Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 18 of 25
Found at i:2766155 original size:154 final size:150
Alignment explanation
Indices: 2765975--2766424 Score: 429
Period size: 154 Copynumber: 2.9 Consensus size: 150
2765965 TTTCTTTCAG
* * *
2765975 ATTTTTCATATTTTCAAAATATAAAGTTTTCCACTCCGTAAATTTCTTTGGTAGGATTCTTCTAA
1 ATTTTTC-TATTTTCAAGATACAAAGTTTTCCACTCCGTAAATTTCTTTGGTA-GATTTTTCTAA
* * * *
2766040 ATTCATAATTTTCAAAATTCTTCAAATATTACAGTTTAATTTATATTAAATCAATTTTAAAAAAT
64 ATT-ATAATTTTTAAAATTCTTCAAATATTATAGTTTAATTTATATTAAATTAGTTTT-AAAAAT
2766105 TTAATTTATTTTATAAGTTTTAGA
127 TTAATTTATTTTATAAGTTTTAGA
* * * * **
2766129 ATTTTTTCTATTTTTAAGATACAAAGTTTTCTACTTCGTAAATCTCTCCGGTATGATTTTTCTAA
1 A-TTTTTCTATTTTCAAGATACAAAGTTTTCCACTCCGTAAATTTCTTTGGTA-GATTTTTCTAA
* * * * * ** *
2766194 GTTTATAATTTTTAAAATTCTTTAAATATTATTGTTTAACTCACGTTAAATTGGTTTTGAAAAAT
64 -ATTATAATTTTTAAAATTCTTCAAATATTATAGTTTAATTTATATTAAATTAGTTTT-AAAAAT
* * *
2766259 TCAATTCATTTTATGAGTTTTAGA
127 TTAATTTATTTTATAAGTTTTAGA
** * * * * *
2766283 ATTTTTCTGA-TACCAAGATACGAAGTTTTCCAATCAGTAAATTTCTCTTGTTAGATTTTTCT-T
1 ATTTTTCT-ATTTTCAAGATACAAAGTTTTCCACTCCGTAAATTTCT-TTGGTAGATTTTTCTAA
* * * * * *
2766346 AGTATAGAGTTTTTAAAATTCATCAAATTTTTTA-TTAAATTTATATTAAATTAGTTTGTGAAAA
64 ATTATA-A-TTTTTAAAATTCTTCAAATATTATAGTTTAATTTATATTAAATTAGTTT-TAAAAA
2766410 TTTAATTTATTTTAT
126 TTTAATTTATTTTAT
2766425 GGGTTTTTCT
Statistics
Matches: 234, Mismatches: 55, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
151 4 0.02
152 35 0.15
153 64 0.27
154 123 0.53
155 8 0.03
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (150 bp):
ATTTTTCTATTTTCAAGATACAAAGTTTTCCACTCCGTAAATTTCTTTGGTAGATTTTTCTAAAT
TATAATTTTTAAAATTCTTCAAATATTATAGTTTAATTTATATTAAATTAGTTTTAAAAATTTAA
TTTATTTTATAAGTTTTAGA
Found at i:2767126 original size:13 final size:13
Alignment explanation
Indices: 2767108--2767132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2767098 CATAAAGTGT
2767108 TGTATCGATACAA
1 TGTATCGATACAA
2767121 TGTATCGATACA
1 TGTATCGATACA
2767133 TAAGTTTTGT
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:2767148 original size:32 final size:33
Alignment explanation
Indices: 2767088--2767153 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2767078 TTCAATGATT
2767088 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2767121 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2767153 T
1 T
2767154 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2767212 original size:13 final size:13
Alignment explanation
Indices: 2767194--2767218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2767184 ATTACTCAAA
2767194 TGTATCGATACAT
1 TGTATCGATACAT
2767207 TGTATCGATACA
1 TGTATCGATACA
2767219 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2767271 original size:52 final size:52
Alignment explanation
Indices: 2767227--2767355 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2767217 CACTGATCTT
*
2767227 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2767279 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2767331 TGTATTGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2767356 TCATATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2770802 original size:18 final size:18
Alignment explanation
Indices: 2770781--2770815 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2770771 TTCATGCTGA
2770781 AATATTAGTGAT-TTCATG
1 AATATT-GTGATGTTCATG
2770799 AATATTGTGATGTTCAT
1 AATATTGTGATGTTCAT
2770816 ACATTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (18 bp):
AATATTGTGATGTTCATG
Found at i:2772558 original size:20 final size:20
Alignment explanation
Indices: 2772530--2772604 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2772520 TCATACCCTG
2772530 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2772550 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2772570 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2772590 ATGTATCGATACATT
1 ATGTATCGATACATT
2772605 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2772597 original size:40 final size:39
Alignment explanation
Indices: 2772530--2772607 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2772520 TCATACCCTG
* *
2772530 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2772570 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2772608 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2773548 original size:24 final size:24
Alignment explanation
Indices: 2773516--2773572 Score: 100
Period size: 22 Copynumber: 2.5 Consensus size: 24
2773506 AGCCTTTGAC
2773516 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
2773540 CATGCA--TTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
2773562 CATGCATTTTT
1 CATGCATTTTT
2773573 AACATGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 22 0.71
24 9 0.29
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:2773579 original size:20 final size:21
Alignment explanation
Indices: 2773525--2773579 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
2773515 CCATGCATTT
**
2773525 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
2773546 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
2773568 -TTTTTAACATGT
1 TTTTTTAACATGT
2773580 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:2786657 original size:11 final size:11
Alignment explanation
Indices: 2786637--2786689 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
2786627 CCGTTACACC
2786637 CAAAAAAAAAA
1 CAAAAAAAAAA
2786648 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
2786661 CAAAAAAAAAA
1 CAAAAAAAAAA
* *
2786672 -AAAATAAATAG
1 CAAAA-AAAAAA
2786683 CAAAAAA
1 CAAAAAA
2786690 TAGAAGGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 4 0.11
11 14 0.39
12 10 0.28
13 8 0.22
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:2786659 original size:15 final size:15
Alignment explanation
Indices: 2786639--2786689 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
2786629 GTTACACCCA
2786639 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
*
2786654 --AAAAAAACAAAAA
1 AAAAAAAAACAAAAC
*
2786667 AAAAAAAAATAAATAGC
1 AAAAAAAAACAAA-A-C
2786684 AAAAAA
1 AAAAAA
2786690 TAGAAGGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 12 0.41
15 10 0.34
16 1 0.03
17 6 0.21
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:2786673 original size:13 final size:13
Alignment explanation
Indices: 2786638--2786673 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2786628 CGTTACACCC
2786638 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
2786651 AACAAAAAAACAA
1 AAAAAAAAAACAA
2786664 AAAAAAAAAA
1 AAAAAAAAAA
2786674 AATAAATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:2787954 original size:29 final size:29
Alignment explanation
Indices: 2787912--2789505 Score: 1883
Period size: 29 Copynumber: 53.9 Consensus size: 29
2787902 AATGTTCATC
2787912 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2787941 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2787970 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2787998 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788026 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788055 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788083 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788112 CCTTCCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788140 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788169 CCTTTCAAAGCCCAAAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788198 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788226 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788255 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788283 CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788312 CCTTCCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788341 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788370 CTTTTCAAAGCCCACAAGTCAGTGGAAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788398 CCTTTCAAAGCCCATAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788426 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788455 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788484 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788513 CTTTTCAAAGCCCACAAGTTAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788541 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788569 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788598 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788626 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788655 CCTTTCAAAGCCCATAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788683 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788712 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788741 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788770 CTTTTCAAAGACCACAAGTCAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788798 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788827 CCTTTCAAAGCCCACAAGTCGGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788856 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788885 CTTTTCAAAGCCCACAAATCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788914 CTTTTCAAAGACCACAAGTCAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788942 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
2788971 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2789000 CTTTTCAAAGCCCACAAATCAGTGGCGCT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2789029 -CTTTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CCTTT-CAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789060 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789092 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789124 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
*
2789156 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
*
2789188 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789220 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789252 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789284 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
*
2789316 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
*
2789348 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
*
2789380 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789412 CCATTCCAAAGCCCACACAAGTCGGTGGCAACT
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789445 CATTTCAAAGCCCACACAAGTCGGTGGCAACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* *
2789477 CATTTAAAAGCCCATGCAAGTCAGTGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
2789506 ACCCTTTTCA
Statistics
Matches: 1467, Mismatches: 78, Indels: 38
0.93 0.05 0.02
Matches are distributed among these distances:
28 373 0.25
29 647 0.44
30 4 0.00
31 15 0.01
32 425 0.29
33 3 0.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2788061 original size:57 final size:58
Alignment explanation
Indices: 2787912--2789505 Score: 1883
Period size: 57 Copynumber: 27.0 Consensus size: 58
2787902 AATGTTCATC
* *
