Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold480
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: 956445
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 2 of 7
Found at i:120648 original size:91 final size:91
Alignment explanation
Indices: 120524--120719 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 91
120514 TTTTACCCAG
* * * *
120524 ATGTATTGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTT
* * **
120589 ACCTAGATGTATCGATACATT-TTTCA
66 ACCCAAATGTATCGATACATTGAAT-A
* * * *
120615 ATGTATCGATACATGTATGAATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTT
120680 ACCCAAATGTATCGATACATTGAATA
66 ACCCAAATGTATCGATACATTGAATA
120706 ATGTATCGATACAT
1 ATGTATCGATACAT
120720 CTAGTTAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 91 0.99
92 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (91 bp):
ATGTATCGATACATGTATCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTT
ACCCAAATGTATCGATACATTGAATA
Found at i:124600 original size:22 final size:21
Alignment explanation
Indices: 124572--124624 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
124562 ATAAATTAAA
124572 TTAAATTAATGAAATTAATTAG
1 TTAAATTAATGAAA-TAATTAG
*
124594 TTAAATTAATGAAATAATTAT
1 TTAAATTAATGAAATAATTAG
*
124615 TTTAATTAAT
1 TTAAATTAAT
124625 TAAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (21 bp):
TTAAATTAATGAAATAATTAG
Found at i:124655 original size:13 final size:13
Alignment explanation
Indices: 124637--124673 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
124627 AAAAGAAAAA
124637 TAATTAAAAATAT
1 TAATTAAAAATAT
124650 TAATT-AAAAT-T
1 TAATTAAAAATAT
124661 TAATTAAAAATAT
1 TAATTAAAAATAT
124674 ATATGTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATTAAAAATAT
Found at i:124663 original size:11 final size:12
Alignment explanation
Indices: 124637--124669 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
124627 AAAAGAAAAA
124637 TAATTAAAAATAT
1 TAATT-AAAATAT
124650 TAATTAAAAT-T
1 TAATTAAAATAT
124661 TAATTAAAA
1 TAATTAAAA
124670 ATATATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 5 0.25
13 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATTAAAATAT
Found at i:125203 original size:51 final size:51
Alignment explanation
Indices: 125148--125254 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
125138 TTTATGAAAA
125148 AAATTCAAAACTCCTAAAATAAATTAAGTTTTTTAAAAACTAATTTAACAT
1 AAATTCAAAACTCCTAAAATAAATTAAGTTTTTTAAAAACTAATTTAACAT
* * *
125199 AAATTCAAAACTCTTAAAATGAATTAAGTTTTTTAAAAACTGATTTAACAT
1 AAATTCAAAACTCCTAAAATAAATTAAGTTTTTTAAAAACTAATTTAACAT
125250 AAATT
1 AAATT
125255 TAATAAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (51 bp):
AAATTCAAAACTCCTAAAATAAATTAAGTTTTTTAAAAACTAATTTAACAT
Found at i:125621 original size:62 final size:62
Alignment explanation
Indices: 125520--125648 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 62
125510 TTGCATGCCT
*
125520 AACA-CTAAAACTTTTCAACAATGTATAAATCACCCTCATTCAAAATTGTTTCAAATTCTTA
1 AACATCTAAAACTTTTCAACAATATATAAATCACCCTCATTCAAAATTGTTTCAAATTCTTA
* * * * *
125581 AACATCTAAAACTTTTCAGCATTATATAAATCACCTTCATTCAAAATTGTTTCAAGTTTTTA
1 AACATCTAAAACTTTTCAACAATATATAAATCACCCTCATTCAAAATTGTTTCAAATTCTTA
125643 AACATC
1 AACATC
125649 ATTCTATTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 4 0.07
62 57 0.93
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (62 bp):
AACATCTAAAACTTTTCAACAATATATAAATCACCCTCATTCAAAATTGTTTCAAATTCTTA
Found at i:126792 original size:19 final size:19
Alignment explanation
Indices: 126768--126821 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
126758 ATCGATACAA
* **
126768 TGTATCAATACATGTTCAT
1 TGTATCGATACATGACCAT
126787 TGTATCGATACATGGACCAT
1 TGTATCGATACAT-GACCAT
126807 TGTATCGATACATGA
1 TGTATCGATACATGA
126822 AACTGGCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGACCAT
Found at i:128460 original size:3 final size:3
Alignment explanation
Indices: 128438--128477 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
128428 AACCATCAAA
* *
128438 GAT GAT GAA GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
128478 GTGACTCGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:135515 original size:19 final size:20
Alignment explanation
Indices: 135483--135539 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
135473 TTGTTTCGAT
* *
135483 ACAA-TGTATTGATACATGT
1 ACAATTGTATCGATACATGG
*
135502 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
*
135521 ACAATTCTATCGATACATG
1 ACAATTGTATCGATACATG
135540 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:135607 original size:13 final size:13
Alignment explanation
Indices: 135589--135613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135579 TATGGCACAT
135589 TGTATCGATACAA
1 TGTATCGATACAA
135602 TGTATCGATACA
1 TGTATCGATACA
135614 TGATGAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:145185 original size:3 final size:3
Alignment explanation
Indices: 145177--145214 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
145167 TTTGAGATTT
145177 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
145215 TACTCACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:145991 original size:52 final size:52
Alignment explanation
Indices: 145947--146072 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
145937 CACTGATCTT
145947 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
**
145999 TGTATCGATACATATAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
146051 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
146073 ATTTCATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:149114 original size:19 final size:19
Alignment explanation
Indices: 149090--149134 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
149080 ATCGCGAGGG
*
149090 ATATTAAAGAAATTAAAGA
1 ATATTAAACAAATTAAAGA
149109 ATATTAAACAAATTAAAGA
1 ATATTAAACAAATTAAAGA
149128 ATATTAA
1 ATATTAA
149135 TTTATGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (19 bp):
ATATTAAACAAATTAAAGA
Found at i:149116 original size:10 final size:10
Alignment explanation
Indices: 149090--149134 Score: 67
Period size: 9 Copynumber: 4.7 Consensus size: 10
149080 ATCGCGAGGG
149090 ATATTAAAGA
1 ATATTAAAGA
149100 A-ATTAAAGA
1 ATATTAAAGA
*
149109 ATATTAAACA
1 ATATTAAAGA
149119 A-ATTAAAGA
1 ATATTAAAGA
149128 ATATTAA
1 ATATTAA
149135 TTTATGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (10 bp):
ATATTAAAGA
Found at i:150058 original size:23 final size:20
Alignment explanation
Indices: 150025--150068 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 20
150015 TAATTTTAAT
150025 AAATAAAATTTACAAATTTTA
1 AAATAAAATTTA-AAATTTTA
*
150046 AAATAAAGTATTTAATATTTTA
1 AAATAAA--ATTTAAAATTTTA
150068 A
1 A
150069 TTTTCAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 8 0.40
23 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATAAAATTTAAAATTTTA
Found at i:150203 original size:17 final size:17
Alignment explanation
Indices: 150176--150209 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
150166 AATAATAAAC
150176 ATTTATAATAATTCTATT
1 ATTTATAATAATT-TATT
150194 ATTT-TAATAATTTATT
1 ATTTATAATAATTTATT
150210 TAATAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTATAATAATTTATT
Found at i:150782 original size:6 final size:6
Alignment explanation
Indices: 150743--150780 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
150733 TATATTCATG
* *
150743 TACATA TACATA TACATA TACATC TACATA TATATA TA
1 TACATA TACATA TACATA TACATA TACATA TACATA TA
150781 TAAAGTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (6 bp):
TACATA
Found at i:151698 original size:27 final size:28
Alignment explanation
Indices: 151643--151696 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 28
151633 GCATATTTTT
151643 ATATATTTTTAATTAAATTTAAATAAAA
1 ATATATTTTTAATTAAATTTAAATAAAA
151671 ATATA-TTTTAATT-AA-TTAAATAAAA
1 ATATATTTTTAATTAAATTTAAATAAAA
151696 A
1 A
151697 AAAATTCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 11 0.42
26 2 0.08
27 8 0.31
28 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
ATATATTTTTAATTAAATTTAAATAAAA
Found at i:152110 original size:21 final size:21
Alignment explanation
Indices: 152086--152126 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
152076 TTTTTTATTT
152086 AAAT-TTAATTATAAAAATATA
1 AAATATTAA-TATAAAAATATA
152107 AAATATTAATATAAAAATAT
1 AAATATTAATATAAAAATAT
152127 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATTAATATAAAAATATA
Found at i:153571 original size:22 final size:22
Alignment explanation
Indices: 153546--153587 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
153536 ATTTTTTATT
153546 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
153568 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
153588 ATTTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:153973 original size:20 final size:19
Alignment explanation
Indices: 153944--153981 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
153934 ATCGATCGAT
153944 ACAATGTATCGATACATGG
1 ACAATGTATCGATACATGG
153963 ACAATTGTATCGATACATG
1 ACAA-TGTATCGATACATG
153982 AAACTGGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
ACAATGTATCGATACATGG
Found at i:154127 original size:20 final size:20
Alignment explanation
Indices: 154102--154153 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
154092 TCAAATCGAT
154102 GTATCGATACATTATGAATC
1 GTATCGATACATTATGAATC
*
154122 GTATCGATACATTATGAATT
1 GTATCGATACATTATGAATC
154142 GTATCGATACAT
1 GTATCGATACAT
154154 AGCTACGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTATGAATC
Found at i:154514 original size:20 final size:20
Alignment explanation
Indices: 154489--154541 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
154479 TTCAAATCAA
154489 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
154509 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
154529 TGTATCGATACAT
1 TGTATCGATACAT
