Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 42 of 130
Found at i:10026118 original size:26 final size:26
Alignment explanation
Indices: 10026062--10026114 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
10026052 AATCTGGAAA
10026062 TTTC-CCAAAAATTTCCAGAAAAATT
1 TTTCACCAAAAATTTCCAGAAAAATT
*
10026087 TTTCACCAAAAATTT-C-TAAAAATT
1 TTTCACCAAAAATTTCCAGAAAAATT
10026111 TTTC
1 TTTC
10026115 TCACTCAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.42
25 5 0.19
26 10 0.38
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTCACCAAAAATTTCCAGAAAAATT
Found at i:10026377 original size:10 final size:10
Alignment explanation
Indices: 10026362--10026386 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10026352 TAGCCCTCCA
10026362 AAATAAAAAT
1 AAATAAAAAT
10026372 AAATAAAAAT
1 AAATAAAAAT
10026382 AAATA
1 AAATA
10026387 GATAATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:10026488 original size:3 final size:3
Alignment explanation
Indices: 10026482--10026609 Score: 58
Period size: 3 Copynumber: 42.3 Consensus size: 3
10026472 AAAAAAAAAA
*
10026482 AAT AAT AAT AA- AAT AAT AAT AAT -AT ATAT AACT ATAT AA- ATAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T A-AT AAT A-AT AAT
* * * *
10026528 -AC AAT -AT ATT AAT AAA AAA AAT AAAT AAAT AA- AAT -AT ACAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT A-AT AAT
10026572 AAT ATAT AAT AAT AAT AAAT AAT AA- AAT ACAT AA- AAT A
1 AAT A-AT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT A
10026610 CAAAAAAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 36
0.70 0.05 0.25
Matches are distributed among these distances:
2 16 0.16
3 56 0.56
4 27 0.27
5 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10026534 original size:70 final size:71
Alignment explanation
Indices: 10026460--10026628 Score: 184
Period size: 70 Copynumber: 2.4 Consensus size: 71
10026450 TAAACAAAAA
*
10026460 AATATTACAAAAAAAAAAAAAAAATAATAATAAAATA-ATAATAATATAT-ATAACT-ATATA-A
1 AATA-TACAAAAAAAAAAAAAAAATAATAA-AAAATACATAATAATATATAATAA-TAATAAATA
*
10026521 ATACAATAC
63 ATAAAATAC
** * * *
10026530 AATATATTAATAAAAAAAATAAATAAATAAAATATACATAATAATATATAATAATAATAAATAAT
1 AATATACAAAAAAAAAAAAAAAAT-AATAAAAAATACATAATAATATATAATAATAATAAATAAT
10026595 AAAATAC
65 AAAATAC
*
10026602 ATAAAATACAAAAAAAAAAAAAAAATA
1 --AATATACAAAAAAAAAAAAAAAATA
10026629 CAGGGTAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
69 21 0.26
70 22 0.28
71 8 0.10
72 9 0.11
73 1 0.01
74 19 0.24
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (71 bp):
AATATACAAAAAAAAAAAAAAAATAATAAAAAATACATAATAATATATAATAATAATAAATAATA
AAATAC
Found at i:10026572 original size:14 final size:13
Alignment explanation
Indices: 10026478--10026600 Score: 71
Period size: 14 Copynumber: 9.5 Consensus size: 13
10026468 AAAAAAAAAA
*
10026478 AAAAAATAATAAT
1 AAAATATAATAAT
10026491 AAAATAATAATAAT
1 AAAAT-ATAATAAT
*
10026505 -ATATATAACT-AT
1 AAAATATAA-TAAT
* *
10026517 ATAAATACAAT-AC
1 A-AAATATAATAAT
*
10026530 AATATATTAATAA-
1 AAAATA-TAATAAT
*
10026543 AAAAAATAAATAAAT
1 AAAATAT-AAT-AAT
10026558 AAAATATACATAAT
1 AAAATATA-ATAAT
*
10026572 AATATATAATAAT
1 AAAATATAATAAT
10026585 --AATA-AATAAT
1 AAAATATAATAAT
10026595 AAAATA
1 AAAATA
10026601 CATAAAATAC
Statistics
Matches: 86, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
10 6 0.07
11 3 0.03
12 15 0.17
13 26 0.30
14 28 0.33
15 8 0.09
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:10026596 original size:10 final size:10
Alignment explanation
Indices: 10026481--10026597 Score: 57
Period size: 10 Copynumber: 11.3 Consensus size: 10
10026471 AAAAAAAAAA
10026481 AAATAATAAT
1 AAATAATAAT
10026491 AAAATAATAAT
1 -AAATAATAAT
10026502 -AAT-ATATAT
1 AAATAATA-AT
*
10026511 AACTATATAAAT
1 AAATA-AT-AAT
*
10026523 ACAAT-ACAAT
1 A-AATAATAAT
*
10026533 ATATTAATAA-
1 A-AATAATAAT
*
10026543 AAAAAATAAAT
1 AAATAAT-AAT
10026554 AAATAA-AAT
1 AAATAATAAT
10026563 ATACATAATAAT
1 A-A-ATAATAAT
*
10026575 ATATAATAAT
1 AAATAATAAT
10026585 -AATAAATAAT
1 AAAT-AATAAT
10026595 AAA
1 AAA
10026598 ATACATAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
8 3 0.04
9 15 0.19
10 26 0.32
11 25 0.31
12 9 0.11
13 3 0.04
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATAATAAT
Found at i:10026615 original size:8 final size:9
Alignment explanation
Indices: 10026563--10026615 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
10026553 TAAATAAAAT
10026563 ATACATAATA
1 ATACATAA-A
*
10026573 ATATATAATA
1 ATACATAA-A
10026583 ATA-AT-AA
1 ATACATAAA
10026590 ATA-ATAAA
1 ATACATAAA
10026598 ATACATAAA
1 ATACATAAA
10026607 ATACA-AAA
1 ATACATAAA
10026615 A
1 A
10026616 AAAAAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 6 0.15
8 10 0.25
9 12 0.30
10 12 0.30
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
ATACATAAA
Found at i:10026797 original size:8 final size:8
Alignment explanation
Indices: 10026784--10026814 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
10026774 TCAACTCAAC
10026784 TTGTTTTT
1 TTGTTTTT
10026792 TTGTTTTT
1 TTGTTTTT
10026800 TTGTTTTT
1 TTGTTTTT
10026808 TT-TTTTT
1 TTGTTTTT
10026815 ACAAAGCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTGTTTTT
Found at i:10026890 original size:41 final size:41
Alignment explanation
Indices: 10026820--10027259 Score: 794
Period size: 41 Copynumber: 11.0 Consensus size: 41
10026810 TTTTTACAAA
10026820 GCTCCT-TAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10026858 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10026898 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10026937 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10026978 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-GTAAATT
10027019 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10027060 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10027101 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10027142 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10027183 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10027223 GCTCCTCTAAACAGAGGCA--ACGACTTTG-AAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
10027260 ACTCCTAGAC
Statistics
Matches: 394, Mismatches: 0, Indels: 16
0.96 0.00 0.04
Matches are distributed among these distances:
38 37 0.09
39 37 0.09
40 68 0.17
41 238 0.60
42 14 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:10028296 original size:20 final size:18
Alignment explanation
Indices: 10028260--10028348 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 18
10028250 TGAGTCCTCC
*
10028260 TTTTTTAATCACTTTTTCAA
1 TTTTTTCATCACTTTTT--A
*
10028280 TTTTTTCATCATTTTTTA
1 TTTTTTCATCACTTTTTA
*
10028298 TTTTTTCAT---TTTTCA
1 TTTTTTCATCACTTTTTA
*
10028313 TTTTTTCAT---TTTTCA
1 TTTTTTCATCACTTTTTA
10028328 TTTTTTCAT---TTTTTA
1 TTTTTTCATCACTTTTTA
10028343 TTTTTT
1 TTTTTT
10028349 TCAAGCATAG
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
15 40 0.62
18 10 0.15
20 15 0.23
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTCATCACTTTTTA
Found at i:10028300 original size:7 final size:7
Alignment explanation
Indices: 10028290--10028348 Score: 73
Period size: 7 Copynumber: 8.0 Consensus size: 7
10028280 TTTTTTCATC
10028290 ATTTTTT
1 ATTTTTT
10028297 ATTTTTT
1 ATTTTTT
*
10028304 CATTTTTC
1 -ATTTTTT
10028312 ATTTTTT
1 ATTTTTT
*
10028319 CATTTTTC
1 -ATTTTTT
10028327 ATTTTTT
1 ATTTTTT
10028334 CATTTTTT
1 -ATTTTTT
10028342 ATTTTTT
1 ATTTTTT
10028349 TCAAGCATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 26 0.58
8 19 0.42
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (7 bp):
ATTTTTT
Found at i:10028308 original size:15 final size:15
Alignment explanation
Indices: 10028288--10028348 Score: 104
Period size: 15 Copynumber: 4.1 Consensus size: 15
10028278 AATTTTTTCA
*
10028288 TCATTTTTTATTTTT
1 TCATTTTTCATTTTT
10028303 TCATTTTTCATTTTT
1 TCATTTTTCATTTTT
10028318 TCATTTTTCATTTTT
1 TCATTTTTCATTTTT
*
10028333 TCATTTTTTATTTTT
1 TCATTTTTCATTTTT
10028348 T
1 T
10028349 TCAAGCATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TCATTTTTCATTTTT
Found at i:10028349 original size:8 final size:8
Alignment explanation
Indices: 10028272--10028348 Score: 97
Period size: 8 Copynumber: 9.6 Consensus size: 8
10028262 TTTTAATCAC
10028272 TTTTTCAAT
1 TTTTTC-AT
10028281 TTTTTCAT
1 TTTTTCAT
*
10028289 CATTTTTTAT
1 --TTTTTCAT
10028299 TTTTTCA-
1 TTTTTCAT
10028306 TTTTTCAT
1 TTTTTCAT
10028314 TTTTTCA-
1 TTTTTCAT
10028321 TTTTTCAT
1 TTTTTCAT
10028329 TTTTTCAT
1 TTTTTCAT
10028337 TTTTT-AT
1 TTTTTCAT
10028344 TTTTT
1 TTTTT
10028349 TCAAGCATAG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
7 21 0.34
8 28 0.45
9 6 0.10
10 7 0.11
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:10035564 original size:15 final size:16
Alignment explanation
Indices: 10035544--10035575 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
10035534 TTGTAAGTGT
10035544 AATGAATGAG-AATGC
1 AATGAATGAGAAATGC
10035559 AATGAATGAGAAATGC
1 AATGAATGAGAAATGC
10035575 A
1 A
10035576 TGTATGCAAA
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:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
AATGAATGAGAAATGC
Found at i:10038998 original size:60 final size:58
Alignment explanation
Indices: 10038753--10039215 Score: 523
Period size: 59 Copynumber: 7.7 Consensus size: 58
10038743 TCTTGTGTAG
10038753 GGAAAATTGATACTTTCAACTTTTTCCT--AAAATATTTTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * *
