Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 291 of 373
Found at i:98728637 original size:65 final size:66
Alignment explanation
Indices: 98728519--98728641 Score: 151
Period size: 65 Copynumber: 1.9 Consensus size: 66
98728509 GTGCACACTC
* * *
98728519 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAAAGTGCACATA
1 CCTTTTCAAGTGGTACACACGAAGTGTACATACCATTTTCAAATGGTACACACAAAGTGCACATA
98728584 A
66 A
* * ** *
98728585 CCTTTTCAAGT-GTACACA-TATAGTGTACCTTTCATTTTCAAATGGTATACACAAAGT
1 CCTTTTCAAGTGGTACACACGA-AGTGTACATACCATTTTCAAATGGTACACACAAAGT
98728642 ATACCTTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.75
66 11 0.23
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (66 bp):
CCTTTTCAAGTGGTACACACGAAGTGTACATACCATTTTCAAATGGTACACACAAAGTGCACATA
A
Found at i:98728687 original size:33 final size:33
Alignment explanation
Indices: 98728519--98728693 Score: 136
Period size: 33 Copynumber: 5.3 Consensus size: 33
98728509 GTGCACACTC
* * * * * *
98728519 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAATGGTATACACAAAGTATACCTAA
* * * ** *
98728552 CCTTTTCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAA
* * * * * **
98728585 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTAA
* **
98728617 CATTTTCAAATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTAA
*
98728650 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTAA
98728683 CCTTTTCAAAT
1 CCTTTTCAAAT
98728694 TGTACCATTT
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
32 24 0.20
33 94 0.80
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTAA
Found at i:98729426 original size:21 final size:22
Alignment explanation
Indices: 98729380--98729422 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
98729370 TGTAAAAGTG
*
98729380 ATTTCTCTATTCATAACCTTTC
1 ATTTCTCTATTCATAAACTTTC
98729402 ATTT-TCTA-TCATAAACTTTC
1 ATTTCTCTATTCATAAACTTTC
98729422 A
1 A
98729423 ATTTACAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 4 0.20
22 4 0.20
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTCTCTATTCATAAACTTTC
Found at i:98737106 original size:49 final size:47
Alignment explanation
Indices: 98736992--98737399 Score: 220
Period size: 46 Copynumber: 8.7 Consensus size: 47
98736982 GGGTATAGTA
* *
98736992 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
* * * *
98737039 TCGATGCCATGTCCCAGACATAGTCTTACACTTAC-CATCGAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAG
* * * *
98737088 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATTTATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-A-TCAAG
* * * * * **
98737138 CCGATGCTATGTCCTAGACATGGTCTTACACTGACACCTCTATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAAT-CAAG
* * * * * *
98737186 ACGATTCCATGTTCCAGATATGGTCTTACAGTGACACATC--TCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCA-AG
* * * * *
98737232 TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCAATCAAG
* * *
98737278 CTGATG-CATGTCCCAGACAT-GTCTTATACT-AGCTC-TCGATTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATC-AATCAA-G
* * * *
98737324 CCAATGCCATGT-CTAGACAAGGTCTTACACTGGCTC-TC-AT-AATTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAA---G
*
98737370 CCGATG-CATGTCCTAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
98737400 AGCACAGAAA
Statistics
Matches: 280, Mismatches: 57, Indels: 50
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 33 0.12
46 67 0.24
47 53 0.19
48 40 0.14
49 34 0.12
50 32 0.11
51 3 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAG
Found at i:98741376 original size:43 final size:43
Alignment explanation
Indices: 98741292--98741439 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
98741282 CCTAGATACA
* * * ** *
98741292 GTCTTACATATTATCACATATCGATGCCAATGTTTCGGACATG
1 GTCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
* *
98741335 GTCTTACACGA-AATCATATAACGATGCCAATGTCCCAGACATA
1 GTCTTACAC-ATAATCACATAACGATGCCAATGTCCCAGACATG
* *
98741378 GTCTTGCACATAATCACA-ATACAATGCCAATGTCCCAGACATG
1 GTCTTACACATAATCACATA-ACGATGCCAATGTCCCAGACATG
* **
98741421 GTCTTCCATGTAATCACAT
1 GTCTTACACATAATCACAT
98741440 CTCGGTAATC
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
GTCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
Found at i:98749520 original size:40 final size:40
Alignment explanation
Indices: 98749483--98749628 Score: 197
Period size: 40 Copynumber: 3.7 Consensus size: 40
98749473 TGAGGAATTG
*
98749483 TATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
98749523 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * * * *
98749563 TATCTGGGTTTAATGACCCGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
*
98749603 TATCCGGGC-TAGAGACCCGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
98749629 CGAGCTAGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:98750170 original size:14 final size:14
Alignment explanation
Indices: 98750151--98750178 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
98750141 AAATGCTTAA
98750151 AACTTACTAAGCCT
1 AACTTACTAAGCCT
98750165 AACTTACTAAGCCT
1 AACTTACTAAGCCT
98750179 CGAAAGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
AACTTACTAAGCCT
Found at i:98751241 original size:119 final size:119
Alignment explanation
Indices: 98751030--98751269 Score: 453
Period size: 119 Copynumber: 2.0 Consensus size: 119
98751020 CTTACTCTGC
98751030 TTAGGTGGGAGTTCATTCAAACGCTTGGGTTGCTCATCCTTGTAATCATAACTCCATTGGTTTTT
1 TTAGGTGGGAGTTCATTCAAACGCTTGGGTTGCTCATCCTTGTAATCATAACTCCATTGGTTTTT
*
98751095 CGAATCTCCTTACAATTAACTCAATTTGGATTGTTCGTACATCAACCTATAAAA
66 CGAATCTCCTTACAATTAACTCAATTTGGATTGTCCGTACATCAACCTATAAAA
*
98751149 TTAGGTGGGAGTTCATTCAAACGCTTGGGTTGCTCGTCCTTGTAATCATAACTCCATTGGTTTTT
1 TTAGGTGGGAGTTCATTCAAACGCTTGGGTTGCTCATCCTTGTAATCATAACTCCATTGGTTTTT
*
98751214 CGAATCTCCTTACTATTAACTCAATTTGGATTGTCCGTACATCAACCTATAAAA
66 CGAATCTCCTTACAATTAACTCAATTTGGATTGTCCGTACATCAACCTATAAAA
98751268 TT
1 TT
98751270 TCAAATTCAT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (119 bp):
TTAGGTGGGAGTTCATTCAAACGCTTGGGTTGCTCATCCTTGTAATCATAACTCCATTGGTTTTT
CGAATCTCCTTACAATTAACTCAATTTGGATTGTCCGTACATCAACCTATAAAA
Found at i:98751359 original size:37 final size:37
Alignment explanation
Indices: 98751291--98751391 Score: 168
Period size: 37 Copynumber: 2.7 Consensus size: 37
98751281 ATTAAATCTG
*
98751291 ATAATCAACAAGGTAAGTAAAAAAATCAAAAATAAAAA
1 ATAATCAACAAGGTAAG-AAAAAAATAAAAAATAAAAA
98751329 ATAATCAACAAGGTAAGAAAAAAATAAAAAATAAAAA
1 ATAATCAACAAGGTAAGAAAAAAATAAAAAATAAAAA
*
98751366 ATAATCAACAAGGTAA-AAAATAATAA
1 ATAATCAACAAGGTAAGAAAAAAATAA
98751392 TAATCGTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 9 0.15
37 35 0.57
38 17 0.28
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.16
Consensus pattern (37 bp):
ATAATCAACAAGGTAAGAAAAAAATAAAAAATAAAAA
Found at i:98751400 original size:19 final size:19
Alignment explanation
Indices: 98751291--98751389 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 19
98751281 ATTAAATCTG
*
98751291 ATAATCAACAAGGTAAGTAAA
1 ATAATCAACAACGTAA--AAA
* *
98751312 AAAATCAA-AA-ATAAAAA
1 ATAATCAACAACGTAAAAA
*
98751329 ATAATCAACAAGGTAAGAAA
1 ATAATCAACAACGTAA-AAA
* **
98751349 AAAAT-AA-AAAATAAAAA
1 ATAATCAACAACGTAAAAA
*
98751366 ATAATCAACAAGGTAAAAA
1 ATAATCAACAACGTAAAAA
98751385 ATAAT
1 ATAAT
98751390 AATAATCGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.27
18 9 0.14
19 21 0.33
20 9 0.14
21 7 0.11
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.16
Consensus pattern (19 bp):
ATAATCAACAACGTAAAAA
Found at i:98751821 original size:14 final size:14
Alignment explanation
Indices: 98751802--98751841 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
98751792 ATAATATTTT
98751802 AATTAAACTAATTA
1 AATTAAACTAATTA
98751816 AATT-AACTAACTTA
1 AATTAAACTAA-TTA
*
98751830 AATTAACCTAAT
1 AATTAAACTAAT
98751842 GGATTTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAACTAATTA
Found at i:98752930 original size:23 final size:22
Alignment explanation
Indices: 98752900--98752942 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
98752890 CAGAAACATG
**
98752900 TCCACCAACCCTGCACACCAAC
1 TCCACCAACCCAACACACCAAC
98752922 TCCATCCAACCCAACACACCA
1 TCCA-CCAACCCAACACACCA
98752943 TGTGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.35, C:0.53, G:0.02, T:0.09
Consensus pattern (22 bp):
TCCACCAACCCAACACACCAAC
Found at i:98752992 original size:40 final size:40
Alignment explanation
Indices: 98752918--98753020 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
98752908 CCCTGCACAC
* * *
98752918 CAACTCCATCCAACCCAACACACC--ATGTGGGGATAAAAT
