Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 65
Found at i:8574917 original size:16 final size:17
Alignment explanation
Indices: 8574881--8574921 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
8574871 TCCATACACC
8574881 AAAATCCTATCCATATA
1 AAAATCCTATCCATATA
8574898 AAAATCCTATCCATATA
1 AAAATCCTATCCATATA
8574915 AAAATCC
1 AAAATCC
8574922 AATAGAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATCCTATCCATATA
Found at i:8580842 original size:97 final size:96
Alignment explanation
Indices: 8580640--8580854 Score: 236
Period size: 97 Copynumber: 2.2 Consensus size: 96
8580630 AACCAAAAAA
*
8580640 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAAGAACAATTTATATTTTCCAGTGAA
1 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAAGAACAATTCATATTTTCCAGTGAA
* * **
8580705 AATAGGAAACCCGATAACACATTTCAGGTACC
66 AACA-GAAACCAGATAACACATACCAGGTACC
* * *
8580737 ATAATTCATAAACCAGTAAATTCCATGATTCCATAAATCATGAACAATTCATAGTTTTCGA-TGA
1 ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAAGAACAATTCATA-TTTTCCAGTGA
* * * * **
8580801 AAACCA-AAATCAGATATCATATACCATGTTTTC
65 AAA-CAGAAACCAGATAACACATACCA-GGTACC
* *
8580834 ATGGTTCATAAACCAATAAAT
1 ATAGTTCATAAACCAGTAAAT
8580855 CAATACTTTC
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
96 14 0.14
97 77 0.79
98 7 0.07
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (96 bp):
ATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAAGAACAATTCATATTTTCCAGTGAA
AACAGAAACCAGATAACACATACCAGGTACC
Found at i:8588894 original size:17 final size:17
Alignment explanation
Indices: 8588872--8588905 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8588862 CTTTGACCCA
*
8588872 AAAAGTTAAATTTTTTG
1 AAAAGTCAAATTTTTTG
*
8588889 AAAAGTCATATTTTTTG
1 AAAAGTCAAATTTTTTG
8588906 TTTTTTGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAGTCAAATTTTTTG
Found at i:8589688 original size:39 final size:39
Alignment explanation
Indices: 8589645--8589804 Score: 248
Period size: 39 Copynumber: 4.1 Consensus size: 39
8589635 ACCGCTTTCC
*
8589645 GCAGGCTCCTCGGCTTTGTGTTCAGGGTAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
* *
8589684 GCAGGCTCCTCAGCTTTGTGCTCAGGGTAAATCCTTACT
1 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
* * *
8589723 GCAAGCTCCTTGGCTTTGTGCGCAGGGTAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
* *
8589762 GTAGGCTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
8589801 GCAG
1 GCAG
8589805 ACTTTTATGC
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.32
Consensus pattern (39 bp):
GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
Found at i:8589817 original size:39 final size:39
Alignment explanation
Indices: 8589645--8589837 Score: 221
Period size: 39 Copynumber: 4.9 Consensus size: 39
8589635 ACCGCTTTCC
* * *
8589645 GCAGGCTCCTCGGCTTTGTGTTCAGGGTAAGTCCTTACT
1 GCAGACTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
* ** *
8589684 GCAGGCTCCTCAGCTTTGTGCTCAGGGTAAATCCTTACT
1 GCAGACTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
*
8589723 GCA-AGCTCCTTGGCTTTGTGCGCAGGGTAAGTCCTTACT
1 GCAGA-CTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
* *
8589762 GTAGGCTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
1 GCAGACTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
* * *
8589801 GCAGACT-TTTATGCTTTGTG-TACAGGGAAAGTCCTTA
1 GCAGACTCCTT-GGCTTTGTGCT-CAGGGTAAGTCCTTA
8589838 TTGGGTATAC
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 3 0.02
39 131 0.98
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (39 bp):
GCAGACTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACT
Found at i:8589817 original size:78 final size:78
Alignment explanation
Indices: 8589649--8589837 Score: 247
Period size: 78 Copynumber: 2.4 Consensus size: 78
8589639 CTTTCCGCAG
* *
8589649 GCTCCTCGGCTTTGTGTTCAGGGTAAGTCCTTACTGCAGGCTCCTCAGCTTTGTGCTCAGGGTAA
1 GCTCCTTGGCTTTGTGTACAGGGTAAGTCCTTACTGCAGGCTCCTCAGCTTTGTGCTCAGGGTAA
8589714 ATCCTTACTGCAA
66 ATCCTTACTGCAA
** * **
8589727 GCTCCTTGGCTTTGTGCGCAGGGTAAGTCCTTACTGTAGGCTCCTTGGCTTTGTGCTCAGGGTAA
1 GCTCCTTGGCTTTGTGTACAGGGTAAGTCCTTACTGCAGGCTCCTCAGCTTTGTGCTCAGGGTAA
*
8589792 GTCCTTACTGC-A
66 ATCCTTACTGCAA
* * *
8589804 GACT-TTTATGCTTTGTGTACAGGGAAAGTCCTTA
1 G-CTCCTT-GGCTTTGTGTACAGGGTAAGTCCTTA
8589838 TTGGGTATAC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
77 4 0.04
78 93 0.96
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (78 bp):
GCTCCTTGGCTTTGTGTACAGGGTAAGTCCTTACTGCAGGCTCCTCAGCTTTGTGCTCAGGGTAA
ATCCTTACTGCAA
Found at i:8591917 original size:16 final size:16
Alignment explanation
Indices: 8591898--8591945 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
8591888 AAATAATTAA
8591898 AATAATATAAAATTTT
1 AATAATATAAAATTTT
8591914 AATAATATATAAAATATTT
1 AAT-A-ATATAAAAT-TTT
*
8591933 -ATGATATAAAATT
1 AATAATATAAAATT
8591946 AAATATCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 12 0.43
17 1 0.04
18 11 0.39
19 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AATAATATAAAATTTT
Found at i:8591950 original size:21 final size:21
Alignment explanation
Indices: 8591925--8591969 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8591915 ATAATATATA
* *
8591925 AAATATTTATGATATAAAATT
1 AAATATCTATAATATAAAATT
*
8591946 AAATATCTATAATATAATATT
1 AAATATCTATAATATAAAATT
8591967 AAA
1 AAA
8591970 AATTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATATCTATAATATAAAATT
Found at i:8591970 original size:61 final size:58
Alignment explanation
Indices: 8591899--8592073 Score: 163
Period size: 64 Copynumber: 2.8 Consensus size: 58
8591889 AATAATTAAA
* *
8591899 ATAATA-TAAAATTTTAATAATATATAAAATATTTATGATATAAAATTAAATATCTATAAT
1 ATAATATTAAAATTTTAATAATATATAAAAAATTAAT-AT-TAAAATT-AATATCTATAAT
* * * *
8591959 ATAATATTAAAAATTAATATTTAATTTTTAAAAAATTAATATTAAAATTAATATCTATAAT
1 ATAATATT-AAAATT-TTA-ATAATATATAAAAAATTAATATTAAAATTAATATCTATAAT
* *
8592020 ATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATATTAAAATTAA
1 ATAATATTAAAAT-TT--TA-ATAA--TATATAAAAAATTAATATTAAAATTAA
8592074 AATAAAATAT
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
60 11 0.11
61 22 0.22
62 20 0.20
63 4 0.04
64 41 0.42
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (58 bp):
ATAATATTAAAATTTTAATAATATATAAAAAATTAATATTAAAATTAATATCTATAAT
Found at i:8592007 original size:62 final size:65
Alignment explanation
Indices: 8591939--8592096 Score: 245
Period size: 61 Copynumber: 2.5 Consensus size: 65
8591929 ATTTATGATA
8591939 TAAAATTAAATATCTATAATATAATATTAAAA-ATTAATATTTAA-TT-TTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
8592001 TAAAATT-AATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
**
8592065 TAAAATTAAAATAAAATATAATATAA-ATTAAA
1 TAAAATT-AAAT-ATCTATAATATAATATTAAA
8592097 TAAAACCTCT
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
61 24 0.27
62 19 0.22
63 2 0.02
64 23 0.26
66 9 0.10
67 11 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (65 bp):
TAAAATTAAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:8592045 original size:26 final size:25
Alignment explanation
Indices: 8591992--8592073 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 25
8591982 ATTTTTAAAA
8591992 AATTAATATT-AAAATTAATATCTAT
1 AATTAATATTAAAAATTAATAT-TAT
8592017 AATATAATATTAAAATATTAATATT-T
1 AAT-TAATATTAAAA-ATTAATATTAT
* *
8592043 AATTTAT-TTAAAAAATTAATATTAA
1 AATTAATATT-AAAAATTAATATTAT
8592068 AATTAA
1 AATTAA
8592074 AATAAAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 11 0.22
25 15 0.31
26 11 0.22
27 4 0.08
28 8 0.16
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTAATATTAAAAATTAATATTAT
Found at i:8592060 original size:24 final size:27
Alignment explanation
Indices: 8591995--8592066 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 27
8591985 TTTAAAAAAT
8591995 TAATATT--AAAATTAATATCTATAATA
1 TAATATTAAAAAATTAATAT-TATAATA
*
8592021 TAATATTAAAATATTAATATT-TAAT-
1 TAATATTAAAAAATTAATATTATAATA
*
8592046 TTAT-TTAAAAAATTAATATTA
1 TAATATTAAAAAATTAATATTA
8592067 AAATTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 15 0.38
25 3 0.08
26 11 0.28
27 1 0.03
28 10 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATATTAAAAAATTAATATTATAATA
Found at i:8592072 original size:64 final size:61
Alignment explanation
Indices: 8591939--8592073 Score: 234
Period size: 64 Copynumber: 2.1 Consensus size: 61
8591929 ATTTATGATA
8591939 TAAAATTAAATATCTATAATATAATATTAAAAATTAATATTTAATTTTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAATTAATATTTAATTTTTAAAAAATTAATAT
8592001 TAAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAA-ATTAATATTTAA-TT-TTTAAAAAATTAATAT
8592065 TAAAATTAA
1 TAAAATTAA
8592074 AATAAAATAT
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
61 24 0.34
62 19 0.27
63 2 0.03
64 25 0.36
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (61 bp):
TAAAATTAATATCTATAATATAATATTAAAAATTAATATTTAATTTTTAAAAAATTAATAT
Found at i:8592091 original size:12 final size:12
Alignment explanation
Indices: 8591939--8592088 Score: 85
Period size: 14 Copynumber: 12.0 Consensus size: 12
8591929 ATTTATGATA
8591939 TAAAATTAAATAT
1 TAAAATT-AATAT
*
8591952 CTATAATATAATAT
1 -TAAAAT-TAATAT
8591966 TAAAAATTAATAT
1 T-AAAATTAATAT
* **
8591979 T-TAATTTTTA-
1 TAAAATTAATAT
*
8591989 AAAAATTAATAT
1 TAAAATTAATAT
8592001 TAAAATTAATAT
1 TAAAATTAATAT
*
8592013 CTATAATATAATAT
1 -TAAAAT-TAATAT
8592027 TAAAATATTAATAT
1 T-AAA-ATTAATAT
* *
8592041 T-TAATTTAT-T
1 TAAAATTAATAT
8592051 TAAAAAATTAATAT
1 T--AAAATTAATAT
*
8592065 TAAAATTAA-AA
1 TAAAATTAATAT
8592076 TAAAATATAATAT
1 TAAAAT-TAATAT
8592089 AAATTAAATA
Statistics
Matches: 104, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
10 2 0.02
11 24 0.23
12 23 0.22
13 21 0.20
14 31 0.30
15 3 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATTAATAT
Found at i:8606396 original size:15 final size:16
Alignment explanation
Indices: 8606376--8606412 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
8606366 TATATGAAAT
8606376 TTATAA-TTTTTTAAA
1 TTATAATTTTTTTAAA
8606391 TTATAATTTTTTTAAA
1 TTATAATTTTTTTAAA
8606407 TTATAA
1 TTATAA
8606413 AATAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAATTTTTTTAAA
Found at i:8614263 original size:15 final size:15
Alignment explanation
Indices: 8614243--8614276 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8614233 TTTTTTCATT
8614243 TTATTTTTATTACTA
1 TTATTTTTATTACTA
8614258 TTATTTTTATTACTA
1 TTATTTTTATTACTA
8614273 TTAT
1 TTAT
8614277 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTTATTACTA
Found at i:8615646 original size:22 final size:20
Alignment explanation
Indices: 8615616--8615655 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8615606 AGTTTGATAA
