Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 3 of 12
Found at i:337686 original size:29 final size:27
Alignment explanation
Indices: 337654--337750 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 27
337644 TGCCATGGAG
*
337654 TTGTGGACTTTGGAAAATATGCCACCGAC
1 TTGTGGGCTTT-GAAAAT-TGCCACCGAC
* *
337683 TTGTGGGCTTTGAAAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAA-ATTGCCACCGAC
* **
337711 TTGTGGGCTTTTGAAAAGGGTGCCACTAAC
1 TTGTGGGC-TTTGAAAA--TTGCCACCGAC
337741 TTGTGGGCTT
1 TTGTGGGCTT
337751 AAAAGGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
28 21 0.36
29 20 0.34
30 17 0.29
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (27 bp):
TTGTGGGCTTTGAAAATTGCCACCGAC
Found at i:337786 original size:121 final size:125
Alignment explanation
Indices: 337556--337814 Score: 330
Period size: 121 Copynumber: 2.1 Consensus size: 125
337546 TGCCACTAAT
* * *
337556 TTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAAAAAGAGTGCTATGGAGTT
1 TTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTT--AAGGAAAAAGAGTGCCATGAACTT
* * *
337621 GTGAGCTTACAAAAGAAAAAGAGTGCCATGGAGTTGTGGACTTTGGAAAATATGCCACCGAC
64 GTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACCGAC
* ** *
337683 TTGTGGGCTTTG-AAAGGTTGCCACTGACTTGTGGGCTT-TTG-AAAAGGGTGCCACT-AACTTG
1 TTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTAAGGAAAAAGAGTGCCA-TGAACTTG
* * * *
337744 TGGGCTTA-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAAGATGCCACTGAC
65 TGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACCGAC
337804 TTGTGGGCTTT
1 TTGTGGGCTTT
337815 TGAAGGGTGA
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
121 57 0.49
122 21 0.18
123 2 0.02
126 25 0.21
127 12 0.10
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (125 bp):
TTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTAAGGAAAAAGAGTGCCATGAACTTGT
GAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAAGATGCCACCGAC
Found at i:337807 original size:29 final size:29
Alignment explanation
Indices: 337447--337814 Score: 186
Period size: 29 Copynumber: 12.0 Consensus size: 29
337437 CTTTAAAAGG
* *
337447 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
* * * * *
337477 GAAAAGAAGGTGCCACGGAGTCGTGGACTTT
1 G-AAA-AAGATGCCACTGACTTGTGGGCTTT
* * *
337508 -AGAAAATATGCCACCGACTTGTGGGCTTCG
1 GA-AAAAGATGCCACTGACTTGTGGGCTT-T
* * * *
337538 GAAAAGGGTGCCACTAATTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
337567 GAAAAGGGTGCCACTGACTTGTGGGCTTAAAAG
1 GAAAAAGATGCCACTGACTTGTGGGCTT----T
* * * *
337600 GAAAAAGAGTGCTA-TGGAGTTGTGAGCTTACAAAA
1 GAAAAAGA-TGCCACT-GACTTGTGGGCTT-----T
* *
337635 GAAAAAGAGTGCCA-TGGAGTTGTGGACTTT
1 GAAAAAGA-TGCCACT-GACTTGTGGGCTTT
* * *
337665 GGAAAATATGCCACCGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
337694 G-AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * * *
337723 GAAAAGGGTGCCACTAACTTGTGGGCTTAAAAG
1 GAAAAAGATGCCACTGACTTGTGGGCTT----T
* *
337756 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
337786 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
337815 TGAAGGGTGA
Statistics
Matches: 267, Mismatches: 51, Indels: 41
0.74 0.14 0.11
Matches are distributed among these distances:
28 20 0.07
29 88 0.33
30 59 0.22
31 23 0.09
32 3 0.01
33 13 0.05
34 32 0.12
35 29 0.11
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:339283 original size:6 final size:6
Alignment explanation
Indices: 339252--339305 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
339242 ATCCGGACCC
* *
339252 TTTTTG TTGTTG TTGTTG -TTTT- TTTTTG TTTTT- TTTTTG TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
339296 TGTTTTG TTT
1 T-TTTTG TTT
339306 CTTTTCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 13 0.32
6 27 0.66
7 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:339304 original size:33 final size:35
Alignment explanation
Indices: 339252--339335 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
339242 ATCCGGACCC
*
339252 TTTTTG-TTGTTGTTGTTGTTT-TTTT-TTGTTTTT
1 TTTTTGTTTTTTGTTGTTGTTTCTTTTCTT-TTTTT
339285 TTTTTGTTTTTTGTT-TTGTTTCTTTTCTTTTTTT
1 TTTTTGTTTTTTGTTGTTGTTTCTTTTCTTTTTTT
* * *
339319 CTTCTGTTTTTTTTTGT
1 TTTTTGTTTTTTGTTGT
339336 GGAGGACGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
33 12 0.28
34 28 0.65
35 3 0.07
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (35 bp):
TTTTTGTTTTTTGTTGTTGTTTCTTTTCTTTTTTT
Found at i:353233 original size:52 final size:52
Alignment explanation
Indices: 353148--353272 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
353138 ATATGAAAAG
* *
353148 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
* *
353200 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
353252 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
353273 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
Found at i:353285 original size:52 final size:51
Alignment explanation
Indices: 353148--353292 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
353138 ATATGAAAAG
*
353148 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAAT
* * *
353200 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAAT
*
353252 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
353293 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGCAAAT
Found at i:353299 original size:13 final size:13
Alignment explanation
Indices: 353281--353305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353271 CAAAGATCAG
353281 TGTATCGATACAA
1 TGTATCGATACAA
353294 TGTATCGATACA
1 TGTATCGATACA
353306 TTTGAGTAAT
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:353372 original size:19 final size:18
Alignment explanation
Indices: 353348--353445 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
353338 TAGCTTAAAT
353348 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
353367 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
353380 TGTATTGATACAACACTTA
1 TGTATCGATACAA-ACTTA
353399 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
353412 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
353432 TGTATCGATACAAA
1 TGTATCGATACAAA
353446 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:353389 original size:13 final size:13
Alignment explanation
Indices: 353367--353423 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
353357 ACAAAACTTA
353367 TGTATCGATACAT
1 TGTATCGATACAT
*
353380 TGTATTGATACAACACTT
1 TGTATCGAT---ACA--T
353398 ATGTATCGATACAT
1 -TGTATCGATACAT
353412 TGTATCGATACA
1 TGTATCGATACA
353424 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:353390 original size:32 final size:32
Alignment explanation
Indices: 353346--353443 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
353336 AGTAGCTTAA
*
353346 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
353378 ATTGTATTGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
353410 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
353443 A
1 A
353444 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:354889 original size:14 final size:14
Alignment explanation
Indices: 354870--354902 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
354860 TTTTAAACTC
354870 GTAAAATTTTATGA
1 GTAAAATTTTATGA
354884 GTAAAATTTTATGA
1 GTAAAATTTTATGA
354898 G-AAAA
1 GTAAAA
354903 AAACTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (14 bp):
GTAAAATTTTATGA
Found at i:354991 original size:16 final size:16
Alignment explanation
Indices: 354970--355001 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
354960 TTTTTAAAAA
354970 CTAATTTAATATGAAT
1 CTAATTTAATATGAAT
354986 CTAATTTAATATGAAT
1 CTAATTTAATATGAAT
355002 TTAAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
CTAATTTAATATGAAT
Found at i:358190 original size:16 final size:16
Alignment explanation
Indices: 358171--358223 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
358161 TGGGTTCGAG
358171 TCATTTCGAGTTCGGA
1 TCATTTCGAGTTCGGA
* * *
358187 TCATTTTGGGTTTGGA
1 TCATTTCGAGTTCGGA
* *
358203 TTATTTC-AGTTCAGA
1 TCATTTCGAGTTCGGA
358218 TCATTT
1 TCATTT
358224 TGGATTCAGG
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.19, C:0.13, G:0.21, T:0.47
Consensus pattern (16 bp):
TCATTTCGAGTTCGGA
Found at i:358220 original size:31 final size:32
Alignment explanation
Indices: 358151--358226 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
358141 TAAAATTTTT
358151 AGATCAATTTTGGGTTCGAGTCATTTCGAGTTC
1 AGATC-ATTTTGGGTTCGAGTCATTTCGAGTTC
* * *
358184 GGATCATTTTGGGTTTG-GATTATTTC-AGTTC
1 AGATCATTTTGGGTTCGAG-TCATTTCGAGTTC
358215 AGATCATTTTGG
1 AGATCATTTTGG
358227 ATTCAGGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 17 0.45
32 17 0.45
33 4 0.11
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.43
Consensus pattern (32 bp):
AGATCATTTTGGGTTCGAGTCATTTCGAGTTC
Found at i:359811 original size:13 final size:13
Alignment explanation
Indices: 359751--359807 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
359741 TAGAGAAAGG
359751 AGAGAAAGAAAGAA
1 AGAG-AAGAAAGAA
*
359765 A-AGAAGAGGAGAA
1 AGAGAAGA-AAGAA
359778 AGTACGAAGAAAGAA
1 AG-A-GAAGAAAGAA
359793 AGAGAAGAAA-AA
1 AGAGAAGAAAGAA
359805 AGA
1 AGA
359808 AGAATTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.24
13 14 0.38
14 2 0.05
15 7 0.19
16 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (13 bp):
AGAGAAGAAAGAA
Found at i:359864 original size:11 final size:11
Alignment explanation
Indices: 359848--359911 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
359838 TATATTCGTG
359848 TATTTATATTA
1 TATTTATATTA
359859 TATTTATATT-
1 TATTTATATTA
359869 T-TTTA-ATTA
1 TATTTATATTA
359878 TATTTTAATAATT-
1 TA-TTT-AT-ATTA
* *
359891 TTTTTATATCA
1 TATTTATATTA
359902 TATTTATATT
1 TATTTATATT
359912 GTATCTCAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 3 0.07
9 5 0.12
10 3 0.07
11 23 0.55
12 4 0.10
13 1 0.02
14 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTATATTA
Found at i:359877 original size:19 final size:20
Alignment explanation
Indices: 359850--359911 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 20
359840 TATTCGTGTA
359850 TTTATATTATATTTATATTT
1 TTTATATTATATTTATATTT
359870 TTTA-ATTATATTTTAATAATTTT
1 TTTATATTATA-TTT-AT-A-TTT
*
359893 TTTATATCATATTTATATT
1 TTTATATTATATTTATATT
359912 GTATCTCAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 6 0.17
20 9 0.25
21 3 0.08
22 3 0.08
23 10 0.28
24 5 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATATTATATTTATATTT
Found at i:360433 original size:22 final size:22
Alignment explanation
Indices: 360408--360449 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
360398 AAATAAAATA
360408 AATTTAT-TTATAAATTAAATCG
1 AATTTATATTA-AAATTAAATCG
*
360430 AATTTATATTAAATTTAAAT
1 AATTTATATTAAAATTAAAT
360450 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTTATATTAAAATTAAATCG
Found at i:361600 original size:8 final size:8
Alignment explanation
Indices: 361587--361627 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
361577 CTATTTTATG
361587 TTTAAAAT
1 TTTAAAAT
361595 TTT-AAAT
1 TTTAAAAT
361602 TTT-AAAT
1 TTTAAAAT
*
361609 ATTTATAAT
1 -TTTAAAAT
361618 TTTAAAAT
1 TTTAAAAT
361626 TT
1 TT
361628 ATATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.38
8 15 0.52
9 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:361603 original size:7 final size:7
Alignment explanation
Indices: 361591--361633 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
361581 TTTATGTTTA
361591 AAATTTT
1 AAATTTT
361598 AAATTTT
1 AAATTTT
361605 AAATATTT
1 AAAT-TTT
361613 ATAATTTT
1 A-AATTTT
*
361621 AAAATTT
1 AAATTTT
*
361628 ATATTT
1 AAATTT
361634 ATATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 20 0.65
8 8 0.26
9 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:361628 original size:15 final size:15
Alignment explanation
Indices: 361587--361630 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
361577 CTATTTTATG
361587 TTTAAAATTT-TAAAT
1 TTTAAAATTTAT-AAT
361602 TTTAAATATTTATAAT
1 TTTAAA-ATTTATAAT
361618 TTTAAAATTTATA
1 TTTAAAATTTATA
361631 TTTATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 13 0.48
16 13 0.48