1 CAAC-CCACCCAACCCTACACACCAAATATGGGGATAAAAT
* * *
98752957 CGACCCGCCCATCCCTACACACCAAATATGGGGATAAAAT
1 CAACCCACCCAACCCTACACACCAAATATGGGGATAAAAT
*
98752997 CAACCCATCCAACCCTACACACCA
1 CAACCCACCCAACCCTACACACCA
98753021 TAGAGTACCG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
38 15 0.29
39 3 0.06
40 34 0.65
ACGTcount: A:0.37, C:0.39, G:0.11, T:0.14
Consensus pattern (40 bp):
CAACCCACCCAACCCTACACACCAAATATGGGGATAAAAT
Found at i:98764819 original size:51 final size:51
Alignment explanation
Indices: 98764762--98764864 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
98764752 TAAACCAATC
98764762 AAAGCATGCATATATTATATATTTATATATATAAATGAAACATACGAAACT
1 AAAGCATGCATATATTATATATTTATATATATAAATGAAACATACGAAACT
*
98764813 AAAGCATGCATATATTATATATTTATGTATATAAATGAAACATACGAAACT
1 AAAGCATGCATATATTATATATTTATATATATAAATGAAACATACGAAACT
98764864 A
1 A
98764865 TGAACTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (51 bp):
AAAGCATGCATATATTATATATTTATATATATAAATGAAACATACGAAACT
Found at i:98786088 original size:18 final size:18
Alignment explanation
Indices: 98786065--98786100 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
98786055 TGTTTCTAAT
98786065 AAAACTAGACTCAATAAG
1 AAAACTAGACTCAATAAG
98786083 AAAACTAGACTCAATAAG
1 AAAACTAGACTCAATAAG
98786101 GAATCTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.17
Consensus pattern (18 bp):
AAAACTAGACTCAATAAG
Found at i:98787081 original size:46 final size:46
Alignment explanation
Indices: 98787014--98787191 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
98787004 TGTAACCCAC
* *
98787014 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
98787060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
98787106 ACATCTCTCGAACTCGTACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* *
98787153 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
98787192 CCCAAATATC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:98787150 original size:93 final size:93
Alignment explanation
Indices: 98787022--98787193 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
98787012 ACCCATAAGT
* ***
98787022 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98787087 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
98787115 GAACTCGTACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98787180 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
98787194 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:98789618 original size:30 final size:30
Alignment explanation
Indices: 98789574--98789662 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
98789564 CAAAGATAAT
98789574 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
98789603 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
98789633 AAGAGATCCAGGATAAAGAAACCCATGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
98789663 CGATATTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.80
31 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:98789622 original size:15 final size:15
Alignment explanation
Indices: 98789574--98789653 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
98789564 CAAAGATAAT
*
98789574 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
98789588 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
98789603 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
98789618 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
98789633 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
98789648 AAGAAA
1 AAGAAA
98789654 CCCATGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:98792243 original size:93 final size:93
Alignment explanation
Indices: 98792130--98792298 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
98792120 GCCCATAAGT
* *
98792130 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
98792195 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
98792223 GAACTCGTACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
98792288 CGAGTTCGGAT
66 CGAGCTCGGAT
98792299 ACCCAAATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:98792297 original size:46 final size:46
Alignment explanation
Indices: 98792122--98792297 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
98792112 TGTAACCCGC
* *
98792122 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
98792168 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
98792214 ACATCTCTCGAACTCGTACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
98792261 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
98792298 TACCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:98794093 original size:22 final size:22
Alignment explanation
Indices: 98794066--98794121 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
98794056 GAGTATGTGT
98794066 AAGAAGAAACAACACTGTAATG
1 AAGAAGAAACAACACTGTAATG
98794088 AAGAAGAAACAACACTGTAATG
1 AAGAAGAAACAACACTGTAATG
*
98794110 AACAAGAAACAA
1 AAGAAGAAACAA
98794122 AGCAAGATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (22 bp):
AAGAAGAAACAACACTGTAATG
Found at i:98794259 original size:18 final size:18
Alignment explanation
Indices: 98794236--98794304 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
98794226 TGTAAGATTT
98794236 GGTTGAGAATGAAGCTAA
1 GGTTGAGAATGAAGCTAA
** * **
98794254 GGTTGAGTGTGTAAGATTT
1 GGTTGAGAATG-AAGCTAA
98794273 GGTTGAGAATGAAGCTAA
1 GGTTGAGAATGAAGCTAA
*
98794291 GGTTGAAAATGAAG
1 GGTTGAGAATGAAG
98794305 TGCTTGAGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
18 26 0.67
19 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.35, T:0.28
Consensus pattern (18 bp):
GGTTGAGAATGAAGCTAA
Found at i:98794263 original size:37 final size:37
Alignment explanation
Indices: 98794222--98794296 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
98794212 GGGATAGTCA
98794222 AGTGTGTAAGATTTGGTTGAGAATGAAGCTAAGGTTG
1 AGTGTGTAAGATTTGGTTGAGAATGAAGCTAAGGTTG
98794259 AGTGTGTAAGATTTGGTTGAGAATGAAGCTAAGGTTG
1 AGTGTGTAAGATTTGGTTGAGAATGAAGCTAAGGTTG
98794296 A
1 A
98794297 AAATGAAGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.03, G:0.35, T:0.32
Consensus pattern (37 bp):
AGTGTGTAAGATTTGGTTGAGAATGAAGCTAAGGTTG
Found at i:98794278 original size:19 final size:19
Alignment explanation
Indices: 98794222--98794279 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
98794212 GGGATAGTCA
98794222 AGTGTGTAAGATTTGGTTG
1 AGTGTGTAAGATTTGGTTG
** * **
98794241 AGAATG-AAGCTAAGGTTG
1 AGTGTGTAAGATTTGGTTG
98794259 AGTGTGTAAGATTTGGTTG
1 AGTGTGTAAGATTTGGTTG
98794278 AG
1 AG
98794280 AATGAAGCTA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.28, C:0.02, G:0.36, T:0.34
Consensus pattern (19 bp):
AGTGTGTAAGATTTGGTTG
Found at i:98796243 original size:17 final size:17
Alignment explanation
Indices: 98796213--98796246 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
98796203 GATTTATGAT
98796213 TTGAATATGAAATGAAA
1 TTGAATATGAAATGAAA
98796230 TTGAA-ATGAGAATGAAA
1 TTGAATATGA-AATGAAA
98796247 ATGAGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (17 bp):
TTGAATATGAAATGAAA
Found at i:98801965 original size:6 final size:5
Alignment explanation
Indices: 98801939--98801970 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
98801929 CCAATTTGTG
98801939 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A
98801971 CACACAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98803704 original size:55 final size:55
Alignment explanation
Indices: 98803541--98803705 Score: 233
Period size: 55 Copynumber: 3.0 Consensus size: 55
98803531 TCTTCTTAGT
* * * *
98803541 TGTTGGAATACTGCTTCTTTAGAATTGATTTTTTATATGTTTAAATCCATTGTCA
1 TGTTGGAATACTGCTTCTTTTGAATTGATTATTTATATGTTTAAATCAATTGTTA
*
98803596 TGTTGGAATACTGCTTCTTTTGAATTGATTGTTTATATGTTT-AATCATATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATTGATTATTTATATGTTTAAATCA-ATTGTTA
* ** *
98803651 TGTTGGAATCCTATTTCTTTTGAATCGATTATTTATATGTTTAAATCAATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATTGATTATTTATATGTTTAAATCAATTGTTA
98803706 CATAGCACAT
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 4 0.04
55 90 0.91
56 5 0.05
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATTGATTATTTATATGTTTAAATCAATTGTTA
Found at i:98805823 original size:48 final size:47
Alignment explanation
Indices: 98805597--98805954 Score: 161
Period size: 47 Copynumber: 7.6 Consensus size: 47
98805587 GATAAATTGC
* * **
98805597 CAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAATG-TGT
1 CAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTTGATGT
* * * *
98805645 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCAC-AACTCTT-A-GC
