCATA
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGATCTTGTCTT--CAT-
* * * ** * * * * *
10873785 TTAGTGGC-GAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAA
62 GTATTGGCGGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATATTGGAG-GAAGTGGATCAA
* * * * * * *
10873849 AGATAGTAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCG-ACG-ATGCAAATCTTGTCTT
126 AGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGATCTTGTCTT
*** * * * * * * * * **
10873911 CCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA-GACCTTGTCTTCATGTATTG-GCGTGAAGT
190 CATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCC-TATCTTCCTATATTGATAG-GAAGT
* *
10873974 AGATCAAAGATAG
252 GGATCCAAGAT-G
* * * * * ***
10873987 TA-AGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCG-ACG-ATGCAGATCTTGTCTTCCCAT
1 CAGA-TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGATCTTGTCTTCATGT
* * * * * * *
10874048 ATTGGTGGCGAAGTAGATCGCAGAAAGCAGA-CCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
64 ATTGG-CG-GAAGTAGATCGAAGAAAGCAGATCC-TATCTTCCTATATTGGAG-GAAGTGGATCA
* * * * * *
10874112 AAGATAGTA-AGTCTTGTCTTCCTATATTGATAG-GAAGTGGATC-CA-AGATGCAGATCTTGTC
125 AAGATAGCAGA-TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGA-AAGCAGATCTTGTC
10874173 TTC
188 TTC
10874176 CCATACTGGT
Statistics
Matches: 1105, Mismatches: 109, Indels: 66
0.86 0.09 0.05
Matches are distributed among these distances:
261 5 0.00
262 3 0.00
263 3 0.00
264 929 0.84
265 110 0.10
266 49 0.04
267 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (263 bp):
CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
TGGCGGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCTATATTGGAGGAAGTGGATCAAAGATA
GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAG
ATG
Found at i:10873907 original size:396 final size:396
Alignment explanation
Indices: 10872651--10874276 Score: 1720
Period size: 396 Copynumber: 4.1 Consensus size: 396
10872641 GGCAGTGGAA
* * * *
10872651 TAGATTGAAGATTA-CAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGCAGAAAGTAGAT
1 TAGATCGAAGA-TAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGAT
** * *
10872715 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
65 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAG
* * * *
10872780 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAG
130 GAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
*
10872845 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGAT
195 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATATTGAT
* *
10872910 AGGAAGTAGATCCAAGATGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
260 AGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
* * * * * *
10872975 ATG-TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTAACTTCCTATATT
325 A-GATCTTGTCTTCATGTAGTGGCG-GAAGTAGATCAAAGAAAGCAGATCCTATCTTCATATATT
*
10873039 GATAG-GAAG
388 G-GAGTGAAG
* * * *
10873048 TGGATCCAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGGTC
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
*
10873112 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGG
66 TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAGG
10873177 AAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGA
131 AAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGA
* * *
10873242 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATT
196 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATATTGATA
* * *
10873307 GGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
261 GGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
* * * *
10873372 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA-CAGGTCCTATCTTCCTATAAT-
326 GATCTTGTCTTCATGTAGTGGCG-GAAGTAGATCAAAGA-AAGCAGATCCTATCTTCATATATTG
*
10873435 GATTGGAAG
389 GAGT-GAAG
* *
10873444 TGGATCGACGATA-CAGATCTTGTCTT-CTCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGAT
1 TAGATCGAAGATAGCAGATCTTGTCTTCCT-ATATTGGTGGCGAAGTAGATCGCAGAAAGCAGAT
10873507 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAG
65 CTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAG
* * ** *
10873572 GAAGTGGATCCAAGATACAGATCTTGTCTTCCAATACTGGTGGTAAAGTAGATTGAAGAAAGCAG
130 GAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
* * * *
10873637 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGT
195 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATATTGAT
* * * *
10873702 AGAAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCACG-ATG
260 AGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCA-GAAAG
* ** ** * *
10873766 CAGATCTTGTCTTCCCATATTAGTGGC-GAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTA
324 CAGATCTTGTCTT--CAT-GTAGTGGCGGAAGTAGATCAAAGAAAGCAGATCCTATCTTCATATA
*
10873830 TTGGCGTGAAG
386 TTGGAGTGAAG
* * * * * * *
10873841 TAGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCG-ACG-ATGCAAAT
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCA-GAAAGCAGAT
*** * * * * * * *
10873903 CTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA-AGCA-GACCTTGTCTTCATGTATTG-
65 CTTGTCTTCATGTATTGG-CGTGAAGTAGATCG-AAAATAGCAGGTCC-TATCTTCCTATATTGA
** * * * * * * *
10873965 GCGTGAAGTAGATCAAAGATAGTA-AGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGACG-
127 TAG-GAAGTGGATCCAAGATA-CAGA-TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
* *** * * ** * * * *
10874027 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA-GACCTTGTCTTCAT
189 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGCAGGTCC-TATCTTCCT
* ** * * * * * *
10874091 GTATTG-GCGTGAAGTAGATCAAAGATAGTA-AGTCTTGTCTTCCTATATTGATAG-GAAGTGGA
252 ATATTGATAG-GAAGTAGATCGAAGAT-GCAGA-TCTTGTCTTCCCATATTGGTGGCGAAGTAGA
* * * * * *
10874153 TC-CA-AGATGCAGATCTTGTCTTCCCATACTGGTGG-TGAAGTAGATCAAAAAAAAAACAGATC
314 TCGCAGA-AAGCAGATCTTGTCTT--CAT-GTAGTGGCGGAAGTAGATC--AAAGAAAGCAGATC
* * * **
10874215 TTGTATTCATATATTGGTTTGAAG
373 CTATCTTCATATATTGGAGTGAAG
*
10874239 TAGATCGAAGATAGCAGATCTTGCCTTCCTATATTGGT
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGT
10874277 AGGAAGTGGA
Statistics
Matches: 1065, Mismatches: 132, Indels: 63
0.85 0.10 0.05
Matches are distributed among these distances:
394 1 0.00
395 2 0.00
396 754 0.71
397 168 0.16
398 132 0.12
399 8 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (396 bp):
TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATC
TTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTATCTTCCTATATTGATAGG
AAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGA
TCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATATTGATA
GGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCA
GATCTTGTCTTCATGTAGTGGCGGAAGTAGATCAAAGAAAGCAGATCCTATCTTCATATATTGGA
GTGAAG
Found at i:10873927 original size:132 final size:132
Alignment explanation
Indices: 10873725--10874287 Score: 849
Period size: 132 Copynumber: 4.2 Consensus size: 132
10873715 ACGATGCAGA
* * * *
10873725 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCACGATGCAGATCTTGTCTTCCCATATTAGT
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCG-ACGATGCAGATCTTGTCTTCCCATATTGGT
**
10873790 GGCGAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
64 GGCGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
*
10873855 TAGG
129 TAAG
*
10873859 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
10873924 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
10873989 AG
131 AG
10873991 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
10874056 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
10874121 AG
131 AG
* * * *
10874123 TCTTGTCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* ** * * * * * ** *
10874188 TGAAGTAGATCAAAAAAAAAACAGATCTTGTATTCATATATTGGTTTGAAGTAGATCGAAGATAG
66 CGAAGTAGATC--GCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
*
10874253 -CAG
129 TAAG
*
10874256 ATCTTGCCTTCCTATATTGGTAGGAAGTGGAT
1 -TCTTGTCTTCCTATATTGGTAGGAAGTGGAT
10874288 TGAAAAACAG
Statistics
Matches: 399, Mismatches: 27, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
132 296 0.74
133 12 0.03
134 91 0.23
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (132 bp):
TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
AG
Found at i:10874368 original size:44 final size:40
Alignment explanation
Indices: 10874320--10874414 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
10874310 TGTATTTGGC
*
10874320 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAAT
1 AGTGGAACAGA-T-AAGATT-CAG-TCTTATCTCCCTAAGCAAT
* * * *
10874364 AGTGGAGCAGATCATATTCAGTCTTATCTCCCTAAGCAGT
1 AGTGGAACAGATAAGATTCAGTCTTATCTCCCTAAGCAAT
*
10874404 AGTGGAGCAGA
