Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 73 of 210
Found at i:25646805 original size:15 final size:16
Alignment explanation
Indices: 25646779--25646809 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25646769 ACATTATTCC
25646779 AAATATATATTTTACA
1 AAATATATATTTTACA
25646795 AAATATA-ATTTTACA
1 AAATATATATTTTACA
25646810 TTTCAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATATATTTTACA
Found at i:25647617 original size:21 final size:21
Alignment explanation
Indices: 25647593--25647639 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25647583 TAAAATATTA
*
25647593 TAAAACAAATAATAAACAAAT
1 TAAAACAAATAAAAAACAAAT
*
25647614 TAAAACTAATAAAAAACAAAT
1 TAAAACAAATAAAAAACAAAT
*
25647635 AAAAA
1 TAAAA
25647640 AACTGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAAACAAATAAAAAACAAAT
Found at i:25647640 original size:11 final size:11
Alignment explanation
Indices: 25647594--25647640 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
25647584 AAAATATTAT
25647594 AAAACAAATAA
1 AAAACAAATAA
* *
25647605 TAAACAAAT-T
1 AAAACAAATAA
*
25647615 AAAACTAATAA
1 AAAACAAATAA
25647626 AAAACAAATAA
1 AAAACAAATAA
25647637 AAAA
1 AAAA
25647641 ACTGAAAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAACAAATAA
Found at i:25649218 original size:26 final size:25
Alignment explanation
Indices: 25649189--25649245 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
25649179 ATAAAAACTA
*
25649189 TTTAGATTTATCAAAAATAAATAAAT
1 TTTA-ATTTATCAAAAATAAAGAAAT
* * *
25649215 TTTAACATAATTAAAAATAAAGAAAT
1 TTTAA-TTTATCAAAAATAAAGAAAT
25649241 TTTAA
1 TTTAA
25649246 ATTTTATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
TTTAATTTATCAAAAATAAAGAAAT
Found at i:25651918 original size:26 final size:26
Alignment explanation
Indices: 25651889--25651987 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 26
25651879 TGTAATTGTG
* *
25651889 ATATATGATAAAAAATAAAA-ATTATA
1 ATATAT-ACAAAAAATAAAATATTAAA
* *
25651915 ATATATACAAATATTAAAATATTAAA
1 ATATATACAAAAAATAAAATATTAAA
* *
25651941 ATATATA-AAAATTATTAAAATTTTAAA
1 ATATATACAAAA--AATAAAATATTAAA
* *
25651968 AAATATATAAAAATATAAAA
1 ATATATACAAAAA-ATAAAA
25651988 ATACGGCACC
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
25 13 0.22
26 19 0.32
27 24 0.40
28 4 0.07
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
ATATATACAAAAAATAAAATATTAAA
Found at i:25651928 original size:8 final size:8
Alignment explanation
Indices: 25651904--25651968 Score: 60
Period size: 8 Copynumber: 7.6 Consensus size: 8
25651894 TGATAAAAAA
25651904 TAAAA-AT
1 TAAAATAT
*
25651911 TATAATAT
1 TAAAATAT
25651919 ATACAAATAT
1 -TA-AAATAT
25651929 TAAAATAT
1 TAAAATAT
25651937 TAAAATAT
1 TAAAATAT
25651945 ATAAAAATTAT
1 -T-AAAA-TAT
*
25651956 TAAAATTT
1 TAAAATAT
25651964 TAAAA
1 TAAAA
25651969 AATATATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 4 0.08
8 23 0.47
9 9 0.18
10 10 0.20
11 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAATAT
Found at i:25651936 original size:16 final size:17
Alignment explanation
Indices: 25651891--25651987 Score: 67
Period size: 16 Copynumber: 5.6 Consensus size: 17
25651881 TAATTGTGAT
* *
25651891 ATATGATAAAAAATAAAA
1 ATAT-ATAAAATATTAAA
*
25651909 AT-TATAATATA-TACAA
1 ATATATAAAATATTA-AA
25651925 ATAT-TAAAATATTAAA
1 ATATATAAAATATTAAA
25651941 ATATATAAAAATTATTAAA
1 ATATAT-AAAA-TATTAAA
* *
25651960 ATTTTAAAAAATATATAAA
1 A-TATATAAAATAT-TAAA
25651979 A-ATATAAAA
1 ATATATAAAA
25651988 ATACGGCACC
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.02
16 22 0.35
17 11 0.17
18 9 0.14
19 17 0.27
20 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (17 bp):
ATATATAAAATATTAAA
Found at i:25651946 original size:10 final size:10
Alignment explanation
Indices: 25651925--25651990 Score: 54
Period size: 9 Copynumber: 7.1 Consensus size: 10
25651915 ATATATACAA
25651925 ATATT-AAA-
1 ATATTAAAAT
25651933 ATATTAAAAT
1 ATATTAAAAT
*
25651943 ATATAAAAAT
1 ATATTAAAAT
25651953 -TATTAAAAT
1 ATATTAAAAT
*
25651962 -T-TTAAAAA
1 ATATTAAAAT
25651970 ATATATAAAA-
1 ATAT-TAAAAT
*
25651980 ATATAAAAAT
1 ATATTAAAAT
25651990 A
1 A
25651991 CGGCACCTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
8 11 0.23
9 17 0.35
10 15 0.31
11 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATTAAAAT
Found at i:25651983 original size:8 final size:8
Alignment explanation
Indices: 25651896--25651990 Score: 59
Period size: 8 Copynumber: 11.1 Consensus size: 8
25651886 GTGATATATG
25651896 ATAAAAA-
1 ATAAAAAT
25651903 ATAAAAAT
1 ATAAAAAT
*
25651911 -TATAATAT
1 ATA-AAAAT
*
25651919 ATACAAAT
1 ATAAAAAT
*
25651927 ATTAAAAT
1 ATAAAAAT
25651935 ATTAAAATAT
1 A-TAAAA-AT
25651945 ATAAAAATT
1 ATAAAAA-T
*
25651954 ATTAAAATTTT
1 A-TAAAA--AT
*
25651965 AAAAAATAT
1 ATAAAA-AT
25651974 ATAAAAAT
1 ATAAAAAT
25651982 ATAAAAAT
1 ATAAAAAT
25651990 A
1 A
25651991 CGGCACCTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 9 0.13
8 26 0.38
9 20 0.29
10 12 0.17
11 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAAAT
Found at i:25651988 original size:18 final size:18
Alignment explanation
Indices: 25651914--25651990 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
25651904 TAAAAATTAT
* *
25651914 AATATATACAAATATTAA
1 AATATATAAAAATATAAA
25651932 AATAT-TAAAATATATAAA
1 AATATATAAAA-ATATAAA
* *
25651950 AAT-TATTAAAATTTTAAAA
1 AATATA-TAAAAATAT-AAA
25651969 AATATATAAAAATATAAA
1 AATATATAAAAATATAAA
25651987 AATA
1 AATA
25651991 CGGCACCTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
17 5 0.10
18 23 0.48
19 18 0.38
20 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
AATATATAAAAATATAAA
Found at i:25652481 original size:21 final size:20
Alignment explanation
Indices: 25652455--25652513 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
25652445 TGTTTTAAAA
25652455 ATAAATTTTCTATATATTTTT
1 ATAAATTTTCTATAT-TTTTT
25652476 ATAAATTTTCTATATTTTTT
1 ATAAATTTTCTATATTTTTT
25652496 AT-AATTTTCTATATTTTT
1 ATAAATTTTCTATATTTTT
25652514 ATTATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.42
20 7 0.18
21 15 0.39
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATAAATTTTCTATATTTTTT
Found at i:25652483 original size:10 final size:11
Alignment explanation
Indices: 25652455--25652508 Score: 62
Period size: 10 Copynumber: 5.3 Consensus size: 11
25652445 TGTTTTAAAA
25652455 ATAAATTTTCT
1 ATAAATTTTCT
*
25652466 ATATATTTT-T
1 ATAAATTTTCT
25652476 ATAAATTTTCT
1 ATAAATTTTCT
*
25652487 AT--ATTTTTT
1 ATAAATTTTCT
25652496 AT-AATTTTCT
1 ATAAATTTTCT
25652506 ATA
1 ATA
25652509 TTTTTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.22
10 17 0.47
11 11 0.31
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (11 bp):
ATAAATTTTCT
Found at i:25652492 original size:9 final size:9
Alignment explanation
Indices: 25652459--25652521 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
25652449 TTAAAAATAA
25652459 ATTTTCTAT
1 ATTTTCTAT
*
25652468 ATATTTTTAT
1 AT-TTTCTAT
25652478 AAATTTTCTAT
1 --ATTTTCTAT
*
25652489 ATTTTTTAT
1 ATTTTCTAT
25652498 AATTTTCTAT
1 -ATTTTCTAT
25652508 ATTTT-TATT
1 ATTTTCTA-T
25652517 ATTTT
1 ATTTT
25652522 TTTCTATCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 2 0.04
9 21 0.47
10 14 0.31
11 6 0.13
12 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTCTAT
Found at i:25652503 original size:28 final size:28
Alignment explanation
Indices: 25652467--25652523 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
25652457 AAATTTTCTA
*
25652467 TATATTTTTATAAATTTTCTA-TATTTTT
1 TATAATTTTATAAATTTT-TATTATTTTT
* *
25652495 TATAATTTTCTATATTTTTATTATTTTT
1 TATAATTTTATAAATTTTTATTATTTTT
25652523 T
1 T
25652524 TCTATCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (28 bp):
TATAATTTTATAAATTTTTATTATTTTT
Found at i:25652513 original size:10 final size:10
Alignment explanation
Indices: 25652460--25652528 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
25652450 TAAAAATAAA
25652460 TTTTCTATAT
1 TTTTCTATAT
*
25652470 ATTTT-TATAAA
1 -TTTTCTAT-AT
25652481 TTTTCTATAT
1 TTTTCTATAT
*
25652491 TTTT-TATAA
1 TTTTCTATAT
25652500 TTTTCTATAT
1 TTTTCTATAT
* *
25652510 TTTTATTATTT
1 TTTT-CTATAT
25652521 TTTTCTAT
1 TTTTCTAT
25652529 CTATGTAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 8 0.17
10 23 0.49
11 16 0.34
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTCTATAT
Found at i:25652522 original size:19 final size:19
Alignment explanation
Indices: 25652467--25652521 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
25652457 AAATTTTCTA
*
25652467 TATATTTTTATAAATTTTC
1 TATATTTTTATTAATTTTC
25652486 TATATTTTT-TATAATTTTC
1 TATATTTTTAT-TAATTTTC
25652505 TATATTTTTATT-ATTTT
1 TATATTTTTATTAATTTT
25652522 TTTCTATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 6 0.18
19 26 0.79
20 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATTTTTATTAATTTTC
Found at i:25658807 original size:7 final size:7
Alignment explanation
Indices: 25658795--25658820 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25658785 AAAAGGGTAA
25658795 AAAAGAT
1 AAAAGAT
25658802 AAAAGAT
1 AAAAGAT
25658809 AAAAGAT
1 AAAAGAT
25658816 AAAAG
1 AAAAG
25658821 GGTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAGAT
Found at i:25665610 original size:12 final size:12
Alignment explanation
Indices: 25665593--25665617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25665583 ATTAAAGACC
25665593 TTAATAGTAACA
1 TTAATAGTAACA
25665605 TTAATAGTAACA
1 TTAATAGTAACA
25665617 T
1 T
25665618 CATGACAAAT
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:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTAATAGTAACA
Found at i:25667776 original size:31 final size:31