1 -C-AATGCCATGTCCCAGACATGTCTTACACTAGCTCTCA-TCTTGATGT
* * * ** * * * *
98805691 CGATG-CGTGTCCCAGACACGTCTTACGTTGGCTAT-ATCTGTCGAGGC
1 CAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-T-GATGT
* * * *
98805738 CGATG-CATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTG-TGT
1 CAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-TGATGT
* * **
98805784 CAATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAT-ATGCTT
1 CAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTGATG--T
* * * * * *
98805833 GAA-G-CATGTCCCAGACATGTCTTACAGTAGCCCTCGTCTGGATGC
1 CAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTGATGT
* * **
98805878 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATG-TGGCT
1 CAATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTGAT-G-T
*
98805927 GAA-G-CATGTCCCAGACATGTCTTACACT
1 CAATGCCATGTCCCAGACATGTCTTACACT
98805955 GGCGCACATA
Statistics
Matches: 236, Mismatches: 53, Indels: 43
0.71 0.16 0.13
Matches are distributed among these distances:
43 3 0.01
44 28 0.12
45 2 0.01
46 32 0.14
47 95 0.40
48 55 0.23
49 18 0.08
50 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
CAATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTGATGT
Found at i:98805853 original size:94 final size:94
Alignment explanation
Indices: 98805594--98805957 Score: 323
Period size: 94 Copynumber: 3.9 Consensus size: 94
98805584 TGGGATAAAT
* * * *
98805594 TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAATGTGTGCTGATGCATGTCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AATATG-GCTGAAGCATGTCC
* * *
98805659 CAGACATGTCTTACACTAGCAC-AACTCT-TA
64 CAGACATGTCTTACACTGGCACTCA-TCTGGA
* * * ** * * * * * *
98805689 -GCCGATG-CGTGTCCCAGACA-CGTCTTACGTTGGCTAT-AT-CTGTCGAGGCCGATGCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATAT---GGCTGAAGCATGTC
* *
98805749 CCAGACATGTCTTACTCTGGCACTCATCTCTG-
63 CCAGACATGTCTTACACTGGCACTCATCT-GGA
* * *
98805781 TGTCAATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAATAT-GCTTGAAGCATGTCCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGC-TGAAGCATGTCCC
* * * *
98805845 AGACATGTCTTACAGTAGCCCTCGTCTGGA
65 AGACATGTCTTACACTGGCACTCATCTGGA
* * *
98805875 TGCCGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATGTGGCTGAAGCATGTCCCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGAAGCATGTCCCA
98805940 GACATGTCTTACACTGGC
66 GACATGTCTTACACTGGC
98805958 GCACATATCA
Statistics
Matches: 216, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
89 3 0.01
91 38 0.18
92 15 0.07
93 19 0.09
94 122 0.56
95 15 0.07
96 2 0.01
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGAAGCATGTCCCA
GACATGTCTTACACTGGCACTCATCTGGA
Found at i:98818306 original size:13 final size:13
Alignment explanation
Indices: 98818290--98818314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98818280 TTTGTTAAAA
98818290 TTTTAATTAATAT
1 TTTTAATTAATAT
98818303 TTTTAATTAATA
1 TTTTAATTAATA
98818315 AATATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:98819709 original size:49 final size:49
Alignment explanation
Indices: 98819633--98819730 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
98819623 ATAATCACAA
** * **
98819633 GTTGAAGTATAACTAGGGCTCTTAGTTGACGGTAGTTATACGGTCACGG
1 GTTGAAGTATAACTAGGGAGCTCAGTTGACAATAGTTATACGGTCACGG
* * * *
98819682 GTTGGAGTATAACTTGGGAGCTCAGTTGACAATGGTTATGCGGTCACGG
1 GTTGAAGTATAACTAGGGAGCTCAGTTGACAATAGTTATACGGTCACGG
98819731 ATTTAAGTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (49 bp):
GTTGAAGTATAACTAGGGAGCTCAGTTGACAATAGTTATACGGTCACGG
Found at i:98822111 original size:18 final size:18
Alignment explanation
Indices: 98822088--98822123 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
98822078 TGCACCCTTA
98822088 CACTTATCA-TATTCATAT
1 CACTTATCACT-TTCATAT
98822106 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
98822124 AATGCACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:98827666 original size:35 final size:32
Alignment explanation
Indices: 98827610--98827678 Score: 84
Period size: 35 Copynumber: 2.1 Consensus size: 32
98827600 TATCTAAAAT
* *
98827610 TTATCCTGGATTCTAGATTCTTGGGTTCTGAA
1 TTATCCTGGATTCTAGATTCTTGAGTTCTAAA
*
98827642 TTATCCTAGGATTTCTGGGATTCTTGAGTTCTAAA
1 TTATCCT-GGA-TTCT-AGATTCTTGAGTTCTAAA
98827677 TT
1 TT
98827679 CTATTAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 7 0.23
33 3 0.10
34 4 0.13
35 17 0.55
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (32 bp):
TTATCCTGGATTCTAGATTCTTGAGTTCTAAA
Found at i:98839330 original size:18 final size:20
Alignment explanation
Indices: 98839289--98839333 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
98839279 TATTTCAAGC
* *
98839289 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
98839309 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
98839327 TCAATAT
1 TCAATAT
98839334 TATTCAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 1 0.04
20 11 0.48
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:98839339 original size:28 final size:28
Alignment explanation
Indices: 98839299--98839353 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
98839289 TCAATATCAG
* * *
98839299 TCAATATTTTTCAATATCAATCAATTTA
1 TCAATATTATTCAATAACAATAAATTTA
*
98839327 TCAATATTATTCAGTAACAATAAATTT
1 TCAATATTATTCAATAACAATAAATTT
98839354 TTCAGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (28 bp):
TCAATATTATTCAATAACAATAAATTTA
Found at i:98839359 original size:18 final size:18
Alignment explanation
Indices: 98839326--98839414 Score: 90
Period size: 18 Copynumber: 4.8 Consensus size: 18
98839316 CAATCAATTT
98839326 ATCAATATTATTCAGTAACA
1 ATCAAT-TT-TTCAGTAACA
* *
98839346 ATAAATTTTTCAGTAATA
1 ATCAATTTTTCAGTAACA
* *
98839364 ATCAGTTGTTCAGTAACA
1 ATCAATTTTTCAGTAACA
98839382 ATCAATTATTT-AGTAACA
1 ATCAATT-TTTCAGTAACA
* *
98839400 ATCAGTTATTCAGTA
1 ATCAATTTTTCAGTA
98839415 CATTTATTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
17 2 0.04
18 46 0.81
19 4 0.07
20 5 0.09
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
ATCAATTTTTCAGTAACA
Found at i:98839376 original size:36 final size:36
Alignment explanation
Indices: 98839333--98839414 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
98839323 TTTATCAATA
*
98839333 TTATTCAGTAACAATAAATT-TTTCAGTAATAATCAG
1 TTATTCAGTAACAATAAATTATTT-AGTAACAATCAG
* *
98839369 TTGTTCAGTAACAATCAATTATTTAGTAACAATCAG
1 TTATTCAGTAACAATAAATTATTTAGTAACAATCAG
98839405 TTATTCAGTA
1 TTATTCAGTA
98839415 CATTTATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 38 0.93
37 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (36 bp):
TTATTCAGTAACAATAAATTATTTAGTAACAATCAG
Found at i:98839623 original size:44 final size:44
Alignment explanation
Indices: 98839575--98839658 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
98839565 ACAGTAGCAG
*
98839575 TACGACACACATAGTGCCTCATTGACTCGAAG-TCGAAGTAACAA
1 TACGACACACATAGTGCCTCATCGACTC-AAGATCGAAGTAACAA
**
98839619 TACGACACTTATAGTGCCTCATCGACTCAAGATCGAAGTA
1 TACGACACACATAGTGCCTCATCGACTCAAGATCGAAGTA
98839659 TCCCTGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (44 bp):
TACGACACACATAGTGCCTCATCGACTCAAGATCGAAGTAACAA
Found at i:98840891 original size:13 final size:12
Alignment explanation
Indices: 98840861--98840952 Score: 52
Period size: 13 Copynumber: 7.8 Consensus size: 12
98840851 ATATTAGTTA
* *
98840861 ATAATATTAATA
1 ATAATAATAATT
98840873 ATAATAATACATT
1 ATAATAATA-ATT
*
98840886 ATAATAGTAA-T
1 ATAATAATAATT
98840897 ATAAT-ATAATT
1 ATAATAATAATT
98840908 -TAATAAT--TT
1 ATAATAATAATT
*
98840917 AATAAT-TTAATAT
1 -ATAATAATAAT-T
*
98840930 AAAACTAATAATT
1 ATAA-TAATAATT
98840943 ATAAATAATA
1 AT-AATAATA
98840953 TCTATTTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
9 2 0.03
10 8 0.13
11 13 0.21
12 13 0.21
13 19 0.31
14 6 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:98840891 original size:16 final size:15
Alignment explanation
Indices: 98840859--98840952 Score: 65
Period size: 16 Copynumber: 6.3 Consensus size: 15
98840849 ATATATTAGT
98840859 TAATAAT-ATTAATAA
1 TAATAATAATT-ATAA
98840874 TAATAATACATTATAA
1 TAATAATA-ATTATAA
* *
98840890 TAGTAATATAATATAA
1 TAATAATA-ATTATAA
*
98840906 T-TTAATAATT-TAA
1 TAATAATAATTATAA
*
98840919 TAAT-TTAA-TATAA
1 TAATAATAATTATAA
98840932 -AACTAATAATTATAAA
1 TAA-TAATAATTAT-AA
98840948 TAATA
1 TAATA
98840953 TCTATTTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
12 3 0.05
13 11 0.18
14 6 0.10
15 15 0.24
16 22 0.35
17 5 0.08
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (15 bp):
TAATAATAATTATAA
Found at i:98840915 original size:8 final size:8