1 AGTGGAACAGA
10874415 CGAAGAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.63
41 3 0.07
42 4 0.09
43 1 0.02
44 9 0.20
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (40 bp):
AGTGGAACAGATAAGATTCAGTCTTATCTCCCTAAGCAAT
Found at i:10876453 original size:2 final size:2
Alignment explanation
Indices: 10876446--10876480 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
10876436 GCCATTTATT
* *
10876446 TA TA TA TA TA TA TA TG TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10876481 TCTTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10878899 original size:18 final size:18
Alignment explanation
Indices: 10878873--10878910 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10878863 TATTTATCAC
*
10878873 ACGTTTATGTATGTGAAA
1 ACGTGTATGTATGTGAAA
10878891 ACGTGTATGTATGTGAAA
1 ACGTGTATGTATGTGAAA
10878909 AC
1 AC
10878911 CATATATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (18 bp):
ACGTGTATGTATGTGAAA
Found at i:10887704 original size:15 final size:15
Alignment explanation
Indices: 10887684--10887716 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10887674 GAAGGATGAG
10887684 AATGATTATGATTAT
1 AATGATTATGATTAT
10887699 AATGATTATGATTAT
1 AATGATTATGATTAT
10887714 AAT
1 AAT
10887717 CGGAGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (15 bp):
AATGATTATGATTAT
Found at i:10888344 original size:42 final size:41
Alignment explanation
Indices: 10888255--10888352 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
10888245 TGTTTAATTA
* * *
10888255 ATTTTTTAAAATTTTAAAAATTCAATTAAATATATAAAAATT
1 ATTTTTTAAATTTTTAAAAATT-AATAAAATATATAAAAAAT
10888297 A-TTTTTAAATTTATTAAAAATGT-ATAAAAT-TATAAAAGAAT
1 ATTTTTTAAATTT-TTAAAAAT-TAATAAAATATATAAAA-AAT
*
10888338 ATTTTTTATATTTTT
1 ATTTTTTAAATTTTT
10888353 TAAATCTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
40 7 0.15
41 21 0.44
42 19 0.40
43 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
ATTTTTTAAATTTTTAAAAATTAATAAAATATATAAAAAAT
Found at i:10894908 original size:47 final size:46
Alignment explanation
Indices: 10894845--10894971 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
10894835 TCTTTACATA
* * * *
10894845 ATGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTC
1 ATGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCAC
* * *
10894891 ACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 A-TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCAC
*
10894938 ATCGATGCCATATCCCAGATATGGTCTTATACAG
1 AT-GATGCCATATCCCAGATATGGTCTTACACAG
10894972 AAATCACTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 2 0.03
47 66 0.94
48 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (46 bp):
ATGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCAC
Found at i:10895032 original size:31 final size:31
Alignment explanation
Indices: 10894995--10895196 Score: 296
Period size: 31 Copynumber: 6.5 Consensus size: 31
10894985 CTTGTAGCCA
* * *
10894995 AAGCTACAACTATTCATTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** * *
10895026 GTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
10895057 GAGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
10895088 AAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
10895119 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
10895150 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
10895181 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
10895197 GTTGTCATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:10895273 original size:50 final size:50
Alignment explanation
Indices: 10895174--10895350 Score: 221
Period size: 50 Copynumber: 3.5 Consensus size: 50
10895164 CACTGATCAG
* * * * * *
10895174 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTAATCAGATAAGT
*
10895225 GTAGCCGAAACTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
* * * * *
10895275 GTAGTCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
10895325 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
10895351 GTTTCCATGG
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
50 86 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
Found at i:10897416 original size:43 final size:42
Alignment explanation
Indices: 10897355--10897494 Score: 181
Period size: 43 Copynumber: 3.2 Consensus size: 42
10897345 AGGCTGTTAC
*
10897355 AACGCCGTTATAGACCTGTACTTTTAGCGGCGCTTTTTTAAAA
1 AACGCCGCTAT-GACCTGTACTTTTAGCGGCGCTTTTTTAAAA
*
10897398 AACGCCGCTATCGACCTGTACTTTTAGCGGCGCTTTTATAAAAA
1 AACGCCGCTAT-GACCTGTACTTTTAGCGGCGCTTTT-TTAAAA
* * * * *
10897442 AACACCGCTAATGACCAGGACCTTTAGCAGCGCTTTTTTAAAA
1 AACGCCGCT-ATGACCTGTACTTTTAGCGGCGCTTTTTTAAAA
10897485 AACGCCGCTA
1 AACGCCGCTA
10897495 ATTTGCCCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 48 0.56
44 34 0.40
45 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
AACGCCGCTATGACCTGTACTTTTAGCGGCGCTTTTTTAAAA
Found at i:10897468 original size:44 final size:44
Alignment explanation
Indices: 10897377--10897496 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
10897367 GACCTGTACT
* * *
10897377 TTTAGCGGCGCTTTTTTAAAAAACGCCGCT-ATCGACCTGTACT
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAATCGACCAGGACC
* *
10897420 TTTAGCGGCGCTTTTATAAAAAAACACCGCTAAT-GACCAGGACC
1 TTTAGCGGCGCTTTT-TTAAAAAACGCCGCTAATCGACCAGGACC
*
10897464 TTTAGCAGCGCTTTTTTAAAAAACGCCGCTAAT
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAT
10897497 TTGCCCAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 31 0.46
44 34 0.51
45 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAATCGACCAGGACC
Found at i:10897822 original size:21 final size:21
Alignment explanation
Indices: 10897798--10897838 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10897788 GTTCTGCTCC
10897798 GCCTCCCTCGCTGCTGCCTCA
1 GCCTCCCTCGCTGCTGCCTCA
10897819 GCCTCCCTCGCTGCTGCCTC
1 GCCTCCCTCGCTGCTGCCTC
10897839 CGCTCTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.54, G:0.20, T:0.24
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTGCCTCA
Found at i:10898429 original size:18 final size:18
Alignment explanation
Indices: 10898397--10898434 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10898387 TACAATATAG
10898397 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
10898416 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
10898433 TA
1 TA
10898435 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:10902729 original size:10 final size:11
Alignment explanation
Indices: 10902708--10902758 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
10902698 ACTAAACCAC
10902708 TTTTCATATATA
1 TTTT-ATATATA
10902720 TATTTATATATA
1 T-TTTATATATA
*
10902732 TTTTAAAATAATA
1 TTTT-ATAT-ATA
10902745 TTTTATATATA
1 TTTTATATATA
10902756 TTT
1 TTT
10902759 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:10902767 original size:15 final size:15
Alignment explanation
Indices: 10902747--10902778 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10902737 AAATAATATT
*
10902747 TTATATATATTTATC
1 TTATATACATTTATC
10902762 TTATATACATTTATC
1 TTATATACATTTATC
10902777 TT
1 TT
10902779 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:10902823 original size:26 final size:27
Alignment explanation
Indices: 10902778--10902836 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
10902768 ACATTTATCT
*
10902778 TCTAAATTAAAATCCAAAAT-T-ATAC
1 TCTAAATTAAAACCCAAAATCTGATAC
*
10902803 TCTAAATTTAAAACCCTAAATCTGATAC
1 TCTAAA-TTAAAACCCAAAATCTGATAC
10902831 TCTAAA
1 TCTAAA
10902837 CACTAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 12 0.41
27 1 0.03
28 10 0.34
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (27 bp):
TCTAAATTAAAACCCAAAATCTGATAC
Found at i:10903878 original size:41 final size:41
Alignment explanation
Indices: 10903832--10903969 Score: 215
Period size: 41 Copynumber: 3.4 Consensus size: 41
10903822 GGTTATGGGA
*
10903832 TTTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAACGAAAGCGCCGCTAATGCTCTGG
* * *
10903873 TTTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTAACGAAAGCGCCGCTAATGCTCTGG
*
10903914 TTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAACGAAAGCGCCGCTAATGCTCTGG
*
10903955 -TTTTAGCGGCATTTT
1 TTTTTAGCGGCGTTTT
10903970 TTACTAAAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 14 0.16
41 75 0.84
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTAACGAAAGCGCCGCTAATGCTCTGG
Found at i:10907311 original size:24 final size:24
Alignment explanation
Indices: 10907182--10907341 Score: 108
Period size: 24 Copynumber: 6.7 Consensus size: 24
10907172 CAACCGATTT
* **
10907182 CGCACACATAGTGCTAAACAAATT-