8615616 ATTTTATTTAATATATTTTGC
1 ATTTTATTTAATA-ATTTTGC
*
8615637 ATTTTAATTTTATAATTTT
1 ATTTT-ATTTAATAATTTT
8615656 AATTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTTATTTAATAATTTTGC
Found at i:8615770 original size:2 final size:2
Alignment explanation
Indices: 8615765--8615798 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8615755 CATCTTAGTC
8615765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8615799 TTGTTTAAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8618206 original size:13 final size:13
Alignment explanation
Indices: 8618188--8618213 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8618178 CCTACACTAC
8618188 TTTCAAGTGTTAT
1 TTTCAAGTGTTAT
8618201 TTTCAAGTGTTAT
1 TTTCAAGTGTTAT
8618214 CGAGTTTGGT
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:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTCAAGTGTTAT
Found at i:8619071 original size:30 final size:30
Alignment explanation
Indices: 8619036--8619092 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
8619026 ATAAAACTGC
*
8619036 ATAATTATATATTTGATCCTTAATATTGGA
1 ATAATTATACATTTGATCCTTAATATTGGA
* *
8619066 ATAATTATACATTTGGTTCTTAATATT
1 ATAATTATACATTTGATCCTTAATATT
8619093 TACATATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (30 bp):
ATAATTATACATTTGATCCTTAATATTGGA
Found at i:8619682 original size:94 final size:95
Alignment explanation
Indices: 8619563--8619784 Score: 347
Period size: 94 Copynumber: 2.3 Consensus size: 95
8619553 TTTGGATAAG
* * *
8619563 AATTTTTAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGGTTAAAGA
1 AATTTTAAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGGTTAAAGA
* * *
8619628 AAAA-TATTGGTTGATTTAGTTCGGTAAAT
66 AAAACAATCGATTGATTTAGTTCGGTAAAT
* *
8619657 AATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGA
1 AATTTTAAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGGTTAAAGA
* *
8619722 AAAACAATCGATTGATTTGGTTCGGTTAAT
66 AAAACAATCGATTGATTTAGTTCGGTAAAT
8619752 AATTTTAAAATAAATTTTGGTTCGATTAACGGT
1 AATTTTAAAATAAATTTTGGTTCGATTAACGGT
8619785 TAAAGAAAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 65 0.56
95 52 0.44
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (95 bp):
AATTTTAAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGGTTAAAGA
AAAACAATCGATTGATTTAGTTCGGTAAAT
Found at i:8619779 original size:69 final size:71
Alignment explanation
Indices: 8619691--8619854 Score: 199
Period size: 74 Copynumber: 2.3 Consensus size: 71
8619681 ATTAACGGTC
* *
8619691 AAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAACAATCGA-TTGATTTGG-TTCGGTTAATA
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAACAATCGATTTGATTCGGATTCGGTTAATA
8619753 ATTTTA
66 ATTTTA
* * ** *
8619759 AAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTCGGTTA
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAACAATCGATTTGATTCGG---ATTCGGTTA
*
8619824 ATAATTTTC
63 ATAATTTTA
*
8619833 AAATAAATTTGGGTTCGATTAA
1 AAATAAATTTCGGTTCGATTAA
8619855 AGGTCAAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
68 4 0.05
69 33 0.41
70 7 0.09
74 37 0.46
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (71 bp):
AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAACAATCGATTTGATTCGGATTCGGTTAATA
ATTTTA
Found at i:8619841 original size:169 final size:168
Alignment explanation
Indices: 8619647--8619952 Score: 540
Period size: 169 Copynumber: 1.8 Consensus size: 168
8619637 GTTGATTTAG
* *
8619647 TTCGGTAAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTAAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGGTTCGATTAA
* *
8619712 TGGTTAAAGAAAAACAATCGATTGATTTGGTTCGGTTAATAATTTTAAAATAAATTTTGGTTCGA
66 TGGTTAAAGAAAAA-AATCGATTAATTTGGTTCGGTTAATAATTTTAAAATAAATTTTGGTTCAA
8619777 TTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAA
130 TTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAA
*
8619816 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTAAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGGTTCGATTAA
* *
8619881 TGGTTAAAGAAAAAAATCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCAAT
66 TGGTTAAAGAAAAAAATCGATTAATTTGGTTCGGTTAATAATTTTAAAATAAATTTTGGTTCAAT
8619946 TAACGGT
131 TAACGGT
8619953 CAAATAATTT
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
168 54 0.42
169 76 0.58
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (168 bp):
TTCGGTAAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGGTTCGATTAA
TGGTTAAAGAAAAAAATCGATTAATTTGGTTCGGTTAATAATTTTAAAATAAATTTTGGTTCAAT
TAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAA
Found at i:8619950 original size:263 final size:254
Alignment explanation
Indices: 8619487--8620066 Score: 844
Period size: 263 Copynumber: 2.2 Consensus size: 254
8619477 AAGAAAAAAA
* *
8619487 TTCGGTTAATAATTTTAAAATAAATTTTGGATCGATTAACGGTTAAGGAAAAAATAATTTATTTT
1 TTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAACGGTTAAAG-AAAAATAATTTATTTT
* *
8619552 ATTTGGATAAGAATTTTTAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCAATTA
65 ATTCGGATAAGAATTTTTAAATAAATTTCGATTCGATTAAAGGTCAAATAATTTCGGTTCAATTA
* * * *
8619617 ATGGTTAAAGAAAAATATTGGTTGATTTAGTTCGGTAAATAATTTTCAAATAAATTTTGGTTCGA
130 ATGGTTAAAGAAAAAAATCGGTTAATTTAGTTCGGTAAATAATTTTCAAATAAATTTTGGTTCAA
8619682 TTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAACAA-TCGATT-GATTTGG
195 TTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAA-AATTCGATTAG-TTTGG
8619742 TTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
1 TTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
* * *
8619807 TTCGGTTAATTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGG
66 TTCGGATAA----G--AAT--TTTT-AAATAAATTTCGATTCGATTAAAGGTCAAATAATTTCGG
* * *
8619872 TTCGATTAATGGTTAAAGAAAAAAATCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTT
122 TTCAATTAATGGTTAAAGAAAAAAATCGGTTAATTTAGTTCGGTAAATAATTTTCAAATAAATTT
* *
8619937 TGGTTCAATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTAGTT
187 TGGTTCAATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGATTAGTT
8620002 TGG
252 TGG
* * *
8620005 TTC-GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTTAAA-AAAAATTAATTTATTT
1 TTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAA-TAATTTATTT
8620067 AAACAAATAA
Statistics
Matches: 294, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
254 24 0.08
255 46 0.16
258 1 0.00
260 3 0.01
261 5 0.02
262 56 0.19
263 158 0.54
264 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (254 bp):
TTCGGTTAATAATTTTAAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTA
TTCGGATAAGAATTTTTAAATAAATTTCGATTCGATTAAAGGTCAAATAATTTCGGTTCAATTAA
TGGTTAAAGAAAAAAATCGGTTAATTTAGTTCGGTAAATAATTTTCAAATAAATTTTGGTTCAAT
TAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGATTAGTTTGG
Found at i:8620043 original size:94 final size:94
Alignment explanation
Indices: 8619816--8620046 Score: 383
Period size: 94 Copynumber: 2.5 Consensus size: 94
8619806 ATTCGGTTAA
* *
8619816 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAAAGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
8619881 TGGTTAAAGAAAAAAATCGGTTAATTTGG
66 TGGTTAAAGAAAAAAATCGGTTAATTTGG
* * *
8619910 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCAATTAACGGTCAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
*
8619975 TGGTTAAAGAAAAAAATTCGGTTAGTTTGG
66 TGGTTAAAGAAAAAAA-TCGGTTAATTTGG
*
8620005 TTC-GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGT
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
8620047 TAAAAAAAAT
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 113 0.88
95 15 0.12
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (94 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TGGTTAAAGAAAAAAATCGGTTAATTTGG
Found at i:8621313 original size:21 final size:19
Alignment explanation
Indices: 8621284--8621322 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
8621274 ATACTATTTT
8621284 TTTTAAAAAAATCTAGAATTA
1 TTTT-AAAAAAT-TAGAATTA
*
8621305 TTTTGAAAAATTAGAATT
1 TTTTAAAAAATTAGAATT
8621323 CAAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTTAAAAAATTAGAATTA
Found at i:8624029 original size:4 final size:4
Alignment explanation
Indices: 8624020--8624048 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8624010 GAAATCTTCT
8624020 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
8624049 AAATTGAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8625878 original size:30 final size:30
Alignment explanation
Indices: 8625844--8625924 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
8625834 TGTACATTTT
8625844 AAACGTGTTTTCTTTTTGTAAACCAAAAAA
1 AAACGTGTTTTCTTTTTGTAAACCAAAAAA
8625874 AAACGTGTTTTCTTTTTGTAAACCAAAAAA
1 AAACGTGTTTTCTTTTTGTAAACCAAAAAA
*
8625904 AAACGTGTTTTCTATTTGTAA
1 AAACGTGTTTTCTTTTTGTAA
8625925 CTCATCCTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (30 bp):
AAACGTGTTTTCTTTTTGTAAACCAAAAAA
Found at i:8633204 original size:14 final size:15
Alignment explanation
Indices: 8633185--8633214 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8633175 GGGCTTTGTA
8633185 ATTTAATAT-TATTT
1 ATTTAATATATATTT
8633199 ATTTAATATATATTT
1 ATTTAATATATATTT
8633214 A
1 A
8633215 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAATATATATTT
Found at i:8633221 original size:3 final size:3
Alignment explanation
Indices: 8633213--8633301 Score: 142
Period size: 3 Copynumber: 29.7 Consensus size: 3
8633203 AATATATATT
*
8633213 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
8633261 TAA TAA TAA TGA TAA TAA TAA TAA AAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8633302 TGGGTAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8633960 original size:113 final size:114
Alignment explanation
Indices: 8633618--8634059 Score: 667
Period size: 116 Copynumber: 3.9 Consensus size: 114
8633608 GATAGAATTA
*
8633618 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* * *
8633683 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
64 GAACTCTTCCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAG
*
8633734 TTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* *
8633799 GAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
64 GAACTCTTCCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAG
*
8633850 TTGAACAGGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
** * * * *
8633914 ACT-TTCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGG
66 ACTCTTC-CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAG
*
8633963 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
8634027 ACT-TTCTCTGGAAATGATGATCCATCAAATGAT