154542 AGCTACGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:158544 original size:13 final size:13
Alignment explanation
Indices: 158526--158551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
158516 CAATTTTTTG
158526 TGTATCGATACAT
1 TGTATCGATACAT
158539 TGTATCGATACAT
1 TGTATCGATACAT
158552 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:158619 original size:21 final size:21
Alignment explanation
Indices: 158593--158642 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
158583 CCAAGAAATG
158593 TATCGATACATCTTTTTCATA
1 TATCGATACATCTTTTTCATA
*
158614 TATCGATACATCTTTTTCATG
1 TATCGATACATCTTTTTCATA
158635 TATCGATA
1 TATCGATA
158643 TATTGCAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (21 bp):
TATCGATACATCTTTTTCATA
Found at i:161137 original size:13 final size:13
Alignment explanation
Indices: 161119--161157 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
161109 ATAATCACCC
*
161119 TGTATCGATACAG
1 TGTATCGATACAA
161132 TGTATCGATACAA
1 TGTATCGATACAA
161145 TGTATCGATACAA
1 TGTATCGATACAA
161158 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:161168 original size:20 final size:20
Alignment explanation
Indices: 161143--161222 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
161133 GTATCGATAC
*
161143 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
161163 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
161188 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
161208 CATGTATCGATACAT
1 AATGTATCGATACAT
161223 TTTGGACATT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
20 33 0.63
25 19 0.37
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:165101 original size:21 final size:21
Alignment explanation
Indices: 165072--165116 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
165062 AAGTTTTCAT
*
165072 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
165092 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
165114 TTT
1 TTT
165117 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:167419 original size:21 final size:21
Alignment explanation
Indices: 167393--167468 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
167383 CTGCCAAGAA
167393 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
167414 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
167434 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
167455 ATGTATCGATACAT
1 ATGTATCGATACAT
167469 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:167438 original size:20 final size:20
Alignment explanation
Indices: 167413--167486 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
167403 ACATCTTTTT
167413 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
167433 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
167454 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
167474 CATGTATCGATAC
1 CATGTATCGATAC
167487 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:167450 original size:41 final size:41
Alignment explanation
Indices: 167393--167486 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
167383 CTGCCAAGAA
167393 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167434 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167475 ATGTATCGATAC
1 ATGTATCGATAC
167487 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:170798 original size:20 final size:20
Alignment explanation
Indices: 170760--170799 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
170750 TTACAAATTT
170760 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
170781 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
170800 CATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:173202 original size:19 final size:19
Alignment explanation
Indices: 173177--173229 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
173167 TTGTATCGAT
*
173177 ACATTGTATCAATACATGT
1 ACATTGTATCAATACATGG
* * *
173196 TCATTGTATCGATATATGG
1 ACATTGTATCAATACATGG
173215 ACATTTGTATCAATA
1 ACA-TTGTATCAATA
173230 TATGAAACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ACATTGTATCAATACATGG
Found at i:173294 original size:13 final size:13
Alignment explanation
Indices: 173276--173333 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
173266 ATCGATACAT
*
173276 GATACATTGTATC
1 GATACAATGTATC
173289 GATACAATGTATC
1 GATACAATGTATC
*
173302 AATACAATGTATC
1 GATACAATGTATC
*
173315 GATACCATGTATC
1 GATACAATGTATC
*
173328 AATACA
1 GATACA
173334 TGATGAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:173313 original size:26 final size:26
Alignment explanation
Indices: 173277--173333 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
173267 TCGATACATG
*
173277 ATACATTGTATCGATACAATGTATCA
1 ATACAATGTATCGATACAATGTATCA
*
173303 ATACAATGTATCGATACCATGTATCA
1 ATACAATGTATCGATACAATGTATCA
173329 ATACA
1 ATACA
173334 TGATGAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
ATACAATGTATCGATACAATGTATCA
Found at i:174526 original size:12 final size:12
Alignment explanation
Indices: 174511--174546 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
174501 ATTTAAATTT
*
174511 AATTATAAATAA
1 AATTTTAAATAA
*
174523 AATTTTTAATAA
1 AATTTTAAATAA
174535 AATTTTAAATAA
1 AATTTTAAATAA
174547 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTTTAAATAA
Found at i:175419 original size:13 final size:13
Alignment explanation
Indices: 175401--175434 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
175391 GTAAAGACAT
*
175401 CAAACCCCAACCC
1 CAAACCCCAAACC
175414 CAAA-CCCAAACC
1 CAAACCCCAAACC
175426 CAAACCCCA
1 CAAACCCCA
175435 GCTGCTAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAACCCCAAACC
Found at i:176588 original size:13 final size:12
Alignment explanation
Indices: 176570--176603 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
176560 TCAGATTCAA
176570 GTTTTGTTGTTTT
1 GTTTTGTT-TTTT
176583 GTTTTGTTTTTT
1 GTTTTGTTTTTT
176595 GTTTT-TTTT
1 GTTTTGTTTT
176604 CCTAAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 9 0.43
13 8 0.38
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (12 bp):
GTTTTGTTTTTT
Found at i:184955 original size:21 final size:21
Alignment explanation
Indices: 184925--184981 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
184915 AAATTATCCA
184925 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
184946 AATGTGTCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
184967 AATGTATCGATACAT
1 AATGTATCGATACAT
184982 CCTACAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:185061 original size:19 final size:19
Alignment explanation
Indices: 185037--185104 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
185027 AGTTCAACGA
185037 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
185056 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
185071 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
185088 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
185105 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:185075 original size:32 final size:32
Alignment explanation
Indices: 185039--185101 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
185029 TTCAACGATT
*
185039 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
185071 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
185102 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:185076 original size:13 final size:13
Alignment explanation
Indices: 185058--185082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185048 ACATAAGTTT
185058 TGTATCGATACAA
1 TGTATCGATACAA
185071 TGTATCGATACA
1 TGTATCGATACA
185083 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185162 original size:13 final size:13
Alignment explanation
Indices: 185144--185169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185134 CATTTTTCTG
185144 TGTATCGATACAT
1 TGTATCGATACAT
185157 TGTATCGATACAT
1 TGTATCGATACAT
185170 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185168 original size:33 final size:33
Alignment explanation
Indices: 185126--185190 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
185116 CAAGGAAATA
***
185126 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
185159 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
185191 TGAAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:192646 original size:28 final size:27
Alignment explanation
Indices: 192582--192650 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
192572 CTTCACAATC
* **
192582 GGGGATACTCTAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
192609 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
192637 GGGGATACTCCAAC
1 GGGGATACTCCAAC
192651 TCCGGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:192763 original size:51 final size:52
Alignment explanation
Indices: 192473--192807 Score: 168
Period size: 51 Copynumber: 6.3 Consensus size: 52
192463 AATTCTCCAC
* *
192473 AATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
* * * *
192524 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACTAATTTTC-T-AT
* * * ** ** * * * ***
192578 AATCGGGGATACTCTAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGT-T
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAAACACTAATTTTC-TAT
* * ** * * *
192629 ATTTCCGAGGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCAC
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAA-TTTTCTAT
* * *
192685 AATCGGGGATACTCCAA-TCTTGGTTTTATTTTC-AAGACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTC-CGATTTTATTTTCAAAAACACTAATTTTCTAT
* * *
192736 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAAACACTAATTTTC-T-AT
*
192790 AATCGGGGATACTTCAAC
1 AATCGGGGATACTCCAAC
192808 CCCGTTATTT
Statistics
Matches: 211, Mismatches: 52, Indels: 39
0.70 0.17 0.13
Matches are distributed among these distances:
51 65 0.31
52 45 0.21
53 31 0.15
54 47 0.22
55 17 0.08
56 3 0.01
57 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACTAATTTTCTAT
Found at i:192985 original size:79 final size:80
Alignment explanation
Indices: 192740--193075 Score: 306
Period size: 79 Copynumber: 4.2 Consensus size: 80
192730 TTCTATAATC
* * * *
192740 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTTC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGGGGATACTCC
*
192805 AACCCCGTTATTTCCGA
64 AACCCCGTTATTTTCGA
* * * * *
192822 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
*
192887 CCTCGTTA-TTTC-A
66 CCCCGTTATTTTCGA
* * *** * * *
192900 TCGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACCCC
1 --GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCC
192964 AACCCCGTTATTTTCGA
64 AACCCCGTTATTTTCGA
* * * ** * * * * *
192981 GGGGATACTCCAATCCCGA-TTTTTTTCTAAGCAT--CGATTTCTCACAACCGGGGATATTCTAG
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
*
193043 CCCCGTTATTTTCAA
66 CCCCGTTATTTTCGA
* *
193058 GGGAACACTCCAACCCCG
1 GGGGATACTCCAACCCCG
193076 TTATTATCTC
Statistics
Matches: 209, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
77 49 0.23
78 4 0.02
79 63 0.30
80 50 0.24
81 14 0.07
82 29 0.14
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGGGGATACTCCAA
CCCCGTTATTTTCGA
Found at i:192993 original size:28 final size:29
Alignment explanation
Indices: 192953--193007 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
192943 TCTCATAATT
192953 GGGGATACCCCAACCCCG-TTATTTTCGA
1 GGGGATACCCCAACCCCGATTATTTTCGA
* * *
192981 GGGGATACTCCAATCCCGATTTTTTTC
1 GGGGATACCCCAACCCCGATTATTTTC
193008 TAAGCATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (29 bp):
GGGGATACCCCAACCCCGATTATTTTCGA
Found at i:203994 original size:3 final size:3
Alignment explanation
Indices: 203986--204033 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
203976 GTTGCATTCC
* * * * *
203986 CAG CAG CAG CAG CAG CAA CAG GAG CAG GAG CAG GAG CAG GAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
204034 GGCAAGCCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:204017 original size:18 final size:18
Alignment explanation
Indices: 203990--204033 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
203980 CATTCCCAGC
203990 AGCAGCAGCAGCAACAGG
1 AGCAGCAGCAGCAACAGG
* * *
204008 AGCAGGAGCAGGAGCAGG
1 AGCAGCAGCAGCAACAGG
204026 AGCAGCAG
1 AGCAGCAG
204034 GGCAAGCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.41, T:0.00
Consensus pattern (18 bp):
AGCAGCAGCAGCAACAGG
Found at i:205010 original size:10 final size:11
Alignment explanation
Indices: 204990--205052 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
204980 TAATAAATTT
204990 TATATTAATTAA
1 TATATT-ATTAA
*
205002 TAT-TTATTAT
1 TATATTATTAA
205012 TATA-TATTTATA
1 TATATTA-TTA-A
* *
205024 TAAATT-TTTA
1 TATATTATTAA
205034 TATATTATTAA
1 TATATTATTAA
205045 TATATTAT
1 TATATTAT
205053 ATTATATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
10 15 0.38
11 18 0.45
12 6 0.15
13 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTATTAA
Found at i:205011 original size:19 final size:20
Alignment explanation
Indices: 204966--205003 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
204956 TTTTTTTATT
204966 ATTTTATAATTAATTAATAA
1 ATTTTATAATTAATTAATAA
204986 ATTTTAT-ATTAATTAATA
1 ATTTTATAATTAATTAATA
205004 TTTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTATAATTAATTAATAA
Found at i:205022 original size:30 final size:29
Alignment explanation
Indices: 204988--205056 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
204978 ATTAATAAAT
*
204988 TTTATATTAATTAATATTTATTATTATATA
1 TTTATATTAATTAATATATATTATTA-ATA
* **
205018 TTTATATAAATTTTTATATATTATTAATA
1 TTTATATTAATTAATATATATTATTAATA
205047 TATTATATTA
1 T-TTATATTA
205057 TATAAACATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTATATTAATTAATATATATTATTAATA
Found at i:205042 original size:23 final size:24
Alignment explanation
Indices: 204990--205048 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
204980 TAATAAATTT
204990 TATATTAAT-TAATATTTATTATTA
1 TATATTAATATAA-ATTTATTATTA
*
205014 TATATTTATATAAATTT-TTA-TA
1 TATATTAATATAAATTTATTATTA
205036 TATTATTAATATA
1 TA-TATTAATATA
205049 TTATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 4 0.13
23 12 0.39
24 12 0.39
25 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTAATATAAATTTATTATTA
Found at i:205496 original size:21 final size:18
Alignment explanation
Indices: 205450--205505 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 18
205440 ATAGATAGAT
*
205450 TTAAATTAAATTATTTT-
1 TTAATTTAAATTATTTTA
205467 TTAATTTAAATTATTTTA
1 TTAATTTAAATTATTTTA
205485 TTAAATATTTAAATTATTTTA
1 TT--A-ATTTAAATTATTTTA
205506 AGTGTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.47
18 2 0.06
20 1 0.03
21 15 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTTAAATTATTTTA
Found at i:205518 original size:24 final size:21
Alignment explanation
Indices: 205455--205505 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
205445 TAGATTTAAA
205455 TTAAATTATTTT-TT--A-AT
1 TTAAATTATTTTATTAAATAT
205472 TTAAATTATTTTATTAAATAT
1 TTAAATTATTTTATTAAATAT
205493 TTAAATTATTTTA
1 TTAAATTATTTTA
205506 AGTGTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
20 1 0.03
21 15 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAAATTATTTTATTAAATAT
Found at i:207940 original size:15 final size:15
Alignment explanation
Indices: 207900--207940 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
207890 ATTTTGAATA
207900 TTTATAGTTAATATGT
1 TTTA-AGTTAATATGT
207916 TTATAA-TTAATATGT
1 TT-TAAGTTAATATGT
207931 TTTAAGTTAA
1 TTTAAGTTAA
207941 ATCCAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 15 0.65
16 3 0.13
17 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
TTTAAGTTAATATGT
Found at i:208052 original size:17 final size:17
Alignment explanation
Indices: 208013--208055 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
208003 ACAATTATAA
208013 ATATATTTTCATAAATT
1 ATATATTTTCATAAATT
* * * *
208030 AAATATTTTTATTATTT
1 ATATATTTTCATAAATT
208047 ATATATTTT
1 ATATATTTT
208056 ATTTTAAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTTTCATAAATT
Found at i:211722 original size:18 final size:18
Alignment explanation
Indices: 211699--211743 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
211689 AACTTAGCTA
* **
211699 ATTTTTTAATCATATTTT
1 ATTTTTTAATCAAAACTT
*
211717 ATTTTTTTATCAAAACTT
1 ATTTTTTAATCAAAACTT
211735 ATTTTTTAA
1 ATTTTTTAA
211744 ATTTAATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTTAATCAAAACTT
Found at i:213087 original size:2 final size:2
Alignment explanation
Indices: 213080--213108 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
213070 ATGGAGAAAC
213080 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
213109 GGTTGTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:213558 original size:17 final size:19
Alignment explanation
Indices: 213528--213565 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
213518 ATTTGAAGTA
213528 TTTTATATTAATAT-AATT
1 TTTTATATTAATATAAATT
213546 TTTTATATT-ATATAAATT
1 TTTTATATTAATATAAATT
213564 TT
1 TT
213566 AAAATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATATTAATATAAATT
Found at i:214274 original size:15 final size:14
Alignment explanation
Indices: 214252--214283 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
214242 TTTTACTCTA
214252 AAACTAAATAATTT
1 AAACTAAATAATTT
214266 AAACTTAAATAATTT
1 AAAC-TAAATAATTT
214281 AAA
1 AAA
214284 TTACTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (14 bp):
AAACTAAATAATTT
Found at i:214502 original size:21 final size:21
Alignment explanation
Indices: 214472--214518 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
214462 AATGTATCAC
* *
214472 TATATTTACATATAAATTAAT
1 TATATGTACATATAAATTAAA
*
214493 TATATGTACATATATATTAAA
1 TATATGTACATATAAATTAAA
214514 TATAT
1 TATAT
214519 ACACATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATGTACATATAAATTAAA
Found at i:214524 original size:21 final size:21
Alignment explanation
Indices: 214479--214524 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
214469 CACTATATTT
* **
214479 ACATATAAATTAATTATATGT
1 ACATATAAATTAAATATATAC
*
214500 ACATATATATTAAATATATAC
1 ACATATAAATTAAATATATAC
214521 ACAT
1 ACAT
214525 TTTACATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (21 bp):
ACATATAAATTAAATATATAC
Found at i:214666 original size:22 final size:22
Alignment explanation
Indices: 214633--214710 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
214623 AAGCCAAATT
*
214633 ATATATACATATAGTAAAAACA
1 ATATGTACATATAGTAAAAACA
* * * *
214655 ACATGTACATATACT-ACAACT
1 ATATGTACATATAGTAAAAACA
* *
214676 ATGTGTACATATAGTAAAAATA
1 ATATGTACATATAGTAAAAACA
214698 ATATGTACATATA
1 ATATGTACATATA
214711 CCATAACTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 16 0.37
22 27 0.63
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (22 bp):
ATATGTACATATAGTAAAAACA
Found at i:214684 original size:21 final size:21
Alignment explanation
Indices: 214632--214725 Score: 71
Period size: 22 Copynumber: 4.4 Consensus size: 21
214622 AAAGCCAAAT
* *
214632 TATATATACATATAGTAAAAAC
1 TATATGTACATATACT-AAAAC
* * *
214654 AACATGTACATATACTACAAC
1 TATATGTACATATACTAAAAC
* * *
214675 TATGTGTACATATAGTAAAAA
1 TATATGTACATATACTAAAAC
* *
214696 TAATATGTACATATACCATAAC
1 T-ATATGTACATATACTAAAAC
*
214718 TATTTGTA
1 TATATGTA
214726 TGTATAGTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
21 26 0.48
22 28 0.52
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (21 bp):
TATATGTACATATACTAAAAC
Found at i:214704 original size:43 final size:43
Alignment explanation
Indices: 214638--214739 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
214628 AAATTATATA
* *
214638 TACATATAGTAAAAACAACATGTACATATACTACAACTATGTG
1 TACATATAGTAAAAATAACATGTACATATACCACAACTATGTG
* * *
214681 TACATATAGTAAAAATAATATGTACATATACCATAACTATTTG