17 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAAATTTATAAT
Found at i:361638 original size:23 final size:23
Alignment explanation
Indices: 361587--361636 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
361577 CTATTTTATG
* *
361587 TTTAAAATTTTAAATTTTAAATA
1 TTTATAATTTTAAAATTTAAATA
361610 TTTATAATTTTAAAATTT--ATA
1 TTTATAATTTTAAAATTTAAATA
361631 TTTATA
1 TTTATA
361637 TATAAATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
23 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTATAATTTTAAAATTTAAATA
Found at i:362183 original size:113 final size:111
Alignment explanation
Indices: 361952--362231 Score: 320
Period size: 111 Copynumber: 2.5 Consensus size: 111
361942 TTTACAATGA
* *
361952 TTAATAAAATATAAAATTATAAACCTATTAATTTTATT-GTTTTAAAATTTAAAATAATAATTAT
1 TTAATAAAAGATAAAATTATAAA-CTATTAATTTTATTACTTTTAAAATTTAAAATAATAATTAT
* * **
362016 CTTAAAAATCATGATTTTTTTATTATCTTTCACTTAGATTTCAACAG
65 CTTAAAAATAATAAAATTTTTATTATCTTTCACTTAGATTTCAACAG
* * *
362063 TGT-ATAAAA-ATGAAGTTATAAACTTATTAAATTTT-TTATTTTTAAAATTTAAAATAATAATT
1 T-TAATAAAAGATAAAATTATAAAC-TATT-AATTTTATTACTTTTAAAATTTAAAATAATAATT
*
362125 ATCTTAAAATTTTAATAAAATTTTTATTATCTTTCACTTATG-TTAT-AACAG
63 ATCTTAAAA--ATAATAAAATTTTTATTATCTTTCACTTA-GATT-TCAACAG
* * *
362176 TTAATAAAAGATAAAATTATAAACAAATCAATTTTATTACTTTTAAAACTTAAAAT
1 TTAATAAAAGATAAAATTATAAAC-TATTAATTTTATTACTTTTAAAATTTAAAAT
362232 TTAAAATCAC
Statistics
Matches: 143, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
109 1 0.01
110 17 0.12
111 45 0.31
112 2 0.01
113 44 0.31
114 34 0.24
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (111 bp):
TTAATAAAAGATAAAATTATAAACTATTAATTTTATTACTTTTAAAATTTAAAATAATAATTATC
TTAAAAATAATAAAATTTTTATTATCTTTCACTTAGATTTCAACAG
Found at i:363733 original size:2 final size:2
Alignment explanation
Indices: 363726--363751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
363716 TATCAGGATA
363726 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
363752 GTAACTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:365299 original size:165 final size:164
Alignment explanation
Indices: 364969--365577 Score: 639
Period size: 165 Copynumber: 3.7 Consensus size: 164
364959 ATTTAACTCC
* * * * * * * *
364969 AAAATTCATCAAATATTATTATCTAGTTCATATTAAATCGGTTTTAAAAAATTTATTGATTTTCA
1 AAAATTTATCAAATATTATTATTTAATTCCTATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
365034 TTCA-TTTTG-A--TTTT-TTTATAATTCCCTTATTTT-TGAAATACAGAGTTTTCTACTCCATT
66 -TGAGTTTTGAATTTTTTCTTTAAAATT-TCTT-TTTTCTGAAATACGGAGTTTTCTACTCCATA
* * * *
365093 AATGTTTTTTG-GGGGATTATTCTTGGTTTTTAATTTTT
128 AAT-ATTTTCGAAGGGATTTTTCTT-GTTTTTAATTTTT
* * * *
365131 AAAATTTATCAAATGTTATTATTTAACTCCTAGTAAATCAATTTTCAAAAATTCATTCATTTTCA
1 AAAATTTATCAAATATTATTATTTAATTCCTATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * *
365196 TTAGTTTTGAATTTTTTCTTTAAAATTTATTTTTTCTGAAATATGGAGTTTTCTACTCTATAAAT
66 TGAGTTTTGAATTTTTTCTTTAAAATTTCTTTTTTCTGAAATACGGAGTTTTCTACTCCATAAAT
*
365261 ATTTTCGAAGGGATTTTTCTTAGTTTTCAATTTTT
131 ATTTTCGAAGGGATTTTTCTT-GTTTTTAATTTTT
* * * * * *
365296 AAAACTCATCAAATATTATTATCTAATTCATATTGAATCAGTTTTCAAAAATTTATTCATTTTCA
1 AAAATTTATCAAATATTATTATTTAATTCCTATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * *
365361 TGAGTTTTGAATTTTTTCTTTATAATTTTCTTATTTTC-GAAATACAGAGTTTTCAATTCCATAA
66 TGAGTTTTGAATTTTTTCTTTA-AAATTTCTT-TTTTCTGAAATACGGAGTTTTCTACTCCATAA
* ** *
365425 ATATTTTCGGACAGATTTTT-TTGTTTTTAAATTTT
129 ATATTTTCGAAGGGATTTTTCTTGTTTTTAATTTTT
* * *
365460 AAAATTTATCAAATATTATTATTTAATTTAC-ATTAAATCTGTTTTAAAAAATTCATTCATTTTC
1 AAAATTTATCAAATATTATTATTTAA-TTCCTATTAAATCAGTTTTCAAAAATTCATTCATTTTC
***
365524 ATGAGTTTT-AATTTTTT-TTTAAAATTTCCCGTTTCTGAAATACGGAGTTTTCTA
65 ATGAGTTTTGAATTTTTTCTTTAAAATTTCTTTTTTCTGAAATACGGAGTTTTCTA
365578 ATTCATATTA
Statistics
Matches: 372, Mismatches: 64, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
160 4 0.01
161 24 0.06
162 62 0.17
163 9 0.02
164 81 0.22
165 134 0.36
166 53 0.14
167 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (164 bp):
AAAATTTATCAAATATTATTATTTAATTCCTATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
TGAGTTTTGAATTTTTTCTTTAAAATTTCTTTTTTCTGAAATACGGAGTTTTCTACTCCATAAAT
ATTTTCGAAGGGATTTTTCTTGTTTTTAATTTTT
Found at i:365547 original size:327 final size:327
Alignment explanation
Indices: 364969--365577 Score: 818
Period size: 327 Copynumber: 1.9 Consensus size: 327
364959 ATTTAACTCC
* * * *
364969 AAAATTCATCAAATATTATTATCTAGTTCATATTAAATCGGTTTTAAAAAATTTATTGATTTTCA
1 AAAACTCATCAAATATTATTATCTAATTCATATTAAATCAGTTTTAAAAAATTTATTCATTTTCA
* * * *
365034 TTCATTTTGATTTTTTTATAATTCCCTTATTTTTGAAATACAGAGTTTTCTACTCCATTAATGTT
66 TTCATTTTGATTTTTTTATAATTCCCTTATTTTCGAAATACAGAGTTTTCAACTCCATAAATGAT
* ** * * *
365099 TTTTGGGGGATTATTCTTGGTTTTTAATTTTTAAAATTTATCAAATGTTATTATTTAACTCCTAG
131 TTTCGGCAGATTATTCTTGGTTTTTAAATTTTAAAATTTATCAAATATTATTATTTAACTACTAG
* * ***
365164 TAAATCAATTTTCAAAAATTCATTCATTTTCATTAGTTTTGAATTTTTTCTTTAAAATTTATTTT
196 TAAATCAATTTTAAAAAATTCATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTACCGT
*
365229 TTCTGAAATATGGAGTTTTCTACTCTATAAATATTTTCGAAGGGATTTTTCTTAGTTTTCAATTT
261 TTCTGAAATACGGAGTTTTCTACTCTATAAATATTTTCGAAGGGATTTTTCTTAGTTTTCAATTT
365294 TT
326 TT
* *
365296 AAAACTCATCAAATATTATTATCTAATTCATATTGAATCAGTTTTCAAAAATTTATTCATTTTCA
1 AAAACTCATCAAATATTATTATCTAATTCATATTAAATCAGTTTTAAAAAATTTATTCATTTTCA
* ** *
365361 -TGAGTTTTGAATTTTTTCTTTATAATTTTCTTATTTTCGAAATACAGAGTTTTCAATTCCATAA
66 TTCA-TTTTG-A--TTTT-TTTATAATTCCCTTATTTTCGAAATACAGAGTTTTCAACTCCATAA
*
365425 AT-ATTTTCGGACAGATT-TT-TTTGTTTTTAAATTTTAAAATTTATCAAATATTATTATTTAAT
126 ATGATTTTCGG-CAGATTATTCTTGGTTTTTAAATTTTAAAATTTATCAAATATTATTATTTAA-
* * **
365487 TTAC-ATTAAATCTGTTTTAAAAAATTCATTCATTTTCATGAGTTTT-AATTTTTT-TTTAAAAT
189 CTACTAGTAAATCAATTTTAAAAAATTCATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAAT
*
365549 TTCCCGTTTCTGAAATACGGAGTTTTCTA
254 TTACCGTTTCTGAAATACGGAGTTTTCTA
365578 ATTCATATTA
Statistics
Matches: 243, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
326 2 0.01
327 96 0.40
328 9 0.04
329 76 0.31
330 14 0.06
331 46 0.19
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (327 bp):
AAAACTCATCAAATATTATTATCTAATTCATATTAAATCAGTTTTAAAAAATTTATTCATTTTCA
TTCATTTTGATTTTTTTATAATTCCCTTATTTTCGAAATACAGAGTTTTCAACTCCATAAATGAT
TTTCGGCAGATTATTCTTGGTTTTTAAATTTTAAAATTTATCAAATATTATTATTTAACTACTAG
TAAATCAATTTTAAAAAATTCATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTACCGT
TTCTGAAATACGGAGTTTTCTACTCTATAAATATTTTCGAAGGGATTTTTCTTAGTTTTCAATTT
TT
Found at i:365597 original size:93 final size:96
Alignment explanation
Indices: 365491--365673 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 96
365481 TTTAATTTAC
* *
365491 ATTAAATCTGTTTTAAAAAATTCATTCATTTTCATGAGTTTT-AATTTTTT-TTTAAAA-TTTCC
1 ATTAAATCAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTTCC
* *
365553 CGTTTCTGAAATACGGAGTTTTCTAATTCAT
66 CATTTCTGAAAAACGGAGTTTTCTAATTCAT
** * * *
365584 ATTAAATCAGTTTTGGAAATTTAATTTATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTTTC
1 ATTAAATCAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTTCC
* *
365649 TATTTCTGAAAAACTGAGTTTTCTA
66 CATTTCTGAAAAACGGAGTTTTCTA
365674 TTCCATAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
93 36 0.47
94 8 0.11
95 7 0.09
96 25 0.33
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (96 bp):
ATTAAATCAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGAATTTTTTCTTTAAAATTTTCC
CATTTCTGAAAAACGGAGTTTTCTAATTCAT
Found at i:365834 original size:257 final size:253
Alignment explanation
Indices: 365317--365835 Score: 548
Period size: 257 Copynumber: 2.0 Consensus size: 253
365307 AATATTATTA
*
365317 TCTAATTCATATTGAATCAGTTTTCAAAAATTTATTCATTTTCATGAGTTTTGAATTTTTTCTTT
1 TCTAATTCATATTAAATCAGTTTTCAAAAATTTATTCATTTTCATGAGTTTTGAATTTTTTCTTT
* *
365382 ATAATTTTCTTATTTTCGAAATACAGAGTTTTCAATTCCATAAATATTTTCGGACAGATTTTTTT
66 AAAATTTTCTTATTTTCGAAAAACAGAGTTTTCAATTCCATAAATATTTTCGGACAGATTTTTTT
* * * * * * * *
365447 GTTTTTAAATTTTAAAATTTATCAAATATTATTATTTAATTTACATTAAATCTGTTTTAAAAAAT
131 GGTTTAAAATTTTAAAATTCATCAAATATTATTATTAAACTCACATTAAATCAGTTCTAAAAAAT
* * * * **
365512 TCATTCATTTTCATGAGTTTTAATTTTTTTTTAAAATTTCCCGTTTCTGAAATACGGAGTTT
196 TCATTCATTTTCACGAATTTTAATTTTTATATAAAATTT--C-TTTC-GAAATAAAGAGTTT
** *
365574 TCTAATTCATATTAAATCAGTTTT-GGAAATTTAATTTATTTTCATGAGTTTTGAATTTTTTCTT
1 TCTAATTCATATTAAATCAGTTTTCAAAAATTT-ATTCATTTTCATGAGTTTTGAATTTTTTCTT
* * * * * **
365638 TAAAATTTT-TCTA-TTTCTGAAAAACTGAGTTTTCTATTCCATAATTGTTTTTGGAGGGATTTT
65 TAAAATTTTCT-TATTTTC-GAAAAACAGAGTTTTCAATTCCATAAATATTTTCGGACAGATTTT
* *
365701 TCTTGGTTTAAAATTTTTAAAATTCATCTAATATTGTTATTAAACTCACATTAAATCAGCTTCT-
128 T-TTGGTTTAAAA-TTTTAAAATTCATCAAATATTATTATTAAACTCACATTAAATCAG-TTCTA
* * * *
365765 AGAAATTCAATTTA-TTTCACGAATTTTGAATTTTGATATATATTAATTT-TTTC-ACATAAAGA
190 AAAAATTC-ATTCATTTTCACGAATTTT-AATTTT--TATATA-AAATTTCTTTCGAAATAAAGA
*
365827 TTTT
250 GTTT
365831 TCTAA
1 TCTAA
365836 AATATTTTAT
Statistics
Matches: 217, Mismatches: 34, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
256 11 0.05
257 115 0.53
258 9 0.04
259 60 0.28
260 13 0.06
262 4 0.02
263 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (253 bp):
TCTAATTCATATTAAATCAGTTTTCAAAAATTTATTCATTTTCATGAGTTTTGAATTTTTTCTTT
AAAATTTTCTTATTTTCGAAAAACAGAGTTTTCAATTCCATAAATATTTTCGGACAGATTTTTTT
GGTTTAAAATTTTAAAATTCATCAAATATTATTATTAAACTCACATTAAATCAGTTCTAAAAAAT
TCATTCATTTTCACGAATTTTAATTTTTATATAAAATTTCTTTCGAAATAAAGAGTTT
Found at i:366116 original size:19 final size:19
Alignment explanation
Indices: 366092--366129 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
366082 GAAACTCAGC
*
366092 AAAAAAAAAAA-AGGAAAA
1 AAAAAAAAAAACAAGAAAA
366110 AAAAAAAAAAACAAGAAAA
1 AAAAAAAAAAACAAGAAAA
366129 A
1 A
366130 CTAGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAACAAGAAAA
Found at i:366128 original size:16 final size:17
Alignment explanation
Indices: 366092--366129 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
366082 GAAACTCAGC
*
366092 AAAAAAAAAAAAGGAAA
1 AAAAAAAAAAAAGCAAA
*
366109 AAAAAAAAAAAA-CAAG
1 AAAAAAAAAAAAGCAAA
366125 AAAAA
1 AAAAA
366130 CTAGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAGCAAA
Found at i:368003 original size:158 final size:154
Alignment explanation
Indices: 367616--368159 Score: 453
Period size: 158 Copynumber: 3.5 Consensus size: 154
367606 AATGGCCTCT
* ** **
367616 TAGGTTATCATCGGGTCTGC-TTTATGTTGAAGGTGGACATTTAGGATAGGCTT-ATCTTGTCTA
1 TAGGTTATCACCGGGTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGG-TTCATCTTGTCTA
** * * *
367679 TAATTCTTTTCGAGCCCTTAAGGAGTGT-CAGG-TAC-TTCTATGTCGAAAGTATCCTTTAAGGG
64 TAATTCTTTTTAAGTCCTTTAGG-GT-TACAGGATACTTTCTATATCGAAAGTATCCTTT-AGGG
* * * *
367741 TATTTTCGTAATTTTTCTAAAATCGAGTCT
126 TATTTTTGTAATTTTTC-AAAACCAAGTCC
* * * * * ***
367771 TAGGTTGTCACTAGGTTCGCTTTTATGCCGAAAGTGGGTATTTAGGATAAGTTCATCCCATCTAT
1 TAGGTTATCAC-CGGGTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCTTGTCTAT
* * * *
367836 AATTTTTTTTTAAGTCTTTTAGGGTTACCAGGATACTTTC-ATATCGAATGTATCCTTTAGGTAT
65 AA-TTCTTTTTAAGTCCTTTAGGGTTA-CAGGATACTTTCTATATCGAAAGTATCCTTTAGG-GT
367900 ATTTTTGTAATTTTTTCAAAACCAAGTCC
127 ATTTTTGTAA-TTTTTCAAAACCAAGTCC
* * * *
367929 TAAGTTATCACCGGGTCAGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTTATTTTGTCTAT
1 TAGGTTATCACCGGGTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCTTGTCTAT
* * ** * * * *
367994 AATCCTTTTTAAATCCTTTAGAGG-TA-TTGA-GCATTTCTAAATCGAACGTATCCCTTAGAGGT
65 AATTCTTTTTAAGTCCTTTAG-GGTTACAGGATAC-TTTCTATATCGAAAGTATCCTTTAG-GGT
** *
368056 A-TTTTCCAATTTTTCAAAACTAAGTCC
127 ATTTTTGTAATTTTTCAAAACCAAGTCC
* *
368083 TAGGTTATCACCAGGTTCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCAT-TATGTCTA
1 TAGGTTATCACC-GGGTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCT-TGTCTA
**
368147 TAATAATTTTTAA
64 TAATTCTTTTTAA
368160 ATCCCCTAAG
Statistics
Matches: 313, Mismatches: 59, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
153 1 0.00
154 81 0.26
155 30 0.10
156 59 0.19
157 43 0.14
158 90 0.29
159 9 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (154 bp):
TAGGTTATCACCGGGTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCTTGTCTATA
ATTCTTTTTAAGTCCTTTAGGGTTACAGGATACTTTCTATATCGAAAGTATCCTTTAGGGTATTT
TTGTAATTTTTCAAAACCAAGTCC
Found at i:368203 original size:154 final size:154
Alignment explanation
Indices: 367911--368205 Score: 378
Period size: 154 Copynumber: 1.9 Consensus size: 154
367901 TTTTTGTAAT
* *
367911 TTTTTCAAAACCAAGTCCTAAGTTATCACCGGGTCAGCTTTTATGTCGAAGGTGGGTATTTAGGA
1 TTTTTCAAAACCAAGTCCTAAGTTATCACCGGGTCAGCTTTTATGCCAAAGGTGGGTATTTAGGA
* * ** ** * *
367976 TAGGTTTATTTTGTCTATAATCCTTTTTAAATCCTTTAGAGGTATTGAGCATTTCTAAATCGAAC
66 TAGGTTCATTATGTCTATAATAATTTTTAAATCCCCTAGAGATATCGAGCATTTCTAAATCGAAC
*
368041 GTATCCCTTAGAGGTATTTTCCAA
131 GTAACCCTTAGAGGTATTTTCCAA
* * *
368065 TTTTTCAAAACTAAGTCCTAGGTTATCACCAGGTTC-GCTTTTATGCCAAAGGTGGGTATTTAGG
1 TTTTTCAAAACCAAGTCCTAAGTTATCACC-GGGTCAGCTTTTATGCCAAAGGTGGGTATTTAGG
* * * *
368129 ATAGGTTCATTATGTCTATAATAATTTTTAAATCCCCTA-AGATCGTCGGGCATTTTTAAGTCGA
65 ATAGGTTCATTATGTCTATAATAATTTTTAAATCCCCTAGAGAT-ATCGAGCATTTCTAAATCGA
**
368193 TGGTAACCCTTAG
129 ACGTAACCCTTAG
368206 GGAAATTTTA
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
153 3 0.03
154 112 0.94
155 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (154 bp):
TTTTTCAAAACCAAGTCCTAAGTTATCACCGGGTCAGCTTTTATGCCAAAGGTGGGTATTTAGGA
TAGGTTCATTATGTCTATAATAATTTTTAAATCCCCTAGAGATATCGAGCATTTCTAAATCGAAC
GTAACCCTTAGAGGTATTTTCCAA
Found at i:371275 original size:21 final size:21
Alignment explanation
Indices: 371232--371274 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
371222 TCTTGTAAAT
371232 AAGAAAAACAAAAAAGAGAAA
1 AAGAAAAACAAAAAAGAGAAA
* *
371253 AAGAAAGAGAAAAAAG-GAAA
1 AAGAAAAACAAAAAAGAGAAA
371273 AA
1 AA
371275 AAGCATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (21 bp):
AAGAAAAACAAAAAAGAGAAA
Found at i:373707 original size:79 final size:80
Alignment explanation
Indices: 373614--373986 Score: 418
Period size: 79 Copynumber: 4.7 Consensus size: 80
373604 TATTTTGGAG
*
373614 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATA-CCCTCGATTATGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTCGATTATGAAAA
373678 ATTGATGTTTTAAAA
66 ATTGATGTTTTAAAA
* * * * *
373693 ATAAAATCGGGGTTGGAGTATCCCCTCGAGAATAACGGGGTTGGAGTATCCC-CAATTGTGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTCGATTATGAAAA
*
373757 ATTGATGTTTTGAAA
66 ATTGATGTTTTAAAA
* * * * * *
373772 ATAAAACCAGGGGTTGTAGTATCTCCTCAAAAATAACAGGATT-GAAGTATCTCC-CGATTATAA
1 ATAAAATC-GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAA-TATC-CCTCGATTAT-G
*
373835 AAAAATTGATGTTTCAAAA
62 AAAAATTGATGTTTTAAAA
* ** * * *
373854 ATAAAATCGAGGTTGGAGTAT-CCCTCGGGAATAACTGGGTTGGAGTATCCCT-GATTGTGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTCGATTATGAAAA
* *
373917 ATTGATATTTT-GAA
66 ATTGATGTTTTAAAA
* ** * *
373931 ATAAAATCAGGGTTAAAGTATCCCTTCGAAAATAACAGGGTTAGAATATCCCTCGA
1 ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTCGA
373987 AAATAACAGG
Statistics
Matches: 240, Mismatches: 45, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
77 19 0.08
78 38 0.16
79 86 0.36
80 53 0.22
81 20 0.08
82 24 0.10
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (80 bp):
ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATATCCCTCGATTATGAAAA
ATTGATGTTTTAAAA
Found at i:373918 original size:160 final size:157
Alignment explanation
Indices: 373603--373986 Score: 490
Period size: 160 Copynumber: 2.4 Consensus size: 157
373593 GAAAAGTTTA
* * *
373603 ATATTTTGGAGATAAAACC-GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAATACCCTC
1 ATATTTT-GAAATAAAACCAGGGGTTGAAGTAT-CCCTCGAAAATAACAGGATTGGAATACCCTC
* * *
373667 GATTATGAAAAATTGATGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGAGAATAACGGG
64 GATTATAAAAAATTGATGTTTCAAAAATAAAATCGAGGTTGGAGTATCCCCTCGAGAATAACGGG
373732 GTTGGAGTATCCCCAATTGTGAAAAATTG
129 GTTGGAGTATCCCCAATTGTGAAAAATTG
* * *
373761 ATGTTTTGAAAATAAAACCAGGGGTTGTAGTATCTCCTCAAAAATAACAGGATT-GAAGTATCTC
1 ATATTTTG-AAATAAAACCAGGGGTTGAAGTATC-CCTCGAAAATAACAGGATTGGAA-TA-C-C
*
373825 C-CGATTATAAAAAAATTGATGTTTCAAAAATAAAATCGAGGTTGGAGTAT-CCCTCGGGAATAA
61 CTCGATTAT-AAAAAATTGATGTTTCAAAAATAAAATCGAGGTTGGAGTATCCCCTCGAGAATAA
* **
373888 CTGGGTTGGAGTATCCCTGATTGTGAAAAATTG
125 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTG
* * * *
373921 ATATTTTGAAATAAAATCA-GGGTTAAAGTATCCCTTCGAAAATAACAGGGTTAGAATATCCCTC
1 ATATTTTGAAATAAAACCAGGGGTTGAAGTATCCC-TCGAAAATAACAGGATTGGAATA-CCCTC
373985 GA
64 GA
373987 AAATAACAGG
Statistics
Matches: 198, Mismatches: 18, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
157 5 0.03
158 52 0.26
159 44 0.22
160 57 0.29
161 40 0.20
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (157 bp):
ATATTTTGAAATAAAACCAGGGGTTGAAGTATCCCTCGAAAATAACAGGATTGGAATACCCTCGA
TTATAAAAAATTGATGTTTCAAAAATAAAATCGAGGTTGGAGTATCCCCTCGAGAATAACGGGGT
TGGAGTATCCCCAATTGTGAAAAATTG
Found at i:373971 original size:28 final size:28
Alignment explanation
Indices: 373938--374010 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
373928 GAAATAAAAT
373938 CAGGGTTAAAGTATCCCTTCGAAAATAA
1 CAGGGTTAAAGTATCCCTTCGAAAATAA
373966 CAGGGTTAGAA-TATCCC-TCGAAAATAA
1 CAGGGTTA-AAGTATCCCTTCGAAAATAA
**
373993 CAGGGTTGGAGTATCCCT
1 CAGGGTTAAAGTATCCCT
374011 AATTATGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 1 0.03
27 23 0.57
28 14 0.35
29 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (28 bp):
CAGGGTTAAAGTATCCCTTCGAAAATAA
Found at i:373992 original size:105 final size:106
Alignment explanation
Indices: 373872--374071 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 106
373862 GAGGTTGGAG
** * * * *
373872 TATCCCTCGGGAATAACTGGGTTGGAGTATCCCTGATTGTGAAAAATTGATATTTTG-AAATAAA
1 TATCCCTCGAAAATAACAGGGTTGGAGTATCCCTAATTATGAAAAATAGATATTTTGAAAATAAA
*
373936 ATCAGG-GTTAAAGTATCCCTTCGAAAATAACAGGGTTAGAA
66 ATC-GGAGTTAAAGTATCCCTTCAAAAATAACAGGGTTAGAA
* *
373977 TATCCCTCGAAAATAACAGGGTTGGAGTATCCCTAATTATGAAAAATAGGTGTTTTGAAAATAAA
1 TATCCCTCGAAAATAACAGGGTTGGAGTATCCCTAATTATGAAAAATAGATATTTTGAAAATAAA
* **
374042 GTCGGAGTTGGAGTATCCCTTCAAAAATAA
66 ATCGGAGTTAAAGTATCCCTTCAAAAATAA
374072 AATCATAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
105 51 0.63
106 30 0.37
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (106 bp):
TATCCCTCGAAAATAACAGGGTTGGAGTATCCCTAATTATGAAAAATAGATATTTTGAAAATAAA
ATCGGAGTTAAAGTATCCCTTCAAAAATAACAGGGTTAGAA
Found at i:377116 original size:62 final size:60
Alignment explanation
Indices: 377036--377527 Score: 504
Period size: 61 Copynumber: 8.1 Consensus size: 60
377026 GGGGACATCT
* * * * *
377036 TGCTCTTTGAGGACTAAAGAGTGCTACCAACTCATGTTGGCTTTGAAAAGAAAAAGGCGTCA
1 TGCTCTTTGAGGACTAAAG-GTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
* * * * * *
377098 TGCTTTTTGAGGACTAAAGGGTGTCACCAACTCGTGTGGACTTGAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
377159 TACTCTTTGAGGATTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
* * * * * ** *
377221 TGCTTTTTGAGGGCTAAAGGGTGACATCAACTTGAATGGGCTTTAAAAGGAAAATGCGTCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
** * * * *
377282 TGCTCTTTGAGGACTGAAAGGCACCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCATCA
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
377343 TGCTCTTTGAGGACTTAAAGGTGCCACCAAATTGTGT-GGCTTTAAAAGGAAAATGTGTCT
1 TGCTCTTTGAGGAC-TAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
377403 TGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCGTCA
1 TGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
377462 TGCTCCTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
377523 TGCTC
1 TGCTC
377528 CTTAAGGATT
Statistics
Matches: 368, Mismatches: 54, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
59 53 0.14
60 58 0.16
61 167 0.45
62 89 0.24
63 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:377238 original size:123 final size:121
Alignment explanation
Indices: 377036--377540 Score: 543
Period size: 123 Copynumber: 4.1 Consensus size: 121
377026 GGGGACATCT
* * * *
377036 TGCTCTTTGAGGACTAAAGAGTGCTACCAACTCATGTTGGCTTTGAAAAGAAAAAGGCGTCATGC
1 TGCTCTTTGAGGATTAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGC
* * * * * * *
377101 TTTTTGAGGACTAAAGGGTGTCACCAACTCGTGTGGACTTGAAAAGAAAAAGGCATCC
65 TCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
377159 TACTCTTTGAGGATTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAAGGCGTCCTGC
1 TGCTCTTTGAGGATTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGC
* * * * ** *
377224 TTTTTGAGGGCTAAAGGGTGACATCAACTTGAATGGGCTTTAAAAGGAAAATGCGTCC
65 TCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* ** * * * *
377282 TGCTCTTTGAGGACTGAAAGGCACCACCAACTTGTGTGGGCTTT-AAAAGGAAAATGCATCATGC
1 TGCTCTTTGAGGA-TTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGC
* * * *
377346 TCTTTGAGGACTTAAAGGTGCCACCAAATTGTGT-GGCTTTAAAAGGAAAATGTGTCT
65 TCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
377403 TGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGTGTGGGCTTTG-AAAG-GAAA-GCGTCATGC
1 TGCTCTTTGAGGATTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGC
* *
377465 TCCTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGAAAAGGCGTCC
65 TCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
377523 TGCTCCTTAAGGATTAAA
1 TGCTCTTTGAGGATTAAA
377541 AGGATAAAAG
Statistics
Matches: 323, Mismatches: 52, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
118 2 0.01
119 39 0.12
120 36 0.11
121 62 0.19
122 38 0.12
123 141 0.44
124 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (121 bp):
TGCTCTTTGAGGATTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:377368 original size:184 final size:180
Alignment explanation
Indices: 377036--377518 Score: 539
Period size: 184 Copynumber: 2.6 Consensus size: 180
377026 GGGGACATCT
* *
377036 TGCTCTTTGAGGACTA-AAGAGTGCTACCAACTCATG--TTGGCTTTGAAAAGAAAAAGGCGTCA
1 TGCTCTTTGAGGACTAGAAG-GTGCTACCAACT--TGAATGGGCTTT-AAAAGGAAAA-GCGTCA
* * * * * * *
377098 TGCTTTTTGAGGACTAAAGGGTGTCACCAACTCGTGTGGACTTGAAAAGAAAAAGGCATCCTACT
61 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATACT
*
377163 CTTTGAGGATTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAAGGCGTCC
125 CTTTGAGGATTAAAGGGTGCCACCAAATCGTGT-GGCTTT-AAAAGAAAAAGGCGTCC
* * * *
377221 TGCTTTTTGAGGGCTA-AAGGGTGAC-ATCAACTTGAATGGGCTTTAAAAGGAAAATGCGTCCTG
1 TGCTCTTTGAGGACTAGAA-GGTG-CTACCAACTTGAATGGGCTTTAAAAGGAAAA-GCGTCATG
** * *
377284 CTCTTTGAGGACTGAAAGGCACCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCATCATGCTCT
63 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATACTCT
* * * * *
377349 TTGAGGACTTAAA-GGTGCCACCAAATTGTGTGGCTTTAAAAGGAAAATGTGTCT
127 TTGAGGA-TTAAAGGGTGCCACCAAATCGTGTGGCTTTAAAAGAAAAAGGCGTCC
** *
377403 TGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGG-AAAGCGTCATGCTC
1 TGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGAATGGGCTTTAAAAGGAAAAGCGTCATGCTC
* *
377467 CTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGAAAAGGC
66 TTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
377519 GTCCTGCTCC
Statistics
Matches: 253, Mismatches: 36, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
179 1 0.00
180 55 0.22
181 4 0.02
182 52 0.21
183 10 0.04
184 89 0.35
185 40 0.16
186 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (180 bp):
TGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGAATGGGCTTTAAAAGGAAAAGCGTCATGCTC
TTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATACTCTTTGA
GGATTAAAGGGTGCCACCAAATCGTGTGGCTTTAAAAGAAAAAGGCGTCC
Found at i:378573 original size:16 final size:17
Alignment explanation
Indices: 378540--378578 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
378530 TTCCTTTTTC
*
378540 TTTTTTTCTTGTTGTTT
1 TTTTTTTCTTGTTATTT
*
378557 TTTTTTTGTT-TTATTT
1 TTTTTTTCTTGTTATTT
378573 TTTTTT
1 TTTTTT
378579 GTAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTTTTCTTGTTATTT
Found at i:388881 original size:4 final size:4
Alignment explanation
Indices: 388872--388898 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
388862 AAACAAAACA
388872 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