10038809 GGAAAATTAATACTTTC-ACTTTTCCCCAAAAATATTTCGATTTTTCTAGGAAATTGTATTATTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--T---TTTTT-T-GAAAATT-TA-T-TTT
10038873 CTAAA
56 -T-AA
*
10038878 TTGAAAATTTAGAATACTTTCAACTTTTCCT-AAAAA-A--TTTTTGAAAATTTATTTTTAA
1 -GGAAAA-TT-G-ATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* *
10038936 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTTGAAAATTT-ATTTTTAA
*
10038996 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTTGAAAATTTATTTTTAA
* * *
10039057 GGAAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* *
10039115 GAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTATTTTTAA
10039174 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT
10039216 TTGGAATTTT
Statistics
Matches: 351, Mismatches: 23, Indels: 64
0.80 0.05 0.15
Matches are distributed among these distances:
54 24 0.07
55 8 0.02
56 25 0.07
57 10 0.03
58 59 0.17
59 65 0.19
60 43 0.12
61 38 0.11
62 21 0.06
63 10 0.03
64 6 0.02
65 6 0.02
66 1 0.00
67 3 0.01
68 1 0.00
69 2 0.01
70 5 0.01
71 2 0.01
72 1 0.00
73 13 0.04
74 8 0.02
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:10039234 original size:179 final size:178
Alignment explanation
Indices: 10038755--10039234 Score: 573
Period size: 179 Copynumber: 2.7 Consensus size: 178
10038745 TTGTGTAGGG
* *
10038755 AAAATTGATACTTTCAACTTTT-TCCTAAAATA-TTTTTTTG-AAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATT
* * * *
10038817 AATACTTTC-ACTTTTCCCCAAAAATATTTCGATTTTTCTAGGAAATTGTATTATTTCTAAATTG
66 GATACTTTCAACTTTTCCCTAAAAATATTT---TTTTT-T-GG-AATT-T-TTATTT-TTAATGG
* * *
10038881 AAAATTTAGAATACTTTCAACTTTTCCTAAAAAATTTTTGAAAATTTATTTTTAAGG
122 AAAATTTAGAATACTTTCAACTTTTCCCAAAAAATTTTTGAAAATTTATTTCTAAGA
* * * *
10038938 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAAGGAAAAT
** * **
10039003 TGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTTTTGAAAATTTATTTTTAA-GGAAAA-TT
65 TGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTGGAATTTTTATTTTTAATGGAAAATTT
* *
10039065 -G-ATACTTTTAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
129 AGAATACTTTCAAC-TTTTCCCAAAAA-A--TTTTTGAAAATTTATTTCTAAGA
10039117 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATT
10039182 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTCATTTTTA
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTT-ATTTTTA
10039235 TTTAAAGAAA
Statistics
Matches: 256, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
175 10 0.04
176 12 0.05
177 3 0.01
178 56 0.22
179 79 0.31
180 6 0.02
181 1 0.00
182 2 0.01
183 23 0.09
184 8 0.03
185 12 0.05
186 5 0.02
187 25 0.10
188 14 0.05
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (178 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTATTTTTAATGGAAAATTTAG
AATACTTTCAACTTTTCCCAAAAAATTTTTGAAAATTTATTTCTAAGA
Found at i:10039274 original size:6 final size:6
Alignment explanation
Indices: 10039242--10039326 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
10039232 TTATTTAAAG
* *
10039242 AAAATA GAATAATA AAAAGA TAAATA AAAATA AAAATA AATAA-A GAAAAGT-
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AA-AATA -AAAA-TA
* * *
10039293 AAAACA GAAATA AAAA-A TAAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAA
10039327 GAATATTAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
5 1 0.02
6 46 0.77
7 9 0.15
8 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10039282 original size:16 final size:15
Alignment explanation
Indices: 10039242--10039290 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
10039232 TTATTTAAAG
*
10039242 AAAATAGAATAATAAA
1 AAAATA-AATAAAAAA
*
10039258 AAGATAAATAAAAATA
1 AAAATAAATAAAAA-A
10039274 AAAATAAATAAAGAAA
1 AAAATAAATAAA-AAA
10039290 A
1 A
10039291 GTAAAACAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.25
16 19 0.68
17 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAATAAATAAAAAA
Found at i:10039284 original size:20 final size:21
Alignment explanation
Indices: 10039261--10039306 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10039251 TAATAAAAAG
* *
10039261 ATAAATAAAAATAAAA-ATAA
1 ATAAAGAAAAATAAAACAGAA
*
10039281 ATAAAGAAAAGTAAAACAGAA
1 ATAAAGAAAAATAAAACAGAA
10039302 ATAAA
1 ATAAA
10039307 AAATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (21 bp):
ATAAAGAAAAATAAAACAGAA
Found at i:10039915 original size:25 final size:25
Alignment explanation
Indices: 10039869--10039922 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10039859 AATCTGAAAA
*
10039869 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCAGAAAAATT
* *
10039894 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAAATT
10039919 TTTC
1 TTTC
10039923 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAATT
Found at i:10040296 original size:25 final size:27
Alignment explanation
Indices: 10040268--10040323 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
10040258 GATAATTAGG
*
10040268 AATACAATAAGATAAACA-AAAAAAA-
1 AATACAATAAGAAAAACAGAAAAAAAT
** *
10040293 AATATTATAAGAAAAAGAGAAAAAAAT
1 AATACAATAAGAAAAACAGAAAAAAAT
10040320 AATA
1 AATA
10040324 ATAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 14 0.56
26 7 0.28
27 4 0.16
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (27 bp):
AATACAATAAGAAAAACAGAAAAAAAT
Found at i:10040349 original size:8 final size:8
Alignment explanation
Indices: 10040327--10040434 Score: 70
Period size: 8 Copynumber: 14.4 Consensus size: 8
10040317 AATAATAATA
10040327 AAATA-AT
1 AAATATAT
10040334 AATATATAT
1 AA-ATATAT
*
10040343 AACTATAT
1 AAATATAT
10040351 AAATATA-
1 AAATATAT
* *
10040358 ATACATAT
1 AAATATAT
10040366 AAATAT-T
1 AAATATAT
*
10040373 -AATAGA-
1 AAATATAT
*
10040379 AAATAAAT
1 AAATATAT
*
10040387 AAATAAAT
1 AAATATAT
*
10040395 AAAGATAT
1 AAATATAT
*
10040403 ACATATAT
1 AAATATAT
*
10040411 TAATATAT
1 AAATATAT
10040419 -AATA-AT
1 AAATATAT
10040425 AAATA-AT
1 AAATATAT
10040432 AAA
1 AAA
10040435 ATACATAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.08
7 26 0.32
8 44 0.55
9 4 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (8 bp):
AAATATAT
Found at i:10040371 original size:21 final size:21
Alignment explanation
Indices: 10040323--10040376 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
10040313 AAAAAATAAT
*
10040323 AATA-AAATAATAATATATATA
1 AATATAAAT-ATAATACATATA
10040344 ACTATATAAATATAATACATATA
1 A--ATATAAATATAATACATATA
*
10040367 AATATTAATA
1 AATATAAATA
10040377 GAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 9 0.32
23 15 0.54
24 4 0.14
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AATATAAATATAATACATATA
Found at i:10040422 original size:46 final size:44
Alignment explanation
Indices: 10040349--10040443 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 44
10040339 ATATAACTAT
*
10040349 ATAAATATAATACATATAAATATTAATAGA-AAATAA-ATAAATAA
1 ATAAAGATAATACATATAAATATTAATA-ATAAATAATA-AAATAA
*
10040393 ATAAAGAT-ATACATATATTAATATATAATAATAAATAATAAAATAC
1 ATAAAGATAATACATATA--AATAT-TAATAATAAATAATAAAATAA
10040439 ATAAA
1 ATAAA
10040444 ATACAAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
43 9 0.20
44 7 0.16
45 6 0.14
46 21 0.48
47 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (44 bp):
ATAAAGATAATACATATAAATATTAATAATAAATAATAAAATAA
Found at i:10045972 original size:3 final size:3
Alignment explanation
Indices: 10045964--10045990 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10045954 ATTCTGTTTG
10045964 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10045991 GCAGTACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10047096 original size:13 final size:13
Alignment explanation
Indices: 10047076--10047108 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10047066 TATAAGAAAA
10047076 TATTAAAATATAAT
1 TATTAAAAT-TAAT
10047090 T-TTAAAATTAAT
1 TATTAAAATTAAT
10047102 TATTAAA
1 TATTAAA
10047109 GGGACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.28
13 12 0.67
14 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAAAATTAAT
Found at i:10048991 original size:20 final size:20
Alignment explanation
Indices: 10048966--10049010 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10048956 AAAATTGGTC
*
10048966 ATTTGCAAATTTTAGTTTGT
1 ATTTGCAAATTTTAATTTGT
*
10048986 ATTTGCATATTTTAATTTGT
1 ATTTGCAAATTTTAATTTGT
*
10049006 GTTTG
1 ATTTG
10049011 TATCATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.58
Consensus pattern (20 bp):
ATTTGCAAATTTTAATTTGT
Found at i:10050037 original size:14 final size:13
Alignment explanation
Indices: 10050002--10050026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10049992 AAAATAATAT
10050002 TTTTTTAAAATTA
1 TTTTTTAAAATTA
10050015 TTTTTTAAAATT
1 TTTTTTAAAATT
10050027 TTAATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTAAAATTA
Found at i:10053194 original size:120 final size:121
Alignment explanation
Indices: 10053036--10053281 Score: 424
Period size: 120 Copynumber: 2.0 Consensus size: 121
10053026 TTAAACTTAC
* *
10053036 ATATTTAATTATATCTTTAAAAATTATATCAGTAATTTAAATTATATAAGCTTTGAG-AAAGAAT
1 ATATTCAATTATATCTTTAAAAATTATATCAGTAATTTAAATTATATAAACTTTGAGAAAAG-AT
* * *
10053100 AATTTTAACAAATAAATAAATTATTTTA-TCATAATTCTTACATATCTTGTTTTATA
65 AATTTTAACAAATAAATAAATTATCTTATTAATAATTCATACATATCTTGTTTTATA
10053156 ATATTCAATTATATCTTTAAAAATTATATCAGTAATTTAAATTATATAAACTTTGAGAAAAGATA
1 ATATTCAATTATATCTTTAAAAATTATATCAGTAATTTAAATTATATAAACTTTGAGAAAAGATA