66 ACTCTTC-CTGGAAATGATGATCCATCAAATGAT
8634060 AGATTTGAAT
Statistics
Matches: 306, Mismatches: 19, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
112 3 0.01
113 146 0.48
116 157 0.51
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (114 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
ACTCTTCCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAG
Found at i:8633968 original size:229 final size:227
Alignment explanation
Indices: 8633618--8634059 Score: 665
Period size: 229 Copynumber: 1.9 Consensus size: 227
8633608 GATAGAATTA
*
8633618 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* *** * *
8633683 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTT
64 GAACTCTACCTGGAAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTT
*
8633748 TTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC-CTGG
129 CTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGG
* *
8633812 CAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
190 AAATGATGATCCATCAAATGATGAATTCAAACAAAAAG
*
8633850 TTGAACAGGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
* * * *
8633914 ACT-TTCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTC
66 ACTCTAC-CTGGAAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTC
8633978 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG
130 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG
8634043 ATGATCCATCAAATGAT
195 ATGATCCATCAAATGAT
8634060 AGATTTGAAT
Statistics
Matches: 193, Mismatches: 15, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
225 3 0.02
226 45 0.23
228 2 0.01
229 99 0.51
232 44 0.23
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (227 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
ACTCTACCTGGAAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
TGATCCATCAAATGATGAATTCAAACAAAAAG
Found at i:8634834 original size:83 final size:83
Alignment explanation
Indices: 8634695--8635144 Score: 837
Period size: 83 Copynumber: 5.4 Consensus size: 83
8634685 TCTCCTATGA
* * *
8634695 GCAAATTCATCTTCCAAGTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
8634760 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
8634778 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
8634843 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
8634861 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8634926 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
8634944 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
8635009 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
*
8635027 GAAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
8635092 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
*
8635110 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTG
8635145 AGATATCACA
Statistics
Matches: 358, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 358 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
TTCCAGAAAATGCTATTG
Found at i:8636268 original size:1 final size:1
Alignment explanation
Indices: 8636264--8636323 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
8636254 TTGACCCCCC
* * * * * * *
8636264 TTTTTTTTTTCTCTTTTTTTTTCTTTTTTTTTTCTTTCTTCTTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8636324 CAAGCATAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:8636282 original size:12 final size:12
Alignment explanation
Indices: 8636265--8636322 Score: 75
Period size: 11 Copynumber: 4.8 Consensus size: 12
8636255 TGACCCCCCT
8636265 TTTTTTTTTCTC
1 TTTTTTTTTCTC
8636277 TTTTTTTTTCT-
1 TTTTTTTTTCTC
8636288 TTTTTTTTTCTTTC
1 TTTTTTTTTC--TC
8636302 TTCTTTTTTT-TC
1 TT-TTTTTTTCTC
8636314 TTTTTTTTT
1 TTTTTTTTT
8636323 TCAAGCATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
11 17 0.40
12 15 0.36
13 1 0.02
14 2 0.05
15 7 0.17
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:8636301 original size:27 final size:27
Alignment explanation
Indices: 8636264--8636324 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
8636254 TTGACCCCCC
8636264 TTTTTTT-TTTC-TCTTTTTTTTTCTTT
1 TTTTTTTCTTTCTTC-TTTTTTTTCTTT
8636290 TTTTTTTCTTTCTTCTTTTTTTTCTTT
1 TTTTTTTCTTTCTTCTTTTTTTTCTTT
8636317 TTTTTTTC
1 TTTTTTTC
8636325 AAGCATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 7 0.21
27 24 0.73
28 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (27 bp):
TTTTTTTCTTTCTTCTTTTTTTTCTTT
Found at i:8636323 original size:12 final size:12
Alignment explanation
Indices: 8636263--8636323 Score: 79
Period size: 12 Copynumber: 4.9 Consensus size: 12
8636253 CTTGACCCCC
8636263 CTTTTTTTTTTCT
1 CTTTTTTTTTT-T
8636276 CTTTTTTTTTCTT
1 CTTTTTTTTT-TT
8636289 -TTTTTTTTCTTT
1 CTTTTTTTT-TTT
*
8636301 CTTCTTTTTTTT
1 CTTTTTTTTTTT
8636313 CTTTTTTTTTT
1 CTTTTTTTTTT
8636324 CAAGCATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
12 23 0.53
13 19 0.44
14 1 0.02
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:8647002 original size:18 final size:17
Alignment explanation
Indices: 8646954--8647004 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
8646944 AAATACTTGC
*
8646954 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
8646972 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
8646990 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
8647005 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:8649039 original size:12 final size:12
Alignment explanation
Indices: 8649022--8649046 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8649012 TTAGGGTTAG
8649022 GAAACCCTAAAT
1 GAAACCCTAAAT
8649034 GAAACCCTAAAT
1 GAAACCCTAAAT
8649046 G
1 G
8649047 TTTTGGGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (12 bp):
GAAACCCTAAAT
Found at i:8649117 original size:14 final size:15
Alignment explanation
Indices: 8649098--8649127 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8649088 GGGCTTTGTA
8649098 ATTTAATAT-TATTT
1 ATTTAATATATATTT
8649112 ATTTAATATATATTT
1 ATTTAATATATATTT
8649127 A
1 A
8649128 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAATATATATTT
Found at i:8649134 original size:3 final size:3
Alignment explanation
Indices: 8649126--8649208 Score: 139
Period size: 3 Copynumber: 27.7 Consensus size: 3
8649116 AATATATATT
* *
8649126 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
8649174 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8649209 TGGGTAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8649657 original size:28 final size:28
Alignment explanation
Indices: 8649624--8649712 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
8649614 CTTTTTCATT
* *
8649624 TAAATACTTGAAGTATTTTTTATCAAAA
1 TAAATACATAAAGTATTTTTTATCAAAA
*
8649652 TAAATACATAAAGTTATCTTTTTTGTCAAAA
1 TAAATACATAAAG-TA--TTTTTTATCAAAA
** * **
8649683 TAGGTACCTAAAGTATTTAATATCAAAA
1 TAAATACATAAAGTATTTTTTATCAAAA
8649711 TA
1 TA
8649713 GGTACCTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 23 0.47
29 2 0.04
30 2 0.04
31 22 0.45
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (28 bp):
TAAATACATAAAGTATTTTTTATCAAAA
Found at i:8649695 original size:31 final size:28
Alignment explanation
Indices: 8649634--8649728 Score: 100
Period size: 28 Copynumber: 3.3 Consensus size: 28
8649624 TAAATACTTG
** *
8649634 AAGTATTTTTTATCAAAATAAATACATA
1 AAGTATTTTTTATCAAAATAGGTACCTA
*
8649662 AAGTTATCTTTTTTGTCAAAATAGGTACCTA
1 AAG-TA--TTTTTTATCAAAATAGGTACCTA
**
8649693 AAGTATTTAATATCAAAATAGGTACCTA
1 AAGTATTTTTTATCAAAATAGGTACCTA
*
8649721 AACTATTT
1 AAGTATTT
8649729 AAACTTTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 30 0.54
29 2 0.04
30 2 0.04
31 22 0.39
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (28 bp):
AAGTATTTTTTATCAAAATAGGTACCTA
Found at i:8649884 original size:30 final size:31
Alignment explanation
Indices: 8649824--8649886 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
8649814 TTTAGATATC
*
8649824 TATTTTGACAAAAAATATAGCTTTAGGTACT
1 TATTTTGACAAAAAATATAGCTTCAGGTACT
8649855 TATTTTGACCAAAAAA-ATA-CTTCAGGTACT
1 TATTTTGA-CAAAAAATATAGCTTCAGGTACT
8649885 TA
1 TA
8649887 AATAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.40
31 11 0.37
32 7 0.23
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.37
Consensus pattern (31 bp):
TATTTTGACAAAAAATATAGCTTCAGGTACT
Found at i:8654436 original size:398 final size:399
Alignment explanation
Indices: 8653695--8654462 Score: 1362
Period size: 398 Copynumber: 1.9 Consensus size: 399
8653685 CTTTATAATA
8653695 TTTTGATATAACAAATTAAAGACAAAATGGTTTTGGACTTGAATTGAATTTTTTCAAAATTTTCA
1 TTTTGATATAACAAATTAAAGACAAAATGGTTTTGGACTTGAATTGAATTTTTTCAAAATTTTCA
* *
8653760 AAAATAATTCAAAGTCCATTAAACTAGAATTTGAGCACAAAATGTTTTTCTTGAAAAAGTAGTAT
66 AAAATAATTCAAAGTCCACTAAACTAGAATTTGAGCACAAAATGTTTTTCTTGAAAAAGTAGTAC
* * ** *
8653825 CGATACTGTTCTTAAAGTATTGATACTATATGAACAATATCGATATTGTTCATGTGGTATCGATA
131 CGATACTGTTCTTAAAGTATTGATACTATAAGAACAATATCGATACTACTCATGTGGTACCGATA
8653890 CCAAAGGTAAGAGAAGTATCGATATTCTCAAGGTAGCATCGATACTACCAGTTTGATCAAATTTC
196 CCAAAGGTAAGAGAAGTATCGATATTCTCAAGGTAGCATCGATACTACCAGTTTGATCAAATTTC
*
8653955 AGAATGCAAAATAGGTACTAATACTTTTGGGGGTACCGATACTACTTTACATAGTAGTATCGATA
261 AGAATGCAAAATAGGTACTAATACTTATGGGGGTACCGATACTACTTTACATAGTAGTATCGATA
8654020 CCATGAGCATAATATCGATGCTGGTCAAGCCCAACGGCTAGTAACATCAAAAAGGGGGAGATTGT
326 CCATGAGCATAATATCGATGCTGGTCAAGCCCAACGGCTAGTAACATCAAAAAGGGGGAGATTGT
8654085 TAAACTATG
391 TAAACTATG
* * *
8654094 TTTT-ATATAACAAATTAAAGGCAAAATGTTTTTGGACTTGAATTGATTTTTTTTCAAAATTTTC
1 TTTTGATATAACAAATTAAAGACAAAATGGTTTTGGACTTGAATTGA-ATTTTTTCAAAATTTTC
8654158 AAAAATAATTCAAAGTCCACTAAACTAGAATTTGAGCACAAAATGTTTTTC-T-AAGAAAGTAGT
65 AAAAATAATTCAAAGTCCACTAAACTAGAATTTGAGCACAAAATGTTTTTCTTGAA-AAAGTAGT
*
8654221 ACCGATACTTTTCTTAAAGTATTGATACTATAAGAACAATATCGATACTACTCATGTGGTACCGA
129 ACCGATACTGTTCTTAAAGTATTGATACTATAAGAACAATATCGATACTACTCATGTGGTACCGA
*
8654286 TACCAAAGGTAAGAGAAGTATTGATATTCTCAAGGTAGCATCGATACTACCAGTTTGATCAAATT
194 TACCAAAGGTAAGAGAAGTATCGATATTCTCAAGGTAGCATCGATACTACCAGTTTGATCAAATT
* *
8654351 TTAGAATGCAAAATAGGTACTGATACTTATGGGGGTACCGATACTACTTTACATAGTAGTATCGA
259 TCAGAATGCAAAATAGGTACTAATACTTATGGGGGTACCGATACTACTTTACATAGTAGTATCGA
8654416 TACCATGAGCATAATATCGATGCTGGTCAAGCCCAACGGCTAGTAAC
324 TACCATGAGCATAATATCGATGCTGGTCAAGCCCAACGGCTAGTAAC
8654463 GACTAGTTGA
Statistics
Matches: 352, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
397 2 0.01
398 280 0.80
399 70 0.20
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (399 bp):
TTTTGATATAACAAATTAAAGACAAAATGGTTTTGGACTTGAATTGAATTTTTTCAAAATTTTCA
AAAATAATTCAAAGTCCACTAAACTAGAATTTGAGCACAAAATGTTTTTCTTGAAAAAGTAGTAC
CGATACTGTTCTTAAAGTATTGATACTATAAGAACAATATCGATACTACTCATGTGGTACCGATA
CCAAAGGTAAGAGAAGTATCGATATTCTCAAGGTAGCATCGATACTACCAGTTTGATCAAATTTC