1 CGCACACATAGTGCCATTC-AATTC
* * **
10907206 CGCACACATAGTGCCATGCTACAC
1 CGCACACATAGTGCCATTCAATTC
* *
10907230 CGCACACATAGTGCC-TTGAATATT
1 CGCACACATAGTGCCATTCAAT-TC
* * ** * * * *
10907254 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAATTC
*
10907278 AGCACACATAGTGCCATTCAATTC
1 CGCACACATAGTGCCATTCAATTC
*
10907302 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAATTC
*
10907326 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
10907342 ATGTTGACCC
Statistics
Matches: 99, Mismatches: 34, Indels: 6
0.71 0.24 0.04
Matches are distributed among these distances:
23 3 0.03
24 93 0.94
25 3 0.03
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAATTC
Found at i:10911873 original size:3 final size:3
Alignment explanation
Indices: 10911867--10911931 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
10911857 ATCTAAAATT
* ** *
10911867 TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10911910 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
10911932 GGTTTCATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10911933 original size:42 final size:43
Alignment explanation
Indices: 10911867--10911956 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
10911857 ATCTAAAATT
* *
10911867 TTATTATTATTAATTATTAGTATGGTTTTATATTAAATTATTA
1 TTATTATTATTAATTATTAGTATGGTTTCATATTAAATTATAA
* *
10911910 TTATTATTATT-ATTATTATTATGGTTTCATATTAAGTTATAA
1 TTATTATTATTAATTATTAGTATGGTTTCATATTAAATTATAA
10911952 TTATT
1 TTATT
10911957 TAATCGGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (43 bp):
TTATTATTATTAATTATTAGTATGGTTTCATATTAAATTATAA
Found at i:10912197 original size:23 final size:22
Alignment explanation
Indices: 10912171--10912227 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
10912161 ATAATGACAA
*
10912171 TTGTAATAAAA-ATATTGGTACAT
1 TTGTAATAAAAGATA-T-GTACAC
10912194 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-AGATATGTACAC
10912217 TTGTAATAAAA
1 TTGTAATAAAA
10912228 TAACTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.81
24 2 0.06
25 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGTAATAAAAGATATGTACAC
Found at i:10912455 original size:22 final size:21
Alignment explanation
Indices: 10912423--10912463 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
10912413 TAAACAAAGT
10912423 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
10912444 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
10912464 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:10913230 original size:16 final size:17
Alignment explanation
Indices: 10913209--10913240 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10913199 TGAATATGTA
10913209 TTGAAATT-AAATTGAG
1 TTGAAATTGAAATTGAG
10913225 TTGAAATTGAAATTGA
1 TTGAAATTGAAATTGA
10913241 AAAGTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (17 bp):
TTGAAATTGAAATTGAG
Found at i:10913398 original size:20 final size:22
Alignment explanation
Indices: 10913345--10913401 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
10913335 GCCGATCAGA
10913345 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCG-ATTTTAGG
* **
10913368 CACCTCGTGTGTC-A-TTTAGG
1 CACTTTATGTGTCGATTTTAGG
10913388 CACTTTATGTGTCG
1 CACTTTATGTGTCG
10913402 TATTCTGATC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
23 10 0.37
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (22 bp):
CACTTTATGTGTCGATTTTAGG
Found at i:10915185 original size:35 final size:35
Alignment explanation
Indices: 10915146--10915218 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
10915136 AACATCTAAT
10915146 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
1 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
10915181 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
1 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
10915216 GTC
1 GTC
10915219 AAAAACAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (35 bp):
GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
Found at i:10916884 original size:19 final size:20
Alignment explanation
Indices: 10916857--10916896 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10916847 AAATATTAAA
*
10916857 AACTCAATTA-TAATAATAT
1 AACTCAATTACTAAAAATAT
*
10916876 AACTTAATTACTAAAAATAT
1 AACTCAATTACTAAAAATAT
10916896 A
1 A
10916897 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (20 bp):
AACTCAATTACTAAAAATAT
Found at i:10917841 original size:15 final size:14
Alignment explanation
Indices: 10917810--10917862 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
10917800 TAAATCAAGA
10917810 TTTTAACAACTTTTAT
1 TTTTAA-AA-TTTTAT
10917826 TTTTAAAATTTATAT
1 TTTTAAAATTT-TAT
** *
10917841 TTTTTTAATTTTTT
1 TTTTAAAATTTTAT
10917855 TTTTAAAA
1 TTTTAAAA
10917863 ATTGAAGGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 11 0.35
15 14 0.45
16 6 0.19
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTTTAT
Found at i:10918174 original size:21 final size:21
Alignment explanation
Indices: 10918149--10918188 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10918139 GCATTTAAGG
10918149 TTACATTAGCCTTTTTAACAA
1 TTACATTAGCCTTTTTAACAA
10918170 TTACATTAGCCTTTTTAAC
1 TTACATTAGCCTTTTTAAC
10918189 CCTCCATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (21 bp):
TTACATTAGCCTTTTTAACAA
Found at i:10919290 original size:26 final size:26
Alignment explanation
Indices: 10919258--10919345 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 26
10919248 TGTCTCTTCT
10919258 CCTCCACCTTCATCACCACCCCCTCC
1 CCTCCACCTTCATCACCACCCCCTCC
*
10919284 CCTCCACCTTCATCACAACCCCCCTCC
1 CCTCCACCTTCATCACCA-CCCCCTCC
* * *
10919311 CCTCCACC-TCAATCCCCACCACCACC
1 CCTCCACCTTC-ATCACCACCCCCTCC
10919337 ACCTCCACC
1 -CCTCCACC
10919346 ATTAGTGCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 25 0.46
27 29 0.54
ACGTcount: A:0.19, C:0.65, G:0.00, T:0.16
Consensus pattern (26 bp):
CCTCCACCTTCATCACCACCCCCTCC
Found at i:10919314 original size:27 final size:26
Alignment explanation
Indices: 10919258--10919319 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
10919248 TGTCTCTTCT
*
10919258 CCTCCACCTTCATCACCACCCCCTCC
1 CCTCCACCTTCATCACAACCCCCTCC
10919284 CCTCCACCTTCATCACAACCCCCCTCC
1 CCTCCACCTTCATCACAA-CCCCCTCC
10919311 CCTCCACCT
1 CCTCCACCT
10919320 CAATCCCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.16, C:0.65, G:0.00, T:0.19
Consensus pattern (26 bp):
CCTCCACCTTCATCACAACCCCCTCC
Found at i:10919384 original size:24 final size:24
Alignment explanation
Indices: 10919329--10919387 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
10919319 TCAATCCCCA
* * * *
10919329 CCACCACCACCTCCACCATTAGTG
1 CCACCACCACCACCACCATCAATC
**
10919353 CCTTCACCACCACCACCATCAATC
1 CCACCACCACCACCACCATCAATC
10919377 CCACCACCACC
1 CCACCACCACC
10919388 GCTAGTTCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.56, G:0.03, T:0.14
Consensus pattern (24 bp):
CCACCACCACCACCACCATCAATC
Found at i:10924016 original size:20 final size:19
Alignment explanation
Indices: 10923991--10924036 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10923981 CCGCAACAAT
10923991 AAAAAAAAGAACTGAAAAAG
1 AAAAAAAA-AACTGAAAAAG
* *
10924011 AAAAAAAACACTGAAAACG
1 AAAAAAAAAACTGAAAAAG
10924030 AAAAAAA
1 AAAAAAA
10924037 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.76, C:0.09, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAACTGAAAAAG
Found at i:10924194 original size:25 final size:24
Alignment explanation
Indices: 10924160--10924222 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
10924150 AATCAGCAGC
**
10924160 AAGGAGAAGAAAATAAAGGGAAAG
1 AAGGAGAAGAAAATAAAGAAAAAG
* *
10924184 AAAGGAGAAGAGAATGAAGAAAAAG
1 -AAGGAGAAGAAAATAAAGAAAAAG
10924209 AAGGAGAAGGAAAA
1 AAGGAGAA-GAAAA
10924223 CAGAAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (24 bp):
AAGGAGAAGAAAATAAAGAAAAAG
Found at i:10924217 original size:15 final size:15
Alignment explanation
Indices: 10924160--10924245 Score: 50
Period size: 16 Copynumber: 5.3 Consensus size: 15
10924150 AATCAGCAGC
10924160 AAGGAGAAGAAAATA-
1 AAGGAGAAGAAAA-AG
*
10924175 AAGG-GAAAGAAAGGAG
1 AAGGAG-AAGAAA-AAG
10924191 AAGAGAATGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
10924209 AAGGAGAAGGAAAACAG
1 AAGGAGAA-GAAAA-AG
* *
10924226 AAAGAAAAGAAAAAAG
1 AAGGAGAAG-AAAAAG
10924242 AAGG
1 AAGG
10924246 TATAAATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
14 1 0.02
15 14 0.25
16 15 0.27
17 14 0.25
18 5 0.09
19 6 0.11
20 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.31, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:10924346 original size:23 final size:23