10053221 ATTTTAACAAATAAATAAATTATCTTATTAATAATTCATACATATCTTGTTTTATA
66 ATTTTAACAAATAAATAAATTATCTTATTAATAATTCATACATATCTTGTTTTATA
10053277 ATATT
1 ATATT
10053282 ATGTATTGTG
Statistics
Matches: 119, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 84 0.71
121 35 0.29
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (121 bp):
ATATTCAATTATATCTTTAAAAATTATATCAGTAATTTAAATTATATAAACTTTGAGAAAAGATA
ATTTTAACAAATAAATAAATTATCTTATTAATAATTCATACATATCTTGTTTTATA
Found at i:10055245 original size:28 final size:29
Alignment explanation
Indices: 10055212--10055274 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
10055202 TTGGTTTTTC
* *
10055212 TCTTTTCTTTATTTTTGCTCATTTT-TAT
1 TCTTTTCTTTATTTTTGATCATTTTAAAT
* *
10055240 TCTTTTCTTTCTTTTTTATCATTTTAAAT
1 TCTTTTCTTTATTTTTGATCATTTTAAAT
10055269 TCTTTT
1 TCTTTT
10055275 TATTTTCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.13, C:0.14, G:0.02, T:0.71
Consensus pattern (29 bp):
TCTTTTCTTTATTTTTGATCATTTTAAAT
Found at i:10058884 original size:154 final size:154
Alignment explanation
Indices: 10058604--10058889 Score: 450
Period size: 154 Copynumber: 1.9 Consensus size: 154
10058594 TTTCATGTTT
* * * *
10058604 ATTTTTGAGATTTTAAAACACTAAAAATTATGAAATAATATAAAAATTAATATCTGAAAAGTTTC
1 ATTTTTGAGATTTTAAAACACTAAAAATCATGAAATAATATAAAAATAAAGATCTGAAAAATTTC
* * *
10058669 ATGAAAATTTGAGCTCAAAAAGGCTAAATTACAAAAATACCCTTATGAGGTTATTTTGGTAATTT
66 ATGAAAATCTGAGCTCAAAAAGGCTAAATTACAAAAACACCCTTATAAGGTTATTTTGGTAATTT
10058734 CACAATTCTTAGATTGTTGCTGCG
131 CACAATTCTTAGATTGTTGCTGCG
*
10058758 ATTTTTGAGATTTTAAAACACTAAAAATCATGAAATATTAT-AAAATAAAGATCTGAAAAATTTC
1 ATTTTTGAGATTTTAAAACACTAAAAATCATGAAATAATATAAAAATAAAGATCTGAAAAATTTC
* *
10058822 ATGAAAATCTGAGCTCAAGAAGGCTAAATTACAGAAAACACTCTTATAATGG-TATTTTGGTAAT
66 ATGAAAATCTGAGCTCAAAAAGGCTAAATTACA-AAAACACCCTTATAA-GGTTATTTTGGTAAT
10058886 TTCA
129 TTCA
10058890 TATTTTTAGG
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
153 51 0.43
154 67 0.56
155 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (154 bp):
ATTTTTGAGATTTTAAAACACTAAAAATCATGAAATAATATAAAAATAAAGATCTGAAAAATTTC
ATGAAAATCTGAGCTCAAAAAGGCTAAATTACAAAAACACCCTTATAAGGTTATTTTGGTAATTT
CACAATTCTTAGATTGTTGCTGCG
Found at i:10058937 original size:154 final size:154
Alignment explanation
Indices: 10058618--10058948 Score: 375
Period size: 153 Copynumber: 2.1 Consensus size: 154
10058608 TTGAGATTTT
* * * *
10058618 AAAACACTAAAAATTATGAAATAATATAAAAATTAATATCTGAAAAGTTTCATGAAAATTTGAGC
1 AAAACACTAAAAATTATGAAATAATATAAAAATAAAGATCTGAAAAATTTCATGAAAATCTGAGC
* * *
10058683 TCAAAAAGGCTAAATTACAAAAATACCCTTATGAGGTTATTTTGGTAATTTCACAATTCTTAGAT
66 TCAAAAAGGCTAAATTACAAAAACACCCTTATAAGGTTATTTTGGTAATTTCACAATTCTTAGAG
** *** **
10058748 TGTTGCTGCGATTTTTGAGATTTT
131 TACTGCTGCGATTTCAAAGATTCA
* *
10058772 AAAACACTAAAAATCATGAAATATTAT-AAAATAAAGATCTGAAAAATTTCATGAAAATCTGAGC
1 AAAACACTAAAAATTATGAAATAATATAAAAATAAAGATCTGAAAAATTTCATGAAAATCTGAGC
* * * *
10058836 TCAAGAAGGCTAAATTACAGAAAACACTCTTATAATGG-TATTTTGGTAATTTCA-TATTTTTAG
66 TCAAAAAGGCTAAATTACA-AAAACACCCTTATAA-GGTTATTTTGGTAATTTCACAATTCTTAG
* *
10058899 GGTACTGCTGTGATTTCAAATGCA-TCA
129 AGTACTGCTGCGATTTCAAA-G-ATTCA
10058926 AAAATCA-TAAAATATTATGAAAT
1 AAAA-CACTAAAA-ATTATGAAAT
10058949 TAAGATCTGA
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
153 70 0.47
154 64 0.43
155 14 0.09
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (154 bp):
AAAACACTAAAAATTATGAAATAATATAAAAATAAAGATCTGAAAAATTTCATGAAAATCTGAGC
TCAAAAAGGCTAAATTACAAAAACACCCTTATAAGGTTATTTTGGTAATTTCACAATTCTTAGAG
TACTGCTGCGATTTCAAAGATTCA
Found at i:10059845 original size:92 final size:90
Alignment explanation
Indices: 10059718--10059927 Score: 242
Period size: 90 Copynumber: 2.3 Consensus size: 90
10059708 TTGTAAATGG
* *
10059718 CTAAACAGAAGCG-TTTGAAACTTTGAAAAGGGCTCCCTTTAAACAAAGGCTTTAAAACATAAAA
1 CTAAACAG-AG-GTTTTGAAACTTTGAAAAGAGCTCCCTCTAAACAAAGGCTTTAAAAC-T-AAA
*
10059782 AAAAAAATCTTATTTGAAAATTGCTCTCC
62 AAAAAAATCTTATTTAAAAATTGCTCTCC
* * * * ****
10059811 CTAAATAGAGGTTTTGAAACTTTGAAAATAGCTCCCTCTAAACAGAGGCTTTGAAACTTTTTAAA
1 CTAAACAGAGGTTTTGAAACTTTGAAAAGAGCTCCCTCTAAACAAAGGCTTTAAAACTAAAAAAA
* *
10059876 AAATCTTGTTTAAAAATTGCTCTTC
66 AAATCTTATTTAAAAATTGCTCTCC
* *
10059901 CTAAGCAGAGGTTTTAAAACTTTGAAA
1 CTAAACAGAGGTTTTGAAACTTTGAAA
10059928 GCATTTTGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
90 49 0.49
91 2 0.02
92 42 0.42
93 7 0.07
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (90 bp):
CTAAACAGAGGTTTTGAAACTTTGAAAAGAGCTCCCTCTAAACAAAGGCTTTAAAACTAAAAAAA
AAATCTTATTTAAAAATTGCTCTCC
Found at i:10059852 original size:37 final size:37
Alignment explanation
Indices: 10059794--10059870 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
10059784 AAAAATCTTA
* * *
10059794 TTTGAAAATTGCTCTCCCTAAATAGAGGTTTTGAAAC
1 TTTGAAAATAGCTCTCCCTAAACAGAGGCTTTGAAAC
10059831 TTTGAAAATAGCTC-CCTCTAAACAGAGGCTTTGAAAC
1 TTTGAAAATAGCTCTCC-CTAAACAGAGGCTTTGAAAC
10059868 TTT
1 TTT
10059871 TTAAAAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (37 bp):
TTTGAAAATAGCTCTCCCTAAACAGAGGCTTTGAAAC
Found at i:10059969 original size:48 final size:49
Alignment explanation
Indices: 10059831--10059975 Score: 130
Period size: 48 Copynumber: 2.9 Consensus size: 49
10059821 GTTTTGAAAC
* * * *
10059831 TTTGAAAATAGCTCCCTCTAAACAGAGGCTTTGAAACTTTTTAAAAAATCTTG
1 TTTGAAAATAGCTCCCCCTAAACAGAGGCTTTGAAAC--TTT--GAAAGCATG
* * ** * * *
10059884 TTTAAAAATTGCTCTTCCTAAGCAGAGGTTTTAAAACTTTGAAAGCAT-
1 TTTGAAAATAGCTCCCCCTAAACAGAGGCTTTGAAACTTTGAAAGCATG
* *
10059932 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTGAAA
1 TTTGAAAATAGCTCCCCCTAAACAGAGGCTTTGAAACTTTGAAA
10059976 ATGGCTCTCC
Statistics
Matches: 73, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
48 36 0.49
49 5 0.07
51 3 0.04
53 29 0.40
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (49 bp):
TTTGAAAATAGCTCCCCCTAAACAGAGGCTTTGAAACTTTGAAAGCATG
Found at i:10059975 original size:138 final size:132
Alignment explanation
Indices: 10059794--10060221 Score: 460
Period size: 123 Copynumber: 3.3 Consensus size: 132
10059784 AAAAATCTTA
* * * *
10059794 TTTGAAAATTGCTCTCCCTAAATAGAGGTTTTGAAACTTTGAAAATAGCTCCCTCTAAACAGAGG
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCC-CTAAACAGAGG
* * * *
10059859 CTTTGAAACTTTTTAAAAAATCTTGTTTAAAAATTGCTCTTCCTAAGCAGAGGTTTTAAAACTTT
65 CTTTGAAAC-TTTTAAAAAATCTTGTTTGAAAATTGCTCTTCTTAAACAAAGGTTTT-AAACTTT
10059924 GAAAGC
128 GAAA-C
* * *
10059930 ATTTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTGAAAATGGCTCTCCCTAAACAAA
1 --TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTC-CCCTAAACAGA
10059995 GGCTTTGAAACTTTTAAAAAATCTTGTTTGAAAATTGCTCCTT-TTAAACAAAGG---T----TT
63 GGCTTTGAAACTTTTAAAAAATCTTGTTTGAAAATTGCT-CTTCTTAAACAAAGGTTTTAAACTT
10060052 TGAAAC
127 TGAAAC
* * * *
10060058 -TT--AAATGGTTCCCCCTAAATAGAGGCTTGGAAACTTGGAAAATGGCTTCCCCTAAATAGAGG
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGC-TCCCCTAAACAGAGG
* * *
10060120 CTTTGAAACTTTAAAAAAACTCTTGTTTGAAAATTACTCCTCTTAAACAAAGG---T----TTTG
65 CTTTGAAACTTTTAAAAAA-TCTTGTTTGAAAATTGCTCTTCTTAAACAAAGGTTTTAAACTTTG
10060178 AAAC
129 AAAC
* *
10060182 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTT
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTT
10060222 TTAAAAAATA
Statistics
Matches: 256, Mismatches: 26, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
123 70 0.27
124 39 0.15
125 4 0.02
127 30 0.12
128 1 0.00
129 7 0.03
134 1 0.00
137 35 0.14
138 67 0.26
139 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (132 bp):
TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTAAACAGAGGC
TTTGAAACTTTTAAAAAATCTTGTTTGAAAATTGCTCTTCTTAAACAAAGGTTTTAAACTTTGAA
AC
Found at i:10059976 original size:37 final size:37
Alignment explanation
Indices: 10059932--10060013 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
10059922 TTGAAAGCAT
10059932 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
*
10059969 TTTGAAAATGGCTCTCCCTAAACAAAGGCTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
*
10060006 TTTTAAAA
1 TTTGAAAA
10060014 AATCTTGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (37 bp):
TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
Found at i:10060046 original size:89 final size:86
Alignment explanation
Indices: 10059932--10060093 Score: 207
Period size: 89 Copynumber: 1.8 Consensus size: 86
10059922 TTGAAAGCAT
*
10059932 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTTGAAAATGGCTCTCCCTAAACAAAGG
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC-TT--AAATGGCTCCCCCTAAACAAAGG
*
10059997 CTTTGAAACTTTTAAAAAATCTTG
63 CTTGGAAACTTTTAAAAAATCTTG
* *** * * * *
10060021 TTTGAAAATTGCTCCTTTTAAACAAAGGTTTTGAAACTTAAATGGTTCCCCCTAAATAGAGGCTT
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTAAATGGCTCCCCCTAAACAAAGGCTT
10060086 GGAAACTT
66 GGAAACTT
10060094 GGAAAATGGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 29 0.46
88 2 0.03
89 32 0.51
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (86 bp):
TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTTAAATGGCTCCCCCTAAACAAAGGCTT
GGAAACTTTTAAAAAATCTTG
Found at i:10060110 original size:37 final size:37
Alignment explanation
Indices: 10060060--10060130 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
10060050 TTTGAAACTT
10060060 AAATGGTTCCCCCTAAATAGAGGCTTGGAAACTTGGA
1 AAATGGTTCCCCCTAAATAGAGGCTTGGAAACTTGGA
*
10060097 AAATGGCTT-CCCCTAAATAGAGGCTTTGAAACTT