388899 CTCCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:391032 original size:79 final size:79
Alignment explanation
Indices: 390933--391310 Score: 427
Period size: 79 Copynumber: 4.8 Consensus size: 79
390923 AAGTTTAATA
* * **
390933 TTTTGGAGATAAAATCGGGGTTGGAGTATTCCCTTGAAAATAACAAGGTTGGAATATCCCCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTTAAAAATAACGGGGTTGGAATATCCCCGATT
* *
390998 GTGAAAAATTGGTG
66 GTGAAAAATCGATG
* * ** *
391012 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAGAATAACGGGGTT-GAAGTATCCCCGAT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTTAAAAATAACGGGGTTGGAA-TATCCCCGAT
*
391076 TGTGAAAAATCGATA
65 TGTGAAAAATCGATG
* * * * *
391091 TTTTGGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTTAAAAATAACGGGGTTGGAATATCCCCGATT
*
391156 GTAAAAAAATCGATG
66 GT-GAAAAATCGATG
** * * * ** * *
391171 TTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTCAGGAATAACGGGGTTGGAGTATCCTCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTTAAAAATAACGGGGTTGGAATATCCCCGATT
391236 GTGAAAAATCGATG
66 GTGAAAAATCGATG
* * * * *
391250 TTTTGGAAATAAAATCGAGATTAGAGTA-TCCTTTCAAAAATAACTGGGTTGGAATATCCCC
1 TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTT-AAAAATAACGGGGTTGGAATATCCCC
391311 TCGAAAATAA
Statistics
Matches: 258, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
78 6 0.02
79 181 0.70
80 71 0.28
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTTAAAAATAACGGGGTTGGAATATCCCCGATT
GTGAAAAATCGATG
Found at i:391229 original size:159 final size:158
Alignment explanation
Indices: 390930--391310 Score: 505
Period size: 159 Copynumber: 2.4 Consensus size: 158
390920 GAAAAGTTTA
* * * ** *
390930 ATATTTTGGAGATAAAATCGGGGTTGGAGTATTCCCTTGAAAATAACAAGGTTGGAATATCCCCG
1 ATATTTTGGAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAATATCCCCG
* * * ** *
390995 ATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAGAATAACGGGG
66 ATTGTAAAAAATCGATGTTTTGAAAATAAAATCAAGGTTAGAGTATCCCCTCGAGAATAACGGGG
391060 TTGAAGTATCCCCGATTGTGAAAAATCG
131 TTGAAGTATCCCCGATTGTGAAAAATCG
* * *
391088 ATATTTTGGAAATAAAACCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTGGAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAATATCCCCG
*
391153 ATTGTAAAAAAATCGATGTTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTC-AGGAATAACGG
66 ATTGT-AAAAAATCGATGTTTTGAAAATAAAATCAAGGTTAGAGTATCCCCTCGA-GAATAACGG
* *
391217 GGTTGGAGTATCCTCGATTGTGAAAAATCG
129 GGTTGAAGTATCCCCGATTGTGAAAAATCG
* * * ** *
391247 ATGTTTTGGAAATAAAATCGAGATT-AGAGTATCCTTTCAAAAATAACTGGGTTGGAATATCCCC
1 ATATTTTGGAAATAAAATCGGGGTTGA-AGTATCCCCTCAAAAATAACAGGGTTGGAATATCCCC
391311 TCGAAAATAA
Statistics
Matches: 194, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
158 63 0.32
159 131 0.68
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (158 bp):
ATATTTTGGAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAACAGGGTTGGAATATCCCCG
ATTGTAAAAAATCGATGTTTTGAAAATAAAATCAAGGTTAGAGTATCCCCTCGAGAATAACGGGG
TTGAAGTATCCCCGATTGTGAAAAATCG
Found at i:393791 original size:50 final size:50
Alignment explanation
Indices: 393737--393860 Score: 212
Period size: 50 Copynumber: 2.5 Consensus size: 50
393727 AAAAATGTCT
* * *
393737 GAATGTATCGATACATTGAGAAATGTATCGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAAACCCA
393787 GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAAACCCA
*
393837 GAATGTATCGATACAATAAAAAAT
1 GAATGTATCGATACAATGAAAAAT
393861 CTACTAATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.25
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAAACCCA
Found at i:393794 original size:30 final size:29
Alignment explanation
Indices: 393758--393851 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 29
393748 TACATTGAGA
393758 AATGTATCGATACATCTGGGTAAAACCCAG
1 AATGTATCGATACATCT-GGTAAAACCCAG
*
393788 AATGTATCGATACA-AT-G---AA---A-
1 AATGTATCGATACATCTGGTAAAACCCAG
393808 AATGTATCGATACATCTAGGTAAAACCCAG
1 AATGTATCGATACATCT-GGTAAAACCCAG
393838 AATGTATCGATACA
1 AATGTATCGATACA
393852 ATAAAAAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
20 14 0.27
21 2 0.04
23 1 0.02
24 2 0.04
26 2 0.04
27 1 0.02
29 2 0.04
30 28 0.54
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (29 bp):
AATGTATCGATACATCTGGTAAAACCCAG
Found at i:394957 original size:35 final size:35
Alignment explanation
Indices: 394869--395003 Score: 137
Period size: 35 Copynumber: 3.9 Consensus size: 35
394859 GCCAACTTGT
* * *
394869 TCATGGTTTGACTGTATCTAATCAAACTTTTTTCA
1 TCATCGTTTGACTGTATCTAGTCAAACTCTTTTCA
* * * *
394904 TCGTCTTTTTACTATATCTAGTCAAACTCTTTTCA
1 TCATCGTTTGACTGTATCTAGTCAAACTCTTTTCA
* * *
394939 TCATCGTTTGACCGTATCTGGTTAAACT-TTTTCTA
1 TCATCGTTTGACTGTATCTAGTCAAACTCTTTTC-A
* * *
394974 TCATTGTTTAACTGTATCTCGTCAAACTCT
1 TCATCGTTTGACTGTATCTAGTCAAACTCT
395004 GTTAGGATCT
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
34 5 0.06
35 73 0.92
36 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (35 bp):
TCATCGTTTGACTGTATCTAGTCAAACTCTTTTCA
Found at i:395325 original size:20 final size:19
Alignment explanation
Indices: 395270--395325 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
395260 AAAACCCTTA
*
395270 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
395290 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
395310 AATGTATCGATACATG
1 AAAGTATCGATACATG
395326 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:395401 original size:19 final size:18
Alignment explanation
Indices: 395377--395440 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
395367 TAGCCAAACT
395377 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
395396 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
395409 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
395428 TTGTATCGATACA
1 -TGTATCGATACA
395441 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:395413 original size:13 final size:13
Alignment explanation
Indices: 395395--395420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
395385 TACACAAAAT
395395 ATGTATCGATACA
1 ATGTATCGATACA
395408 ATGTATCGATACA
1 ATGTATCGATACA
395421 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:395418 original size:32 final size:33
Alignment explanation
Indices: 395377--395440 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
395367 TAGCCAAACT
*
395377 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
395409 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
395441 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:399507 original size:15 final size:15
Alignment explanation
Indices: 399487--399517 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
399477 TAAAAATGTC
*
399487 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
399502 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
399517 C
1 C
399518 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:404082 original size:20 final size:19
Alignment explanation
Indices: 404027--404082 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
404017 AAAACCCTTA
*
404027 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
404047 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
404067 AATGTATCGATACATG
1 AAAGTATCGATACATG
404083 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:404176 original size:20 final size:20
Alignment explanation
Indices: 404133--404184 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
404123 GTAGCCAAAC
*
404133 TTGTATCGATACACAAAATA
1 TTGTATCGATACACAAAAAA
404153 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
404172 TTGTATCGATACA
1 TTGTATCGATACA
404185 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:405010 original size:56 final size:56
Alignment explanation
Indices: 404924--405032 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
404914 TGATAAGCTT
* * *
404924 TCAAACTCTTTTCATCATTGTTTGATTATATTTGATCAAACTCTATCCATCATGGG
1 TCAAACTCTTTTCATCATTGTTTGAGTATATCTGATCAAACTCTACCCATCATGGG
* *
404980 TCAAACTCTTTTTATCATTGTTTGAGTATATCTGATCAAACTCTCCCCATCAT
1 TCAAACTCTTTTCATCATTGTTTGAGTATATCTGATCAAACTCTACCCATCAT
405033 CGTTTGGCTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (56 bp):
TCAAACTCTTTTCATCATTGTTTGAGTATATCTGATCAAACTCTACCCATCATGGG
Found at i:405092 original size:70 final size:70
Alignment explanation
Indices: 404978--405519 Score: 552
Period size: 70 Copynumber: 7.7 Consensus size: 70
404968 ATCCATCATG
** * * * * *** *
404978 GGTCAAACTCTTTTTATCATTGTTTGAGTATATCTGATCAAACTCTCCCCATCATCGTTTGGCTG
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACTG
405043 TATCT
66 TATCT
* * * * * *
405048 AGTCAAACTC-TCCTCATCATCGTTTGATTGTATTTGGTTAAACTCTTCTCATCATCGTTTGACT
1 GGTCAAACTCTTTC-CATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACT
*
405112 ATATCT
65 GTATCT
* * ** * * *
405118 GGTTAAACTC-TTCCTATCATCGTTTAACTACATCTGGTCAAACTCTTTTCACCGTCGTTTGATT
1 GGTCAAACTCTTTCC-ATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACT
405182 GTATCT
65 GTATCT
* * * * * * *
405188 AGTTAAACTCTTTTCATCATCGTTTTGACTCTATCTTGTCAAACTCTTTTCACCATCATTTGACT
1 GGTCAAACTCTTTCCATCATCG-TTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACT
*
405253 ATATCT
65 GTATCT
* * * *
405259 GGTCAAACTCTTTCCATCATCATTTGACTGTATCTAGTCAAACT-TTTTTATCATCGTTTAACTG
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACTG
405323 TATCT
66 TATCT
* * **
405328 GGTCAAACTCTTTCCATCATCGTTTGGCTGTATCTAGTCAAACTCTTTTCATCATCGTTTGGTTG
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACTG
*
405393 TAGCT
66 TATCT
* * * * ** *
405398 AGTCAAACTCTTTCCATCATCGTTTGATTGTATTTGGTCAAACTATTTTCATCATCGTTTGGTTA
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACTG
405463 TATCT
66 TATCT
* * * *
405468 GGTCAAACTCATTCCATCATGGTTT-AGCTGTATCTGGTTAAACCCTTTTCAT
1 GGTCAAACTCTTTCCATCATCGTTTGA-CTGTATCTGGTCAAACTCTTTTCAT
405520 TCTCGGTTGA
Statistics
Matches: 394, Mismatches: 72, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
69 65 0.16
70 268 0.68
71 61 0.15
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (70 bp):
GGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTTCATCATCGTTTGACTG
TATCT
Found at i:405486 original size:35 final size:35
Alignment explanation
Indices: 404978--405515 Score: 501
Period size: 35 Copynumber: 15.4 Consensus size: 35
404968 ATCCATCATG
** * * *
404978 GGTCAAACTCTTTTTATCATTGTTTGAGTATATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* ** *
405013 GATCAAACTCTCCCCATCATCGTTTGGCTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* * * *
405048 AGTCAAACTC-TCCTCATCATCGTTTGATTGTATTT
1 GGTCAAACTCTTTC-CATCATCGTTTGACTGTATCT
* *
405083 GGTTAAACTC-TTCTCATCATCGTTTGACTATATCT
1 GGTCAAACTCTTTC-CATCATCGTTTGACTGTATCT
* * **
405118 GGTTAAACTC-TTCCTATCATCGTTTAACTACATCT
1 GGTCAAACTCTTTCC-ATCATCGTTTGACTGTATCT
* * * *
405153 GGTCAAACTCTTTTCACCGTCGTTTGATTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* * * *
405188 AGTTAAACTCTTTTCATCATCGTTTTGACTCTATCT
1 GGTCAAACTCTTTCCATCATCG-TTTGACTGTATCT
* * * * *
405224 TGTCAAACTCTTTTCACCATCATTTGACTATATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
*
405259 GGTCAAACTCTTTCCATCATCATTTGACTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* ** *
405294 AGTCAAACT-TTTTTATCATCGTTTAACTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
*
405328 GGTCAAACTCTTTCCATCATCGTTTGGCTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* * ** *
405363 AGTCAAACTCTTTTCATCATCGTTTGGTTGTAGCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* * *
405398 AGTCAAACTCTTTCCATCATCGTTTGATTGTATTT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* * ** *
405433 GGTCAAACTATTTTCATCATCGTTTGGTTATATCT
1 GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
* *
405468 GGTCAAACTCATTCCATCATGGTTT-AGCTGTATCT
1 GGTCAAACTCTTTCCATCATCGTTTGA-CTGTATCT
* *
405503 GGTTAAACCCTTT
1 GGTCAAACTCTTT
405516 TCATTCTCGG
Statistics
Matches: 417, Mismatches: 80, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
34 32 0.08
35 353 0.85
36 32 0.08
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (35 bp):
GGTCAAACTCTTTCCATCATCGTTTGACTGTATCT
Found at i:407331 original size:166 final size:164
Alignment explanation
Indices: 406717--407626 Score: 987
