Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 11
Found at i:856789 original size:15 final size:15
Alignment explanation
Indices: 856769--856799 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
856759 ATTTCGTTTG
*
856769 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
856784 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
856799 G
1 G
856800 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:858632 original size:21 final size:21
Alignment explanation
Indices: 858603--858647 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
858593 AAGTTTTCAT
*
858603 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
858623 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
858645 TTT
1 TTT
858648 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:860885 original size:13 final size:13
Alignment explanation
Indices: 860867--860892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
860857 CAATTTTTTG
860867 TGTATCGATACAT
1 TGTATCGATACAT
860880 TGTATCGATACAT
1 TGTATCGATACAT
860893 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:861650 original size:13 final size:13
Alignment explanation
Indices: 861632--861658 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
861622 ACATGCTGCC
861632 TTGTATCGATACA
1 TTGTATCGATACA
861645 TTGTATCGATACA
1 TTGTATCGATACA
861658 T
1 T
861659 GGACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:861746 original size:13 final size:13
Alignment explanation
Indices: 861725--861755 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
861715 CGATACATGG
*
861725 TACAATGTATCGA
1 TACATTGTATCGA
861738 TACATTGTATCGA
1 TACATTGTATCGA
861751 TACAT
1 TACAT
861756 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:861751 original size:33 final size:32
Alignment explanation
Indices: 861709--861775 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
861699 CTATCACTAT
861709 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
861742 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
861775 T
1 T
861776 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:869748 original size:29 final size:29
Alignment explanation
Indices: 869715--869803 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
869705 GGGGGAGAAG
869715 TATGTGAAAATAAATTTTTACATAATTTT
1 TATGTGAAAATAAATTTTTACATAATTTT
869744 TATGTGAAAATAAATTTTTACATAATTTT
1 TATGTGAAAATAAATTTTTACATAATTTT
869773 TATGTGAAAATAAATTTTTACATAATTTT
1 TATGTGAAAATAAATTTTTACATAATTTT
869802 TA
1 TA
869804 CATAAGGGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TATGTGAAAATAAATTTTTACATAATTTT
Found at i:869847 original size:19 final size:20
Alignment explanation
Indices: 869806--869862 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
869796 AATTTTTACA
* *
869806 TAAGGGGGAGAAGATAACTGTT
1 TAAGGGGGAGAATAT-TC-GTT
869828 TAAGGGGGAG-ATATTCGTT
1 TAAGGGGGAGAATATTCGTT
869847 TAAGGGGGAGAATATT
1 TAAGGGGGAGAATATT
869863 TTTTAAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.41
20 6 0.19
21 3 0.09
22 10 0.31
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.26
Consensus pattern (20 bp):
TAAGGGGGAGAATATTCGTT
Found at i:870429 original size:13 final size:13
Alignment explanation
Indices: 870411--870436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
870401 CATGCTGCCC
870411 TGTATCGATACAT
1 TGTATCGATACAT
870424 TGTATCGATACAT
1 TGTATCGATACAT
870437 GTTCAATGTA
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:870433 original size:33 final size:32
Alignment explanation
Indices: 870391--870455 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
870381 CACACCCAGA
**
870391 TGTATCGATACATGCTGCCCTGTATCGATACAT
1 TGTATCGATACATG-TGCAATGTATCGATACAT
*
870424 TGTATCGATACATGTTCAATGTATCGATACAT
1 TGTATCGATACATGTGCAATGTATCGATACAT
870456 GGACAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATGTGCAATGTATCGATACAT
Found at i:870448 original size:19 final size:21
Alignment explanation
Indices: 870422--870477 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
870412 GTATCGATAC
**
870422 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
870442 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
870462 ATTGTATCGATACATG
1 ATTGTATCGATACATG
870478 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:870543 original size:13 final size:13
Alignment explanation
Indices: 870522--870552 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
870512 CGATACATGG
*
870522 TACAATGTATCGA
1 TACATTGTATCGA
870535 TACATTGTATCGA
1 TACATTGTATCGA
870548 TACAT
1 TACAT
870553 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:870548 original size:33 final size:32
Alignment explanation
Indices: 870506--870569 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
870496 CTATCACTAT
870506 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
870539 TTGTATCGATACATGAAGAAATGTATCGATA
1 TTGTATCGATACATG-AGAAATGTATCGATA