1 AAATGG-TTCCCCCTAAATAGAGGCTTGGAAACTT
10060131 TAAAAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (37 bp):
AAATGGTTCCCCCTAAATAGAGGCTTGGAAACTTGGA
Found at i:10060204 original size:37 final size:37
Alignment explanation
Indices: 10060145--10060221 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
10060135 AAAACTCTTG
* * * *
10060145 TTTGAAAATTACTCCTCTTAAACAAAGGTTTTGAAAC
1 TTTGAAAATGACTCCCCCTAAACAAAGGCTTTGAAAC
*
10060182 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
1 TTTGAAAATGACTCCCCCTAAACAAAGGCTTTGAAAC
10060219 TTT
1 TTT
10060222 TTAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (37 bp):
TTTGAAAATGACTCCCCCTAAACAAAGGCTTTGAAAC
Found at i:10061238 original size:30 final size:26
Alignment explanation
Indices: 10061204--10061280 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 26
10061194 GAGTCCTCTA
10061204 TTTTTTATTCATTTTTTTGTTATTATTAT
1 TTTTTTATTC-TTTTTTTGTTATT-TT-T
*
10061233 TTTTTTATCTTTTTTTTTTGTTATTTTT
1 TTTTTTA--TTCTTTTTTTGTTATTTTT
*
10061261 TTCTTTTTTTCTTTTTTTGT
1 TT-TTTTATTCTTTTTTTGT
10061281 CTCATTCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 11 0.26
28 3 0.07
29 13 0.31
30 13 0.31
31 2 0.05
ACGTcount: A:0.09, C:0.05, G:0.04, T:0.82
Consensus pattern (26 bp):
TTTTTTATTCTTTTTTTGTTATTTTT
Found at i:10061261 original size:16 final size:15
Alignment explanation
Indices: 10061204--10061278 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 15
10061194 GAGTCCTCTA
**
10061204 TTTTTTATTCATTTT
1 TTTTTTATTTTTTTT
* * *
10061219 TTTGTTA-TTATTAT
1 TTTTTTATTTTTTTT
10061233 TTTTTTATCTTTTTTT
1 TTTTTTAT-TTTTTTT
*
10061249 TTTGTTATTTTTTTCT
1 TTTTTTATTTTTTT-T
*
10061265 TTTTTTCTTTTTTT
1 TTTTTTATTTTTTT
10061279 GTCTCATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.23
15 12 0.25
16 25 0.52
ACGTcount: A:0.09, C:0.05, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTTTTTT
Found at i:10061275 original size:24 final size:23
Alignment explanation
Indices: 10061205--10061275 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 23
10061195 AGTCCTCTAT
10061205 TTTTTATTCATTTTTTTGTTATTATTA
1 TTTTT-TTC-TTTTTTT-TT-TTATTA
* *
10061232 TTTTTTTATCTTTTTTTTTTGTTA
1 TTTTTTTCT-TTTTTTTTTTATTA
10061256 TTTTTTTCTTTTTTTCTTTT
1 TTTTTTTCTTTTTTT-TTTT
10061276 TTTGTCTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 6 0.15
24 17 0.44
25 3 0.08
26 8 0.21
27 5 0.13
ACGTcount: A:0.10, C:0.06, G:0.03, T:0.82
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTTTTTATTA
Found at i:10061277 original size:8 final size:8
Alignment explanation
Indices: 10061214--10061278 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
10061204 TTTTTTATTC
10061214 ATTTTTTT
1 ATTTTTTT
* *
10061222 GTTATTATT
1 ATT-TTTTT
10061231 ATTTTTTT
1 ATTTTTTT
10061239 ATCTTTTTT
1 AT-TTTTTT
*
10061248 -TTTTGTT
1 ATTTTTTT
10061255 ATTTTTTT
1 ATTTTTTT
*
10061263 CTTTTTTT
1 ATTTTTTT
*
10061271 CTTTTTTT
1 ATTTTTTT
10061279 GTCTCATTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 5 0.11
8 30 0.64
9 12 0.26
ACGTcount: A:0.09, C:0.05, G:0.03, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:10061279 original size:27 final size:29
Alignment explanation
Indices: 10061204--10061280 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
10061194 GAGTCCTCTA
10061204 TTTTTTATTCATTTTTTTGTTATTATTATT
1 TTTTTTATTC-TTTTTTTGTTATTATTATT
* *
10061234 TTTTTATCTTTTTTTTTTGTTATT-TT-TT
1 TTTTT-TATTCTTTTTTTGTTATTATTATT
10061262 TCTTTTT-TTCTTTTTTTGT
1 T-TTTTTATTCTTTTTTTGT
10061281 CTCATTCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 11 0.26
28 4 0.10
29 6 0.14
30 18 0.43
31 3 0.07
ACGTcount: A:0.09, C:0.05, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTTTATTCTTTTTTTGTTATTATTATT
Found at i:10066157 original size:18 final size:19
Alignment explanation
Indices: 10066131--10066175 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
10066121 AAACTTACAA
* *
10066131 GCTTTTTTTTTAGTGACGT
1 GCTTTTTTTTCAGTGACAT
10066150 GCTTTTTTTTCAGTGACAT
1 GCTTTTTTTTCAGTGACAT
10066169 GCTTTTT
1 GCTTTTT
10066176 ATATTATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (19 bp):
GCTTTTTTTTCAGTGACAT
Found at i:10067470 original size:16 final size:16
Alignment explanation
Indices: 10067449--10067492 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
10067439 AAAATAATAA
10067449 AAAATAAGAAAAATTT
1 AAAATAAGAAAAATTT
10067465 AAAATAA-ACAAAATTT
1 AAAATAAGA-AAAATTT
*
10067481 AAAATATGAAAA
1 AAAATAAGAAAA
10067493 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATAAGAAAAATTT
Found at i:10067505 original size:16 final size:16
Alignment explanation
Indices: 10067480--10067518 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
10067470 AAACAAAATT
10067480 TAAAATATGAAAATAAA
1 TAAAATATGAAAA-AAA
*
10067497 TAAAA-ATGAACAAAA
1 TAAAATATGAAAAAAA
10067512 TAAAATA
1 TAAAATA
10067519 AAAATGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 5 0.25
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (16 bp):
TAAAATATGAAAAAAA
Found at i:10068367 original size:25 final size:26
Alignment explanation
Indices: 10068339--10068388 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10068329 TGAATTAAAG
*
10068339 TTCTATGATTC-TGGTCAAATTCGAA
1 TTCTATGATTCTTGGGCAAATTCGAA
* *
10068364 TTCTCTTATTCTTGGGCAAATTCGA
1 TTCTATGATTCTTGGGCAAATTCGA
10068389 GCAAAAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (26 bp):
TTCTATGATTCTTGGGCAAATTCGAA
Found at i:10079322 original size:37 final size:38
Alignment explanation
Indices: 10079250--10079326 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
10079240 AATAAAAAAG
* * *
10079250 AAAGACAAATGAATAATTAAGCAAGCATACACAATGAA
1 AAAGACAAATAAATAATAAAGCAAACATACACAATGAA
*
10079288 AAAGA-AAATAAATAATAAAGCAAATATA-AGCAATGAA
1 AAAGACAAATAAATAATAAAGCAAACATACA-CAATGAA
10079325 AA
1 AA
10079327 GGAATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 1 0.03
37 28 0.82
38 5 0.15
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.16
Consensus pattern (38 bp):
AAAGACAAATAAATAATAAAGCAAACATACACAATGAA
Found at i:10080290 original size:16 final size:17
Alignment explanation
Indices: 10080263--10080302 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
10080253 AAATAAAATT
*
10080263 TAAAATATGAAAATAAA
1 TAAAATATGAAAAAAAA
10080280 TAAAA-ATGAAAAAAAA
1 TAAAATATGAAAAAAAA
10080296 TAAAATA
1 TAAAATA
10080303 AAAATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (17 bp):
TAAAATATGAAAAAAAA
Found at i:10080292 original size:25 final size:22
Alignment explanation
Indices: 10080272--10080319 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
10080262 TTAAAATATG
10080272 AAAATAAATAAAAATGAAAAAA
1 AAAATAAATAAAAATGAAAAAA
*
10080294 AATA-AAATAAAAATGAAAAAGA
1 AAAATAAATAAAAATGAAAAA-A
10080316 AAAA
1 AAAA
10080320 CCTTGCGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (22 bp):
AAAATAAATAAAAATGAAAAAA
Found at i:10080295 original size:20 final size:21
Alignment explanation
Indices: 10080272--10080313 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10080262 TTAAAATATG
10080272 AAAAT-AAATAAAAATGAAAA
1 AAAATAAAATAAAAATGAAAA
10080292 AAAATAAAATAAAAATGAAAA
1 AAAATAAAATAAAAATGAAAA
10080313 A
1 A
10080314 GAAAAACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAATAAAATAAAAATGAAAA
Found at i:10081215 original size:3 final size:3
Alignment explanation
Indices: 10081209--10081425 Score: 125
Period size: 3 Copynumber: 72.3 Consensus size: 3
10081199 AAAAAACATA
* * *
10081209 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * *
10081257 AGAT AAT AGT AGT AGT AGT AGT AAT AGT AGT AGT AAT AGT AGT AGT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
10081303 AGT AGT AGT AGT AGT AGT AGT AGT AGAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * * * *
10081349 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AGT AGT AGT AGT AGT -AG
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
10081394 AAT AAT -AT AAT AAT AAC AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10081426 GTAACAAAAA
Statistics
Matches: 194, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
2 4 0.02
3 183 0.94
4 7 0.04
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10081416 original size:14 final size:14
Alignment explanation
Indices: 10081397--10081423 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10081387 GTAGTAGAAT
10081397 AATATAATAATAAC
1 AATATAATAATAAC
10081411 AATATAATAATAA
1 AATATAATAATAA
10081424 TAGTAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAATAATAAC
Found at i:10081443 original size:6 final size:6
Alignment explanation
Indices: 10081211--10081461 Score: 116
Period size: 6 Copynumber: 41.8 Consensus size: 6
10081201 AAAACATAAA
* * * * * * * *
10081211 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAGTAG TAGTAG
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG
* * * * *
10081259 ATAATAG TAGTAG TAGTAG TAATAG TAGTAG TAATAG TAGTAG TAGTAG
1 -TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG
* * * * * * * *
10081308 TAGTAG TAGTAG TAGTAG TAGATAA TAATAA TAATAA TAATAA TAATAA
1 TAATAG TAATAG TAATAG TA-ATAG TAATAG TAATAG TAATAG TAATAG
* * * * * *
10081357 TAATAA TAATAA TAATA- T-ATAG TAGTAG TAGTAG TAGAATAA T-ATAA
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG T--AATAG TAATAG
* * * * * * *
10081404 TAATAA CAATA- TAATAA TAATAG TAACAA AAATAG TAATACG AAATAG