2787912 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2787970 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788026 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788083 CTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTCCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788140 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAAAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788198 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788255 CCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788312 CCTTCCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2788370 CTTTTCAAAGCCCACAAGTCAGTGGAAC-CCTTTCAAAGCCCATAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
2788426 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
2788484 CTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788541 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788598 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788655 CCTTTCAAAGCCCATAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
2788712 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
2788770 CTTTTCAAAGACCACAAGTCAATGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
*
2788827 CCTTTCAAAGCCCACAAGTCGGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
2788885 CTTTTCAAAGCCCACAAATCAGTGACACTCTTTTCAAAGACCACAAGTCAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
2788942 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
2789000 CTTTTCAAAGCCCACAAATCAGTGGCGCT-CTTTCCAAAGCCCACACAAGTCGGTGGCAAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT-CAAAG-CC-CACAAGTCAGTGGC-ACT
* * * *
2789060 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789124 -
58 T
* * *
2789124 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789188 -
58 T
* * *
2789188 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789252 -
58 T
* * * *
2789252 CCATTCCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789316 -
58 T
* *
2789316 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789380 -
58 T
* * *
2789380 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
2789444 T
58 T
* * * *
2789445 CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTAAAAGCCCATGCAAGTCAGTGGCA
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCCTTTCAAAGCCCA--CAAGTCAGTGGCA
2789506 ACCCTTTTCA
Statistics
Matches: 1416, Mismatches: 97, Indels: 41
0.91 0.06 0.03
Matches are distributed among these distances:
56 79 0.06
57 583 0.41
58 319 0.23
59 2 0.00
60 14 0.01
61 9 0.01
62 4 0.00
63 15 0.01
64 387 0.27
65 4 0.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (58 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:2788180 original size:86 final size:85
Alignment explanation
Indices: 2787911--2789517 Score: 1871
Period size: 86 Copynumber: 18.1 Consensus size: 85
2787901 GAATGTTCAT
* * *
2787911 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
2787976 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
*
2787997 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
2788062 AAGCCCACAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * *
2788082 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTCCAAAGCCCACAAGTTAGTGGCAC-CCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
2788146 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * *
2788167 CTCCTTTCAAAGCCCAAAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
2788231 CAAAGCCCACAAGTCAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCA
* * *
2788253 CTCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTCC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
2788318 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * * *
2788339 CTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGAAC-CCTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
* *
2788403 CAAAGCCCATAACTCAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCA
*
2788425 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
2788490 AAAGCCCACAAATCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * * *
2788511 CTCTTTTCAAAGCCCACAAGTTAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
2788575 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
*
2788596 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* *
2788661 AAAGCCCATAAGTTAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
*
2788682 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
2788747 AAAGCCCACAAATCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * *
2788768 CTCTTTTCAAAGACCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
2788833 AAAGCCCACAAGTCGGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * * *
2788854 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGACACTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT
* *
2788919 CAAAGACCACAAGTCAATGGCA
64 CAAAGCCCACAAGTCAGTGGCA
*
2788941 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* *
2789006 AAAGCCCACAAATCAGTGGCG
65 AAAGCCCACAAGTCAGTGGCA
* * * *
2789027 CTCTTTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCCTTT-CAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
* *
2789092 -CCATTCCAAAGCCCACACAAGTCGGTGGCAA
58 TCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
* * *
2789123 CCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
*
2789188 -CCATTTCAAAGCCCACACAAGTCGGTGGCAA
58 TCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
* * * *
2789219 CCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
* *
2789284 -CCATTCCAAAGCCCACACAAGTCGGTGGCAA
58 TCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
* *
2789315 CCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
*
2789380 -CCATTTCAAAGCCCACACAAGTCGGTGGCAA
58 TCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
* * * *
2789411 CCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
* *
2789476 TCATTTAAAAGCCCATGCAAGTCAGTGGCAA
58 TCCTTTCAAAGCCCA--CAAGTCAGTGGC-A
2789507 CCCTTTTCAAA
1 CCC-TTTCAAA
2789518 TCACCATATT
Statistics
Matches: 1398, Mismatches: 96, Indels: 44
0.91 0.06 0.03
Matches are distributed among these distances:
85 297 0.21
86 532 0.38
87 130 0.09
88 2 0.00
89 15 0.01
90 9 0.01
91 2 0.00
92 14 0.01
93 9 0.01
94 4 0.00
95 14 0.01
96 366 0.26
97 4 0.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (85 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
AAGCCCACAAGTCAGTGGCA
Found at i:2790073 original size:20 final size:20
Alignment explanation
Indices: 2790045--2790119 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2790035 TCATACCCTG
2790045 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2790065 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2790085 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2790105 ATGTATCGATACATT
1 ATGTATCGATACATT
2790120 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2790112 original size:40 final size:39
Alignment explanation
Indices: 2790045--2790122 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2790035 TCATACCCTG
* *
2790045 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2790085 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2790123 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2791063 original size:24 final size:24
Alignment explanation
Indices: 2791031--2791087 Score: 100
Period size: 22 Copynumber: 2.5 Consensus size: 24
2791021 AGCCTTTGAC
2791031 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
2791055 CATGCA--TTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
2791077 CATGCATTTTT
1 CATGCATTTTT
2791088 AACATGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 22 0.71
24 9 0.29
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:2791094 original size:20 final size:21
Alignment explanation
Indices: 2791040--2791094 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
2791030 CCATGCATTT
**
2791040 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
2791061 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
2791083 -TTTTTAACATGT
1 TTTTTTAACATGT
2791095 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:2800216 original size:42 final size:42
Alignment explanation
Indices: 2800161--2800279 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2800151 TTCTTCTCTC
* *
2800161 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2800203 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2800245 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2800280 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2800220 original size:12 final size:11
Alignment explanation
Indices: 2800194--2800269 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2800184 TCTATTATCT
*
2800194 CTCCTGTCTCTC
1 CTCCTATCTC-C
2800206 CTCCTATCATCC
1 CTCCTATC-TCC
2800218 CTCCTATCT--
1 CTCCTATCTCC
*
2800227 CTACTATCT--
1 CTCCTATCTCC
*
2800236 CTCCTGTCTCTC
1 CTCCTATCTC-C
2800248 CTCCTATCATCC
1 CTCCTATC-TCC
*
2800260 CTCCTCTCTC
1 CTCCTATCTC
2800270 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2800221 original size:24 final size:24
Alignment explanation
Indices: 2800185--2800270 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2800175 CCTCCTCTCT
* *
2800185 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2800209 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2800230 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2800251 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2800271 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2800245 original size:18 final size:18
Alignment explanation
Indices: 2800176--2800246 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2800166 CCTGTCATCC
* *
2800176 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2800194 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2800216 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2800236 CTCCTGTCTCT
1 CTCCTGTCTCT
2800247 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2802240 original size:2 final size:2
Alignment explanation
Indices: 2802235--2802267 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2802225 TATATATATA
*
2802235 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2802268 AAACGAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2802519 original size:21 final size:20
Alignment explanation
Indices: 2802465--2802519 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2802455 ACAACCAATT
*
2802465 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTA
* * *
2802485 AATATATTGATACATTGAGTA
1 AATGTATCGATACA-TAAGTA
2802506 AATGTATCGATACA
1 AATGTATCGATACA
2802520 AAACCATGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATAAGTA
Found at i:2803597 original size:85 final size:84
Alignment explanation
Indices: 2803481--2803639 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 84
2803471 ATTGTAGTTG
* * * * *
2803481 AAAAGTGGGGTTGGAGTATCCCCGTTAATGACAAATAATTTTGACAATGAAAGGGTTCAAATCTT
1 AAAAGTGAGGTTAGAGTATCCCCATTAATGACAAATAATTTTGACAAAGAAAGGGTACAAATCTT
2803546 GACAAATTTTAACCCTTCA
66 GACAAATTTTAACCCTTCA
* * * * *
2803565 AAAAGATGAGGTTAGAGTATCCCCATTGATGACAAGTATTTTTGATAAAGGAAGGGTACAAATCT
1 AAAAG-TGAGGTTAGAGTATCCCCATTAATGACAAATAATTTTGACAAAGAAAGGGTACAAATCT
2803630 TGACAAATTT
65 TGACAAATTT
2803640 GAAGAGCGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 5 0.08
85 59 0.92
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (84 bp):
AAAAGTGAGGTTAGAGTATCCCCATTAATGACAAATAATTTTGACAAAGAAAGGGTACAAATCTT
GACAAATTTTAACCCTTCA
Found at i:2803920 original size:19 final size:19
Alignment explanation