AGAATGCAAAATAGGTACTAATACTTATGGGGGTACCGATACTACTTTACATAGTAGTATCGATA
CCATGAGCATAATATCGATGCTGGTCAAGCCCAACGGCTAGTAACATCAAAAAGGGGGAGATTGT
TAAACTATG
Found at i:8665726 original size:105 final size:104
Alignment explanation
Indices: 8665584--8665794 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 104
8665574 TGTTGTAATA
* *
8665584 ACTTTAAAAACGTTACGATATGACTATTATAGTCATAATTTAAAACGTTTACACTAACTCATTAT
1 ACTTTAAAAACGTTACAATATGACTATTATAGCCATAATTTAAAACGTTTACACTAACTCATTAT
*
8665649 ATCTGAAAGTTATTAAGATGTCAATGAAAGGTATCATTCT
66 ATC-GAAAGTTACTAAGATGTCAATGAAAGGTATCATTCT
* * * *
8665689 ACTTTAAAAATGTTACAATATGACTGTT-TCAGCCATAATTTAAAATGTTTACGCTAACTCATTA
1 ACTTTAAAAACGTTACAATATGACTATTAT-AGCCATAATTTAAAACGTTTACACTAACTCATTA
8665753 TATCGAAAGTTACTAAGATGTCAATGAAAGGTATCATTCT
65 TATCGAAAGTTACTAAGATGTCAATGAAAGGTATCATTCT
8665793 AC
1 AC
8665795 ACATGTTCTT
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
104 38 0.39
105 60 0.61
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (104 bp):
ACTTTAAAAACGTTACAATATGACTATTATAGCCATAATTTAAAACGTTTACACTAACTCATTAT
ATCGAAAGTTACTAAGATGTCAATGAAAGGTATCATTCT
Found at i:8667618 original size:2 final size:2
Alignment explanation
Indices: 8667611--8667721 Score: 222
Period size: 2 Copynumber: 55.5 Consensus size: 2
8667601 AGTAAATCAC
8667611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8667653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8667695 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8667722 GTTAGAATCC
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 109 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8672136 original size:22 final size:22
Alignment explanation
Indices: 8672082--8672140 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
8672072 GTCTATGCGA
*
8672082 TCCTTCGGGACATATACAGAGG
1 TCCTTCGGGACAAATACAGAGG
*
8672104 TCCTTCGGGACAAATACATAGG
1 TCCTTCGGGACAAATACAGAGG
*
8672126 -CCATTCTGGACAAAT
1 TCC-TTCGGGACAAAT
8672141 TTCACATGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
TCCTTCGGGACAAATACAGAGG
Found at i:8689166 original size:19 final size:17
Alignment explanation
Indices: 8689144--8689204 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 17
8689134 AAAATGAGTG
8689144 AAAAAATAAAAAAAATAA
1 AAAAAAT-AAAAAAATAA
8689162 TAAAAAATAAAAAAATAA
1 -AAAAAATAAAAAAATAA
8689180 AAAATGAATGAAAAAAATAA
1 AAAA--AAT-AAAAAAATAA
8689200 AAAAA
1 AAAAA
8689205 TGAGGGTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.10
18 11 0.28
19 10 0.26
20 14 0.36
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAAAAATAA
Found at i:8689194 original size:28 final size:27
Alignment explanation
Indices: 8689144--8689205 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
8689134 AAAATGAGTG
8689144 AAAAAATAAAAAAAATAATAAAAAATA
1 AAAAAATAAAAAAAATAATAAAAAATA
*
8689171 AAAAAATAAAAAATGAATGA-AAAAAATA
1 AAAAAATAAAAAA--AATAATAAAAAATA
8689199 AAAAAAT
1 AAAAAAT
8689206 GAGGGTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 13 0.41
28 15 0.47
29 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (27 bp):
AAAAAATAAAAAAAATAATAAAAAATA
Found at i:8689205 original size:8 final size:9
Alignment explanation
Indices: 8689144--8689204 Score: 79
Period size: 9 Copynumber: 6.6 Consensus size: 9
8689134 AAAATGAGTG
8689144 AAAAAATAA
1 AAAAAATAA
8689153 AAAAAATAA
1 AAAAAATAA
8689162 TAAAAAAT-A
1 -AAAAAATAA
8689171 AAAAAATAA
1 AAAAAATAA
*
8689180 AAAATGAATGA
1 AAAA--AATAA
8689191 AAAAAATAA
1 AAAAAATAA
8689200 AAAAA
1 AAAAA
8689205 TGAGGGTTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 7 0.15
9 24 0.52
10 7 0.15
11 8 0.17
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:8690272 original size:55 final size:55
Alignment explanation
Indices: 8690206--8690786 Score: 662
Period size: 55 Copynumber: 10.8 Consensus size: 55
8690196 TTCCCAACGT
8690206 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* *
8690261 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATGGGGGGCAGACACGA
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * **
8690316 TTGTTGAAGATTATTCGAGTCTTGTACTCTCTGAAGAAATAGGGAGCAGACAC--
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* *
8690369 --------GATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGACACGT
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* *
8690416 TTGTTGAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCAGACACGA
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGA
* *
8690472 TTGTTGAAGTTTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
*
8690527 TTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-
1 TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * * * * *
8690581 TTCGTTGAAAATTGTTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGGCACGG
1 TT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGA
* *
8690638 TTATTG-AGAATTGTTCGAGTTTCATACTCTCTG-A-AAATAGGGAGCAGGCACGA
1 TTATTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * * * ** * *
8690691 TTATCG-AGAATCGTTTGATTCTGGTACTCTCTGGAAG-AATGGGGAGTAGACACGA
1 TTATTGAAG-ATTGTTCGAGTCTCATACTCTCT-GAAGAAATAGGGAGCAGACACGA
* * * *
8690746 TTGA-CGAAGATT-TTCGAGT-T-TTACTCCCTGAAGCAATAGGG
1 TT-ATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
8690787 GATAAAACCA
Statistics
Matches: 461, Mismatches: 44, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
45 41 0.09
51 4 0.01
52 13 0.03
53 44 0.10
54 8 0.02
55 254 0.55
56 95 0.21
57 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (55 bp):
TTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGA
Found at i:8690565 original size:111 final size:112
Alignment explanation
Indices: 8690370--8690764 Score: 477
Period size: 111 Copynumber: 3.6 Consensus size: 112
8690360 AGCAGACACG
* *
8690370 ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGACACGTTTGTTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAG
* *
8690435 TCTCATTCTCTCTGAAGAAAATAGGGAGCAGACACGATT-GTTGAAG
66 TCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTCGTTGAAA
*
8690481 TTTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAG
8690546 TCTCATACTCTCTGAAG-AAATAGGGAGCAGACACG-TTCGTTGAAA
66 TCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTCGTTGAAA
* * * * *
8690591 ATTGTTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGGCACGGTTATTG-AGAATTGTTCG
1 ATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGATTGTTGAAG-ATTGTTCG
* * * * *
8690655 AGTTTCATACTCTCT---GAAAATAGGGAGCAGGCACGATT-ATCGAGA
64 AGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTCGTTGAAA
* * * ** * * **
8690700 ATCGTTTGATTCTGGTACTCTCTGGAAG-AATGGGGAGTAGACACGATTGACGAAGATT-TTCGA
1 ATTGTTCGAGTCTCATACTCTCT-GAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGA
8690763 GT
65 GT
8690765 TTTACTCCCT
Statistics
Matches: 247, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
107 7 0.03
108 21 0.09
109 41 0.17
110 56 0.23
111 122 0.49
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (112 bp):
ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAG
TCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTCGTTGAAA
Found at i:8690654 original size:166 final size:164
Alignment explanation
Indices: 8690209--8690692 Score: 643
Period size: 166 Copynumber: 3.0 Consensus size: 164
8690199 CCAACGTTTA
* *
8690209 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATT-ATTGAAGATT
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-TTCGTTGAAAATT
* * * * * *
8690273 GTTCGAGTCTCATACTCTCTGAAG-AAATGGGGGGCAGACACGATTGTTGAAGATTATTCGAGTC
65 GTTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGACACGATTATTGAAGATTGTTCGAGTC
**
8690337 TTGTACTCTCTGAAGAAATAGGGAGCAGACAC-----
130 TCATACTCTCTG-A-AAATAGGGAGCAGACACGATTG
* * *
8690369 -----GATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGACACGTTTGTTGAAGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTCGTTGAAAATTG
* * *
8690429 TTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCAGACACGATTGTTGAAGTTTGTTCGAGTCT
66 TTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGACACGATTATTGAAGATTGTTCGAGTCT
8690494 CATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
131 CATACTCTCTG-A-AAATAGGGAGCAGACACGATTG
8690530 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTCGTTGAAAATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTCGTTGAAAATTG
* * *
8690595 TTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGGCACGGTTATTG-AGAATTGTTCGAGTT
66 TTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGACACGATTATTGAAG-ATTGTTCGAGTC
*
8690659 TCATACTCTCTGAAAATAGGGAGCAGGCACGATT
130 TCATACTCTCTGAAAATAGGGAGCAGACACGATT
8690693 ATCGAGAATC
Statistics
Matches: 292, Mismatches: 19, Indels: 22
0.88 0.06 0.07
Matches are distributed among these distances:
154 2 0.01
155 77 0.26
156 66 0.23
164 20 0.07
165 3 0.01
166 124 0.42
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (164 bp):
TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGTTCGTTGAAAATTG
TTCGAGTCTCATTCTCTCCGAAGAAAATAGGGAGCAGACACGATTATTGAAGATTGTTCGAGTCT
CATACTCTCTGAAAATAGGGAGCAGACACGATTG
Found at i:8693746 original size:16 final size:16
Alignment explanation
Indices: 8693727--8693758 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8693717 ATTATAATTA
8693727 TTTTTT-TATTTTTGT
1 TTTTTTATATTTTTGT
8693742 TTTTTTATATTTTTGT
1 TTTTTTATATTTTTGT
8693758 T
1 T
8693759 ATAGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTTATATTTTTGT
Found at i:8696259 original size:180 final size:182
Alignment explanation
Indices: 8695711--8696495 Score: 1088
Period size: 182 Copynumber: 4.4 Consensus size: 182
8695701 GCGGTTTATA
* * * * **
8695711 TCGATACTTTATAACACTGTATTGATCCACATCAATATAACAGATAAAAATATGACAAAACCAAT
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGT
* * * ** *
8695776 CACGAAAAGACAAAACCGGTA-AAA-CGGTATTGGATATATTGAAAGTGTAGATACTTTAATATA
66 CTCTAAAGGACAAAACCGGTATAAAGC-G-ACCGGATATATTGAAAGTGTCGATACTTTAATATA
*
8695839 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGTCCATAAAGTG
129 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
* *
8695893 TCGATACTTTATAACAATATATCGATCCACAACGATATAACAG------GTATGACAAAACCGGT
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGT
*
8695952 CTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAG
66 CTCTAAAGGACAAAACCGGTATAAAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAG
* *
8696017 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCTCATAAAGTG
131 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
* * *
8696069 TCGATACTTTATAACAATGTATCGATCCAAAACGATA-ATACAGATAAAAATATGAAAAAATCGG
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATA-ACAGATAAAAATATGACAAAACCGG