1 TACATATAGTAAAAATAACATGTACATATACCACAACTATGTG
**
214724 TATGTATAGTAAAAAT
1 TACATATAGTAAAAAT
214740 GATTGATACG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (43 bp):
TACATATAGTAAAAATAACATGTACATATACCACAACTATGTG
Found at i:215910 original size:54 final size:55
Alignment explanation
Indices: 215850--216000 Score: 225
Period size: 54 Copynumber: 2.8 Consensus size: 55
215840 AGTTGCAATG
* * **
215850 ATGCCTTGGTGGCAATCAGGTTCGGAGTGA-TTGGTGTCACTTGAAGCTGTGATA
1 ATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTGAAGCTGTGATA
* * *
215904 ATGCCTTAGTGGCGATTAGGTT-TTAGTGACTTGGTGTCACTTGAAGTTGTGATG
1 ATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTGAAGCTGTGATA
215958 ATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTT
1 ATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTT
216001 AGTGCTATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 5 0.06
54 62 0.71
55 20 0.23
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.36
Consensus pattern (55 bp):
ATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTGAAGCTGTGATA
Found at i:216012 original size:55 final size:55
Alignment explanation
Indices: 215847--216028 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 55
215837 TAAAGTTGCA
* * ** *
215847 ATGATGCCTTGGTGGCAATCAGGTTCGGAGTGA-TTGGTGTCACTT-GAAGCTGTG
1 ATGATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTAG-TGCTGTG
* *
215901 ATAATGCCTTAGTGGCGATTAGGTT-TTAGTGACTTGGTGTCACTTGAAGT--TGTG
1 ATGATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTT--AGTGCTGTG
*
215955 ATGATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTAGTGCTATG
1 ATGATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTAGTGCTGTG
**
216010 ATGATGCCTCGGTGGCGAT
1 ATGATGCCTTAGTGGCGAT
216029 TAGAGAAGCC
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
53 8 0.07
54 60 0.55
55 40 0.37
57 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.35
Consensus pattern (55 bp):
ATGATGCCTTAGTGGCGATCAGGTTCTTAGTGACTTGGTGTCACTTAGTGCTGTG
Found at i:222515 original size:22 final size:21
Alignment explanation
Indices: 222476--222528 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
222466 TTCCTTGAAG
* * *
222476 AAAATAATATGTACATATAGTC
1 AAAATGATATGCACATAT-CTC
*
222498 AAAATGATATGCATATATCTC
1 AAAATGATATGCACATATCTC
222519 AAAATTGATA
1 AAAA-TGATA
222529 AGAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAATGATATGCACATATCTC
Found at i:222773 original size:20 final size:20
Alignment explanation
Indices: 222748--222785 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
222738 TTTTTGAAGA
*
222748 AAACAATGTGTACATATATT
1 AAACAATATGTACATATATT
222768 AAACAATATGTACATATA
1 AAACAATATGTACATATA
222786 GCATTACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
AAACAATATGTACATATATT
Found at i:223674 original size:20 final size:21
Alignment explanation
Indices: 223651--223700 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
223641 ACCTCCATTG
223651 GTATCGATATAATTCA-AA-TT
1 GTATCGATATAA-TCATAATTT
*
223671 GTATTGATATAATCATAATTT
1 GTATCGATATAATCATAATTT
223692 GTATCGATA
1 GTATCGATA
223701 CATGGCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (21 bp):
GTATCGATATAATCATAATTT
Found at i:226488 original size:17 final size:18
Alignment explanation
Indices: 226458--226504 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
226448 TAGAAGACAT
226458 AAAAAATAAAAAATT-AAA
1 AAAAAAT-AAAAATTGAAA
226476 AAAAAATAAAAATTGAAA
1 AAAAAATAAAAATTGAAA
* *
226494 ACAAAAGAAAA
1 AAAAAATAAAA
226505 GAAATCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAAAATAAAAATTGAAA
Found at i:228501 original size:19 final size:18
Alignment explanation
Indices: 228479--228524 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
228469 TAATTTTTAA
228479 TATATTCATATTATATTTT
1 TATATTCATATTATA-TTT
*
228498 TATATT-ATGTTATATTT
1 TATATTCATATTATATTT
228515 TATA-TCATAT
1 TATATTCATAT
228525 ATTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.42
18 7 0.29
19 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATTCATATTATATTT
Found at i:235562 original size:16 final size:16
Alignment explanation
Indices: 235505--235567 Score: 81
Period size: 16 Copynumber: 3.8 Consensus size: 16
235495 ATTATTTTTA
235505 TATTTTAAATTTTAAAAT
1 TATTTTAAA-TTT-AAAT
*
235523 TATTTATACATTTAAAT
1 TATTT-TAAATTTAAAT
235540 TATTTTAAATTTAAAT
1 TATTTTAAATTTAAAT
*
235556 TATTTTATATTT
1 TATTTTAAATTT
235568 GATTCATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
16 21 0.51
17 9 0.22
18 8 0.20
19 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTAAATTTAAAT
Found at i:235576 original size:16 final size:16
Alignment explanation
Indices: 235557--235605 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
235547 AATTTAAATT
235557 ATTTTATATTTGAT-TC
1 ATTTTATATTT-ATGTC
*
235573 ATTTTTTATTTATGTC
1 ATTTTATATTTATGTC
* *
235589 ATTTCAAATTTATGTC
1 ATTTTATATTTATGTC
235605 A
1 A
235606 ATTAAGTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 2 0.07
16 26 0.93
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTTTATATTTATGTC
Found at i:236728 original size:27 final size:28
Alignment explanation
Indices: 236673--236728 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
236663 TATTTTTTAT
*
236673 TATTTTATTTTTATAATATTAAAATAAA
1 TATTTTATTTTTATAATAATAAAATAAA
236701 TATTTTATTTTTA-AATTAATAAAA-AAA
1 TATTTTATTTTTATAA-TAATAAAATAAA
236728 T
1 T
236729 TTAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTTTATTTTTATAATAATAAAATAAA
Found at i:242093 original size:2 final size:2
Alignment explanation
Indices: 242080--242113 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
242070 CCTGCTCGAA
*
242080 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
242114 GTTGTGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:242467 original size:27 final size:27
Alignment explanation
Indices: 242437--242491 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
242427 ATTTGAAGAA
242437 AGGGATTTCTAATTCTACTTTTTTTGG
1 AGGGATTTCTAATTCTACTTTTTTTGG
242464 AGGGATTTCTAATTCTACTTTTTTTGG
1 AGGGATTTCTAATTCTACTTTTTTTGG
242491 A
1 A
242492 AAAGAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (27 bp):
AGGGATTTCTAATTCTACTTTTTTTGG
Found at i:242547 original size:2 final size:2
Alignment explanation
Indices: 242540--242574 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
242530 TATGTTCAAA
*
242540 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
242575 ATTTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:244907 original size:19 final size:19
Alignment explanation
Indices: 244868--244907 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
244858 TTTTTTTTTC
*
244868 AAGAATACAAAAAATAAGA
1 AAGAATACAAAAAAGAAGA
*
244887 AAGAATACAAAAAAGAGGA
1 AAGAATACAAAAAAGAAGA
244906 AA
1 AA
244908 CACCAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.07
Consensus pattern (19 bp):
AAGAATACAAAAAAGAAGA
Found at i:245702 original size:18 final size:18
Alignment explanation
Indices: 245679--245745 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
245669 TGATAGGAGG
245679 AGAGATAAGAGAGATAGT
1 AGAGATAAGAGAGATAGT
* *
245697 AGAGATAGAAGGGATGATAGGAGG
1 AGAGAT--AAGAGA-GAT---AGT
*
245721 AGAGATAAGAGAGATATT
1 AGAGATAAGAGAGATAGT
245739 AGAGATA
1 AGAGATA
245746 GAAGGGATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
18 14 0.37
20 5 0.13
21 6 0.16
22 5 0.13
24 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (18 bp):
AGAGATAAGAGAGATAGT
Found at i:245702 original size:42 final size:42
Alignment explanation
Indices: 245646--245797 Score: 241
Period size: 42 Copynumber: 3.6 Consensus size: 42
245636 TAGCCCTCAA
* *
245646 AGAGAAAGAAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
1 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
245688 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
1 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
* *
245730 AGAGATATTAGAGATAGAAGGGATGATAGGAGGAGAGATAAA
1 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
* * *
245772 AGAGATAATAGAGAAAGGAGGGATGA
1 AGAGATAGTAGAGATAGAAGGGATGA
245798 CAAGAGAAGG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.13
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGAAGGGATGATAGGAGGAGAGATAAG
Found at i:245820 original size:84 final size:84
Alignment explanation
Indices: 245655--245820 Score: 244
Period size: 84 Copynumber: 2.0 Consensus size: 84
245645 AAGAGAAAGA
* * * * *
245655 AGAGATAGAAGGGATGATAGGAGGAGAGATAAGAGAGATAGTAGAGATAGAAGGGATGATAGGAG
1 AGAGATAGAAGGGATGATAGGAGGAGAGATAAAAGAGATAATAGAGAAAGAAGGGATGACAAGAG
* *
245720 GAGAGATAAGAGAGATATT
66 AAGAGAGAAGAGAGATATT
*
245739 AGAGATAGAAGGGATGATAGGAGGAGAGATAAAAGAGATAATAGAGAAAGGAGGGATGACAAGAG
1 AGAGATAGAAGGGATGATAGGAGGAGAGATAAAAGAGATAATAGAGAAAGAAGGGATGACAAGAG
245804 AAGGAGAGAAGA-AGATA
66 AA-GAGAGAAGAGAGATA
245821 GAAGAGTGAG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 65 0.89
85 8 0.11
ACGTcount: A:0.48, C:0.01, G:0.39, T:0.13
Consensus pattern (84 bp):
AGAGATAGAAGGGATGATAGGAGGAGAGATAAAAGAGATAATAGAGAAAGAAGGGATGACAAGAG
AAGAGAGAAGAGAGATATT
Found at i:252456 original size:12 final size:12
Alignment explanation
Indices: 252437--252478 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
252427 AAAATTAAAA
252437 AAATTTAT-ATT
1 AAATTTATAATT
252448 AATATTTATAATT
1 AA-ATTTATAATT
252461 AAATTTA-AATTT
1 AAATTTATAA-TT
252473 AAATTT
1 AAATTT
252479 TTTATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.14
12 19 0.68
13 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AAATTTATAATT
Found at i:253063 original size:11 final size:11
Alignment explanation
Indices: 253047--253071 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
253037 AATTATGTAC
253047 TTTAATTTTAA
1 TTTAATTTTAA
253058 TTTAATTTTAA
1 TTTAATTTTAA
253069 TTT
1 TTT
253072 TAACATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:253082 original size:17 final size:17