Indices: 2803896--2803956 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
2803886 ACCGTAACTG
2803896 TATCGATACATAAGTGTTT
1 TATCGATACATAAGTGTTT
2803915 TATCGATAC--AA-TG---
1 TATCGATACATAAGTGTTT
2803928 TATCGATACATAAGT-TTT
1 TATCGATACATAAGTGTTT
2803946 GTATCGATACA
1 -TATCGATACA
2803957 ATGTATCGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
13 9 0.26
15 2 0.06
16 3 0.09
17 2 0.06
19 19 0.54
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TATCGATACATAAGTGTTT
Found at i:2803935 original size:32 final size:32
Alignment explanation
Indices: 2803894--2803964 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
2803884 AAACCGTAAC
2803894 TGTATCGATACATAAGTGTTT-TATCGATACAA
1 TGTATCGATACATAAGT-TTTGTATCGATACAA
2803926 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2803958 TGTATCG
1 TGTATCG
2803965 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:2807541 original size:13 final size:13
Alignment explanation
Indices: 2807523--2807548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2807513 CAAGTTTTTG
2807523 TGTATCGATACAT
1 TGTATCGATACAT
2807536 TGTATCGATACAT
1 TGTATCGATACAT
2807549 ACTTGGTGTA
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:2807573 original size:19 final size:18
Alignment explanation
Indices: 2807503--2807573 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
2807493 TACAAGCCAA
*
2807503 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
2807523 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2807536 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2807555 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2807574 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2810093 original size:13 final size:13
Alignment explanation
Indices: 2810075--2810112 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2810065 ATAATCACCC
2810075 TGTATCGATACAA
1 TGTATCGATACAA
*
2810088 TGTATCAATACAA
1 TGTATCGATACAA
2810101 TGTATCGATACA
1 TGTATCGATACA
2810113 TTGAATTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2812185 original size:15 final size:15
Alignment explanation
Indices: 2812165--2812194 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2812155 GTTCATCAAT
2812165 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
2812180 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
2812195 CCCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:2814036 original size:21 final size:21
Alignment explanation
Indices: 2814007--2814051 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2813997 AAGTTTTCAT
*
2814007 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2814027 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2814049 TTT
1 TTT
2814052 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2820217 original size:52 final size:52
Alignment explanation
Indices: 2820160--2820276 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 52
2820150 ATTTAACTGG
*
2820160 ATGTATCGATACATA-GAAAAATGTATCGATACATTTAGGTCAAAAGCCTAGA
1 ATGTATCGATACATATGAAAAATGTATCGATACAATTAGGTCAAAA-CCTAGA
* * *
2820212 ATGTATCGATACA-ATGAAGAATGTATCGATATAATTGGGTCAAAACCTAGA
1 ATGTATCGATACATATGAAAAATGTATCGATACAATTAGGTCAAAACCTAGA
2820263 ATGTATCGATACAT
1 ATGTATCGATACAT
2820277 TTTCTTTCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 20 0.34
52 39 0.66
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACATATGAAAAATGTATCGATACAATTAGGTCAAAACCTAGA
Found at i:2820358 original size:20 final size:20
Alignment explanation
Indices: 2820315--2820387 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2820305 GACATGGCCT
***
2820315 TGTATCGATACATTTCAAACA
1 TGTATCGATACA-TTCACTTA
2820336 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
2820356 TGTATCGATACATTCACTTT
1 TGTATCGATACATTCACTTA
2820376 TGTATCGATACA
1 TGTATCGATACA
2820388 AATTGTAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 36 0.75
21 12 0.25
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:2820959 original size:20 final size:20
Alignment explanation
Indices: 2820914--2820970 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
2820904 ATCTTTATAC
*
2820914 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATCA-TAA
2820935 ATTGTATCGATACATCA-AGA
1 ATTGTATCGATACATCATA-A
*
2820955 ATTGTATCAATACATC
1 ATTGTATCGATACATC
2820971 TGGCCTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
21 16 0.48
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATCATAA
Found at i:2824479 original size:13 final size:13
Alignment explanation
Indices: 2824461--2824486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2824451 AATTTTTTTG
2824461 TGTATCGATACAT
1 TGTATCGATACAT
2824474 TGTATCGATACAT
1 TGTATCGATACAT
2824487 ATTTTGTGTA
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:2824497 original size:32 final size:34
Alignment explanation
Indices: 2824440--2824504 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
2824430 TACAAGCCAA
*
2824440 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2824474 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
2824505 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:2824609 original size:20 final size:20
Alignment explanation
Indices: 2824556--2824611 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
2824546 ACATCTTTTT
*
2824556 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
2824576 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
2824595 CTATGTATCGATACTTT
1 C-ATGTATCGATACTTT
2824612 TAAGGGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:2824811 original size:15 final size:15
Alignment explanation
Indices: 2824772--2824805 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2824762 AAATCATTTG
2824772 GTACAAAATTATTAA
1 GTACAAAATTATTAA
2824787 GTACAAAATTATTAA
1 GTACAAAATTATTAA
2824802 GTAC
1 GTAC
2824806 TTAATTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (15 bp):
GTACAAAATTATTAA
Found at i:2827066 original size:13 final size:13
Alignment explanation
Indices: 2827048--2827085 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2827038 ATAATCCCCC
*
2827048 TGTATCGATATAG
1 TGTATCGATACAG
*
2827061 TGTATCGATACAT
1 TGTATCGATACAG
2827074 TGTATCGATACA
1 TGTATCGATACA
2827086 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2830874 original size:13 final size:13
Alignment explanation
Indices: 2830856--2830881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2830846 AATTTTTTTG
2830856 TGTATCGATACAT
1 TGTATCGATACAT
2830869 TGTATCGATACAT
1 TGTATCGATACAT
2830882 ATTTTGTGTA
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:2830892 original size:32 final size:34
Alignment explanation
Indices: 2830835--2830899 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
2830825 TACAAGCCAA
*
2830835 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
2830869 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
2830900 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:2830976 original size:20 final size:20
Alignment explanation
Indices: 2830930--2831003 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2830920 ATCCCAATGA
***
2830930 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
2830951 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
2830971 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
2830991 TATGTATCGATAC
1 CATGTATCGATAC
2831004 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:2834379 original size:31 final size:33
Alignment explanation
Indices: 2834341--2834420 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
2834331 TATTTTAAAG
2834341 GCTAAGATAGAACCTC-TC-T-ATCTTTTCACAA
1 GCTAAGATAGAACCTCTTCATAAT-TTTTCACAA
2834372 GCTAAGATAGAACCTCTTCAGTAATTTTTCACAA
1 GCTAAGATAGAACCTCTTCA-TAATTTTTCACAA
*
2834406 GCTAAGATAAAACCT
1 GCTAAGATAGAACCT
2834421 TTCTCCCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 16 0.36
32 2 0.05
34 24 0.55
35 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (33 bp):
GCTAAGATAGAACCTCTTCATAATTTTTCACAA
Found at i:2847892 original size:32 final size:32
Alignment explanation
Indices: 2847846--2848034 Score: 234
Period size: 32 Copynumber: 5.9 Consensus size: 32
2847836 AGTAGAGGAA
* *
2847846 CCTTCTCTAAAGCCCACAGAAGTTGGTGGTGAC
1 CCTT-TCTAAAGCCCACACAAGTTGGTGGTAAC
*
2847879 CCTTTCTAAAGCCCACACAAGTCGGTGGTAAC
1 CCTTTCTAAAGCCCACACAAGTTGGTGGTAAC
* * * * *
2847911 CCTTTCCAAGGCCCACATAAGCTGGTGGCAAC
1 CCTTTCTAAAGCCCACACAAGTTGGTGGTAAC
* * *
2847943 CTTTTTTAAAGCCCACACAAGTTGGTGGTGAC
1 CCTTTCTAAAGCCCACACAAGTTGGTGGTAAC
* * *
2847975 CCTTTCTAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTTCTAAAGCCCACACAAGTTGGTGGTAAC
*
2848007 CCTTTCAAAAGCCCACACAAGTTGGTGG
1 CCTTTCTAAAGCCCACACAAGTTGGTGG
2848035 CATCTCCTTC
Statistics
Matches: 130, Mismatches: 26, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
32 126 0.97
33 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (32 bp):
CCTTTCTAAAGCCCACACAAGTTGGTGGTAAC
Found at i:2847969 original size:96 final size:96
Alignment explanation
Indices: 2847844--2848036 Score: 305
Period size: 96 Copynumber: 2.0 Consensus size: 96
2847834 CCAGTAGAGG
* *
2847844 AACCTTCTCTAAAGCCCACAGAAGTTGGTGGTGACCCTTTCTAAAGCCCACACAAGTCGGTGGTA
1 AACCTTCTCTAAAGCCCACACAAGTTGGTGGTGACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* * *
2847909 ACCCTTTCCAAGGCCCACATAAGCTGGTGGC
66 ACCCTTTCAAAAGCCCACACAAGCTGGTGGC
* * *
2847940 AACCTTTTTTAAAGCCCACACAAGTTGGTGGTGACCCTTTCTAAAGCCCACATAAGTCGGTGGCA
1 AACCTTCTCTAAAGCCCACACAAGTTGGTGGTGACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
*
2848005 ACCCTTTCAAAAGCCCACACAAGTTGGTGGC
66 ACCCTTTCAAAAGCCCACACAAGCTGGTGGC
2848036 A
1 A
2848037 TCTCCTTCTA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (96 bp):
AACCTTCTCTAAAGCCCACACAAGTTGGTGGTGACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
ACCCTTTCAAAAGCCCACACAAGCTGGTGGC
Found at i:2848217 original size:49 final size:49
Alignment explanation
Indices: 2848142--2848386 Score: 197
Period size: 49 Copynumber: 4.9 Consensus size: 49
2848132 ATCATCCTTC
* * * * * *
2848142 TCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAACGCGTTGGCACCT
1 TCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAACACATTGGCACCT
* * * * * *
2848191 TCATCTTTAAGTTCGATATCGCTGGCCTTGAATCAGCATATTGACATCT
1 TCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAACACATTGGCACCT
* * * * * * *
2848240 TCAACATTCCTAAGCTT-AATGTGGCTAGCCTTGAATTAGCATATTGGCACCT
1 TCATC-TT--TAAG-TTCAATATAGCTGGCCTTGAATCAACACATTGGCACCT
* * *
2848292 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCGACACATTGGCACCT
1 TCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAACACATTGGCACCT
* * * *
2848341 TCATCTTTAA-TTCCGATATTGCTGGCCTTGAATTAACATATTGGCA
1 TCATCTTTAAGTT-CAATATAGCTGGCCTTGAATCAACACATTGGCA
2848387 TCTTTAACAA
Statistics
Matches: 156, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 4 0.03
49 111 0.71
50 2 0.01
51 2 0.01
52 35 0.22
53 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (49 bp):
TCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAACACATTGGCACCT
Found at i:2848421 original size:150 final size:150
Alignment explanation
Indices: 2848143--2848539 Score: 411
Period size: 150 Copynumber: 2.6 Consensus size: 150
2848133 TCATCCTTCT
* * * *
2848143 CATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAACGCGTTGGCACCTTCATCTTTAAGTTCGAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTTCGAT
* * ** *
2848208 ATCGCTGGCCTTGAATCAGCATATTGACATCTTCAACATTCCTAAGCTTAATGTGGCTAGCCTTG
66 ATCGCTGGCCTTGAATCAACATATTGACATCTTCAACAATCCTAAGCCCAATGTCGCTAGCCTTG
*
2848273 AATTAGCATATTGGCACCTC
131 AATCAGCATATTGGCACCTC
* *
2848293 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCGACACATTGGCACCTTCATCTTTAA-TTCCGA
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTT-CGA
* * * * * *
2848357 TATTGCTGGCCTTGAATTAACATATTGGCATCTTTAACAATCCTAAGCCCAATGTCGTTGGCCTT
65 TATCGCTGGCCTTGAATCAACATATTGACATCTTCAACAATCCTAAGCCCAATGTCGCTAGCCTT
* *** *
2848422 GAATCAGCACATCAACATTCTTC
130 GAATCAGCATATTGGCA--CCTC
* * * * * * * *
2848445 TCATCTTCAAGTCTAATGTCA-CTAGCCATGAATCAGCACATTGACATTCTTCATATCTTTAAGC
1 -CATCTTTAAGTCCAATGT-AGCTGGCCTTGAATCAACACATTGGCA-CCTTC--ATCTTTAAGT
* *
2848509 GCAATATCGCTGGCCTTGAATCAACATATTG
61 TCGATATCGCTGGCCTTGAATCAACATATTG
2848540 GCACCTTTCT
Statistics
Matches: 201, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
149 2 0.01
150 121 0.60
152 3 0.01
153 35 0.17
154 5 0.02
156 35 0.17
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (150 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTTCGAT
ATCGCTGGCCTTGAATCAACATATTGACATCTTCAACAATCCTAAGCCCAATGTCGCTAGCCTTG
AATCAGCATATTGGCACCTC
Found at i:2848463 original size:52 final size:52
Alignment explanation
Indices: 2848401--2848531 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2848391 TAACAATCCT
* *
2848401 AAGCCCAATGTCGTTGGCCTTGAATCAGCACATCAACATTCTTC-TCATCTTC
1 AAGCGCAATGTCGCTGGCCTTGAATCAGCACATCAACATTCTTCAT-ATCTTC
* * * * ** *
2848453 AAGTC-TAATGTCACTAGCCATGAATCAGCACATTGACATTCTTCATATCTTT
1 AAG-CGCAATGTCGCTGGCCTTGAATCAGCACATCAACATTCTTCATATCTTC
*
2848505 AAGCGCAATATCGCTGGCCTTGAATCA
1 AAGCGCAATGTCGCTGGCCTTGAATCA
2848532 ACATATTGGC
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
51 1 0.02
52 60 0.95
53 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (52 bp):
AAGCGCAATGTCGCTGGCCTTGAATCAGCACATCAACATTCTTCATATCTTC
Found at i:2853653 original size:52 final size:51
Alignment explanation
Indices: 2853592--2853714 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 51
2853582 ATAACGAGGC
* * * *
2853592 TGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC-GGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCAGGA-T
** * *
2853644 TGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGAT
1 TGGAGTATCCCCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCAGGAT
2853696 TGGAGTATCCCCGATTGTG
1 TGGAGTATCCCCGATTGTG
2853715 GAGAATTGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
51 1 0.02
52 46 0.78
53 12 0.20
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCAGGAT
Found at i:2856096 original size:13 final size:13
Alignment explanation
Indices: 2856078--2856103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2856068 ACAAAGATCC
2856078 ATGTATCGATACA
1 ATGTATCGATACA
2856091 ATGTATCGATACA
1 ATGTATCGATACA
2856104 CAGAAAAATG
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:2856099 original size:33 final size:33
Alignment explanation
Indices: 2856057--2856123 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2856047 AAAATTTCCA
***
2856057 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2856090 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2856123 A
1 A
2856124 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2856167 original size:19 final size:18
Alignment explanation
Indices: 2856143--2856210 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2856133 CAGTAGCTAA
2856143 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2856162 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2856177 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2856194 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2856211 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2856183 original size:13 final size:13
Alignment explanation
Indices: 2856165--2856189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2856155 ACAATACTTA
2856165 TGTATCGATACAT
1 TGTATCGATACAT
2856178 TGTATCGATACA
1 TGTATCGATACA
2856190 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2856187 original size:32 final size:32
Alignment explanation
Indices: 2856146--2856208 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2856136 TAGCTAATTA
*
2856146 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2856178 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2856209 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2856272 original size:21 final size:21
Alignment explanation
Indices: 2856246--2856323 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
2856236 GTTGGGACCC
2856246 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
2856267 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
2856287 TGTATCGATACA-TTATACAAA
1 TGTATCGATACATTTGTA-GAA
2856308 TGTATCGATACATTTG
1 TGTATCGATACATTTG
2856324 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:2856310 original size:41 final size:40
Alignment explanation
Indices: 2856246--2856327 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
2856236 GTTGGGACCC
* *
2856246 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTATAAAATGTATCGATACATTTG-GAA
2856287 TGTATCGATACA-TTATACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTATA-AAATGTATCGATACATTTGGAA
2856327 T
1 T
2856328 TTTTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTATAAAATGTATCGATACATTTGGAA
Found at i:2859989 original size:52 final size:52
Alignment explanation
Indices: 2859919--2860039 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2859909 GAAAATTTAT
*
2859919 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2859971 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2860023 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2860040 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2860052 original size:52 final size:51
Alignment explanation
Indices: 2859919--2860059 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
2859909 GAAAATTTAT
2859919 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
2859971 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2860023 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2860060 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2860066 original size:13 final size:13
Alignment explanation
Indices: 2860048--2860072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2860038 CAAAGATCAG
2860048 TGTATCGATACAA
1 TGTATCGATACAA
2860061 TGTATCGATACA
1 TGTATCGATACA
2860073 TGTGAGTAAT
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:2860157 original size:13 final size:13
Alignment explanation
Indices: 2860139--2860163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2860129 AAAAAAAATA
2860139 TGTATCGATACAT
1 TGTATCGATACAT
2860152 TGTATCGATACA
1 TGTATCGATACA
2860164 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2861252 original size:49 final size:49
Alignment explanation
Indices: 2861100--2862100 Score: 1318
Period size: 49 Copynumber: 20.6 Consensus size: 49
2861090 TGAGAAAAAG
* * *
2861100 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
* * * *
2861150 AATGTGCCAATATGCCGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
1 GA--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
2861196 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
2861244 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
2861288 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
2861336 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
2861380 G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
2861428 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861477 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * * *
2861526 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861575 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
2861624 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861673 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * * *
2861722 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861771 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * * *
2861820 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861869 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AA
* * *
2861921 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2861970 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AA
* * *
2862022 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
2862071 GGTGCCAATGTGCTGAGTCAAGGCCAGCTA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTA
2862101 AGTCGAATCC
Statistics
Matches: 833, Mismatches: 92, Indels: 53
0.85 0.09 0.05
Matches are distributed among these distances:
43 103 0.12
44 8 0.01
45 3 0.00
46 5 0.01
47 2 0.00
48 8 0.01
49 574 0.69
50 4 0.00
51 4 0.00
52 122 0.15
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:2861506 original size:98 final size:98
Alignment explanation
Indices: 2861043--2862100 Score: 1675
Period size: 98 Copynumber: 10.8 Consensus size: 98
2861033 AAAAGTGATA
* * * * * *
2861043 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCAA
* * *
2861108 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * *
2861148 AAAATGTGCCAATATGCCGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
2861207 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2861242 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861301 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2861334 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861393 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2861426 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861491 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
2861524 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861589 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2861622 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861687 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
2861720 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861785 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
2861818 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
2861883 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
2861917 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
2861982 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* *
2862018 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
2862083 CTGAGTCAAGGCCAGCTA
64 CTGAGTCAAGGCCAGCTA
2862101 AGTCGAATCC
Statistics
Matches: 921, Mismatches: 21, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
92 219 0.24
94 4 0.00
95 41 0.04
96 5 0.01
98 437 0.47
99 1 0.00
101 179 0.19
103 1 0.00
105 3 0.00
107 31 0.03
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:2862479 original size:55 final size:55
Alignment explanation
Indices: 2862396--2863764 Score: 1779
Period size: 55 Copynumber: 24.4 Consensus size: 55
2862386 ATAAAGTGTA
* * ** * **
2862396 TCCTGCTCATTGAGGAGTAAAAAATGCCACAAACACGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2862451 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2862506 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2862561 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
** ** *
2862621 TCCCACTCTTTGAGGACTGG-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