Alignment explanation
Indices: 25667738--25667817 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
25667728 CATGGTTGAT
*
25667738 TTAGCAGCAAAAATCAATAGAAGGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
25667769 TTAGCAGCAAAAACCAATAGAAGGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
25667800 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAACCAAT
25667818 TAAAATCCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (31 bp):
TTAGCAGCAAAAACCAATAGAAGGTACCATC
Found at i:25670900 original size:17 final size:17
Alignment explanation
Indices: 25670878--25670911 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25670868 CACGTAATAG
25670878 CCTTCACATAGTACTAC
1 CCTTCACATAGTACTAC
25670895 CCTTCACATAGTACTAC
1 CCTTCACATAGTACTAC
25670912 ACACGTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.29
Consensus pattern (17 bp):
CCTTCACATAGTACTAC
Found at i:25670907 original size:67 final size:67
Alignment explanation
Indices: 25670828--25670961 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
25670818 CACGTAGTAG
25670828 CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAATAGCCTTCACATAGTACT
1 CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAATAGCCTTCACATAGTACT
25670893 AC
66 AC
* *
25670895 CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACTTAGTACT
1 CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAATAGCCTTCACATAGTACT
25670960 AC
66 AC
25670962 ACACATGACC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (67 bp):
CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAATAGCCTTCACATAGTACT
AC
Found at i:25671001 original size:51 final size:51
Alignment explanation
Indices: 25670895--25671274 Score: 326
Period size: 51 Copynumber: 7.5 Consensus size: 51
25670885 ATAGTACTAC
* *
25670895 CCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACGTAGTAG
* *
25670945 CCTTCACTTAGTACTACACACATGACCAAAGCTTTTCGGTACACGTAGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACGTAGTAG
* * * * * *
25670996 CCTTCACTTAGTACTACACATGTGACC--ATCATTTATCGATTCAAGTAGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTACACGTAGTAG
* * * * * *
25671047 CCTTCACACAGTACTACACACGTGACGAAAGCTTCTCAGTACACATTGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACGTAGTAG
* * * * * * *
25671098 CCATCACTTAGTACTACACATGTGACC--ATCATTTAGCGATTCACGTAGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCGGTACACGTAGTAG
* * * * * *
25671149 CCTTCACACAGTACTACACACGTGACGAAAGCTTCTCAGTACACATTGTAG
1 CCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACGTAGTAG
* * * * *
25671200 CCATCACTTAGTACTACACATGTGACCATTA--TTTATCGATACACGTAGTAG
1 CCTTCACATAGTACTACACACGTGACCA-AAGCTTT-TCGGTACACGTAGTAG
*
25671251 CCTTCACACAGTACTACACACGTG
1 CCTTCACATAGTACTACACACGTG
25671275 TTCATCGATA
Statistics
Matches: 255, Mismatches: 63, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
49 4 0.02
50 31 0.12
51 207 0.81
52 9 0.04
53 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
CCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACGTAGTAG
Found at i:25671078 original size:102 final size:102
Alignment explanation
Indices: 25670898--25671274 Score: 567
Period size: 102 Copynumber: 3.7 Consensus size: 102
25670888 GTACTACCCT
* * * *** * **
25670898 TCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCCTTCACTTAGTACTAC
1 TCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACAGTACTAC
* * * * * * *
25670962 ACACATGACCAAAGCTTTTCGGTACACGTAGTAGCCT
66 ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
*
25670999 TCACTTAGTACTACACATGTGACCATCATTTATCGATTCAAGTAGTAGCCTTCACACAGTACTAC
1 TCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACAGTACTAC
25671064 ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
66 ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
*
25671101 TCACTTAGTACTACACATGTGACCATCATTTAGCGATTCACGTAGTAGCCTTCACACAGTACTAC
1 TCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACAGTACTAC
25671166 ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
66 ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
* *
25671203 TCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACAGTACTAC
1 TCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACAGTACTAC
25671268 ACACGTG
66 ACACGTG
25671275 TTCATCGATA
Statistics
Matches: 253, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
101 26 0.10
102 227 0.90
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACAGTACTAC
ACACGTGACGAAAGCTTCTCAGTACACATTGTAGCCA
Found at i:25674747 original size:9 final size:9
Alignment explanation
Indices: 25674733--25674779 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
25674723 TTATTTTTGG
25674733 ATTACCCGA
1 ATTACCCGA
25674742 ATTACCCGA
1 ATTACCCGA
*
25674751 ATTAACCGA
1 ATTACCCGA
25674760 ATTACCCGA
1 ATTACCCGA
*
25674769 ATTAACCGA
1 ATTACCCGA
25674778 AT
1 AT
25674780 GAATCACTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (9 bp):
ATTACCCGA
Found at i:25674759 original size:18 final size:18
Alignment explanation
Indices: 25674733--25674779 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
25674723 TTATTTTTGG
*
25674733 ATTACCCGAATTACCCGA
1 ATTAACCGAATTACCCGA
25674751 ATTAACCGAATTACCCGA
1 ATTAACCGAATTACCCGA
25674769 ATTAACCGAAT
1 ATTAACCGAAT
25674780 GAATCACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (18 bp):
ATTAACCGAATTACCCGA
Found at i:25674869 original size:6 final size:6
Alignment explanation
Indices: 25674819--25674853 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
25674809 ACTTTTAGAC
25674819 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
25674854 AATTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:25674877 original size:20 final size:20
Alignment explanation
Indices: 25674819--25674866 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
25674809 ACTTTTAGAC
25674819 TTTAGTTTTAGTTTTAG--T
1 TTTAGTTTTAGTTTTAGAAT
25674837 TTTAGTTTTAGTTTTAGAAT
1 TTTAGTTTTAGTTTTAGAAT
*
25674857 TTTATTTTTA
1 TTTAGTTTTA
25674867 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 17 0.63
20 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTAGTTTTAGAAT
Found at i:25679428 original size:50 final size:50
Alignment explanation
Indices: 25679296--25679456 Score: 207
Period size: 51 Copynumber: 3.2 Consensus size: 50
25679286 ACTTTTATCA
* * *
25679296 TTCGATACGCGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAACTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAACTT
* * * *
25679347 TTCGGTACACATAGTAGCCTTCACATGGTACTACACACGTGATC-AAGTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAACTT
* *
25679396 TTACGGTTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA-CTT
25679448 TTCGGTACA
1 TTCGGTACA
25679457 TATAACAGCC
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
49 6 0.06
50 37 0.40
51 46 0.49
52 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAACTT
Found at i:25679476 original size:20 final size:20
Alignment explanation
Indices: 25679451--25679490 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25679441 AAAGCTTTTC
25679451 GGTACATATAACAGCCTTCA
1 GGTACATATAACAGCCTTCA
25679471 GGTACATATAACAGCCTTCA
1 GGTACATATAACAGCCTTCA
25679491 CTTAGTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
GGTACATATAACAGCCTTCA
Found at i:25679524 original size:32 final size:32
Alignment explanation
Indices: 25679488--25679553 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
25679478 ATAACAGCCT
25679488 TCACTTAGTACTACACATGTGACCATCATTTA
1 TCACTTAGTACTACACATGTGACCATCATTTA
25679520 TCACTTAGTACTACACATGTGACCATCATTTA
1 TCACTTAGTACTACACATGTGACCATCATTTA
25679552 TC
1 TC
25679554 GTTTCACGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (32 bp):
TCACTTAGTACTACACATGTGACCATCATTTA
Found at i:25681232 original size:83 final size:81
Alignment explanation
Indices: 25681087--25681318 Score: 254
Period size: 83 Copynumber: 2.8 Consensus size: 81
25681077 ATTAGCGGTG
* * ** * * * *
25681087 CTTTCT-AAAAACGCCGCTAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAATGTCGTTAAAGG
1 CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCT-AAAAACGCCGCTAAAGC
25681151 CCAGAGCAA-TAGCAACA
65 CCAGAG-AATTAGCAACA
* *
25681168 CTTTCTTCAAAAACGCCGCTAATGCCCAGAGCATTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAG
1 CTTTC-TAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCTAAAAA-CGCCGCTAAAG
** *
25681233 CCCAGAGAATTAGCGGCG
64 CCCAGAGAATTAGCAACA
* *
25681251 CTTTCTAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGTCGCTTCTTC-AAAAACGCCGCTAAAG
1 CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCG-TT-TTCTAAAAACGCCGCTAAAG
25681315 CCCA
64 CCCA
25681319 AATCATTAGC
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
81 5 0.04
82 55 0.43
83 66 0.51
84 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (81 bp):
CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCTAAAAACGCCGCTAAAGCC
CAGAGAATTAGCAACA
Found at i:25681376 original size:123 final size:123
Alignment explanation
Indices: 25681074--25681357 Score: 401
Period size: 123 Copynumber: 2.3 Consensus size: 123
25681064 AAAGCCCCTG
* * *
25681074 AGCATTAGCGGTGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAA
1 AGCATTAGCGGCGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAA
* * * * * * *
25681139 TGTCGTTAAAGGCCAGAGCAATAGCAACACTTTCTTCAAAAACGCCGCTAATGCCCAG
66 TGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
*
25681197 AGCATTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAA
1 AGCATTAGCGGCGCTTTCTAAAAA-CGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAA
* *
25681262 ATGCCGCTAAAGCCCAGAGCATTAGCGTCGC-TTCTTCAAAAACGCCGCTAAAGCCCAA
65 ATGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