Alignment explanation
Indices: 98840902--98840928 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
98840892 GTAATATAAT
98840902 ATAATTTA
1 ATAATTTA
98840910 ATAATTTA
1 ATAATTTA
98840918 ATAATTTA
1 ATAATTTA
98840926 ATA
1 ATA
98840929 TAAAACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATAATTTA
Found at i:98841257 original size:3 final size:3
Alignment explanation
Indices: 98841243--98841325 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
98841233 GAAAACCATG
* * * *
98841243 ATA ATA ATTA ATA ATA ATA ATA TTA ATA ATA ATA TTT A-A ATA GAAA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
** * *
98841289 ACC ATG ATA ATA ATTA ATA ATA ATA ATT ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
98841326 GATTAATAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.85
4 8 0.13
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:98841279 original size:52 final size:52
Alignment explanation
Indices: 98841204--98841325 Score: 228
Period size: 52 Copynumber: 2.3 Consensus size: 52
98841194 ATTTCAAAAT
98841204 ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
1 ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
98841256 ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
1 ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
98841308 ATAATAAT-TATAATAATA
1 ATAATAATAT-TAATAATA
98841326 GATTAATAAC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (52 bp):
ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
Found at i:98841512 original size:20 final size:19
Alignment explanation
Indices: 98841466--98841512 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
98841456 AATCCTTTTT
*
98841466 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
98841486 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
98841506 CCTAATT
1 CCTAATT
98841513 AAAAACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:98842882 original size:25 final size:24
Alignment explanation
Indices: 98842854--98842901 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98842844 GAGAGATAAA
*
98842854 TATGTTAATTTGAATATATTTTTTT
1 TATGATAATTT-AATATATTTTTTT
*
98842879 TATGATAATTTAATTTATTTTTT
1 TATGATAATTTAATATATTTTTT
98842902 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATGATAATTTAATATATTTTTTT
Found at i:98844547 original size:28 final size:27
Alignment explanation
Indices: 98844514--98844567 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
98844504 ATAACTCCTT
98844514 TAATTATATAAATAAAATAATAAATATG
1 TAATTATAT-AATAAAATAATAAATATG
* *
98844542 TAATTATATAATGAAATAATATATAT
1 TAATTATATAATAAAATAATAAATAT
98844568 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (27 bp):
TAATTATATAATAAAATAATAAATATG
Found at i:98847582 original size:16 final size:17
Alignment explanation
Indices: 98847547--98847587 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
98847537 ATGAACCCTA
98847547 AACATAAACTATAAAACG
1 AACATAAAC-ATAAAACG
*
98847565 AACATAAA-ATATAACG
1 AACATAAACATAAAACG
98847581 AA-ATAAA
1 AACATAAA
98847588 TAAAAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
18 8 0.36
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (17 bp):
AACATAAACATAAAACG
Found at i:98848207 original size:14 final size:14
Alignment explanation
Indices: 98848179--98848222 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
98848169 TTAGCGAATA
*
98848179 AAATAAATTAAATAT
1 AAATAAA-TATATAT
98848194 AAATAAATATATAT
1 AAATAAATATATAT
98848208 AAA-ATAATATATAT
1 AAATA-AATATATAT
98848222 A
1 A
98848223 GAATGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 19 0.70
15 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:98848547 original size:16 final size:16
Alignment explanation
Indices: 98848526--98848559 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98848516 TTGAGAGTAA
*
98848526 AAGAGTTTCAGTGTGT
1 AAGAGTATCAGTGTGT
*
98848542 AAGAGTATGAGTGTGT
1 AAGAGTATCAGTGTGT
98848558 AA
1 AA
98848560 ATTTCTGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (16 bp):
AAGAGTATCAGTGTGT
Found at i:98853503 original size:17 final size:17
Alignment explanation
Indices: 98853483--98853528 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
98853473 CAAAAATTCC
98853483 ATGATGAATTAAATTGA
1 ATGATGAATTAAATTGA
*
98853500 ATGA-GAATTATATTGA
1 ATGATGAATTAAATTGA
*
98853516 A--ATGAGTTAAATT
1 ATGATGAATTAAATT
98853529 TGTTCGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 8 0.32
16 12 0.48
17 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
ATGATGAATTAAATTGA
Found at i:98854114 original size:28 final size:28
Alignment explanation
Indices: 98854074--98854129 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
98854064 ACGGCTTACA
98854074 GCACGGACATGTCTTAAGGTCACACGGG
1 GCACGGACATGTCTTAAGGTCACACGGG
98854102 GCACGGACATGTCTTAAGGTCACACGGG
1 GCACGGACATGTCTTAAGGTCACACGGG
98854130 CGTGTCCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (28 bp):
GCACGGACATGTCTTAAGGTCACACGGG
Found at i:98855191 original size:24 final size:25
Alignment explanation
Indices: 98855109--98855170 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
98855099 CAGCTTGAAA
* * * *
98855109 GAGCGTCCCGTTATAAG-CTCTTGG
1 GAGCTTCCCGTTATATGATTCTTGC
98855133 GAGCTTCCCGTTATATGATTCTTGC
1 GAGCTTCCCGTTATATGATTCTTGC
98855158 GAGCTTCCCGTTA
1 GAGCTTCCCGTTA
98855171 ATAGTTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGATTCTTGC
Found at i:98858206 original size:16 final size:16
Alignment explanation
Indices: 98858185--98858215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98858175 GTAAAAAATA
98858185 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
98858201 ATATAACATTTATAA
1 ATATAAAATTTATAA
98858216 GAAAAGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:98860492 original size:24 final size:25
Alignment explanation
Indices: 98860452--98860498 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
98860442 ATTAAATTGG
98860452 TAATATTTAGTCATAACTATAAATT
1 TAATATTTAGTCATAACTATAAATT
*
98860477 TAAT-TTTAG-CACTAACTTTAAA
1 TAATATTTAGTCA-TAACTATAAA
98860499 GAGGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (25 bp):
TAATATTTAGTCATAACTATAAATT
Found at i:98862284 original size:16 final size:16
Alignment explanation
Indices: 98862248--98862285 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
98862238 AAAAATTAAA
*
98862248 AAAAATAAAAACATTT
1 AAAAATAAAAACATTC
98862264 AAAAATAAAAA-ATTC
1 AAAAATAAAAACATTC
98862279 ATAAAAT
1 A-AAAAT
98862286 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAACATTC
Found at i:98877030 original size:40 final size:40
Alignment explanation
Indices: 98876986--98877146 Score: 150
Period size: 40 Copynumber: 4.3 Consensus size: 40
98876976 GCTCCTCGTT
* *
98876986 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
98877026 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
98877066 C-AATGCCTTC-GG-C-TTA-CC-GA--TAGT-ACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
98877097 C-AATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
98877134 CAAATGCCTTCGG
1 CAAATGCCTTCGG
98877147 ATCTTAGTCC
Statistics
Matches: 105, Mismatches: 7, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
31 20 0.19
32 5 0.05
33 2 0.02
34 4 0.04
35 2 0.02
36 6 0.06
37 8 0.08
38 11 0.10
39 10 0.10
40 35 0.33
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:98877094 original size:31 final size:35
Alignment explanation
Indices: 98877021--98877146 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 35
98877011 TTATAGTAAT
*
98877021 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
1 TCGCAC-AATGCCTTC-GG-CTT-ACCCGGAATTAGT-AC
98877061 TCGCACAATGCCTTCGGCTTA-CC-G-A-TAGTAC
1 TCGCACAATGCCTTCGGCTTACCCGGAATTAGTAC
98877092 TCGCACAATGCCTTCGGCTTAGCCCGGAATTAGTATC
1 TCGCACAATGCCTTCGGCTTA-CCCGGAATTAGTA-C
98877129 TCGCACAAATGCCTTCGG
1 TCGCAC-AATGCCTTCGG
98877147 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
31 23 0.29
32 4 0.05
33 2 0.03
34 2 0.03
35 3 0.04
36 6 0.08
37 10 0.13
38 13 0.17
39 9 0.12
40 6 0.08
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (35 bp):
TCGCACAATGCCTTCGGCTTACCCGGAATTAGTAC
Found at i:98884987 original size:40 final size:39
Alignment explanation
Indices: 98884943--98885125 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
98884933 GCTCCTCGTT
*
98884943 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAATTCGCA
* *
98884983 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAATTCGCA
* *
98885023 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
