Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 691 of 770
Found at i:217767380 original size:68 final size:66
Alignment explanation
Indices: 217767308--217767478 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
217767298 CATCATGTGT
* * * *
217767308 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
217767371 TGTAG
62 TGTAG
** * *
217767376 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
217767441 AG
65 AG
* * *
217767443 ACAAGAGAGCTACGAGATAAATG--GCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
217767479 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.27
65 15 0.17
66 4 0.04
67 33 0.37
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:217767413 original size:64 final size:64
Alignment explanation
Indices: 217767332--217767514 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
217767322 AGACATTATG
* * *
217767332 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
217767396 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
217767461 AA
63 AA
* *
217767463 ATG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
217767515 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 18 0.18
66 3 0.03
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:217779167 original size:19 final size:19
Alignment explanation
Indices: 217779139--217779180 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
217779129 ATACAGACTC
*
217779139 AATT-TATGTCCTAGGCAA
1 AATTATATGTCCTAAGCAA
217779157 AATTATATGTCCTAAGCAA
1 AATTATATGTCCTAAGCAA
217779176 AATTA
1 AATTA
217779181 CCATTTTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
AATTATATGTCCTAAGCAA
Found at i:217780661 original size:26 final size:27
Alignment explanation
Indices: 217780613--217780665 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
217780603 GTGTCTTAAT
*
217780613 TTATTATTTGTGTTTAATATGTCCTAG
1 TTATTACTTGTGTTTAATATGTCCTAG
*
217780640 TTATTACTTGT-TTTAATGTGTCCTAG
1 TTATTACTTGTGTTTAATATGTCCTAG
217780666 CTGAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (27 bp):
TTATTACTTGTGTTTAATATGTCCTAG
Found at i:217782241 original size:56 final size:58
Alignment explanation
Indices: 217782146--217782284 Score: 142
Period size: 56 Copynumber: 2.4 Consensus size: 58
217782136 TGTTGTATGA
* ** * * *
217782146 TAGGATTACCAGTCCAGGATAAATCTTTTATCTAGCGTATGCTCAAAAAGC-TTG-AT
1 TAGGATTACCAGTCCAGGCTAAATCCCTAATCTAACGTATACTCAAAAAGCATTGTAT
* * *
217782202 TAGGATTACCAGTCCAGGCTAAA-CCCTAATCTTAACGTATACTCGAGAGGCATTGTAT
1 TAGGATTACCAGTCCAGGCTAAATCCCTAATC-TAACGTATACTCAAAAAGCATTGTAT
*
217782260 TAGGATTACCCA-TCTAGGCTAAATC
1 TAGGATTA-CCAGTCCAGGCTAAATC
217782285 TTTTATATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
55 5 0.07
56 36 0.53
57 3 0.04
58 20 0.29
59 4 0.06
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (58 bp):
TAGGATTACCAGTCCAGGCTAAATCCCTAATCTAACGTATACTCAAAAAGCATTGTAT
Found at i:217791145 original size:2 final size:2
Alignment explanation
Indices: 217791138--217791163 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
217791128 ATTAAGTTAT
217791138 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
217791164 AGTAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:217791183 original size:11 final size:11
Alignment explanation
Indices: 217791167--217791209 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
217791157 ATATATAAGT
217791167 AAAAGAAAAAA
1 AAAAGAAAAAA
217791178 AAAAGAAAAAA
1 AAAAGAAAAAA
*
217791189 AAGAATAGAAAAA
1 AA-AAGA-AAAAA
*
217791202 GAAAGAAA
1 AAAAGAAA
217791210 GGATGAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 15 0.56
12 6 0.22
13 6 0.22
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:217791192 original size:20 final size:20
Alignment explanation
Indices: 217791167--217791205 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
217791157 ATATATAAGT
217791167 AAAAGAAAAAAAAAAGAAAA
1 AAAAGAAAAAAAAAAGAAAA
* *
217791187 AAAAGAATAGAAAAAGAAA
1 AAAAGAAAAAAAAAAGAAA
217791206 GAAAGGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAGAAAA
Found at i:217791271 original size:21 final size:22
Alignment explanation
Indices: 217791236--217791277 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
217791226 AGAGCAGGGG
*
217791236 AAAGAAAGAAGGAAGGAAAAAA
1 AAAGAAAGAAAGAAGGAAAAAA
217791258 AAAG-AAGAAAGAAGGAAAAA
1 AAAGAAAGAAAGAAGGAAAAA
217791278 GGGAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAAGAAGGAAAAAA
Found at i:217793341 original size:46 final size:46
Alignment explanation
Indices: 217793289--217793613 Score: 393
Period size: 46 Copynumber: 7.0 Consensus size: 46
217793279 AGTGTGCTCT
217793289 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
217793335 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
217793381 CTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
217793427 GTGATATGAAA-ATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
217793472 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
217793518 ATGACA-GAAAATGAATGAGCAAGACCATAGTTGAAAGACACTATGGCAAC
1 CTGATATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
217793568 ATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
217793614 ATGACAGAAA
Statistics
Matches: 243, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
45 43 0.18
46 163 0.67
50 36 0.15
51 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:217793411 original size:21 final size:21
Alignment explanation
Indices: 217793341--217793412 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
217793331 CAACCTGATA
217793341 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
217793362 TGAAA-GATATCATGGCAACC-TGGT
1 TGAAATG-TGT-A-AG--ACCATGGT
217793386 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
217793408 TGAAA
1 TGAAA
217793413 GATACCATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 5 0.13
23 2 0.05
24 5 0.13
25 10 0.26
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:217793564 original size:96 final size:93
Alignment explanation
Indices: 217793304--217793658 Score: 416
Period size: 96 Copynumber: 3.8 Consensus size: 93
217793294 ATGAAATGTG
* * *
217793304 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGTGTAAGACCATAGTTGAAAG
* * ** * **
217793368 ATA-TCATGGCAACCTGGTATGAAATGTG
66 ACACT-ATGGCAACATGACATGAAAAGAA
* * * *
217793396 TAAGACCATGGTTGAAAGATACCATGTCAACGTGATATGAAAA--TGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGTGTAAGACCATAGTTGAAAG
* * *
217793459 ATACCATGGCAACGTGACATGAAAAGAA
66 ACACTATGGCAACATGACATGAAAAGAA
* *
217793487 TAAGACCATGGTTGAAAGATAACATGGCAACATGACA-GAAAATGAATGAGCAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATG--T--GTAAGACCATAGTTG
217793551 AAAGACACTATGGCAACATGACATGAAAAGAA
62 AAAGACACTATGGCAACATGACATGAAAAGAA
217793583 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATG--T--GTAAGACCATAGTTG
217793647 AAAGACACTATG
62 AAAGACACTATG
217793659 TGTAACACCC
Statistics
Matches: 235, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
90 5 0.02
91 73 0.31
92 37 0.16
93 3 0.01
94 1 0.00
96 116 0.49
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (93 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGTGTAAGACCATAGTTGAAAG
ACACTATGGCAACATGACATGAAAAGAA
Found at i:217793616 original size:137 final size:132
Alignment explanation
Indices: 217793302--217793617 Score: 339
Period size: 137 Copynumber: 2.3 Consensus size: 132
217793292 ATATGAAATG
* **
217793302 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAA-C----ATGAAAAGAATAAGACCATGGTTGAAA
* * * * * * * * * *
217793367 GATATCATGGCAACCTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGTCAACGTGAT
61 GATAACATGGCAACATGGAATGAAATGAGCAAGACCATAGTTGAAAGACACCATGGCAACATGAC
217793432 ATGAAAA
126 ATGAAAA
217793439 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGC-A----ACATGAAAAGAATAAGACCATGGTTGAAA
*
217793504 GATAACATGGCAACATGACAGAAAATG-AATGAGCAAGACCATAGTTGAAAGACACTATGGCAAC
61 GATAACATGGCAACATG---G--AATGAAATGAGCAAGACCATAGTTGAAAGACACCATGGCAAC
217793568 ATGACATGAAAA
121 ATGACATGAAAA
217793580 -GAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACATGA
217793618 CAGAAAATGA
Statistics
Matches: 153, Mismatches: 14, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
137 75 0.49
138 1 0.01
140 2 0.01
141 43 0.28
142 32 0.21
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (132 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAAAGAATAAGACCATGGTTGAAAGATAA
CATGGCAACATGGAATGAAATGAGCAAGACCATAGTTGAAAGACACCATGGCAACATGACATGAA
AA
Found at i:217794663 original size:24 final size:24
Alignment explanation
Indices: 217794612--217794754 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
217794602 GCTTTATCAT
*
217794612 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
217794637 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
217794661 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
217794684 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
217794708 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