*
25681320 ATCATTAGCGGCGCATCTTC-AAAAACGCCGCTAAAGCC
1 AGCATTAGCGGCGC-T-TTCTAAAAACGCCGCTAAAGCC
25681358 TAAATCATTA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
123 72 0.50
124 68 0.48
125 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (123 bp):
AGCATTAGCGGCGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAA
TGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
Found at i:25681426 original size:41 final size:41
Alignment explanation
Indices: 25681063--25681426 Score: 329
Period size: 41 Copynumber: 8.9 Consensus size: 41
25681053 AAGCCCCACT
* * *
25681063 TAAAGCCCCTGAGCATTAGCGGTGCTTTCT-AAAAACGCCGC
1 TAAAG-CCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * * * * * *
25681104 TAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAATGTCGT
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * ** *
25681145 TAAAGGCCAGAGCAATAGCAACACTTTCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTT-TTCAAAAACGCCGC
*
25681187 TAATGCCCAGAGCATTAGCGGCG--TTTTCTAAAAAGCGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTC-AAAAA-CGCCGC
* * * *
25681228 TAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAATGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* *
25681269 TAAAGCCCAGAGCATTAGCGTCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * *
25681310 TAAAGCCCAAATCATTAGCGGCGCATCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * * * *
25681351 TAAAGCCTAAATCATTAGCGACGCTTCTTCAAAAACGCCAC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* ** * *
25681392 TAAATCCCCCAGCATTAGCGGCACTTTTTGAAAAA
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAA
25681427 TACCGCTAGA
Statistics
Matches: 263, Mismatches: 54, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.01
40 26 0.10
41 200 0.76
42 31 0.12
43 3 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
Found at i:25691215 original size:83 final size:81
Alignment explanation
Indices: 25691070--25691301 Score: 254
Period size: 83 Copynumber: 2.8 Consensus size: 81
25691060 ATTAGCGGTG
* * ** * * * *
25691070 CTTTCT-AAAAACGCCGCTAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAATGTCGTTAAAGG
1 CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCT-AAAAACGCCGCTAAAGC
25691134 CCAGAGCAA-TAGCAACA
65 CCAGAG-AATTAGCAACA
* *
25691151 CTTTCTTCAAAAACGCCGCTAATGCCCAGAGCATTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAG
1 CTTTC-TAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCTAAAAA-CGCCGCTAAAG
** *
25691216 CCCAGAGAATTAGCGGCG
64 CCCAGAGAATTAGCAACA
* *
25691234 CTTTCTAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGTCGCTTCTTC-AAAAACGCCGCTAAAG
1 CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCG-TT-TTCTAAAAACGCCGCTAAAG
25691298 CCCA
64 CCCA
25691302 AATCATTAGC
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
81 5 0.04
82 55 0.43
83 66 0.51
84 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (81 bp):
CTTTCTAAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCGTTTTCTAAAAACGCCGCTAAAGCC
CAGAGAATTAGCAACA
Found at i:25691359 original size:123 final size:123
Alignment explanation
Indices: 25691057--25691340 Score: 401
Period size: 123 Copynumber: 2.3 Consensus size: 123
25691047 AAAGCCCCTG
* * *
25691057 AGCATTAGCGGTGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAA
1 AGCATTAGCGGCGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAA
* * * * * * *
25691122 TGTCGTTAAAGGCCAGAGCAATAGCAACACTTTCTTCAAAAACGCCGCTAATGCCCAG
66 TGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
*
25691180 AGCATTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAA
1 AGCATTAGCGGCGCTTTCTAAAAA-CGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAA
* *
25691245 ATGCCGCTAAAGCCCAGAGCATTAGCGTCGC-TTCTTCAAAAACGCCGCTAAAGCCCAA
65 ATGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
*
25691303 ATCATTAGCGGCGCATCTTC-AAAAACGCCGCTAAAGCC
1 AGCATTAGCGGCGC-T-TTCTAAAAACGCCGCTAAAGCC
25691341 TAAATCATTA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
123 72 0.50
124 68 0.48
125 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (123 bp):
AGCATTAGCGGCGCTTTCTAAAAACGCCGCTAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAA
TGCCGCTAAAGCCCAGAGCATTAGCGACACTTTCTTCAAAAACGCCGCTAAAGCCCAA
Found at i:25691409 original size:41 final size:41
Alignment explanation
Indices: 25691046--25691409 Score: 329
Period size: 41 Copynumber: 8.9 Consensus size: 41
25691036 AAGCCCCACT
* * *
25691046 TAAAGCCCCTGAGCATTAGCGGTGCTTTCT-AAAAACGCCGC
1 TAAAG-CCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * * * * * *
25691087 TAAAGCCCAGAGAATTATCGGCCCTTTCTAAAAAATGTCGT
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * ** *
25691128 TAAAGGCCAGAGCAATAGCAACACTTTCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTT-TTCAAAAACGCCGC
*
25691170 TAATGCCCAGAGCATTAGCGGCG--TTTTCTAAAAAGCGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTC-AAAAA-CGCCGC
* * * *
25691211 TAAAGCCCAGAGAATTAGCGGCGCTTTCTAAAAAATGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* *
25691252 TAAAGCCCAGAGCATTAGCGTCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * *
25691293 TAAAGCCCAAATCATTAGCGGCGCATCTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * * * *
25691334 TAAAGCCTAAATCATTAGCGACGCTTCTTCAAAAACGCCAC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* ** * *
25691375 TAAATCCCCCAGCATTAGCGGCACTTTTTGAAAAA
1 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAA
25691410 TACCGCTAGA
Statistics
Matches: 263, Mismatches: 54, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.01
40 26 0.10
41 200 0.76
42 31 0.12
43 3 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
Found at i:25693654 original size:2 final size:2
Alignment explanation
Indices: 25693647--25693675 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25693637 CATTTTGGTG
25693647 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
25693676 TTGGTTCAAA
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:25695128 original size:16 final size:17
Alignment explanation
Indices: 25695095--25695133 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
25695085 ATTTTTGTTG
25695095 AAAATAATATTAATATAT
1 AAAA-AATATTAATATAT
25695113 AAAAAATATT-ATATAT
1 AAAAAATATTAATATAT
25695129 AAAAA
1 AAAAA
25695134 GTTAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATATTAATATAT
Found at i:25695301 original size:20 final size:21
Alignment explanation
Indices: 25695262--25695301 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25695252 ATTATCATCA
*
25695262 CATGTCAAATACTAGTTTCAC
1 CATGTCAAATACTAGATTCAC
*
25695283 CATGTCAAATATTA-ATTCA
1 CATGTCAAATACTAGATTCA
25695302 AAATCATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (21 bp):
CATGTCAAATACTAGATTCAC
Found at i:25696623 original size:16 final size:17
Alignment explanation
Indices: 25696590--25696628 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
25696580 ATTTTTGTTG
25696590 AAAATAATATTAATATAT
1 AAAA-AATATTAATATAT
25696608 AAAAAATATT-ATATAT
1 AAAAAATATTAATATAT
25696624 AAAAA
1 AAAAA
25696629 GTTAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATATTAATATAT
Found at i:25703513 original size:15 final size:15
Alignment explanation
Indices: 25703478--25703506 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25703468 TGTAAGGAGG
25703478 AAGAAATACAGTGTA
1 AAGAAATACAGTGTA
25703493 AAGAAATACAGTGT
1 AAGAAATACAGTGT
25703507 GAGGAAAGGA
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:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (15 bp):
AAGAAATACAGTGTA
Found at i:25703641 original size:14 final size:14
Alignment explanation
Indices: 25703624--25703659 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
25703614 GGAGGACTGA
25703624 AGGTGGATCGGTGG
1 AGGTGGATCGGTGG
25703638 AGGTGGATCGGTGG
1 AGGTGGATCGGTGG
25703652 AGGTGGAT
1 AGGTGGAT
25703660 TGGGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.56, T:0.22
Consensus pattern (14 bp):
AGGTGGATCGGTGG
Found at i:25703783 original size:21 final size:20
Alignment explanation
Indices: 25703736--25703777 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25703726 AAATGTAGTG
*
25703736 TATTTTAATAATAAAAAATA
1 TATTTTAAAAATAAAAAATA
25703756 TATTTTAAAAATAAAAAA-A
1 TATTTTAAAAATAAAAAATA
25703775 TAT
1 TAT
25703778 GGTTTATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATTTTAAAAATAAAAAATA
Found at i:25703801 original size:9 final size:9
Alignment explanation
Indices: 25703787--25703826 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
25703777 TGGTTTATAG
25703787 TCGAATTAT
1 TCGAATTAT
25703796 TCGAATTAT
1 TCGAATTAT
*
25703805 TCTAATTAT
1 TCGAATTAT
25703814 TCGAATTAT
1 TCGAATTAT
25703823 TCGA
1 TCGA
25703827 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (9 bp):
TCGAATTAT
Found at i:25703896 original size:14 final size:14
Alignment explanation
Indices: 25703877--25703906 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25703867 ATTTCAAATT
25703877 GATTCGATTAACTC
1 GATTCGATTAACTC
*
25703891 GATTCGTTTAACTC
1 GATTCGATTAACTC
25703905 GA
1 GA
25703907 AATTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (14 bp):
GATTCGATTAACTC
Found at i:25704598 original size:24 final size:24
Alignment explanation
Indices: 25704571--25704633 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
25704561 ACTCTCATGC
** *
25704571 TCATCTTTGTCTCCACTGTCGTCT
1 TCATCTTTGTCTCCACCCTCGACT
* **
25704595 TCATATTCATCTCCACCCTCGACT
1 TCATCTTTGTCTCCACCCTCGACT
25704619 TCATCTTTGTCTCCA
1 TCATCTTTGTCTCCA
25704634 TCGCATTCCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.14, C:0.37, G:0.08, T:0.41
Consensus pattern (24 bp):