Alignment explanation
Indices: 10924303--10924346 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10924293 GCTATTATTA
* *
10924303 TTGTTGTTGATTTTTATTATTTT
1 TTGTTGTTGATTATTAATATTTT
10924326 TTGTTGTT-AGTTATTAATATT
1 TTGTTGTTGA-TTATTAATATT
10924347 GTTAGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (23 bp):
TTGTTGTTGATTATTAATATTTT
Found at i:10924400 original size:23 final size:25
Alignment explanation
Indices: 10924343--10924401 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
10924333 TAGTTATTAA
* *
10924343 TATTGTTAGTAAAAAATCCTTGTTAT
1 TATTGTTAGTAAAAAATCC-TATAAT
*
10924369 TATTATTAGTAAAAAA-CC-ATAAT
1 TATTGTTAGTAAAAAATCCTATAAT
10924392 TATTGTTAGT
1 TATTGTTAGT
10924402 TATTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 12 0.41
25 2 0.07
26 15 0.52
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (25 bp):
TATTGTTAGTAAAAAATCCTATAAT
Found at i:10930940 original size:146 final size:145
Alignment explanation
Indices: 10930752--10931950 Score: 1529
Period size: 146 Copynumber: 8.2 Consensus size: 145
10930742 ATAAGTAAAA
* * * * *
10930752 TATTTTCGTATATTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
*
10930817 TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTCGTATCTTA
66 TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTTTTTTCGTATCTTA
10930882 TTTTTTAAAATATAT
131 TTTTTTAAAATATAT
* ** *
10930897 TATTTTCGTATTTTATTTCTTTATATCATTTTAGTACATAATGTTTTGAATGTATTATTTAAGTT
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** *
10930962 TTTTTTATATTTTTTTAATAAATAACCCTGATTTT-AGCACTTCATTCGTATTTTTTTCGTATCT
65 TTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTTCGTATCT
10931026 TATTTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* *
10931043 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * *
10931108 TTTTTTATATTTTTTTAATAAATAACTCTGATTTTAGA-ACTTTATTCGTATTTTTTTCGTATAT
65 TTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTATTCGTATTTTTTTCGTATCT
10931172 TATTTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* * * *
10931189 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
10931254 TTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTATTTTTATTTTCGTA
65 -TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTA--TTT-TTTTCGTA
*
10931319 ACTTA-TTTTTAAAATATAT
126 TCTTATTTTTTAAAATATAT
* *
10931338 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * * *
10931403 TTATTTATATT-TTTTCAATAAATAACCTTGATTTT-AGCACTTTATTCGTATTTTTTTCGTATA
65 TTTTTTATATTAATTT-AATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTTCGTATC
10931466 TTATTTTTTAAAATATAT
128 TTATTTTTTAAAATATAT
* * * * * *
10931484 TATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATATTTCAAATGTATTACTTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
*
10931549 TTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTAATTTTTTTATTTTCG
66 TT-TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGT-A----TTT-TTTTCG
10931614 TATCTTATTTTTTAAAATATAT
124 TATCTTATTTTTTAAAATATAT
10931636 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * *
10931701 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTT-AGCACTTTATTCATATTTTTTTCGTATA
65 -TTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTATTTTTTTCGTATC
10931765 TTATTTTTTAAAATATAT
128 TTATTTTTTAAAATATAT
** *
10931783 TATTTTCGTATTTTA-----T-T-TTA--GCA-TA-A-AATCTTTCAAATGTATTATTTAA--GT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
* * * * * *
10931834 TTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCATATTTTTTTATTTTCGAA
66 TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTA----TTT-TTTTCGTA
* *
10931899 TTTTATTTTTTAAAATATAC
126 TCTTATTTTTTAAAATATAT
*
10931919 TATTTTCATATTTTATTTTTTATATTATTTTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTA
10931951 ACAAAAAACT
Statistics
Matches: 930, Mismatches: 83, Indels: 82
0.85 0.08 0.07
Matches are distributed among these distances:
131 43 0.05
132 1 0.00
134 22 0.02
135 4 0.00
136 41 0.04
137 1 0.00
139 3 0.00
140 1 0.00
141 2 0.00
142 1 0.00
143 3 0.00
145 71 0.08
146 377 0.41
147 97 0.10
148 47 0.05
149 72 0.08
150 11 0.01
151 3 0.00
152 46 0.05
153 81 0.09
154 3 0.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (145 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
TTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGTATTTTTTTCGTATCTTA
TTTTTTAAAATATAT
Found at i:10931367 original size:29 final size:28
Alignment explanation
Indices: 10931303--10931367 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
10931293 ACTTTTTTCG
*
10931303 TATTTTTATTTTCGTAACTTATTTTTAA
1 TATTATTATTTTCGTAACTTATTTTTAA
* ** *
10931331 AATATATTATTTTCGTATTTTATTTCTTCA
1 TAT-TATTATTTTCGTAACTTATTT-TTAA
10931361 TATTATT
1 TATTATT
10931368 TTAGTACATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.07
29 22 0.76
30 5 0.17
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (28 bp):
TATTATTATTTTCGTAACTTATTTTTAA
Found at i:10931427 original size:295 final size:296
Alignment explanation
Indices: 10930752--10931950 Score: 1696
Period size: 295 Copynumber: 4.1 Consensus size: 296
10930742 ATAAGTAAAA
* * * * *
10930752 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** * *
10930816 TTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTATTTTTTTCGTATCT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGA-ACTTTATTCGTATTTTTTTCGTATAT
* * * * **
10930880 TATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATCATTTTAGTACATAATGTTTTG
130 TATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCA
** *
10930945 AATGTATTATTTAAGT-TTTTTTTATATTTTTTTAATAAATAACCCTGATTTT-AGCACTTCATT
194 AATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTATT
*
10931008 CGTA---TTT-TTTTCGTATCTTATTTTTTAAAATATAT
258 CGTATTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
* *
10931043 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
10931108 TTTTTTATATTTTTTTAATAAATAACTCTGATTTTAGAACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGAACTTTATTCGTATTTTTTTCGTATATT
10931173 ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAA
131 ATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGCAAAAAATGTTTCAA
* *
10931238 ATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCG
195 ATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCG
10931303 TA-TTTTTATTTTCGTAACTTA-TTTTTAAAATATAT
260 TATTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
* *
10931338 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * * *
10931403 TTATTTATATTTTTTCAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGAACTTTATTCGTATTTTTTTCGTATATT
* *
10931468 ATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATATTTCAAA
131 ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAA
* * *
10931533 TGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGT
196 TGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGT
*
10931598 AATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
261 -A-TTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
10931636 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
10931701 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATAT
66 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGAACTTTATTCGTATTTTTTTCGTATAT
* *
10931766 TATTTTTTAAAATATATTATTTTCG-----TA-----T-T-TTATTTTAGCATAAAATCTTTCAA
130 TATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAA
* * * * *
10931819 ATGTATTATTTAA--G-TTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCA
195 ATGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCG
* *
10931881 TATTTTTTTATTTTCG-AATTTTATTTTTTAAAATATAC
260 TA-TTTTTTATTTTCGTAA-CTTATTTTTTAAAATATAT
*
10931919 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
10931951 ACAAAAAACT
Statistics
Matches: 834, Mismatches: 60, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
282 15 0.02
283 49 0.06
284 43 0.05
285 1 0.00
287 34 0.04
288 1 0.00
289 1 0.00
291 17 0.02
292 166 0.20
293 50 0.06
294 97 0.12
295 169 0.20
296 12 0.01
297 18 0.02
298 77 0.09
299 84 0.10
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (296 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGAACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAA
TGTATTATTTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTATTCGT
ATTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
Found at i:10931818 original size:134 final size:133
Alignment explanation
Indices: 10931661--10931937 Score: 360
Period size: 131 Copynumber: 2.1 Consensus size: 133
10931651 TTTCTTTATA
* * * **
10931661 TTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTTTTAATAAATA
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAA--G-TTTTTTATATTAATTTAATAAATA
* * * *
10931726 ACCCTGATTTTAGCACTTTATTCATA-TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTT
63 ACCCTGACTTTAGCACCTTATTCATATTTTATTTTCGAATATTATTTTTTAAAATATACTATTTT
*
10931789 CGTATT
128 CATATT
*
10931795 TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAATTTAATAAATAACC
1 TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAATTTAATAAATAACC
* * *
10931860 CTGACTTTGGCACCTTGTTCATATTTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTT
66 CTGACTTTAGCACCTTATTCATA---TTTTATTTTCGAATATTATTTTTTAAAATATACTATTTT
10931925 CATATT
128 CATATT
10931931 TTATTTT
1 TTATTTT
10931938 TTATATTATT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
131 44 0.35
132 1 0.01
134 33 0.27
135 3 0.02
136 43 0.35
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.56
Consensus pattern (133 bp):
TTATTTTAGCACAAAATCTTTCAAATGTATTATTTAAGTTTTTTATATTAATTTAATAAATAACC
CTGACTTTAGCACCTTATTCATATTTTATTTTCGAATATTATTTTTTAAAATATACTATTTTCAT
ATT
Found at i:10932441 original size:17 final size:18
Alignment explanation
Indices: 10932419--10932465 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
10932409 CCTTTTTTTC
10932419 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
10932436 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
10932456 TTTCTTTTTC
1 CTTCTTTTTC
10932466 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:10932536 original size:3 final size:3
Alignment explanation
Indices: 10932507--10932573 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
10932497 TCCTCCTCCC
* * *
10932507 CTT CTT TTT CTTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TC CTT
1 CTT CTT CTT C-TT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT
* *
10932552 CTT CTC CTT CTT -TT CTT TTT CT
1 CTT CTT CTT CTT CTT CTT CTT CT
10932574 CCGCCTTCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 38 0.78
4 6 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:10932537 original size:16 final size:18
Alignment explanation
Indices: 10932507--10932564 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 18
10932497 TCCTCCTCCC
10932507 CTTCTTT-TTCTTTCTT-T
1 CTTCTTTCTTC-TTCTTCT
10932524 -TTCTTTCTTCTTCTTCT
1 CTTCTTTCTTCTTCTTCT
10932541 CTTCTTTC--CTTCTTCT
1 CTTCTTTCTTCTTCTTCT
10932557 CCTTCTTT
1 -CTTCTTT
10932565 TCTTTTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
16 19 0.51
17 11 0.30
18 7 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTTTCTTCTTCTTCT
Found at i:10932553 original size:22 final size:22
Alignment explanation
Indices: 10932506--10932569 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
10932496 CTCCTCCTCC
*
10932506 CCTTCTTTTTCTT-TCTT-TTT
1 CCTTCTTCTTCTTCTCTTCTTT
*
10932526 CTTTCTTCTTCTTCTCTTCTTT
1 CCTTCTTCTTCTTCTCTTCTTT
* *
10932548 CCTTCTTCTCCTTCTTTTCTTT
1 CCTTCTTCTTCTTCTCTTCTTT
10932570 TTCTCCGCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.30
21 4 0.11
22 22 0.59
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CCTTCTTCTTCTTCTCTTCTTT
Found at i:10932774 original size:18 final size:18
Alignment explanation
Indices: 10932734--10932774 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10932724 TTTATTTTTA
*
10932734 TTTTTTCGTTTTCAGTAT
1 TTTTTTCGTTTTCAATAT
*
10932752 TTTTTTCTTTTTCAAT-T
1 TTTTTTCGTTTTCAATAT
10932769 TTTTTT
1 TTTTTT
10932775 ACTGTTACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTTCGTTTTCAATAT
Found at i:10939487 original size:26 final size:28
Alignment explanation
Indices: 10939441--10939509 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
10939431 TTAATTGTTA
* *
10939441 TTTGATAAATTAAGAT-TTTAATAATAT
1 TTTGAAAAATTAAGATATTAAATAATAT
*
10939468 TTTGAAAAATTAA-ATATTAAATATTAT
1 TTTGAAAAATTAAGATATTAAATAATAT
*
10939495 TTTAAAAAAATTAAG
1 TTT-GAAAAATTAAG
10939510 TATAGAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 2 0.06
27 24 0.69
28 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTGAAAAATTAAGATATTAAATAATAT
Found at i:10941027 original size:19 final size:19
Alignment explanation
Indices: 10941003--10941039 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10940993 TTAAATGTTA
10941003 AAATTTTAATTTAATATAT
1 AAATTTTAATTTAATATAT
*
10941022 AAATTTTAATTTGATATA
1 AAATTTTAATTTAATATA
10941040 ATTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATTTTAATTTAATATAT
Found at i:10951165 original size:18 final size:18
Alignment explanation
Indices: 10951142--10951214 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
10951132 TTTAGTATTT
10951142 TTTTAAATTATTATAAAA
1 TTTTAAATTATTATAAAA
* *
10951160 TTTTAAAATAATAT-AAA
1 TTTTAAATTATTATAAAA
*
10951177 TTTTAGAATTTTTATAAATA
1 TTTTA-AATTATTATAAA-A
*
10951197 TTTTGAATT-TTA-AAAA
1 TTTTAAATTATTATAAAA
10951213 TT
1 TT
10951215 ATTTTGAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
16 3 0.07
17 11 0.24
18 21 0.46
19 6 0.13
20 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTAAATTATTATAAAA
Found at i:10951206 original size:19 final size:19
Alignment explanation
Indices: 10951171--10951227 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
10951161 TTTAAAATAA
*
10951171 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
10951189 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
10951207 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
10951227 T
1 T
10951228 TTTTTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 15 0.44
19 15 0.44
20 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:10953149 original size:31 final size:33
Alignment explanation
Indices: 10953114--10953191 Score: 133
Period size: 31 Copynumber: 2.4 Consensus size: 33
10953104 CAGCAGACAA
10953114 TACTTACCTTTCAAATTTTTT-TTTTG-TTTTT
1 TACTTACCTTTCAAATTTTTTATTTTGTTTTTT
*
10953145 TACTTACCTTTCAATTTTTTTATTTTGTTTTTT
1 TACTTACCTTTCAAATTTTTTATTTTGTTTTTT
10953178 TACTTACCTTTCAA
1 TACTTACCTTTCAA
10953192 TTTACACGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 20 0.45
32 5 0.11
33 19 0.43
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (33 bp):
TACTTACCTTTCAAATTTTTTATTTTGTTTTTT
Found at i:10953182 original size:33 final size:31
Alignment explanation
Indices: 10953114--10953194 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 31
10953104 CAGCAGACAA
*
10953114 TACTTACCTTTCAAATTTTTTTTTTGTTTTT
1 TACTTACCTTTCAATTTTTTTTTTTGTTTTT
10953145 TACTTACCTTTCAATTTTTTTATTTTGTTTTTT
1 TACTTACCTTTCAATTTTTTT-TTTTG-TTTTT
10953178 TACTTACCTTTCAATTT
1 TACTTACCTTTCAATTT
10953195 ACACGTACGT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 20 0.43
32 5 0.11
33 22 0.47
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.65
Consensus pattern (31 bp):
TACTTACCTTTCAATTTTTTTTTTTGTTTTT
Found at i:10959677 original size:31 final size:32
Alignment explanation
Indices: 10959640--10959701 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
10959630 ATAAGTTTTC
* *
10959640 ATTAATAAGTGATATGTGAAAAATA-AATTAA
1 ATTAATAAGTGAAATGTAAAAAATATAATTAA
10959671 ATTAATAAGTGAAATGTAAAAAATATAATTA
1 ATTAATAAGTGAAATGTAAAAAATATAATTA
10959702 CTTTTTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.32
Consensus pattern (32 bp):
ATTAATAAGTGAAATGTAAAAAATATAATTAA
Found at i:10962152 original size:26 final size:25
Alignment explanation
Indices: 10962123--10962213 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 25
10962113 ATATTTAATT
10962123 ATTTTTTA-AAATTTTAAAAATATATA
1 ATTTTTTATAAATTTTAAAAAT-T-TA
*
10962149 A-TTTTTATAATTTTTAATAAATTTA
1 ATTTTTTATAAATTTTAA-AAATTTA
** *
10962174 ATGATTTATAATTTTTAAAAATTTTA
1 ATTTTTTATAAATTTTAAAAA-TTTA
* *
10962200 AATTTTTAAAAATT
1 ATTTTTTATAAATT
10962214 AAATAAATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
25 12 0.23
26 37 0.70
27 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
ATTTTTTATAAATTTTAAAAATTTA
Found at i:10962171 original size:11 final size:9
Alignment explanation
Indices: 10962145--10962207 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
10962135 TTTAAAAATA
10962145 TATAATTTT
1 TATAATTTT
10962154 TATAATTTT
1 TATAATTTT
*
10962163 TAATAAATTT
1 T-ATAATTTT
* *
10962173 AATGA--TT
1 TATAATTTT
10962180 TATAATTTT
1 TATAATTTT
* *
10962189 TAAAAATTT
1 TATAATTTT
10962198 TA-AATTTT
1 TATAATTTT
10962206 TA
1 TA
10962208 AAAATTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
7 5 0.12
8 7 0.16
9 24 0.56
10 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
TATAATTTT
Found at i:10962174 original size:35 final size:34
Alignment explanation
Indices: 10962125--10962212 Score: 95
Period size: 35 Copynumber: 2.6 Consensus size: 34
10962115 ATTTAATTAT
* *