217794732 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
217794755 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:217794691 original size:47 final size:48
Alignment explanation
Indices: 217794612--217794753 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
217794602 GCTTTATCAT
* *
217794612 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
217794661 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
217794708 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
217794754 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:217794712 original size:71 final size:72
Alignment explanation
Indices: 217794611--217794754 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
217794601 TGCTTTATCA
*
217794611 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
217794676 GCCCTTT
66 GCCCTTT
* * **
217794683 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
217794746 AGCCCTTT
65 AGCCCTTT
217794754 T
1 T
217794755 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:217794829 original size:20 final size:20
Alignment explanation
Indices: 217794804--217794864 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
217794794 TTATGATTAC
217794804 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
217794824 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
217794844 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
217794864 A
1 A
217794865 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:217794934 original size:25 final size:25
Alignment explanation
Indices: 217794906--217794953 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
217794896 ATACATAAAC
* * *
217794906 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
217794931 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
217794954 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:217796224 original size:26 final size:26
Alignment explanation
Indices: 217796188--217796285 Score: 117
Period size: 26 Copynumber: 3.7 Consensus size: 26
217796178 CAAGGGTTTT
*
217796188 AGTAATTTTGTAAATCGAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGTAAAAC
* *
217796214 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGTAAAAC
* *
217796241 AGTAATTCTATAAATC-AGGTAAAAT
1 AGTAATTCTGTAAATCGAGGTAAAAC
*
217796266 GGTAAATTCTGTAAATCGAG
1 AGT-AATTCTGTAAATCGAG
217796286 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
25 9 0.14
26 30 0.48
27 24 0.38
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (26 bp):
AGTAATTCTGTAAATCGAGGTAAAAC
Found at i:217798528 original size:39 final size:39
Alignment explanation
Indices: 217798482--217798560 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 39
217798472 CGGGATTTAA
217798482 CCGGATATAGCT-ACTCGCT-CAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCG-TACAATGCCTTCGGGACATAGC
* *
217798521 CCGGATATAGTAACTCGTACCATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGTACAATGCCTTCGGGACATAGC
217798560 C
1 C
217798561 TGTGAGCCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTAACTCGTACAATGCCTTCGGGACATAGC
Found at i:217800402 original size:39 final size:39
Alignment explanation
Indices: 217800238--217800420 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
217800228 TCGAATGATG
* * * *
217800238 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
*
217800278 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
217800318 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
*
217800358 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
*
217800398 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
217800421 TGAACGAGTA
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 37 0.29
40 85 0.66
41 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:217800429 original size:79 final size:80
Alignment explanation
Indices: 217800238--217800455 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
217800228 TCGAATGATG
* * **
217800238 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
217800302 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
217800318 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
217800381 T-GTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
217800398 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
217800456 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
78 16 0.13
79 47 0.39
80 48 0.40
81 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:217808457 original size:40 final size:40
Alignment explanation
Indices: 217808265--217808450 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
217808255 TTCAATGATG
* * *
217808265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
217808305 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
217808345 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
217808385 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
217808426 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
217808451 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:217808457 original size:80 final size:80
Alignment explanation
Indices: 217808265--217808483 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
217808255 TTCAATGATG
* * **
217808265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
217808329 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* * *
217808345 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
217808407 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
217808426 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
217808484 TACGTGATTC
Statistics
Matches: 117, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
79 19 0.16
80 88 0.75
81 10 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:217809277 original size:18 final size:19
Alignment explanation
Indices: 217809230--217809277 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
217809220 TCTGGTATTG
217809230 ACACGGGCGTGTCAAAGGC
1 ACACGGGCGTGTCAAAGGC
217809249 ACACGGGCGTGTCAAAGGC
1 ACACGGGCGTGTCAAAGGC
217809268 ACAC-GGCGTG
1 ACACGGGCGTG
217809278 CCTCTGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (19 bp):
ACACGGGCGTGTCAAAGGC
Found at i:217813383 original size:26 final size:30
Alignment explanation
Indices: 217813354--217813409 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
217813344 ATGGGTGATA
217813354 AAATA-ATG-AAA-AAA-AAAAGAAAAAAG
1 AAATAGATGAAAACAAAGAAAAGAAAAAAG
217813380 AAATATGATGAAAACAAAGAAAAGAAAAAA
1 AAATA-GATGAAAACAAAGAAAAGAAAAAA
217813410 AAAAGTGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.20
28 3 0.12
29 3 0.12
30 3 0.12
31 11 0.44
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (30 bp):
AAATAGATGAAAACAAAGAAAAGAAAAAAG
Found at i:217814547 original size:28 final size:28
Alignment explanation
Indices: 217814477--217814575 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
217814467 CATGAAATTG
* * *
217814477 GCACTAAGTGTGCGGGTTTAAAATTTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTT-TATA
217814508 GCACTAAGTGTGCGAGTTTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTTTATA
*
217814536 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTTTATA
217814563 GCACTAAGTGTGC
1 GCACTAAGTGTGC
217814576 AGACTCACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 23 0.36
28 19 0.30
29 4 0.06
31 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTTTATA
Found at i:217814587 original size:27 final size:27
Alignment explanation
Indices: 217814507--217814588 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
217814497 AAATTTGTAC
* * * *
217814507 AGCACTAAGTGTGCGAGTTTGATTTTAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
217814535 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
217814562 AGCACTAAGTGTGC-AGACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
217814589 GTTTTGAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.04
27 30 0.61
28 17 0.35
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:217825658 original size:71 final size:71
Alignment explanation
Indices: 217825572--217825735 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
217825562 CGATTTGTCT
217825572 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
217825637 CTTTCA
66 CTTTCA
217825643 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
217825708 CTTTCA
66 CTTTCA
217825714 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
217825736 ATACATCTCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:217832727 original size:71 final size:71
Alignment explanation
Indices: 217832643--217832806 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
217832633 CGATTTGTCT
217832643 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
217832708 CTTTCA
66 CTTTCA
* *
217832714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
217832779 CTTTCA
66 CTTTCA
217832785 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
217832807 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:217832844 original size:71 final size:70
Alignment explanation