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATA-G TAATAG
10081452 TAA-AG TAATA
1 TAATAG TAATA
10081462 AATATAATCC
Statistics
Matches: 211, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
4 3 0.01
5 16 0.08
6 174 0.82
7 14 0.07
8 4 0.02
ACGTcount: A:0.53, C:0.01, G:0.14, T:0.31
Consensus pattern (6 bp):
TAATAG
Found at i:10082488 original size:17 final size:19
Alignment explanation
Indices: 10082462--10082500 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
10082452 ACTGAGGAAT
*
10082462 ATTAAGAAAAT-C-TTCAA
1 ATTAAAAAAATACTTTCAA
10082479 ATTAAAAAAATACTTTCAA
1 ATTAAAAAAATACTTTCAA
10082498 ATT
1 ATT
10082501 CTCCATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (19 bp):
ATTAAAAAAATACTTTCAA
Found at i:10084017 original size:32 final size:32
Alignment explanation
Indices: 10083958--10084019 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
10083948 CCATCATGCC
* ** *
10083958 AAAATTGATCCACCTTTACAACCATTATGCTA
1 AAAATTAATCCACCCCTACAACAATTATGCTA
*
10083990 AAAATTAATCCACCCCTACATCAATTATGC
1 AAAATTAATCCACCCCTACAACAATTATGC
10084020 CAAAGAGAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (32 bp):
AAAATTAATCCACCCCTACAACAATTATGCTA
Found at i:10090315 original size:12 final size:11
Alignment explanation
Indices: 10090298--10090347 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
10090288 ACAACCAAGG
10090298 GTTTTTGTTCTT
1 GTTTTTGTT-TT
10090310 GTTTTTGTTTT
1 GTTTTTGTTTT
*
10090321 GTTTTT-TGGTT
1 GTTTTTGT-TTT
10090332 -TTTTTGTTTT
1 GTTTTTGTTTT
10090342 -TTTTTG
1 GTTTTTG
10090348 GGTGATGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 14 0.41
11 11 0.32
12 9 0.26
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (11 bp):
GTTTTTGTTTT
Found at i:10090334 original size:19 final size:19
Alignment explanation
Indices: 10090310--10090348 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10090300 TTTTGTTCTT
10090310 GTTTTTGTT-TTGTTTTTTG
1 GTTTTT-TTGTTGTTTTTTG
*
10090329 GTTTTTTTGTTTTTTTTTG
1 GTTTTTTTGTTGTTTTTTG
10090348 G
1 G
10090349 GTGATGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (19 bp):
GTTTTTTTGTTGTTTTTTG
Found at i:10094174 original size:15 final size:15
Alignment explanation
Indices: 10094154--10094185 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10094144 CGGCTTCCTA
10094154 ACACAAAATTCATTC
1 ACACAAAATTCATTC
10094169 ACACAAAATTCATTC
1 ACACAAAATTCATTC
10094184 AC
1 AC
10094186 TTAAACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (15 bp):
ACACAAAATTCATTC
Found at i:10095997 original size:37 final size:37
Alignment explanation
Indices: 10095915--10095989 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
10095905 CCTTAAAAAC
* *
10095915 AAATTTTATACGTAACAATATTAATTAAATGTATTTT
1 AAATTTTATACGTAACAATATAAAATAAATGTATTTT
* *
10095952 AAATTTTATATGTAATAATATAAAATAAA-GATATTTT
1 AAATTTTATACGTAACAATATAAAATAAATG-TATTTT
10095989 A
1 A
10095990 TGTTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (37 bp):
AAATTTTATACGTAACAATATAAAATAAATGTATTTT
Found at i:10096215 original size:72 final size:72
Alignment explanation
Indices: 10096139--10096299 Score: 180
Period size: 72 Copynumber: 2.2 Consensus size: 72
10096129 TTACTTGTTG
* * * * *
10096139 AAATTTCAAAATTTCGAAAGTATAGTTTCAATATCCACTATACCTATTA-TTTTAAAAACGTTAT
1 AAATTTCAAAATTTCGAAAATAAAATTTCAATATCCACTATA-CTATTATTTTTAAAAACATAAT
10096203 CTTTATTA
65 CTTTATTA
* * * * * * *
10096211 AAATTACAAAATTTTGAAAATAAAATTTTAATATCCATTATATTTTTATTTTTAAAAACATAATT
1 AAATTTCAAAATTTCGAAAATAAAATTTCAATATCCACTATACTATTATTTTTAAAAACATAATC
*
10096276 TTTGTTA
66 TTTATTA
*
10096283 AAATTTTAAAATTTCGA
1 AAATTTCAAAATTTCGA
10096300 GGTTTCAACA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
71 4 0.06
72 68 0.94
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (72 bp):
AAATTTCAAAATTTCGAAAATAAAATTTCAATATCCACTATACTATTATTTTTAAAAACATAATC
TTTATTA
Found at i:10098124 original size:13 final size:13
Alignment explanation
Indices: 10098095--10098127 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10098085 AGAAATTCCA
*
10098095 AAAATAAAATATG
1 AAAATAAAAAATG
10098108 -AAATAAAAAATG
1 AAAATAAAAAATG
10098120 AAAATAAA
1 AAAATAAA
10098128 TATCACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAATG
Found at i:10103253 original size:28 final size:29
Alignment explanation
Indices: 10103222--10103292 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
10103212 AGTTAATAAA
10103222 TTTATAATTTAATATCACATTAAA-AATT
1 TTTATAATTTAATATCACATTAAATAATT
* * *
10103250 TTTAAAATTTAAATATCATATTAAATATTT
1 TTTATAATTT-AATATCACATTAAATAATT
10103280 TATTATAATTTAA
1 T-TTATAATTTAA
10103293 AACTATTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.25
29 13 0.36
30 6 0.17
31 8 0.22
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATAATTTAATATCACATTAAATAATT
Found at i:10103420 original size:3 final size:3
Alignment explanation
Indices: 10103414--10103454 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10103404 TCTTCTTCTC
10103414 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10103455 ATCTATGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10123126 original size:12 final size:13
Alignment explanation
Indices: 10123107--10123132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10123097 TCTCTTCATG
10123107 ATTTTTTTTATCT
1 ATTTTTTTTATCT
10123120 ATTTTTTTTATCT
1 ATTTTTTTTATCT
10123133 CTTCTCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTTTTTATCT
Found at i:10125378 original size:22 final size:22
Alignment explanation
Indices: 10125347--10125411 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
10125337 TTTTATTGTC
*
10125347 TATATCTTTATTTTAATTTTTT
1 TATATTTTTATTTTAATTTTTT
10125369 TATATTTTTAAAATTTTAA-TTTTT
1 TATATTTTT---ATTTTAATTTTTT
**
10125393 TATTATTTACATTTTAATT
1 TA-TATTTTTATTTTAATT
10125412 CTTATATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 15 0.43
23 1 0.03
24 7 0.20
25 12 0.34
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (22 bp):
TATATTTTTATTTTAATTTTTT
Found at i:10127810 original size:20 final size:19
Alignment explanation
Indices: 10127787--10127846 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
10127777 CAAAAAAAAA
10127787 TTAAAAACTTTAAAAATATT
1 TTAAAAA-TTTAAAAATATT
10127807 TTAAAATATATT-AAAATATT
1 TTAAAA-AT-TTAAAAATATT
* *
10127827 TGAAAAAATTATAAAATATT
1 TTAAAAATTTA-AAAATATT
10127847 AAAATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 28 0.82
21 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAAAATTTAAAAATATT
Found at i:10127813 original size:10 final size:10
Alignment explanation
Indices: 10127799--10127846 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
10127789 AAAAACTTTA
10127799 AAAATATTTT
1 AAAATATTTT
*
10127809 AAAATATATT
1 AAAATATTTT
*
10127819 AAAATATTTG
1 AAAATATTTT
* *
10127829 AAAAAATTAT
1 AAAATATTTT
10127839 AAAATATT
1 AAAATATT
10127847 AAAATAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AAAATATTTT
Found at i:10127822 original size:30 final size:30
Alignment explanation
Indices: 10127786--10127852 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
10127776 TCAAAAAAAA
*
10127786 ATTAAAA-ACTTT-AAAAATATTTTAAAATAT
1 ATTAAAATA-TTTGAAAAA-ATTATAAAATAT
10127816 ATTAAAATATTTGAAAAAATTAT-AAA-AT
1 ATTAAAATATTTGAAAAAATTATAAAATAT
10127844 ATTAAAATA
1 ATTAAAATA
10127853 ATATATCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 11 0.32
29 3 0.09
30 14 0.41
31 6 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTAAAATATTTGAAAAAATTATAAAATAT
Found at i:10127847 original size:10 final size:10
Alignment explanation
Indices: 10127799--10127895 Score: 55
Period size: 10 Copynumber: 10.0 Consensus size: 10
10127789 AAAAACTTTA
*
10127799 AAAATATTTT
1 AAAATATTAT
10127809 AAAATA-TATT
1 AAAATATTA-T
10127819 AAAATATT-T
1 AAAATATTAT
*
10127828 GAAAAAATTAT
1 -AAAATATTAT
*
10127839 AAAATATTAA
1 AAAATATTAT
10127849 AATAATA-TAT
1 AA-AATATTAT
* *
10127859 CAAATATGTTT
1 AAAATAT-TAT
*
10127870 AGAA-ATTAT
1 AAAATATTAT
10127879 AAAA-ATTA-
1 AAAATATTAT
10127887 AAAA-ATTAT
1 AAAATATTAT
10127896 TAATACCTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 8 0.12
9 15 0.22
10 35 0.51
11 10 0.15
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAATATTAT
Found at i:10127851 original size:8 final size:9
Alignment explanation
Indices: 10127799--10127852 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
10127789 AAAAACTTTA
10127799 AAAATATTTT
1 AAAATA-TTT
10127809 AAAATATATT
1 AAAATAT-TT
10127819 AAAATATTT
1 AAAATATTT
*
10127828 GAAAAAATTAT
1 -AAAATATT-T
10127839 AAAATA-TT
1 AAAATATTT
10127847 AAAATA
1 AAAATA
10127853 ATATATCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.18
9 4 0.10
10 27 0.69
11 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAATATTT
Found at i:10127863 original size:20 final size:20
Alignment explanation
Indices: 10127807--10127865 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
10127797 TAAAAATATT
10127807 TTAAAAT-ATAT-TAAAATA
1 TTAAAATAATATATAAAATA
10127825 TTTGAAAA-AAT-TATAAAATA
1 -TT-AAAATAATATATAAAATA
*
10127845 TTAAAATAATATATCAAATA
1 TTAAAATAATATATAAAATA
10127865 T
1 T
10127866 GTTTAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 22 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAAATAATATATAAAATA
Found at i:10127864 original size:40 final size:37
Alignment explanation
Indices: 10127807--10127898 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 37
10127797 TAAAAATATT