10962125 TTTTTAAAATTTTAAAAATATATAATTTTTATAA
1 TTTTTAAAAATTTAAAAATATATAATTTTTAAAA
** *
10962159 TTTTTAATAAATTTAATGATTTATAATTTTTAAAA
1 TTTTTAA-AAATTTAAAAATATATAATTTTTAAAA
* **
10962194 ATTTTAAATTTTTAAAAAT
1 TTTTTAAAAATTTAAAAAT
10962213 TAAATAAATA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 15 0.35
35 28 0.65
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TTTTTAAAAATTTAAAAATATATAATTTTTAAAA
Found at i:10962197 original size:17 final size:17
Alignment explanation
Indices: 10962134--10962213 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
10962124 TTTTTTAAAA
*
10962134 TTTTAAAAATATATAAT
1 TTTTAAAAATTTATAAT
* *
10962151 TTTT-ATAATTTTTAAT
1 TTTTAAAAATTTATAAT
* **
10962167 AAATTTAATGATTTATAAT
1 --TTTTAAAAATTTATAAT
10962186 TTTTAAAAATTT-TAAAT
1 TTTTAAAAATTTAT-AAT
10962203 TTTTAAAAATT
1 TTTTAAAAATT
10962214 AAATAAATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 10 0.20
17 27 0.54
18 3 0.06
19 10 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATTTATAAT
Found at i:10969438 original size:16 final size:16
Alignment explanation
Indices: 10969405--10969438 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10969395 AAGTAATGTT
* *
10969405 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10969421 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10969437 AA
1 AA
10969439 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10972264 original size:21 final size:21
Alignment explanation
Indices: 10972238--10972278 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10972228 AGACGAGCAA
* *
10972238 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10972259 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10972279 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10974216 original size:16 final size:16
Alignment explanation
Indices: 10974183--10974216 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10974173 GGAGATTGTT
* *
10974183 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10974199 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10974215 AA
1 AA
10974217 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10987939 original size:24 final size:24
Alignment explanation
Indices: 10987912--10987963 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10987902 TCAGATTATG
* *
10987912 CAGCAGAAGCATCAA-CTAATGCAA
1 CAGCAGAAGCAGCAAGC-AAAGCAA
*
10987936 CAGCAGCAGCAGCAAGCAAAGCAA
1 CAGCAGAAGCAGCAAGCAAAGCAA
10987960 CAGC
1 CAGC
10987964 TGCCCACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (24 bp):
CAGCAGAAGCAGCAAGCAAAGCAA
Found at i:11030394 original size:11 final size:12
Alignment explanation
Indices: 11030363--11030395 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11030353 TTTTACATTG
11030363 GTTTCTTTTCCA
1 GTTTCTTTTCCA
*
11030375 GTTTTTTTTCCA
1 GTTTCTTTTCCA
11030387 -TTTCTTTTC
1 GTTTCTTTTC
11030396 TAAGATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (12 bp):
GTTTCTTTTCCA
Found at i:11044613 original size:32 final size:34
Alignment explanation
Indices: 11044574--11044644 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 34
11044564 AATTTATTAC
*
11044574 TTTAATAAAACCA-TTTAATATT-ATAATTT-TAT
1 TTTAATAAAA-CATTTTAATATTAATAATTTAAAT
* *
11044606 TTTAATAATACATTTTAATGTTAATAATTTAAAT
1 TTTAATAAAACATTTTAATATTAATAATTTAAAT
11044640 TTTAA
1 TTTAA
11044645 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 2 0.06
32 17 0.52
33 7 0.21
34 7 0.21
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (34 bp):
TTTAATAAAACATTTTAATATTAATAATTTAAAT
Found at i:11058564 original size:112 final size:111
Alignment explanation
Indices: 11058367--11058595 Score: 334
Period size: 112 Copynumber: 2.0 Consensus size: 111
11058357 AATATTTGAG
*
11058367 TATACAATTATAGATGGACCATAAGGAACCGTACATATTGACTAATAAAAACATTGCATGTTTTG
1 TATACAATTATAGATGGACCATAAGGAACCATACA-ATTGACTAATAAAAACATTGCATGTTTTG
* * * *
11058432 TAAATAAATTAGACCACACTTTAGAGCTTATTGTATGTCTTATGCTT
65 TAAATAAACTAAACCACACTTTAGAGCTTATTATATGTCGTATGCTT
* *
11058479 TATACATATATATGGATGTACCATAAGGAACCATAC-ATTGACTAATAAAAACATTGCATGTTTT
1 TATACA-AT-TATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGTTTT
* * *
11058543 GTAGATAAACTAAACCACACTTTGGAGTTTATTATATGTCGTATGCTT
64 GTAAATAAACTAAACCACACTTTAGAGCTTATTATATGTCGTATGCTT
11058591 TATAC
1 TATAC
11058596 GTGCATATAG
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
112 80 0.76
113 2 0.02
114 23 0.22
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (111 bp):
TATACAATTATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGTTTTGT
AAATAAACTAAACCACACTTTAGAGCTTATTATATGTCGTATGCTT
Found at i:11062084 original size:9 final size:8
Alignment explanation
Indices: 11062065--11062106 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
11062055 AATATTTTAA
11062065 AAAAATAT
1 AAAAATAT
11062073 AAAAATAGT
1 AAAAATA-T
11062082 AAAAAATAT
1 -AAAAATAT
*
11062091 AAAAATAA
1 AAAAATAT
11062099 AAAAATAT
1 AAAAATAT
11062107 TGTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 21 0.70
9 2 0.07
10 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:11062087 original size:18 final size:16
Alignment explanation
Indices: 11062062--11062106 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 16
11062052 ATTAATATTT
11062062 TAAAAAAATATAAAAA
1 TAAAAAAATATAAAAA
11062078 TAGTAAAAAATATAAAAA
1 TA--AAAAAATATAAAAA
11062096 TAAAAAAATAT
1 TAAAAAAATAT
11062107 TGTAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.41
18 16 0.59
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
TAAAAAAATATAAAAA
Found at i:11066945 original size:84 final size:84
Alignment explanation
Indices: 11066807--11066974 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
11066797 ACTTAAAATT
11066807 TTCTCTGCAATTAATCTACCCCTATGAAGAGAGAAGACAAAAAGCACTCAAATTTATACTATATA
1 TTCTCTGCAATTAATCTACCCCTATGAAGAGAGAAGACAAAAAGCACTCAAATTTATACTATATA
11066872 TAAACAAAGAAAAAAGAAA
66 TAAACAAAGAAAAAAGAAA
11066891 TTCTCTGCAATTAATCTACCCCTATGAAGAGAGAAGACAAAAAGCACTCAAATTTATACTATATA
1 TTCTCTGCAATTAATCTACCCCTATGAAGAGAGAAGACAAAAAGCACTCAAATTTATACTATATA
11066956 TAAACAAAGAAAAAAGAAA
66 TAAACAAAGAAAAAAGAAA
11066975 GTCTGTCTGC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.23
Consensus pattern (84 bp):
TTCTCTGCAATTAATCTACCCCTATGAAGAGAGAAGACAAAAAGCACTCAAATTTATACTATATA
TAAACAAAGAAAAAAGAAA
Found at i:11070267 original size:9 final size:9
Alignment explanation
Indices: 11070247--11070291 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
11070237 ATTTTAATTT
11070247 AATTAT-AA
1 AATTATAAA
11070255 AATTATAAA
1 AATTATAAA
11070264 AATTATAAA
1 AATTATAAA
*
11070273 ATATATATACA
1 A-AT-TATAAA
11070284 AATTATAA
1 AATTATAA
11070292 TATTTGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 16 0.50
10 4 0.12
11 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:11070286 original size:20 final size:17
Alignment explanation
Indices: 11070247--11070291 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
11070237 ATTTTAATTT
11070247 AATTATAAAATTATAAA
1 AATTATAAAATTATAAA
11070264 AATTATAAAATATATATACA
1 AATTATAAAAT-TATA-A-A
11070284 AATTATAA
1 AATTATAA
11070292 TATTTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 4 0.16
19 1 0.04
20 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTATAAAATTATAAA
Found at i:11074682 original size:18 final size:19
Alignment explanation
Indices: 11074661--11074702 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11074651 ATTCCGGATT
*
11074661 TTTTATAACTA-TTAAGTA
1 TTTTATAACTATTTAAGAA
*
11074679 TTTTA-AATTATTTAAGAA
1 TTTTATAACTATTTAAGAA
11074697 TTTTAT
1 TTTTAT
11074703 GTCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTATAACTATTTAAGAA
Found at i:11078126 original size:183 final size:183
Alignment explanation
Indices: 11077806--11078175 Score: 551
Period size: 183 Copynumber: 2.0 Consensus size: 183
11077796 CAACTGGCAC
11077806 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
* ** * * *
11077871 ATCCTGAGACCTGACAGACTGAGTAACAGGTCCCTTTCGCAACGCTTGCTGCTCTTCGAACTCAC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* *
11077936 AGAGGGCATATTGAATTCCTTGGCCATGTTCCAAACTATCACTAGTCTTTGAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
* *** *
11077989 AAATTGTCCCATGAACTGGTTCTGTCTTCTAAGGGGATCTTTGGTTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
* * * *
11078054 ATCTTGAAACCTGGCAGACTGAGTAACAGACCCCTTTTGCAACCCTTGCAGCTCTTCAAACTCGC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* ** *
11078119 TGAGGGCATATTGAATTCCTTGGCCATATTCTGAGCTATCACTAGTCTTTAAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
11078172 AAAT
1 AAAT