2862680 TCCTACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2862735 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2862790 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2862845 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGTA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
*
2862906 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2862961 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT------G
* * * *
2863022 TCCTGCTCTTTGAGGATTAGG-AAGTGCCACCAACTTGTGTGGGCTATAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCT-T----TGA-AAGGTG
* *
2863083 TCCTGCTCTTTGGGGAC---AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2863137 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2863192 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2863247 TCCTGCTATTTGGGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2863302 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** *
2863357 TCCTGCTCTTTGAGGACTGGAGGATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* * *
2863418 TCCTGCTCTTTAAGGACTGG---GTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2863470 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2863525 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2863580 TCCTGCTCTTTGGGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2863635 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2863690 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2863745 TCCTGCTCTTTGAGGACTGG
1 TCCTGCTCTTTGAGGACTGG
2863765 GAAGGGCTAA
Statistics
Matches: 1188, Mismatches: 66, Indels: 120
0.86 0.05 0.09
Matches are distributed among these distances:
52 23 0.02
53 10 0.01
54 29 0.02
55 805 0.68
56 17 0.01
57 12 0.01
58 25 0.02
59 57 0.05
60 75 0.06
61 126 0.11
62 3 0.00
66 2 0.00
67 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2862812 original size:27 final size:27
Alignment explanation
Indices: 2862728--2862812 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
2862718 GTGGGCTTTA
2862728 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
* ** * * * *
2862755 AAA-ATG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC-TGG
2862783 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
2862810 AAA
1 AAA
2862813 ATGCCACCAA
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (27 bp):
AAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:2863214 original size:27 final size:27
Alignment explanation
Indices: 2863132--2863214 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
2863122 GGGCTTTGAG
2863132 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
2863159 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
2863187 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
2863214 A
1 A
2863215 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:2863547 original size:27 final size:27
Alignment explanation
Indices: 2863465--2863547 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
2863455 GGGCTTTGAG
2863465 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
2863492 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
2863520 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
2863547 A
1 A
2863548 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:2863712 original size:27 final size:27
Alignment explanation
Indices: 2863630--2863712 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
2863620 GGGCTTTAAG
2863630 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
2863657 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
2863685 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
2863712 A
1 A
2863713 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:2869960 original size:78 final size:78
Alignment explanation
Indices: 2869861--2870057 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 78
2869851 AATAACAGGG
* * ** * *
2869861 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCCATTATGAGAAATCAAT-ATTTA
*
2869924 GAAAAAAAATCGGGA
64 GAAAAAAAACCGGGA
*
2869939 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCCATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCCATTATGAGAAATCAATA-TTTAG
* * * *
2870004 GAATAAAGCCGGGG
65 AAAAAAAACCGGGA
* * *
2870018 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCC
2870058 GATGAAATAA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
77 7 0.07
78 45 0.45
79 49 0.49
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCCATTATGAGAAATCAATATTTAGA
AAAAAAACCGGGA
Found at i:2872569 original size:13 final size:13
Alignment explanation
Indices: 2872551--2872576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2872541 ACAAAGATCC
2872551 ATGTATCGATACA
1 ATGTATCGATACA
2872564 ATGTATCGATACA
1 ATGTATCGATACA
2872577 CAGAAAAATG
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:2872572 original size:33 final size:33
Alignment explanation
Indices: 2872530--2872596 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2872520 AAAATTTCCA
***
2872530 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2872563 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2872596 A
1 A
2872597 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2872640 original size:19 final size:18
Alignment explanation
Indices: 2872616--2872683 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2872606 CAGTAGCTAA
2872616 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2872635 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2872650 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2872667 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2872684 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2872656 original size:13 final size:13
Alignment explanation
Indices: 2872638--2872662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2872628 ACAATACTTA
2872638 TGTATCGATACAT
1 TGTATCGATACAT
2872651 TGTATCGATACA
1 TGTATCGATACA
2872663 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2872660 original size:32 final size:32
Alignment explanation
Indices: 2872619--2872681 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2872609 TAGCTAATTA
*
2872619 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2872651 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2872682 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2872745 original size:21 final size:21
Alignment explanation
Indices: 2872719--2872796 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
2872709 GTTGGGACCC
2872719 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
2872740 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
2872760 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
2872781 TGTATCGATACATTTG
1 TGTATCGATACATTTG
2872797 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:2872783 original size:41 final size:40
Alignment explanation
Indices: 2872719--2872800 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
2872709 GTTGGGACCC
* *
2872719 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTG-GAA
2872760 TGTATCGATACA-TTCTACAAATGTATCGATACATTTGGAA
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTGGAA
2872800 T
1 T
2872801 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGGAA
Found at i:2873501 original size:20 final size:19
Alignment explanation
Indices: 2873476--2873514 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2873466 TCACGCTCCT
2873476 ATGTATCAATACAATTCATA
1 ATGTATCAATACAA-TCATA
*
2873496 ATGTATCGATACAATCATA
1 ATGTATCAATACAATCATA
2873515 GTTGTTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (19 bp):
ATGTATCAATACAATCATA
Found at i:2878383 original size:14 final size:14
Alignment explanation
Indices: 2878364--2878392 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2878354 AAAGGGGGAA
2878364 GGTTCAAATAGAGG
1 GGTTCAAATAGAGG
2878378 GGTTCAAATAGAGG
1 GGTTCAAATAGAGG
2878392 G
1 G
2878393 AGGAGGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.38, T:0.21
Consensus pattern (14 bp):
GGTTCAAATAGAGG
Found at i:2878649 original size:26 final size:26
Alignment explanation
Indices: 2878620--2878675 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
2878610 TGAAACTAGT
2878620 TTAAAA-AATAAAATAAAAATCCAAAA
1 TTAAAAGAATAAAATAAAAAT-CAAAA
* *
2878646 TTAAAAGAATAAAATTAAAATTAAAA
1 TTAAAAGAATAAAATAAAAATCAAAA
2878672 TTAA
1 TTAA
2878676 TAATCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (26 bp):
TTAAAAGAATAAAATAAAAATCAAAA
Found at i:2879897 original size:66 final size:64
Alignment explanation
Indices: 2879784--2880184 Score: 232
Period size: 66 Copynumber: 6.1 Consensus size: 64
2879774 AACTAAAGGT
* * **
2879784 CCAAGGCAAAACTTGAGTTGAAAAGGGGTTGGCCATA-ATGAAACCATACAAAGCAACTTTGGAT
1 CCAAGGCAAAACCTAAG-TGAAAAAAGGTTGGCCA-AGATGAAACCATAC-AAGCAACTTTGGAT
2879848 GA
63 GA
* * * * * **
2879850 CCAGGGCAAAACCTAAGCTGAAAAAGGGTTGGCCAAGATGAATCCATATGAACCAACTAAGGATG
1 CCAAGGCAAAACCTAAG-TGAAAAAAGGTTGGCCAAGATGAAACCATA-CAAGCAACTTTGGATG
2879915 A
64 A
* * * * * *
2879916 CCAAGGCGAAACCTAAGTTAAAAAAAGTTGGCCAGGATGAAACCGTACAAGCCAACTTTGGGTGA
1 CCAAGGCAAAACCTAAGTGAAAAAAGGTTGGCCAAGATGAAACCATACAAG-CAACTTTGGATGA
* * * * * * **
2879981 CCAAAGCAAAACTTAAGTCAAAAAAAGGTTGGTCAGGATGAAACCATACGAGCCGAA-TAAAGG-
1 CCAAGGCAAAACCTAAGT-GAAAAAAGGTTGGCCAAGATGAAACCATACAAG-C-AACT-TTGGA
2880044 TGA
62 TGA
* * * * * ** * * * *
2880047 CCAAGCCGAAACCTAAGTTGCAAAAGAGGTTGGCTAGGACAAAACCATATGAATCAACTTAGGGT
1 CCAAGGCAAAACCTAAG-TG-AAAAAAGGTTGGCCAAGATGAAACCATA-CAAGCAACTTTGGAT
2880112 GA
63 GA
* * * * * * ** * *
2880114 CTAGGGCGAAACCTGAGTCAAAAAAGGGTTGGCTAAGATGAAACTGTACAAACCAACTTTGGGTG
1 CCAAGGCAAAACCTAAGTGAAAAAA-GGTTGGCCAAGATGAAACCATAC-AAGCAACTTTGGATG
2880179 A
64 A
2880180 CCAAG
1 CCAAG
2880185 ATGAAGCTTG
Statistics
Matches: 259, Mismatches: 63, Indels: 26
0.74 0.18 0.07
Matches are distributed among these distances:
64 2 0.01
65 55 0.21
66 155 0.60
67 46 0.18
68 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.17
Consensus pattern (64 bp):
CCAAGGCAAAACCTAAGTGAAAAAAGGTTGGCCAAGATGAAACCATACAAGCAACTTTGGATGA
Found at i:2879972 original size:131 final size:131
Alignment explanation
Indices: 2879811--2880157 Score: 315
Period size: 131 Copynumber: 2.6 Consensus size: 131
2879801 TTGAAAAGGG
* ** *
2879811 GTTGGCCATAATGAAACCATACAAAGCAACTTTGGATGACCAGGGCAAAACCTAAG-CTGAAAAA
1 GTTGGCCAGAATGAAACCATACAAAGCAACTTTGGATGACCAAAGCAAAACCTAAGTC-AAAAAA
* * * *
2879875 GGGTTGGCCAAGATGAATCCATATGAACC-AACT-AAGGATGACCAAGGCGAAACCTAAGTTAAA
65 AGGTTGGCCAAGATGAAACCATACGAACCGAA-TAAAGG-TGACCAAGCCGAAACCTAAGTTAAA
2879938 AAAA
128 AAAA
* * * *
2879942 GTTGGCCAGGATGAAACCGTAC-AAGCCAACTTTGGGTGACCAAAGCAAAACTTAAGTCAAAAAA
1 GTTGGCCAGAATGAAACCATACAAAG-CAACTTTGGATGACCAAAGCAAAACCTAAGTCAAAAAA
* * *
2880006 AGGTTGGTCAGGATGAAACCATACGAGCCGAATAAAGGTGACCAAGCCGAAACCTAAGTTGCAAA
65 AGGTTGGCCAAGATGAAACCATACGAACCGAATAAAGGTGACCAAGCCGAAACCTAAGTT--AAA
* *
2880071 AGAG
128 AAAA
* * ** ** * * * * ** * * *
2880075 GTTGGCTAGGACAAAACCATATGAATCAACTTAGGGTGACTAGGGCGAAACCTGAGTCAAAAAAG
1 GTTGGCCAGAATGAAACCATACAAAGCAACTTTGGATGACCAAAGCAAAACCTAAGTCAAAAAAA
*
2880140 GGTTGGCTAAGATGAAAC
66 GGTTGGCCAAGATGAAAC
2880158 TGTACAAACC
Statistics
Matches: 175, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 95 0.54
132 7 0.04
133 68 0.39
134 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.17
Consensus pattern (131 bp):