98885062 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGT-AATTCGCA
98885103 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
98885126 ACAGCATTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
38 1 0.01
39 48 0.40
40 61 0.51
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:98885043 original size:79 final size:80
Alignment explanation
Indices: 98884943--98885126 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 80
98884933 GCTCCTCGTT
* * *
98884943 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
98885005 CGGAT-TTAGTAAC-TCGCA
62 CGGATATT-GTAACTTAGCA
**
98885023 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
98885088 TATTGTCACTTAGCA
66 TATTGTAACTTAGCA
98885103 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
98885127 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 58 0.64
80 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATTGTAACTTAGCA
Found at i:98886806 original size:24 final size:24
Alignment explanation
Indices: 98886745--98886809 Score: 116
Period size: 23 Copynumber: 2.8 Consensus size: 24
98886735 ACAGAAATCA
98886745 TATGCGAATT-AAAAAAGAAAGTG
1 TATGCGAATTGAAAAAAGAAAGTG
98886768 TATGCGAATTG-AAAAAGAAAGTG
1 TATGCGAATTGAAAAAAGAAAGTG
98886791 TATGCGAATTGAAAAAAGA
1 TATGCGAATTGAAAAAAGA
98886810 TGTATCATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 33 0.82
24 7 0.17
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.22
Consensus pattern (24 bp):
TATGCGAATTGAAAAAAGAAAGTG
Found at i:98900868 original size:24 final size:25
Alignment explanation
Indices: 98900828--98900874 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
98900818 ATTAAATTGG
98900828 TAATATTTAGTCATAACTATAAATT
1 TAATATTTAGTCATAACTATAAATT
*
98900853 TAAT-TTTAG-CACTAACTTTAAA
1 TAATATTTAGTCA-TAACTATAAA
98900875 GAGGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (25 bp):
TAATATTTAGTCATAACTATAAATT
Found at i:98906029 original size:24 final size:25
Alignment explanation
Indices: 98905976--98906031 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
98905966 AAATCTTACA
*
98905976 ATTTT-AAAAGTAAATATAAATTAT
1 ATTTTAAAAAGTAAATATAAATAAT
*
98906000 AATTTAAAAAGTAAATATAAA-AAT
1 ATTTTAAAAAGTAAATATAAATAAT
98906024 ATTTTAAA
1 ATTTTAAA
98906032 GAATTTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTTAAAAAGTAAATATAAATAAT
Found at i:98917658 original size:40 final size:40
Alignment explanation
Indices: 98917473--98917658 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
98917463 GCTCCTCGTT
* * *
98917473 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
98917513 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
98917553 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
98917593 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
98917634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98917659 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.03
40 107 0.85
41 14 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:98925592 original size:40 final size:40
Alignment explanation
Indices: 98925407--98925592 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
98925397 GCTCCTCGTT
* * *
98925407 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
98925447 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
98925487 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
98925527 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
98925568 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98925593 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.03
40 107 0.85
41 14 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:98932473 original size:14 final size:14
Alignment explanation
Indices: 98932454--98932480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98932444 TAGAAAAACC
98932454 CAGAATAAAGAAAT
1 CAGAATAAAGAAAT
98932468 CAGAATAAAGAAA
1 CAGAATAAAGAAA
98932481 CCCAAGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.15, T:0.11
Consensus pattern (14 bp):
CAGAATAAAGAAAT
Found at i:98952558 original size:20 final size:20
Alignment explanation
Indices: 98952535--98952572 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
98952525 AGGAGCACAA
98952535 GAGTGCAATTAGGGGCATCG
1 GAGTGCAATTAGGGGCATCG
*
98952555 GAGTGCAGTTAGGGGCAT
1 GAGTGCAATTAGGGGCAT
98952573 GAATATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.42, T:0.21
Consensus pattern (20 bp):
GAGTGCAATTAGGGGCATCG
Found at i:98954489 original size:224 final size:224
Alignment explanation
Indices: 98954099--98954546 Score: 788
Period size: 224 Copynumber: 2.0 Consensus size: 224
98954089 CTATATAAGT
*
98954099 AACCTTAAGGTTATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
1 AACCTTAAGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
98954164 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
66 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
* * *
98954229 CAATTGCGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTTAAGAGGTTTCTTCCACTTTC
131 CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
*
98954294 CTTGTTCTTTTATTTATATTTTCGTTAGC
196 CTTGTTCTTTTATTTATATTTTCATTAGC
*
98954323 AACCTTAGGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
1 AACCTTAAGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
* **
98954388 TAGTTTTTATTTAGTTTTATTTTTATGTTTGTGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
66 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
* * *
98954453 CGATCGAGAGCAGAGATTGCTCTAGAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
131 CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
98954518 CTTGTTCTTTTATTTATATTTTCATTAGC
196 CTTGTTCTTTTATTTATATTTTCATTAGC
98954547 CTGATCAACT
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 212 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (224 bp):
AACCTTAAGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
CTTGTTCTTTTATTTATATTTTCATTAGC
Found at i:98955144 original size:25 final size:25
Alignment explanation
Indices: 98955099--98955146 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
98955089 ATTTGTCACT
**
98955099 TAATTATATTTAAAATTATTTTTAG
1 TAATTATATTTAAAACAATTTTTAG
98955124 TAATT-TATTTAATAACAATTTTT
1 TAATTATATTTAA-AACAATTTTT
98955147 TTCAATCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TAATTATATTTAAAACAATTTTTAG
Found at i:98958938 original size:26 final size:26
Alignment explanation
Indices: 98958902--98958952 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
98958892 TTTTCAAATC
98958902 GAGTCGAGTGAGACGGAATTCGAATT
1 GAGTCGAGTGAGACGGAATTCGAATT
*
98958928 GAGTCGAGTGAGATGGAATTCGAAT
1 GAGTCGAGTGAGACGGAATTCGAAT
98958953 CGAATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.35, T:0.24
Consensus pattern (26 bp):
GAGTCGAGTGAGACGGAATTCGAATT
Found at i:98959543 original size:31 final size:32
Alignment explanation
Indices: 98959499--98959558 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
98959489 AAGTTTTAAA
*
98959499 GAGTAAGAGTTTG-AGGAAAAATAATAAAGGG
1 GAGTAAAAGTTTGAAGGAAAAATAATAAAGGG
* * *
98959530 GAGTAAAATTTTGAAGGGAAAATATTAAA
1 GAGTAAAAGTTTGAAGGAAAAATAATAAA
98959559 AAAATTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (32 bp):
GAGTAAAAGTTTGAAGGAAAAATAATAAAGGG
Found at i:98961493 original size:90 final size:90
Alignment explanation
Indices: 98961359--98961595 Score: 404
Period size: 90 Copynumber: 2.6 Consensus size: 90
98961349 GATCTCTACT
* * *
98961359 TCTTTCTCATCC-CGTGCACCGTTGTTTGATTTTGCTTCAAGTAAATGCTCATCAATTACTCCAG
1 TCTTTCTCATCCTC-TACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAG
*
98961423 CTGGCAACTCTTTGAACAAGTCGATC
65 CTGGCAACTCTTTGAACAAGTCAATC
98961449 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
98961514 TGGCAACTCTTTGAACAAGTCAATC
66 TGGCAACTCTTTGAACAAGTCAATC
* *
98961539 TTTTTCTCATCCTCTACACTGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATT
1 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATT
98961596 TTGGAAATGG
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
90 139 0.99
91 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (90 bp):
TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
TGGCAACTCTTTGAACAAGTCAATC
Found at i:98962299 original size:21 final size:22
Alignment explanation
Indices: 98962266--98962307 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
98962256 TCAGTCCACC
98962266 TTCTTGTTAGAGA-ATCAAGCTT
1 TTCTTGTTAGAGACA-CAAGCTT
98962288 TTCTTG-TAGAGACACAAGCT
1 TTCTTGTTAGAGACACAAGCT
98962308 CCTTGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (22 bp):
TTCTTGTTAGAGACACAAGCTT
Found at i:98966225 original size:33 final size:33