TCATCTTTGTCTCCACCCTCGACT
Found at i:25706833 original size:18 final size:17
Alignment explanation
Indices: 25706808--25706843 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
25706798 ACTTGACAAA
*
25706808 ATTAAAAGAGTTGAGAG
1 ATTAAAAGAATTGAGAG
25706825 ATTAGAAAGAATTGAGAG
1 ATTA-AAAGAATTGAGAG
25706843 A
1 A
25706844 GTTGGGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (17 bp):
ATTAAAAGAATTGAGAG
Found at i:25707276 original size:37 final size:37
Alignment explanation
Indices: 25707225--25707349 Score: 154
Period size: 37 Copynumber: 3.4 Consensus size: 37
25707215 AAAATAATAT
25707225 ATAATAAATAATGAAACGTATGGCTTGAAAGTAATTA
1 ATAATAAATAATGAAACGTATGGCTTGAAAGTAATTA
* *
25707262 ATAAT-AATACATGAAA--TATGTG-TTAAAAATAA-TA
1 ATAATAAATA-ATGAAACGTATG-GCTTGAAAGTAATTA
25707296 TATAATAAATAATGAAACGTATGGCTTGAAAGTAATTA
1 -ATAATAAATAATGAAACGTATGGCTTGAAAGTAATTA
25707334 ATAAT-AATACATGAAA
1 ATAATAAATA-ATGAAA
25707350 TGTGTACGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
34 2 0.03
35 23 0.31
36 14 0.19
37 34 0.45
38 2 0.03
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (37 bp):
ATAATAAATAATGAAACGTATGGCTTGAAAGTAATTA
Found at i:25707289 original size:72 final size:73
Alignment explanation
Indices: 25707202--25707350 Score: 291
Period size: 72 Copynumber: 2.1 Consensus size: 73
25707192 TATAAAATAT
25707202 AAATATGTGTTTAAAAATAATATATAATAAATAATGAAACGTATGGCTTGAAAGTAATTAATAAT
1 AAATATGTGTTTAAAAATAATATATAATAAATAATGAAACGTATGGCTTGAAAGTAATTAATAAT
25707267 AATACATG
66 AATACATG
25707275 AAATATGTG-TTAAAAATAATATATAATAAATAATGAAACGTATGGCTTGAAAGTAATTAATAAT
1 AAATATGTGTTTAAAAATAATATATAATAAATAATGAAACGTATGGCTTGAAAGTAATTAATAAT
25707339 AATACATG
66 AATACATG
25707347 AAAT
1 AAAT
25707351 GTGTACGATA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 67 0.88
73 9 0.12
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (73 bp):
AAATATGTGTTTAAAAATAATATATAATAAATAATGAAACGTATGGCTTGAAAGTAATTAATAAT
AATACATG
Found at i:25707311 original size:35 final size:36
Alignment explanation
Indices: 25707202--25707350 Score: 132
Period size: 37 Copynumber: 4.1 Consensus size: 36
25707192 TATAAAATAT
*
25707202 AAATATGTGTTTAAAAATAATATATAATAAATAATG
1 AAATATGTGCTTAAAAATAATATATAATAAATAATG
* *
25707238 AAACGTATG-GCTTGAAAGTAAT-TAATAAT-AATACATG
1 AAA--TATGTGCTTAAAAATAATAT-ATAATAAATA-ATG
25707275 AAATATGTG-TTAAAAATAATATATAATAAATAATG
1 AAATATGTGCTTAAAAATAATATATAATAAATAATG
* *
25707310 AAACGTATG-GCTTGAAAGTAAT-TAATAAT-AATACATG
1 AAA--TATGTGCTTAAAAATAATAT-ATAATAAATA-ATG
25707347 AAAT
1 AAAT
25707351 GTGTACGATA
Statistics
Matches: 94, Mismatches: 7, Indels: 25
0.75 0.06 0.20
Matches are distributed among these distances:
35 25 0.27
36 20 0.21
37 45 0.48
38 4 0.04
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (36 bp):
AAATATGTGCTTAAAAATAATATATAATAAATAATG
Found at i:25712568 original size:6 final size:6
Alignment explanation
Indices: 25712549--25712633 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
25712539 AAGGCCTTGC
* *
25712549 TTTCTT TCTTCTT TTTCTT TTTCTT TTTCTT TCTT-TCT TTCCTA TTTCGTT
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT T-TTCT-T TTTCTT TTTC-TT
* * *
25712600 TTGCTT TGTTCCTT TTTCTA TTTCTA TTTCTT TT
1 TTTCTT T-TT-CTT TTTCTT TTTCTT TTTCTT TT
25712634 ATTTATTTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
6 42 0.66
7 18 0.28
8 4 0.06
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:25714773 original size:23 final size:23
Alignment explanation
Indices: 25714733--25714816 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
25714723 TTCCAGTGTT
* *
25714733 CATGTTCATTTAAC-TTAATCGAG
1 CATGTTCA-TGAACATTAATCGAA
* *
25714756 CATGTTTATGAACATTAAACGAA
1 CATGTTCATGAACATTAATCGAA
* *
25714779 AATGTTCATGAACATATAATTGAA
1 CATGTTCATGAACAT-TAATCGAA
*
25714803 CATGTTCACGAACA
1 CATGTTCATGAACA
25714817 ATGTTAATCA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 4 0.08
23 27 0.55
24 18 0.37
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (23 bp):
CATGTTCATGAACATTAATCGAA
Found at i:25719902 original size:23 final size:24
Alignment explanation
Indices: 25719853--25719903 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
25719843 GAATTAAACA
*
25719853 TTTTCTTTCCTGTCTCTTTTCATT
1 TTTTCTTTCCTGTCTCTTTTCAAT
* * *
25719877 TTTTCTTT-CTTTTTCTTTTTAAT
1 TTTTCTTTCCTGTCTCTTTTCAAT
25719900 TTTT
1 TTTT
25719904 ATTCTTCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTCTTTCCTGTCTCTTTTCAAT
Found at i:25725734 original size:16 final size:16
Alignment explanation
Indices: 25725713--25725743 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25725703 AAATATCAAG
25725713 AAAATTATAAATATAC
1 AAAATTATAAATATAC
25725729 AAAATTATAAATATA
1 AAAATTATAAATATA
25725744 TTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTATAAATATAC
Found at i:25731636 original size:17 final size:18
Alignment explanation
Indices: 25731611--25731646 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25731601 AACAAATGAT
25731611 ATCACAAAAA-TATAAAA
1 ATCACAAAAATTATAAAA
*
25731628 ATCAGAAAAATTATAAAA
1 ATCACAAAAATTATAAAA
25731646 A
1 A
25731647 ATANNNNNNN
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (18 bp):
ATCACAAAAATTATAAAA
Found at i:25731854 original size:10 final size:10
Alignment explanation
Indices: 25731830--25731870 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
25731820 NNNTTTTTTA
25731830 TAAAAAATAT
1 TAAAAAATAT
25731840 T---AAATAT
1 TAAAAAATAT
25731847 TAAAAAATAT
1 TAAAAAATAT
25731857 T-AAAAATAT
1 TAAAAAATAT
25731866 TAAAA
1 TAAAA
25731871 TTGATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
7 7 0.26
9 9 0.33
10 11 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:25731863 original size:9 final size:9
Alignment explanation
Indices: 25731832--25731963 Score: 65
Period size: 9 Copynumber: 14.3 Consensus size: 9
25731822 NTTTTTTATA
25731832 AAAAATATT
1 AAAAATATT
25731841 --AAATATT
1 AAAAATATT
25731848 AAAAAATATT
1 -AAAAATATT
25731858 AAAAATATT
1 AAAAATATT
*
25731867 AAAATTGATAT
1 AAAAAT-AT-T
**
25731878 AAACTTATT
1 AAAAATATT
* *
25731887 ATAAAT-TA
1 AAAAATATT
25731895 AAAAATATT
1 AAAAATATT
* * *
25731904 AGAATTGTT
1 AAAAATATT
*
25731913 AAAAA-ATA
1 AAAAATATT
*
25731921 AAAAAAATTGT
1 AAAAATA-T-T
*
25731932 AAAAAAATT
1 AAAAATATT
*
25731941 AAAAAAATTT
1 AAAAATA-TT
25731951 AAAAATATGT
1 AAAAATAT-T
25731961 AAA
1 AAA
25731964 CTTATAAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.07
8 12 0.13
9 38 0.40
10 25 0.26
11 13 0.14
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:25731871 original size:17 final size:18
Alignment explanation
Indices: 25731830--25731870 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
25731820 NNNTTTTTTA
25731830 TAAAAAATATT-AAATAT
1 TAAAAAATATTAAAATAT
25731847 TAAAAAATATTAAAAATAT
1 TAAAAAATATT-AAAATAT
25731866 TAAAA
1 TAAAA
25731871 TTGATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAAATATTAAAATAT
Found at i:25731963 original size:10 final size:10
Alignment explanation
Indices: 25731921--25731963 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
25731911 TTAAAAAATA
25731921 AAAAAAATTGT
1 AAAAAAA-TGT
25731932 AAAAAAAT-T
1 AAAAAAATGT
*
25731941 AAAAAAATTT
1 AAAAAAATGT
*
25731951 AAAAATATGT
1 AAAAAAATGT
25731961 AAA
1 AAA
25731964 CTTATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 9 0.31
10 13 0.45
11 7 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (10 bp):
AAAAAAATGT
Found at i:25731963 original size:20 final size:20
Alignment explanation
Indices: 25731906--25731955 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
25731896 AAAATATTAG
* *
25731906 AATTGTTAAAAAATAAAAAA
1 AATTGTAAAAAAATTAAAAA
25731926 AATTGTAAAAAAATTAAAAA
1 AATTGTAAAAAAATTAAAAA
25731946 AATT-TAAAAA
1 AATTGTAAAAA
25731956 TATGTAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
AATTGTAAAAAAATTAAAAA
Found at i:25734204 original size:149 final size:149
Alignment explanation
Indices: 25733918--25734205 Score: 391
Period size: 150 Copynumber: 1.9 Consensus size: 149
25733908 CTTTCTAAGA
* *
25733918 AAGAAAAGTCGGTGGGTAAGGCTTTGGGACTTGGTTCAAGCCTAAAGGGTGTCGAAACCAAGGAG
1 AAGAAAAGCCGGTGGGTAAGGCCTTGGGACTTGGTTCAAGCCTAAAGGGTGTCGAAACCAAGGAG
* * * * *
25733983 GCCGAAAGCGAGAAGAAGTCAGTGGAGTGCTTCTTATGTCATGGTCTGCATATATTACAGAAGTG
66 GCCAAAAGCGAGAAGAAGCCAGTGGAGTGCTTCTTATATCATGGTCCGCATAGATTACAGAAGTG
*
25734048 TCTGAAGAAATTCGCATTT
131 TCCGAAGAAATTCGCATTT
* * * *
25734067 AAGAAGAAGCCGGTGGGTAAGGCCTTGGTACTTGGTTCAAGCGC-AAGGGGTGTCGAAGCTAAGG
1 AAGAA-AAGCCGGTGGGTAAGGCCTTGGGACTTGGTTCAAGC-CTAAAGGGTGTCGAAACCAAGG
* * * * *
25734131 AGGCCAAAAGTGAGAA-AAGCCAGTGGAGTGCTTCTTATATCATGGTCCGCATAGGTTGCGGAGG
64 AGGCCAAAAGCGAGAAGAAGCCAGTGGAGTGCTTCTTATATCATGGTCCGCATAGATTACAGAAG
25734195 TGTCCGAAGAA
129 TGTCCGAAGAA
25734206 GTTTGTCATC
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
149 55 0.46
150 64 0.53
151 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.23
Consensus pattern (149 bp):
AAGAAAAGCCGGTGGGTAAGGCCTTGGGACTTGGTTCAAGCCTAAAGGGTGTCGAAACCAAGGAG
GCCAAAAGCGAGAAGAAGCCAGTGGAGTGCTTCTTATATCATGGTCCGCATAGATTACAGAAGTG
TCCGAAGAAATTCGCATTT
Found at i:25735837 original size:56 final size:56
Alignment explanation
Indices: 25735751--25735866 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
25735741 CATCACCAAG
25735751 TTAGAGAGGATCATCCATTCATTTATTATTATTCTAAAGGCAAATGAGAGACATTC
1 TTAGAGAGGATCATCCATTCATTTATTATTATTCTAAAGGCAAATGAGAGACATTC
*
25735807 TTAGAGAGGATCATCCATTCATTTATTATTATTCTGAAGGCAAATGAGAGACATTC
1 TTAGAGAGGATCATCCATTCATTTATTATTATTCTAAAGGCAAATGAGAGACATTC
25735863 TTAG
1 TTAG
25735867 GTAGTATAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (56 bp):