11078176 GACTGATTCT
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
183 166 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (183 bp):
AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
Found at i:11086487 original size:27 final size:27
Alignment explanation
Indices: 11086438--11086507 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
11086428 AAAAAAATAA
* *
11086438 AAAAATATAAATATTTAACTTTAACTT
1 AAAAATATAAATATTTAAATTTAAATT
*
11086465 AAAAATAT-AATTTTTAAAATTTAAATT
1 AAAAATATAAATATTT-AAATTTAAATT
* *
11086492 TAAAATTTAAAATATT
1 AAAAATAT-AAATATT
11086508 ACACTTAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.18
27 23 0.68
29 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAATATAAATATTTAAATTTAAATT
Found at i:11086495 original size:13 final size:13
Alignment explanation
Indices: 11086477--11086502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11086467 AAATATAATT
11086477 TTTAAAATTTAAA
1 TTTAAAATTTAAA
11086490 TTTAAAATTTAAA
1 TTTAAAATTTAAA
11086503 ATATTACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAAATTTAAA
Found at i:11087126 original size:93 final size:93
Alignment explanation
Indices: 11086965--11087148 Score: 260
Period size: 93 Copynumber: 2.0 Consensus size: 93
11086955 GACAACTGTG
* * * * * * * *
11086965 AATCTCAAATATTGACCGTAAAACGGACATGAAATATACAAAAAATAAAAGAATCTATTGAATAT
1 AATCTCAAACATGGACAGTAAAACGAACATAAAACATACAAAAAATAAAAGAAACAATTGAATAT
11087030 TTTATGATTTGTAAAATTTAACGTTTTA
66 TTTATGATTTGTAAAATTTAACGTTTTA
* * * *
11087058 AATCTCAAACATGGACAGTAAAATGAACATAAAACATACCAAAAATAAAATAAACAATTGAATGT
1 AATCTCAAACATGGACAGTAAAACGAACATAAAACATACAAAAAATAAAAGAAACAATTGAATAT
11087123 TTTATGATTTGTAAAATTTAACGTTT
66 TTTATGATTTGTAAAATTTAACGTTT
11087149 CAATTCAATC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (93 bp):
AATCTCAAACATGGACAGTAAAACGAACATAAAACATACAAAAAATAAAAGAAACAATTGAATAT
TTTATGATTTGTAAAATTTAACGTTTTA
Found at i:11088580 original size:71 final size:74
Alignment explanation
Indices: 11088492--11088628 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 74
11088482 TTATACTTTA
*
11088492 AATTTTAATAGGTTGTGATTATT-AAAA-AA-AT-TATTAATATTAAAATAGTTTTATCTAAAAA
1 AATTTTAATAGGTTGTGATTATTAAAAATAACATATATTAATATCAAAATAGTTTTATCTAAAAA
11088553 ATAAATTAT
66 ATAAATTAT
* *
11088562 AATTTTAATAGATTTGTGATTATTAAAAATAACATATATTAATGTCAAAATAGTTTTATCTAAAA
1 AATTTTAATAG-GTTGTGATTATTAAAAATAACATATATTAATATCAAAATAGTTTTATCTAAAA
11088627 AA
65 AA
11088629 ATGTAAAGGA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
70 11 0.19
71 11 0.19
72 4 0.07
73 2 0.03
74 2 0.03
75 29 0.49
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (74 bp):
AATTTTAATAGGTTGTGATTATTAAAAATAACATATATTAATATCAAAATAGTTTTATCTAAAAA
ATAAATTAT
Found at i:11089874 original size:19 final size:21
Alignment explanation
Indices: 11089836--11089874 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11089826 TCTGAGTGAA
*
11089836 AATAAAATTGTAATATATTGG
1 AATAAAAATGTAATATATTGG
11089857 AATAAAAAT-TAA-ATATTG
1 AATAAAAATGTAATATATTG
11089875 TGTTGGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (21 bp):
AATAAAAATGTAATATATTGG
Found at i:11094876 original size:19 final size:19
Alignment explanation
Indices: 11094852--11094888 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11094842 CATCTCATCA
11094852 TTGGCCTTGTTGGAATTTG
1 TTGGCCTTGTTGGAATTTG
11094871 TTGGCCTTGTTGGAATTT
1 TTGGCCTTGTTGGAATTT
11094889 ATAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.49
Consensus pattern (19 bp):
TTGGCCTTGTTGGAATTTG
Found at i:11107877 original size:7 final size:7
Alignment explanation
Indices: 11107865--11107889 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11107855 GGGATGAATT
11107865 GAAATGA
1 GAAATGA
11107872 GAAATGA
1 GAAATGA
11107879 GAAATGA
1 GAAATGA
11107886 GAAA
1 GAAA
11107890 GGCCTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (7 bp):
GAAATGA
Found at i:11118096 original size:27 final size:27
Alignment explanation
Indices: 11118066--11118122 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11118056 AATTACGGTT
* *
11118066 TATTCAAAATAATTAT-TCAATTTAACA
1 TATTCAAAATAATAATAACAA-TTAACA
*
11118093 TATTCAAATTAATAATAACAATTAACA
1 TATTCAAAATAATAATAACAATTAACA
11118120 TAT
1 TAT
11118123 ACGAATCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (27 bp):
TATTCAAAATAATAATAACAATTAACA
Found at i:11118565 original size:35 final size:35
Alignment explanation
Indices: 11118519--11118590 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
11118509 CATTTCCGGA
*
11118519 GCTTGGCAAATATGAAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATAT-AAAAGGAGATCTTCAAAGATAT
*
11118554 GCTTGGCAAATATAGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATAAAAGGAGATCTTCAAAGATAT
11118589 GC
1 GC
11118591 AATCTTAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 5 0.15
35 29 0.85
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATAAAAGGAGATCTTCAAAGATAT
Found at i:11123715 original size:35 final size:35
Alignment explanation
Indices: 11123676--11123747 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
11123666 CATCTCCGGA
*
11123676 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
11123711 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
11123746 GC
1 GC
11123748 AATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:11126718 original size:23 final size:23
Alignment explanation
Indices: 11126692--11126789 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
11126682 ATAAGTGCCA
*
11126692 CACTGATGTGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11126715 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11126738 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11126760 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11126783 CACTGAT
1 CACTGAT
11126790 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11126757 original size:45 final size:45
Alignment explanation
Indices: 11126700--11126787 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
11126690 CACACTGATG
* *
11126700 TGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGGA
1 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGGA
11126745 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11126788 ATCAATAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (45 bp):
TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGGA
Found at i:11133507 original size:23 final size:23
Alignment explanation
Indices: 11133481--11133578 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
11133471 ATAAGTGCCA
*
11133481 CACTGATGTGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11133504 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11133527 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11133549 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11133572 CACTGAT
1 CACTGAT
11133579 CAATAACACT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11133546 original size:45 final size:45
Alignment explanation
Indices: 11133489--11133576 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
11133479 CACACTGATG
* * *
11133489 TGTAGCCGAAGCTACCACTGATATGTAGTCGAAGCTACCACTGGA
1 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGGA
11133534 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11133577 ATCAATAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (45 bp):
TGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGGA
Found at i:11141049 original size:20 final size:20
Alignment explanation
Indices: 11141037--11141092 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
11141027 AAAAATATAT
* *
11141037 AAATATATATAAATATTTTG
1 AAATATATATAAAAATTTTA
* *
11141057 AAATATGTATAATAATTTTA
1 AAATATATATAAAAATTTTA
11141077 AAATATATATAAAAAT
1 AAATATATATAAAAAT
11141093 AAAAATATGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AAATATATATAAAAATTTTA
Found at i:11142079 original size:22 final size:23
Alignment explanation
Indices: 11142036--11142080 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
11142026 AATTCCTTTT
**
11142036 TAATGTATAAAATTTTAAATTAA
1 TAATGTATAAAATTACAAATTAA
*
11142059 TAATG-ATAAAATTACATATTAA
1 TAATGTATAAAATTACAAATTAA
11142081 CCCTCTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATGTATAAAATTACAAATTAA
Found at i:11144837 original size:22 final size:22
Alignment explanation
Indices: 11144809--11144853 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11144799 CAAAAAAAAG
11144809 TCTTCCAATTTTTTTCCCAGTT
1 TCTTCCAATTTTTTTCCCAGTT
11144831 TCTTCCAATTTTTTTCCCAGTT
1 TCTTCCAATTTTTTTCCCAGTT
11144853 T
1 T
11144854 TTCTTTGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.27, G:0.04, T:0.56