*
8696133 TCTCTAAAGGATAAAACCGGTATAAAGCGACCGGATATATTGAAAGTGTCGATACTTT-A-ATAA
65 TCTCTAAAGGACAAAACCGGTATAAAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAA
8696196 GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
130 GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
* * * * * *
8696249 TTGATACTTTATAGCAATGTATCGATCCAAAACGATATAATAGGTAAAAATATGACAAAATCGGT
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGT
** * *
8696314 CTCTAAATAACAAAACCGGTATAGAGCGACCGGATATATTTAAAGTGTCGATACTTTAATATAAG
66 CTCTAAAGGACAAAACCGGTATAAAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAG
* * * * *
8696379 TATCTACACTTTGTGAATTTAAAAGAGATGTAATTTTAGCGCCTATAAAGTG
131 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
* * * * *
8696431 TTGATACTTTATAATAATGTATCGGTCCACAACGATATAGCAGGTAAAAATATGACAAAACCGGT
1 TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGT
8696496 AAAATGCTAC
Statistics
Matches: 542, Mismatches: 49, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
175 1 0.00
176 153 0.28
177 3 0.01
178 1 0.00
180 165 0.30
181 3 0.01
182 216 0.40
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (182 bp):
TCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGT
CTCTAAAGGACAAAACCGGTATAAAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAG
TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTG
Found at i:8697615 original size:198 final size:199
Alignment explanation
Indices: 8697116--8697639 Score: 664
Period size: 200 Copynumber: 2.6 Consensus size: 199
8697106 TGTCCATAAT
* * *
8697116 ATAAACTGTCGATACATTTATTAAAAGTATCGATCCCAATAACATCGAAACTGATAATTATAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
8697181 TAATAGGTAAATTTACAATGTATCTGGTATAAATATACTGGTTTTATAAGAAAATATGTCAGTAT
65 TAATAGGTAAATTTACAATGTACCCGGTATAAATATACTGGTTTTATAAGAAAATAGGTCAGAAT
* * *
8697246 AAAATACCAACACCATTTAAATTTGTGTCGATACTTTTTGTCTATAATGAATACCAAACGGGGTG
130 AAAATACCAACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATACCAAACGAGGTG
8697311 CACGC
195 CACGC
* *
8697316 ATAAAGTGTCGATACATTTACTAAAAGTATCGATCCCATAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
8697381 TGATAGGTAAATTTACAATATACCCGATAGAAATATACTGGTTTTATGAA-AAAATAGGTCTA-A
65 TAATAGGTAAATTTACAATGTACCCGGTATAAATATACTGGTTTTAT-AAGAAAATAGGTC-AGA
** * * ** * * *
8697444 ATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTT-TCCAGAATGAATGCCTAACGAGG
128 ATAAAATACCAACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATACCAAACGAGG
*
8697508 TGCATGC
193 TGCACGC
* * *
8697515 ATAAAGTGTCGATACATTTA-AAATTGTATCGATCCAAAAAAAATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* *
8697579 TAATAGGTAAATTTGCAATGTTA-CCGGTATAAATATACCGG-TTTACTAAGAAAATAGGTCA
65 TAATAGGTAAATTTACAATG-TACCCGGTATAAATATACTGGTTTTA-TAAGAAAATAGGTCA
8697640 ATATAAATGC
Statistics
Matches: 280, Mismatches: 38, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
197 10 0.04
198 78 0.28
199 46 0.16
200 143 0.51
201 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
ATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTACCCGGTATAAATATACTGGTTTTATAAGAAAATAGGTCAGAATA
AAATACCAACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATACCAAACGAGGTGC
ACGC
Found at i:8703292 original size:2 final size:2
Alignment explanation
Indices: 8703285--8703313 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8703275 CAACCAACAT
8703285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8703314 GTTGGTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8703551 original size:3 final size:3
Alignment explanation
Indices: 8703492--8703538 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
8703482 TTTTCATTTG
8703492 ATT ATT ATT -TAT ATT ATT ATAT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
8703538 A
1 A
8703539 ATAAAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 1 0.02
3 36 0.88
4 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8707464 original size:6 final size:7
Alignment explanation
Indices: 8707453--8707494 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 7
8707443 TTTTCATACA
8707453 TGCA-TT
1 TGCATTT
8707459 TGCATTTT
1 TGCA-TTT
8707467 TGCATCTT
1 TGCAT-TT
8707475 TGCATTT
1 TGCATTT
8707482 T-CATTT
1 TGCATTT
8707488 TGCATTT
1 TGCATTT
8707495 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 10 0.31
7 9 0.28
8 13 0.41
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (7 bp):
TGCATTT
Found at i:8709139 original size:15 final size:15
Alignment explanation
Indices: 8709121--8709149 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8709111 GCAGTGGGTA
8709121 ATACAAAGAGTCTGG
1 ATACAAAGAGTCTGG
8709136 ATACAAAGAGTCTG
1 ATACAAAGAGTCTG
8709150 ATAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (15 bp):
ATACAAAGAGTCTGG
Found at i:8715191 original size:113 final size:113
Alignment explanation
Indices: 8714993--8715327 Score: 489
Period size: 113 Copynumber: 3.0 Consensus size: 113
8714983 TAGCAAAGAT
* * *
8714993 TCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAGCTCATCTGA
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAGAATTCATAATGAGAAGAACTCATCTGA
*
8715058 AGAAGGAA-AAGGAAGTTCATAATGAGAATAACTTGTTCAACCTTTCGC
66 AGAAGGAAGAA-GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGC
*
8715106 TCAAATTCATCACTTGATGGATCAGCATTGCCAGGTAGAATTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAGAATTCATAATGAGAAGAACTCATCTGA
* * *
8715171 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACATTTCGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGC
* * * * *
8715219 TCGAATTCATCACTCGATGGATCATCATTTCCA-G-AGAAAGTTCATAATGAGAAGAACTTATCT
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAG-AA-TTCATAATGAGAAGAACTCATCT
*
8715282 GAAG-AGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
8715328 GTTTGATTCT
Statistics
Matches: 202, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.01
112 41 0.20
113 157 0.78
114 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAGAATTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGC
Found at i:8715320 original size:20 final size:20
Alignment explanation
Indices: 8715258--8715321 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
8715248 TCCAGAGAAA
8715258 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* **
8715278 -ATC-TGAA-GAGGAAGAACAA
1 GTTCAT-AATGA-GAAGAACTT
8715297 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
8715317 GTTCA
1 GTTCA
8715322 ACCTTTGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 16 0.48
21 3 0.09
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:8715667 original size:12 final size:12
Alignment explanation
Indices: 8715650--8715713 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
8715640 TTTTCATTTG
8715650 ATTATTAATTAT
1 ATTATTAATTAT
8715662 ATTATT-A-TAT
1 ATTATTAATTAT
8715672 ATTATTATTATTATT
1 ATTATTA--ATTA-T
*
8715687 ATTATTAA-TAA
1 ATTATTAATTAT
* *
8715698 AATATTATTTAT
1 ATTATTAATTAT
8715710 ATTA
1 ATTA
8715714 CAGGCCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
10 9 0.22
11 7 0.17
12 13 0.32
13 2 0.05
14 2 0.05
15 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTAATTAT
Found at i:8715706 original size:3 final size:3
Alignment explanation
Indices: 8715650--8715693 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
8715640 TTTTCATTTG
8715650 ATT ATT AATT A-T ATT ATT ATAT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A
8715694 ATAAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:8717264 original size:9 final size:10
Alignment explanation
Indices: 8717220--8717263 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
8717210 TATTTATAAA
8717220 TTTAATATATT
1 TTTAATATA-T
8717231 TTTAA-ATCAT
1 TTTAATAT-AT
8717241 TTTAATCATAT
1 TTTAAT-ATAT
8717252 TTTAATATAT
1 TTTAATATAT
8717262 TT
1 TT
8717264 ATCAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.47
11 14 0.47
12 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAATATAT
Found at i:8718712 original size:41 final size:42
Alignment explanation
Indices: 8718612--8718712 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
8718602 TATTGTGGCA
* **
8718612 TTTTTTGATACAAAAGCTGCAAAAGTTAGATCTATGGCGGCG
1 TTTTTTGATACAAACGCCACAAAAGTTAGATCTATGGCGGCG
* *
8718654 TTTTTTGATACAAACGCCACAAAAGTTAGGTCTATGGTGGCG
1 TTTTTTGATACAAACGCCACAAAAGTTAGATCTATGGCGGCG
8718696 -TTTTTGATACAAACGCC
1 TTTTTTGATACAAACGCC
8718713 GCTAATTACC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 17 0.31
42 37 0.69
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TTTTTTGATACAAACGCCACAAAAGTTAGATCTATGGCGGCG
Found at i:8720217 original size:83 final size:83
Alignment explanation
Indices: 8720096--8720347 Score: 240
Period size: 83 Copynumber: 3.1 Consensus size: 83
8720086 ACGCCATGAC
* * * * * * *
8720096 AAACAAC-ATATTATGGCGTTTGTAGGACAAATGTCGCTATATTATTACTCTATTGCGGCTTTTT
1 AAACAACAATATTGTGGCGTTTGTATGAAAAACGCCGCTAAATTATTACTCTATTGCGGCTTTTA
*
8720160 TTGCACAAACGTCACTAT
66 TTGAACAAACGTCACTAT
* * * * ** *
8720178 AAACAATAATATTGTGGCGTTTGTTTGATAAACGCCGCTAAATTACTT-CTCTATAGCATCGTTT
1 AAACAACAATATTGTGGCGTTTGTATGAAAAACGCCGCTAAATTA-TTACTCTATTGCGGCTTTT
*
8720242 ATTGAACAAACGCCACTAT
65 ATTGAACAAACGTCACTAT
* * * * * * ** *
8720261 AAACAACACTATCGCGACGTTTGTGT-AAAAACACCGCTAAATTACCACTCTATTGCGGCTTTTG
1 AAACAACAATATTGTGGCGTTTGTATGAAAAACGCCGCTAAATTATTACTCTATTGCGGCTTTTA
*
8720325 TTGAAAAAACGTCACTAT
66 TTGAACAAACGTCACTAT
8720343 AAACA
1 AAACA
8720348 TATCTATTGC
Statistics
Matches: 135, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
82 55 0.41
83 78 0.58
84 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (83 bp):
AAACAACAATATTGTGGCGTTTGTATGAAAAACGCCGCTAAATTATTACTCTATTGCGGCTTTTA
TTGAACAAACGTCACTAT
Found at i:8723846 original size:17 final size:17
Alignment explanation
Indices: 8723824--8723859 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8723814 AATTAAATAA
8723824 AAATAAAGAAACAAAAT
1 AAATAAAGAAACAAAAT
* *
8723841 AAATAAATAAATAAAAT
1 AAATAAAGAAACAAAAT
8723858 AA
1 AA
8723860 GACATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATAAAGAAACAAAAT
Found at i:8723857 original size:13 final size:13
Alignment explanation
Indices: 8723812--8723881 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 13
8723802 CGATAACAAG
8723812 TAAATTAAATAAAAA
1 TAAA-TAAAT-AAAA
* *
8723827 TAAAGAAACAAAA
1 TAAATAAATAAAA
8723840 TAAATAAAT-AAA
1 TAAATAAATAAAA
8723852 TAAAATAAGACATAAAAA
1 T-AAAT-A-A-AT-AAAA
8723870 TAAATAAATAAA
1 TAAATAAATAAA
8723882 GTCCATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
12 4 0.09
13 18 0.40
14 6 0.13
15 6 0.13
16 3 0.07
17 4 0.09
18 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:8723859 original size:30 final size:31