TTAGAGAGGATCATCCATTCATTTATTATTATTCTAAAGGCAAATGAGAGACATTC
Found at i:25737671 original size:12 final size:12
Alignment explanation
Indices: 25737656--25737686 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25737646 GATGAAAATG
25737656 TAAATAAAGAAA
1 TAAATAAAGAAA
25737668 TAAATAAAGAAA
1 TAAATAAAGAAA
*
25737680 TGAATAA
1 TAAATAA
25737687 GATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:25737718 original size:6 final size:6
Alignment explanation
Indices: 25737707--25737740 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
25737697 AAGGTAAAAG
25737707 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
25737741 AAAGTGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:25737810 original size:12 final size:12
Alignment explanation
Indices: 25737776--25737815 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
25737766 TGCAAGTATG
25737776 TATATATGAAAAA
1 TATATAT-AAAAA
25737789 T-TA-A-AAAAA
1 TATATATAAAAA
25737798 TATATATAAAAA
1 TATATATAAAAA
25737810 TATATA
1 TATATA
25737816 AGGTATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 13 0.54
13 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TATATATAAAAA
Found at i:25742871 original size:34 final size:32
Alignment explanation
Indices: 25742833--25742954 Score: 129
Period size: 34 Copynumber: 3.6 Consensus size: 32
25742823 AATAAATCAG
25742833 GGTTTAGTGTTTTTTTAAAAAATTAATTAAATTA
1 GGTTTAG-G-TTTTTTAAAAAATTAATTAAATTA
** *
25742867 GGTTTTAGGAGTTTTAAATTAATTAATTAAATTAA
1 GG-TTTAGGTTTTTTAAA-AAATTAATTAAATT-A
25742902 GGTTTAGAG-TTTTTAAGAAAATTAATTAAATTA
1 GGTTTAG-GTTTTTTAA-AAAATTAATTAAATTA
*
25742935 GGGTTTAGTTTTTTTAAAAA
1 -GGTTTAGGTTTTTTAAAAA
25742955 TAAATTTGTG
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
33 11 0.15
34 54 0.72
35 10 0.13
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (32 bp):
GGTTTAGGTTTTTTAAAAAATTAATTAAATTA
Found at i:25743170 original size:125 final size:124
Alignment explanation
Indices: 25743031--25743406 Score: 452
Period size: 125 Copynumber: 3.0 Consensus size: 124
25743021 AGTAGTTTTA
* * * * * * * *
25743031 GAAAAATTAATTTTGAGGAGACGATTCTGAAAAGATAATGTCAAAAATGCTTCAAGTAAGATGCA
1 GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* *
25743096 CTATCAGCAAAATTACTACAAAAGTTCCCACGTGGACACTCTTTTTCTACAATAGTTCCT
66 CTGTCAGCAAAATTACTA-AAAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCCT
*
25743156 GAAAAAATAATTTTGAGAATACGGTTCTGAAAAAATAGT-TGCAAAAACGCTTCAAGCAGGATGC
1 GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGT-CAAAAACGCTTCAAGCAGGATGC
* * * * * *
25743220 ACTGTTAGCAAAATTACTGAAAAAAAACTCTCACGTGGACGCTCTTTTGCTACAATAGTTCTT
65 ACTGTCAGCAAAATTACT---AAAAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCCT
* *
25743283 G-AAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAAACACTTCAAGCAGGTTGCA
1 GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * ** *
25743346 TTGTCAGCAAAATTACCGAAAAAGCTCCCACATGGACTTTTTTTTTCTACAATAGTTCCT
66 CTGTCAGCAAAATTA-CTAAAAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCCT
25743406 G
1 G
25743407 TTTGGCCTTA
Statistics
Matches: 214, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
123 35 0.16
124 1 0.00
125 114 0.53
126 27 0.13
127 36 0.17
128 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (124 bp):
GAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
CTGTCAGCAAAATTACTAAAAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTCCT
Found at i:25746693 original size:21 final size:20
Alignment explanation
Indices: 25746668--25746742 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 20
25746658 CTTCTGGCAG
*
25746668 GGGTTGTGGTTGCTCCGACGA
1 GGGTTATGGTTGCTCCGAC-A
25746689 GGGTTATGGTTGCTCCGACAA
1 GGGTTATGGTTGCTCCGAC-A
25746710 GGGTTATGGTTGCTCCGACA
1 GGGTTATGGTTGCTCCGACA
*
25746730 GGGGTTGTGGTTG
1 -GGGTTATGGTTG
25746743 TTCTGGTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 1 0.02
21 49 0.98
ACGTcount: A:0.12, C:0.16, G:0.41, T:0.31
Consensus pattern (20 bp):
GGGTTATGGTTGCTCCGACA
Found at i:25747020 original size:18 final size:18
Alignment explanation
Indices: 25746997--25747033 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25746987 GGAAAATGAA
*
25746997 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
25747015 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
25747033 A
1 A
25747034 TGCATCTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:25760546 original size:27 final size:27
Alignment explanation
Indices: 25760492--25760554 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25760482 GTTAAGTCAG
*
25760492 TTAAATATA-TTTATATTTTCATTATT
1 TTAAATATATTTTATATTATCATTATT
25760518 TTAAATATATTTTATAATATAT-ATT-TT
1 TTAAATATATTTTAT-AT-TATCATTATT
25760545 TTAAATATAT
1 TTAAATATAT
25760555 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 9 0.27
27 17 0.52
28 5 0.15
29 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAAATATATTTTATATTATCATTATT
Found at i:25760551 original size:15 final size:14
Alignment explanation
Indices: 25760522--25760564 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
25760512 ATTATTTTAA
25760522 ATATATTTTATAAT
1 ATATATTTTATAAT
*
25760536 ATATATTTTTTAAAT
1 ATATATTTTAT-AAT
25760551 ATATATTTTA-AAT
1 ATATATTTTATAAT
25760564 A
1 A
25760565 AGTAGGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 4 0.15
14 10 0.38
15 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTTATAAT
Found at i:25760554 original size:13 final size:13
Alignment explanation
Indices: 25760516--25760564 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
25760506 ATTTTCATTA
25760516 TTTTAAATATATT
1 TTTTAAATATATT
*
25760529 TTATAATATATATT
1 TTTTAA-ATATATT
*
25760543 TTTTAAATATATA
1 TTTTAAATATATT
25760556 TTTTAAATA
1 TTTTAAATA
25760565 AGTAGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 20 0.62
14 12 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTAAATATATT
Found at i:25768709 original size:15 final size:16
Alignment explanation
Indices: 25768689--25768729 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
25768679 TACACATCCA
25768689 GAGCAAGAA-GAAGAG
1 GAGCAAGAAGGAAGAG
25768704 GAGCAAGAAGGAAGA-
1 GAGCAAGAAGGAAGAG
25768719 -AG-AAGAAGGAA
1 GAGCAAGAAGGAA
25768730 TTGAGGATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 9 0.36
16 5 0.20
ACGTcount: A:0.56, C:0.05, G:0.39, T:0.00
Consensus pattern (16 bp):
GAGCAAGAAGGAAGAG
Found at i:25772640 original size:23 final size:19
Alignment explanation
Indices: 25772600--25772637 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25772590 AAAGTTAAAA
25772600 ACAAAATTGATTACGGTGG
1 ACAAAATTGATTACGGTGG
25772619 ACAAAATTGATTACGGTGG
1 ACAAAATTGATTACGGTGG
25772638 GTGACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (19 bp):
ACAAAATTGATTACGGTGG
Found at i:25776044 original size:122 final size:123
Alignment explanation
Indices: 25775817--25776061 Score: 440
Period size: 122 Copynumber: 2.0 Consensus size: 123
25775807 TGTTGTCAAT
**
25775817 GTTGAATAATTTTAGTATTAGGAATTAAATTGTAGTATTGTAGTATAATTTTGAGTAATAGGGAC
1 GTTGAATAATTTTAGTATTAGGAATTAAATTGTAGTATAATAGTATAATTTTGAGTAATAGGGAC
25775882 TAAATTGTCAAAAATTCAAAATTTAGGGATTTAAGTGAAAATAGGGAGTTAAATTTAG
66 TAAATTGTCAAAAATTCAAAATTTAGGGATTTAAGTGAAAATAGGGAGTTAAATTTAG
*
25775940 GTTGAATAA-TTTAGTATTAGGAATTAAATTGTAGTATAAATGGTA-AATTTTGAGTAATAGGGA
1 GTTGAATAATTTTAGTATTAGGAATTAAATTGTAGTAT-AATAGTATAATTTTGAGTAATAGGGA
25776003 CTAAATTGTCAAAAATTCAAAATTTAGGGATTTAAGTGAAAATAGGGAGTTAAATTTAG
65 CTAAATTGTCAAAAATTCAAAATTTAGGGATTTAAGTGAAAATAGGGAGTTAAATTTAG
25776062 TTTAAAGTGG
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
122 105 0.89
123 13 0.11
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (123 bp):
GTTGAATAATTTTAGTATTAGGAATTAAATTGTAGTATAATAGTATAATTTTGAGTAATAGGGAC
TAAATTGTCAAAAATTCAAAATTTAGGGATTTAAGTGAAAATAGGGAGTTAAATTTAG
Found at i:25776114 original size:20 final size:20
Alignment explanation
Indices: 25776078--25776115 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25776068 GTGGAATTTG
*
25776078 TGTGAAAATATAGAATTAAA
1 TGTGAAAATATAAAATTAAA
25776098 TGTGAAGAATA-AAAATTA
1 TGTGAA-AATATAAAATTA
25776116 GTCTCGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAA
Found at i:25779919 original size:16 final size:16
Alignment explanation
Indices: 25779900--25779934 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25779890 CTTGTAAAAA
25779900 AAATCAATTTATTATC
1 AAATCAATTTATTATC
* *
25779916 AAATGAATTTATTTTC
1 AAATCAATTTATTATC
25779932 AAA
1 AAA
25779935 ACAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (16 bp):
AAATCAATTTATTATC
Found at i:25782127 original size:245 final size:245
Alignment explanation
Indices: 25781694--25782154 Score: 661
Period size: 245 Copynumber: 1.9 Consensus size: 245
25781684 TCCGTATATA
* * *
25781694 CATATGGAAACTATAAATTTTGAACACAAATACGTGTTTAAAAATAACATACAATAAATAACGAA
1 CATATGGAAACCAAAAATTTAGAACACAAATACGTGTTTAAAAATAACATACAATAAATAACGAA
* *
25781759 ACTTATAGTTTGAAACCAATTAATAATAACACATGAAATATGTACATTATTAAAATGAAGAAATT
66 ACTTATAGTTTGAAACCAATTAATAATAACACATGAAATATGTACACTATTAAAATGAAAAAATT
* * * * * *
25781824 GGATTAAGTTGTTTATCACGGTGTTGTTATCAATCTTGAATCGGGGTCAAGCTAACTTGTGACAC
131 AGATTAAATTGTTTATCAAGGTATTGTCATCAATCTTGAATCGAGGTCAAGCTAACTTGTGACAC
25781889 CAACTCAATCAAATACATTATTAATATAGAAATACGATCACACATGTATG
196 CAACTCAATCAAATACATTATTAATATAGAAATACGATCACACATGTATG
* ** * *
25781939 CATATGGAAACCAAAAATTTAGAACATAAATGTGTGTTTAAGAATAACATACAATAAATAATGAA
1 CATATGGAAACCAAAAATTTAGAACACAAATACGTGTTTAAAAATAACATACAATAAATAACGAA
* * * **
25782004 ACTTATGGTTTGAAACTAATTGATAATAACACATGAAATATGTATGCTATTAAAATGAAAAAATT
66 ACTTATAGTTTGAAACCAATTAATAATAACACATGAAATATGTACACTATTAAAATGAAAAAATT