Period size: 166 Copynumber: 5.5 Consensus size: 164
406707 TTTTAACTCC
* * *
406717 AAAATTCATCAAATATTATTATCTAATTCATATTAGATCAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * *
406782 TGAGTTTTTAATTTTTTCTTCATAATT-TTCTTATTTCTAAAATACAGAGTTTTCTACTTCATCA
66 TGAGTTTTGAATTTTTTCTTTAAAATTCTT-TTATTTCTAAAATAC-GAGTTTTCTACTTCATAA
* * *
406846 ATGTTTTAAGGGGGATTTTTTTAGGTTTTTAATTTTT
129 ATATTTT-CGGGGGATTTTTTTTGGTTTTTAATTTTT
* * * * * *
406883 TAAATTCATAAAATATTATTACTCAATTCATATTAAATTTACTTTT-ATAAATTCATTCATTTTC
1 AAAATTCATAAAATATTATTATTTAATTCATATTAAA-TCAGTTTTCAAAAATTCATTCATTTTC
* *
406947 ATGAGTTTTGAATTTTTTGTTTAAAATTCTTTT-TTTCTAAAACACGGAGTTTTCTAC-TCAATA
65 ATGAGTTTTGAATTTTTTCTTTAAAATTCTTTTATTTCTAAAATAC-GAGTTTTCTACTTC-ATA
* * *
407010 AATGTTTTCGGGGGGATTCTTTTAGGTTTTTAATTTTT
128 AATATTTTC-GGGGGATTTTTTTTGGTTTTTAATTTTT
* * *
407048 AAAACTCATAAAATATTATTATCTAATTCATATTAAATTA-TTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * ** *
407112 TGATTTTTGAATTTTTTCTTTATAATTCTCATGTTTCTAAAATACGAAGTTTTCTACTTCATAAA
66 TGAGTTTTGAATTTTTTCTTTAAAATTCTTTTATTTCTAAAATACG-AGTTTTCTACTTCATAAA
* * **
407177 TATTTTTGGAGAGATTTTTTTTTATTTTTAATTTTT
130 TATTTTCGG-GGGATTTTTTTTGGTTTTTAATTTTT
* * *
407213 AAAATTCATCAAATATTATTATTTAATTCATATTGAATCATTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * *
407278 TAAGTTTTGAATTTTTTCTTTAAAATTCTTTTATTTTTGAAATACAGAGTTTTCTACTCCATAAA
66 TGAGTTTTGAATTTTTTCTTTAAAATTCTTTTATTTCTAAAATAC-GAGTTTTCTACTTCATAAA
* *
407343 TGTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTT
130 TATTTTCG-GGGGATTTTTTTTGGTTTTTAATTTTT
* ** * *
407379 AAAATTCATAAAATATTATTATTTAATTTATATTAAATCAGTTTTGGAAAATTAATTTATTTTCA
1 AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
407444 TGAGTTTTGATTTTTTTTCTTTGAAATT-TCTCTATTTCCAAAAAATCGAGTTTTCTA-TTCTAT
66 TGAGTTTTGA-ATTTTTTCTTTAAAATTCT-TTTATTTCTAAAATA-CGAGTTTTCTACTTC-AT
* * *
407507 AAATATTTTCGGGAGAATTTTTCTTGG-TTTAAATTTTT
127 AAATATTTTCGGG-GGATTTTTTTTGGTTTTTAATTTTT
* ** * * * * * *
407545 AAAATTTATCTAATATTGTTATTAAACTC-TCATTAAATTAG-TTTCTAAAAATTAAATTTA-TT
1 AAAATTCATAAAATATTATTATTTAATTCAT-ATTAAATCAGTTTTC-AAAAATT-CATTCATTT
*
407607 TCATGAATTTTGAATTTTTT
63 TCATGAGTTTTGAATTTTTT
407627 TATGTATATT
Statistics
Matches: 635, Mismatches: 89, Indels: 41
0.83 0.12 0.05
Matches are distributed among these distances:
163 4 0.01
164 53 0.08
165 188 0.30
166 314 0.49
167 75 0.12
168 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.51
Consensus pattern (164 bp):
AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
TGAGTTTTGAATTTTTTCTTTAAAATTCTTTTATTTCTAAAATACGAGTTTTCTACTTCATAAAT
ATTTTCGGGGGATTTTTTTTGGTTTTTAATTTTT
Found at i:407945 original size:19 final size:18
Alignment explanation
Indices: 407923--407978 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
407913 TTAGAAACTC
*
407923 AGAAAAAAGAGAGAAAAAA
1 AGAAAAAA-AAAGAAAAAA
*
407942 AGAAAAGAAAAACAAAAAA
1 AGAAAA-AAAAAGAAAAAA
*
407961 ACAAAAAAAAAAGAAAAA
1 A-GAAAAAAAAAGAAAAA
407979 TAGTTAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 25 0.81
20 6 0.19
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAGAAAAAA
Found at i:409985 original size:19 final size:19
Alignment explanation
Indices: 409961--410014 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
409951 GTAAACACAC
*
409961 AAACAAAAGTAAAAAAA-AA
1 AAACAAAA-CAAAAAAACAA
409980 AAACAAAACAAAAAAACAA
1 AAACAAAACAAAAAAACAA
*
409999 AATAC-ACACAAAAAAA
1 AA-ACAAAACAAAAAAA
410015 AAGTGCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.23
19 22 0.71
20 2 0.06
ACGTcount: A:0.81, C:0.13, G:0.02, T:0.04
Consensus pattern (19 bp):
AAACAAAACAAAAAAACAA
Found at i:409987 original size:13 final size:13
Alignment explanation
Indices: 409971--410000 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
409961 AAACAAAAGT
409971 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
409984 AAAACAAAAAAAC
1 AAAAAAAAAAAAC
409997 AAAA
1 AAAA
410001 TACACACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:411452 original size:34 final size:34
Alignment explanation
Indices: 411333--411698 Score: 314
Period size: 34 Copynumber: 11.0 Consensus size: 34
411323 AGTGGCAATC
* *
411333 TCTTTTCAAAGTCCACGACTCAGTGGCA-TC-TTT
1 TCTTTTC-AAGTCCACAACTCCGTGGCACTCTTTT
* *
411366 TC--TTCAAAGCCCACAACTCCGCGGCAC-CTTGTT
1 TCTTTTC-AAGTCCACAACTCCGTGGCACTCTT-TT
* * *
411399 CCTTTT-AAGCCCACAACTCTGTGGCACTCTTTT
1 TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
* *
411432 TCTTTTCAAGTCCACAACTCTGTGGCAC-ATTTT
1 TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
* * *
411465 TCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TC-TTTTCAAGTCCACAACTCCGTGGCACTCTTTT
*
411500 TCTTTTCAAGTCCACAACTCTGTGGCAC-CTTTT
1 TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
* *
411533 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TC-TTTTCAAGTCCACAACTCCGTGGCACTCTTTT
* * *
411568 TCTTTTTAAAGTCCACAACTCCATGGCA-TCTCTT
1 TC-TTTTCAAGTCCACAACTCCGTGGCACTCTTTT
* * * *
411602 TC-CTTCAAAGTCCACAACGCAGTGGCATCCCTTTT
1 TCTTTTC-AAGTCCACAACTCCGTGGCA-CTCTTTT
* * *
411637 TCCTGT-AAGTCCACAACTCAGTGGCA-TC----
1 TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
*
411665 TCTTTTCAAGTCCACAACTCCGTGGCACCCTTTT
1 TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
411699 AAGTCACAAC
Statistics
Matches: 276, Mismatches: 36, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
28 4 0.01
29 19 0.07
30 1 0.00
31 21 0.08
32 4 0.01
33 61 0.22
34 120 0.43
35 45 0.16
36 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (34 bp):
TCTTTTCAAGTCCACAACTCCGTGGCACTCTTTT
Found at i:411487 original size:68 final size:68
Alignment explanation
Indices: 411313--411662 Score: 346
Period size: 68 Copynumber: 5.2 Consensus size: 68
411303 CTTCTTAAAA
* * * *
411313 TCCACAACTCAGTGGCA-A--TCTCTTTTCAAAGTCCACGACTCAGTGGCA-TC-TTTTC--TTC
1 TCCACAACTCAGTGGCACATTTTTCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCTTTTC
411371 AAAG
66 -AAG
* * * * * * *
411375 CCCACAACTCCGCGGCACCTTGTTCCTTTT-AAGCCCACAACTCTGTGGCACTCTTTTTCTTTTC
1 TCCACAACTCAGTGGCACATTTTTCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCTTTTC
411439 AAG
66 AAG
* *
411442 TCCACAACTCTGTGGCACATTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTTTTC
1 TCCACAACTCAGTGGCACATTTTTCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCTTTTC
411507 AAG
66 AAG
* * *
411510 TCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
1 TCCACAACTCAGTGGCACATTTTTCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTTC-TTTT
*
411575 AAAG
65 CAAG
* * * * * * *
411579 TCCACAACTCCA-TGGCATC-TCTTTC-CTTCAAAGTCCACAACGCAGTGGCATCCCTTTTTCCT
1 TCCACAACT-CAGTGGCA-CATTTTTCTTTTTAAAGCCCACAACTCAGTGGCA-CTCTTTTTCTT
*
411641 GT-AAG
63 TTCAAG
411646 TCCACAACTCAGTGGCA
1 TCCACAACTCAGTGGCA
411663 TCTCTTTTCA
Statistics
Matches: 245, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
62 14 0.06
64 17 0.07
65 7 0.03
66 7 0.03
67 44 0.18
68 120 0.49
69 34 0.14
70 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (68 bp):
TCCACAACTCAGTGGCACATTTTTCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCTTTTC
AAG
Found at i:411671 original size:102 final size:99
Alignment explanation
Indices: 411333--411671 Score: 348
Period size: 102 Copynumber: 3.4 Consensus size: 99
411323 AGTGGCAATC
* * * *
411333 TCTTTTCAAAGTCCACGACTCAGTGGCA-TCTTTTC--TTCAAAGCCCACAACTCCGCGGCACCT
1 TCTTTT-AAAGTCCACAACTCAGTGGCACTCTTTTCTTTTTAAAGCCCACAACTCCGTGGCATCT
* * *
411395 TGTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTT
65 T-TTCC-TTCAAGTCCACAACTCTGTGGCACCCTTTT
* * *
411432 TCTTTTCAAGTCCACAACTCTGTGGCACAT-TTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 TCTTTTAAAGTCCACAACTCAGTGGCAC-TCTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-TC
*
411496 TTTTTCTTTTCAAGTCCACAACTCTGTGGCA-CCTTTT
64 -TTTTC-CTTCAAGTCCACAACTCTGTGGCACCCTTTT
* * * *
411533 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGTCCACAACTCCATGGCATC
1 TC-TTTTAAAGTCCACAACTCAGTGGCACTC-TTTTCTTTTTAAAGCCCACAACTCCGTGGCATC
* *
411598 TCTTTCCTTCAAAGTCCACAACGCAGTGGCATCCCTTTT
64 T-TTTCCTTC-AAGTCCACAACTCTGTGGCA-CCCTTTT
* *
411637 TCCTGT-AAGTCCACAACTCAGTGGCATCTCTTTTC
1 TCTTTTAAAGTCCACAACTCAGTGGCA-CTCTTTTC
411672 AAGTCCACAA
Statistics
Matches: 201, Mismatches: 24, Indels: 27
0.80 0.10 0.11
Matches are distributed among these distances:
98 18 0.09
99 11 0.05
100 1 0.00
101 33 0.16
102 95 0.47
103 35 0.17
104 8 0.04
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (99 bp):
TCTTTTAAAGTCCACAACTCAGTGGCACTCTTTTCTTTTTAAAGCCCACAACTCCGTGGCATCTT
TTCCTTCAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:411713 original size:26 final size:28
Alignment explanation
Indices: 411642--411719 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 28
411632 CTTTTTCCTG
* *
411642 TAAGTCCACAACTCAGTGGCATCTCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTT
411670 TCAAGTCCACAACTCCGTGGCA-CCCTTT
1 T-AAGTCCACAACTCCGTGGCATCCCTTT
411698 TAAGT-CACAACTCCGTGGCATC
1 TAAGTCCACAACTCCGTGGCATC
411720 TTTCTCCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 15 0.33
27 5 0.11
28 7 0.15
29 19 0.41
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (28 bp):
TAAGTCCACAACTCCGTGGCATCCCTTT
Found at i:411844 original size:49 final size:49
Alignment explanation
Indices: 411791--412730 Score: 1051
Period size: 49 Copynumber: 18.9 Consensus size: 49
411781 GGCATCTTCT
* *
411791 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
411840 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---A--
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
411883 TTTAAGTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTTA--
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
411930 -AT-A--CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
411975 TTT-AGTACCAATGTCACTGGCCTTAAATCAGCACATTGGCACCTTCATC
1 TTTAAGT-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
412024 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
412073 TTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* * *
412125 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
412174 TTGAAGTCCAATATTGCTGGCCTTGAATCAGTATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* *
412226 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
412275 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--TTT-ATC
* * *
412327 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
412376 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
*
412428 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
412477 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
*
412529 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * * *
412578 TTTAAGTCCAGTATCGTTGGCCTTAAATCAGCATATCGGCGCCTTCGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATC
** ** * * *
412630 TTTAAAACCCAATGTCATTAGCCTTGAATCAGCACATTGGCATTCTTCTCATC
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-ATC
* * * * * *
412683 TTCAAGTCTAAATGTCGCTGACCGTGAATCAGCCTATTGACATCCTTT
1 TTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
412731 TTCTCATCTT
Statistics
Matches: 764, Mismatches: 95, Indels: 61
0.83 0.10 0.07
Matches are distributed among these distances:
43 75 0.10
44 1 0.00
45 1 0.00
46 3 0.00
47 1 0.00
48 1 0.00
49 369 0.48
50 14 0.02
51 11 0.01
52 222 0.29
53 63 0.08
54 3 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:411927 original size:21 final size:21
Alignment explanation
Indices: 411903--411970 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
411893 ATATCGCTGG
411903 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * * *
411924 CCTTTAAT-ACCA-ATGTCGCTGG
1 CCTTGAATCAACACAT-TGGC--A
*
411946 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACACATTGGCA
411967 CCTT
1 CCTT
411971 TGTCTTTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 2 0.06
20 6 0.18
21 11 0.32
22 7 0.21
23 6 0.18
24 2 0.06
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:412166 original size:101 final size:101
Alignment explanation
Indices: 411925--412766 Score: 1145
Period size: 101 Copynumber: 8.3 Consensus size: 101
411915 ACATTGGCAC