10127807 TTAAAATATATTAAAATAT-TTGAAAAAATTATAAAATA
1 TTAAAATATATTAAAATATGTT-AAAAAATTATAAAA-A
* * *
10127845 TTAAAATAATATATCAAATATGTTTAGAAATTATAAAAA
1 TTAAAAT-ATAT-TAAAATATGTTAAAAAATTATAAAAA
*
10127884 TTAAAAAATTATTAA
1 TTAAAATA-TATTAA
10127899 TACCTAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
38 10 0.22
39 14 0.31
40 19 0.42
41 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (37 bp):
TTAAAATATATTAAAATATGTTAAAAAATTATAAAAA
Found at i:10128136 original size:18 final size:16
Alignment explanation
Indices: 10128115--10128162 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
10128105 TTAAATTCTG
*
10128115 AAAAATTAAAAAATTTC
1 AAAAATTAAAAAA-TGC
*
10128132 AAAAATCTAAAATATGC
1 AAAAAT-TAAAAAATGC
10128149 TAAAAATTAAAAAA
1 -AAAAATTAAAAAA
10128163 AAAAACTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAATTAAAAAATGC
Found at i:10128192 original size:18 final size:20
Alignment explanation
Indices: 10128160--10128202 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10128150 AAAAATTAAA
10128160 AAAAAAAACTCAAAA-ATTC
1 AAAAAAAACTCAAAACATTC
* *
10128179 AAAAAAAAGT-AAAACATTT
1 AAAAAAAACTCAAAACATTC
10128198 AAAAA
1 AAAAA
10128203 TTTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAAAAACTCAAAACATTC
Found at i:10128969 original size:15 final size:14
Alignment explanation
Indices: 10128945--10128974 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10128935 TGAAGGGGGA
10128945 AGGAAAAAAGTAAG
1 AGGAAAAAAGTAAG
10128959 AGGACAAAAAGTAAG
1 AGGA-AAAAAGTAAG
10128974 A
1 A
10128975 TGCTGGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.03, G:0.27, T:0.07
Consensus pattern (14 bp):
AGGAAAAAAGTAAG
Found at i:10129439 original size:25 final size:25
Alignment explanation
Indices: 10129388--10129440 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
10129378 AATTGGATCA
* *
10129388 TTTTATTTCATAAGTTATTAGAGTT
1 TTTTATTTCATAAGTTATCAGAATT
10129413 TTTTATTTCATAAGTTAATCA-AATT
1 TTTTATTTCATAAGTT-ATCAGAATT
10129438 TTT
1 TTT
10129441 AACATAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.57
Consensus pattern (25 bp):
TTTTATTTCATAAGTTATCAGAATT
Found at i:10131797 original size:149 final size:150
Alignment explanation
Indices: 10131569--10131867 Score: 573
Period size: 149 Copynumber: 2.0 Consensus size: 150
10131559 CAATATTCAA
10131569 AAATTAACACTTCAGATATATATTAAACAAAATATAAAACATTGGCCACACTGTTTAGCCAGTCC
1 AAATTAACACTTCAGATATATATTAAACAAAATATAAAACATTGGCCACACTGTTTAGCCAGTCC
*
10131634 AATAATTGCAATACACTATTCTAATGTAATACATGAAACTTTTGCCAAGAATCAACTTTTTCCTT
66 AATAATTGCAATACACTATTCTAATGTAATACATGAAACTTTTGCCAAGAATCAACTTATTCCTT
*
10131699 TTTCACACATGAATCAGATT
131 TTTCACACATGAATAAGATT
10131719 AAATTAACACTTCAGATATATATTAAACAAAATAT-AAACATTGGCCACACTGTTTAGCCAGTCC
1 AAATTAACACTTCAGATATATATTAAACAAAATATAAAACATTGGCCACACTGTTTAGCCAGTCC
10131783 AATAATTGCAATACACTATTCTAATGTAATACATGAAACTTTTGCCAAGAATCAACTTATTCCTT
66 AATAATTGCAATACACTATTCTAATGTAATACATGAAACTTTTGCCAAGAATCAACTTATTCCTT
10131848 TTTCACACATGAATAAGATT
131 TTTCACACATGAATAAGATT
10131868 TATAAGGCAA
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 112 0.76
150 35 0.24
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (150 bp):
AAATTAACACTTCAGATATATATTAAACAAAATATAAAACATTGGCCACACTGTTTAGCCAGTCC
AATAATTGCAATACACTATTCTAATGTAATACATGAAACTTTTGCCAAGAATCAACTTATTCCTT
TTTCACACATGAATAAGATT
Found at i:10138372 original size:160 final size:161
Alignment explanation
Indices: 10137848--10138809 Score: 968
Period size: 160 Copynumber: 6.0 Consensus size: 161
10137838 TTAAAACATT
* * ** * *
10137848 TAAACCACAACTTGTTCATGCATATCAAGCATGGCAGCCAA-TATCAATTC-TTCGAACAAATTT
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGT-TCAA-TCATTCGAACAAGTTT
* * * * * * * *
10137911 AATATCATATATTGGAGCTATCTAAACTCTTAAAACAAAAATATATCTATAAATTTAAATTTTTA
64 AATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAATATAACTGTAAATTTATATTTTTA
* *
10137976 CCTTTTGAAGGCATAAAAAGTCCTAAACACACA
129 CCTTTTGACGGCAAAAAAAGTCCTAAACACACA
*
10138009 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAA-CGATTCGAATAAGTTTA
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAATC-ATTCGAACAAGTTTA
* * * *
10138073 ATATCATGTATT-AGAGCTATCTAAACTATTACAATAGAAA-AAATAGTAGTAAATTTATATTTT
65 ATATCATGTATTGA-AGCTATCTAAACTGTTAAAATAGAAATATA-ACT-GTAAATTTATATTTT
* *** * *
10138136 TGCCTTTTGACAATACAAAAAA-TGCTAAA-AGTACA
127 TACCTTTTGACGGCA-AAAAAAGTCCTAAACA-CACA
* * ** * * *
10138171 TAAATCATAACTTGTTCACACATATCAAGTGTGGCAGCCAAGGTCAATCATTTGAACAAGTTTAA
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAATCATTCGAACAAGTTTAA
* *
10138236 TATCATGTATTTAAGCTATCTAAACTGTTAAAATA-AAATATAACTGTAAATTTATATTTTTACT
66 TATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAATATAACTGTAAATTTATATTTTTACC
* *
10138300 TTTTGACGACAAAAAAAGTCTTAAACACACA
131 TTTTGACGGCAAAAAAAGTCCTAAACACACA
* * * *
10138331 TAAACCATAACTTTTTCACACATATCAAGCGTGGTAGCCAAGTTCAA-CTATTTGGACAAGTTTA
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAATC-ATTCGAACAAGTTTA
* **
10138395 ATATCATGTATTGGAA-CTATCTAAACTATTAAAACT--AAATATAACTACAAATTTATATTTTT
65 ATATCATGTATT-GAAGCTATCTAAACTGTTAAAA-TAGAAATATAACTGTAAATTTATATTTTT
*
10138457 ACCTTTTGACGGCATAAAAAGTCCTAAACACACA
128 ACCTTTTGACGGCAAAAAAAGTCCTAAACACACA
* * * ** * * *
10138491 TAAACAATAACTTTTTAACACATATCAAGCATAATAGCCAAGTTGAACCATTCGAATAAGTTTAA
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAATCATTCGAACAAGTTTAA
* * * * *
10138556 TATCATGTATTGGAGCTATCTAAATTGTTAAAATAGAAATATAA-TAGTAAATTTACATTCTTGC
66 TATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAATATAACT-GTAAATTTATATTTTTAC
* * *
10138620 CCTTTGA-GGCGTAAAAAA-TCCTAAAAACACA
130 CTTTTGACGGC-AAAAAAAGTCCTAAACACACA
**** * * *
10138651 TAAATTGCACCTTATTCACACATATCAAGCATGATAGCCAAGGTT-AATCATTCGAATAAGTTTA
1 TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAA-GTTCAATCATTCGAACAAGTTTA
* * * * *
10138715 ATATCATGTATTGGAGCTATCTAAACTGTTAAAATATATATATAACTGTAAATGTATATTTTTTC
65 ATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAATATAACTGTAAATTTATATTTTTAC
* * **
10138780 CTTATT-ATGACGTAAAAAGTCCTAAACACA
130 CTT-TTGACGGCAAAAAAAGTCCTAAACACA
10138810 TTGTAAACAA
Statistics
Matches: 673, Mismatches: 101, Indels: 54
0.81 0.12 0.07
Matches are distributed among these distances:
159 11 0.02
160 387 0.58
161 147 0.22
162 121 0.18
163 7 0.01
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (161 bp):
TAAACCATAACTTATTCACACATATCAAGCATGGTAGCCAAGTTCAATCATTCGAACAAGTTTAA
TATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAAATATAACTGTAAATTTATATTTTTACC
TTTTGACGGCAAAAAAAGTCCTAAACACACA
Found at i:10142963 original size:161 final size:161
Alignment explanation
Indices: 10142458--10142951 Score: 552
Period size: 161 Copynumber: 3.1 Consensus size: 161
10142448 ACATTATGAC
* * ** *
10142458 ACACACATAAATCATAACTTTTTCACACATATCATGCGTGGTAACCAAAG-TCAATCATTC-AAA
1 ACACACATAAATCATAACTTTTTCACACATATCAAGAGTGACAACC-AAGTTCAACCATTCGAAA
* * * *
10142521 CAAATTTAATATCATGTATTGAAGTTATCTAAATTGTTAAAATAAAAATATAATGGTTAATTTAC
65 -AAATTTAATATCATGTATTGAAGTTATCTAAACTGTTAAAATAGAAATATAATAGTAAATTTAC
* *
10142586 ATTTTTGCCTTTTGACAGCT-TAAAAAGTTCTAA
129 ATTTTTGCCTTTTGA-TGGTATAAAAAGTTCTAA
* * *
10142619 ACACAAAT-AATCATAACTTTTTCACACATATCAAGCA-TTACAACCAAGTTCAACAATTCGAAA
1 ACACACATAAATCATAACTTTTTCACACATATCAAG-AGTGACAACCAAGTTCAACCATTCG-AA
* * * *
10142682 AAAATTTAATATCATGTATTGCAGTTATCTAAACTGTTAAAATAGAAATATAACAATAAATTTAT
64 AAAATTTAATATCATGTATTGAAGTTATCTAAACTGTTAAAATAGAAATATAATAGTAAATTTAC
* * *
10142747 ATTTTT-ACTTTCTGATGGCATAAAAAGTTTTAA
129 ATTTTTGCCTTT-TGATGGTATAAAAAGTTCTAA
* ** * * *
10142780 ACATACATAAATTGTAACTTTTTCACACATATCAAGAGTGACAACCAAGTTCAACCATTTGGATA
1 ACACACATAAATCATAACTTTTTCACACATATCAAGAGTGACAACCAAGTTCAACCATTCGAAAA
* * * *
10142845 AGTTTAATATCATGTATT-AGAGCTATCTAAACTATTAAAATAGAAATATAATTGTAAATTTACA
66 AATTTAATATCATGTATTGA-AGTTATCTAAACTGTTAAAATAGAAATATAATAGTAAATTTACA
** * * *
10142909 TTTTTGCCCATTGATGGTACAAAAAATCCTAA
130 TTTTTGCCTTTTGATGGTATAAAAAGTTCTAA
10142941 ACACACATAAA
1 ACACACATAAA
10142952 CCGCAACTTT
Statistics
Matches: 276, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
159 3 0.01
160 44 0.16
161 179 0.65
162 50 0.18
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (161 bp):
ACACACATAAATCATAACTTTTTCACACATATCAAGAGTGACAACCAAGTTCAACCATTCGAAAA
AATTTAATATCATGTATTGAAGTTATCTAAACTGTTAAAATAGAAATATAATAGTAAATTTACAT
TTTTGCCTTTTGATGGTATAAAAAGTTCTAA
Found at i:10147166 original size:3 final size:3
Alignment explanation
Indices: 10147146--10147235 Score: 107
Period size: 3 Copynumber: 31.3 Consensus size: 3
10147136 AAATAAAAAC
* *
10147146 AAT AAT AAC AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
10147194 -AT AAT -AT AAT AAT AAT AAT -AT AAT TGT AAT AGT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10147236 TGGTATAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
2 8 0.11
3 65 0.89
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:10148173 original size:21 final size:21
Alignment explanation
Indices: 10148149--10148191 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10148139 CTTCATTACT
10148149 TTGAATATCAATATCACCAAC
1 TTGAATATCAATATCACCAAC
* *
10148170 TTGAGTATCAGTATCACCAAC
1 TTGAATATCAATATCACCAAC
10148191 T
1 T
10148192 CTTTATCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
TTGAATATCAATATCACCAAC
Found at i:10154619 original size:6 final size:6
Alignment explanation