* * * * * * * *
25782069 AGATTAAATTGTTTGTCAATGTATTGTCATTAATCTTGAGTCGATGTCGAGTTAACTTGTGACGC
131 AGATTAAATTGTTTATCAAGGTATTGTCATCAATCTTGAATCGAGGTCAAGCTAACTTGTGACAC
25782134 CAACTCAATCAAATACATTAT
196 CAACTCAATCAAATACATTAT
25782155 AGAGTGGATA
Statistics
Matches: 187, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
245 187 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (245 bp):
CATATGGAAACCAAAAATTTAGAACACAAATACGTGTTTAAAAATAACATACAATAAATAACGAA
ACTTATAGTTTGAAACCAATTAATAATAACACATGAAATATGTACACTATTAAAATGAAAAAATT
AGATTAAATTGTTTATCAAGGTATTGTCATCAATCTTGAATCGAGGTCAAGCTAACTTGTGACAC
CAACTCAATCAAATACATTATTAATATAGAAATACGATCACACATGTATG
Found at i:25789016 original size:24 final size:24
Alignment explanation
Indices: 25788989--25789040 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25788979 TTTGTAGGTC
* *
25788989 AAATAAATAATTCTAATAAATGCT
1 AAATAAATAATACTAATAAATACT
* *
25789013 AAATATATTATACTAATAAATACT
1 AAATAAATAATACTAATAAATACT
25789037 AAAT
1 AAAT
25789041 TTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATAATACTAATAAATACT
Found at i:25797816 original size:20 final size:21
Alignment explanation
Indices: 25797791--25797830 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25797781 AACCATTATA
25797791 ATAAA-TTACAACT-TCAACTT
1 ATAAATTTA-AACTATCAACTT
25797811 ATAAATTTAAACTATCAACT
1 ATAAATTTAAACTATCAACT
25797831 CAAAATAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATTTAAACTATCAACTT
Found at i:25798567 original size:2 final size:2
Alignment explanation
Indices: 25798555--25798588 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
25798545 CTGATTCTCA
*
25798555 AT AT GT 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
25798589 CATCTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25800146 original size:3 final size:3
Alignment explanation
Indices: 25800138--25800194 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
25800128 CATTAACATT
25800138 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25800186 TTA TTA TTA
1 TTA TTA TTA
25800195 CTTTAACTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25812089 original size:23 final size:23
Alignment explanation
Indices: 25812046--25812276 Score: 158
Period size: 23 Copynumber: 9.9 Consensus size: 23
25812036 ACCGAATAGG
* * *
25812046 TGATGCTTAAATGCTGCCCAATT
1 TGATGCATATATGCTGTCCAATT
*
25812069 TGATGCATATATTCTGTCCAATTT
1 TGATGCATATATGCTGTCCAA-TT
* * *
25812093 TGATGCTTAAATGTTGTCCAATT
1 TGATGCATATATGCTGTCCAATT
* * *
25812116 TGTTGTATATATGCTGCCCAATT
1 TGATGCATATATGCTGTCCAATT
*
25812139 TGTTGCATATATGCTGTCCAATTT
1 TGATGCATATATGCTGTCCAA-TT
* * **
25812163 TGATGCTTAAATGCTACCCAATT
1 TGATGCATATATGCTGTCCAATT
* *
25812186 TGTTGTATATATGCTGTCCAATTT
1 TGATGCATATATGCTGTCCAA-TT
* * * * *
25812210 TGGTGTAAAAATGCTG-CTCAAAT
1 TGATGCATATATGCTGTC-CAATT
* * * *
25812233 TGTTGTATATATGCTGCCCAAAT
1 TGATGCATATATGCTGTCCAATT
* * *
25812256 TGTTGTATTTATGCTGTCCAA
1 TGATGCATATATGCTGTCCAA
25812277 ATTTTGGTGT
Statistics
Matches: 167, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
23 111 0.66
24 56 0.34
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (23 bp):
TGATGCATATATGCTGTCCAATT
Found at i:25812099 original size:47 final size:46
Alignment explanation
Indices: 25812046--25812209 Score: 168
Period size: 47 Copynumber: 3.5 Consensus size: 46
25812036 ACCGAATAGG
* * *
25812046 TGATGCTTAAATGCTGCCCAATTTGATGCATATATTCTGTCCAATTT
1 TGATGCTTAAATGCTGTCCAATTTGATGCATATATGCTGCCCAA-TT
* * *
25812093 TGATGCTTAAATGTTGTCCAATTTGTTGTATATATGCTGCCCAATT
1 TGATGCTTAAATGCTGTCCAATTTGATGCATATATGCTGCCCAATT
* * * * * *
25812139 TGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATT
1 TGATGCTTAAATGCTGTCCAA-TTTGATGCATATATGCTGCCCAATT
* *
25812186 TGTTG-TATATATGCTGTCCAATTT
1 TGATGCT-TAAATGCTGTCCAATTT
25812210 TGGTGTAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
46 22 0.22
47 77 0.78
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (46 bp):
TGATGCTTAAATGCTGTCCAATTTGATGCATATATGCTGCCCAATT
Found at i:25812169 original size:70 final size:70
Alignment explanation
Indices: 25812056--25812209 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
25812046 TGATGCTTAA
* * **
25812056 ATGCTGCCCAATTTGATGCATATATTCTGTCCAATTTTGATGCTTAAATGTTGTCCAATTTGTTG
1 ATGCTGCCCAATTTGATGCATATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTG
25812121 TATAT
66 TATAT
*
25812126 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTG
1 ATGCTGCCCAATTTGATGCATATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTG
25812191 TATAT
66 TATAT
*
25812196 ATGCTGTCCAATTT
1 ATGCTGCCCAATTT
25812210 TGGTGTAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (70 bp):
ATGCTGCCCAATTTGATGCATATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTG
TATAT
Found at i:25812210 original size:47 final size:47
Alignment explanation
Indices: 25812107--25812253 Score: 181
Period size: 47 Copynumber: 3.1 Consensus size: 47
25812097 GCTTAAATGT
* * * *
25812107 TGTCCAA-TTTGTTGTATATATGCTGCCCAATTTGTTGCATATATGC
1 TGTCCAATTTTGATGTAAAAATGCTGCCCAATTTGTTGTATATATGC
* *
25812153 TGTCCAATTTTGATGCT-TAAATGCTACCCAATTTGTTGTATATATGC
1 TGTCCAATTTTGATG-TAAAAATGCTGCCCAATTTGTTGTATATATGC
* * *
25812200 TGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTGTATATATGC
1 TGTCCAATTTTGATGTAAAAATGCTGCCCAATTTGTTGTATATATGC
*
25812247 TGCCCAA
1 TGTCCAA
25812254 ATTGTTGTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
46 8 0.09
47 79 0.90
48 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (47 bp):
TGTCCAATTTTGATGTAAAAATGCTGCCCAATTTGTTGTATATATGC
Found at i:25812247 original size:70 final size:68
Alignment explanation
Indices: 25812110--25812312 Score: 219
Period size: 70 Copynumber: 2.9 Consensus size: 68
25812100 TAAATGTTGT
* * * * * * * *
25812110 CCAATTTGTTGTATATATGCTGCCCAA-TTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAA
1 CCAATTTGTTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCAAATTTTG-T--ATATA
25812174 TGCTAC
63 TGCTAC
25812180 CCAATTTGTTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTGTATATAT
1 CCAATTTGTTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTG-TCAAATT-TTGTATATAT
*
25812245 GCTGC
64 GCTAC
* * * * *
25812250 CCAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTGAAAATGCTGTCTAATTTGGTATATA
1 CCAATTTGTTGTATATATGCTGTCC-AATTTTGGTGTAAAAATGCTGTCAAATTTTGTATATA
25812313 AATGTTGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
69 8 0.07
70 63 0.55
71 34 0.30
72 7 0.06
73 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (68 bp):
CCAATTTGTTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCAAATTTTGTATATATGC
TAC
Found at i:25812297 original size:25 final size:25
Alignment explanation
Indices: 25812191--25812350 Score: 94
Period size: 23 Copynumber: 6.7 Consensus size: 25
25812181 CAATTTGTTG
* *
25812191 TATATATGCTGTCC-AATTTTGGTG
1 TATAAATGCTGTCCAAATTTTGGTA
*
25812215 TAAAAATGCTG-CTCAAATTGTT-GTA
1 TATAAATGCTGTC-CAAATT-TTGGTA
*
25812240 TAT--ATGCTGCCCAAATTGTT-GTA
1 TATAAATGCTGTCCAAATT-TTGGTA
* *
25812263 T-T-TATGCTGTCCAAATTTTGGTG
1 TATAAATGCTGTCCAAATTTTGGTA
*
25812286 TGA-AAATGCTGT-CTAA-TTTGGTA
1 T-ATAAATGCTGTCCAAATTTTGGTA
* * *
25812309 TATAAATGTTGTCCAAA-TTTGATG
1 TATAAATGCTGTCCAAATTTTGGTA
25812333 TATAAGA-GCTGTCCAAAT
1 TATAA-ATGCTGTCCAAAT
25812351 AGAGTAGATT
Statistics
Matches: 109, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
22 4 0.04
23 51 0.47
24 36 0.33
25 16 0.15
26 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (25 bp):
TATAAATGCTGTCCAAATTTTGGTA
Found at i:25815318 original size:25 final size:25
Alignment explanation
Indices: 25815290--25815387 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
25815280 ATGGCTCTCT
25815290 TGAGCTTCTCGTTATATAGCTCGTA
1 TGAGCTTCTCGTTATATAGCTCGTA
* * ** * *
25815315 TGAGGTTCCCAATATTTAGCTCGCA
1 TGAGCTTCTCGTTATATAGCTCGTA
* * *
25815340 AGAGCTTCTCGTTATTTAGCTCATA
1 TGAGCTTCTCGTTATATAGCTCGTA
25815365 TGAGCTTC-CAGTTATATAGCTCG
1 TGAGCTTCTC-GTTATATAGCTCG
25815388 GAAGAGCCTC
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (25 bp):
TGAGCTTCTCGTTATATAGCTCGTA
Found at i:25815385 original size:50 final size:50
Alignment explanation
Indices: 25815291--25815419 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
25815281 TGGCTCTCTT
* * *
25815291 GAGCTTCTCGTTATATAGCTCGTATGAGGTTCCCAATATTTAGCTCGCAA
1 GAGCTTCTCGTTATATAGCTCATATGAGCTTCCCAATATATAGCTCGCAA
* * *
25815341 GAGCTTCTCGTTATTTAGCTCATATGAGCTT-CCAGTTATATAGCTCGGAA
1 GAGCTTCTCGTTATATAGCTCATATGAGCTTCCCA-ATATATAGCTCGCAA
* * *
25815391 GAGCCTCCCGTT-TACATGCTCATATGAGC
1 GAGCTTCTCGTTATATA-GCTCATATGAGC
25815420 ATACATGTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 5 0.07
50 62 0.93
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (50 bp):
GAGCTTCTCGTTATATAGCTCATATGAGCTTCCCAATATATAGCTCGCAA
Found at i:25821269 original size:87 final size:86
Alignment explanation
Indices: 25821159--25821321 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 86
25821149 TACATGCATA
* *
25821159 AGGTTGAGTTCTCACTCTTAATGAATTCATATCCCAAGATTTTGG-TAGTCCTATTGAAACAGAC
1 AGGTTGAGTTATCACTCTTAATGAATTCATATCCC-AGAGTTTGGATAGTCCTATTGAAACAGAC
25821223 TTGATGAATTCATCGACATGTG
65 TTGATGAATTCATCGACATGTG
* * * * * *
25821245 AGGTTGAGTTTATTACTCTTAATGAGTTCATATCCCAGAGTTTGGATGGTCTTATTGAGATAGAC
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATCCCAGAGTTTGGATAGTCCTATTGAAACAGAC
25821310 TTGATGAATTCA
65 TTGATGAATTCA
25821322 CTAAATTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 16 0.24
87 51 0.76
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAGAGTTTGGATAGTCCTATTGAAACAGACT
TGATGAATTCATCGACATGTG
Found at i:25824030 original size:21 final size:19