Alignment explanation
Indices: 253047--253086 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
253037 AATTATGTAC
*
253047 TTTAATTTTAATTTAAT
1 TTTAATTTTAAATTAAT
*
253064 TTTAATTTTAACATTATT
1 TTTAATTTTAA-ATTAAT
253082 TTTAA
1 TTTAA
253087 ATATTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAATTTTAAATTAAT
Found at i:255736 original size:3 final size:3
Alignment explanation
Indices: 255728--255764 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
255718 GTAGAGCTTA
255728 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
255765 CATGCTGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:258046 original size:33 final size:33
Alignment explanation
Indices: 258009--258116 Score: 119
Period size: 33 Copynumber: 3.3 Consensus size: 33
257999 GAAAATGATG
* *
258009 CCACCAACTTGTGTGAACTTTTAAAAAGAGGTA
1 CCACCGACTTGTGTGGACTTTTAAAAAGAGGTA
* * * *
258042 CCACCGACTTATGTGGACTTTGAAAATG-GTTA
1 CCACCGACTTGTGTGGACTTTTAAAAAGAGGTA
* * *
258074 CCATCGACTTGTGAGGACTTTTAAAAAGAGGTG
1 CCACCGACTTGTGTGGACTTTTAAAAAGAGGTA
*
258107 CCACTGACTT
1 CCACCGACTT
258117 ATGGGCTTTG
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
32 26 0.44
33 33 0.56
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (33 bp):
CCACCGACTTGTGTGGACTTTTAAAAAGAGGTA
Found at i:258174 original size:28 final size:28
Alignment explanation
Indices: 258102--258332 Score: 213
Period size: 28 Copynumber: 8.3 Consensus size: 28
258092 TTTTAAAAAG
*
258102 AGGTGCCACTGACTTATGGGCTTTGGAAA
1 AGGTGCCACTGACTTGTGGGCTTT-GAAA
* * * * *
258131 TGATGCTACTAACTTGTGAGCTTTGAAA
1 AGGTGCCACTGACTTGTGGGCTTTGAAA
*
258159 AGGTGCCACTGACTTGTGGGTTTTG-AA
1 AGGTGCCACTGACTTGTGGGCTTTGAAA
**
258186 AGGATGCCACTGACTTGTGAACTTTGAAA
1 AGG-TGCCACTGACTTGTGGGCTTTGAAA
* *** *
258215 AGGTGCTACTGACTTGTAAACTTTG-GA
1 AGGTGCCACTGACTTGTGGGCTTTGAAA
*
258242 AGGATGCCACTAACTTGTGGGCTTTGAAA
1 AGG-TGCCACTGACTTGTGGGCTTTGAAA
258271 AGGTGCCACTGACTTGTGGGC-TT-AAA
1 AGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
258297 AGGATGCCACGGAGTTGT-GGATTT-AAA
1 AGG-TGCCACTGACTTGTGGGCTTTGAAA
258324 AGGATGCCA
1 AGG-TGCCA
258333 TGAAGTTGTA
Statistics
Matches: 168, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
26 8 0.05
27 37 0.22
28 96 0.57
29 27 0.16
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
AGGTGCCACTGACTTGTGGGCTTTGAAA
Found at i:258211 original size:56 final size:56
Alignment explanation
Indices: 258102--258306 Score: 250
Period size: 56 Copynumber: 3.7 Consensus size: 56
258092 TTTTAAAAAG
* * * * *
258102 AGGTGCCACTGACTTATGGGCTTTGGAAATGATGCTACTAACTTGTGAGCTTTGAAA
1 AGGTGCCACTGACTTGTGGG-TTTTGAAAGGATGCCACTAACTTGTGAACTTTGAAA
*
258159 AGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTGACTTGTGAACTTTGAAA
1 AGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGAACTTTGAAA
* **** * **
258215 AGGTGCTACTGACTTGTAAACTTTGGAAGGATGCCACTAACTTGTGGGCTTTGAAA
1 AGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGAACTTTGAAA
* *
258271 AGGTGCCACTGACTTGTGGG-CTTAAAAGGATGCCAC
1 AGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCAC
258307 GGAGTTGTGG
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 13 0.10
56 94 0.75
57 19 0.15
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (56 bp):
AGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGAACTTTGAAA
Found at i:258239 original size:84 final size:85
Alignment explanation
Indices: 258102--258288 Score: 236
Period size: 84 Copynumber: 2.2 Consensus size: 85
258092 TTTTAAAAAG
* ** * * *
258102 AGGTGCCACTGACTTATGGGCTTTGGAAATGATGCTACTAACTTGTGAGCTTTGAAAAGG-TGCC
1 AGGTGCCACTGACTTGTGAACTTTGGAAAAGATGCTACTAACTTGTAAACTTTG-AAAGGATGCC
* *
258166 ACTGACTTGTGGGTTTTG-AA
65 ACTAACTTGTGGGCTTTGAAA
* * *
258186 AGGATGCCACTGACTTGTGAACTTT-GAAAAGGTGCTACTGACTTGTAAACTTTGGAAGGATGCC
1 AGG-TGCCACTGACTTGTGAACTTTGGAAAAGATGCTACTAACTTGTAAACTTTGAAAGGATGCC
258250 ACTAACTTGTGGGCTTTGAAA
65 ACTAACTTGTGGGCTTTGAAA
258271 AGGTGCCACTGACTTGTG
1 AGGTGCCACTGACTTGTG
258289 GGCTTAAAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
83 4 0.04
84 62 0.70
85 23 0.26
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (85 bp):
AGGTGCCACTGACTTGTGAACTTTGGAAAAGATGCTACTAACTTGTAAACTTTGAAAGGATGCCA
CTAACTTGTGGGCTTTGAAA
Found at i:258351 original size:55 final size:55
Alignment explanation
Indices: 258241--258682 Score: 357
Period size: 55 Copynumber: 8.0 Consensus size: 55
258231 TAAACTTTGG
** * * * *
258241 AAGGATGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTG-ACTTGTGGGC-TTAA
1 AAGGATGCCACGGAGTTGT-GGATTT-AAAAGGATGCCA-TGAAGTTGTGGACTTTAA
*
258296 AAGGATGCCACGGAGTTGTGGATTTAAAAGGATGCCATGAAGTTGTAGACTTTAA
1 AAGGATGCCACGGAGTTGTGGATTTAAAAGGATGCCATGAAGTTGTGGACTTTAA
** * * * *
258351 AAGGATAACACAGAGTTGTGGATTTTAAAAGGATGCCATGGAGTTATGGA-GTTAA
1 AAGGATGCCACGGAGTTGTGGA-TTTAAAAGGATGCCATGAAGTTGTGGACTTTAA
* * * * * *
258406 AAGGATACCAAGGAGTTGTGGACTTAAAAGGATGCCACAGAA-TTATGGATTTTAA
1 AAGGATGCCACGGAGTTGTGGATTTAAAAGGATGCCA-TGAAGTTGTGGACTTTAA
* * * * *
258461 AA-GAGTGCCACAGAGTTGTGGACTTAAAAGGGTGACATGAAGTTGTGAACTTTAA
1 AAGGA-TGCCACGGAGTTGTGGATTTAAAAGGATGCCATGAAGTTGTGGACTTTAA
* * * *
258516 AAGGATGCCATGGAGTTGTGAATCTTAAAAGGATGCCA-CAGAGTTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAT-TTAAAAGGATGCCATGA-AGTTGTGGACTTTAA
* * *
258572 AAGGATGCCACGGAGTTGTGGACCTTAAAAGGGTGCCA-CAGAGTTGTGGAC-TTAA
1 AAGGATGCCACGGAGTTGTGGA-TTTAAAAGGATGCCATGA-AGTTGTGGACTTTAA
* * * *
258627 AAGGCTGTCAC-GATGTTATGGACTTTGAAAAGAAATGCCATTGAA-TTGTGGACTTT
1 AAGGATGCCACGGA-GTTGTGGA-TTT-AAAAG-GATGCCA-TGAAGTTGTGGACTTT
258683 GAAGAGGTTA
Statistics
Matches: 318, Mismatches: 51, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
53 8 0.03
54 45 0.14
55 147 0.46
56 101 0.32
57 13 0.04
58 3 0.01
59 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (55 bp):
AAGGATGCCACGGAGTTGTGGATTTAAAAGGATGCCATGAAGTTGTGGACTTTAA
Found at i:258367 original size:28 final size:28
Alignment explanation
Indices: 258151--258682 Score: 378
Period size: 28 Copynumber: 19.1 Consensus size: 28
258141 AACTTGTGAG
* * *
258151 CTTTGAAAAGG-TGCCACTGACTTGTGGG
1 CTTT-AAAAGGATGCCACAGAGTTGTGGA
* * * * *
258179 TTTTGAAAGGATGCCACTGACTTGTGAA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* * * **
258207 CTTTGAAAAGG-TGCTACTGACTTGTAAA
1 CTTT-AAAAGGATGCCACAGAGTTGTGGA
** * *
258235 CTTTGGAAGGATGCCACTA-ACTTGTGGG
1 CTTTAAAAGGATGCCAC-AGAGTTGTGGA
* * *
258263 CTTTGAAAAGG-TGCCACTGACTTGTGGG
1 CTTT-AAAAGGATGCCACAGAGTTGTGGA
*
258291 C-TTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* *
258318 -TTTAAAAGGATGCCA-TGAAGTTGTAGA
1 CTTTAAAAGGATGCCACAG-AGTTGTGGA
**
258345 CTTTAAAAGGATAACACAGAGTTGTGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* ** *
258373 TTTTAAAAGGATGCCATGGAGTTATGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* *
258401 -GTTAAAAGGATACCA-AGGAGTTGTGGA
1 CTTTAAAAGGATGCCACA-GAGTTGTGGA
* *
258428 C-TTAAAAGGATGCCACAGAATTATGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
*
258455 TTTTAAAA-GAGTGCCACAGAGTTGTGGA
1 CTTTAAAAGGA-TGCCACAGAGTTGTGGA
* *
258483 C-TTAAAAGGGTG--ACATGAAGTTGTGAA
1 CTTTAAAAGGATGCCACA-G-AGTTGTGGA
**
258510 CTTTAAAAGGATGCCATGGAGTTGT-GA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* *
258537 ATCTTAAAAGGATGCCACAGAGTTATGGA
1 CT-TTAAAAGGATGCCACAGAGTTGTGGA
*
258566 CTTTAAAAGGATGCCACGGAGTTGTGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* *
258594 CCTTAAAAGGGTGCCACAGAGTTGTGGA
1 CTTTAAAAGGATGCCACAGAGTTGTGGA
* * *
258622 C-TTAAAAGGCTGTCAC-GATGTTATGGA
1 CTTTAAAAGGATGCCACAGA-GTTGTGGA
* ** *
258649 CTTTGAAAAGAAATGCCATTGAATTGTGGA
1 CTTT-AAAAG-GATGCCACAGAGTTGTGGA
258679 CTTT
1 CTTT
258683 GAAGAGGTTA
Statistics
Matches: 406, Mismatches: 69, Indels: 56
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.01
26 10 0.02
27 132 0.33
28 225 0.55
29 19 0.05
30 15 0.04
31 2 0.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
CTTTAAAAGGATGCCACAGAGTTGTGGA
Found at i:258394 original size:83 final size:83
Alignment explanation
Indices: 258241--258682 Score: 432
Period size: 83 Copynumber: 5.3 Consensus size: 83
258231 TAAACTTTGG
* * * * *
258241 AAGGATGCCACT-AACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGG-GCTTAAAAGGATG
1 AAGGATGCCA-TGAAGTTGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGATG
* *
258303 CCACGGAGTTGTGGATTTAA
64 CCACAGAGTTATGGATTTAA
* ** *
258323 AAGGATGCCATGAAGTTGTAGACTTTAAAAGGATAACACAGAGTTGTGGATTTTAAAAGGATGCC
1 AAGGATGCCATGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGATGCC
** *
258388 ATGGAGTTATGGAGTTAA
66 ACAGAGTTATGGATTTAA
* * * * * *
258406 AAGGATACCAAGGAGTTGTGGAC-TTAAAAGGATGCCACAGAATTATGGATTTTAAAA-GAGTGC
1 AAGGATGCCATGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGA-TGC
* *
258469 CACAGAGTTGTGGACTTAA
65 CACAGAGTTATGGATTTAA
* * * ** *
258488 AAGGGTGACATGAAGTTGTGAACTTTAAAAGGATGCCATGGAGTTGTGAATCTTAAAAGGATGCC
1 AAGGATGCCATGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGATGCC
258553 ACAGAGTTATGGACTTTAA
66 ACAGAGTTATGGA-TTTAA
* * * * * *
258572 AAGGATGCCACGGAGTTGTGGACCTTAAAAGGGTGCCACAGAGTTGTGGA-CTTAAAAGGCTGTC
1 AAGGATGCCATGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGATGCC
258636 AC-GATGTTATGGACTTTGAA
66 ACAGA-GTTATGGA-TTT-AA
*
258656 AAGAAATGCCATTGAA-TTGTGGACTTT
1 AAG-GATGCCA-TGAAGTTGTGGACTTT
258683 GAAGAGGTTA
Statistics
Matches: 295, Mismatches: 54, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
81 9 0.03
82 100 0.34
83 117 0.40
84 51 0.17
85 16 0.05
86 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (83 bp):
AAGGATGCCATGAAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGATCTTAAAAGGATGCC
ACAGAGTTATGGATTTAA
Found at i:259238 original size:13 final size:13
Alignment explanation
Indices: 259220--259246 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
259210 ACATTATGCT
259220 TTGTATCGATACA
1 TTGTATCGATACA
259233 TTGTATCGATACA
1 TTGTATCGATACA
259246 T
1 T