Indices: 217832643--217832840 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
217832633 CGATTTGTCT
* * * * *
217832643 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
217832708 CTTTCA
65 CTTTCA
* * * *
217832714 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
217832779 CTTTCA
65 CTTTCA
* *
217832785 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
217832841 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:217837880 original size:48 final size:48
Alignment explanation
Indices: 217837801--217838072 Score: 305
Period size: 48 Copynumber: 5.7 Consensus size: 48
217837791 TAGGGTTACG
** *
217837801 TGTGATCTCATGTAAGACCACGTCT-AGGACATGACATTGGCATCGATG
1 TGTGATCTCATGTAAGACCATATCTGA-GACATGACATTGGCATCGATA
* * * * * *
217837849 TGTTATCCCATGTAAAACCATGTCTGAGACATGGCATTGGCATTGATA
1 TGTGATCTCATGTAAGACCATATCTGAGACATGACATTGGCATCGATA
* * *
217837897 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
1 TGTGATCTCATGTAAGACCATATCTGAGACATGACATTGGCATCGATA
* * *
217837945 TGTGATCTCATGTAAGACCATATATGGGATATGACATTGGCATCGATA
1 TGTGATCTCATGTAAGACCATATCTGAGACATGACATTGGCATCGATA
* * * * *
217837993 TGTGATCTCATGTAAGACCACAT-TGGGATATGGCATTGGTATCGATA
1 TGTGATCTCATGTAAGACCATATCTGAGACATGACATTGGCATCGATA
* * * *
217838040 TGTGATTTCGTGTAAGACCATGTCTGGGACATG
1 TGTGATCTCATGTAAGACCATATCTGAGACATG
217838073 GCATCGATTT
Statistics
Matches: 198, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
47 41 0.21
48 156 0.79
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCTCATGTAAGACCATATCTGAGACATGACATTGGCATCGATA
Found at i:217837965 original size:96 final size:96
Alignment explanation
Indices: 217837801--217838076 Score: 374
Period size: 96 Copynumber: 2.9 Consensus size: 96
217837791 TAGGGTTACG
* * * * * * *
217837801 TGTGATCTCATGTAAGACCACGTCTAGGACATGACATTGGCATCGATGTGTTATCCCATGTAAAA
1 TGTGATCTCATGTAAGACCACATCTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAGA
* *
217837866 CCATGTCTGAGACATGGCATTGGCATTGATA
66 CCATGTCTGGGACATGGCATTGGCATCGATA
* *
217837897 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAGA
1 TGTGATCTCATGTAAGACCACATCTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAGA
* * * *
217837962 CCATATATGGGATATGACATTGGCATCGATA
66 CCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
217837993 TGTGATCTCATGTAAGACCACAT-TGGGATATGGCATTGGTATCGATATGTGATTTCGTGTAAGA
1 TGTGATCTCATGTAAGACCACATCTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAGA
217838057 CCATGTCTGGGACATGGCAT
66 CCATGTCTGGGACATGGCAT
217838077 CGATTTGAGA
Statistics
Matches: 155, Mismatches: 25, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
95 53 0.34
96 102 0.66
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (96 bp):
TGTGATCTCATGTAAGACCACATCTGGGACATGGCATTGGCATCGATATGTGATCTCATGTAAGA
CCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:217840832 original size:37 final size:37
Alignment explanation
Indices: 217840779--217840869 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
217840769 TATAAAAGAA
217840779 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
217840816 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
217840853 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
217840870 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:217841020 original size:49 final size:49
Alignment explanation
Indices: 217840965--217841268 Score: 482
Period size: 49 Copynumber: 6.4 Consensus size: 49
217840955 TTTTACATTA
217840965 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217841014 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217841063 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217841103 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
217841152 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
217841201 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
217841250 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
217841269 CACATATGTA
Statistics
Matches: 238, Mismatches: 8, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
40 37 0.16
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 195 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:217841082 original size:89 final size:89
Alignment explanation
Indices: 217840986--217841263 Score: 430
Period size: 89 Copynumber: 3.0 Consensus size: 89
217840976 TTATCACATA
217840986 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
217841051 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
217841075 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
217841140 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
217841164 CATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 --T-AC--AT--A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAC
* * * *
217841229 ACTTTCACATTCATCGCATTGGCCATTCGGCCT
57 ACTTTCACATTCACCACATCGGCCATTAGGCCT
217841262 TA
1 TA
217841264 TCACACACAT
Statistics
Matches: 175, Mismatches: 5, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 89 0.51
91 1 0.01
92 2 0.01
94 2 0.01
95 1 0.01
96 2 0.01
98 78 0.45
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:217841213 original size:138 final size:138
Alignment explanation
Indices: 217840965--217841214 Score: 473
Period size: 138 Copynumber: 1.8 Consensus size: 138
217840955 TTTTACATTA
*
217840965 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
217841030 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
217841095 CCACATCG
131 CCACATCG
217841103 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
* *
217841168 ACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTA
217841215 TCACATATAC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 109 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.28
Consensus pattern (138 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
CCACATCG
Found at i:217844678 original size:29 final size:29
Alignment explanation
Indices: 217844642--217844834 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
217844632 TGTTGAAAAA
*
217844642 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
217844671 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
217844700 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
217844729 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
217844758 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
217844787 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
217844816 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
217844835 TATTCATTCG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:217845065 original size:40 final size:40
Alignment explanation
Indices: 217845008--217845212 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
217844998 CGAATACACG
* *
217845008 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
217845048 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
217845088 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
217845128 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
217845168 TCACTAGCATGAATGCTCTTCGGAACTTAGTCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
217845208 TCACT
1 TCACT
217845213 CTCAATTCTC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 155 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:217847083 original size:37 final size:37
Alignment explanation
Indices: 217847030--217847120 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
217847020 TATAAAAGAA
217847030 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
217847067 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
217847104 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
217847121 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:217847271 original size:49 final size:49
Alignment explanation
Indices: 217847216--217847524 Score: 401
Period size: 49 Copynumber: 6.4 Consensus size: 49
217847206 TTTTACATTA
217847216 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
217847265 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217847314 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217847354 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
217847403 GCCATTAGGCC---TCACATATACAT-CACTTTCACATTCATCACATCATCCATTCAG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACA-T--TCAC--CA--CA-TC-G
* * *
217847457 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
217847506 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
217847525 CACATATGTA
Statistics
Matches: 232, Mismatches: 6, Indels: 44
0.82 0.02 0.16
Matches are distributed among these distances:
40 36 0.16
41 1 0.00
42 1 0.00
43 1 0.00
45 10 0.04
46 14 0.06
47 1 0.00
48 5 0.02
49 115 0.50
50 3 0.01
51 2 0.01
52 2 0.01
53 3 0.01
54 12 0.05
55 3 0.01
57 13 0.06
58 10 0.04
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:217847330 original size:89 final size:89
Alignment explanation
Indices: 217847237--217847519 Score: 386
Period size: 89 Copynumber: 3.0 Consensus size: 89
217847227 TTATCACATA
*
217847237 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