Consensus pattern (22 bp):
TCTTCCAATTTTTTTCCCAGTT
Found at i:11151901 original size:16 final size:16
Alignment explanation
Indices: 11151880--11151912 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11151870 TTCATACATG
11151880 TTAATTTAATATGTAT
1 TTAATTTAATATGTAT
11151896 TTAATTTAATATGTAT
1 TTAATTTAATATGTAT
11151912 T
1 T
11151913 CATTATGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTAATTTAATATGTAT
Found at i:11152343 original size:31 final size:30
Alignment explanation
Indices: 11152300--11152360 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
11152290 AATAAGTTTC
11152300 TTTTAATAA-TTTTATAGTTTATTTTACCTTT
1 TTTTAATAATTTTTATA-TTT-TTTTACCTTT
* *
11152331 TTTTGATAATTTTTATATTTTTTTAGCTTT
1 TTTTAATAATTTTTATATTTTTTTACCTTT
11152361 ATAATAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 11 0.41
32 7 0.26
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTAATAATTTTTATATTTTTTTACCTTT
Found at i:11152973 original size:21 final size:21
Alignment explanation
Indices: 11152923--11152974 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
11152913 ATATCTTTAT
*
11152923 AATTTTTAAAGGATTAAATTA
1 AATTTTTATAGGATTAAATTA
11152944 AATTTTTATAGGATTAAATTA
1 AATTTTTATAGGATTAAATTA
11152965 AATTTTTATA
1 AATTTTTATA
11152975 ATTTTTGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (21 bp):
AATTTTTATAGGATTAAATTA
Found at i:11168962 original size:30 final size:30
Alignment explanation
Indices: 11168899--11168961 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
11168889 AATAGGTATA
*
11168899 TTTATAATTTTTAAAAAATTAAATTAAATT
1 TTTATAATTTTTAAAAAATAAAATTAAATT
11168929 TTTAT-ATTTTTAAGAAAATCAAAATGT-AATT
1 TTTATAATTTTTAA-AAAAT-AAAAT-TAAATT
11168960 TT
1 TT
11168962 ACCTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 8 0.28
30 10 0.34
31 10 0.34
32 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAATAAAATTAAATT
Found at i:11178582 original size:31 final size:30
Alignment explanation
Indices: 11178559--11178633 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
11178549 AAAATAATTT
11178559 AACAATTCAATGACTTAAATAAAAATTTTCA
1 AACAATTCAATGACTTAAATAAAAATTTT-A
* * *
11178590 AATAATTTAGTGACTTAAATAAAAATTTTGA
1 AACAATTCAATGACTTAAATAAAAATTTT-A
* *
11178621 AATAATTGAATGA
1 AACAATTCAATGA
11178634 TAATTTCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.35
Consensus pattern (30 bp):
AACAATTCAATGACTTAAATAAAAATTTTA
Found at i:11180038 original size:22 final size:23
Alignment explanation
Indices: 11180013--11180060 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
11180003 GGGTTTTAAT
*
11180013 GTTTTAAGGCATA-TGATTTAGG
1 GTTTTAAGGCATAGGGATTTAGG
* *
11180035 G-TTTAAGGTATAGGGTTTTAGG
1 GTTTTAAGGCATAGGGATTTAGG
11180057 GTTT
1 GTTT
11180061 ATGATATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.48
22 9 0.43
23 2 0.10
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (23 bp):
GTTTTAAGGCATAGGGATTTAGG
Found at i:11180041 original size:21 final size:22
Alignment explanation
Indices: 11180015--11180061 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11180005 GTTTTAATGT
*
11180015 TTTAAGGCATA-TGATTTAGGG
1 TTTAAGGCATAGGGATTTAGGG
* *
11180036 TTTAAGGTATAGGGTTTTAGGG
1 TTTAAGGCATAGGGATTTAGGG
11180058 TTTA
1 TTTA
11180062 TGATATAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (22 bp):
TTTAAGGCATAGGGATTTAGGG
Found at i:11180061 original size:22 final size:22
Alignment explanation
Indices: 11180029--11180071 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11180019 AGGCATATGA
*
11180029 TTTAGGGTTTAAGGTATAGGGT
1 TTTAGGGTTTAAGATATAGGGT
*
11180051 TTTAGGGTTTATGATATAGGG
1 TTTAGGGTTTAAGATATAGGG
11180072 CTTATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (22 bp):
TTTAGGGTTTAAGATATAGGGT
Found at i:11182698 original size:53 final size:53
Alignment explanation
Indices: 11182641--11182760 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
11182631 TATCTTAGAC
* *
11182641 ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCAATGCCATAGCCCAGCT
* *
11182694 ATGGTCTTATACGGAGTCACATTATCACATTGCACCAATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCAATGCCATAGCCCAGCT
*
11182747 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
11182761 GCACACTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCAATGCCATAGCCCAGCT
Found at i:11184639 original size:5 final size:5
Alignment explanation
Indices: 11184629--11184663 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
11184619 AAATTTAAAG
*
11184629 TTATA TTATA TTTTA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
11184664 ATGATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:11184694 original size:4 final size:4
Alignment explanation
Indices: 11184687--11184755 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
11184677 GAATAAATAA
*
11184687 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
11184736 AAAAG AAA- AATG AAAG AAAG
1 -AAAG AAAG AAAG AAAG AAAG
11184756 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.11
4 37 0.69
5 7 0.13
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:11184727 original size:33 final size:34
Alignment explanation
Indices: 11184685--11184754 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
11184675 AAGAATAAAT
* * *
11184685 AAAAAGAAAGAAAGATAGAAACGAAACA-GAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
11184718 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
11184752 AAA
1 AAA
11184755 GGAAGGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
Found at i:11185078 original size:18 final size:19
Alignment explanation
Indices: 11185043--11185080 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11185033 ATGAAAATTT
* *
11185043 TGAAATTTAGGGATTTAAA
1 TGAAATTTAGAGAGTTAAA
11185062 TGAAA-TTAGAGAGTTAAA
1 TGAAATTTAGAGAGTTAAA
11185080 T
1 T
11185081 CTAGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
TGAAATTTAGAGAGTTAAA
Found at i:11186880 original size:20 final size:20
Alignment explanation
Indices: 11186833--11186881 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11186823 TTCCCTTTAA
*
11186833 ATTATTTTATTTATAAGGTT
1 ATTATTTTATTTATAAGATT
* *
11186853 GTTGTTTTATTTAT-AGAATT
1 ATTATTTTATTTATAAG-ATT
11186873 ATTATTTTA
1 ATTATTTTA
11186882 ATAAATAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAGATT
Found at i:11187025 original size:20 final size:20
Alignment explanation
Indices: 11186989--11187029 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11186979 TTTTTATTGA
11186989 AAAATGAAATTTTATTTTTT
1 AAAATGAAATTTTATTTTTT
*
11187009 AAAAT-AAATTTTAATTTTT
1 AAAATGAAATTTTATTTTTT
11187028 AA
1 AA
11187030 GAATCAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAATGAAATTTTATTTTTT
Found at i:11188593 original size:15 final size:16
Alignment explanation
Indices: 11188566--11188597 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11188556 CTTATTTTGA
11188566 ATATATATATAAATGG
1 ATATATATATAAATGG
11188582 ATATAT-TATAAATGG
1 ATATATATATAAATGG
11188597 A
1 A
11188598 GATAGGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (16 bp):
ATATATATATAAATGG
Found at i:11189667 original size:12 final size:12
Alignment explanation
Indices: 11189650--11189683 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11189640 TGGCCCGCCG
11189650 ATATTAATTTTT
1 ATATTAATTTTT
*
11189662 ATATTATTTTTT
1 ATATTAATTTTT
11189674 ATA-TAATTTT
1 ATATTAATTTT
11189684 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11189841 original size:30 final size:30
Alignment explanation
Indices: 11189806--11189867 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11189796 CTTAACAAGT
11189806 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
* *
11189836 AAATATCTTTAATATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
11189866 AA
1 AA
11189868 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:11199915 original size:3 final size:3
Alignment explanation
Indices: 11199909--11199933 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11199899 CATCATCATC
11199909 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11199934 ATGAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11201667 original size:17 final size:18
Alignment explanation
Indices: 11201629--11201676 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
11201619 CATATGGCGG
11201629 GTTCTTTTTT-TAATTATT
1 GTTCTTTTTTAT-ATTATT
11201647 -TTCTTTTTTATATT-TT
1 GTTCTTTTTTATATTATT
*
11201663 GTTCTTTGTTATAT
1 GTTCTTTTTTATAT
11201677 GAGAGGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (18 bp):
GTTCTTTTTTATATTATT
Done.