870570 AATAGCTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:873627 original size:27 final size:27
Alignment explanation
Indices: 873589--873657 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
873579 TTAAAAACAG
873589 GGTTGGAGTATCCTCTTAGAGGAATGA
1 GGTTGGAGTATCCTCTTAGAGGAATGA
873616 GGTTGGAGTATCCTCTTAGAGGAATGA
1 GGTTGGAGTATCCTCTTAGAGGAATGA
873643 GGTTGGAGTATCCTC
1 GGTTGGAGTATCCTC
873658 GATGAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.30
Consensus pattern (27 bp):
GGTTGGAGTATCCTCTTAGAGGAATGA
Found at i:880857 original size:13 final size:12
Alignment explanation
Indices: 880833--880876 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
880823 GTAAAAACAC
*
880833 AAAAAAAGCAAA
1 AAAAAAAACAAA
880845 AAACAAAAACAAA
1 AAA-AAAAACAAA
*
880858 AAAAACACACAAA
1 AAAAA-AAACAAA
880871 AAAAAA
1 AAAAAA
880877 GTACAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:880871 original size:24 final size:23
Alignment explanation
Indices: 880811--880876 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
880801 AAAAATGATG
**
880811 AAAAAGTCAAAAGTAAAAACACAA
1 AAAAAG-CAAAAAAAAAAACACAA
880835 AAAAAGCAAAAAACAAAAACA-AA
1 AAAAAGCAAAAAA-AAAAACACAA
880858 AAAAA-CACACAAAAAAAAA
1 AAAAAGCA-A-AAAAAAAAA
880877 GTACAAAGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 18 0.49
24 17 0.46
ACGTcount: A:0.79, C:0.14, G:0.05, T:0.03
Consensus pattern (23 bp):
AAAAAGCAAAAAAAAAAACACAA
Found at i:880883 original size:13 final size:11
Alignment explanation
Indices: 880825--880876 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 11
880815 AGTCAAAAGT
*
880825 AAAAACACAAA
1 AAAAACAAAAA
*
880836 AAAAGCAAAAAA
1 AAAAAC-AAAAA
880848 CAAAAACAAAAA
1 -AAAAACAAAAA
880860 AAACACACAAAAA
1 AAA-A-ACAAAAA
880873 AAAA
1 AAAA
880877 GTACAAAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 8 0.24
12 11 0.32
13 15 0.44
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:882286 original size:27 final size:27
Alignment explanation
Indices: 882215--882808 Score: 207
Period size: 27 Copynumber: 19.2 Consensus size: 27
882205 GCATCTTTTT
*
882215 CCTTTTAAGTCCACAACTCCGTGACATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
882243 TTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
882275 CCTTTTAAGTCCACAACTCCGTGGCATATTTTT
1 CCTTTTAAGTCCACAACTCCGTGGC--A----C
* *
882308 CCTTTTAAGTCCACAACTCTGCGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
882337 TTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
882369 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
882396 CCTTTTAAATCCACAACTCCATGACATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
* *
882424 ATTTTCTTTTTAAGTCCACAACCCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
882456 CCTTTTAAGTCCACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
**
882484 TTTTTCCTTTTAAGTCCACAACTCTATGGCACTC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA--C
* *
882518 TTTTTCCTTTTAAGTCCACAACTCCATGGTAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
882550 CCTTTTTAGTCCACAACTCCATGACATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
** **
882578 CTTTTCTTTCTAAGTCCATGACTTTGTGGCACCCTTTTC
1 C----CTTT-TAAGTCCACAACTCCGTGGCA-------C
882617 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
882644 ATTTTCTTTTTAAGTCCACGACTTCGTGGCATCCTTTTC
1 -----CCTTTTAAGTCCACAACTCCGTGGCA-------C
* *
882683 CCTTTTAAAGCCCACAACTTCGTGGCATCTTTTC
1 CCTTTT-AAGTCCACAACTCCGTGGCA------C
* *
882717 CCTTTTAAGTCCTCAATTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
882744 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
**
882771 CTTTTCTTTTTAAGTCCATGACTCCGTGGCAC
1 C----C-TTTTAAGTCCACAACTCCGTGGCAC
882803 CCTTTT
1 CCTTTT
882809 CCCTTCTAAG
Statistics
Matches: 452, Mismatches: 55, Indels: 114
0.73 0.09 0.18
Matches are distributed among these distances:
27 150 0.33
28 5 0.01
29 2 0.00
31 2 0.00
32 54 0.12
33 123 0.27
34 90 0.20
35 22 0.05
39 4 0.01
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.36
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:882293 original size:60 final size:60
Alignment explanation
Indices: 882215--882505 Score: 351
Period size: 60 Copynumber: 4.8 Consensus size: 60
882205 GCATCTTTTT
*
882215 CCTTTTAAGTCCACAACTCCGTGACATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
* * * *
882275 CCTTTTAAGTCCACAACTCCGTGGCATATTTTTCCTTTTAAGTCCACAACTCTGCGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCA--C
* * *
882337 TTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACTCCATGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
* * * * *
882396 CCTTTTAAATCCACAACTCCATGACATCATTTTCTTTTTAAGTCCACAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
*
882456 CCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAAC
882506 TCTATGGCAC
Statistics
Matches: 197, Mismatches: 21, Indels: 26
0.81 0.09 0.11
Matches are distributed among these distances:
54 22 0.11
55 1 0.01
59 1 0.01
60 124 0.63