Alignment explanation
Indices: 98966160--98966230 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
98966150 ACGGGCAGCA
* **
98966160 TGGTGATGGTGGTGGAAGCTTTTTATGTGGTGG
1 TGGTGATGGTGGTGGAAGCTCTGGATGTGGTGG
*
98966193 TGGTGATGGTGGTTGAAGCTCTGGAT-TAGGTGG
1 TGGTGATGGTGGTGGAAGCTCTGGATGT-GGTGG
98966226 TGGTG
1 TGGTG
98966231 GAGGAGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.13, C:0.04, G:0.46, T:0.37
Consensus pattern (33 bp):
TGGTGATGGTGGTGGAAGCTCTGGATGTGGTGG
Found at i:98967558 original size:33 final size:33
Alignment explanation
Indices: 98967499--98967566 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
98967489 ACTTAAACTT
* *
98967499 AAAAAATCAAATTACTTATTCAAGTTAATTCAA
1 AAAAAATCAAATAACTTATTCAAGTTAACTCAA
*
98967532 AAAAAATCGAATAACTTGATTC-AGTTAACTCAA
1 AAAAAATCAAATAACTT-ATTCAAGTTAACTCAA
98967565 AA
1 AA
98967567 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (33 bp):
AAAAAATCAAATAACTTATTCAAGTTAACTCAA
Found at i:98968401 original size:31 final size:31
Alignment explanation
Indices: 98968337--98968433 Score: 176
Period size: 31 Copynumber: 3.1 Consensus size: 31
98968327 TTTCCTAAGG
98968337 TAAAAAAGAAGCCTTTAATTTGGGAAAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGG--AATGTCT
98968370 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
98968401 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
98968432 TA
1 TA
98968434 CCCTCTTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 40 0.62
33 24 0.38
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (31 bp):
TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
Found at i:98970203 original size:19 final size:20
Alignment explanation
Indices: 98970170--98970208 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
98970160 TTCTCCATTT
98970170 TTTCTTTCTCTTTTTCTTTC
1 TTTCTTTCTCTTTTTCTTTC
98970190 TTTCTTTC-CTTTTTCTTTC
1 TTTCTTTCTCTTTTTCTTTC
98970209 CTGTTTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTTTCTCTTTTTCTTTC
Found at i:98970206 original size:11 final size:11
Alignment explanation
Indices: 98970168--98970215 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
98970158 TTTTCTCCAT
98970168 TTTTTCTTTCTC
1 TTTTTCTTTC-C
98970180 TTTTTCTTT-C
1 TTTTTCTTTCC
98970190 --TTTCTTTCC
1 TTTTTCTTTCC
98970199 TTTTTCTTTCC
1 TTTTTCTTTCC
*
98970210 TGTTTC
1 TTTTTC
98970216 GTTTTCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 1 0.03
11 14 0.44
12 9 0.28
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:98974051 original size:12 final size:12
Alignment explanation
Indices: 98974034--98974059 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98974024 ACAGATGATA
98974034 CAAGCTAAAGCT
1 CAAGCTAAAGCT
98974046 CAAGCTAAAGCT
1 CAAGCTAAAGCT
98974058 CA
1 CA
98974060 GACTGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
CAAGCTAAAGCT
Found at i:98977431 original size:8 final size:8
Alignment explanation
Indices: 98977418--98977463 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
98977408 GAGTTTATTC
98977418 AATATAAT
1 AATATAAT
98977426 AATATAAT
1 AATATAAT
*
98977434 ATTATAAT
1 AATATAAT
98977442 -A-AT-AT
1 AATATAAT
98977447 AATATAAT
1 AATATAAT
98977455 AATATAAT
1 AATATAAT
98977463 A
1 A
98977464 GATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 2 0.06
8 26 0.79
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATATAAT
Found at i:98977440 original size:13 final size:13
Alignment explanation
Indices: 98977418--98977463 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 13
98977408 GAGTTTATTC
98977418 AATATAATAATAT
1 AATATAATAATAT
98977431 AATATTATAATAATAT
1 -A-A-TATAATAATAT
98977447 AATATAATAATAT
1 AATATAATAATAT
98977460 AATA
1 AATA
98977464 GATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.50
14 2 0.07
15 2 0.07
16 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:98977441 original size:16 final size:16
Alignment explanation
Indices: 98977420--98977458 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
98977410 GTTTATTCAA
98977420 TATAATAATATAATAT
1 TATAATAATATAATAT
98977436 TATAATAATATAATAT
1 TATAATAATATAATAT
*
98977452 AATAATA
1 TATAATA
98977459 TAATAGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:98978080 original size:29 final size:31
Alignment explanation
Indices: 98978013--98978083 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
98978003 AATCTTAAAT
*
98978013 TTATACATA--AATTTTGATTTAATGTGTAA
1 TTATACATATGAATTTTAATTTAATGTGTAA
*
98978042 TT-TAATATATGAATTTTAATTT-A-GTGTAA
1 TTAT-ACATATGAATTTTAATTTAATGTGTAA
98978071 TTATACATATGAA
1 TTATACATATGAA
98978084 AACTTTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 2 0.06
31 10 0.29
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (31 bp):
TTATACATATGAATTTTAATTTAATGTGTAA
Found at i:98979123 original size:29 final size:25
Alignment explanation
Indices: 98979089--98979143 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 25
98979079 AACGCAAGTG
98979089 ACTAAAACGTAACATTTCAAAGACAAATA
1 ACTAAAACGT-A-A-TT-AAAGACAAATA
*
98979118 ACTAAAATGTAATTAAAGACAAATA
1 ACTAAAACGTAATTAAAGACAAATA
98979143 A
1 A
98979144 AAGTGGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 2 0.08
27 1 0.04
28 1 0.04
29 9 0.36
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (25 bp):
ACTAAAACGTAATTAAAGACAAATA
Found at i:98982765 original size:20 final size:20
Alignment explanation
Indices: 98982740--98982790 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
98982730 AGAGGCACAC
* *
98982740 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTAGAACAT
98982760 GCCCGTGTGGCCTAGAACAT
1 GCCCGTGTGGCCTAGAACAT
*
98982780 GTCCGTGTGGC
1 GCCCGTGTGGC
98982791 TTTCCCGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTAGAACAT
Found at i:98983337 original size:13 final size:13
Alignment explanation
Indices: 98983319--98983355 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
98983309 GACAATTAGT
98983319 AAATCATACATAC
1 AAATCATACATAC
*
98983332 AAATCATACATAT
1 AAATCATACATAC
98983345 AAATTCATACA
1 AAA-TCATACA
98983356 AAACTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:98983781 original size:37 final size:39
Alignment explanation
Indices: 98983687--98983783 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
98983677 CACACCTGAA
*
98983687 TGGCGACCAATGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGGCGACCAATGCCTCATCGGATAGTCCGAAGC-AATAAG
* * *
98983727 TGACGACCAATGTCTCATCGGCTAAG-CCGAAGC-A-AAG
1 TGGCGACCAATGCCTCATCGGAT-AGTCCGAAGCAATAAG
*
98983764 TGGCGACCAAAGCCTCATCG
1 TGGCGACCAATGCCTCATCG
98983784 AATCTATCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 20 0.41
38 1 0.02
40 26 0.53
41 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.18
Consensus pattern (39 bp):
TGGCGACCAATGCCTCATCGGATAGTCCGAAGCAATAAG
Found at i:98995001 original size:21 final size:21
Alignment explanation
Indices: 98994977--98995041 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
98994967 AAGTCTAGCT
98994977 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
98994998 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
*
98995016 GAAGCACACAACTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
98995037 GAAGC
1 GAAGC
98995042 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.26, G:0.25, T:0.09
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:98995018 original size:39 final size:39
Alignment explanation
Indices: 98994959--98995059 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
98994949 ATCGTGATCT
* * * *
98994959 GAAGCCTGAAGTCTAGCTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAACTGCTAAACG
98994998 GAAGCCCGAAGGCTAACTGAAGCACACAACTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAACTGCTAAACG
98995037 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
98995060 TCATCAGAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAACTGCTAAACG
Found at i:99006241 original size:20 final size:20
Alignment explanation
Indices: 99006213--99006251 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
99006203 TAAAACATAA
99006213 TTAAATTTAT-TAATAAAATT
1 TTAAATTTATAT-ATAAAATT
*
99006233 TTAATTTTATATATAAAAT
1 TTAAATTTATATATAAAAT
99006252 AACAAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAATTTATATATAAAATT
Found at i:99006753 original size:17 final size:18
Alignment explanation
Indices: 99006731--99006768 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
99006721 ATTCAAACAT
*
99006731 ACATTCCTATCATAA-AC
1 ACATTCATATCATAATAC
*
99006748 ACATTCATATTATAATAC
1 ACATTCATATCATAATAC
99006766 ACA