Indices: 10154608--10154639 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10154598 TTCCAGCCAG
*
10154608 CAGGCA CAGGCA CAGGCA CAGGTA CAGGCA CA
1 CAGGCA CAGGCA CAGGCA CAGGCA CAGGCA CA
10154640 ACCCCTAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.34, C:0.31, G:0.31, T:0.03
Consensus pattern (6 bp):
CAGGCA
Found at i:10155477 original size:3 final size:3
Alignment explanation
Indices: 10155471--10155497 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10155461 TTTCCTGAAT
10155471 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
10155498 ATGGTTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10161123 original size:13 final size:12
Alignment explanation
Indices: 10161083--10161124 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10161073 TATTCAATGA
*
10161083 TAAAAATTTTAT
1 TAAAATTTTTAT
*
10161095 TAAAATTTTTAA
1 TAAAATTTTTAT
10161107 TAAAATTTTTAT
1 TAAAATTTTTAT
10161119 CTAAAA
1 -TAAAA
10161125 AATATATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:10161214 original size:14 final size:14
Alignment explanation
Indices: 10161179--10161216 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10161169 TATTAAAGTT
*
10161179 TTTTAATTTATTAA
1 TTTTAATTTTTTAA
*
10161193 TTTT-ATTTTTTGA
1 TTTTAATTTTTTAA
10161206 TTTTAATTTTT
1 TTTTAATTTTT
10161217 ATTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:10161228 original size:14 final size:14
Alignment explanation
Indices: 10161185--10161231 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
10161175 AGTTTTTTAA
10161185 TTTATTAATTTTATT
1 TTTATTAA-TTTATT
* *
10161200 TTT-TGATTTTAATT
1 TTTATTAATTT-ATT
10161214 TTTATTAATTTATT
1 TTTATTAATTTATT
10161228 TTTA
1 TTTA
10161232 ATAAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 3 0.12
14 15 0.58
15 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTATTAATTTATT
Found at i:10163284 original size:202 final size:202
Alignment explanation
Indices: 10162874--10163284 Score: 754
Period size: 202 Copynumber: 2.0 Consensus size: 202
10162864 AATATTCATT
10162874 TATTAATTTTCAAAGTTGTTTATTTGGTGGGTACAACTAAAAAGTCGATTACAATCAAGCATAAT
1 TATTAATTTTCAAAGTTGTTTATTTGGTGGGTACAACTAAAAAGTCGATTACAATCAAGCATAAT
10162939 TTAAAAATATATATTTTTAATCTTACATAACATTTCAACTATATTAGAAACTCGTTAATAAACTC
66 TTAAAAATATATATTTTTAATCTTACATAACATTTCAACTATATTAGAAACTCGTTAATAAACTC
10163004 ATTAAGTTTACAAAATAAATTCAACATTGATAATCTACCAATAAATTCAAACAGAAATTAACAAA
131 ATTAAGTTTACAAAATAAATTCAACATTGATAATCTACCAATAAATTCAAACAGAAATTAACAAA
*
10163069 TAGATTT
196 TAGATTA
*
10163076 TATTAATTTTCAAAGTTGTTTATTTGGTGGGTACAACTAAAAAGTTGATTACAAT-AAGGCATAA
1 TATTAATTTTCAAAGTTGTTTATTTGGTGGGTACAACTAAAAAGTCGATTACAATCAA-GCATAA
10163140 TTTAAAAATATATATTTTTAATCTTACATAACATTTCAACTATATTAGAAACTCCGTTAATAAAC
65 TTTAAAAATATATATTTTTAATCTTACATAACATTTCAACTATATTAGAAACT-CGTTAATAAAC
*
10163205 TCATTAAGTTTACAAAATAAATTCAACATTGATAATCTACTAATAAATTCAAACAGAAATTAACA
129 TCATTAAGTTTACAAAATAAATTCAACATTGATAATCTACCAATAAATTCAAACAGAAATTAACA
*
10163270 ATTAGA-TA
194 AATAGATTA
10163278 TATTAAT
1 TATTAAT
10163285 AATAACATAG
Statistics
Matches: 203, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
201 2 0.01
202 121 0.60
203 80 0.39
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (202 bp):
TATTAATTTTCAAAGTTGTTTATTTGGTGGGTACAACTAAAAAGTCGATTACAATCAAGCATAAT
TTAAAAATATATATTTTTAATCTTACATAACATTTCAACTATATTAGAAACTCGTTAATAAACTC
ATTAAGTTTACAAAATAAATTCAACATTGATAATCTACCAATAAATTCAAACAGAAATTAACAAA
TAGATTA
Found at i:10163483 original size:28 final size:28
Alignment explanation
Indices: 10163441--10163495 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10163431 ACAAAGACTA
10163441 GAGTGGTCTCTGAC-ATTTGTACTCCAAT
1 GAGTGGTCTCTGACAATTT-TACTCCAAT
10163469 GAGTGGTCT-TCGACAATTTTACTCCAA
1 GAGTGGTCTCT-GACAATTTTACTCCAA
10163496 CACTTAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.04
28 20 0.80
29 4 0.16
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (28 bp):
GAGTGGTCTCTGACAATTTTACTCCAAT
Found at i:10166520 original size:14 final size:14
Alignment explanation
Indices: 10166497--10166535 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10166487 CTTGTTGTTG
*
10166497 TTGTTGTATTATAT
1 TTGTTTTATTATAT
10166511 TTGTTTTATTATAT
1 TTGTTTTATTATAT
*
10166525 TTATTTT-TTAT
1 TTGTTTTATTAT
10166536 TTTATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (14 bp):
TTGTTTTATTATAT
Found at i:10176890 original size:3 final size:3
Alignment explanation
Indices: 10176882--10177026 Score: 104
Period size: 3 Copynumber: 50.0 Consensus size: 3
10176872 TTTTTATGTA
* * * * * * *
10176882 TAT TAT TAT TAT TAG TAC CAT TAC TAT TAT TAT TAT TCT TAG TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
10176930 TAT TATT TAT TAT TAT TAT TAT TAT TAT TGC CAT TAT TAC TAG TAC
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10176976 TA- TAT TAT TA- TAG TA- TAG TA- TAT TA- TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10177018 TAT TAT TAT
1 TAT TAT TAT
10177027 CAACTTTATT
Statistics
Matches: 113, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
2 12 0.11
3 98 0.87
4 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:10177008 original size:5 final size:5
Alignment explanation
Indices: 10176981--10177023 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
10176971 AGTACTATAT
* *
10176981 TATTA TAGTA TAGTA TATTA TATTA TATTA TTATTA TTATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA T
10177024 TATCAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 24 0.69
6 11 0.31
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:10177921 original size:5 final size:5
Alignment explanation
Indices: 10177871--10177954 Score: 52
Period size: 5 Copynumber: 17.2 Consensus size: 5
10177861 TGATTGCAAG
* * * *
10177871 TTTTC TTTT- TTTCA TTTTA CTTTTA -TTT- TTTGA TTTGA TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
10177918 TTTT- TTTTA CTTCA TTTTA TTTTCA TTTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA T
10177955 GCTATTGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
4 16 0.25
5 36 0.57
6 7 0.11
7 4 0.06
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:10177924 original size:24 final size:25
Alignment explanation
Indices: 10177881--10177947 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
10177871 TTTTCTTTTT
* *
10177881 TTCATTTTACTTTT-A-TTTTTTGAT
1 TTCATTTTA-TTTTCATTTTTTTTAC
*
10177905 TTGATTTT-TTTT-ATTTTTTTTAC
1 TTCATTTTATTTTCATTTTTTTTAC
10177928 TTCATTTTATTTTCATTTTT
1 TTCATTTTATTTTCATTTTT
10177948 ATTTTATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 14 0.39
24 11 0.31
25 6 0.17
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (25 bp):
TTCATTTTATTTTCATTTTTTTTAC
Found at i:10182149 original size:94 final size:94
Alignment explanation
Indices: 10181988--10182177 Score: 308
Period size: 94 Copynumber: 2.0 Consensus size: 94
10181978 TTACTGAAGA
* * * * *
10181988 TGTTGAATTAGGCTTATGTGGCACACAATGTGTCTGTGGAATATATGAACCACTTAGTAAGGAAC
1 TGTTGAATAAAGCTTATGTGACACACAATGTGTCTATGGAATATATGAACCACTTAGTAAGAAAC
10182053 TTAGTGGTAACACATCATATAGCTTTCAG
66 TTAGTGGTAACACATCATATAGCTTTCAG
* *
10182082 TGTTGAATAAAGCTTATGTGACATACAATGTGTCTATGGAATATGTGAACCACTTAGTAAGAAAC
1 TGTTGAATAAAGCTTATGTGACACACAATGTGTCTATGGAATATATGAACCACTTAGTAAGAAAC
*
10182147 TTAGTGGTAACACATCATATAGTTTTCAG
66 TTAGTGGTAACACATCATATAGCTTTCAG
10182176 TG
1 TG
10182178 ATGATGAGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (94 bp):
TGTTGAATAAAGCTTATGTGACACACAATGTGTCTATGGAATATATGAACCACTTAGTAAGAAAC
TTAGTGGTAACACATCATATAGCTTTCAG
Found at i:10188099 original size:3 final size:3
Alignment explanation
Indices: 10188091--10188156 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
10188081 TTTTTATGTA
10188091 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10188139 TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
10188157 CATCATCATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10188167 original size:12 final size:12
Alignment explanation
Indices: 10188152--10188183 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10188142 TATTATTATT
10188152 ATTATCATCATC
1 ATTATCATCATC
10188164 ATTATCATCATC
1 ATTATCATCATC
*
10188176 ATCATCAT
1 ATTATCAT
10188184 TATTACTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTATCATCATC
Found at i:10188221 original size:15 final size:15
Alignment explanation
Indices: 10188201--10188272 Score: 72
Period size: 15 Copynumber: 4.8 Consensus size: 15
10188191 AGTACTATAT
* *
10188201 TATTATAGTGTAGTA
1 TATTATAGTATAATA
*
10188216 TATTATATTATAATA
1 TATTATAGTATAATA
*
10188231 TAGTATAGTATAATA
1 TATTATAGTATAATA
* *
10188246 TATTATATTATATTA
1 TATTATAGTATAATA
* *
10188261 TACTATATTATA
1 TATTATAGTATA
10188273 TTGTTAGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (15 bp):
TATTATAGTATAATA
Found at i:10188222 original size:5 final size:5
Alignment explanation
Indices: 10188214--10188274 Score: 77
Period size: 5 Copynumber: 12.2 Consensus size: 5
10188204 TATAGTGTAG
* * * * *
10188214 TATAT TATAT TATAA TATAG TATAG TATAA TATAT TATAT TATAT TATAC
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
10188264 TATAT TATAT T
1 TATAT TATAT T
10188275 GTTAGTATTC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (5 bp):
TATAT
Found at i:10189139 original size:6 final size:6
Alignment explanation
Indices: 10189130--10189195 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
10189120 GGTTTTTCTT
* * *