61 23 0.12
62 1 0.01
67 25 0.13
ACGTcount: A:0.23, C:0.33, G:0.11, T:0.33
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCAC
Found at i:882346 original size:34 final size:33
Alignment explanation
Indices: 882157--882874 Score: 466
Period size: 33 Copynumber: 22.8 Consensus size: 33
882147 CTCTCTTTTC
*
882157 TAAGTCCACAACTCAGTGGCATCTCTTTT-C---
1 TAAGTCCACAACTCTGTGGCATCT-TTTTCCTTT
* *
882187 TAAGTCCACGACTCAGTGGCATCTTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882220 TAAGTCCACAACTCCGTGACATCTTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882253 TAAGTCCACAACCCCGTGGCA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882280 TAAGTCCACAACTCCGTGGCATATTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
*
882313 TAAGTCCACAACTCTGCGGCACTCTTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCA-TCTTTTTCCTTT
882347 TAAGTCCACAACTCTGTGGCA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
**
882374 TAAGTCCACAACTCCATGGCA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* ** * * *
882401 TAAATCCACAACTCCATGACATCATTTTCTTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882434 TAAGTCCACAACCCCGTGGCA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
**
882461 TAAGTCCACAACTCCATGGCATCTTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
*
882494 TAAGTCCACAACTCTATGGCACTCTTTTTCCTTT
1 TAAGTCCACAACTCTGTGGCA-TCTTTTTCCTTT
** *
882528 TAAGTCCACAACTCCATGGTA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* ** * *
882555 TTAGTCCACAACTCCATGACATCCTTTT-CTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
** * * *
882587 CTAAGTCCATGACTTTGTGGCACCCTTTTCCCTTT
1 -TAAGTCCACAACTCTGTGGCA-TCTTTTTCCTTT
* * *
882622 TAAGTCCACAACTCCGTGGCA-CATTTTCTTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882654 TAAGTCCACGACT-TCGTGGCATCCTTTTCCCTTT
1 TAAGTCCACAACTCT-GTGGCAT-CTTTTTCCTTT
* *
882688 TAAAGCCCACAACT-TCGTGGCATCTTTTCCCTTT
1 T-AAGTCCACAACTCT-GTGGCATCTTTTTCCTTT
* * *
882722 TAAGTCCTCAATTCCGTGGCA-C-----CCTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
* *
882749 TAAGTCCACAACTCTGTGGCA-CCTTTTCTTTT
1 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
** * * * *
882781 TAAGTCCATGACTCCGTGGCACCCTTTTCCCTTC
1 TAAGTCCACAACTCTGTGGCA-TCTTTTTCCTTT
* * * * *
882815 TAAGCCCATACCTCTATGGCATCCCTTTTTCC-TA
1 TAAGTCCACAACTCTGTGGCAT--CTTTTTCCTTT
*
882849 TAAGTCCACAACTCTGTGGCACCTTT
1 TAAGTCCACAACTCTGTGGCATCTTT
882875 AAGTCCAATA
Statistics
Matches: 559, Mismatches: 82, Indels: 92
0.76 0.11 0.13
Matches are distributed among these distances:
27 144 0.26
28 3 0.01
29 4 0.01
30 24 0.04
32 61 0.11
33 148 0.26
34 145 0.26
35 30 0.05
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
Found at i:882377 original size:94 final size:94
Alignment explanation
Indices: 882157--882818 Score: 700
Period size: 94 Copynumber: 7.0 Consensus size: 94
882147 CTCTCTTTTC
* * * *
882157 TAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTTCCTTTTA
1 TAAGTCCACAACTCCGTGGCA-C-CCTTT-TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTA
* *
882222 AGTCCACAACTCCGTGACA-TCTTTTTCCTTT
63 AGTCCACAACTCTGTGGCACTCTTTTTCCTTT
* *
882253 TAAGTCCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATATTTTTCCTTTTAAGT
1 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
*
882318 CCACAACTCTGCGGCACTCTTTTTCCTTT
66 CCACAACTCTGTGGCACTCTTTTTCCTTT
* * *
882347 TAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCA-C-----CCTTTTAAAT
1 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
** * * *
882406 CCACAACTCCATGACA-TCATTTTCTTTT
66 CCACAACTCTGTGGCACTCTTTTTCCTTT
* *
882434 TAAGTCCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGT
1 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
*
882499 CCACAACTCTATGGCACTCTTTTTCCTTT
66 CCACAACTCTGTGGCACTCTTTTTCCTTT
* * * * * *
882528 TAAGTCCACAACTCCATGGTACCCTTTTTAGTCCACAACTCCATGACATCCTTTT-CTTTCTAAG
1 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTT-TAAG
** * * *
882592 TCCATGACTTTGTGGCACCCTTTTCCCTTT
65 TCCACAACTCTGTGGCACTCTTTTTCCTTT
* * * *
882622 TAAGTCCACAACTCCGTGGCACATTTTCTTTTTAAGTCCACGACTTCGTGGCATCCTTTTCCCTT
1 TAAGTCCACAACTCCGTGGCAC-----CCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTTCCTT
* *
882687 TTAAAGCCCACAACT-TCGTGGCA-TCTTTTCCCTTT
60 TT-AAGTCCACAACTCT-GTGGCACTCTTTTTCCTTT
* * * * *
882722 TAAGTCCTCAATTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTCTTTTTAAGT
1 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
** * * * *
882786 CCATGACTCCGTGGCACCCTTTTCCCTTC
66 CCACAACTCTGTGGCACTCTTTTTCCTTT
882815 TAAG
1 TAAG
882819 CCCATACCTC
Statistics
Matches: 478, Mismatches: 68, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
87 56 0.12
88 22 0.05
92 15 0.03
93 98 0.21
94 168 0.35
95 23 0.05
96 19 0.04
99 21 0.04
100 37 0.08
101 19 0.04
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (94 bp):
TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
CCACAACTCTGTGGCACTCTTTTTCCTTT