** *
411925 CTTTAA-TACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTT-AGTACCAATG
1 CTTTAAGT-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT-CCAATA
* * *
411988 TCACTGGCCTTAAATCAGCACATTGGCACC--T-TCAT
64 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
412023 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAACTTGAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
*
412088 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * *
412124 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAACTTGAAGTCCAATATT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
* *
412189 GCTGGCCTTGAATCAGTATATTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
412225 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
*
412290 GCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
*
412326 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
412391 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * *
412427 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
*
412492 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
412528 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAGTATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
* * * * *
412593 GTTGGCCTTAAATCAGCATATCGGCGCCTTCGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
** ** * * * *
412629 CTTTAAAACCCAATGTCATTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAA
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTC-CA
* * * * * *
412694 ATGTCGCTGACCGTGAATCAGCCTATTGACATCCTTTTTCTCAT
61 ATATCGCTGGCCTTGAATCAGCATATTGGCA-CC--TTTGTCAT
** * * *
412738 CTTTAAACCCAATATCGTTGGCCGTGAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAAT
412767 TAACTTATTG
Statistics
Matches: 674, Mismatches: 57, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
98 79 0.12
99 4 0.01
100 1 0.00
101 489 0.73
102 32 0.05
104 2 0.00
105 12 0.02
106 22 0.03
107 2 0.00
108 21 0.03
109 10 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:412284 original size:202 final size:202
Alignment explanation
Indices: 411791--412766 Score: 1276
Period size: 202 Copynumber: 4.9 Consensus size: 202
411781 GGCATCTTCT
*
411791 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATG
411853 TCGCTGGCCTTGAATCAGCACATTGGCA----CA--TTTAAGTCCAATATCGCTGGCCTTGAATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* *
411912 AACACATTGGCACCTTTA--A----T-A--CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
131 AGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
**
411968 CTTTGTC
196 CTTCATC
* * * *
411975 TTT-AGTACCAATGTCACTGGCCTTAAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAAT
1 TTTAAGT-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
* *
412036 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAACTTGAAGTCCAATATCGCTGGCCTTGAAT
65 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
412101 CAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
130 CAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
*
412166 CCTTCAAC
195 CCTTCATC
* * * *
412174 TTGAAGTCCAATATTGCTGGCCTTGAATCAGTATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATG
412239 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* *
412304 AGCATATTGGCACCTTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCAC
131 AGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
412369 CTTCATC
196 CTTCATC
412376 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATG
* * *
412441 TCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * *
412506 AGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
131 AGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
412571 CTTCATC
196 CTTCATC
* * * * * * **
412578 TTTAAGTCCAGTATCGTTGGCCTTAAATCAGCATATCGGCGCCTTCGTCATCTTTAAAACCCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT-AAGTCCAAT
** * * * * * * *
412643 GTCATTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAAATGTCGCTGACCGT
65 GTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTC-CAATATCGCTGGCCTT
* * * ** * * *
412708 GAATCAGCCTATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGTGAAT
126 GAATCAGCATATTGGCA-CC--TTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
412767 TAACTTATTG
Statistics
Matches: 699, Mismatches: 62, Indels: 36
0.88 0.08 0.05
Matches are distributed among these distances:
182 1 0.00
183 3 0.00
184 77 0.11
188 2 0.00
190 44 0.06
192 1 0.00
196 1 0.00
197 1 0.00
199 70 0.10
200 3 0.00
201 1 0.00
202 390 0.56
203 32 0.05
205 3 0.00
206 11 0.02
207 26 0.04
208 2 0.00
210 31 0.04
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (202 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
CTTCATC
Found at i:413465 original size:19 final size:19
Alignment explanation
Indices: 413441--413503 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
413431 AACAAGTAAC
413441 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
413460 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
413473 TGTATCGACACATAAGTGT
1 TGTATCGATACATAAGTGT
413492 TGTATCGATACA
1 TGTATCGATACA
413504 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:413486 original size:32 final size:32
Alignment explanation
Indices: 413441--413511 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
413431 AACAAGTAAC
*
413441 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
413473 TGTATCGACACATAAGTGTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
413505 TGTATCG
1 TGTATCG
413512 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (32 bp):
TGTATCGACACATAAGTGTTGTATCGATACAA
Found at i:413641 original size:52 final size:52
Alignment explanation
Indices: 413569--413667 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
413559 ATCGATACAT
*
413569 TGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
*
413621 TGTATCGATACATT-ATTCTTTGTATTGATACATGCAGGCAAATTTTC
1 TGTATCGATACATTGA-TCTTTGTATCGATACATGCAGGCAAATTTTC
413668 ATATTTCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:414323 original size:19 final size:19
Alignment explanation
Indices: 414299--414361 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
414289 AACAAGTAAC
414299 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
414318 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
414331 TGTATCGACACATAAGTGT
1 TGTATCGATACATAAGTGT
414350 TGTATCGATACA
1 TGTATCGATACA
414362 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:414344 original size:32 final size:32
Alignment explanation
Indices: 414299--414369 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
414289 AACAAGTAAC
*
414299 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
414331 TGTATCGACACATAAGTGTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
414363 TGTATCG
1 TGTATCG
414370 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (32 bp):
TGTATCGACACATAAGTGTTGTATCGATACAA
Found at i:414499 original size:52 final size:52
Alignment explanation
Indices: 414427--414525 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
414417 ATCGATACAT
*
414427 TGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
*
414479 TGTATCGATACATT-ATTCTTTGTATTGATACATGCAGGCAAATTTTC
1 TGTATCGATACATTGA-TCTTTGTATCGATACATGCAGGCAAATTTTC
414526 ATATTTCGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:414631 original size:858 final size:857
Alignment explanation
Indices: 412977--414695 Score: 3384
Period size: 858 Copynumber: 2.0 Consensus size: 857
412967 ACTCATTTTT
412977 CCATCGGAACCGCCGCCAATGCACTTTTCATCACGGCGAAGCATTAATCAAACCTCTTATTTAAT
1 CCATCGGAACCGCCGCCAATGCACTTTTCATCACGGCGAAGCATTAATCAAACCTCTTATTTAAT
413042 CACTCCAAGGTCACAACATGCGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTATTCCTG
66 CACTCCAAGGTCACAACATGCGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTATTCCTG
413107 ATACTCAGAAATGGCCAAAGAGGGGCAGTTGTATACACCTCATTTTGTCCGGGTCAATTTTCGAC
131 ATACTCAGAAATGGCCAAAGAGGGGCAGTTGTATACACCTCATTTTGTCCGGGTCAATTTTCGAC
413172 ATTTTGAGGTTTAGTTAGTATATGGAGGAGTGGACATATGTGGGGGCGCCCGGAAAAAATGGTTT
196 ATTTTGAGGTTTAGTTAGTATATGGAGGAGTGGACATATGTGGGGGCGCCCGGAAAAAATGGTTT
413237 TTTTTAGATTATCATAACTTTTTGTTAAGCTCGAATCCATTTCCCATCGTCCCTAGTCGAGATAA
261 TTTTTAGATTATCATAACTTTTTGTTAAGCTCGAATCCATTTCCCATCGTCCCTAGTCGAGATAA
*
413302 GGTGTTCGGAAGGCAAAAAGGATGAAAAAATCACATTTTTGTCCAAATGTATCGATACATTTCTA
326 GGTGTTCGGAAGGCAAAAAGGATGAAAAAATCACATTTTTGTCCAAATGTATCAATACATTTCTA
*
413367 GGATGTATCGATACAAGGTCCTAACGGTTAAAAATTTTGAAATTCAACAATTTGTATCGATACAA
391 GGATGTATCGATACAAGGTCCTAACGGTCAAAAATTTTGAAATTCAACAATTTGTATCGATACAA
413432 ACAAGTAACTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGACACATAAGTGTTGTAT
456 ACAAGTAACTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGACACATAAGTGTTGTAT
413497 CGATACAATGTATCGCTACGAAGCTACTGCCAAGGAAATGTATCGATACATTACTCAAATGTATC
521 CGATACAATGTATCGCTACGAAGCTACTGCCAAGGAAATGTATCGATACATTACTCAAATGTATC
413562 GATACATTGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATC
586 GATACATTGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATC
413627 GATACATTATTCTTTGTATTGATACATGCAGGCAAATTTTCATATTTCGAAACATTTTCCTCCTT
651 GATACATTATTCTTTGTATTGATACATGCAGGCAAATTTTCATATTTCGAAACATTTTCCTCCTT
413692 TGCTAAACGAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAAATCTCAATTTCCACATGTC
716 TGCTAAACGAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAAATCTCAATTTCCACATGTC
413757 AAAACCCATCTTGATCACTTTTGAAGATAAAGAATGGCATTTAATGCCAAAACCATGTGGTCCAA
781 AAAACCCATCTTGATCACTTTTGAAGATAAAGAATGGCATTTAATGCCAAAACCATGTGGTCCAA
*
413822 ATTCATTGGATG
846 ATTCATTAGATG
413834 CCATCGGAACCGCCGCCAATGCACTTTTCATCACGGCGAAGCATTAATCAAACCTCTTATTTAAT
1 CCATCGGAACCGCCGCCAATGCACTTTTCATCACGGCGAAGCATTAATCAAACCTCTTATTTAAT
*
413899 CACTCCAAGGTCACAACATGCGGTCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTATTCCTG
66 CACTCCAAGGTCACAACATGCGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTATTCCTG
413964 ATACTCAGAAATGGCCAAAGAGGGGCAGTTGTATACACCTCATTTTGTCCGGGTCAATTTTCGAC
131 ATACTCAGAAATGGCCAAAGAGGGGCAGTTGTATACACCTCATTTTGTCCGGGTCAATTTTCGAC
414029 ATTTTGAGGTTTAGTTAGTATATGGAGGAGTGGACATATGTGGGGGCGCCCGGAAAAAATGGTTT
196 ATTTTGAGGTTTAGTTAGTATATGGAGGAGTGGACATATGTGGGGGCGCCCGGAAAAAATGG-TT
414094 TTTTTTAGATTATCATAACTTTTTGTTAAGCTCGAATCCATTTCCCATCGTCCCTAGTCGAGATA
260 TTTTTTAGATTATCATAACTTTTTGTTAAGCTCGAATCCATTTCCCATCGTCCCTAGTCGAGATA
414159 AGGTGTTCGGAAGGCAAAAAGGATGAAAAAATCACATTTTTGTCCAAATGTATCAATACATTTCT
325 AGGTGTTCGGAAGGCAAAAAGGATGAAAAAATCACATTTTTGTCCAAATGTATCAATACATTTCT
414224 AGGATGTATCGATACAAGGTCCTAACGGTCAAAAATTTTGAAATTCAACAATTTGTATCGATACA
390 AGGATGTATCGATACAAGGTCCTAACGGTCAAAAATTTTGAAATTCAACAATTTGTATCGATACA
414289 AACAAGTAACTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGACACATAAGTGTTGTA
455 AACAAGTAACTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGACACATAAGTGTTGTA
414354 TCGATACAATGTATCGCTACGAAGCTACTGCCAAGGAAATGTATCGATACATTACTCAAATGTAT
520 TCGATACAATGTATCGCTACGAAGCTACTGCCAAGGAAATGTATCGATACATTACTCAAATGTAT
414419 CGATACATTGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGATGTAT
585 CGATACATTGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGATGTAT
414484 CGATACATTATTCTTTGTATTGATACATGCAGGCAAATTTTCATATTTCGAAACATTTTCCTCCT
650 CGATACATTATTCTTTGTATTGATACATGCAGGCAAATTTTCATATTTCGAAACATTTTCCTCCT
414549 TTGCTAAACGAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAAATCTCAATTTCCACATGT
715 TTGCTAAACGAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAAATCTCAATTTCCACATGT
414614 CAAAACCCATCTTGATCACTTTTGAAGATAAAGAATGGCATTTAATGCCAAAACCATGTGGTCCA
780 CAAAACCCATCTTGATCACTTTTGAAGATAAAGAATGGCATTTAATGCCAAAACCATGTGGTCCA
*
414679 AATTCATTAGCTG
845 AATTCATTAGATG
414692 CCAT
1 CCAT
414696 GGATGCAAGG
Statistics
Matches: 856, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
857 256 0.30
858 600 0.70
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (857 bp):
CCATCGGAACCGCCGCCAATGCACTTTTCATCACGGCGAAGCATTAATCAAACCTCTTATTTAAT
CACTCCAAGGTCACAACATGCGGCCGTGGACAAAATGGTGTCTATTTGTCTTTGGCCTATTCCTG
ATACTCAGAAATGGCCAAAGAGGGGCAGTTGTATACACCTCATTTTGTCCGGGTCAATTTTCGAC
ATTTTGAGGTTTAGTTAGTATATGGAGGAGTGGACATATGTGGGGGCGCCCGGAAAAAATGGTTT
TTTTTAGATTATCATAACTTTTTGTTAAGCTCGAATCCATTTCCCATCGTCCCTAGTCGAGATAA