10189130 TTTTTA TTTTCA -TTTTA TTTTTA -TTTTA TTTATT- TTTTTA -CTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
10189175 -TTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTT
10189196 ATGCCATTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 17 0.35
6 30 0.61
7 2 0.04
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:10189152 original size:17 final size:17
Alignment explanation
Indices: 10189130--10189197 Score: 88
Period size: 17 Copynumber: 4.1 Consensus size: 17
10189120 GGTTTTTCTT
10189130 TTTTTATTTTCATTTTA
1 TTTTTATTTTCATTTTA
10189147 TTTTTATTTT-A-TTTA
1 TTTTTATTTTCATTTTA
10189162 TTTTT-TTACTTCATTTTA
1 TTTTTATT--TTCATTTTA
*
10189180 TTTTTATTTTTATTTTA
1 TTTTTATTTTCATTTTA
10189197 T
1 T
10189198 GCCATTGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
14 2 0.04
15 9 0.20
16 3 0.07
17 20 0.44
18 9 0.20
19 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTCATTTTA
Found at i:10189175 original size:33 final size:35
Alignment explanation
Indices: 10189128--10189194 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
10189118 TAGGTTTTTC
*
10189128 TTTTTTTATTTTCATTTTATTTTTA-TTTTATTTA
1 TTTTTTTATCTTCATTTTATTTTTATTTTTATTTA
10189162 TTTTTTTA-CTTCATTTTATTTTTATTTTTATTT
1 TTTTTTTATCTTCATTTTATTTTTATTTTTATTT
10189195 TATGCCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.79
Consensus pattern (35 bp):
TTTTTTTATCTTCATTTTATTTTTATTTTTATTTA
Found at i:10189197 original size:11 final size:11
Alignment explanation
Indices: 10189131--10189195 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
10189121 GTTTTTCTTT
*
10189131 TTTTATTTTCA
1 TTTTATTTTTA
10189142 TTTTATTTTTA
1 TTTTATTTTTA
*
10189153 TTTTATTTATTT
1 TTTTATTT-TTA
* *
10189165 TTTTA-CTTCA
1 TTTTATTTTTA
10189175 TTTTATTTTTA
1 TTTTATTTTTA
10189186 TTTTTATTTT
1 -TTTTATTTT
10189196 ATGCCATTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
10 6 0.14
11 22 0.50
12 16 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:10190145 original size:43 final size:43
Alignment explanation
Indices: 10190098--10190213 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
10190088 AGAGCCTATT
*
10190098 TCTCATTTTAAAGTTGTTTAGCCTCTATTTAGGGGAGCCC-ACA
1 TCTCATTTTAAAGTTGTTTAGCCTCTATTTAGAGGA-CCCGACA
* **
10190141 TCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGAGGACCCGATT
1 TCTCATTTTAAAGTTGTTTAGCCTCTATTTAGAGGACCCGACA
* *
10190184 TCTCATTTTGAAGTTGTTTAGTCTCTATTT
1 TCTCATTTTAAAGTTGTTTAGCCTCTATTT
10190214 GAAAGGGTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 3 0.05
43 62 0.95
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (43 bp):
TCTCATTTTAAAGTTGTTTAGCCTCTATTTAGAGGACCCGACA
Found at i:10191454 original size:18 final size:19
Alignment explanation
Indices: 10191427--10191473 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
10191417 TCTATTTTGA
*
10191427 TTTTAGTTTTATCTTT-TT
1 TTTTAATTTTATCTTTCTT
* *
10191445 TTTTAATTTTCTTTTTCTT
1 TTTTAATTTTATCTTTCTT
*
10191464 TTTTTATTTT
1 TTTTAATTTT
10191474 TTATGTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTAATTTTATCTTTCTT
Found at i:10191499 original size:15 final size:14
Alignment explanation
Indices: 10191442--10191501 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
10191432 GTTTTATCTT
* *
10191442 TTTTTTTAATTTTC
1 TTTTTTTATTTTTA
10191456 TTTTTCTT-TTTTTA
1 TTTTT-TTATTTTTA
10191470 -TTTTTTATGTGTTTA
1 TTTTTTTAT-T-TTTA
10191485 TTTGTTTTATTTTTA
1 TTT-TTTTATTTTTA
10191500 TT
1 TT
10191502 CAATATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
12 2 0.05
13 5 0.13
14 10 0.26
15 12 0.32
16 3 0.08
17 6 0.16
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:10195556 original size:19 final size:20
Alignment explanation
Indices: 10195534--10195571 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10195524 TAAAGAAATT
10195534 TTATTA-TGTTATTTTTTTG
1 TTATTATTGTTATTTTTTTG
*
10195553 TTATTATTGTTGTTTTTTT
1 TTATTATTGTTATTTTTTT
10195572 TTTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (20 bp):
TTATTATTGTTATTTTTTTG
Found at i:10198772 original size:30 final size:30
Alignment explanation
Indices: 10198732--10198801 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
10198722 GGATGTGCGA
*
10198732 TTTT-CTTGGCCCCAAAGAATCCTAGATTT
1 TTTTCCTTGGCCCCAAAAAATCCTAGATTT
*
10198761 TTTTCCTTGGCCCCAAAAAATTCTAGATTT
1 TTTTCCTTGGCCCCAAAAAATCCTAGATTT
10198791 TTTTCCTTGGC
1 TTTTCCTTGGC
10198802 TGTGTTGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (30 bp):
TTTTCCTTGGCCCCAAAAAATCCTAGATTT
Found at i:10198836 original size:15 final size:15
Alignment explanation
Indices: 10198816--10198847 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10198806 TTGGCTTGGC
10198816 TGGGATTGCTCATTT
1 TGGGATTGCTCATTT
10198831 TGGGATTGCTCATTT
1 TGGGATTGCTCATTT
10198846 TG
1 TG
10198848 AACCATCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.28, T:0.47
Consensus pattern (15 bp):
TGGGATTGCTCATTT
Found at i:10199518 original size:39 final size:39
Alignment explanation
Indices: 10199460--10199538 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
10199450 TGGATTGTAT
* * *
10199460 ATTTACGCCTAAACGTGAAAGGATGACATGGAAAGATTA
1 ATTTACGCCTAAACATGAAAGAATGACATGCAAAGATTA
*
10199499 ATTTACGCCTACACATGAAAGAATGACATGCAAAGATTA
1 ATTTACGCCTAAACATGAAAGAATGACATGCAAAGATTA
10199538 A
1 A
10199539 CATGCAGAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (39 bp):
ATTTACGCCTAAACATGAAAGAATGACATGCAAAGATTA
Found at i:10199831 original size:1 final size:1
Alignment explanation
Indices: 10199825--10199851 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10199815 AGAAGCTATG
10199825 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10199852 CACCAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10202517 original size:10 final size:10
Alignment explanation
Indices: 10202502--10202526 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10202492 ACTTGATTGT
10202502 TTTTTTTTTC
1 TTTTTTTTTC
10202512 TTTTTTTTTC
1 TTTTTTTTTC
10202522 TTTTT
1 TTTTT
10202527 GCAAGCTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10207892 original size:101 final size:101
Alignment explanation
Indices: 10207709--10207920 Score: 390
Period size: 101 Copynumber: 2.1 Consensus size: 101
10207699 TCTGAGTCTC
*
10207709 TAAGT-TTTTTATGGATATGAACTGGTTCTAAAACATAGTGTTCTGGGTTTGCACAAATGAGGTC
1 TAAGTCTTCTTATGGATATGAACTGGTTCTAAAACATAGTGTTCTGGGTTTGCACAAATGAGGTC
* *
10207773 TATGCCCTAATAGAAGAACTTAAAAGATCTTCAACT
66 TATGCCCTAATAAAAGAACTTAAAAGATCCTCAACT
10207809 TAAGTCTTCTTATGGATATGAACTGGTTCTAAAACATAGTGTTCTGGGTTTGCACAAATGAGGTC
1 TAAGTCTTCTTATGGATATGAACTGGTTCTAAAACATAGTGTTCTGGGTTTGCACAAATGAGGTC
10207874 TATGCCCTAATAAAAGAACTTAAAAGATCCTCAACT
66 TATGCCCTAATAAAAGAACTTAAAAGATCCTCAACT
10207910 TAAGTCTTCTT
1 TAAGTCTTCTT
10207921 CTCTGATGGT
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 5 0.05
101 103 0.95
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (101 bp):
TAAGTCTTCTTATGGATATGAACTGGTTCTAAAACATAGTGTTCTGGGTTTGCACAAATGAGGTC
TATGCCCTAATAAAAGAACTTAAAAGATCCTCAACT
Found at i:10210571 original size:30 final size:30
Alignment explanation
Indices: 10210535--10210594 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
10210525 CTCTAAACTA
10210535 TACAAATGAACATATAACTAAATGGAATTT
1 TACAAATGAACATATAACTAAATGGAATTT
**
10210565 TACAAATGAACATATGTCTAAATGGAATTT
1 TACAAATGAACATATAACTAAATGGAATTT
10210595 GTATGCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (30 bp):
TACAAATGAACATATAACTAAATGGAATTT
Found at i:10218847 original size:12 final size:12
Alignment explanation
Indices: 10218832--10218865 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
10218822 TTTTTAAATT
*
10218832 TATTTGATAAAA
1 TATTTTATAAAA
10218844 TATTTTAT-AAA
1 TATTTTATAAAA
10218855 TATTTTATAAA
1 TATTTTATAAA
10218866 TTTTCCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TATTTTATAAAA
Found at i:10219203 original size:22 final size:22
Alignment explanation
Indices: 10219154--10219194 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10219144 AATTGACAAC
*
10219154 AAAAAG-AAAAAAATGAGAAGA
1 AAAAAGAAAAAAAAAGAGAAGA
10219175 AAAAAGAAAAAAAAAGAGAA
1 AAAAAGAAAAAAAAAGAGAA
10219195 AGATAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAGAGAAGA
Found at i:10219958 original size:2 final size:2
Alignment explanation
Indices: 10219953--10219986 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10219943 ATCTCACACA
* *
10219953 AT AT AT AT AT AT AT AT AT AT GT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10219987 TGAGATTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10223965 original size:25 final size:25
Alignment explanation
Indices: 10223923--10224065 Score: 89
Period size: 27 Copynumber: 5.6 Consensus size: 25
10223913 CTTATCATAT
*
10223923 TATTATTATAGTATTATATTGATACTA
1 TATTATAATA-TATTATATT-ATACTA
* *
10223950 TGTTACT-AT-TATTATATTATATTA
1 TATTA-TAATATATTATATTATACTA
*
10223974 TATTATAATATATTATATTAGGA-TA
1 TATTATAATATATTATATTA-TACTA
* * * *
10223999 TTATTACACTATTATTATAGTAGTATTA
1 -TATTATAATA-TATTATATTA-TACTA
*
10224027 TATTATAATATA-T-TAGTATACTA
1 TATTATAATATATTATATTATACTA
* *
10224050 TATTATAGTAAATTAT
1 TATTATAATATATTAT
10224066 TAGGATATTG
Statistics
Matches: 94, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
23 15 0.16
24 17 0.18
25 23 0.24
26 11 0.12
27 25 0.27
28 3 0.03
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.51
Consensus pattern (25 bp):
TATTATAATATATTATATTATACTA
Done.