Found at i:882439 original size:154 final size:152
Alignment explanation
Indices: 882277--882681 Score: 473
Period size: 154 Copynumber: 2.6 Consensus size: 152
882267 CGTGGCACCC
* * *
882277 TTTTAAGTCCACAACTCCGTGGCATATTTTTCCTTTTAAGTCCACAACTCTGCGGCACTCTTTTT
1 TTTTAAGTCCACAACTCCGTGGCA-ATTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
882342 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATC
64 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATC
882407 CACAACTCCATGACATCATTTTCT
129 CACAACTCCATGACATCATTTTCT
* *
882431 TTTTAAGTCCACAACCCCGTGGC-A----CCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCAATTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
* *
882491 TTTTAAGTCCACAACTCTATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGTACCCTTTT
66 TTTTAAGTCCACAACTCTGTGGCA--C-----CCTTTTAAGTCCACAACTCCATGGCACCCTTTT
* * *
882556 TAGTCCACAACTCCATGACATCCTTTTCT
124 AAATCCACAACTCCATGACATCATTTTCT
* ** ** * *
882585 TTCTAAGTCCATGACTTTGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-CATTTT
1 TTTTAAGTCCACAACTCCGTGGCA--ATTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
882649 CTTTTTAAGTCCACGACT-TCGTGGCATCCTTTT
64 CCTTTTAAGTCCACAACTCT-GTGGCACCCTTTT
882682 CCCTTTTAAA
Statistics
Matches: 213, Mismatches: 23, Indels: 31
0.80 0.09 0.12
Matches are distributed among these distances:
147 32 0.15
148 23 0.11
149 1 0.00
152 1 0.00
153 6 0.03
154 97 0.46
159 1 0.00
160 26 0.12
161 26 0.12
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.36
Consensus pattern (152 bp):
TTTTAAGTCCACAACTCCGTGGCAATTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATCCA
CAACTCCATGACATCATTTTCT
Found at i:882514 original size:60 final size:60
Alignment explanation
Indices: 882369--882521 Score: 234
Period size: 60 Copynumber: 2.5 Consensus size: 60
882359 TCTGTGGCAC
882369 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATCCACAACTCCATGACATCATTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATCCACAACTCCATGACATCATTTT
* * * * * *
882429 CTTTTTAAGTCCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATCCACAACTCCATGACATCATTTT
* *
882489 CCTTTTAAGTCCACAACTCTATGGCACTCTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCCTTTT
882522 TCCTTTTAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 82 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.34
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAATCCACAACTCCATGACATCATTTT
Found at i:882519 original size:181 final size:181
Alignment explanation
Indices: 882215--882775 Score: 687
Period size: 181 Copynumber: 3.0 Consensus size: 181
882205 GCATCTTTTT
*
882215 CCTTTTAAGTCCACAACTCCGTGACATCTTTTTCCTTTTAAGTCCACAACCCCGTGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGACATCATTTTCCTTTTAAGTCCACAACCCCGTGGCACCCTTT
* *
882280 TAAGTCCACAACTCCGTGGCATATTTTTCCTTTTAAGTCCACAACTCTGCGGCACTCTTTTTCCT
66 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
*
882345 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCAC
131 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCAC
* * *
882396 CCTTTTAAATCCACAACTCCATGACATCATTTTCTTTTTAAGTCCACAACCCCGTGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGACATCATTTTCCTTTTAAGTCCACAACCCCGTGGCACCCTTT
* *
882461 TAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACTCTTTTTCCT
66 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
* * * *
882526 TTTAAGTCCACAACTCCATGGTACCCTTTTTAGTCCACAACTCCATGACATC
131 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCA-C
** ** * * * *
882578 CTTTTCTTTCTAAGTCCATGACTTTGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 C----CTTT-TAAGTCCACAACTCCGTGACATCATTTT-CCTTTTAAGTCCACAACCCCGTGGCA
* * * * *
882643 CATTTTCTTTTTAAGTCCACGACTTCGTGGCATCCTTTTCCCTTTTAAAGCCCACAACT-TCGTG
60 C-----CCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTTCCTTTT-AAGTCCACAACTCT-GTG
* * * **
882707 GCA-TCTTTTCCCTTTTAAGTCCTCAATTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA-
117 GCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCAC
882770 CCTTTT
1 CCTTTT
882776 CTTTTTAAGT
Statistics
Matches: 325, Mismatches: 40, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
181 167 0.51
182 2 0.01
186 4 0.01
187 20 0.06
188 29 0.09
192 1 0.00
193 23 0.07
194 63 0.19
195 16 0.05
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.35
Consensus pattern (181 bp):
CCTTTTAAGTCCACAACTCCGTGACATCATTTTCCTTTTAAGTCCACAACCCCGTGGCACCCTTT
TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCAC
Found at i:882853 original size:127 final size:127
Alignment explanation
Indices: 882616--882881 Score: 344
Period size: 127 Copynumber: 2.1 Consensus size: 127
882606 GCACCCTTTT
* *
882616 CCCTTTTAAGTCCACAACTCCGTGGCACATTTTCTTTTTAAGTCCACGACTTCGTGGCATCCTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACATTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTT
* * * * *
882681 TCCCTTTTAAAGCCCACAACTTCGTGGCATCTTTTCCCTTTTAAGTCCTCAATTCCGTGGCA