Alignment explanation
Indices: 8723812--8723881 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
8723802 CGATAACAAG
8723812 TAAATTAAATAAAAATAAAGA-A-ACAAAATAAA
1 TAAA-TAAATAAAAAT-AAGACATA-AAAATAAA
8723844 TAAATAAAT-AAAATAAGACATAAAAATAAA
1 TAAATAAATAAAAATAAGACATAAAAATAAA
8723874 TAAATAAA
1 TAAATAAA
8723882 GTCCATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 4 0.11
30 22 0.61
31 6 0.17
32 4 0.11
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (31 bp):
TAAATAAATAAAAATAAGACATAAAAATAAA
Found at i:8723891 original size:22 final size:22
Alignment explanation
Indices: 8723820--8723905 Score: 61
Period size: 22 Copynumber: 3.9 Consensus size: 22
8723810 AGTAAATTAA
* * *
8723820 ATAAAAATAAAGAAACAAA-AT
1 ATAAAAATAAATAAATAAAGAC
8723841 A-AATAAATAAATAAA-ATAAGAC
1 ATAA-AAATAAATAAATA-AAGAC
*
8723863 ATAAAAATAAATAAATAAAGTCC
1 ATAAAAATAAATAAATAAAG-AC
**
8723886 ATAAAAGCAAATGAAATAAA
1 ATAAAAATAAAT-AAATAAA
8723906 TAAAACACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.06
21 13 0.25
22 16 0.30
23 14 0.26
24 7 0.13
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (22 bp):
ATAAAAATAAATAAATAAAGAC
Found at i:8724020 original size:2 final size:2
Alignment explanation
Indices: 8724013--8724043 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8724003 CGAAATGATA
8724013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8724044 AAATAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8724148 original size:27 final size:27
Alignment explanation
Indices: 8724097--8724148 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
8724087 AAACATATAA
*
8724097 TAAAAATTATCATATATATATGTAATC
1 TAAAAATTATCATATATATAAGTAATC
8724124 TAAAAA-TAT-ATATATACTAAAGTAA
1 TAAAAATTATCATATATA-T-AAGTAA
8724149 AAAAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 11 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
TAAAAATTATCATATATATAAGTAATC
Found at i:8726284 original size:39 final size:35
Alignment explanation
Indices: 8726241--8726326 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 35
8726231 GGGTTTGGTA
*
8726241 TTTCAAGAGAAACATTTTCAAAGGGTTTTTGTGTGTGTG
1 TTTCAAGAGAAACAATTTC-AAGGGTTTTT-T-T-TGTG
*
8726280 TTTCAAGAGAAACAATTTCGAGGGTTTTTTTTGTG
1 TTTCAAGAGAAACAATTTCAAGGGTTTTTTTTGTG
8726315 TTTCAAGAGAAA
1 TTTCAAGAGAAA
8726327 TTGTCTCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 16 0.36
36 1 0.02
37 1 0.02
38 9 0.20
39 18 0.40
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (35 bp):
TTTCAAGAGAAACAATTTCAAGGGTTTTTTTTGTG
Found at i:8726352 original size:35 final size:36
Alignment explanation
Indices: 8726313--8726545 Score: 132
Period size: 37 Copynumber: 6.6 Consensus size: 36
8726303 GTTTTTTTTG
* *
8726313 TGTTTCAAGAGAAATTGTCTCAAGAGGGA-AAAATT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
*
8726348 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAA-TT
* * *
8726385 AG-GTCTAAAAGAAACTGTCTCAAG-GGAGACGAAATT
1 TGTTTC-AAAAGAAACTGTCTCAAGAGG-GACAAAATT
* *
8726421 TGTTTCAAGGAA-AAGA-TAT-TCAA-A--G----ATTT
1 TGTTTCAA--AAGAA-ACTGTCTCAAGAGGGACAAAATT
** * * *
8726450 TGTTTCAAGGGAAACTGCCTCAATAGAGACAAAATT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
** * *
8726486 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGGGACAA-AATT
** *
8726523 TGTTTCAAGGGAAACTATCTCAA
1 TGTTTCAAAAGAAACTGTCTCAA
8726546 AACTCATTTT
Statistics
Matches: 158, Mismatches: 20, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.01
28 3 0.02
29 15 0.09
30 1 0.01
32 1 0.01
33 1 0.01
35 26 0.16
36 49 0.31
37 58 0.37
38 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAATT
Found at i:8726534 original size:37 final size:37
Alignment explanation
Indices: 8726443--8726545 Score: 163
Period size: 36 Copynumber: 2.8 Consensus size: 37
8726433 AAGATATTCA
* *
8726443 AAGATTTTGTTTCAAGGGAAACTGCCTCAATAGAGAC
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
8726480 AA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
8726516 AAGATTTTGTTTCAAGGGAAACTATCTCAA
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAA
8726546 AACTCATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 33 0.55
37 27 0.45
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (37 bp):
AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
Found at i:8726546 original size:102 final size:102
Alignment explanation
Indices: 8726346--8726532 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
8726336 GAGGGAAAAA
* *
8726346 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGGTCTAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGGTCTAAAAGAAACTGTCTCAAGAG
8726411 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * * * **
8726448 TTTGTTTCAAGGGAAACTGCCTCAATAGAGACAAAA-TT-TGTTTCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGGTCT-AAAAGAAACTGTCTCAAGA
8726511 GAGAC-AAGATTTTGTTTCAAGG
65 GAGACGAA-A-TTTGTTTCAAGG
8726533 GAAACTATCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 5 0.07
101 24 0.33
102 44 0.60
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGGTCTAAAAGAAACTGTCTCAAGAG
AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:8726661 original size:37 final size:37
Alignment explanation
Indices: 8726610--8726682 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
8726600 TCAAGGTTTA
* *
8726610 TGTTTCAAGAGAAACTATCTTAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
8726647 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
8726683 CATTTCAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:8726696 original size:36 final size:37
Alignment explanation
Indices: 8726612--8726696 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
8726602 AAGGTTTATG
* * **
8726612 TTTC-AAGAGAAACTATCTTAAGGGAGACAAAATTTTG
1 TTTCAAAG-GAAACTATCTCAAGAGAGACAAAATTTCA
*
8726649 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTCA
8726685 TTTCAAAGGAAA
1 TTTCAAAGGAAA
8726697 TGTTTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 13 0.32
37 26 0.63
38 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (37 bp):
TTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTCA
Found at i:8726798 original size:36 final size:37
Alignment explanation
Indices: 8726714--8726798 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
8726704 AATGTTTATC
* ** * * * *
8726714 TTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTGG
1 TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTGA
8726751 TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTT-A
1 TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTGA
8726787 TTTCAAGGGAAA
1 TTTCAAGGGAAA
8726799 TGTTTTCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.29
37 29 0.71
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (37 bp):
TTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTGA
Found at i:8726910 original size:36 final size:37
Alignment explanation
Indices: 8726816--8726900 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
8726806 AATGTTTATG
* * ** *
8726816 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCG
1 TTTCAAGGGAAACTATCTCAATCGAGACAAAATTTCA
*
8726853 TTTCAAGGGAAACTATCTCAATCGAGATAAAA-TTCA
1 TTTCAAGGGAAACTATCTCAATCGAGACAAAATTTCA
8726889 TTTCAAGGGAAA
1 TTTCAAGGGAAA
8726901 TGTTTTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 15 0.36
37 27 0.64
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAATCGAGACAAAATTTCA
Found at i:8727011 original size:102 final size:102
Alignment explanation
Indices: 8726583--8726996 Score: 578
Period size: 102 Copynumber: 4.1 Consensus size: 102
8726573 ATATTTTGTG
* * * *
8726583 TTTCAAGGGAAACGTTTTCAAGGTTTATGTTTCAAGAGAAACTATCTTAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
*
8726648 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGCGAGACAAAATTCA
* * * * *
8726685 TTTCAAAGGAAATGTTTTCAATGTTTATCTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
* * *
8726750 GTTTCAAGGGAAACTACCCCAAGCGAGACAAAATTTA
66 GTTTCAAGGGAAACTATCTCAAGCGAGACAAAATTCA
* *
8726787 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTC
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
* *
8726852 GTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGCGAGACAAAATTCA
* *
8726889 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGGGAAACTATCTCAAGGGAGAAAAAATTTA
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
* ** * * * *
8726954 GTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATT-A
66 GTTTCAAGGGAAACTATCTCAAGCGAGACAAAATTCA
8726990 GTTTCAA
1 -TTTCAA
8726997 TGAAAACAGA
Statistics
Matches: 277, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 1 0.00
102 276 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
GTTTCAAGGGAAACTATCTCAAGCGAGACAAAATTCA
Found at i:8727364 original size:106 final size:106
Alignment explanation
Indices: 8727169--8727502 Score: 488
Period size: 106 Copynumber: 3.2 Consensus size: 106
8727159 TCCAAGTAAG
* * ** * * *
8727169 TTGTATTGTTTCGAGTCCAATATCCTTCGCCGTGAAGTTAAAATTGGCTCTGGAACTAGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
* * * ** * *
8727234 GTTTGTTGACAGCCAGCCGCCCCTTCACTGTGAAGTTTAGC
66 ATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
* * *
8727275 TTGTGCTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
8727340 ATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
66 ATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
*
8727381 TTGTGTTTTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
*
8727446 ATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAAC
66 ATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
*
8727487 TTATGTTGTCTCGAGT
1 TTGTGTTGTCTCGAGT
8727503 GGCACGATAT
Statistics
Matches: 204, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 204 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (106 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATT
ATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
Found at i:8728164 original size:32 final size:32
Alignment explanation
Indices: 8728123--8728236 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 32
8728113 TTTACATCAG
* * *
8728123 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
8728155 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
* * * * *
8728187 GATGTTAAATCTAAAAAAAATGTCTCAACATTT
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
8728220 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
8728237 GATGCCCTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 37 0.54
33 31 0.45
34 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTC
Found at i:8728216 original size:33 final size:32
Alignment explanation