217847302 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
217847326 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
217847391 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
217847415 CACATATACATCACTTTCACATTCATCACATCATCCATTCAGGCCATTAGGCCTTATCACATATA
1 TAC--AT--A-CACTTTCACA-T--TCAC--CA--CA-TC-GGCCATTAGGCCTTATCACATATA
* * * *
217847480 CATACACTTTCACATTCATCGCATTGGCCATTCGGCCT
52 CATACACTTTCACATTCACCACATCGGCCATTAGGCCT
217847518 TA
1 TA
217847520 TCACACACAT
Statistics
Matches: 173, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
89 90 0.52
91 2 0.01
93 1 0.01
94 10 0.06
95 1 0.01
97 4 0.02
99 2 0.01
101 2 0.01
102 2 0.01
103 59 0.34
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.30
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:217847511 original size:58 final size:53
Alignment explanation
Indices: 217847400--217847516 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 53
217847390 ATTCACCACA
*
217847400 TCGGCCATTAGGCCTCACATATACATCACTTTCACATTCATCACATCATCCAT
1 TCGGCCATTAGGCCTCACATATACATCACTTTCACATTCATCACATCAGCCAT
* **
217847453 TCAGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTGGCCAT
1 TC-GGCCATTAGGCC---TCACATATACAT-CACTTTCACATTCATCACATCAGCCAT
217847511 TCGGCC
1 TCGGCC
217847517 TTATCACACA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 2 0.04
54 12 0.22
57 16 0.29
58 25 0.45
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.30
Consensus pattern (53 bp):
TCGGCCATTAGGCCTCACATATACATCACTTTCACATTCATCACATCAGCCAT
Found at i:217855124 original size:39 final size:40
Alignment explanation
Indices: 217855066--217855166 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
217855056 AAATTGAATG
* *
217855066 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
217855105 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
217855145 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
217855167 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:217855159 original size:40 final size:40
Alignment explanation
Indices: 217855066--217855248 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
217855056 AAATTGAATG
* * * * *
217855066 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
217855105 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
217855145 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
217855185 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
217855225 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
217855249 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:217859013 original size:40 final size:40
Alignment explanation
Indices: 217858728--217859006 Score: 450
Period size: 40 Copynumber: 7.2 Consensus size: 40
217858718 AACCCAAGTA
* * * *
217858728 CCTTCGGGATTTAG-TCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217858767 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217858807 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217858847 CCTT--GGATCTTAG-CCGG--ATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
217858883 CCTTC-GGACTTAG-CCGG-TATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217858920 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217858960 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217859000 CCTTCGG
1 CCTTCGG
217859007 ATCTTAGTCG
Statistics
Matches: 229, Mismatches: 4, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
36 32 0.14
37 27 0.12
38 15 0.07
39 22 0.10
40 133 0.58
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:217860400 original size:13 final size:13
Alignment explanation
Indices: 217860382--217860407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217860372 ATTTTTATTT
217860382 TTAACATAAAATA
1 TTAACATAAAATA
217860395 TTAACATAAAATA
1 TTAACATAAAATA
217860408 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:217866971 original size:40 final size:40
Alignment explanation
Indices: 217866897--217867169 Score: 421
Period size: 40 Copynumber: 7.2 Consensus size: 40
217866887 AACCCAAGTA
* * *
217866897 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217866936 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217866976 CCTTCGGGACTTAGCCCGGATATAGT-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217867015 CCTTC-GGACTTAG-CCGG--ATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217867051 CCTTC-GGACTTAG--C----ATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217867084 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217867124 CCTTCGGGACTTAGCCCGGATATAGT-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
217867163 CCTTCGG
1 CCTTCGG
217867170 ATCTTAGTCG
Statistics
Matches: 222, Mismatches: 3, Indels: 18
0.91 0.01 0.07
Matches are distributed among these distances:
33 24 0.11
34 8 0.04
35 6 0.03
36 27 0.12
37 4 0.02
38 8 0.04
39 51 0.23
40 94 0.42
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:217868560 original size:13 final size:13
Alignment explanation
Indices: 217868542--217868567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217868532 ATTTTTATTT
217868542 TTAACATAAAATA
1 TTAACATAAAATA
217868555 TTAACATAAAATA
1 TTAACATAAAATA
217868568 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:217872288 original size:40 final size:40
Alignment explanation
Indices: 217872243--217872409 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
217872233 CGGAATATAA
217872243 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
217872283 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
217872323 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
217872363 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
217872402 CCGGATAT
1 CCGGATAT
217872410 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217872393 original size:80 final size:79
Alignment explanation
Indices: 217872259--217872407 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
217872249 ATAACCACGT
*
217872259 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
217872324 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
217872339 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
217872402 CCGGAT
64 CCGGAT
217872408 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:217879776 original size:28 final size:27
Alignment explanation
Indices: 217879713--217879782 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
217879703 ATAGTGAGTC
217879713 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
217879740 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
217879768 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
217879783 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:217887595 original size:28 final size:27
Alignment explanation
Indices: 217887532--217887601 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
217887522 ATAGTGAGTC
217887532 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
217887559 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
217887587 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
217887602 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:217890587 original size:13 final size:13
Alignment explanation
Indices: 217890569--217890593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217890559 TCACCAGACT
217890569 AGAAATTAAAACA
1 AGAAATTAAAACA
217890582 AGAAATTAAAAC
1 AGAAATTAAAAC
217890594 GATTTATGCT
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAACA
Found at i:217891051 original size:2 final size:2
Alignment explanation
Indices: 217891033--217891082 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
217891023 GTGCAAAAGC
* * *
217891033 AT AT GT AT AT GT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
217891075 AT AT AT AT
1 AT AT AT AT
217891083 GCATAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:217891275 original size:2 final size:2
Alignment explanation
Indices: 217891268--217891294 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
217891258 CAAGCTCATC
217891268 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
217891295 CATACATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:217893420 original size:13 final size:14
Alignment explanation
Indices: 217893404--217893439 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
217893394 CAATCTCATA
217893404 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
217893417 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
217893430 TCTC-ATTTCA
1 TCTCAATTTCA
217893440 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:217893429 original size:18 final size:19
Alignment explanation
Indices: 217893391--217893431 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
217893381 TAGTTCATGT
217893391 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
217893410 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
217893428 TTTC
1 TTTC
217893432 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:217893679 original size:23 final size:22
Alignment explanation
Indices: 217893593--217893677 Score: 93