GTTGGCCAGAATGAAACCATACAAAGCAACTTTGGATGACCAAAGCAAAACCTAAGTCAAAAAAA
GGTTGGCCAAGATGAAACCATACGAACCGAATAAAGGTGACCAAGCCGAAACCTAAGTTAAAAAA
A
Found at i:2880244 original size:66 final size:66
Alignment explanation
Indices: 2879886--2880424 Score: 219
Period size: 66 Copynumber: 8.2 Consensus size: 66
2879876 GGTTGGCCAA
* * * * * * * ***
2879886 GATGAATCCATATGAACCAACTAAGGATGACCAAGGCGAAACCTAAGTTAAAAAAAG-TTGGCCA
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTTG
2879950 G
66 G
* * *** * ** * * *
2879951 GATGAAACCGTA-CAAGCCAACTTTGGGTGACCAAAGCAAAACTTAAGTCAAAAAAAGGTTGGTC
1 GATGAAACCATATGAA-CCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTT
*
2880015 AG
65 GG
* * * ** * * * *
2880017 GATGAAACCATACGAGCCGAATAAA-GGTGACCAAGCCGAAACCTAAGTTGC-AAAAGAGGTTGG
1 GATGAAACCATATGAACC-AACAAAGGGTGACCAAGGTGAAACTTGAG-T-CAAAAAAAGTTTGG
* *
2880080 CTAG
63 TTGG
** * ** * * * * * * * *
2880084 GACAAAACCATATGAATCAACTTAGGGTGACTAGGGCGAAACCTGAGTCAAAAAAGGGTTGGCTA
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTTG
*
2880149 A
66 G
** ** *** * * *
2880150 GATGAAACTGTACAAACCAACTTTGGGTGACCAAGATGAAGCTTGATTCAAAAAAAGTTTGGTTG
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTTG
2880215 G
66 G
* * *
2880216 GATGAAACCATATGAATCAACAAAGGGTGACTAAGGTGGAA-TCT-ACGTC-AAAAAAGTGTTGG
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACT-TGA-GTCAAAAAAAGT-TTGG
* *
2880278 CTAG
63 TTGG
* *** * * *
2880282 AATGAAACCATATGAACCAATTGAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAGGGTTAGTTG
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTTG
2880347 G
66 G
* ** *** * * * * * * *
2880348 GATGAAACTATACAAACCAACTTTGGATGACAAAGGTGAAATTTAAAGTGAAAAAATGGTTGGTT
1 GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTT-GAGTCAAAAAAAGTTTGGTT
2880413 GG
65 GG
2880415 GATGAAACCA
1 GATGAAACCA
2880425 AACAAACAAC
Statistics
Matches: 357, Mismatches: 102, Indels: 28
0.73 0.21 0.06
Matches are distributed among these distances:
64 2 0.01
65 55 0.15
66 216 0.61
67 83 0.23
68 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (66 bp):
GATGAAACCATATGAACCAACAAAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAAGTTTGGTTG
G
Found at i:2880247 original size:132 final size:132
Alignment explanation
Indices: 2880088--2880355 Score: 326
Period size: 132 Copynumber: 2.0 Consensus size: 132
2880078 GGCTAGGACA
** *
2880088 AAACCATATGAATCAACTTAGGGTGACTAGGGCGAAACCTGA-GTCAAAAAAGGGTTGGCTA-AG
1 AAACCATATGAATCAACAAAGGGTGACTAAGGCGAAACCT-ACGTCAAAAAAGGGTTGGCTAGA-
** * * * * *
2880151 ATGAAACTGTACAAACCAACTT-TGGGTGACCAAGATGAAGCTTGATTCAAAAAAAGTTTGGTTG
64 ATGAAACCATACAAACCAA-TTGAGGGTGACCAAGATGAAACTTGAGTCAAAAAAAGGTTAGTTG
2880215 GGATG
128 GGATG
* * * *
2880220 AAACCATATGAATCAACAAAGGGTGACTAAGGTGGAATCTACGTCAAAAAAGTGTTGGCTAGAAT
1 AAACCATATGAATCAACAAAGGGTGACTAAGGCGAAACCTACGTCAAAAAAGGGTTGGCTAGAAT
** * *
2880285 GAAACCATATGAACCAATTGAGGGTGACCAAGGTGAAACTTGAGTCAAAAAAGGGTTAGTTGGGA
66 GAAACCATACAAACCAATTGAGGGTGACCAAGATGAAACTTGAGTCAAAAAAAGGTTAGTTGGGA
2880350 TG
131 TG
2880352 AAAC
1 AAAC
2880356 TATACAAACC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
131 3 0.03
132 111 0.97
133 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.22
Consensus pattern (132 bp):
AAACCATATGAATCAACAAAGGGTGACTAAGGCGAAACCTACGTCAAAAAAGGGTTGGCTAGAAT
GAAACCATACAAACCAATTGAGGGTGACCAAGATGAAACTTGAGTCAAAAAAAGGTTAGTTGGGA
TG
Found at i:2880354 original size:198 final size:198
Alignment explanation
Indices: 2879858--2880424 Score: 565
Period size: 198 Copynumber: 2.9 Consensus size: 198
2879848 GACCAGGGCA
* * * * * *
2879858 AAACCTAAGCTG-AAAAAGGGTTGGCCA-AGATGAATCCATATGAACCAACTAAGGATGACCAAG
1 AAACCTAAGTTGCAAAAAAGGTTGGCTAGA-ATGAAACCATATGAACCAA-TTAGGGTGACCAAG
* * * * * *
2879921 GCGAAACCTAAGTTAAAAAA-AGTTGGCCAGGATGAAACCGTACAAGCCAACTTTGGGTGACCAA
64 GCGAAACCTGAGTCAAAAAAGGGTTGGCTAGGATGAAACTGTACAAACCAACTTTGGGTGACCAA
** * *
2879985 -A-GCAAAACTTAAGTCAAAAAAAGGTTGGTCAGGATGAAACCATACGAGCCGAATAAAGGTGAC
129 GATG--AAACTTAAGTCAAAAAAAGGTTGGTTGGGATGAAACCATACGAACCGAACAAAGGTGAC
2880048 CAAGCCG
192 CAAGCCG
* * ** * * *
2880055 AAACCTAAGTTGCAAAAGAGGTTGGCTAGGACAAAACCATATGAATCAACTTAGGGTGACTAGGG
1 AAACCTAAGTTGCAAAAAAGGTTGGCTAGAATGAAACCATATGAACCAA-TTAGGGTGACCAAGG
*
2880120 CGAAACCTGAGTCAAAAAAGGGTTGGCTAAGATGAAACTGTACAAACCAACTTTGGGTGACCAAG
65 CGAAACCTGAGTCAAAAAAGGGTTGGCTAGGATGAAACTGTACAAACCAACTTTGGGTGACCAAG
* * * * * * *
2880185 ATGAAGCTTGATTCAAAAAAAGTTTGGTTGGGATGAAACCATATGAATC-AACAAAGGGTGACTA
130 ATGAAACTTAAGTCAAAAAAAGGTTGGTTGGGATGAAACCATACGAACCGAACAAA-GGTGACCA
**
2880249 AGGTG
194 AGCCG
* * *
2880254 GAATCTACG-T-CAAAAAAGTGTTGGCTAGAATGAAACCATATGAACCAATTGAGGGTGACCAAG
1 AAACCTAAGTTGCAAAAAAG-GTTGGCTAGAATGAAACCATATGAACCAATT-AGGGTGACCAAG
* * * * * * * *
2880317 GTGAAACTTGAGTCAAAAAAGGGTTAGTTGGGATGAAACTATACAAACCAACTTTGGATGACAAA
64 GCGAAACCTGAGTCAAAAAAGGGTTGGCTAGGATGAAACTGTACAAACCAACTTTGGGTGACCAA
* * * *
2880382 GGTGAAATTTAAAGTGAAAAAATGGTTGGTTGGGATGAAACCA
129 GATGAAACTT-AAGTCAAAAAAAGGTTGGTTGGGATGAAACCA
2880425 AACAAACAAC
Statistics
Matches: 301, Mismatches: 60, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
197 20 0.07
198 160 0.53
199 119 0.40
200 1 0.00
201 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (198 bp):
AAACCTAAGTTGCAAAAAAGGTTGGCTAGAATGAAACCATATGAACCAATTAGGGTGACCAAGGC
GAAACCTGAGTCAAAAAAGGGTTGGCTAGGATGAAACTGTACAAACCAACTTTGGGTGACCAAGA
TGAAACTTAAGTCAAAAAAAGGTTGGTTGGGATGAAACCATACGAACCGAACAAAGGTGACCAAG
CCG
Found at i:2880384 original size:132 final size:132
Alignment explanation
Indices: 2880130--2880431 Score: 293
Period size: 132 Copynumber: 2.3 Consensus size: 132
2880120 CGAAACCTGA
** * *
2880130 GTCAAAAAAGGGTTGGCTAAGATGAAACTGTACAAACCAACTTTGGGTGACCAAGATGAAGCTTG
1 GTCAAAAAAGGGTTGGCTAAGATGAAACCATACAAACCAACTTAGGGTGACCAAGATGAAACTTG
* * * ** * * *
2880195 ATTCAAAAAAAGTTTGGTTGGGATGAAACCATATGAATCAACAAAGGGTGACTAAGGTGGAATCT
66 AGTCAAAAAAAGGTTAGTTGGGATGAAACCATACAAACCAACAAAGGATGACAAAGGTGGAATCT
2880260 AC
131 AC
* ** *
2880262 GTCAAAAAAGTGTTGGCT-AGAATGAAACCATATGAACCAA-TTGAGGGTGACCAAGGTGAAACT
1 GTCAAAAAAGGGTTGGCTAAG-ATGAAACCATACAAACCAACTT-AGGGTGACCAAGATGAAACT
* * *** *
2880325 TGAGTCAAAAAAGGGTTAGTTGGGATGAAACTATACAAACCAACTTTGGATGACAAAGGTGAAAT
64 TGAGTCAAAAAAAGGTTAGTTGGGATGAAACCATACAAACCAACAAAGGATGACAAAGGTGGAAT
* *
2880390 TTAAA
129 CT-AC
* * * ** *
2880395 GTGAAAAAATGGTTGGTTGGGATGAAACCAAACAAAC
1 GTCAAAAAAGGGTTGGCTAAGATGAAACCATACAAAC
2880432 AACATTAAGT
Statistics
Matches: 134, Mismatches: 32, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
131 4 0.03
132 101 0.75
133 28 0.21
134 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (132 bp):
GTCAAAAAAGGGTTGGCTAAGATGAAACCATACAAACCAACTTAGGGTGACCAAGATGAAACTTG
AGTCAAAAAAAGGTTAGTTGGGATGAAACCATACAAACCAACAAAGGATGACAAAGGTGGAATCT
AC
Found at i:2880747 original size:64 final size:65
Alignment explanation
Indices: 2880610--2880760 Score: 171
Period size: 64 Copynumber: 2.3 Consensus size: 65
2880600 GTTATCCAGC
** * *
2880610 ATGAAACCATATGAACTAACTTTGGATGACCAAGACGAAACCTAAGTCAAAAAAAGGTTAGTAGG
1 ATGAAACCATACAAACCAACTTTGGATGACCAAGAC-AAACCTAAATCAAAAAAAGGTTAGTAGG
2880675 G
65 G
* * ** * *
2880676 ATGAAACCATACAAACCAACTTTGG-TGACCAGGTA-AAACCTAAATCGAAAAGGGGTTGGTTGG
1 ATGAAACCATACAAACCAACTTTGGATGACCAAG-ACAAACCTAAATCAAAAAAAGGTTAGTAGG
2880739 G
65 G
*
2880740 ATGAAACCATACAAGCCAACT
1 ATGAAACCATACAAACCAACT
2880761 AAGAGTGACT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 43 0.59
65 7 0.10
66 23 0.32
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (65 bp):
ATGAAACCATACAAACCAACTTTGGATGACCAAGACAAACCTAAATCAAAAAAAGGTTAGTAGGG
Found at i:2882315 original size:24 final size:24
Alignment explanation
Indices: 2882265--2882313 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
2882255 CTTCAAAAAA
*
2882265 TTAATTTTATTTAAATTATCAATT
1 TTAATTTTATTTAAATAATCAATT
* *
2882289 TTAATTTTTTTTAAA-AATCCATT
1 TTAATTTTATTTAAATAATCAATT
2882312 TT
1 TT
2882314 TATCAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATTTTATTTAAATAATCAATT
Found at i:2883138 original size:20 final size:20
Alignment explanation
Indices: 2883113--2883150 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2883103 ATACAAACAA
*
2883113 TGAATGTATTGATACATGAG
1 TGAATGTATCGATACATGAG
2883133 TGAATGTATCGATACATG
1 TGAATGTATCGATACATG
2883151 TCTAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (20 bp):
TGAATGTATCGATACATGAG
Found at i:2885746 original size:80 final size:80
Alignment explanation
Indices: 2885648--2885929 Score: 393
Period size: 80 Copynumber: 3.5 Consensus size: 80
2885638 TCATCTTGGA
* * * * *
2885648 GATATTCCAATCCCATCATTTATGAGGGGATACTCTAACCCCATTTTTCTTCCAAATGCATCGAA
1 GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTCTTCCAAATGCATTGAA
*
2885713 TTTTTCACCATCGAG
66 TTTTTCACCATCGGG
* * * * ** *
2885728 GATACTCCAATCCTATCATTTCTGAAGGGATACTTCAACCCTGTTTTTTTTCCAAATGCATTGAA
1 GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTCTTCCAAATGCATTGAA
*
2885793 TTTTTCGCCATCGGG
66 TTTTTCACCATCGGG
* *
2885808 GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCCAAAAGCATTAA
1 GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTT-CTTCCAAATGCATTGA
*
2885873 ATTTTTCACCATTGGG
65 ATTTTTCACCATCGGG
*
2885889 GATACTCCAACCCCATCATTTCCGAGGGGATACTCCAACCC
1 GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCC
2885930 AGTTTTTACT
Statistics
Matches: 177, Mismatches: 24, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
80 110 0.62
81 67 0.38
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (80 bp):
GATACTCCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTCTTCCAAATGCATTGAA
TTTTTCACCATCGGG
Found at i:2885897 original size:81 final size:81
Alignment explanation
Indices: 2885604--2885941 Score: 384
Period size: 80 Copynumber: 4.2 Consensus size: 81
2885594 AAAGGGTACA
* * * * * * *
2885604 CCAACCCCCATTTTCACTTCTAAAA-CA--AAATTTTTCATC-TTGGAGATATTCCAATCCCATC
1 CCAA-CCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATCGGGGATACTCCAACCCCATC
*
2885665 ATTTATGAGGGGATACT
65 ATTTCTGAGGGGATACT
* * ** * * *
2885682 CTAACCCCATTTTT-CTTCCAAATGCATCGAATTTTTCACCATCGAGGATACTCCAATCCTATCA
1 CCAACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATCGGGGATACTCCAACCCCATCA
*
2885746 TTTCTGAAGGGATACT
66 TTTCTGAGGGGATACT
* ** * * * *
2885762 TCAACCCTGTTTTT-TTTCCAAATGCATTGAATTTTTCGCCATCGGGGATACTCCAACCCCATCA
1 CCAACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATCGGGGATACTCCAACCCCATCA
2885826 TTTCTGAGGGGATACT
66 TTTCTGAGGGGATACT
*
2885842 CCAACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATTGGGGATACTCCAACCCCATCA
1 CCAACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATCGGGGATACTCCAACCCCATCA
*
2885907 TTTCCGAGGGGATACT
66 TTTCTGAGGGGATACT
2885923 CCAA-CCCAGTTTTTACTTC
1 CCAACCCCA-TTTTTACTTC
2885942 ACCATCGGGG
Statistics
Matches: 221, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
76 7 0.03
77 11 0.05
78 3 0.01
79 10 0.05
80 116 0.52
81 74 0.33
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (81 bp):
CCAACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATCGGGGATACTCCAACCCCATCA
TTTCTGAGGGGATACT
Found at i:2885985 original size:61 final size:62
Alignment explanation
Indices: 2885877--2886002 Score: 218
Period size: 61 Copynumber: 2.0 Consensus size: 62
2885867 CATTAAATTT
*
2885877 TTCACCATTGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAACCCAGTTTTTAC
1 TTCACCATCGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAACCCAGTTTTTAC
* *
2885939 TTCACCATCGGGGATACTCCAA-CCCATCATTTTCGAGGGGATACTCCAACCCCGTTTTTAC
1 TTCACCATCGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAACCCAGTTTTTAC
2886000 TTC
1 TTC
2886003 TAAAAGCATG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 40 0.66
62 21 0.34
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.29
Consensus pattern (62 bp):
TTCACCATCGGGGATACTCCAACCCCATCATTTCCGAGGGGATACTCCAACCCAGTTTTTAC
Found at i:2886050 original size:222 final size:220
Alignment explanation
Indices: 2885716--2886142 Score: 522
Period size: 222 Copynumber: 1.9 Consensus size: 220
2885706 CATCGAATTT
* * * *
2885716 TTCACCATCGAGGATACTCCAATCCTATCATTTCTGAAGGGATACTTCAACCCTGTTTTTTTTCC
1 TTCACCATCGAGGATACTCCAATCCCATCATTTCTGAAGGGATACTCCAACCCCGTTTTTCTTCC
* * * *
2885781 AAATGCATTGAATTTTTCGCCATCGGGGATACTCCAACCCCATCA-TTTCTGAGGGGATACTCCA
66 AAAAGCATTGAATTTTTCACCATCGAGGATACTCCAACCCCATCATTTTC-GAGCGGATACTCCA
* * *
2885845 ACCCCATTTTTACTTCCAAAAGCATTAAATTTTTCACCATTGGGGATACTCCAACCCCATCATTT
130 ACCCCATATTTACTTCCAAAA-CATCAAA-TTTTCACCACTGGGGATACTCCAA-CCCATCATTT
*
2885910 CCGAGGGGATACTCCAACCCAGTTTTTAC
192 CCGAAGGGATACTCCAACCCAGTTTTTAC
* *
2885939 TTCACCATCGGGGATACTCCAA-CCCATCATTT-TCGAGGGGATACTCCAACCCCGTTTTTACTT
1 TTCACCATCGAGGATACTCCAATCCCATCATTTCT-GAAGGGATACTCCAACCCCGTTTTT-CTT
* * **
2886002 CTAAAAGCA-TGAAATTTTT-ACCATTGAGGATACTCCAACCTTATCATTTTCGAGCGGATACTC
64 CCAAAAGCATTG-AATTTTTCACCATCGAGGATACTCCAACCCCATCATTTTCGAGCGGATACTC
* * * * * * *
2886065 CAACCCTATATTTATTTTCAAAATATCAAATTTTCACCGCTGGGGATATTCCAACCCATCATTTT
128 CAACCCCATATTTACTTCCAAAACATCAAATTTTCACCACTGGGGATACTCCAACCCATCATTTC
*
2886130 CGAAGGGTTACTC
193 CGAAGGGATACTC
2886143 TACCTCTACT
Statistics
Matches: 174, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
219 21 0.12
220 21 0.12
221 6 0.03
222 85 0.49
223 41 0.24
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (220 bp):
TTCACCATCGAGGATACTCCAATCCCATCATTTCTGAAGGGATACTCCAACCCCGTTTTTCTTCC
AAAAGCATTGAATTTTTCACCATCGAGGATACTCCAACCCCATCATTTTCGAGCGGATACTCCAA
CCCCATATTTACTTCCAAAACATCAAATTTTCACCACTGGGGATACTCCAACCCATCATTTCCGA
AGGGATACTCCAACCCAGTTTTTAC
Found at i:2886188 original size:78 final size:76
Alignment explanation
Indices: 2885946--2886220 Score: 241
Period size: 79 Copynumber: 3.5 Consensus size: 76
2885936 TACTTCACCA
* * *
2885946 TCGGGGATACTCCAACCCATCATTTTCGAGGGGATACTCCAACCCCGT-TTTTACTTCTAAAAGC
1 TCGGGGATACTCCAACCCATCATTTTCGAAGGGATACTCCAA-CCC-TATTTTACTTCCAAAA-T
*
2886010 ATGAAATTTTTACC
63 ATAAAATTTTTACC
* * * * *
2886024 ATTGAGGATACTCCAACCTTATCATTTTCG-AGCGGATACTCCAACCCTATATTTATTTTCAAAA
1 -TCGGGGATACTCCAACC-CATCATTTTCGAAG-GGATACTCCAACCCTAT-TTTACTTCCAAAA
* *
2886088 TATCAAATTTTCACC
62 TATAAAATTTTTACC
* * * *
2886103 GCTGGGGATATTCCAACCCATCATTTTCGAAGGGTTACT-CTACCTCTACTTTTACTTCCAAAAT
1 TC-GGGGATACTCCAACCCATCATTTTCGAAGGGATACTCCAACC-CTA-TTTTACTTCCAAAAT
*
2886167 ATTAAAATTTTTATC
63 A-TAAAATTTTTACC
* * * *
2886182 TCGGGGATACTCTAACTCCACCATCTTCGAGGGGATACT
1 TCGGGGATACTCCAAC-CCATCATTTTCGAAGGGATACT
2886221 TTAACCTCGA
Statistics
Matches: 157, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
77 4 0.03
78 45 0.29
79 77 0.49
80 31 0.20
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (76 bp):
TCGGGGATACTCCAACCCATCATTTTCGAAGGGATACTCCAACCCTATTTTACTTCCAAAATATA
AAATTTTTACC
Found at i:2891485 original size:35 final size:35
Alignment explanation
Indices: 2891412--2891497 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
2891402 CTATCTTTTG
*
2891412 AAGGCTAAGATAGAA-C-C-TCCTTATCTTTTCAC
1 AAGGCTAAGATAGAACCTCTTCCCTATCTTTTCAC
2891444 AA-GCTAAGATAGAACCTCTTCCCTATCTTTTTCA-
1 AAGGCTAAGATAGAACCTCTTCCCTATC-TTTTCAC
*
2891478 AAGGCTAAGATATAACCTCT
1 AAGGCTAAGATAGAACCTCT
2891498 CAATCACTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
31 12 0.26
32 3 0.06
33 1 0.02
34 9 0.19
35 22 0.47
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
AAGGCTAAGATAGAACCTCTTCCCTATCTTTTCAC
Found at i:2892055 original size:20 final size:20
Alignment explanation
Indices: 2892032--2892083 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2892022 AAATCCATAG
2892032 TGTATCGATACAAAGCAAGT-
1 TGTATCGATACAAAGCAA-TA
*
2892052 TGTATCGATACAATGCAATA
1 TGTATCGATACAAAGCAATA
2892072 TGTATCGATACA
1 TGTATCGATACA
2892084 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATA
Found at i:2892835 original size:37 final size:37
Alignment explanation
Indices: 2892744--2892850 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
2892734 ATACAATTTC
*
2892744 TCCCTTTATAGCACTTCTCTATTTC-CCCCTCTTATCTT
1 TCCCTTTATAACACTTCTCTATTTCTCCCC-C-TATCTT
*
2892782 TCCCTTTATAACACTTCTCTATTTCTCCCCCTATTTT
1 TCCCTTTATAACACTTCTCTATTTCTCCCCCTATCTT
*
2892819 TCTCTTTATAACACTTCTCTATTTCTCCCCCT
1 TCCCTTTATAACACTTCTCTATTTCTCCCCCT
2892851 TTAAATGATC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
37 36 0.55
38 25 0.38
39 4 0.06
ACGTcount: A:0.15, C:0.36, G:0.01, T:0.48
Consensus pattern (37 bp):
TCCCTTTATAACACTTCTCTATTTCTCCCCCTATCTT
Found at i:2894089 original size:33 final size:33
Alignment explanation
Indices: 2894052--2894118 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2894042 TTCAACGATT
2894052 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2894085 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2894118 T
1 T
2894119 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2894090 original size:13 final size:13
Alignment explanation
Indices: 2894072--2894096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2894062 CATAAAATGT
2894072 TGTATCGATACAA
1 TGTATCGATACAA
2894085 TGTATCGATACA
1 TGTATCGATACA
2894097 TATTTTTTTG
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:2894177 original size:13 final size:13
Alignment explanation
Indices: 2894159--2894183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2894149 ATTACTCAAA
2894159 TGTATCGATACAT
1 TGTATCGATACAT
2894172 TGTATCGATACA
1 TGTATCGATACA
2894184 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2894235 original size:52 final size:52
Alignment explanation
Indices: 2894192--2894368 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
2894182 CACTGATCTT
*
2894192 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
2894244 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
2894296 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
2894348 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2894369 CTTTTCATAT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:2901522 original size:18 final size:17
Alignment explanation
Indices: 2901490--2901541 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
2901480 TTCTTTTCCA
* *
2901490 AAAAAGGAAACAAAACAC
1 AAAAA-GAAAAAAAAAAC
*
2901508 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAC
*
2901525 AAGAAATAAAAAAAAAA
1 AA-AAAGAAAAAAAAAA
2901542 TAGGAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAC
Found at i:2902542 original size:32 final size:31
Alignment explanation
Indices: 2902472--2902596 Score: 144
Period size: 31 Copynumber: 4.0 Consensus size: 31
2902462 ATACCTTTTT
*
2902472 AAAGTCCACGACTCAGTGGCAATATCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATATTTTCTTC
* *
2902503 AAAGTCCATGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-ATTTTCTTC
*
2902535 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATATTTTCTTC
* * * *
2902566 AAAGCCCACAACTCCGTGGCACTTTTTTCTT
1 AAAGTCCACGACTCAGTGGCA-TATTTTCTT
2902597 TTTAAAGCCC
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
30 2 0.02
31 49 0.59
32 32 0.39
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATATTTTCTTC
Found at i:2902608 original size:34 final size:34
Alignment explanation
Indices: 2902535--2902992 Score: 443
Period size: 35 Copynumber: 13.8 Consensus size: 34
2902525 CCTTTTCTTC
* * * *
2902535 AAAGTCCACGACTCAGTGGCA-TTTTTTC--TTC
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
2902566 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
* *
2902600 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
* **
2902634 AAAGCCCACAACTCTGTGGCAC------CCGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
*
2902662 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCTTTTT
* * * *
2902696 AAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTC
1 AAAGCCCACAACTCCGTGGC-ACTTTTTTCTTTTT
* *
2902731 AAAGCCTACCACTCCGTGGCAC-TTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
* * *
2902764 -AAGTCCACAACTCCGTCGCAC------CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
* * *
2902791 AAAGCCCACAATTCCGTGGCAACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGC-ACTTTTTTCTTTTT
*
2902826 AAAGCCCACCACTCCGTGGCAC-TTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
* *
2902859 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACT-TTTTT--CTTTTT
*
2902896 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
*
2902930 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CTTTTT
*
2902966 -AAGTCCACAACTCCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTT
2902993 CCCTCTCTAA
Statistics
Matches: 357, Mismatches: 43, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
27 25 0.07
28 20 0.06
29 2 0.01
31 18 0.05
32 24 0.07
33 39 0.11
34 91 0.25
35 98 0.27
36 14 0.04
37 26 0.07
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTT
Found at i:2902672 original size:95 final size:98
Alignment explanation
Indices: 2902567--2902958 Score: 464
Period size: 95 Copynumber: 4.0 Consensus size: 98
2902557 TTTTTCTTCA
* *
2902567 AAGCCCACAACTCCGTGGCACT-TTTTTCTTTTTAAAGCCCACAACTCCGTGGC-ACCTTTTCCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAACCTTTTTCT
* * **
2902630 TTTTAAAGCCCACAACTCTGTGGCAC-CCGTTT
66 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
*
2902662 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAATTCCGTGGCAACCTTTTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAACCTTTTTCT
* * *
2902727 TCTCAAAGCCTACCACTCCGTGGCACTTTTTCTTTTT
66 TTTCAAAGCCCACAACTCCGTGGCAC----TCTTTTT
* * *
2902764 AAGTCCACAACTCCGTCGCA--C-----CCTTTTAAAGCCCACAATTCCGTGGCAACCTTTTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAACCTTTTTCT
*
2902822 TTTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTT
66 TTTCAAAGCCCACAACTCCGTGGCAC----TCTTTTT
*
2902859 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC-ACCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCAACCTTTT
*
2902923 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
63 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
2902959 CCCTTTTAAG
Statistics
Matches: 260, Mismatches: 20, Indels: 29
0.84 0.06 0.09
Matches are distributed among these distances:
95 94 0.36
96 46 0.18
97 30 0.12
98 1 0.00
100 8 0.03
102 22 0.08
104 40 0.15
105 19 0.07
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (98 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAACCTTTTTCT
TTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:2902790 original size:28 final size:28
Alignment explanation
Indices: 2902758--2902819 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
2902748 GGCACTTTTT
* *
2902758 CTTTTTAAGTCCACAACTCCGTCGCACC
1 CTTTTTAAGCCCACAACTCCGTCGCAAC
* * *
2902786 CTTTTAAAGCCCACAATTCCGTGGCAAC
1 CTTTTTAAGCCCACAACTCCGTCGCAAC
2902814 CTTTTT