Indices: 8728141--8728231 Score: 119
Period size: 33 Copynumber: 2.8 Consensus size: 32
8728131 ATTCCCAAAG
* * *
8728141 ATGCCCCAATATTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAAA
*
8728173 ATGCCCCAACATTTGATGTTAAATCTAAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCT-AAAAAA
* *
8728206 ATGTCTCAACATTTGATGTTGAATCT
1 ATGCCCCAACATTTGATGTTGAATCT
8728232 TCAAAGATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 23 0.45
33 28 0.55
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTAAAAAA
Found at i:8732606 original size:32 final size:30
Alignment explanation
Indices: 8732564--8732641 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 30
8732554 AATTAACGAT
*
8732564 AACAAGTAAATTAAATAAAAATAAAGAAACAA
1 AACAAATAAA-TAAATAAAAATAAA-AAACAA
* *
8732596 AACAAATAAATAAAT-AAAATAAAAGACAT
1 AACAAATAAATAAATAAAAATAAAAAACAA
8732625 AA-AAATAAATAAATAAA
1 AACAAATAAATAAATAAA
8732642 GTCCATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.29
29 8 0.19
30 8 0.19
31 5 0.12
32 9 0.21
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (30 bp):
AACAAATAAATAAATAAAAATAAAAAACAA
Found at i:8732648 original size:23 final size:23
Alignment explanation
Indices: 8732578--8732665 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 23
8732568 AGTAAATTAA
* *
8732578 ATAAAAATAAA-GAAACAAA-AC
1 ATAAAAATAAATAAAATAAAGAC
8732599 A-AATAAATAAATAAAATAAAAGAC
1 ATAA-AAATAAATAAAAT-AAAGAC
*
8732623 ATAAAAATAAAT-AAATAAAGTCC
1 ATAAAAATAAATAAAATAAAG-AC
** *
8732646 ATAAAAGCAAATGAAATAAA
1 ATAAAAATAAATAAAATAAA
8732666 TAAAACACTA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
20 2 0.04
21 8 0.15
22 7 0.13
23 18 0.33
24 18 0.33
25 2 0.04
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.16
Consensus pattern (23 bp):
ATAAAAATAAATAAAATAAAGAC
Found at i:8732650 original size:32 final size:27
Alignment explanation
Indices: 8732599--8732669 Score: 72
Period size: 32 Copynumber: 2.4 Consensus size: 27
8732589 GAAACAAAAC
8732599 AAATAAATAAATAAAATAAAAGACATAA-
1 AAATAAATAAATAAAATAAAAG-CA-AAG
8732627 AAATAAATAAATAAAGTCCATAAAAGCAAATG
1 AAATAAATAAATAAA----ATAAAAGCAAA-G
8732659 AAATAAATAAA
1 AAATAAATAAA
8732670 ACACTAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
28 15 0.41
30 2 0.05
31 2 0.05
32 18 0.49
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (27 bp):
AAATAAATAAATAAAATAAAAGCAAAG
Found at i:8735942 original size:2 final size:2
Alignment explanation
Indices: 8735935--8735965 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8735925 AGTTATATGA
8735935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8735966 ATAACTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8736018 original size:29 final size:29
Alignment explanation
Indices: 8735983--8736048 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
8735973 ATAAACAGGT
* *
8735983 ATAAAAAATAATAGTAATAATAAGTATTAA
1 ATAAAAAATAATAATAATAAT-AGTAATAA
*
8736013 A-AAAAAATAATAATAGTAATAGTAATAA
1 ATAAAAAATAATAATAATAATAGTAATAA
8736041 ATAAAAAA
1 ATAAAAAA
8736049 ACAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.25
29 23 0.72
30 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (29 bp):
ATAAAAAATAATAATAATAATAGTAATAA
Found at i:8736046 original size:32 final size:31
Alignment explanation
Indices: 8735985--8736058 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
8735975 AAACAGGTAT
*
8735985 AAAAAATAATAGTAATAATAAGTATTAAAAA
1 AAAAAATAATAGTAATAATAAGTAATAAAAA
*
8736016 AAAATAATAATAGTAATAGTAA-TAAATAAAAA
1 AAAA-AATAATAGTAATAATAAGT-AATAAAAA
8736048 AACAAAA-AATA
1 AA-AAAATAATA
8736059 AAGAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 9 0.24
32 27 0.71
33 2 0.05
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAAAATAATAGTAATAATAAGTAATAAAAA
Found at i:8736078 original size:2 final size:2
Alignment explanation
Indices: 8736071--8736124 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
8736061 GAATATAAAG
8736071 AT AT AT AT A- AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8736111 AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT A
8736125 ATAATGGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8737478 original size:106 final size:106
Alignment explanation
Indices: 8737286--8737502 Score: 265
Period size: 106 Copynumber: 2.0 Consensus size: 106
8737276 TGTATTGCTC
* **
8737286 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGACTCTAAAACTGGGAAATTGTTTGTTGACA
* ** * *
8737351 ATCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCT
66 ACCAACCGCCCATTCACTGTGAAGTTGAACTTGTGCTGTCT
* * * *
8737392 CGAGTCTAATATCCTTCG-CTGTGAAGTTGAAATTGACTCTAAAATTGGGAAGTTGTTTGTTGAC
1 CGAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGACTCTAAAACTGGGAAATTGTTTGTTGAC
* ** *
8737456 AACCAACCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAACCGCCCATTCACTGTGAAGTTGAACTTGTGCTGTCT
*
8737498 TGAGT
1 CGAGT
8737503 GTTGAGCCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 1 0.01
106 92 0.99
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGACTCTAAAACTGGGAAATTGTTTGTTGACA
ACCAACCGCCCATTCACTGTGAAGTTGAACTTGTGCTGTCT
Found at i:8739782 original size:15 final size:15
Alignment explanation
Indices: 8739762--8739794 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8739752 TCTTGTACAA
8739762 GACCTCCCCATCAAG
1 GACCTCCCCATCAAG
8739777 GACCTCCCCATCAAG
1 GACCTCCCCATCAAG
8739792 GAC
1 GAC
8739795 GTATCCAGCT
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:0.27, C:0.45, G:0.15, T:0.12
Consensus pattern (15 bp):
GACCTCCCCATCAAG
Found at i:8740940 original size:31 final size:31
Alignment explanation
Indices: 8740917--8741119 Score: 343
Period size: 31 Copynumber: 6.5 Consensus size: 31
8740907 CATAGATTCT
* * *
8740917 GAAGAACCTAGGTAATCAGTCCATATGTTCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
8740948 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
8740979 AAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
* * *
8741010 GAAGAGCATAGGTAAACAATCCATATATCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
8741041 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
8741072 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
8741103 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
8741120 CCTCGATCTT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 161 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:8749040 original size:27 final size:27
Alignment explanation
Indices: 8748992--8749047 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8748982 AAATAATAGT
* * *
8748992 AATAATAAGTATTAAAATAAAAATAAA
1 AATAATAAGTAATAAAAAAAAAACAAA
8749019 AATAAT-AGTAATAAATAAAAAAACAAA
1 AATAATAAGTAATAAA-AAAAAAACAAA
8749046 AA
1 AA
8749048 ATAAAAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (27 bp):
AATAATAAGTAATAAAAAAAAAACAAA
Found at i:8749047 original size:33 final size:35
Alignment explanation
Indices: 8748981--8749053 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
8748971 CAAGGTATAC
*
8748981 AAAATAATAGTAATAATAAGTATTAAAA-TAAAAATA
1 AAAATAATAGTAATAATAAG-A-TAAAACAAAAAATA
8749017 AAAATAATAGTAATAAATAA-A-AAAACAAAAAATA
1 AAAATAATAGTAAT-AATAAGATAAAACAAAAAATA
8749051 AAA
1 AAA
8749054 GAATTTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 4 0.12
34 10 0.29
35 1 0.03
36 14 0.41
37 5 0.15
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (35 bp):
AAAATAATAGTAATAATAAGATAAAACAAAAAATA
Found at i:8749091 original size:2 final size:2
Alignment explanation
Indices: 8749084--8749118 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8749074 AATCAAAGTA
8749084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8749119 ATAAAGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8753222 original size:43 final size:42
Alignment explanation
Indices: 8753175--8753258 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
8753165 ATTAGCGACG
* *
8753175 TTTGTATCAAAAAATTA-CACTATAGATTTGACCTTTTGCGGTA
1 TTTGT-TCAAAAAA-CACCACTATAGATCTGACCTTTTGCGGTA
* *
8753218 TTTGTTCGAAAAACACCGCTATAGATCTGACCTTTTGCGGT
1 TTTGTTCAAAAAACACCACTATAGATCTGACCTTTTGCGGT
8753259 CGTAATAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 30 0.83
43 5 0.14
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (42 bp):
TTTGTTCAAAAAACACCACTATAGATCTGACCTTTTGCGGTA
Found at i:8753322 original size:68 final size:67
Alignment explanation
Indices: 8753196--8753323 Score: 166
Period size: 68 Copynumber: 1.9 Consensus size: 67
8753186 AAATTACACT
* * * * *
8753196 ATAGATTTGACCTTTTGCGGTATTTGTTCGAAAAACACCGCTATAGATCTGACCTTTTGCGGTCG
1 ATAGATTCGACCTTTTGCGGCATTTGTTCCAAAAACACCGCTATAGATATGACATTTTGCGGTCG
8753261 TA
66 TA
* ***
8753263 ATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAATGTCGCTATAGATATGACATTTTGC
1 ATAGAT-TCGACCTTTTGCGGCATTTGTTCCAAAAACACCGCTATAGATATGACATTTTGC
8753324 AGCGTTTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
67 6 0.12
68 45 0.88
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (67 bp):
ATAGATTCGACCTTTTGCGGCATTTGTTCCAAAAACACCGCTATAGATATGACATTTTGCGGTCG
TA
Found at i:8753470 original size:44 final size:43
Alignment explanation
Indices: 8753263--8753506 Score: 215
Period size: 43 Copynumber: 5.7 Consensus size: 43
8753253 TGCGGTCGTA
* * *
8753263 ATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAATGTCGCT
1 ATAGATCTCGATCTTTTGCGGCATTTGTTCCAAAAATGTCACT
* * * * *
8753306 ATAGATAT-GA-CATTTTGCAGCGTTTGCTCGAAAAATGTCACT
1 ATAGATCTCGATC-TTTTGCGGCATTTGTTCCAAAAATGTCACT
* * * * **
8753348 ATAGATCTCGAAC-TTTGACGGCGTCTGTTCCAAAAATATCGTT
1 ATAGATCTCGATCTTTTG-CGGCATTTGTTCCAAAAATGTCACT
* * * * *
8753391 ATAGATATCGATCTTTTACGGCATTTGTTTCAAAAATGCCATT
1 ATAGATCTCGATCTTTTGCGGCATTTGTTCCAAAAATGTCACT
**
8753434 ATAGATCTCGATCTATTTGCGGCATTTGTTCCAAAAATACCACT
1 ATAGATCTCGATCT-TTTGCGGCATTTGTTCCAAAAATGTCACT
* * *
8753478 ATAGATCTTGATATATTGCGGCACTTTGT
1 ATAGATCTCGATCTTTTGCGGCA-TTTGT
8753507 GTTCTCAAAC
Statistics
Matches: 164, Mismatches: 30, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 39 0.24
43 78 0.48
44 46 0.28
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (43 bp):
ATAGATCTCGATCTTTTGCGGCATTTGTTCCAAAAATGTCACT
Found at i:8754419 original size:15 final size:15
Alignment explanation
Indices: 8754399--8754429 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8754389 CCAAAGATAG
8754399 TGTAAAGGTGAAAGC
1 TGTAAAGGTGAAAGC
8754414 TGTAAAGGTGAAAGC
1 TGTAAAGGTGAAAGC
8754429 T
1 T
8754430 TTAAGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGTAAAGGTGAAAGC
Found at i:8754788 original size:14 final size:14
Alignment explanation
Indices: 8754769--8754799 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8754759 CAAGGTAACA