Period size: 21 Copynumber: 3.9 Consensus size: 22
217893583 CTTGATCAGT
*
217893593 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
217893615 A-ACGACACACGAGGTGCCT-A
1 ATACGACACACAAAGTGCCTAA
* *
217893635 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
217893658 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
217893678 GATCGATAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
20 2 0.04
21 33 0.61
22 1 0.02
23 18 0.33
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:217894075 original size:15 final size:15
Alignment explanation
Indices: 217894050--217894107 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
217894040 TCATGTATAT
217894050 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
217894066 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
217894081 AATAATTTCAATCAA
1 TATAAATTCAATCAA
217894096 TATAAATTCAAT
1 TATAAATTCAAT
217894108 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:217897794 original size:25 final size:24
Alignment explanation
Indices: 217897760--217897872 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 24
217897750 TTAAAAGGTC
217897760 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATGTA-TTTT
* *
217897785 CACACACATAGTGCCACGT-TTCCTT
1 CGCACACATAGTGCCATGTATT--TT
* * * *
217897810 -GCACACATAGTGCTATATAATCT
1 CGCACACATAGTGCCATGTATTTT
217897833 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATGTA-TTTT
*
217897858 TGCACACATAGTGCC
1 CGCACACATAGTGCC
217897873 GCATAACCTC
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 3 0.04
24 31 0.44
25 36 0.51
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (24 bp):
CGCACACATAGTGCCATGTATTTT
Found at i:217897817 original size:49 final size:48
Alignment explanation
Indices: 217897761--217897895 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 48
217897751 TAAAAGGTCC
* * *
217897761 GCACACATAGTGCCATGTAGTTTTCACACACATAGTGCCACGT-TTCCTT
1 GCACACATAGTGCCATATA-ATCTCACACACATAGTGCCACGTATT-CTT
* * * *
217897810 GCACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTTTT
1 GCACACATAGTGCCATATAATCTCACACACATAGTGCCACGTA-TTCTT
** *
217897859 GCACACATAGTGCCGCATAACCTCACACACATAGTGC
1 GCACACATAGTGCCATATAATCTCACACACATAGTGC
217897896 TAAAATTTCT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
48 19 0.26
49 51 0.71
50 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
GCACACATAGTGCCATATAATCTCACACACATAGTGCCACGTATTCTT
Found at i:217897837 original size:24 final size:24
Alignment explanation
Indices: 217897760--217897895 Score: 85
Period size: 24 Copynumber: 5.6 Consensus size: 24
217897750 TTAAAAGGTC
* * *
217897760 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATATA-ATCT
* ** *
217897785 CACACACATAGTGCCACGT-TTCCT
1 CGCACACATAGTGCCATATAAT-CT
* *
217897809 TGCACACATAGTGCTATATAATCT
1 CGCACACATAGTGCCATATAATCT
* * *
217897833 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATATA-ATCT
* ** *
217897858 TGCACACATAGTGCCGCATAACCT
1 CGCACACATAGTGCCATATAATCT
*
217897882 CACACACATAGTGC
1 CGCACACATAGTGC
217897896 TAAAATTTCT
Statistics
Matches: 85, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.02
24 47 0.55
25 36 0.42
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (24 bp):
CGCACACATAGTGCCATATAATCT
Found at i:217897888 original size:73 final size:73
Alignment explanation
Indices: 217897760--217897897 Score: 204
Period size: 73 Copynumber: 1.9 Consensus size: 73
217897750 TTAAAAGGTC
* ** **
217897760 CGCACACATAGTGCCATGTAGTTTTCACACACATAGTGCCACGTTTCCTTGCACACATAGTGCTA
1 CGCACACATAGTGCCATGTAGTTTTCACACACATAGTGCCACATAACCTCACACACATAGTGCTA
217897825 TATAATCT
66 TATAATCT
** *
217897833 CGCACACATAGTGCCATGTAGTTTTTGCACACATAGTGCCGCATAACCTCACACACATAGTGCTA
1 CGCACACATAGTGCCATGTAGTTTTCACACACATAGTGCCACATAACCTCACACACATAGTGCTA
217897898 AAATTTCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 57 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (73 bp):
CGCACACATAGTGCCATGTAGTTTTCACACACATAGTGCCACATAACCTCACACACATAGTGCTA
TATAATCT
Found at i:217906970 original size:29 final size:29
Alignment explanation
Indices: 217906937--217907095 Score: 187
Period size: 29 Copynumber: 5.6 Consensus size: 29
217906927 GTGACGAGAT
217906937 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
217906966 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
217906995 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
217907023 T-ACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
217907051 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
217907080 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
217907096 GGCTTAAATT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.19
28 7 0.06
29 84 0.74
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:217907065 original size:56 final size:58
Alignment explanation
Indices: 217906938--217907057 Score: 181
Period size: 56 Copynumber: 2.1 Consensus size: 58
217906928 TGACGAGATT
* * * * *
217906938 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCATGCTGGAAAAATAC
217906996 GGCACTAAGTGTGCATGCTGGAAA-ATAT-ACACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCATGCTGGAAAAATAC
217907052 GGCACT
1 GGCACT
217907058 GGGTGTGCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 30 0.53
57 4 0.07
58 23 0.40
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATGACACTAAGTGTGCATGCTGGAAAAATAC
Found at i:217913001 original size:40 final size:40
Alignment explanation
Indices: 217912956--217913122 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
217912946 CGGAATATAA
217912956 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
217912996 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
217913036 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
217913076 CCGGATATAATTC-C-AGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGG-TCTTAGC
217913115 CCGGATAT
1 CCGGATAT
217913123 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 29 0.28
40 74 0.71
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217918209 original size:29 final size:29
Alignment explanation
Indices: 217918176--217918336 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
217918166 GTGACGAGAT
217918176 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
217918205 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
217918234 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
217918263 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
217918292 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
217918321 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
217918337 GGCTTAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:217921279 original size:40 final size:40
Alignment explanation
Indices: 217921171--217921380 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
217921161 CGGGATTTAA
* * * * *
217921171 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
217921211 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217921251 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217921291 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217921331 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217921371 CCGGATATAT
1 CCGGATATAT
217921381 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:217929414 original size:40 final size:40
Alignment explanation
Indices: 217929306--217929515 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
217929296 CGGGATTTAA
* * * * *
217929306 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
217929346 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217929386 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217929426 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217929466 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
217929506 CCGGATATAT
1 CCGGATATAT
217929516 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:217933701 original size:28 final size:28
Alignment explanation
Indices: 217933669--217933769 Score: 141
Period size: 28 Copynumber: 3.5 Consensus size: 28
217933659 ATAGTGAATC
217933669 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCT
217933697 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-A-TTTCAGCT
* * *
217933727 CGCACACTTAGTGCTGTATA-ATCAAACT
1 CGCACACTTAGTGCTATATATTTC-AGCT
217933755 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
217933770 GTACAATTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.03
28 37 0.55
29 2 0.03
30 26 0.39
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTCAGCT
Found at i:217933725 original size:30 final size:29
Alignment explanation
Indices: 217933669--217933798 Score: 149
Period size: 30 Copynumber: 4.5 Consensus size: 29
217933659 ATAGTGAATC
*
217933669 CGCACACTTAGTGCTATAT-ATTTCAGCT
1 CGCACACTTAGTGCTATATAATTTCAACT
*
217933697 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAA-TTTCAACT
*
217933727 CGCACACTTAGTGCTGTATAA--TCAAACT
1 CGCACACTTAGTGCTATATAATTTC-AACT
* * * *
217933755 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTTCAACT
217933785 CGCACACTTAGTGC
1 CGCACACTTAGTGC
217933799 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 42 0.46
29 1 0.01
30 45 0.49
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTTCAACT
Found at i:217933759 original size:58 final size:58
Alignment explanation
Indices: 217933668--217933798 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
217933658 TATAGTGAAT
* * * * *
217933668 CCGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* * *
217933726 TCGCACACTTAGTGCTGTATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
217933784 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
217933799 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 2 0.03
58 61 0.97
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:217941706 original size:27 final size:29
Alignment explanation
Indices: 217941676--217941789 Score: 90
Period size: 30 Copynumber: 4.0 Consensus size: 29
217941666 ATGCAAGAGC
*
217941676 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
217941703 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* ** *
217941732 ATATAATTTTCAGCTTGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * * *
217941762 GTATA-ATCAAACTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
217941790 GTACAATTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.07
28 21 0.29
29 20 0.27
30 27 0.37
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:217941743 original size:30 final size:30
Alignment explanation
Indices: 217941688--217941818 Score: 153
Period size: 30 Copynumber: 4.5 Consensus size: 30
217941678 ATAGTGAATC
*
217941688 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
217941717 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
* *
217941747 TGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
217941775 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
217941805 CGCACACTTAGTGC
1 CGCACACTTAGTGC
217941819 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 46 0.51
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:217941786 original size:58 final size:58
Alignment explanation
Indices: 217941687--217941818 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
217941677 TATAGTGAAT
* * * * *
217941687 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
** * *
217941746 TTGCACACTTAGTGCTGTATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
217941804 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
217941819 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.67
59 18 0.30
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:217950643 original size:40 final size:40
Alignment explanation
Indices: 217950598--217950764 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
217950588 CGGAATATAA
217950598 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
217950638 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
217950678 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
217950718 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
217950757 CCGGATAT
1 CCGGATAT
217950765 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:217950748 original size:80 final size:79
Alignment explanation
Indices: 217950598--217950764 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
217950588 CGGAATATAA
* *
217950598 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
217950663 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
217950678 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
217950740 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
217950757 CCGGATAT
1 CCGGATAT
217950765 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:217957890 original size:39 final size:40
Alignment explanation
Indices: 217957784--217957949 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
217957774 CGGAATATAA
*
217957784 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAATTGCCTTCGGGTCTTAGC
* * * *
217957824 CCGGATAGAATAACTCGCACGAA-TGCCTTC-GGCCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
* *
217957863 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
217957903 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
217957942 CCGGATAT
1 CCGGATAT
217957950 CATTCAATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 45 0.42
40 57 0.54
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:217967075 original size:39 final size:40
Alignment explanation
Indices: 217966897--217967079 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
217966887 CCGCACCAAG
* * * * * * * *
217966897 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
217966937 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
217966977 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
217967017 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
217967056 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
217967080 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:217969257 original size:39 final size:38
Alignment explanation
Indices: 217969208--217969321 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 38
217969198 TATCACGATT
*
217969208 TGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
217969247 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
217969286 TAGCACAATTGCCTTCGGGTCTTAACCCGGTTATAA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
217969322 TTTCCAGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.58
40 28 0.42
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (38 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:217969315 original size:40 final size:40
Alignment explanation
Indices: 217969177--217969359 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
217969167 CCGCACCAAG
* * * * * * * *
217969177 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
217969217 GCCTTCGGGTCTTAGCCCGGATTTAACAACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
217969256 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * * * *
217969296 GCCTTCGGGTCTTAACCCGGTTATAATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
217969336 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
217969360 CATTCAATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.29
40 84 0.71
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:217976004 original size:40 final size:40
Alignment explanation
Indices: 217975949--217976094 Score: 292
Period size: 40 Copynumber: 3.6 Consensus size: 40
217975939 AACATTGGAA
217975949 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217975989 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217976029 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217976069 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
217976095 CGTTATGGGC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:217984163 original size:40 final size:40
Alignment explanation
Indices: 217984108--217984352 Score: 340
Period size: 40 Copynumber: 6.2 Consensus size: 40
217984098 AACATTGGAA
217984108 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217984148 ATATATCCGGGCTAAGACCCGAAGGCATTCG-GCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217984187 ATATAT-C-GGCT-AGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
217984224 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
217984264 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
217984302 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
217984343 CTATATCCGG
1 ATATATCCGG
217984353 TTAAATCCCG
Statistics
Matches: 181, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
36 17 0.09
37 18 0.10
38 4 0.02
39 46 0.25
40 96 0.53
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:217984325 original size:79 final size:80
Alignment explanation
Indices: 217984108--217984352 Score: 340
Period size: 79 Copynumber: 3.1 Consensus size: 80
217984098 AACATTGGAA
217984108 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
217984173 CATTCG-GCGAGTTG
66 CATTCGTGCGAGTTG
217984187 ATATAT-C-GGCT-AGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
217984249 CATTCGTGCGAGTTG
66 CATTCGTGCGAGTTG
* * * * * * * *
217984264 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAG
* *
217984327 GCAATCGTGCGAGTCG
65 GCATTCGTGCGAGTTG
*
217984343 CTATATCCGG
1 ATATATCCGG
217984353 TTAAATCCCG
Statistics
Matches: 150, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
76 57 0.38
77 18 0.12
78 4 0.03
79 68 0.45
80 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCGAGTTG
Found at i:217988200 original size:39 final size:41
Alignment explanation
Indices: 217988146--217988287 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 41
217988136 AACCCAAGTA
* *
217988146 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
217988185 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
217988225 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
217988265 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
217988288 CATTCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