GGTGTTCGGAAGGCAAAAAGGATGAAAAAATCACATTTTTGTCCAAATGTATCAATACATTTCTA
GGATGTATCGATACAAGGTCCTAACGGTCAAAAATTTTGAAATTCAACAATTTGTATCGATACAA
ACAAGTAACTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGACACATAAGTGTTGTAT
CGATACAATGTATCGCTACGAAGCTACTGCCAAGGAAATGTATCGATACATTACTCAAATGTATC
GATACATTGTATCGATAGATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGATGTATC
GATACATTATTCTTTGTATTGATACATGCAGGCAAATTTTCATATTTCGAAACATTTTCCTCCTT
TGCTAAACGAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAAATCTCAATTTCCACATGTC
AAAACCCATCTTGATCACTTTTGAAGATAAAGAATGGCATTTAATGCCAAAACCATGTGGTCCAA
ATTCATTAGATG
Found at i:418790 original size:157 final size:155
Alignment explanation
Indices: 418363--418927 Score: 475
Period size: 157 Copynumber: 3.6 Consensus size: 155
418353 GAGCATTTTA
* * * * * * * * * * *
418363 TAATTTTT-TAGAACCGACTCTTAGTTTATCACTTGGTCTGTTTTTATGTCAAAGGTGGGCATTT
1 TAATTTTTCTAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
* ** * * * * * *
418427 AGGATAGGTTCATC-CTGTCTATAATTCTTTTCGAGTCCTTTAGAGGTGCCACG-TACTTTTATA
66 AGGATAGGTTCATCTC-ATCTATAA-TCTTTTTAAATCTTTTAGAGTTACCAGGATACTTTTATG
* * * *
418490 TCGAAAGTATCCCTTAGGGGTTTTTTCA
129 GC-AAAGTATCCATTAGGGGTATTTTCG
* ** * *
418518 TAA-TTTTCTTAGAACCGAGTTTTAGGTTGTCACTGGGTTCGCTTTTATGCCGAATGTGGGTATT
1 TAATTTTTC-TAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGTATT
* ** *** **
418582 TAGGATAGGTTTAT-TGTTTCTATAATCTTTTGGTATCTACTA-AGGTTACCAGGATACTTTTAT
65 TAGGATAGGTTCATCT-CATCTATAATCTTTTTAAATCTTTTAGA-GTTACCAGGATACTTTTAT
*
418645 GGCAAAGGTATACCAATAGGGGTATTTTCG
128 GGCAAA-GTAT-CCATTAGGGGTATTTTCG
* *
418675 TAATTTTTCTAAAATTGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
1 TAATTTTTCTAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
*
418740 AGGATAGGTTCATCTCATCTATAATCTTTTTAAATCTTTTAGAGTTACCAGGATACTTTCACGTG
66 AGGATAGGTTCATCTCATCTATAATCTTTTTAAATCTTTTAGAGTTACCAGGATACTTTTA--TG
** *
418805 G-AAAGTAT-TTTTAGGGGTATTTTTG
129 GCAAAGTATCCATTAGGGGTATTTTCG
* * * * * *
418830 TAATTTTTTTAGAATCAAGACCTTA-GTTGTCA-TCGAGTCCACTTTTATGTCGAAGGTGGGTAT
1 TAATTTTTCTAGAATCGAGTCC-TAGGTTGTCACT-GGGTCCGCTTTTATGCCGAAGGTGGGTAT
* *
418893 TTAGAATAGGTTCATCCCATCTATAATCATTTTTA
64 TTAGGATAGGTTCATCTCATCTATAATC-TTTTTA
418928 TGTCCTTTAG
Statistics
Matches: 334, Mismatches: 60, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
154 6 0.02
155 112 0.34
156 85 0.25
157 118 0.35
158 10 0.03
159 3 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (155 bp):
TAATTTTTCTAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
AGGATAGGTTCATCTCATCTATAATCTTTTTAAATCTTTTAGAGTTACCAGGATACTTTTATGGC
AAAGTATCCATTAGGGGTATTTTCG
Found at i:421086 original size:2 final size:2
Alignment explanation
Indices: 421079--421151 Score: 69
Period size: 2 Copynumber: 37.0 Consensus size: 2
421069 AAATTTTAAA
* * * * *
421079 AT AT AT AT AT GA- AT AT AT AT AC AT AT AT TT AA AA AT AT GT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
421121 AT AT AT AT AT AT AT AT GT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
421152 TTAAAAATAC
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
1 2 0.03
2 55 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:421996 original size:17 final size:17
Alignment explanation
Indices: 421983--422017 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
421973 TTTTATTTAT
421983 TATCTAAATTTATTAAA
1 TATCTAAATTTATTAAA
*
422000 TATTTAAATTTATTAAA
1 TATCTAAATTTATTAAA
422017 T
1 T
422018 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TATCTAAATTTATTAAA
Found at i:422050 original size:23 final size:24
Alignment explanation
Indices: 422024--422068 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
422014 AAATTATTTT
422024 TTAAAAATAAAAAAT-TAAATTAA
1 TTAAAAATAAAAAATATAAATTAA
* *
422047 TTAAAAATTAAATATATAAATT
1 TTAAAAATAAAAAATATAAATT
422069 GATATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAAATAAAAAATATAAATTAA
Found at i:422561 original size:2 final size:2
Alignment explanation
Indices: 422554--422589 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
422544 GTTAGTTCTT
422554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
422590 GCTTTAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:423174 original size:3 final size:3
Alignment explanation
Indices: 423166--423201 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
423156 AATCTTAGTA
423166 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
423202 AGTATGATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:423502 original size:2 final size:2
Alignment explanation
Indices: 423495--423524 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
423485 TTCCCTTTTC
423495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
423525 CATTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:423617 original size:16 final size:15
Alignment explanation
Indices: 423587--423627 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
423577 AAATATTAAA
423587 ATTAAAATTAATTTT
1 ATTAAAATTAATTTT
423602 ATTAAATATT-ATTTT
1 ATTAAA-ATTAATTTT
423617 -TTAAAA-TAATT
1 ATTAAAATTAATT
423628 ATATATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 4 0.17
14 5 0.21
15 11 0.46
16 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAAAATTAATTTT
Found at i:424147 original size:6 final size:6
Alignment explanation
Indices: 424136--424161 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
424126 GAAACAGATT
424136 CTCTCC CTCTCC CTCTCC CTCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CT
424162 AATCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCTCC
Found at i:424680 original size:134 final size:136
Alignment explanation
Indices: 424438--424707 Score: 420
Period size: 134 Copynumber: 2.0 Consensus size: 136
424428 TAAAACTTAA
*
424438 TTTTACAATTATTTTTATATAAATTTCTAATTAAATTTAATAAAAATATTTTTTATTAAAATTTA
1 TTTTACAATTATTTTTATATAAATTTCTAATTAAATTTAATAAAAATATGTTTTATTAAAATTTA
* *
424503 AGTTAAATTAAACCAATTTAAATTGAAAAATATTTATTATTTAAATTCGACTCAACACAAACTTA
66 AATTAAATTAAACCAATTTAAATTAAAAAATATTTATTATTTAAATTCGACTCAACACAAACTTA
*
424568 ATCTCT
131 ACCTCT
* *
424574 TTTTACAATTATTTTTATATAAAATTT-TAGTTAAATTTAGTAAAAA-A-GTTTTATTAAAATTT
1 TTTTACAATTATTTTTATAT-AAATTTCTAATTAAATTTAATAAAAATATGTTTTATTAAAATTT
* * **
424636 AAATTAAATTAAACTATTTTAAATTAAAAAATATTTATTATTTAAATTCGACTCGTCACAAACTT
65 AAATTAAATTAAACCAATTTAAATTAAAAAATATTTATTATTTAAATTCGACTCAACACAAACTT
424701 AACCTCT
130 AACCTCT
424708 CAAATCAGAT
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 79 0.64
135 1 0.01
136 37 0.30
137 6 0.05
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (136 bp):
TTTTACAATTATTTTTATATAAATTTCTAATTAAATTTAATAAAAATATGTTTTATTAAAATTTA
AATTAAATTAAACCAATTTAAATTAAAAAATATTTATTATTTAAATTCGACTCAACACAAACTTA
ACCTCT
Found at i:427980 original size:18 final size:18
Alignment explanation
Indices: 427957--427995 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
427947 TTTATTCTTT
427957 GTTTGCTTTCAAGGAGTG
1 GTTTGCTTTCAAGGAGTG
427975 GTTTGCTTTCAAGGAGTG
1 GTTTGCTTTCAAGGAGTG
427993 GTT
1 GTT
427996 GAAGGCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.41
Consensus pattern (18 bp):
GTTTGCTTTCAAGGAGTG
Found at i:433683 original size:12 final size:12
Alignment explanation
Indices: 433637--433690 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
433627 GAACTACAAT
433637 ATATATACATAC
1 ATATATACATAC
*
433649 ATACATACATAC
1 ATATATACATAC
* **
433661 ATACATTTATAC
1 ATATATACATAC
* *
433673 ATATATATATAT
1 ATATATACATAC
433685 ATATAT
1 ATATAT
433691 GTATGTATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATACATAC
Found at i:433686 original size:4 final size:4
Alignment explanation
Indices: 433641--433666 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
433631 TACAATATAT
433641 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
433667 TTATACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:433690 original size:8 final size:8
Alignment explanation
Indices: 433631--433687 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
433621 TTGTATGAAC
433631 TACA-ATA
1 TACATATA
* *
433638 TATATACA
1 TACATATA
*
433646 TACATACA
1 TACATATA
*
433654 TACATACA
1 TACATATA
*
433662 TACATTTA
1 TACATATA
433670 TACATATA
1 TACATATA
*
433678 TATATATA
1 TACATATA
433686 TA
1 TA
433688 TATGTATGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
7 3 0.07
8 39 0.93
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (8 bp):
TACATATA
Found at i:434283 original size:20 final size:20
Alignment explanation
Indices: 434258--434304 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
434248 TTTAACCATT
434258 TTTTATTAGTTAAATTGATA
1 TTTTATTAGTTAAATTGATA
* *
434278 TTTTATTAGTTCAATTTATA
1 TTTTATTAGTTAAATTGATA
434298 TTTTATT
1 TTTTATT
434305 TTATATAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTATTAGTTAAATTGATA
Found at i:434856 original size:19 final size:18
Alignment explanation
Indices: 434825--434863 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
434815 TATAATAAAT
*
434825 TTAAATAAAAATAATTTA
1 TTAAATAAAAATAATCTA
*
434843 TTAATTAAATAATAATCTA
1 TTAAATAAA-AATAATCTA
434862 TT
1 TT
434864 TTACTTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATAAAAATAATCTA
Found at i:435210 original size:29 final size:29
Alignment explanation
Indices: 435151--435231 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
435141 ATTTGGAATG
* *
435151 TTTATTTAATTTTAAATTAAAATTGAAAAA
1 TTTATTTAAATATAAA-TAAAATTGAAAAA
*
435181 TTTATTTAAATATAAATAAAATTTAAAAA
1 TTTATTTAAATATAAATAAAATTGAAAAA
*
435210 TTT-TATAAAATATAATATAAAA
1 TTTAT-TTAAATATAA-ATAAAA
435232 AATTTAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 24 0.53
30 20 0.44
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TTTATTTAAATATAAATAAAATTGAAAAA
Found at i:435230 original size:23 final size:23
Alignment explanation
Indices: 435194--435264 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
435184 ATTTAAATAT
*
435194 AAATAAAATTTAAAAATTTTATA
1 AAATAAAATATAAAAATTTTATA
* * *
435217 AAATATAATATAAAAAATTTAATT
1 AAATAAAATAT-AAAAATTTTATA
*
435241 AAATAAAATAGTAAAATTTTTATA
1 AAATAAAATA-TAAAAATTTTATA
435265 TATATTAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 9 0.24
24 28 0.74
25 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (23 bp):
AAATAAAATATAAAAATTTTATA
Found at i:435244 original size:24 final size:25
Alignment explanation
Indices: 435184--435256 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
435174 TGAAAAATTT
*
435184 ATTTAAATATAAATAAAAT--TTAAAA
1 ATTT-AATA-AAATAAAATAGTAAAAA
* *
435209 ATTTTATAAAATATAATA-TAAAAA
1 ATTTAATAAAATAAAATAGTAAAAA
*
435233 ATTTAATTAAATAAAATAGTAAAA
1 ATTTAATAAAATAAAATAGTAAAA
435257 TTTTTATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 8 0.20
24 23 0.57
25 9 0.22
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
ATTTAATAAAATAAAATAGTAAAAA
Found at i:435350 original size:6 final size:6
Alignment explanation
Indices: 435339--435374 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
435329 ACTGCCGGAA
* *
435339 CAAAGC CAAAGC CAAAGC CAAAGC AAAAGC AAAAGC
1 CAAAGC CAAAGC CAAAGC CAAAGC CAAAGC CAAAGC
435375 GAGAGGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.56, C:0.28, G:0.17, T:0.00
Consensus pattern (6 bp):
CAAAGC
Found at i:442956 original size:2 final size:2
Alignment explanation
Indices: 442949--442976 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
442939 GAATCCACTT
442949 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
442977 TGACTACGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:444604 original size:9 final size:9
Alignment explanation
Indices: 444502--444610 Score: 63
Period size: 9 Copynumber: 12.6 Consensus size: 9
444492 CAAAAGGTCA
*
444502 ATTTGATAT
1 ATTTAATAT
444511 ATTTAATA-
1 ATTTAATAT
444519 ATTATAATAT
1 ATT-TAATAT
*
444529 TTTTAAATAT
1 ATTT-AATAT
*
444539 AAATTAATAT
1 -ATTTAATAT
* *
444549 AAATT-ATAC
1 -ATTTAATAT
444558 ATTTAATAT
1 ATTTAATAT
*
444567 A--TATTAT
1 ATTTAATAT
444574 ATTT--TAT
1 ATTTAATAT
*
444581 ATTTAAAAT
1 ATTTAATAT
444590 -TTTAATAT
1 ATTTAATAT