1 CTTTTT
2902820 CTTTTCAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.32
Consensus pattern (28 bp):
CTTTTTAAGCCCACAACTCCGTCGCAAC
Found at i:2903010 original size:71 final size:69
Alignment explanation
Indices: 2902566--2902993 Score: 477
Period size: 68 Copynumber: 6.4 Consensus size: 69
2902556 TTTTTTCTTC
2902566 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTCC
1 AAAGCCCACAACTCCGTGGCAC-TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
2902629 TTTTT
65 CTTTT
* **
2902634 AAAGCCCACAACTCTGTGGCAC-----CCGTTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CC
1 AAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
2902692 TTTT
66 TTTT
* * * * *
2902696 AAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTCAAAGCCTACCACTCCGTGGCA--CTTTTT-
1 AAAGCCCACAACTCCGTGGC-A-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2902758 -CTTTT
64 CCTTTT
* * * * *
2902763 TAAGTCCACAACTCCGTCGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCAAC-CTTTTT--
1 AAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGC-ACTCTTTTTCC
2902820 CTTTT
65 CTTTT
* *
2902825 CAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
2902890 CTTTT
65 CTTTT
2902895 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCA-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2902960 CCTTTT
64 CCTTTT
*
2902966 -AAGTCCACAACTCCGTGGCATCTTTTTC
1 AAAGCCCACAACTCCGTGGCA-CTTTTTC
2902994 CCTCTCTAAA
Statistics
Matches: 305, Mismatches: 33, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
60 20 0.07
61 22 0.07
62 39 0.13
63 23 0.08
64 1 0.00
65 1 0.00
66 1 0.00
67 23 0.08
68 56 0.18
69 28 0.09
70 44 0.14
71 47 0.15
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
TTTT
Found at i:2903089 original size:49 final size:49
Alignment explanation
Indices: 2903031--2904268 Score: 1796
Period size: 49 Copynumber: 25.7 Consensus size: 49
2903021 GCAACCCTTC
* * *
2903031 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2903080 TAAGTCCAATGTAGCTAGCCTTGAATCAACACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903128 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2903177 TAAGTCCAATGTAGCTGGCCTT-AACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAA-TCAGCACATTGGCACCTTCATCTT
* *
2903226 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2903275 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903323 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903372 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903421 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2903470 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2903513 TAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
2903565 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2903608 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903657 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903706 TAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2903749 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2903798 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2903846 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2903895 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2903943 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2903992 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2904041 TAAGTCCAATGTAGCTGGCCTTGACTCAGTACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2904090 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2904139 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2904182 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2904234 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
2904269 AACATCTTTT
Statistics
Matches: 1071, Mismatches: 82, Indels: 69
0.88 0.07 0.06
Matches are distributed among these distances:
43 153 0.14
45 3 0.00
47 2 0.00
48 183 0.17
49 653 0.61
50 3 0.00
52 74 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2903374 original size:195 final size:195
Alignment explanation
Indices: 2903031--2904268 Score: 1776
Period size: 195 Copynumber: 6.4 Consensus size: 195
2903021 GCAACCCTTC
*
2903031 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
2903096 AGCCTTGAATCAACACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2903160 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAACTCAGCACATTGGCACCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAA-TCAGCACATTGGCACCTTCATCT
2903225 T
195 T
* * * *
2903226 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
2903291 GGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
2903355 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCACATTGGCACCTTCATCT
2903420 T
195 T
* * *
2903421 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
2903486 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGTAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2903545 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-
131 ATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCACATTGGCACCTTCA
2903605 -CTT
192 TCTT
* *
2903608 TAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
2903673 GGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTAGATGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * * *
2903738 ATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGG-CCTTAATCAGCACATTGGCACCTTCATCT
2903797 T
195 T
* * *
2903798 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
2903862 GGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * *
2903927 ATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCACATTGGCACCTTCATCT
2903991 T
195 T
*
2903992 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * * * *
2904057 GGCCTTGACTCAGTACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* *
2904122 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CT
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT-AATCAGCACATTGGCACCTTCATCT
2904181 T
195 T
*
2904182 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTA
2904247 GCTGGCCTTGAATCAGCACATT
63 GCTGGCCTTGAATCAGCACATT
2904269 AACATCTTTT
Statistics
Matches: 952, Mismatches: 63, Indels: 58
0.89 0.06 0.05
Matches are distributed among these distances:
184 34 0.04
185 3 0.00
186 1 0.00
187 86 0.09
188 1 0.00
189 89 0.09
190 123 0.13
191 1 0.00
192 7 0.01
193 122 0.13
194 80 0.08
195 361 0.38
196 44 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (195 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTAATCAGCACATTGGCACCTTCATCTT
Found at i:2904263 original size:52 final size:53
Alignment explanation
Indices: 2904179--2904332 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 53
2904169 ACATTGGCAC
2904179 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * ** *
2904231 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTAACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCTCAT
* * * * * *
2904286 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
2904333 ATCCCTTTTC
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
52 37 0.46
53 4 0.05
54 5 0.06
55 35 0.43
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:2905078 original size:20 final size:20
Alignment explanation
Indices: 2905034--2905091 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2905024 ATTTCAACGA
***
2905034 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
2905054 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
2905074 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
2905092 AAGCTACTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:2905148 original size:13 final size:13
Alignment explanation
Indices: 2905130--2905154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2905120 ATTACTCAAA
2905130 TGTATCGATACAT
1 TGTATCGATACAT
2905143 TGTATCGATACA
1 TGTATCGATACA
2905155 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2905219 original size:52 final size:52
Alignment explanation
Indices: 2905163--2905331 Score: 234
Period size: 52 Copynumber: 3.2 Consensus size: 52
2905153 CACTGATCTT
* *
2905163 TGTATCGATGCATGC-AGGCAAATTTGCCCAG-ATGTATCGATACATTATAAAA
1 TGTATCGATACAT-CTAGGCAAATTTG-CCTGCATGTATCGATACATTATAAAA
* * *
2905215 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATAA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATTATAAAA
* * *
2905267 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACACTATTAAA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATTATAAAA
2905319 TGTATCGATACAT
1 TGTATCGATACAT
2905332 GCAAACAACT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
51 4 0.04
52 102 0.96
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATTATAAAA
Found at i:2911826 original size:30 final size:31
Alignment explanation
Indices: 2911792--2911851 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2911782 CCTTACAACA
*
2911792 CTATCTTTTGA-AGGCTAAGATAGAACCTCC
1 CTATCTTTTCACAGGCTAAGATAGAACCTCC
*
2911822 CTATCTTTTCACATGCTAAGATAGAACCTC
1 CTATCTTTTCACAGGCTAAGATAGAACCTC
2911852 TCAATCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
CTATCTTTTCACAGGCTAAGATAGAACCTCC
Found at i:2912339 original size:21 final size:21
Alignment explanation
Indices: 2912289--2912345 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
2912279 CGTTGGGCCA
*
2912289 CATGTATCGATACAA-TTCAT
1 CATGTATCGATACAATTTAAT
* *
2912309 CTTATATCGATACAATTTAAT
1 CATGTATCGATACAATTTAAT
2912330 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2912346 GTATTGATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.37
Consensus pattern (21 bp):
CATGTATCGATACAATTTAAT
Found at i:2915289 original size:3 final size:3
Alignment explanation
Indices: 2915281--2915311 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2915271 TCAACCATCA
*
2915281 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2915312 AGTTGACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:2915916 original size:32 final size:33
Alignment explanation
Indices: 2915856--2915924 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2915846 TTCAACGATT
*
2915856 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
* *
2915889 TGTATCAATACAT-AAGTTTTGTATCGATATAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
2915921 TGTA
1 TGTA
2915925 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGTTGTATCGATACAA
Found at i:2915980 original size:13 final size:13
Alignment explanation
Indices: 2915962--2915986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2915952 ATTACTCAAA
2915962 TGTATCGATACAT
1 TGTATCGATACAT
2915975 TGTATCGATACA
1 TGTATCGATACA
2915987 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2916039 original size:52 final size:51
Alignment explanation
Indices: 2915975--2916123 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
2915965 ATCGATACAT
*
2915975 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAC-ATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
2916027 TGTATCGATACACTATAACAAGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-ACATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
2916079 TGTATTGATACACTATAAAATGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACACTAT-ACATGTATCGATACATGCAGGCAAATTT
2916124 TCATATTTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.97
53 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATACATGTATCGATACATGCAGGCAAATTTGCCCAGA
Done.