259247 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:259261 original size:32 final size:33
Alignment explanation
Indices: 259202--259265 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
259192 ACACCCAAAA
*
259202 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATTATGCATTGTATCGATACATT
259235 GTATCGATACATGT-T-CATTGTATCGATACAT
1 GTATCGATACAT-TATGCATTGTATCGATACAT
259266 GGACAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 13 0.45
34 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
GTATCGATACATTATGCATTGTATCGATACATT
Found at i:259276 original size:20 final size:19
Alignment explanation
Indices: 259230--259286 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
259220 TTGTATCGAT
*
259230 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
259249 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
259268 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
259287 AAACTGCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:267831 original size:19 final size:19
Alignment explanation
Indices: 267806--267861 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
267796 TTGTATCGAT
*
267806 ATATTGTATCGATACATGT
1 ATATTGTATCGATACATGG
* *
267825 TTATTGTATTGATACATGG
1 ATATTGTATCGATACATGG
*
267844 ACATTTGTATCGATACAT
1 ATA-TTGTATCGATACAT
267862 AAAACTGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (19 bp):
ATATTGTATCGATACATGG
Found at i:276343 original size:30 final size:31
Alignment explanation
Indices: 276280--276355 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
276270 TAAATTGAAA
* * * *
276280 AATGTATTGATTCATCTGGGTAAAAAAATAG
1 AATGTATCGATACATCTAGGTAAAAAAACAG
276311 AATGTATCGATACATCTAGGT-AAAAAACAG
1 AATGTATCGATACATCTAGGTAAAAAAACAG
276341 AATGTATCGATACAT
1 AATGTATCGATACAT
276356 GTACTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 23 0.56
31 18 0.44
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (31 bp):
AATGTATCGATACATCTAGGTAAAAAAACAG
Found at i:277579 original size:163 final size:163
Alignment explanation
Indices: 277309--277635 Score: 575
Period size: 163 Copynumber: 2.0 Consensus size: 163
277299 ATTAATGCCA
* *
277309 TGGTGGCTGGTCAAAGCTCAAGAGGAAGATAGGGTGGCTAAAGTTAATGCTTAGTAGCCAATGTT
1 TGGTGGCTGGTCAAAGCTCAAGAGGAAGATAGAGTGGCTAAAGTTAATGCTTAGCAGCCAATGTT
* **
277374 GACAATAAGTTCCCACTATCCATTTTTCATTAGATGCCATGCTTTTGGTTTCAAAAGTGATTGGA
66 GACAATAAGTTCCCACTAACCATTTTTCATTAGATGCCATGCTTTTGGTTTCAAAAGTGATCAGA
277439 GCTTGATTATAAAGTTTGACAATTGACATGAAT
131 GCTTGATTATAAAGTTTGACAATTGACATGAAT
**
277472 TGGTGGCTGGTCAAAGCTCAAGAGGAAGATAGAGTGGCTGGAGTTAATGCTTCA-CAGCCAATGT
1 TGGTGGCTGGTCAAAGCTCAAGAGGAAGATAGAGTGGCTAAAGTTAATGCTT-AGCAGCCAATGT
277536 TGACAATAAGTTCCCACTAACCATTTTTCATTAGATGCCATGCTTTTGGTTTCAAAAGTGATCAG
65 TGACAATAAGTTCCCACTAACCATTTTTCATTAGATGCCATGCTTTTGGTTTCAAAAGTGATCAG
277601 AGCTTGATTATAAAGTTTGACAATTGACATGAAT
130 AGCTTGATTATAAAGTTTGACAATTGACATGAAT
277635 T
1 T
277636 ATGATTACTT
Statistics
Matches: 156, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
163 155 0.99
164 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (163 bp):
TGGTGGCTGGTCAAAGCTCAAGAGGAAGATAGAGTGGCTAAAGTTAATGCTTAGCAGCCAATGTT
GACAATAAGTTCCCACTAACCATTTTTCATTAGATGCCATGCTTTTGGTTTCAAAAGTGATCAGA
GCTTGATTATAAAGTTTGACAATTGACATGAAT
Found at i:278814 original size:32 final size:30
Alignment explanation
Indices: 278699--278814 Score: 83
Period size: 32 Copynumber: 3.7 Consensus size: 30
278689 TAGAAGAAGA
* *
278699 TGCCACCGACTTGTGTAGACTTTTGACAGAGT
1 TGCCACCGACTTGTGT-GGCTTTTGA-AGGGT
* * *
278731 TGCCACTGACTTGTGTGGGTTTTTG-A-GAT
1 TGCCACCGACTTGTGT-GGCTTTTGAAGGGT
* * * *
278760 TGCAATCGACTTATATGGGCTTTTGGAAGGGT
1 TGCCACCGACTTGTGT-GGCTTTT-GAAGGGT
278792 TGCCACCGACTTGTGTGTGCTTT
1 TGCCACCGACTTGTGTG-GCTTT
278815 AGAAAAGAGT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
29 19 0.30
30 2 0.03
31 2 0.03
32 40 0.63
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.36
Consensus pattern (30 bp):
TGCCACCGACTTGTGTGGCTTTTGAAGGGT
Found at i:278889 original size:28 final size:28
Alignment explanation
Indices: 278838--279536 Score: 418
Period size: 28 Copynumber: 24.2 Consensus size: 28
278828 CACCAGCTTG
* * *
278838 TGTGGGCTTTAGAAAAAAGTTGCTACTGGCT
1 TGTGGGCTTT--AAAAATG-TGCCACTGACT
* * *
278869 TATGGGCTTTAAAAATGTGCTACTGACG
1 TGTGGGCTTTAAAAATGTGCCACTGACT
278897 TGTGGGCTTTAAAAATGTGCCACTGACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
** ** *
278925 TGTAAGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
** *
278953 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * * * *
278981 TGTAGGCTTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * *
279009 TGTGGGCTTTAGAAAGGTGCCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * * *
279037 TGTGGG-TTTTAGAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAATG-TGCCACTGACT
* * * * *
279065 AGTGTGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * **
279093 TGTAGGCTTTAGAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* *
279121 TGTGTGGCTTTAGAAAGGTTGCCACTGACTT
1 TGTG-GGCTTTAAAAATG-TGCCACTGAC-T
** *
279152 GTGTGGGCTTTAAAAGGGTTGCCACCGACT
1 -TGTGGGCTTTAAAAATG-TGCCACTGACT
*
279182 TGTGTAGGCTTTAGAAAAAGGTTGCCACTGACT
1 TGTG--GGCTTT--AAAAATG-TGCCACTGACT
* * * *
279215 TGTGGGCTTTGAAAAGGTACCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * * *
279243 TATGGGCTTT-GAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAATG-TGCCACTGACT
* ** * * *
279271 TATGGGCTTTAAAAGGGTGCCATTTATT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* *
279299 TGTGGGCTTTGAAAATGTGCCACTGATT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * **
279327 TGTGGGTTTTAGAAGGGTGCCACTGACTT
1 TGTGGGCTTTAAAAATGTGCCACTGAC-T
** *
279356 GTGTGGGCTTTAAAAGGGCTGTCA-TCGACT
1 -TGTGGGCTTTAAAAATG-TGCCACT-GACT
* *
279386 TGTGTGAGCTCTAGAAAAGGGTTGCCACT-AGCT
1 TGTG-G-GCTTTA-AAAA-TG-TGCCACTGA-CT
* * *
279419 TATGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
** *
279447 CATGGGCTTTGAAAATGTGCCACTGACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * * *
279475 TATGGGTTTTGAAAATGTGCCACTAACT
1 TGTGGGCTTTAAAAATGTGCCACTGACT
* * *
279503 TGTGGGCTTT-GAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAATG-TGCCACTGACT
279531 TGTGGG
1 TGTGGG
279537 TGTCGCAACG
Statistics
Matches: 558, Mismatches: 86, Indels: 51
0.80 0.12 0.07
Matches are distributed among these distances:
27 16 0.03
28 360 0.65
29 48 0.09
30 33 0.06
31 59 0.11
32 9 0.02
33 32 0.06
34 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTAAAAATGTGCCACTGACT
Found at i:278989 original size:84 final size:84
Alignment explanation
Indices: 278862--279536 Score: 547
Period size: 84 Copynumber: 7.8 Consensus size: 84
278852 AAAAGTTGCT
* * ** * * * *
278862 ACTGGCTTATGGGCTTTAAAAATGTGCTACTGACGTGTGGGCTTTAAAAATGTGCCACTGACTTG
1 ACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTG
**
278927 TAAGCTTTAAAAGGGTGCC
66 TGGGCTTTAAAAGGGTGCC
* * * * *
278946 ACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAAAGGTGCCATTAACTTG
1 ACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTG
279011 TGGGCTTTAGAAA-GGTGCC
66 TGGGCTTTA-AAAGGGTGCC
* * * * * * * *
279030 ACTAACTTGTGGGTTTTAGAAGGATGCCACTAACTAGTGTGCTTTGAAAAGGTGCCACTAACTTG
1 ACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTG
* *
279095 TAGGCTTTAGAAGGGTGCC
66 TGGGCTTTAAAAGGGTGCC
* * * *
279114 ACTGACTTGTGTGGCTTTAGAAAGGTTGCCACTGACTTGTGTGGGCTTTAAAAGGGTTGCCACCG
1 ACTGACTTGTG-GGCTTTA-AAAGGGTGCCACTAAC-T-TGTGGGCTTTAAAAAGG-TGCCACTG
*
279179 ACTTGTGTAGGCTTTAGAAAAAGGTTGCC
61 ACTTGTG--GGCTTT---AAAAGGGTGCC
* * * *
279208 ACTGACTTGTGGGCTTTGAAAA-GGTACCACTAACTTATGGGCTTT-GAAAGGATGCCATTGACT
1 ACTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGG-TGCCACTGACT
*
279271 TATGGGCTTTAAAAGGGTGCC
64 TGTGGGCTTTAAAAGGGTGCC
* * * * * * * * *
279292 ATTTATTTGTGGGCTTTGAAAA-TGTGCCACTGATTTGTGGGTTTTAGAAGGGTGCCACTGACTT
1 ACTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGAC-T
*
279356 GTGTGGGCTTTAAAAGGGCTGTC
64 -TGTGGGCTTTAAAAGGG-TGCC
* * * *
279379 A-TCGACTTGTGTGAGCTCTAGAAAAGGGTTGCCACTAGCTTATGGGCTTTGAAAAGGTGCCACT
1 ACT-GACTTGTG-G-GCT-T-TAAAAGGG-TGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACT
** *
279443 GACTCATGGGCTTTGAAAA-TGTGCC
60 GACTTGTGGGCTTT-AAAAGGGTGCC
* * * * *
279468 ACTGACTTATGGGTTTTGAAAA-TGTGCCACTAACTTGTGGGCTTT-GAAAGGATGCCACTAACT
1 ACTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGG-TGCCACTGACT
279531 TGTGGG
64 TGTGGG
279537 TGTCGCAACG
Statistics
Matches: 475, Mismatches: 88, Indels: 56
0.77 0.14 0.09
Matches are distributed among these distances:
83 7 0.01
84 235 0.49
85 16 0.03
86 35 0.07
87 19 0.04
88 15 0.03
89 42 0.09
90 24 0.05
91 13 0.03
92 39 0.08
93 9 0.02
94 21 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (84 bp):
ACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTG
TGGGCTTTAAAAGGGTGCC
Found at i:279454 original size:176 final size:172
Alignment explanation
Indices: 278899--279534 Score: 573
Period size: 176 Copynumber: 3.7 Consensus size: 172
278889 TACTGACGTG
* * * ** *
278899 TGGGCTTTAAAAATGTGCCACTGACTTGTAAGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTT-
1 TGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * * *
278963 AAAAGGGTGCCACTAACTTGTAGGCTTT-GAAAAGGTGCCATTAACTTGTG--GGCTTT-AGAAA
66 AAAA-TGTGCCACTGATTTGTGGGCTTTAG-AAGGGTGCCACTGACTTGTGTAGGCTTTAAAAAA
* * *
279024 GG-TGCCACTAACTTGTGGGTTTTAG--AAGGATGCCACTAAC-TA
129 GGCTGCCACTGACTTGTGGG-CTTAGAAAAGG-TACCACTAACTTA
* * * * *
279066 GTGTGCTTTGAAAAGGTGCCACTAACTTGTAGGCTTTAGAAGGGTGCCACTGACTTGTGTGGCTT
1 -TGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGACTTGTG-GGCTT
* * *
279131 T-AGAAAGGTTGCCACTGACTTGTGTGGGCTTTAAAAGGGTTGCCACCGACTTGTGTAGGCTTTA
64 TGA-AAATG-TGCCACTGA-TT-TGTGGGCTTTAGAAGGG-TGCCACTGACTTGTGTAGGCTTTA
* *
279195 GAAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTACCACTAACTTA
124 -AAAAAGGCTGCCACTGACTTGTGGGCTTAGAAAAGGTACCACTAACTTA