1 ACA
99006769 ATAAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
ACATTCATATCATAATAC
Found at i:99008030 original size:26 final size:26
Alignment explanation
Indices: 99007994--99008119 Score: 92
Period size: 26 Copynumber: 4.7 Consensus size: 26
99007984 CTTTGTATTT
99007994 GGGTTGCTCACACAAGCTTCATATCA
1 GGGTTGCTCACACAAGCTTCATATCA
* *
99008020 GGGTTGCTCACACAAGCTTTTGCTTATGA
1 GGGTTGCTCACACAAGC--TT-CATATCA
** ** * **
99008049 -AATTTTTCACACAAGCCTTCGTATTT
1 GGGTTGCTCACACAAG-CTTCATATCA
* *
99008075 GGGTTGCTCACTCAAGCTTCAGATCA
1 GGGTTGCTCACACAAGCTTCATATCA
* *
99008101 GGGTTGCTCAAAGAAGCTT
1 GGGTTGCTCACACAAGCTT
99008120 AGTTCGATTT
Statistics
Matches: 74, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
26 43 0.58
27 12 0.16
28 13 0.18
29 6 0.08
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (26 bp):
GGGTTGCTCACACAAGCTTCATATCA
Found at i:99008077 original size:81 final size:80
Alignment explanation
Indices: 99007943--99008119 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 80
99007933 CGGGACTATT
* * * *
99007943 TTGCTTACATAAGCTTTTGTTTATGAATGACTCACACAAGCCTTTGTATTTGGGTTGCTCACACA
1 TTGCTCACACAAGCTTTTGCTTATGAATGACTCACACAAGCCTTCGTATTTGGGTTGCTCACACA
*
99008008 AGCTTCATATCAGGG
66 AGCTTCAGATCAGGG
*** *
99008023 TTGCTCACACAAGCTTTTGCTTATGAAATTTTTCACACAAGCCTTCGTATTTGGGTTGCTCACTC
1 TTGCTCACACAAGCTTTTGCTTATG-AATGACTCACACAAGCCTTCGTATTTGGGTTGCTCACAC
99008088 AAGCTTCAGATCAGGG
65 AAGCTTCAGATCAGGG
* *
99008104 TTGCTCAAAGAAGCTT
1 TTGCTCACACAAGCTT
99008120 AGTTCGATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 22 0.26
81 63 0.74
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (80 bp):
TTGCTCACACAAGCTTTTGCTTATGAATGACTCACACAAGCCTTCGTATTTGGGTTGCTCACACA
AGCTTCAGATCAGGG
Found at i:99008359 original size:69 final size:69
Alignment explanation
Indices: 99008277--99008411 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
99008267 GCACCGTTAC
99008277 CGTTATCATATCATTTCAAACCCCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
1 CGTTATCATATCATTTCAAACCCCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
99008342 TTAT
66 TTAT
* * *
99008346 CGTTATCATATCATTTCAAACCTCGTAGTAGTATACACAATTTACACATTTCACATAACATTCCA
1 CGTTATCATATCATTTCAAACCCCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
99008411 T
66 T
99008412 ATCCACTTCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (69 bp):
CGTTATCATATCATTTCAAACCCCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
TTAT
Found at i:99009981 original size:16 final size:16
Alignment explanation
Indices: 99009960--99009993 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99009950 CCCACCCGCA
*
99009960 TTAATTTTTTAAAATT
1 TTAATTTTATAAAATT
*
99009976 TTAATTTTATATAATT
1 TTAATTTTATAAAATT
99009992 TT
1 TT
99009994 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTATAAAATT
Found at i:99016367 original size:49 final size:48
Alignment explanation
Indices: 99016250--99016429 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 48
99016240 TACAATATGT
* * * * *
99016250 GTCAGTGTAAGACCATGTATAGGACATGGCATCGGCATGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATC-GCCTCGAT-TTTGATA
**
99016300 G-CTAGTGTAAGACCATGTCTAGGACATGGTGTCAGCCTCGATTTTGATA
1 GTC-AGTGTAAGACCATGTCTAGGACATGGCATC-GCCTCGATTTTGATA
* * * *
99016349 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA--TGGATGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGCCTCGATTTTGAT-A
* *
99016396 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCG
99016430 GTATTATACC
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 4 0.04
47 34 0.30
48 5 0.04
49 34 0.30
50 35 0.31
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGCCTCGATTTTGATA
Found at i:99016417 original size:47 final size:47
Alignment explanation
Indices: 99016110--99016429 Score: 191
Period size: 46 Copynumber: 6.8 Consensus size: 47
99016100 CACATTCTGA
* * *
99016110 GAGCCAGTGTAAGACCATGTTTGGGACATGGCCTC-AGCATTGA-GACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TCGATG--GAT
* * *
99016158 GAGCTAGTATAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA--GAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATGGAT
* * *
99016202 GTAAACCAATGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACAAT--AT
1 G--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-CGATGGAT
* * * * * *
99016248 GTGTCAGTGTAAGACCATGTATAGGACATGGCATCGGCATGGATATGTGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCG--ATG-GAT
* * ** * *
99016298 GAGCTAGTGTAAGACCATGTCTAGGACATGGTGTCAGCCTCGATTTTGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA--TGGAT
* *
99016348 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGAT
99016394 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
99016430 GTATTATACC
Statistics
Matches: 211, Mismatches: 39, Indels: 45
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 14 0.07
46 50 0.24
47 49 0.23
48 20 0.09
49 31 0.15
50 32 0.15
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGAT
Found at i:99022840 original size:53 final size:53
Alignment explanation
Indices: 99022707--99022840 Score: 189
Period size: 53 Copynumber: 2.5 Consensus size: 53
99022697 ATAAGTGCGC
* * * *
99022707 CCGTTTAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATGTGACT
* *
99022760 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATGTGACT
*
99022813 CCGTATAAGACCAT-GTCTGGGATATGGC
1 CCGTATAAGACCATAG-CTGGGCTATGGC
99022841 TTCGGTATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 72 0.99
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATGTGATAATGTGACT
Found at i:99030366 original size:53 final size:53
Alignment explanation
Indices: 99030225--99030375 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
99030215 ATAAGTGCGC
* **
99030225 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
99030278 GCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
99030331 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
99030376 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:99031737 original size:17 final size:16
Alignment explanation
Indices: 99031715--99031758 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
99031705 CTATAATGAT
*
99031715 TAAAATAAAGTTCAAAA
1 TAAAATAAAATT-AAAA
99031732 TAAAATAAAATTAAAA
1 TAAAATAAAATTAAAA
*
99031748 AAAAATTAAAA
1 TAAAA-TAAAA
99031759 AGAAAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
TAAAATAAAATTAAAA
Found at i:99033407 original size:19 final size:19
Alignment explanation
Indices: 99033347--99033408 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
99033337 GAAAACAATG
99033347 ATAAT-AAACAATAAAGCTA
1 ATAATAAAACAATAAAG-TA
*
99033366 ATAA-AAATA-AACAAAGTA
1 ATAATAAA-ACAATAAAGTA
*
99033384 A-AATAAAACAATAAAGAA
1 ATAATAAAACAATAAAGTA
99033402 ATAATAA
1 ATAATAA
99033409 GAGTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.09
18 14 0.40
19 17 0.49
20 1 0.03
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.18
Consensus pattern (19 bp):
ATAATAAAACAATAAAGTA
Found at i:99040931 original size:8 final size:9
Alignment explanation
Indices: 99040905--99040930 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
99040895 AACTTGTTCT
99040905 TAAAAAAAA
1 TAAAAAAAA
99040914 TAAAAAAAA
1 TAAAAAAAA
99040923 TAAAAAAA
1 TAAAAAAA
99040931 TGTGTATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:99050447 original size:6 final size:6
Alignment explanation
Indices: 99050433--99050464 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
99050423 ATTTATTTTA
*
99050433 TTTCGT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
99050465 ATTTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:99056785 original size:14 final size:14
Alignment explanation
Indices: 99056768--99056798 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
99056758 AATTAAAAGT
99056768 AAAAAATAAA-ATA
1 AAAAAATAAACATA
99056781 AAAAAATAAACATA
1 AAAAAATAAACATA
99056795 AAAA
1 AAAA
99056799 TGGCTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAACATA
Found at i:99062254 original size:27 final size:27
Alignment explanation
Indices: 99062222--99062284 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
99062212 AGTTGCTCTG
99062222 ACGATGGCACCACAAGGAAAAATGGTT
1 ACGATGGCACCACAAGGAAAAATGGTT
* *
99062249 ACGATGGCACCACAAGGCACAATGGTT
1 ACGATGGCACCACAAGGAAAAATGGTT
*
99062276 GCGATGGCA
1 ACGATGGCA
99062285 GTGATCCGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (27 bp):
ACGATGGCACCACAAGGAAAAATGGTT
Found at i:99063766 original size:28 final size:28
Alignment explanation
Indices: 99063726--99063835 Score: 132