39 13 0.14
40 78 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:217996730 original size:39 final size:41
Alignment explanation
Indices: 217996676--217996817 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 41
217996666 AACCCAAGTA
* *
217996676 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
217996715 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGTACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
217996755 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
217996795 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
217996818 CGTTCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
39 13 0.14
40 76 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:218010847 original size:93 final size:93
Alignment explanation
Indices: 218010735--218010906 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
218010725 CGCCCATAAG
* *
218010735 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
218010800 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
218010828 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
218010893 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
218010907 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:218010903 original size:46 final size:46
Alignment explanation
Indices: 218010728--218010903 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
218010718 TGTAACCCGC
* * *
218010728 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
218010774 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
218010824 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
218010867 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
218010904 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:218015197 original size:40 final size:39
Alignment explanation
Indices: 218015143--218015318 Score: 142
Period size: 40 Copynumber: 4.4 Consensus size: 39
218015133 ATTTGCACAA
*
218015143 GGTCTTA-CCCGGATATCACGATTTGCACAAATGCCTTCG
1 GGTCTTAGCCCGGATAT-ACGACTTGCACAAATGCCTTCG
* * * *
218015182 GGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCG
1 GGTCTTAGCCCGGATA-TACGACTTGCACAAATGCCTTCG
* * * *
218015222 GGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCG
1 GGTCTTAGCCCGGATATA-CGACTTGCACAAATGCCTTCG
* * * * *
218015262 GGTCTTAACCCGGTTATA--ATTTCCAGCATAATTGTCTTCG
1 GGTCTTAGCCCGGATATACGACTTGCA-CA-AA-TGCCTTCG
*
218015302 GGGCTTAGCCCGGATAT
1 GGTCTTAGCCCGGATAT
218015319 CATTCAATTT
Statistics
Matches: 108, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 9 0.08
40 93 0.86
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (39 bp):
GGTCTTAGCCCGGATATACGACTTGCACAAATGCCTTCG
Found at i:218026065 original size:39 final size:40
Alignment explanation
Indices: 218026005--218026261 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
218025995 CGGATGATAA
* *
218026005 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
218026045 TCGGGCTAAG-CCCGATGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
218026084 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
218026124 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
218026164 CCGGACTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
218026204 CCGGGCTAAGTCCCGAAGGCATTTGGGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
218026244 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
218026262 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 49 0.25
40 148 0.75
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:218026242 original size:40 final size:40
Alignment explanation
Indices: 218026001--218026228 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
218025991 TATTCGGATG
* *
218026001 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
218026041 A-ATTTCGGGCTAAG-CCCGATGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
218026080 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
218026120 ATAACCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
218026160 ATAACCGGACTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
218026200 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
218026229 GGCAAGTAGC
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 34 0.20
40 139 0.80
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:218028519 original size:25 final size:25
Alignment explanation
Indices: 218028485--218028541 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
218028475 TTATAGACCC
* *
218028485 CGAGGAATAAATTTTGGAGGTCGGT
1 CGAGGAATAAATTTCGGAGGTCGAT
218028510 CGAGGAATAAATTTCGGAGGTCGAT
1 CGAGGAATAAATTTCGGAGGTCGAT
218028535 CGAGGAA
1 CGAGGAA
218028542 AATGAAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.35, T:0.23
Consensus pattern (25 bp):
CGAGGAATAAATTTCGGAGGTCGAT
Found at i:218031927 original size:30 final size:30
Alignment explanation
Indices: 218031893--218031950 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
218031883 CCCGAGCCTA
*
218031893 GGGCAATAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * *
218031923 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
218031951 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:218032726 original size:68 final size:63
Alignment explanation
Indices: 218032607--218032868 Score: 188
Period size: 68 Copynumber: 4.0 Consensus size: 63
218032597 GATTGGATGA
* * ** ** * * *
218032607 TACAGATAGTATGTAGCTAGGTCACTTGTATGGGGCTAAGTGCACATCATGT-GTACAAGAGAGC
1 TACAGATA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
*
218032671 TACAAGCCATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAG
1 TAC-AG--A-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAG
218032736 AGC
61 AGC
* ** * * * *
218032739 TACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGA
1 TAC-AGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGA
218032804 GC
62 GC
* * * * *
218032806 TACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGTGTGTTCACCATGT-GTACAAGAGAGC
1 TAC-AGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
218032869 CGAACTATAT
Statistics
Matches: 157, Mismatches: 31, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 28 0.18
65 5 0.03
66 21 0.13
67 34 0.22
68 48 0.31
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (63 bp):
TACAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGC
Found at i:218032764 original size:64 final size:64
Alignment explanation
Indices: 218032685--218032868 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
218032675 AGCCATTATG
* * *
218032685 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
218032749 ATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
218032814 AA
63 AA
* * * *
218032816 AT-TGGCTAGGTCACATGGGTGGTACTGTGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
218032869 CGAACTATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 25 0.26
66 20 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:218033962 original size:2 final size:2
Alignment explanation
Indices: 218033950--218033990 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
218033940 TCATGACATG
*
218033950 TA TA CA TA TA TA 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 TA TA TA TA TA TA T
218033991 GACTAGTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:218038396 original size:2 final size:2
Alignment explanation
Indices: 218038389--218038413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
218038379 TCATGACATG
218038389 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 T
218038414 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:218044200 original size:18 final size:19
Alignment explanation
Indices: 218044179--218044214 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
218044169 ATTGCAATTT
218044179 AATTTT-TTTTAATTACTA
1 AATTTTATTTTAATTACTA
*
218044197 AATTTTATTTTATTTACT
1 AATTTTATTTTAATTACT
218044215 TCTGGTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTATTTTAATTACTA
Found at i:218047541 original size:15 final size:15
Alignment explanation
Indices: 218047521--218047556 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
218047511 CCCTCTCTTC
218047521 TTCTTTCCTTTCCCT
1 TTCTTTCCTTTCCCT
* *
218047536 TTCTTTCCTTTTCTT
1 TTCTTTCCTTTCCCT
218047551 TTCTTT
1 TTCTTT
218047557 ATTTCTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTTCCTTTCCCT
Found at i:218047561 original size:19 final size:19
Alignment explanation
Indices: 218047521--218047575 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
218047511 CCCTCTCTTC
** *
218047521 TTCTTTCCTTTCCCTTTCT
1 TTCTTTCCTTTTTCTTTAT
*
218047540 TTCCTTTTC-TTTTCTTTAT
1 TT-CTTTCCTTTTTCTTTAT
218047559 TTCTTTCCTTTTTCTTT
1 TTCTTTCCTTTTTCTTT
218047576 CCCCTCCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.17
19 19 0.66
20 5 0.17
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (19 bp):
TTCTTTCCTTTTTCTTTAT
Found at i:218047588 original size:16 final size:16
Alignment explanation
Indices: 218047564--218047617 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
218047554 TTTATTTCTT
*