66 TCCCTTCTAAAGCCCACAACTTCATGGCATCTTTTCCCTTATAAGTCCACAACTCCGTGGCA
* * *
882743 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCATGACTCCGTGGCACCCTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACATTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTT
* * * *
882808 TCCCTTCT-AAGCCCA-TACCTCTATGGCATCCCTTTTTCC-TATAAGTCCACAACTCTGTGGCA
66 TCCCTTCTAAAGCCCACAACTTC-ATGGCAT--CTTTTCCCTTATAAGTCCACAACTCCGTGGCA
882870 -CC-TTTAAGTCCA
1 CCCTTTTAAGTCCA
882882 ATATCGCAGA
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
125 14 0.11
126 15 0.12
127 86 0.70
128 7 0.06
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (127 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACATTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTT
TCCCTTCTAAAGCCCACAACTTCATGGCATCTTTTCCCTTATAAGTCCACAACTCCGTGGCA
Found at i:883007 original size:48 final size:48
Alignment explanation
Indices: 882871--883679 Score: 517
Period size: 39 Copynumber: 17.9 Consensus size: 48
882861 TCTGTGGCAC
* * * **
882871 CTTTAAGTCCAATATCGCAGACCTTGAATCAGCATGTTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTAT
* * * * *
882920 CTTTAAGACCAATGTCGCTAGCCTTGAACCAGCACATTGGCATCTCCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT-TAT
* * * * *
882969 C-TTGAGTCCAATATCGTTGGCCTTGAATCAGTATATTGGCACCTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
*
883016 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * * *
883058 C---AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * * *
883103 -TTCTAAGACCAATGTTGTTGGCCTTGAATCAGCATATT-G-A-C--A-
1 CTT-TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * * *
883145 C---AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * * **
883190 -TTCCAAGACTAATGTCGCTGGCCTTGTCTCAGCACATTGG---C--A-
1 CTT-TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * * *
883232 C---AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * *
883277 CTCTAAGACCAATGTCGCTGGCCTTGAATCACCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
*
883319 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* *
883358 ---TAAGCCCAATATCGCTAGCCTTGAATCAGCACATTGG---C--A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * *
883397 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTAT
* * * * * * *
883443 CTTTAAAACCAATGTCACTAGCCTTGAATTAGCACATTAGCATCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTAT
* * * * *
883492 CTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC-CTTAT
* *
883541 CTTTAGGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-AT
* * * * * *
883590 TTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
* * **
883638 CTCTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCA
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
883680 TAAGCCCAAT
Statistics
Matches: 600, Mismatches: 114, Indels: 93
0.74 0.14 0.12
Matches are distributed among these distances:
39 199 0.33
40 1 0.00
41 1 0.00
42 5 0.01
43 1 0.00
45 6 0.01
46 1 0.00
47 4 0.01
48 194 0.32
49 187 0.31
50 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTAT
Found at i:883079 original size:39 final size:39
Alignment explanation
Indices: 883024--883796 Score: 358
Period size: 39 Copynumber: 17.9 Consensus size: 39
883014 ATCTTTAAGA
*
883024 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
883063 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTTTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGC
* * * * *
883111 CCAATGTTGTTGGCCTTGAATCAGCATATTGACACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
883150 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTTTCCAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------CAAGC
* * **
883198 CTAATGTCGCTGGCCTTGTCTCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
883237 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGC
* * *
883285 CCAATGTCGCTGGCCTTGAATCACCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
*
883324 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* *
883363 CCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* **
883402 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCACATT-G----G-CA-C---AAGC
* * * * * *
883451 CCAATGTCACTAGCCTTGAATTAGCACATTAGCATCTTTATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATT-G--GC---A-C---AAGC
* * * *
883500 CCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAGGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCAC----A-----A-GC
* *
883549 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C------AAGC
* * *
883598 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGC
* ** *
883646 CCAATGTCATTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
** * *
883685 CCAATATCTTTGGCCTTGAATCACCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
** * *
883724 CCAATATCATTGGCCTTGAATCAGTACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
*
883763 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