Alignment explanation
Indices: 25823985--25824031 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
25823975 TAATTTAAGT
25823985 AAAATTTAATTATTTTATA
1 AAAATTTAATTATTTTATA
*
25824004 ATAATTATATATT-TTTTGATA
1 AAAATT-TA-ATTATTTT-ATA
25824025 AAAATTT
1 AAAATTT
25824032 TACCAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
AAAATTTAATTATTTTATA
Found at i:25825282 original size:6 final size:6
Alignment explanation
Indices: 25825274--25825303 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25825264 TTTTTGTTTT
*
25825274 ACTGCT ACTGCA ACTGCA ACTGCA ACTGCA
1 ACTGCA ACTGCA ACTGCA ACTGCA ACTGCA
25825304 GCAATACTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (6 bp):
ACTGCA
Found at i:25826524 original size:22 final size:23
Alignment explanation
Indices: 25826490--25826537 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
25826480 TTTAGAAATT
25826490 AAAAATATGTTTC-ATAAATAAA
1 AAAAATATGTTTCAATAAATAAA
*
25826512 AAAAAT-TGTTTTCAATAAATTAA
1 AAAAATATG-TTTCAATAAATAAA
25826535 AAA
1 AAA
25826538 TGAAAATACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 10 0.43
23 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAATATGTTTCAATAAATAAA
Found at i:25832835 original size:16 final size:16
Alignment explanation
Indices: 25832814--25832849 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25832804 TTTGGTTCGC
25832814 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25832830 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25832846 TGTA
1 TGTA
25832850 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25855982 original size:32 final size:32
Alignment explanation
Indices: 25855940--25856403 Score: 512
Period size: 32 Copynumber: 14.7 Consensus size: 32
25855930 TATTTTATGC
* *
25855940 ATTGCTGAATTGAATTGTAAATGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* ***
25855972 ATTGCCGAATTGAATTGTATAGGTATACACCT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
25856004 ATTGCCGAATTGAATTGTATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* ***
25856036 ATTGCCGAATTGAATTGTATAGGTATACACCT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* *
25856068 ATTGTCGAATTGAATTGTATATG--TACTTGT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
** * ****
25856098 ATTGTTGAATTGAATTGTATAGGTATAAACCT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
25856130 ATTGCCGAATTGAATTGTATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* *
25856162 ATTGCTGAATTGAATTGTATACGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* * ***
25856194 ATTCCCGAATTGAATTGTATAGGTATACACCT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
*
25856226 ATTGTCGAATTGAATTGTATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* *
25856258 ATTGCCAAATTGAATTGTATATATATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* * *
25856290 GTT----AATTGAATTGTATAGGTATGCACCTAT
1 ATTGCCGAATTGAATTGTATATGTAT--ACTTAT
**
25856320 -TT-TTGAATTGAATTGTATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
*
25856350 ATTGCCGAATTGAATTGTATATATATACTTAT
1 ATTGCCGAATTGAATTGTATATGTATACTTAT
* * *
25856382 GTTGTCGAATTGATTTGTATAT
1 ATTGCCGAATTGAATTGTATAT
25856404 TTATTTATAT
Statistics
Matches: 362, Mismatches: 61, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.05
29 2 0.01
30 35 0.10
31 2 0.01
32 306 0.85
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (32 bp):
ATTGCCGAATTGAATTGTATATGTATACTTAT
Found at i:25856232 original size:158 final size:157
Alignment explanation
Indices: 25855971--25856403 Score: 579
Period size: 158 Copynumber: 2.8 Consensus size: 157
25855961 TGTATACTTA
** *
25855971 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACTTAT
1 TATTGCCGAATTGAATTGTATAGGTATACATATATTGCTGAATTGAATTGTATATGTATACTTAT
*
25856036 ATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATG-TACTTGTAT
66 ATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGATACTTATAT
***
25856100 TGTTGAATTGAATTGTATAGGTATAAACC
131 TGCCAAATTGAATTGTATA--TATAAACC
* * *
25856129 TATTGCCGAATTGAATTGTATATGTATACTTATATTGCTGAATTGAATTGTATACGTATACTTAT
1 TATTGCCGAATTGAATTGTATAGGTATACATATATTGCTGAATTGAATTGTATATGTATACTTAT
*
25856194 ATTCCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATA
66 ATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATG-ATACTTATA
* *
25856259 TTGCCAAATTGAATTGTATATATATACT
130 TTGCCAAATTGAATTGTATATATAAACC
** * ** **
25856287 TA-TG-TTAATTGAATTGTATAGGTATGCACCTATTTTTGAATTGAATTGTATATGTATACTTAT
1 TATTGCCGAATTGAATTGTATAGGTATACATATATTGCTGAATTGAATTGTATATGTATACTTAT
* * *
25856350 ATTGCCGAATTGAATTGTATA--TATATACTTATGTTGTCGAATTGATTTGTATAT
66 ATTGCCGAATTGAATTGTATAGGTATACACCTA--TTGTCGAATTGAATTGTATAT
25856404 TTATTTATAT
Statistics
Matches: 244, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
154 8 0.03
156 89 0.36
157 2 0.01
158 121 0.50
160 24 0.10
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (157 bp):
TATTGCCGAATTGAATTGTATAGGTATACATATATTGCTGAATTGAATTGTATATGTATACTTAT
ATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGATACTTATAT
TGCCAAATTGAATTGTATATATAAACC
Found at i:25856592 original size:32 final size:32
Alignment explanation
Indices: 25856542--25856625 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
25856532 ATGACTTTCG
* * * * *
25856542 ATTGAATTGTGTAGGTATACACCTATTGTCGA
1 ATTGAATTGTATATGTATACACATATTGCCAA
* **
25856574 ATTTAATTGTATATGTATACTTATATTGCCAA
1 ATTGAATTGTATATGTATACACATATTGCCAA
*
25856606 ATTGAATTGTATATATATAC
1 ATTGAATTGTATATGTATAC
25856626 TTATGTTGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (32 bp):
ATTGAATTGTATATGTATACACATATTGCCAA
Found at i:25856601 original size:248 final size:248
Alignment explanation
Indices: 25856294--25856786 Score: 914
Period size: 248 Copynumber: 2.0 Consensus size: 248
25856284 ACTTATGTTA
* * * *
25856294 ATTGAATTGTATAGGTATGCACCTATTTTTGAATTGAATTGTATATGTATACTTATATTGCCGAA
1 ATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCCAAA
25856359 TTGAATTGTATATATATACTTATGTTGTCGAATTGATTTGTATATTTATTTATATATTGCTGATT
66 TTGAATTGTATATATATACTTATGTTGTCGAATTGATTTGTATATTTATTTATATATTGCTGATT
25856424 TGATTTGAGCATTGGATGACTGATTTCGTGCATGAATTGATTTAATTATTAAGTCGAAAGCCCCG
131 TGATTTGAGCATTGGATGACTGATTTCGTGCATGAATTGATTTAATTATTAAGTCGAAAGCCCCG
25856489 AATGAACCTTAGGAAAAGTATAGGATACTGATGTCATGAAATTATGACTTTCG
196 AATGAACCTTAGGAAAAGTATAGGATACTGATGTCATGAAATTATGACTTTCG
* *
25856542 ATTGAATTGTGTAGGTATACACCTATTGTCGAATTTAATTGTATATGTATACTTATATTGCCAAA
1 ATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCCAAA
25856607 TTGAATTGTATATATATACTTATGTTGTCGAATTGATTTGTATATTTATTTATATATTGCTGATT
66 TTGAATTGTATATATATACTTATGTTGTCGAATTGATTTGTATATTTATTTATATATTGCTGATT
25856672 TGATTTGAGCATTGGATGACTGATTTCGTGCATGAATTGATTTAATTATTAAGTCGAAAGCCCCG
131 TGATTTGAGCATTGGATGACTGATTTCGTGCATGAATTGATTTAATTATTAAGTCGAAAGCCCCG
**
25856737 AATGAACCTTAGGAAAAGTATAGGATACTGATGTCATGCCATTATGACTT
196 AATGAACCTTAGGAAAAGTATAGGATACTGATGTCATGAAATTATGACTT
25856787 CCGAGTTGTA
Statistics
Matches: 237, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
248 237 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (248 bp):
ATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTATATTGCCAAA
TTGAATTGTATATATATACTTATGTTGTCGAATTGATTTGTATATTTATTTATATATTGCTGATT
TGATTTGAGCATTGGATGACTGATTTCGTGCATGAATTGATTTAATTATTAAGTCGAAAGCCCCG
AATGAACCTTAGGAAAAGTATAGGATACTGATGTCATGAAATTATGACTTTCG
Found at i:25856626 original size:32 final size:32
Alignment explanation
Indices: 25856573--25856651 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
25856563 CCTATTGTCG
* *
25856573 AATTTAATTGTATATGTATACTTATATTGCCA
1 AATTGAATTGTATATATATACTTATATTGCCA
* * *
25856605 AATTGAATTGTATATATATACTTATGTTGTCG
1 AATTGAATTGTATATATATACTTATATTGCCA
*
25856637 AATTGATTTGTATAT
1 AATTGAATTGTATAT
25856652 TTATTTATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (32 bp):
AATTGAATTGTATATATATACTTATATTGCCA
Found at i:25863890 original size:32 final size:32
Alignment explanation
Indices: 25863846--25864352 Score: 601
Period size: 32 Copynumber: 15.8 Consensus size: 32
25863836 ATATTTTATG
*
25863846 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* ****
25863878 TATAT-CCGAATTGAATTGTATAGGTATAAACC
1 TAT-TGCCGAATTGAATTGTATATGTATACTTA
* *
25863910 TATTGGCGAATTAAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* *
25863942 TATTGCCGAATTGAATTTTATATTTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * * *
25863974 TATTGTCTAATTGAATTGTATAGGTATGCACCTA
1 TATTGCCGAATTGAATTGTATATGTAT--ACTTA
* *
25864008 T-TT-CTGAATTGCATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * ***
25864038 TATTGTCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
*
25864070 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
25864102 TATTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * *
25864134 TATTGTCGAATTGAATTGTATAGGTATAAACCTA
1 TATTGCCGAATTGAATTGTATATGTAT--ACTTA
25864168 T-TT-CCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* *
25864198 TATTGTCGAATTGAATTGTATATGTACACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* ***
25864230 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATGTATACTTA
*
25864262 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* *
25864294 TATTGCCAAATTGAATTGTATATGTATGCTTA
1 TATTGCCGAATTGAATTGTATATGTATACTTA
* * *
25864326 TGTTGTCGAATTGATTTGTATATGTAT
1 TATTGCCGAATTGAATTGTATATGTAT
25864353 TTATATATTG
Statistics
Matches: 398, Mismatches: 67, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
30 10 0.03
31 5 0.01
32 368 0.92
33 5 0.01
34 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TATTGCCGAATTGAATTGTATATGTATACTTA
Found at i:25871521 original size:15 final size:15
Alignment explanation