218047564 TCCTTTTTCTTTCCCC
1 TCCTCTTTCTTTCCCC
218047580 TCCTCTTTC-TT--CC
1 TCCTCTTTCTTTCCCC
218047593 -CC-CTTTCTTTCCCC
1 TCCTCTTTCTTTCCCC
218047607 TCCTCTTTCTT
1 TCCTCTTTCTT
218047618 CACCATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 4 0.12
13 2 0.06
14 2 0.06
15 4 0.12
16 15 0.47
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (16 bp):
TCCTCTTTCTTTCCCC
Found at i:218047785 original size:17 final size:17
Alignment explanation
Indices: 218047774--218047818 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
218047764 TTTTATTCCT
218047774 ATTATTTA-TTTATTTA
1 ATTATTTACTTTATTTA
*
218047790 ATTATTTACTTTATTATCC
1 ATTATTTACTTTATT-T-A
218047809 ATTATTTACT
1 ATTATTTACT
218047819 GCATAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 1 0.04
19 10 0.40
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTTACTTTATTTA
Found at i:218049433 original size:13 final size:12
Alignment explanation
Indices: 218049398--218049447 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 12
218049388 CCTTTGAGTC
218049398 ATTTTATTTTATT
1 ATTTTATTTT-TT
218049411 ATTATTATTTTTT
1 ATT-TTATTTTTT
218049424 AATTTTATTTTTCT
1 -ATTTTATTTTT-T
218049438 A-TTTATTTTT
1 ATTTTATTTTT
218049448 GAAGACTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 11 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:218049440 original size:27 final size:25
Alignment explanation
Indices: 218049398--218049447 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
218049388 CCTTTGAGTC
218049398 ATTTTATTTTATTATTATTATTTTTTA
1 ATTTTATTTTATTA-T-TTATTTTTTA
218049425 ATTTTATTTT-TCTATTTATTTTT
1 ATTTTATTTTAT-TATTTATTTTT
218049448 GAAGACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 12 0.55
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
ATTTTATTTTATTATTTATTTTTTA
Found at i:218051301 original size:30 final size:30
Alignment explanation
Indices: 218051266--218051322 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
218051256 CAGGCACTTC
218051266 CACACGGGTAAACCACACGCCCGTGTGAGG
1 CACACGGGTAAACCACACGCCCGTGTGAGG
**
218051296 CACACGGGTAGGCCACACGCCCGTGTG
1 CACACGGGTAAACCACACGCCCGTGTG
218051323 TCATGGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.35, G:0.32, T:0.11
Consensus pattern (30 bp):
CACACGGGTAAACCACACGCCCGTGTGAGG
Found at i:218052938 original size:12 final size:11
Alignment explanation
Indices: 218052908--218052934 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
218052898 AATTTCATTT
218052908 AAAAATAATTC
1 AAAAATAATTC
218052919 AAAAATAATTC
1 AAAAATAATTC
218052930 AAAAA
1 AAAAA
218052935 ATAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATAATTC
Found at i:218058143 original size:40 final size:40
Alignment explanation
Indices: 218058076--218058227 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
218058066 AAATTGAATG
* * * * *
218058076 ATATCCGGGCTAAGCCCCAAAGACAATTTTGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
218058116 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
218058156 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
218058196 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
218058228 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 85 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:218058241 original size:40 final size:40
Alignment explanation
Indices: 218058114--218058243 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
218058104 TTGCTGGAAA
* * *
218058114 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
218058154 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
218058194 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
218058234 TTATATCCGG
1 TTATATCCGG
218058244 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:218068364 original size:40 final size:40
Alignment explanation
Indices: 218068319--218068485 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
218068309 CGGAATATAA
218068319 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
218068359 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
218068399 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
218068439 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
218068478 CCGGATAT
1 CCGGATAT
218068486 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:218076379 original size:40 final size:40
Alignment explanation
Indices: 218076334--218076500 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
218076324 CGGAATATAA
218076334 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
218076374 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
218076414 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
218076454 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
218076493 CCGGATAT
1 CCGGATAT
218076501 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:218079550 original size:40 final size:40
Alignment explanation
Indices: 218079505--218079634 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
218079495 CGGAATACAA
218079505 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
218079545 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
218079585 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
218079625 CCGGATATAA
1 CCGGATATAA
218079635 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:218082911 original size:17 final size:18
Alignment explanation
Indices: 218082869--218082917 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
218082859 AGTTGAAAAG
218082869 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
218082888 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
218082905 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
218082918 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:218083805 original size:40 final size:39
Alignment explanation
Indices: 218083739--218083904 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
218083729 AAATTGAATG
* * *
218083739 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
218083778 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
218083817 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
218083857 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
218083897 ATATCCGG
1 ATATCCGG
218083905 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:218090328 original size:17 final size:18
Alignment explanation
Indices: 218090286--218090334 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
218090276 AGTTGAAAAG
218090286 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
218090305 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
218090322 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
218090335 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:218091223 original size:40 final size:39
Alignment explanation
Indices: 218091157--218091322 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
218091147 AAATTGAATG
* * *
218091157 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
218091196 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
218091235 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
218091275 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
218091315 ATATCCGG
1 ATATCCGG
218091323 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:218098494 original size:2 final size:2
Alignment explanation
Indices: 218098487--218098518 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
218098477 ATGATTACAA
218098487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
218098519 TCGTGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:218110020 original size:29 final size:27
Alignment explanation
Indices: 218109986--218110088 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
218109976 TACTCAATCA
*
218109986 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
218110015 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
218110044 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
218110073 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
218110089 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:218118055 original size:29 final size:27
Alignment explanation
Indices: 218118021--218118123 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
218118011 TACTCAATCA
*
218118021 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
218118050 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
218118079 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
218118108 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
218118124 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:218125294 original size:40 final size:40
Alignment explanation
Indices: 218125238--218125337 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
218125228 GGATATAGCG
* * * *
218125238 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
218125278 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
218125318 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
218125338 ATCTTAGTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Done.