* * * *
279245 TGGGCTTTG-AAAGGATGCCATTGACTTATGGGCTTTAAAAGGGTGCCATTTATTTGTGGGCTTT
1 TGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
279309 GAAAATGTGCCACTGATTTGTGGGTTTTAGAAGGGTGCCACTGACTTGTGTGGGCTTT-AAAAGG
65 GAAAATGTGCCACTGATTTGTGGGCTTTAGAAGGGTGCCACTGACTTGTGTAGGCTTTAAAAAAG
* * *
279373 GCTGTCA-TCGACTTGTGTGAGCTCTAGAAAAGGGTTGCCACTAGCTTA
130 GCTGCCACT-GACTTGTG-G-GCT-TAGAAAA-GG-TACCACTAACTTA
* * * *
279421 TGGGCTTTGAAAAGGTGCCACTGACTCATGGGCTTTGAAAA-TGTGCCACTGACTTATGGGTTTT
1 TGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTT
* * * *
279485 GAAAATGTGCCACTAACTTGTGGGCTTT-GAAAGGATGCCACTAACTTGTG
65 GAAAATGTGCCACTGATTTGTGGGCTTTAG-AAGGGTGCCACTGACTTGTG
279535 GGTGTCGCAA
Statistics
Matches: 389, Mismatches: 53, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
168 51 0.13
169 9 0.02
170 12 0.03
171 19 0.05
172 14 0.04
173 36 0.09
174 21 0.05
175 11 0.03
176 108 0.28
177 33 0.08
178 69 0.18
179 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (172 bp):
TGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTG
AAAATGTGCCACTGATTTGTGGGCTTTAGAAGGGTGCCACTGACTTGTGTAGGCTTTAAAAAAGG
CTGCCACTGACTTGTGGGCTTAGAAAAGGTACCACTAACTTA
Found at i:279537 original size:56 final size:56
Alignment explanation
Indices: 278838--279536 Score: 552
Period size: 56 Copynumber: 12.1 Consensus size: 56
278828 CACCAGCTTG
* * * * * ** * * *
278838 TGTGGGCTTTAGAAAAAAGTTGCTACTGGCTTATGGGCTTTAAAAATGTGCTACTGACG
1 TGTGGGCTTT-G--AAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * ** *
278897 TGTGGGCTTTAAAAATGTGCCACTGACTTGTAAGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
278953 TGTGGGCTTT-AAAAGGGTGCCACTAACTTGTAGGCTTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
279009 TGTGGGCTTT-AGAAAGGTGCCACTAACTTGTGGG-TTTTAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAAGGTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAACT
* * * * *
279065 AGTGTGCTTTGAAAAGGTGCCACTAACTTGTAGGCTTT-AGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAACT
* **
279121 TGTGTGGCTTT-AGAAAGGTTGCCACTGACTTGTGTGGGCTTTAAAAGGGTTGCCACCGACT
1 TGTG-GGCTTTGA-AAAGG-TGCCACTGAC-T-TGTGGGCTTTGAAAGGG-TGCCACTAACT
* *
279182 TGTGTAGGCTTTAGAAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTACCACTAACT
1 TGTG--GGCTTT-G-AAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * * * *
279243 TATGGGCTTTG-AAAGGATGCCATTGACTTATGGGCTTTAAAAGGGTGCCATTTATT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
279299 TGTGGGCTTTGAAAATGTGCCACTGATTTGTGGG-TTTTAGAAGGGTGCCACTGACTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAAC-T
* * *
279356 GTGTGGGCTTT-AAAAGGGCTGTCA-TCGACTTGTGTGAGCTCTAGAAAAGGGTTGCCACTAGCT
1 -TGTGGGCTTTGAAAA-GG-TGCCACT-GACTTGTG-G-GCT-TTG-AAAGGG-TGCCACTAACT
* ** ** *
279419 TATGGGCTTTGAAAAGGTGCCACTGACTCATGGGCTTTGAAAATGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
279475 TATGGGTTTTGAAAATGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
279531 TGTGGG
1 TGTGGG
279537 TGTCGCAACG
Statistics
Matches: 524, Mismatches: 85, Indels: 65
0.78 0.13 0.10
Matches are distributed among these distances:
55 12 0.02
56 302 0.58
57 30 0.06
58 24 0.05
59 31 0.06
60 16 0.03
61 37 0.07
62 34 0.06
63 12 0.02
64 25 0.05
65 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (56 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:280662 original size:79 final size:78
Alignment explanation
Indices: 280502--280712 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 78
280492 TATTTTGGTG
* * * * ** *
280502 ATAATAACGGGGTTGGAGTATCCCTTTGAAAATAACGGGGTTAGAGTATCCCCGGTTGTGAAAGA
1 ATAA-AACCGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAGA
* *
280567 TCGATGATTAGGAA
65 TCAATGATTAGAAA
* * *
280581 ATAAAATCGGGATTGGAGTATCCCCTTGGAAATAATGGGGTTGGAGTATTCCCAATTATGAGAA-
1 ATAAAACCGGG-TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGA-AAG
*
280645 ATCAAT-ATTTTGAAA
64 ATCAATGA-TTAGAAA
* **
280660 ATAAAGCCGGCGTTGGAGTAT-CCCTTCGGAGGTAACGGGGTTGGAGTATCCCC
1 ATAAAACCGG-GTTGGAGTATCCCCTT-GGAAATAACGGGGTTGGAGTATCCCC
280713 GATGAAATAA
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
78 11 0.10
79 94 0.87
80 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (78 bp):
ATAAAACCGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAGAT
CAATGATTAGAAA
Found at i:280789 original size:52 final size:52
Alignment explanation
Indices: 280726--281121 Score: 311
Period size: 52 Copynumber: 7.6 Consensus size: 52
280716 GAAATAACGA
* * * *
280726 GGTTGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTTGGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
* * *
280778 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
* * * *
280830 GGTTGGAGTATCCCCGATTGTGAAAAATTAGT-ATTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
* * *** * * *
280881 GGTTAGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
**** * ** * *** *
280932 GGTTGGAGTATCCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAAT--AA-CGA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGT-T-TTTG--GAAATAAAACCGG
** * *
280988 GGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
* * *
281040 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
*
281092 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
281122 AGAAATTAAC
Statistics
Matches: 263, Mismatches: 67, Indels: 29
0.73 0.19 0.08
Matches are distributed among these distances:
49 5 0.02
51 95 0.36
52 108 0.41
53 28 0.11
54 2 0.01
55 2 0.01
56 16 0.06
57 2 0.01
59 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAACCGG
Found at i:280954 original size:262 final size:262
Alignment explanation
Indices: 280617--281120 Score: 866
Period size: 262 Copynumber: 1.9 Consensus size: 262
280607 TGGAAATAAT
* *
280617 GGGGTTGGAGTATTCCCAATTATGAGAAATCAATATTTTGAAAATAAAGCCGGCGTTGGAGTATC
1 GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGAAAATAAAGCCGGCGTTGGAGTATC
* *
280682 CCTTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
280747 GAAAAATCGGTGTTTTTGGAAATAAAACCAGG-GTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 GAAAAATCGGTGTTTTTGGAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
*
280811 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAA
195 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAA
280876 ACC
260 ACC
* * * *
280879 GGGGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGAAAATAAAGCCGGCGTTGGAGTATC
*
280944 CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTTCGATTGT
66 CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
* *
281009 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
131 GAAAAATCGGTGTTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
281074 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAACAATT
196 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATT
281121 GAGAAATTAA
Statistics
Matches: 227, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
261 2 0.01
262 225 0.99
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGAAAATAAAGCCGGCGTTGGAGTATC
CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
GAAAAATCGGTGTTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAA
CC
Found at i:280972 original size:28 final size:28
Alignment explanation
Indices: 280932--280999 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
280922 ATAAAGCTGG
** **
280932 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
280960 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
280988 GGTTGGAGTATC
1 GGTTGGAGTATC
281000 TTCGATTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACGA
Found at i:284365 original size:55 final size:55
Alignment explanation
Indices: 284213--285248 Score: 1100
Period size: 55 Copynumber: 18.4 Consensus size: 55
284203 ATAAAGTGCA
** * * * *
284213 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTATGTGGGCTTTAAAAAAAACAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GAA-AGGCG
* * * *
284274 TCCTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* ** * *
284329 TCCTGCTCTTTGAAGACTGGAAAGTTTCACCTACTTGTGTGGGCTTGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
284384 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCG
* *
284445 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCG
* * * * *
284506 TCCTGCTCTTTGAGGACTGAAAAATGCCACTAACTTATGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
284561 TCCTACTCTTTGAGGACT-GAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
284616 TCCTACTTTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
284671 TCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
284726 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC-TGCTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTG-TGTGGGCTTTGAAAGGCG
* * * *
284781 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
284836 TCCTGCTCTTTAAAGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
**
284891 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTACTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* ** * * **
284946 TCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
285001 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
** *
285056 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTACTGTGAGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
285111 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * * * * * * *
285172 TCCTACTATTTGAAGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
285226 TCCTGCTCTTTGAGGACT-GAAAG
1 TCCTGCTCTTTGAGGACTGGAAAG
285249 GTGAAAGGAG
Statistics
Matches: 840, Mismatches: 110, Indels: 57
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.00
54 37 0.04
55 585 0.70
56 16 0.02
57 2 0.00
58 4 0.00
59 2 0.00
60 26 0.03
61 167 0.20
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:284744 original size:165 final size:165
Alignment explanation
Indices: 284213--285458 Score: 1252
Period size: 165 Copynumber: 7.5 Consensus size: 165