Period size: 28 Copynumber: 3.9 Consensus size: 28
99063716 CTATGTACGA
* *
99063726 CACTTAGCGTGCGAGAAATTGGGTATGG
1 CACTTAGTGTGCGAGAAATTGAGTATGG
*
99063754 CACTTAGTGTGCGA-AACATTGAGAATGG
1 CACTTAGTGTGCGAGAA-ATTGAGTATGG
* * *
99063782 CACTTAATGTGCGAGATATTGAGTACGG
1 CACTTAGTGTGCGAGAAATTGAGTATGG
* *
99063810 CACTTAGTGTGCGAGATATCGAGTAT
1 CACTTAGTGTGCGAGAAATTGAGTAT
99063836 TCAACTGGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 2 0.03
28 67 0.96
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCGAGAAATTGAGTATGG
Found at i:99065609 original size:24 final size:24
Alignment explanation
Indices: 99065582--99065651 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 24
99065572 GAGATATTAA
99065582 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
* * *
99065606 ATT-AATATGAGA--TAT-TA-A-
1 ATTAAATTTAATATTTATCTAGAT
99065624 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
99065648 ATTA
1 ATTA
99065652 GTATGAGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 2 0.06
21 6 0.18
22 2 0.06
23 7 0.21
24 7 0.21
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTAAATTTAATATTTATCTAGAT
Found at i:99065610 original size:42 final size:42
Alignment explanation
Indices: 99065562--99065689 Score: 213
Period size: 42 Copynumber: 3.1 Consensus size: 42
99065552 TTATTAATTA
99065562 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
99065604 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
* * * *
99065646 ATATTAGTATGAGATATTAAATTTAA-TTATTATTGATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
99065687 ATA
1 ATA
99065690 ATATTTTATT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 16 0.20
42 66 0.80
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (42 bp):
ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
Found at i:99065627 original size:18 final size:19
Alignment explanation
Indices: 99065558--99065628 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
99065548 TATTTTATTA
99065558 ATTAATATTAATATGAGAT
1 ATTAATATTAATATGAGAT
* * *
99065577 ATTAA-ATTAAATTTAATATTT
1 ATTAATATT-AATATGAGA--T
99065598 ATCTAGATATTAATATGAGAT
1 AT-TA-ATATTAATATGAGAT
99065619 ATTAA-ATTAA
1 ATTAATATTAA
99065629 ATTTAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 8 0.20
19 12 0.30
20 2 0.05
21 6 0.15
22 2 0.05
23 7 0.17
24 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTAATATTAATATGAGAT
Found at i:99068981 original size:58 final size:57
Alignment explanation
Indices: 99068846--99068965 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 57
99068836 AGTGATTATC
* * *
99068846 TTAATATTAAATTCAATTTAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAGAA
1 TTAATATTAAATTTAATCTAATATTTATCTTG--AATAAATATTATATTAATTTAAT--AA
*
99068907 TTAATATTAAATTTAATCTAATATTTATCTTG-ATAAGTATTATATTAATTTAAT-A
1 TTAATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAA
99068962 TTAA
1 TTAA
99068966 ATTGATTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 5 0.09
58 20 0.36
61 30 0.55
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (57 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAA
Found at i:99071631 original size:20 final size:20
Alignment explanation
Indices: 99071606--99071655 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
99071596 TGGCTTAAAA
99071606 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
99071626 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
99071643 GTGGTAGTGGATT
1 TTGGTAGTGGATT
99071656 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:99076270 original size:20 final size:20
Alignment explanation
Indices: 99076245--99076294 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
99076235 TGGCTTAAAA
99076245 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
99076265 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
99076282 GTGGTAGTGGATT
1 TTGGTAGTGGATT
99076295 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:99079747 original size:21 final size:21
Alignment explanation
Indices: 99079720--99079768 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
99079710 GTAACGCAGA
* *
99079720 TATATTTATTTTTTTTGTTCTT
1 TATATTTAGTATTTTTGTT-TT
99079742 TA-ATTTAGTATTTTTGTTTT
1 TATATTTAGTATTTTTGTTTT
99079762 TATATTT
1 TATATTT
99079769 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.73
Consensus pattern (21 bp):
TATATTTAGTATTTTTGTTTT
Found at i:99082543 original size:245 final size:245
Alignment explanation
Indices: 99082107--99082593 Score: 893
Period size: 245 Copynumber: 2.0 Consensus size: 245
99082097 TTCTTACCAT
*
99082107 TTCCGTTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
*
99082172 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCCAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
*
99082237 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACGTGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
99082302 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
* *
99082352 TTCCATTTTAGGTTGTAGCATATACCCCTAATATTTCTCATTTGTTTTCTTCTTTGTTAATTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
99082417 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
* * *
99082482 ATAATATCCCTTGCTTGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
*
99082547 TTGATCAGCGTTGCACTTAGTGCATTCATATTCAAATGAATTCTCAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAG
99082594 AAGTGTGTAA
Statistics
Matches: 233, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 233 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (245 bp):
TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
Found at i:99093088 original size:18 final size:19
Alignment explanation
Indices: 99093067--99093102 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99093057 AAAAAAAGTT
99093067 AAAA-ATGAAAAAAAAAAC
1 AAAATATGAAAAAAAAAAC
*
99093085 AAAATCTGAAAAAAAAAA
1 AAAATATGAAAAAAAAAA
99093103 GGATGGAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (19 bp):
AAAATATGAAAAAAAAAAC
Found at i:99093378 original size:20 final size:19
Alignment explanation
Indices: 99093316--99093379 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
99093306 GATTTTTATA
*
99093316 TTGTTATTG-TGTTT-TTG
1 TTGTTATTGATTTTTGTTG
*
99093333 TTGTTATT-ATTATTGTTG
1 TTGTTATTGATTTTTGTTG
*
99093351 ATTTTTATTGATTTTTGTTG
1 -TTGTTATTGATTTTTGTTG
99093371 TTAGTTATT
1 TT-GTTATT
99093380 ATTGTTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 11 0.30
18 3 0.08
19 9 0.24
20 14 0.38
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (19 bp):
TTGTTATTGATTTTTGTTG
Found at i:99093386 original size:13 final size:13
Alignment explanation
Indices: 99093368--99093395 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99093358 TTGATTTTTG
99093368 TTGTTAGTTATTA
1 TTGTTAGTTATTA
99093381 TTGTTAGTTATTA
1 TTGTTAGTTATTA
99093394 TT
1 TT
99093396 ATTGTTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTTAGTTATTA
Found at i:99093394 original size:16 final size:16
Alignment explanation
Indices: 99093330--99093403 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 16
99093320 TATTGTGTTT
99093330 TTGTT-GTTATTATTA
1 TTGTTAGTTATTATTA
* *
99093345 TTGTTGATTTTTATTGATTT
1 TTGTT-A--GTTATT-ATTA
99093365 TTGTT-GTTAGTTATTA
1 TTGTTAGTTA-TTATTA
99093381 TTGTTAGTTATTATTA
1 TTGTTAGTTATTATTA
99093397 TTGTTAG
1 TTGTTAG
99093404 GTAAAAATCC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.10
16 24 0.50
17 6 0.12
19 5 0.10
20 8 0.17
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (16 bp):
TTGTTAGTTATTATTA
Found at i:99093395 original size:36 final size:35
Alignment explanation
Indices: 99093327--99093395 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 35
99093317 TGTTATTGTG
*
99093327 TTTTTGTTGTTATTATTATTGTTGATTTTTATTGA
1 TTTTTGTTGTTATTATTATTGTTGATTATTATTGA
99093362 TTTTTGTTGTTAGTTATTATTGTT-AGTTATTATT
1 TTTTTGTTGTTA-TTATTATTGTTGA-TTATTATT
99093396 ATTGTTAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.68
Consensus pattern (35 bp):
TTTTTGTTGTTATTATTATTGTTGATTATTATTGA
Found at i:99093441 original size:23 final size:26
Alignment explanation
Indices: 99093388--99093445 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
99093378 TTATTGTTAG
*
99093388 TTATTATTATTGTTAGGTAAAAATCC
1 TTATTATTATTGTTAGGTAAAAATAC
99093414 TTATTATTATTGTTA-GTAAAAA-AC
1 TTATTATTATTGTTAGGTAAAAATAC
99093438 -TATTATTA
1 TTATTATTA
99093446 GGATTGTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 8 0.26
24 1 0.03
25 7 0.23
26 15 0.48
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (26 bp):
TTATTATTATTGTTAGGTAAAAATAC
Done.