8754769 CATTTACAACCTTT
1 CATTTACAACCTTT
8754783 CATTTACAACCTTT
1 CATTTACAACCTTT
8754797 CAT
1 CAT
8754800 ATCATTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (14 bp):
CATTTACAACCTTT
Found at i:8756223 original size:2 final size:2
Alignment explanation
Indices: 8756218--8756250 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8756208 AAAATATTTA
8756218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8756251 AATTTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8766943 original size:57 final size:54
Alignment explanation
Indices: 8766868--8767048 Score: 169
Period size: 57 Copynumber: 3.3 Consensus size: 54
8766858 TTTTTTTATT
*
8766868 TTCATTTTTTA-TTAATTTTTTCCTT-TTTCAACTTTTTCTTTGATTTATTTAATA-A
1 TTCATTTTTTATTTTATTTTTT-CTTATTT---CTTTTTCTTTGATTTATTTAATATA
*
8766923 TTCACTTTTTTATTTTATTTTTT-TTATTT-TTTCTCTCTTTTGATTTATTTAATATTT
1 TTCA-TTTTTTATTTTATTTTTTCTTATTTCTTT-T-TC-TTTGATTTATTTAATA-TA
* *
8766980 TTCATTTTCTTATTTTATTTTATCTTCTTTCTTTTTCCTTTGATTTATTTAATAT-
1 TTCATTTT-TTATTTTATTTTTTCTTATTTCTTTTT-CTTTGATTTATTTAATATA
*
8767035 TT-ATTTATTATTTT
1 TTCATTTTTTATTTT
8767049 TTATCTAACA
Statistics
Matches: 109, Mismatches: 5, Indels: 26
0.78 0.04 0.19
Matches are distributed among these distances:
52 3 0.03
53 8 0.07
54 6 0.06
55 24 0.22
56 15 0.14
57 43 0.39
58 7 0.06
59 3 0.03
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (54 bp):
TTCATTTTTTATTTTATTTTTTCTTATTTCTTTTTCTTTGATTTATTTAATATA
Found at i:8768475 original size:3 final size:3
Alignment explanation
Indices: 8768453--8768501 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
8768443 TCGTTTGGAC
*
8768453 ATA AAA ATA ATAA ATAA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8768499 ATA
1 ATA
8768502 TATTATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.79
4 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:8768477 original size:14 final size:13
Alignment explanation
Indices: 8768453--8768501 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
8768443 TCGTTTGGAC
8768453 ATAAA-AATAATAA
1 ATAAATAATAAT-A
8768466 ATAAATAATAATA
1 ATAAATAATAATA
8768479 ATAAAATAATAATA
1 AT-AAATAATAATA
8768493 AT-AATAATA
1 ATAAATAATA
8768502 TATTATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 19 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:8768478 original size:17 final size:17
Alignment explanation
Indices: 8768453--8768499 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8768443 TCGTTTGGAC
*
8768453 ATAAAAATAAT-AAATAA
1 ATAATAATAATAAAAT-A
8768470 ATAATAATAATAAAATA
1 ATAATAATAATAAAATA
8768487 ATAATAATAATAA
1 ATAATAATAATAA
8768500 TATATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAAAATA
Found at i:8768546 original size:36 final size:36
Alignment explanation
Indices: 8768499--8768798 Score: 339
Period size: 37 Copynumber: 8.6 Consensus size: 36
8768489 AATAATAATA
*
8768499 ATATATTATATATATTTTCAAAATATTTTCAAAACT
1 ATATATTATATATATTTTCAAAATGTTTTCAAAACT
*
8768535 ATATA--ATATATATTTTCAAAAATATTTT-AAAACT
1 ATATATTATATATATTTTC-AAAATGTTTTCAAAACT
*
8768569 ATATATTATAT-T-TTTT-AAAATGTTTTTAAAACT
1 ATATATTATATATATTTTCAAAATGTTTTCAAAACT
* *
8768602 ATATATTATATATGTTTTAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTCAAAATGTTTTCAAAACT
8768638 ATATA-T-TATATA---T-----T-TTTTCAAAACT
1 ATATATTATATATATTTTCAAAATGTTTTCAAAACT
*
8768663 ATATATTATATATATTTTTTAAAATGTTTTCAAAACT
1 ATATATTATATATA-TTTTCAAAATGTTTTCAAAACT
8768700 ATATATTATATA-AGTTTTCAAAATGTTTTCAAAAACTAT
1 ATATATTATATATA-TTTTCAAAATGTTTTC-AAAAC--T
*
8768739 ATATATTATATATTTTTTCAAAATGTTTTCAAAAACT
1 ATATATTATATATATTTTCAAAATGTTTTC-AAAACT
*
8768776 ATATATTATAAATATTTTCAAAA
1 ATATATTATATATATTTTCAAAA
8768799 AACTATATAT
Statistics
Matches: 233, Mismatches: 8, Indels: 45
0.81 0.03 0.16
Matches are distributed among these distances:
25 16 0.07
26 2 0.01
27 6 0.03
31 2 0.01
32 9 0.04
33 17 0.07
34 33 0.14
35 16 0.07
36 47 0.20
37 50 0.21
39 35 0.15
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (36 bp):
ATATATTATATATATTTTCAAAATGTTTTCAAAACT
Found at i:8768656 original size:25 final size:26
Alignment explanation
Indices: 8768627--8768686 Score: 104
Period size: 25 Copynumber: 2.3 Consensus size: 26
8768617 TTTAAAAATG
8768627 TTTTCAAAACTATATATTATATAT-T
1 TTTTCAAAACTATATATTATATATAT
8768652 TTTTCAAAACTATATATTATATATAT
1 TTTTCAAAACTATATATTATATATAT
*
8768678 TTTTTAAAA
1 TTTTCAAAA
8768687 TGTTTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTCAAAACTATATATTATATATAT
Found at i:8768667 original size:27 final size:25
Alignment explanation
Indices: 8768627--8768686 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 25
8768617 TTTAAAAATG
8768627 TTTTCAAAACTATA-TATTATATATT
1 TTTTCAAAACTATATTA-TATATATT
8768652 TTTTCAAAACTATATATTATATATATT
1 TTTTCAAAAC--TATATTATATATATT
8768679 TTTT-AAAA
1 TTTTCAAAA
8768687 TGTTTTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 10 0.31
26 4 0.12
27 16 0.50
28 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTCAAAACTATATTATATATATT
Found at i:8768700 original size:98 final size:101
Alignment explanation
Indices: 8768570--8768761 Score: 327
Period size: 98 Copynumber: 1.9 Consensus size: 101
8768560 TTTAAAACTA
* *
8768570 TATATTATATTTTTTAAAATGTTTTTAAAACTATATATTATATATGTTTTAAAAATGTTTTC-AA
1 TATATTATATTTTTTAAAATGTTTTCAAAACTATATATTATATAAGTTTTAAAAATGTTTTCAAA
8768634 AAC-TATATATTATATATTTTTTCAAAACTATATAT
66 AACATATATATTATATATTTTTTCAAAACTATATAT
*
8768669 TATA-TATATTTTTTAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAA
1 TATATTATATTTTTTAAAATGTTTTCAAAACTATATATTATATAAGTTTTAAAAATGTTTTCAAA
8768733 AACTATATATATTATATATTTTTTCAAAA
66 AAC-ATATATATTATATATTTTTTCAAAA
8768762 TGTTTTCAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
98 54 0.62
99 9 0.10
101 24 0.28
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (101 bp):
TATATTATATTTTTTAAAATGTTTTCAAAACTATATATTATATAAGTTTTAAAAATGTTTTCAAA
AACATATATATTATATATTTTTTCAAAACTATATAT
Found at i:8768702 original size:26 final size:25
Alignment explanation
Indices: 8768673--8768722 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8768663 ATATATTATA
* *
8768673 TATATTTTTTAAAATGTTTTCAAAAC
1 TATATATTATAAAA-GTTTTCAAAAC
*
8768699 TATATATTATATAAGTTTTCAAAA
1 TATATATTATAAAAGTTTTCAAAA
8768723 TGTTTTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
TATATATTATAAAAGTTTTCAAAAC
Found at i:8768784 original size:76 final size:73
Alignment explanation
Indices: 8768652--8768798 Score: 226
Period size: 76 Copynumber: 2.0 Consensus size: 73
8768642 ATTATATATT
*
8768652 TTTTCAAAACTATATATTATATATATTTTTTAAAATGTTTTCAAAACTATATATTATATAA-GTT
1 TTTTCAAAACTATATATTATATATATTTTTTAAAATGTTTTCAAAACTATATATTATA-AATATT
8768716 TTCAAAATG
65 TTCAAAATG
8768725 TTTTCAAAAACTATATA-TATTATATATTTTTTCAAAATGTTTTCAAAAACTATATATTATAAAT
1 TTTTC-AAAACTATATATTA-TATATATTTTTT-AAAATGTTTTC-AAAACTATATATTATAAAT
8768789 ATTTTCAAAA
62 ATTTTCAAAA
8768799 AACTATATAT
Statistics
Matches: 68, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
73 7 0.10
74 23 0.34
75 13 0.19
76 25 0.37
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (73 bp):
TTTTCAAAACTATATATTATATATATTTTTTAAAATGTTTTCAAAACTATATATTATAAATATTT
TCAAAATG
Found at i:8768807 original size:27 final size:26
Alignment explanation
Indices: 8768759--8768844 Score: 97
Period size: 26 Copynumber: 3.3 Consensus size: 26
8768749 TATTTTTTCA
*
8768759 AAATGTTTTCAAAAACTATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
8768785 AAATATTTTCAAAAAACTATATATTA-
1 AAATATTTTC-AAAAACTATATATTAT
* *
8768811 CATTATTTTTCAAAAACTATA-A-TAT
1 AAATA-TTTTCAAAAACTATATATTAT
*
8768836 ATATATTTT
1 AAATATTTT
8768845 TTTAAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 6 0.12
25 3 0.06
26 22 0.43
27 20 0.39
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (26 bp):
AAATATTTTCAAAAACTATATATTAT
Found at i:8768846 original size:27 final size:25
Alignment explanation
Indices: 8768764--8768852 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 25
8768754 TTTCAAAATG
* *
8768764 TTTTCAAAAACTATATATTATAAATA
1 TTTTCAAAAACTATATATTAT-ATTT
*
8768790 TTTTCAAAAAACTATATATTACATTAT
1 TTTTC-AAAAACTATATATTATATT-T
8768817 TTTTCAAAAACTATAATATATATATTT
1 TTTTCAAAAACTAT-ATAT-TATATTT
8768844 TTTT-AAAAA
1 TTTTCAAAAA
8768853 TGTTTTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.38
27 29 0.53
28 5 0.09
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTCAAAAACTATATATTATATTT
Found at i:8768872 original size:35 final size:34
Alignment explanation
Indices: 8768817--8768916 Score: 101
Period size: 35 Copynumber: 2.7 Consensus size: 34
8768807 ATTACATTAT
*
8768817 TTTTCAAAAACTATAATATATATATTTTTTTAAAAATG
1 TTTTAAAAAACTAT-ATATATATA---TTTTAAAAATG
*
8768855 TTTTTAAAAAAACTATATATTATATATTTTCAAAATG
1 -TTTT-AAAAAACTATATA-TATATATTTTAAAAATG
*
8768892 TTTTGAAAAACTATATATTATATAT
1 TTTTAAAAAACTATATA-TATATAT
8768917 ATATTTCAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
35 20 0.36
36 4 0.07
37 10 0.18
39 7 0.12
40 15 0.27
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (34 bp):
TTTTAAAAAACTATATATATATATTTTAAAAATG
Found at i:8768890 original size:37 final size:37
Alignment explanation
Indices: 8768822--8768949 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 37
8768812 ATTATTTTTC
* *
8768822 AAAAACTATAATATATATATTTTTTTAAAAATGTTTTTAA
1 AAAAACTAT-ATATATATA-TATTTTCAAAATG-TTTTAA
*
8768862 AAAAACTATATAT-TATATATTTTCAAAATGTTTT-G
1 AAAAACTATATATATATATATTTTCAAAATGTTTTAA
*
8768897 AAAAACTATATATTATATATATATTTCAAAAATCGATTTAAA
1 AAAAACTATATA-TATATATAT-TTTC-AAAAT-G-TTTTAA
8768939 AAAAACTATAT
1 AAAAACTATAT
8768950 GTGTAAACGA
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
35 12 0.16
36 5 0.07
37 18 0.24
38 8 0.11
39 9 0.12
40 10 0.13
41 3 0.04
42 11 0.14
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (37 bp):
AAAAACTATATATATATATATTTTCAAAATGTTTTAA
Found at i:8768929 original size:39 final size:38
Alignment explanation
Indices: 8768816--8768949 Score: 139
Period size: 39 Copynumber: 3.4 Consensus size: 38
8768806 TATTACATTA
* * *
8768816 TTTTTCAAAAACTATAATATATATATTTTTTTAAAAATG
1 TTTTTAAAAAACTAT-ATATATATATATTTTCAAAAATG
8768855 TTTTTAAAAAAACTATATAT-TATATATTTTC-AAAATG
1 TTTTT-AAAAAACTATATATATATATATTTTCAAAAATG
*
8768892 -TTTTGAAAAACTATATATTATATATATATTTCAAAAATCG
1 TTTTTAAAAAACTATATA-TATATATAT-TTTCAAAAAT-G
**
8768932 ATTTAAAAAAAACTATAT
1 -TTTTTAAAAAACTATAT
8768950 GTGTAAACGA
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
35 12 0.15
36 5 0.06
37 13 0.16
38 13 0.16
39 14 0.17
40 10 0.12
42 13 0.16
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (38 bp):
TTTTTAAAAAACTATATATATATATATTTTCAAAAATG
Done.