284203 ATAAAGTGCA
* * * * * *
284213 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTATGTGGGCTTTAAAAAAAACAAGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAA-AGGCGTCCT
* * *
284278 GCTCTTTGAGGATTGGAAAA-TGCCACTAACTTGTGTGGGCTTT-AAGAGGCATCCTGCTCTTTG
60 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AAGCATCCTGCTCTTTG
* ** * * **
284341 AAGACTGGAAAGTTTCACCTACTTGTGTGGGCTTGGAAAGGCG
123 AAGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
* * *
284384 TCTTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCC
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG--AA-AG---GCGTCC
284448 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGC
59 TGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCATCCTGC
* ** * * * *
284512 TCTTTGAGGACTGAAAAATGCCACTAACTTATGTGGGCTTTGAAAGACG
117 TCTTTGAAGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
* * * * *
284561 TCCTACTCTTTGAGGACTGAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTTTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
284626 TGAGGACTGGAAAA-TGCCACCAACTCGTGTGGGCTTTGAAAAGCGTCTTGCTCTTTGAGGACTG
66 TGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAAGACTG
284690 GGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
130 GGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
284726 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC-TGCTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG-TGTGGGCTTTGAAAGGCGTCCTGCTCT
* * * *
284790 TTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAGCGTCCTGCTCTTTAAAGACTG
65 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAAGACTG
*
284855 GGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGCG
130 GGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
** *
284891 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTACTGTGGGCTTTGAAAGGCGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * * * * *
284956 TGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAACGTCCTGCTCTTTGAGGACTAG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAAGACTGG
* *
285021 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCG
131 GAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
** *
285056 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTACTGTGAGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * *
285121 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTATTTGAA
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCATCCTGCTCTTTGAA
* *
285186 GACT--GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCA
125 GACTGGGAA-GTGCCACCAACTTATGTGGGCTTTAAAAGGCG
* * * *
285226 TCCTGCTCTTTGAGGACTGAAAGGTG--A--AA--------GG---AGAGA-GTGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * **
285275 TGAGGACT-AGAAGGTGCCACCAACTTGTGCGAGCTTT-AAAAGGCATCCTGCTCTTTGTGGACT
66 TGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GCATCCTGCTCTTTGAAGACT
** *
285338 GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
129 GGGAAGTGCCACCAACTTATGTGGGCTTT---A--A-AAGGCG
* * * * *
285381 TCCTGCTCTTTGAGGACTG-AAGTTGCCACCAGCTTATGTGGGCTTTAAAAGGCGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
285445 TGAGGACT-AAAAGT
66 TGAGGACTGAAAAGT
285459 TGAAATGAGA
Statistics
Matches: 927, Mismatches: 98, Indels: 102
0.82 0.09 0.09
Matches are distributed among these distances:
147 2 0.00
148 18 0.02
149 22 0.02
150 2 0.00
152 1 0.00
153 1 0.00
154 49 0.05
155 27 0.03
156 1 0.00
158 2 0.00
164 7 0.01
165 449 0.48
166 6 0.01
168 4 0.00
169 9 0.01
170 76 0.08
171 150 0.16
172 3 0.00
174 2 0.00
175 2 0.00
176 4 0.00
177 89 0.10
178 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAAGACTGG
GAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
Found at i:285352 original size:55 final size:54
Alignment explanation
Indices: 285268--285458 Score: 213
Period size: 55 Copynumber: 3.4 Consensus size: 54
285258 GAGAGTGTCT
* * * *
285268 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGAGCTTTAAAAGGCATCC
1 TGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
*
285323 TGCTCTTTGTGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGTCC
* * * *
285384 TGCTCTTTGAGGACT-GAAGTTGCCACCAGCTTATGTGGGCTTTAAAAGGCGTCT
1 TGCTCTTTGAGGACTAAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
285438 TGCTCTTTGAGGACTAAAAGT
1 TGCTCTTTGAGGACTAAAAGT
285459 TGAAATGAGA
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
54 24 0.21
55 42 0.36
56 1 0.01
57 1 0.01
58 1 0.01
59 3 0.03
60 22 0.19
61 22 0.19
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (54 bp):
TGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
Found at i:285371 original size:28 final size:28
Alignment explanation
Indices: 285288--285371 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 28
285278 GGACTAGAAG
* *
285288 GTGCCACCAACTTGTGCGAGCTTTAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAA
** * * *
285316 G-G-CATCCTGCTCTTTGTGGAC-TGAAAA
1 GTGCCA-CCAACT-TGTGTGGGCTTTAAAA
285343 GTGCCACCAACTTGTGTGGGCTTTAAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAA
285371 G
1 G
285372 GAGAAGGCGT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
26 2 0.05
27 18 0.46
28 17 0.44
29 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (28 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:285419 original size:209 final size:209
Alignment explanation
Indices: 285052--285560 Score: 759
Period size: 209 Copynumber: 2.4 Consensus size: 209
285042 GGCTTTAAAA
** * * *
285052 AGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTACTGTGAGCTTTGAAAGGCGTCCTG
1 AGCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGCGAGCTTTAAAAGGCATCCTG
285116 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTAT
65 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTAT
*
285181 TTGAAGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGA
130 TTGAAGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAA
285246 AAGGTGAAAGGAGAG
195 AAGGTGAAAGGAGAG
* *
285261 AGTGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGAGCTTTAAAAGGCATCCTGC
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGAGCTTTAAAAGGCATCCTGC
* * * *
285326 TCTTTGTGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTT
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTATT
* * * *
285391 TGAGGACTGAAGTTGCCACCAGCTTATGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACTAAA
131 TGAAGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAA
* * *
285456 AGTTGAAATGAGAT
196 AGGTGAAAGGAGAG
* *
285470 AGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTTAAAAGGAAAAGGCA
1 AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGAGCTTT------AAAAGGCA
285535 TCCTGCTCTTTGAGGACTGAAAAGTG
60 TCCTGCTCTTTGAGGACTGAAAAGTG
285561 GAAAGAGAAG
Statistics
Matches: 269, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
209 235 0.87
210 1 0.00
215 33 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (209 bp):
AGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGAGCTTTAAAAGGCATCCTGC
TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTATT
TGAAGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAA
AGGTGAAAGGAGAG
Found at i:285551 original size:100 final size:93
Alignment explanation
Indices: 285378--285568 Score: 231
Period size: 100 Copynumber: 2.0 Consensus size: 93
285368 AAAGGAGAAG
* * * * * *
285378 GCGTCCTGCTCTTTGAGGACTGAAGTTGCCACCAGCTTATGTGGGCTTTAAAAGGCGTCTTGCTC
1 GCGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTATGCGGGCTTTAAAAGGCATCCTGCTC
*
285443 TTTGAGGACT-AAAAGTTGAAATGAGATA
66 TTTGAGGACTGAAAAGTGGAAA-GAGATA
*
285471 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTATGCGGGCTTT------AAAAGGCAT
285536 CCTGCTCTTTGAGGACTGAAAAGTGGAAAGAGA
59 CCTGCTCTTTGAGGACTGAAAAGTGGAAAGAGA
285569 AGGTTTAGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
93 20 0.24
94 24 0.29
100 28 0.34
101 10 0.12
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (93 bp):
GCGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTATGCGGGCTTTAAAAGGCATCCTGCTC
TTTGAGGACTGAAAAGTGGAAAGAGATA
Found at i:286564 original size:13 final size:12
Alignment explanation
Indices: 286530--286588 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
286520 GGATTCTTCT
286530 TTTTTTTTTTTC
1 TTTTTTTTTTTC
*
286542 TCTTTCTTTTTTC
1 T-TTTTTTTTTTC
286555 TTTGTTTTTTTT-
1 TTT-TTTTTTTTC
* * *
286567 TGTTTTTTTGTG
1 TTTTTTTTTTTC
286579 TTTTTTTTTT
1 TTTTTTTTTT
286589 GAAAAAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.18
12 13 0.34
13 18 0.47
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:286568 original size:10 final size:10
Alignment explanation
Indices: 286529--286587 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
286519 CGGATTCTTC
286529 TTTTTTTTT-
1 TTTTTTTTTG
* * *
286538 TTTCTCTTTC
1 TTTTTTTTTG
286548 TTTTTTCTTTG
1 TTTTTT-TTTG
286559 TTTTTTTTTG
1 TTTTTTTTTG
*
286569 TTTTTTTGTG
1 TTTTTTTTTG
286579 TTTTTTTTT
1 TTTTTTTTT
286588 TGAAAAAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.17
10 25 0.61
11 9 0.22
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:293277 original size:17 final size:17
Alignment explanation
Indices: 293251--293294 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
293241 ACCTTCTCTT
293251 CAAAAAAAAAAA-AGAAA
1 CAAAAAAAAAAACA-AAA
*
293268 CAAAACAAAAAACAAAA
1 CAAAAAAAAAAACAAAA
293285 CAAAGAAAAA
1 CAAA-AAAAA
293295 GGGAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAACAAAA
Found at i:293280 original size:12 final size:12
Alignment explanation
Indices: 293251--293288 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
293241 ACCTTCTCTT
293251 CAAAAAA-AAAA
1 CAAAAAACAAAA
*
293262 -AAGAAACAAAA
1 CAAAAAACAAAA
293273 CAAAAAACAAAA
1 CAAAAAACAAAA
293285 CAAA
1 CAAA
293289 GAAAAAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 4 0.17
12 14 0.61
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAACAAAA
Done.