444598 ATTTAATA-
1 ATTTAATAT
444606 ATTTA
1 ATTTA
444611 TTTTATTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
7 13 0.16
8 18 0.22
9 30 0.38
10 17 0.21
11 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (9 bp):
ATTTAATAT
Found at i:446050 original size:12 final size:12
Alignment explanation
Indices: 446033--446057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
446023 TATTATTAAC
446033 ATATAATTAAAA
1 ATATAATTAAAA
446045 ATATAATTAAAA
1 ATATAATTAAAA
446057 A
1 A
446058 GGTTGATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAATTAAAA
Found at i:453297 original size:20 final size:20
Alignment explanation
Indices: 453269--453307 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
453259 AAATTTTAAA
*
453269 TAAAAATATGATATGTATAT
1 TAAAAATATCATATGTATAT
* *
453289 TAAATATATCATATTTATA
1 TAAAAATATCATATGTATA
453308 ATATTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TAAAAATATCATATGTATAT
Found at i:453951 original size:14 final size:14
Alignment explanation
Indices: 453932--453959 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
453922 ATATACATAA
453932 ACCGATGGCTGTAT
1 ACCGATGGCTGTAT
453946 ACCGATGGCTGTAT
1 ACCGATGGCTGTAT
453960 TATCTTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (14 bp):
ACCGATGGCTGTAT
Found at i:454033 original size:17 final size:17
Alignment explanation
Indices: 454011--454043 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
454001 AATTAAAAAA
*
454011 ATATAAAATATAATATT
1 ATATAAAAAATAATATT
454028 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
454044 GAACACGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAAAAATAATATT
Found at i:454078 original size:18 final size:18
Alignment explanation
Indices: 454055--454179 Score: 62
Period size: 19 Copynumber: 6.7 Consensus size: 18
454045 AACACGATAT
454055 AAATATATAAATATTTTAA
1 AAATATATAAATATTTT-A
*
454074 AATATATATTAAAAATTATT-
1 AA-ATATA-TAAATATT-TTA
* *
454094 -AATACATAAAAATTTATA
1 AAATATATAAATATTT-TA
454112 TAAATATA-AAATATTTTA
1 -AAATATATAAATATTTTA
* *
454130 AATGTATTATAACATA--ATA
1 AA-ATA-TATAA-ATATTTTA
**
454149 AAATATATAAATATAATA
1 AAATATATAAATATTTTA
454167 TAAATATATAAAT
1 -AAATATATAAAT
454180 TACTATTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
16 4 0.05
17 16 0.19
18 13 0.15
19 28 0.33
20 12 0.14
21 10 0.12
22 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (18 bp):
AAATATATAAATATTTTA
Found at i:454082 original size:20 final size:19
Alignment explanation
Indices: 454055--454178 Score: 57
Period size: 18 Copynumber: 6.6 Consensus size: 19
454045 AACACGATAT
454055 AAATATAT-AAATATTTTA
1 AAATATATAAAATATTTTA
*
454073 AAATATATATTAAAAATTATT-
1 AAATATATA--AAATATT-TTA
*
454094 -AATACATAAAA-ATTTATA
1 AAATATATAAAATATTT-TA
*
454112 TAA-ATATAAAATATTTTA
1 AAATATATAAAATATTTTA
* * *
454130 AATGTATTATAACATA--ATA
1 AA-ATA-TATAAAATATTTTA
**
454149 AAATATAT-AAATATAATA
1 AAATATATAAAATATTTTA
454167 TAAATATATAAA
1 -AAATATATAAA
454179 TTACTATTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 28
0.69 0.08 0.24
Matches are distributed among these distances:
16 5 0.06
17 7 0.09
18 26 0.32
19 18 0.22
20 10 0.12
21 14 0.17
22 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.39
Consensus pattern (19 bp):
AAATATATAAAATATTTTA
Found at i:454159 original size:56 final size:57
Alignment explanation
Indices: 454051--454179 Score: 142
Period size: 56 Copynumber: 2.3 Consensus size: 57
454041 TATGAACACG
* *
454051 ATATAAATATATAAATATTTTAAAATATATATTAAAAATTATTAATACATAAAAATTT
1 ATATAAATATATAAATATTTTAAAATATATATTAAAAATTATAAATACATAAAAA-TA
* * *
454109 ATATAAATATA-AAATATTTT-AAATGTAT-TATAACATAA-TA-AAATATATAAATATA
1 ATATAAATATATAAATATTTTAAAATATATAT-TAA-A-AATTATAAATACATAAAAATA
454164 ATATAAATATATAAAT
1 ATATAAATATATAAAT
454180 TACTATTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
55 13 0.21
56 24 0.39
57 12 0.19
58 13 0.21
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (57 bp):
ATATAAATATATAAATATTTTAAAATATATATTAAAAATTATAAATACATAAAAATA
Found at i:454924 original size:17 final size:18
Alignment explanation
Indices: 454889--454927 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
454879 ATGATAGGAT
*
454889 ATGATAGAATTACAAAAA
1 ATGATAGAATGACAAAAA
454907 ATGATAGAATGA-AAAAA
1 ATGATAGAATGACAAAAA
454924 ATGA
1 ATGA
454928 CTCATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.21
Consensus pattern (18 bp):
ATGATAGAATGACAAAAA
Found at i:455031 original size:136 final size:138
Alignment explanation
Indices: 454755--455008 Score: 370
Period size: 136 Copynumber: 1.9 Consensus size: 138
454745 AAAAGCAACA
* *
454755 AGAATTACAAAAAATGATAGAATGAAAAAAAAATGACTTATAATTATAAGTAAAAAGTTTAAAAA
1 AGAATTACAAAAAATGATAGAATG-AAAAAAAATGACTCATAATTATAAGTAAAAAGATTAAAAA
* * * * * *
454820 AATTATTTTTATTGATGCTTAATAAAAAAGAAAAATTTGAAGAATGATAATAAAAAAATATGATA
65 AATCATCTTTATTGATGCTTAATAAAAAAGAAAAATTTGAAGAATCAGAAGAAAAAAATATAATA
454885 GGATATGAT
130 GGATATGAT
*
454894 AGAATTACAAAAAATGATAGAATG-AAAAAAATGACTCATAATTATATGTAAAAA-ATTAAAAAA
1 AGAATTACAAAAAATGATAGAATGAAAAAAAATGACTCATAATTATAAGTAAAAAGATTAAAAAA
* * *
454957 ATCATCTTTATTGATGCTTAATAAGAAAGAAAAGTTTGAAG-TTCAGAAGAAA
66 ATCATCTTTATTGATGCTTAATAAAAAAGAAAAATTTGAAGAATCAGAAGAAA
455009 GCTTTTTTCA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
135 7 0.07
136 45 0.43
137 28 0.27
139 24 0.23
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (138 bp):
AGAATTACAAAAAATGATAGAATGAAAAAAAATGACTCATAATTATAAGTAAAAAGATTAAAAAA
ATCATCTTTATTGATGCTTAATAAAAAAGAAAAATTTGAAGAATCAGAAGAAAAAAATATAATAG
GATATGAT
Found at i:458750 original size:23 final size:21
Alignment explanation
Indices: 458700--458752 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
458690 TTTCAAGATG
458700 TGAAGGTATCAATACATTACCA
1 TGAA-GTATCAATACATTACCA
* *
458722 TAAAGTATCAATACCTTAAGCCA
1 TGAAGTATCAATACATT-A-CCA
458745 TGAAGTAT
1 TGAAGTAT
458753 TGATACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.46
22 4 0.15
23 10 0.38
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (21 bp):
TGAAGTATCAATACATTACCA
Found at i:466782 original size:19 final size:19
Alignment explanation
Indices: 466758--466865 Score: 102
Period size: 20 Copynumber: 5.9 Consensus size: 19
466748 TGTATCGATA
*
466758 CATTGTATTGATACATGTT
1 CATTGTATCGATACATGTT
*
466777 CATTGTATCGATACATGGAT
1 CATTGTATCGATACAT-GTT
* *
466797 AATTATATCGATACA--TT
1 CATTGTATCGATACATGTT
466814 -A---TATCGATACATGTT
1 CATTGTATCGATACATGTT
**
466829 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGTT
466848 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
466866 AAACTGGCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
13 10 0.14
15 2 0.03
16 2 0.03
17 1 0.01
19 28 0.38
20 31 0.42
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:466806 original size:52 final size:52
Alignment explanation
Indices: 466750--466864 Score: 194
Period size: 52 Copynumber: 2.2 Consensus size: 52
466740 CACCCAGATG
* * *
466750 TATCGATACATTGTATTGATACATGTTCATTGTATCGATACATGGATAATTA
1 TATCGATACATTATATCGATACATGTTCATTGTATCGATACATGGACAATTA
*
466802 TATCGATACATTATATCGATACATGTTCATTGTATCGATACATGGACAATTG
1 TATCGATACATTATATCGATACATGTTCATTGTATCGATACATGGACAATTA
466854 TATCGATACAT
1 TATCGATACAT
466865 GAAACTGGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (52 bp):
TATCGATACATTATATCGATACATGTTCATTGTATCGATACATGGACAATTA
Found at i:466816 original size:13 final size:13
Alignment explanation
Indices: 466794--466825 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
466784 TCGATACATG
466794 GATA-ATTATATC
1 GATACATTATATC
466806 GATACATTATATC
1 GATACATTATATC
466819 GATACAT
1 GATACAT
466826 GTTCATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (13 bp):
GATACATTATATC
Found at i:466919 original size:20 final size:20
Alignment explanation
Indices: 466894--466947 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
466884 CTATCACTGT
*
466894 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
466914 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
466934 TTGTATCGATACAT
1 TTGTATCGATACAT
466948 TGCTTTTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:473081 original size:13 final size:13
Alignment explanation
Indices: 473063--473102 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
473053 ACAATATTCT
*
473063 TTGTATCGATATA
1 TTGTATCGATACA
*
473076 TTGTATTGATACA
1 TTGTATCGATACA
*
473089 TCGTATCGATACA
1 TTGTATCGATACA
473102 T
1 T
473103 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:475079 original size:97 final size:97
Alignment explanation
Indices: 474913--475105 Score: 332
Period size: 97 Copynumber: 2.0 Consensus size: 97
474903 AAATGGGAAG
* *
474913 AAATATTGTTTTAAAAATAAATTTGTATTCATCTAGGGGGAGAAAATCCGATTATCAAGGGGGAG
1 AAATATTGTTTTAAAAATAAATTTGTATTCATCTAGGGGAAGAAAATCCGATTATCAAGGGGGAA
* *
474978 AAATTTTTATGAAATTTTTTTTAACGAGAGCT
66 AAATTTTTATGAAAATTTTTTTAACAAGAGCT
* *
475010 AAATATTGTTTTGAAAATAAATTTGTATTCATCTAGGGGAAGAAAATCTGATTATCAAGGGGGAA
1 AAATATTGTTTTAAAAATAAATTTGTATTCATCTAGGGGAAGAAAATCCGATTATCAAGGGGGAA
475075 AAATTTTTATGAAAATTTTTTTAACAAGAGC
66 AAATTTTTATGAAAATTTTTTTAACAAGAGC
475106 CTTAATTATT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (97 bp):
AAATATTGTTTTAAAAATAAATTTGTATTCATCTAGGGGAAGAAAATCCGATTATCAAGGGGGAA
AAATTTTTATGAAAATTTTTTTAACAAGAGCT
Found at i:475667 original size:13 final size:13
Alignment explanation
Indices: 475649--475674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
475639 CACACCCAGA
475649 TGTATCGATACAT
1 TGTATCGATACAT
475662 TGTATCGATACAT
1 TGTATCGATACAT
475675 GGACAATTGT
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:475770 original size:13 final size:13
Alignment explanation
Indices: 475752--475776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
475742 CATGGTATAT
475752 TGTATCGATACAA
1 TGTATCGATACAA
475765 TGTATCGATACA
1 TGTATCGATACA
475777 TGATGAATTG
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:478445 original size:119 final size:120
Alignment explanation
Indices: 478268--478484 Score: 364
Period size: 119 Copynumber: 1.8 Consensus size: 120
478258 TTTCATATAA
*
478268 TGTTATGTTTTGTGTGTTATTTAGTTATTTTTTCATGTCACACAATCATATTATATTTAATATTA
1 TGTTATGTTTTGTGTCTTATTTAGTTATTTTTTCATGTCACACAATCATATTATATTTAATATTA
*
478333 TTGGTAACTCTATAAAATAAAGTTATTTAGTCCTACTAATGGTTTTTTTGCATCT
66 TTGATAACTCTATAAAATAAAGTTATTTAGTCCTACTAATGGTTTTTTTGCATCT
** * *
478388 TGTTATGTTTTGTGTCTTATTTAGTTATTTTTT-ATGTCATGCAATCATATTGTATTTAATATTG
1 TGTTATGTTTTGTGTCTTATTTAGTTATTTTTTCATGTCACACAATCATATTATATTTAATATTA
*
478452 TTGATAATTCTATAAAATAAAGTTATTTAGTCC
66 TTGATAACTCTATAAAATAAAGTTATTTAGTCC
478485 CGTTATGTAC
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 58 0.64
120 32 0.36
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.52
Consensus pattern (120 bp):
TGTTATGTTTTGTGTCTTATTTAGTTATTTTTTCATGTCACACAATCATATTATATTTAATATTA
TTGATAACTCTATAAAATAAAGTTATTTAGTCCTACTAATGGTTTTTTTGCATCT
Found at i:485699 original size:15 final size:15
Alignment explanation
Indices: 485679--485749 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
485669 CGTATATTTA
*
485679 ATTTAATATTAATAT
1 ATTTAATATAAATAT
* * *
485694 ATTTAATTTGAATAA
1 ATTTAATATAAATAT
*
485709 ATATTATATACAAATAAAT
1 AT-TTA-ATATAAAT--AT
485728 ATTTAATATAAATAT
1 ATTTAATATAAATAT
485743 ATTTAAT
1 ATTTAAT
485750 TTTTTTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
15 23 0.52
16 3 0.07
17 12 0.27
18 3 0.07
19 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTTAATATAAATAT
Found at i:485740 original size:17 final size:17
Alignment explanation
Indices: 485672--485749 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
485662 TATTTTTCGT
*
485672 ATATTTAATTTAATATTAA
1 ATATTTAATATAA-A-TAA
* *
485691 TATATTTAATTTGAATAA
1 -ATATTTAATATAAATAA
*
485709 ATA-TTATATACAAATAA
1 ATATTTA-ATATAAATAA
485726 ATATTTAATATAAAT--
1 ATATTTAATATAAATAA
485741 ATATTTAAT
1 ATATTTAAT
485750 TTTTTTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.18
16 3 0.06
17 20 0.39
18 6 0.12
19 1 0.02
20 12 0.24
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (17 bp):
ATATTTAATATAAATAA
Done.