Indices: 25871498--25871534 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25871488 AAATAATTGT
*
25871498 AAAGGAAAAGAAAGA
1 AAAGGAAAAGAAAAA
*
25871513 AAAGTAAAAGAAAAA
1 AAAGGAAAAGAAAAA
25871528 AAAGGAA
1 AAAGGAA
25871535 GGTTAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (15 bp):
AAAGGAAAAGAAAAA
Found at i:25871525 original size:20 final size:20
Alignment explanation
Indices: 25871496--25871550 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
25871486 GTAAATAATT
*
25871496 GTAAAGGAAAAGAAAGAAAA
1 GTAAAAGAAAAGAAAGAAAA
* * *
25871516 GTAAAAGAAAAAAAAGGAAG
1 GTAAAAGAAAAGAAAGAAAA
* *
25871536 GTTAAAGAAAGGAAA
1 GTAAAAGAAAAGAAA
25871551 TGATATATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.07
Consensus pattern (20 bp):
GTAAAAGAAAAGAAAGAAAA
Found at i:25880175 original size:6 final size:6
Alignment explanation
Indices: 25880164--25880188 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25880154 TATAAAATTA
25880164 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
25880189 AATTTTTNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:25881065 original size:9 final size:9
Alignment explanation
Indices: 25881035--25881072 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
25881025 TAAAAAAATA
25881035 TTAA-AATT
1 TTAATAATT
*
25881043 TTAATATCTT
1 TTAATA-ATT
25881053 TTAATAATT
1 TTAATAATT
25881062 TTAATAATT
1 TTAATAATT
25881071 TT
1 TT
25881073 TTAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.15
9 14 0.54
10 8 0.31
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATAATT
Found at i:25881073 original size:19 final size:18
Alignment explanation
Indices: 25881035--25881077 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
25881025 TAAAAAAATA
25881035 TTAAAATTTTAATATCTT
1 TTAAAATTTTAATATCTT
*
25881053 TTAATAATTTTAATAATTTT
1 TTAA-AATTTTAAT-ATCTT
25881073 TTAAA
1 TTAAA
25881078 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAATTTTAATATCTT
Found at i:25881094 original size:21 final size:23
Alignment explanation
Indices: 25881060--25881101 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
25881050 CTTTTAATAA
*
25881060 TTTTAATAATTTTTTAAATTATT
1 TTTTAATAATTTTTAAAATTATT
25881083 TTTTAA-AA-TTTTAAAATTA
1 TTTTAATAATTTTTAAAATTA
25881102 ATTAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATAATTTTTAAAATTATT
Found at i:25885915 original size:18 final size:18
Alignment explanation
Indices: 25885892--25885930 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25885882 GGTATTAAAA
*
25885892 AAACATAAAGAGGAACAT
1 AAACATAAAGAGAAACAT
25885910 AAACATAAAGAGAAACAT
1 AAACATAAAGAGAAACAT
25885928 AAA
1 AAA
25885931 ACCTAAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (18 bp):
AAACATAAAGAGAAACAT
Found at i:25886662 original size:25 final size:25
Alignment explanation
Indices: 25886634--25886681 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25886624 GGTCATGAGG
*
25886634 AGCTCGCAAAACACTGTTCATAATT
1 AGCTCACAAAACACTGTTCATAATT
* *
25886659 AGCTCACATATCACTGTTCATAA
1 AGCTCACAAAACACTGTTCATAA
25886682 AAACACATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.29
Consensus pattern (25 bp):
AGCTCACAAAACACTGTTCATAATT
Found at i:25887429 original size:22 final size:22
Alignment explanation
Indices: 25887401--25887459 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
25887391 AGGCGCACTA
25887401 GTGACCCCAACTTGTCAGACTG
1 GTGACCCCAACTTGTCAGACTG
* * *
25887423 GTGACCCCGACTCGTTAGACTG
1 GTGACCCCAACTTGTCAGACTG
*
25887445 GTGAACCCCAGCTTG
1 GTG-ACCCCAACTTG
25887460 CTATACCTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.22
Consensus pattern (22 bp):
GTGACCCCAACTTGTCAGACTG
Found at i:25890583 original size:23 final size:24
Alignment explanation
Indices: 25890543--25890592 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
25890533 CCAAGCAGAA
25890543 TTTGTGCTAGTGTATTTATCAGGC
1 TTTGTGCTAGTGTATTTATCAGGC
* * *
25890567 TTTGTGC-GGTGTGTTTATCGGGC
1 TTTGTGCTAGTGTATTTATCAGGC
25890590 TTT
1 TTT
25890593 ATGCCTAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.10, C:0.12, G:0.30, T:0.48
Consensus pattern (24 bp):
TTTGTGCTAGTGTATTTATCAGGC
Found at i:25895555 original size:17 final size:17
Alignment explanation
Indices: 25895535--25895596 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
25895525 CCCATGGGAG
25895535 ATACTGTCCACTAGGCA
1 ATACTGTCCACTAGGCA
* * *
25895552 ATACTATTCGCTAGGCGA
1 ATACTGTCCACTAGGC-A
**
25895570 A-ACTGTCTGCTAGGCA
1 ATACTGTCCACTAGGCA
*
25895586 AAACTGTCCAC
1 ATACTGTCCAC
25895597 CACATGATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
16 2 0.06
17 31 0.89
18 2 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (17 bp):
ATACTGTCCACTAGGCA
Found at i:25898215 original size:22 final size:18
Alignment explanation
Indices: 25898170--25898207 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25898160 TTAATGTTTA
25898170 TATAATTAAAATGAATAT
1 TATAATTAAAATGAATAT
25898188 TATAATTAAAATGAAT-T
1 TATAATTAAAATGAATAT
25898205 TAT
1 TAT
25898208 TTTATAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATAATTAAAATGAATAT
Found at i:25898359 original size:17 final size:18
Alignment explanation
Indices: 25898337--25898375 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
25898327 GAATTCAAAC
25898337 ATTATAATT-AAATGAAT
1 ATTATAATTAAAATGAAT
25898354 ATTATAATTAAAATGAAT
1 ATTATAATTAAAATGAAT
25898372 -TTAT
1 ATTAT
25898376 TTTATAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
ATTATAATTAAAATGAAT
Found at i:25898456 original size:168 final size:169
Alignment explanation
Indices: 25898170--25898506 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 169
25898160 TTAATGTTTA
25898170 TATAATTAAAATGAATATTATAATTAAAATGAATTTATTTTATAATACAGATATTATTATATTTA
1 TATAATTAAAATGAATATTATAATTAAAATGAATTTATTTTATAATACAGATATTATTATATTTA
25898235 GTACATATTATATTATAAAAAAGTTAGTATACATACATGGTTAACTACGATTAATTTAGGTAAAT
66 GTACATATTATATTATAAAAAAGTTAGTATACATACATGGTTAACTACGATTAATTTAGGTAAAT
25898300 ATGCTAAAAAAATTGGAAAAATAGGTTGAATTCAAACAT
131 ATGCTAAAAAAATTGGAAAAATAGGTTGAATTCAAACAT
25898339 TATAATT-AAATGAATATTATAATTAAAATGAATTTATTTTATAATACAGATATTATTATATTTA
1 TATAATTAAAATGAATATTATAATTAAAATGAATTTATTTTATAATACAGATATTATTATATTTA
25898403 GTACATATTATATTATAAAAAAGTTAGTATACATACATGGTTAACTACGATTAATTTAGGTAAAT
66 GTACATATTATATTATAAAAAAGTTAGTATACATACATGGTTAACTACGATTAATTTAGGTAAAT
25898468 ATGCTAAAAAAATTGGAAAAATAGGTTGAATTCAAACAT
131 ATGCTAAAAAAATTGGAAAAATAGGTTGAATTCAAACAT
25898507 ATTTATCGAT
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 161 0.96
169 7 0.04
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (169 bp):
TATAATTAAAATGAATATTATAATTAAAATGAATTTATTTTATAATACAGATATTATTATATTTA
GTACATATTATATTATAAAAAAGTTAGTATACATACATGGTTAACTACGATTAATTTAGGTAAAT
ATGCTAAAAAAATTGGAAAAATAGGTTGAATTCAAACAT
Found at i:25898814 original size:19 final size:19
Alignment explanation
Indices: 25898790--25898831 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25898780 CAATTGAGGG
*
25898790 TAATTAGCGACTTAATTGA
1 TAATTAGCGACTTAATCGA
* *
25898809 TAATTAGTGATTTAATCGA
1 TAATTAGCGACTTAATCGA
25898828 TAAT
1 TAAT
25898832 AGGCCGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (19 bp):
TAATTAGCGACTTAATCGA
Found at i:25898915 original size:28 final size:28
Alignment explanation
Indices: 25898882--25898935 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
25898872 TCCATTAAGT
*
25898882 TATTTTA-GATTAATTAATTTTATTAGGA
1 TATTTTAGGA-TAATTAATTTAATTAGGA
25898910 TATTTTAGGATAATTAATTTAATTAG
1 TATTTTAGGATAATTAATTTAATTAG
25898936 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (28 bp):
TATTTTAGGATAATTAATTTAATTAGGA
Found at i:25908884 original size:35 final size:35
Alignment explanation
Indices: 25908838--25908909 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
25908828 GAACTTACTC
* * *
25908838 TACTCTTAAAACTA-TCTATTCAGTTCATGATTTGT
1 TACTCTAAAAACTAGT-TATTCAATTCATCATTTGT
*
25908873 TACTCTAAAAACTAGTTGTTCAATTCATCATTTGT
1 TACTCTAAAAACTAGTTATTCAATTCATCATTTGT
25908908 TA
1 TA
25908910 GCATTTAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (35 bp):
TACTCTAAAAACTAGTTATTCAATTCATCATTTGT
Found at i:25915004 original size:42 final size:42
Alignment explanation
Indices: 25914940--25915090 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
25914930 GCCCGAAGGC
*
25914940 TGAACAGAAGCTCATGAGAGCTAAAC-AGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGA-AAACCCATAAGGGT
* * *
25914982 TGAATAGAAGCTCGTAAGAGCTAAACGAAAACCTATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
* * * * * * ***
25915024 TAAACAAAAGCTCAAAAGAGCTGAACGAAAACTCGTATCAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
*
25915066 TGAACAGAAGCTCGTAAGAGCTAAA
1 TGAACAGAAGCTCATAAGAGCTAAA
25915091 TGGAAAGTAA
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 86 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGT
Found at i:25921422 original size:42 final size:40
Alignment explanation
Indices: 25921367--25921526 Score: 142
Period size: 42 Copynumber: 3.9 Consensus size: 40
25921357 TTTTCAGAAG
* *
25921367 CCCA-AAGGCTGAACAGAAGCTCATGAGAGCTAAATAGAAA
1 CCCATAAGGTTGAACAGAAGCTCATAAGAGCTAAAT-GAAA
* *
25921407 CCCATAAAGGTTGAACAGAAGCTCGTAAGAGCTAAACGGAAA
1 CCCAT-AAGGTTGAACAGAAGCTCATAAGAGCTAAA-TGAAA
* * * * *
25921449 CCCATAAGGTTTAAACAGAAGTTCAAAAGAGTTGAATGAAAA
1 CCCATAAGG-TTGAACAGAAGCTCATAAGAGCTAAATG-AAA
* * * *
25921491 CTCATATGAGTTGAACAGAAGCTCGTGAGAGCTAAA
1 CCCATAAG-GTTGAACAGAAGCTCATAAGAGCTAAA
25921527 GGGAAAGTAA
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
40 4 0.04
41 5 0.05
42 84 0.89
43 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (40 bp):
CCCATAAGGTTGAACAGAAGCTCATAAGAGCTAAATGAAA
Done.