883797 TCTTTATCTT
Statistics
Matches: 585, Mismatches: 92, Indels: 114
0.74 0.12 0.14
Matches are distributed among these distances:
39 306 0.52
40 2 0.00
42 1 0.00
43 5 0.01
44 1 0.00
45 2 0.00
46 2 0.00
47 3 0.01
48 132 0.23
49 122 0.21
50 1 0.00
53 3 0.01
55 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:883125 original size:87 final size:86
Alignment explanation
Indices: 882976--883847 Score: 839
Period size: 87 Copynumber: 10.0 Consensus size: 86
882966 CATCTTGAGT
* *
882976 CCAATATCGTTGGCCTTGAATCAGTATATTGGCACCTTATCTT-TAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-T-TTCTAAGACCAATGTCGCTGGCCT
883040 TGAATCAGCACATTGGCACAAGC
64 TGAATCAGCACATTGGCACAAGC
* * *
883063 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTTTCTAAGACCAATGTTGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTTCTAAGACCAATGTCGCTGGCCTT
* *
883128 GAATCAGCATATTGACACAAGC
65 GAATCAGCACATTGGCACAAGC
* * *
883150 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTTTCCAAGACTAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTTCTAAGACCAATGTCGCTGGCCTT
**
883215 GTCTCAGCACATTGGCACAAGC
65 GAATCAGCACATTGGCACAAGC
* *
883237 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTTCTAAGACCAATGTCGCTGGCCTT
* *
883302 GAATCACCACATTGGCATAAGC
65 GAATCAGCACATTGGCACAAGC
* * * *
883324 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------TAAGCCCAATATCGCTAGCCTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTAAGACCAATGTCGCTGGCCTTG
*
883381 AATCAGCACATTGGCATAAGC
66 AATCAGCACATTGGCACAAGC
* * * *
883402 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTT-TAAAACCAATGTCACTAGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TTTTCTAAGACCAATGTCGCTGGCC
* * *
883466 TTGAATTAGCACATTAGCATCTTTATCTTTAAGT
63 TTGAATCAGCACATT-G--GC---A-C---AAGC
* * *
883500 CCGATATCGTTGGCCTTGAATCAGCATATTGGCA-CTTTTATCTTTAGGACCAATGTCGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT-TC--TAAGACCAATGTCGCTGGCC
*
883564 TTGAATCAGCACATTGGCACCTTCATTTTTAAGT
63 TTGAATCAGCACATTGGCA----C------AAGC
* **
883598 CTAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTCTAAGACCAATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-T-TCTAAGACCAATGTCGCTGGCCT
*
883662 TGAATCAGCACATTGGCATAAGC
64 TGAATCAGCACATTGGCACAAGC
** * * * * **
883685 CCAATATCTTTGGCCTTGAATCACCACATTGGCA--------TAAGCCCAATATCATTGGCCTTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTAAGACCAATGTCGCTGGCCTTG
* *
883742 AATCAGTACATTGGCATAAGC
66 AATCAGCACATTGGCACAAGC
* * *
883763 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-T-TCTAAGACCAATGTCGCTGGCCT
*
883828 TGAATTAGCACATTGGCACA
64 TGAATCAGCACATTGGCACA
883848 TTCATCTTTA
Statistics
Matches: 665, Mismatches: 78, Indels: 83
0.81 0.09 0.10
Matches are distributed among these distances:
78 144 0.22
86 2 0.00
87 295 0.44
88 65 0.10
89 1 0.00
91 1 0.00
92 1 0.00
94 3 0.00
95 4 0.01
96 1 0.00
97 38 0.06
98 107 0.16
99 3 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (86 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTAAGACCAATGTCGCTGGCCTTG
AATCAGCACATTGGCACAAGC
Found at i:883263 original size:126 final size:119
Alignment explanation
Indices: 883121--883437 Score: 323
Period size: 126 Copynumber: 2.5 Consensus size: 119
883111 CCAATGTTGT
883121 TGGCCTTGAATCAGCATATTGACACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC
1 TGGCCTTGAATCAGCATATTGACACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC
* * **
883186 TTGTTTCCAAGACTAATGTCGCTGGCCTTGTCTCAGCACATTGGCACAAGCCCAATATCAC
66 -----T--AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCAC
* * * * *
883247 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCACCAC
1 TGGCCTTGAATCAGCATATT-G-A------CAC-AAGCCCAATATCGCTGGCCTTGAATCAACAT
* * *
883312 ATTGGCA--TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
57 ATTGGCACCTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCAC
* * * * *
883373 TAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TGGCCTTGAATCAGCATATTGACACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC
883438 GTCATCTTTA
Statistics
Matches: 159, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
117 34 0.21
118 1 0.01
125 1 0.01
126 84 0.53
127 1 0.01
128 2 0.01
134 2 0.01
135 34 0.21
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (119 bp):
TGGCCTTGAATCAGCATATTGACACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCAC
Found at i:883575 original size:98 final size:97
Alignment explanation
Indices: 883397--883680 Score: 388
Period size: 98 Copynumber: 2.9 Consensus size: 97
883387 CACATTGGCA
* * * *
883397 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAAACCAATGTCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGACCAATGTCACT
* * * *
883462 AGCCTTGAATTAGCACATTAGCATCTTTATCTT
65 GGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
883495 TAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAGGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTATCTTTAAGACCAATGTCACT
* *
883560 GGCCTTGAATCAGCACATTGGCACCTTCATTTT
65 GGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
883593 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCACTG
883658 GCCTTGAATCAGCACATTGGCAT
66 GCCTTGAATCAGCACATTGGCAT
883681 AAGCCCAATA
Statistics
Matches: 162, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
97 43 0.27
98 119 0.73
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (97 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCACTG
GCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:883642 original size:361 final size:354
Alignment explanation
Indices: 882872--883990 Score: 1277
Period size: 361 Copynumber: 3.1 Consensus size: 354
882862 CTGTGGCACC
* * * * *
882872 TTTAAGTCCAATATCGCAGACCTTGAATCAGCATGTTGGCACCTTTATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTCTAAGACCAATGTCG
* * * *
882937 CTAGCCTTGAACCAGCACATTGGCATCTCCATCTTGAGTCCAATATCGTTGGCCTTGAATCAGTA
65 CTGGCCTTGAATCAGCACATTGGCA--T--A-----AGCCCAATATCGTTGGCCTTGAATCAGCA
* * * *
883002 TATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAA
121 CATTGG---C--A----TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAA
* * ***
883067 TATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT-TTCTAAGACCAATGTTGTTGGCCTTGAA
177 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT-TAAGACCAATGTCACTGGCCTTGAA
* * * * * *
883131 TCAGCATATTG-AC--A-C---AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTG
241 TTAGCACATTGCACTTATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA-CTT-
* *
883189 TT-TC--CAAGACTAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--C--
304 TTATCTTTAAGACCAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTT
* * *
883233 ---AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCGC
* *
883295 TGGCCTTGAATCACCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATA
66 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGGCATA
*
883360 AGCCCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCA
131 AGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCA
* * *
883425 GCATATTGGCACCGTCATCTTTAAAACCAATGTCACTAGCCTTGAATTAGCACATTAGCATCTTT
196 GCATATTGGCACC-TTATCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATT-GCA-C-TT
*
883490 ATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAGGACCAATG
257 ATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATG
**
883555 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATT
322 TCGCTGGCCTTGTCTCAGCACATTGGCA--TTC-TT
* **
883591 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCGC
* *
883656 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCTTTGGCCTTGAATCACCACATTGGCATA
66 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGGCATA
** *
883721 AGCCCAATATCATTGGCCTTGAATCAGTACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCA
131 AGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCA
*
883786 GCATATTGGCATCTTTATCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCACATTC
196 GCATATTGGCA-CCTTATCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATT-GCAC-TT-
* *
883851 ATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA-TCTTTAACATTCCTAAGCCC
257 ATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACT-TTTATC-TT--TAAGACC
*
883915 AATGTCGTTGGCCTTGTCTCAGCACATTGGCATTCTT
318 AATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTT
* * * *
883952 CTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTG
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
883991 TCATTCTTCG
Statistics
Matches: 659, Mismatches: 67, Indels: 63
0.84 0.08 0.08
Matches are distributed among these distances:
339 75 0.11
340 30 0.05
341 3 0.00
342 1 0.00
343 2 0.00
345 1 0.00
346 1 0.00
347 1 0.00
348 33 0.05
349 5 0.01
350 34 0.05
351 34 0.05
353 1 0.00
355 2 0.00
357 42 0.06
358 33 0.05
360 4 0.01
361 282 0.43
362 41 0.06
364 34 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (354 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGGCATA
AGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCA
GCATATTGGCACCTTATCTTTAAGACCAATGTCACTGGCCTTGAATTAGCACATTGCACTTATCT
TTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGC
TGGCCTTGTCTCAGCACATTGGCATTCTT
Found at i:883843 original size:49 final size:49
Alignment explanation
Indices: 883758--883990 Score: 238
Period size: 49 Copynumber: 4.7 Consensus size: 49
883748 TACATTGGCA
* *
883758 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTATCTT
* * * *
883807 TAAGACCAATGTCACTGGCCTTGAATTAGCACATTGGCA-CATTCATCTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TTTATCTT
* * * * * *
883856 TAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTATC-TT
* ** *
883906 CCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCAT-TCT-TCTT
1 --TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTATCTT
* * *
883955 CAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTG
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG
883991 TCATTCTTCG
Statistics
Matches: 150, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 30 0.20
48 1 0.01
49 79 0.53
50 4 0.03
51 2 0.01
52 34 0.23
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTATCTT
Found at i:895520 original size:14 final size:14
Alignment explanation
Indices: 895473--895521 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
895463 AAGGTTTAGG
895473 GTTTAGGATTTTAAA
1 GTTTAGGA-TTTAAA
* **
895488 GTTTTAGGACTTAGG
1 G-TTTAGGATTTAAA
895503 GTTTAGGATTTAAA
1 GTTTAGGATTTAAA
895517 GTTTA
1 GTTTA
895522 ATATTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 15 0.56
15 5 0.19
16 7 0.26
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (14 bp):
GTTTAGGATTTAAA
Found at i:895963 original size:152 final size:150
Alignment explanation
Indices: 895706--896133 Score: 429
Period size: 152 Copynumber: 2.8 Consensus size: 150
895696 AACCTCTATG
* * * * *
895706 TAAAAG-AGATCCAGTGATAACTTAAGACTCAGTTTTAGGAAAACTATTAAAATGCCCCTAA-GA
1 TAAAAGCAGATCCAGTGATAACCTAAGACTCAGTTCTAAGAAAATTATT-AAATACCCCTAAGGA
* * * * *
895769 GATACCTTTGACGTAAAAATATCCCAATAACCCTAAAGGACTTAAAAATGAAAAAGATGAACCTA
65 GATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAGGACTTAAAAA-GAAAAAGATGAACCTA
895834 TCCTAAACATACA-CCTTCGGCA
129 TCCTAAACATACACCCTT-GGCA
* * * *
895856 TAAAGGCAGATCCGGTGATAACCTAAGACTCGGTTCTAAAAAAATTACTTAAATACCCCTAAGGA
1 TAAAAGCAGATCCAGTGATAACCTAAGACTCAGTTCTAAGAAAATTA-TTAAATACCCCTAAGGA
* * *
895921 GATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAAGACTTAAAAAGGTAAAGGAATGAACCT
65 GATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAGGACTTAAAAA-GAAAAAG-ATGAACCT
** *
895986 ATCCTAAATGTAGACCCTTGGCA
128 ATCCTAAACATACACCCTTGGCA
* * * * * * * *
896009 TAAAAGCGGA-CTCAATGATGACCTAAGACACAATTCT-AGAAAATTATGAAAATACCCATATGG
1 TAAAAGCAGATC-CAGTGATAACCTAAGACTCAGTTCTAAGAAAATTAT-TAAATACCCCTAAGG
* *
896072 -GTATACCTTCGACTTTAAAGTATCTC-GATAACCCTAAAGGACTTAAAAAGATAAAAGGATGA
64 AG-ATACCTTCGACATAAAAGTATCTCAG-TAACCCTAAAGGACTTAAAAAGA-AAAA-GATGA
896134 TTTTACCTTA
Statistics
Matches: 229, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
150 5 0.02
151 48 0.21
152 121 0.53
153 51 0.22
154 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (150 bp):
TAAAAGCAGATCCAGTGATAACCTAAGACTCAGTTCTAAGAAAATTATTAAATACCCCTAAGGAG
ATACCTTCGACATAAAAGTATCTCAGTAACCCTAAAGGACTTAAAAAGAAAAAGATGAACCTATC
CTAAACATACACCCTTGGCA
Found at i:901021 original size:17 final size:18
Alignment explanation
Indices: 900999--901032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
900989 TTATAAACAT
*
900999 AAAGTCA-AAATACAAGG
1 AAAGTCACAAAGACAAGG
901016 AAAGTCACAAAGACAAG
1 AAAGTCACAAAGACAAG
901033 TAAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.15, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAGTCACAAAGACAAGG
Found at i:908947 original size:20 final size:20
Alignment explanation
Indices: 908922--908976 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
908912 CTACCAGTTT
**
908922 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
908942 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
908961 CATGTATCGATACAAT
1 CATGTATCGATACAAT
908977 ATATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:910146 original size:20 final size:20
Alignment explanation
Indices: 910121--910174 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
910111 GTTACAAGTA
* *
910121 ATGTATCGATACTAT-TCATC
1 ATGTATCGATACAATGT-ACC
910141 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
910161 ATGTATCGATACAA
1 ATGTATCGATACAA
910175 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:910247 original size:19 final size:20
Alignment explanation
Indices: 910203--910253 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
910193 CTGTCAGTTT
***
910203 CATGTATCGATATAATTGTC
1 CATGTATCGATATAATTAAA
910223 CATGTATCGATATAA-TAAA
1 CATGTATCGATATAATTAAA
910242 CATGTATCGATA
1 CATGTATCGATA
910254 CAATGTATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATATAATTAAA
Found at i:910261 original size:13 final size:13
Alignment explanation
Indices: 910243--910269 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
910233 TATAATAAAC
910243 ATGTATCGATACA
1 ATGTATCGATACA
910256 ATGTATCGATACA
1 ATGTATCGATACA
910269 A
1 A
910270 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:910895 original size:21 final size:22
Alignment explanation
Indices: 910869--910909 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
910859 AGATAAACAT
910869 ATTTCT-CCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
910890 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
910910 TCTTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:912793 original size:13 final size:13
Alignment explanation
Indices: 912775--912900 Score: 72
Period size: 13 Copynumber: 11.1 Consensus size: 13
912765 ATAGTAACCC
912775 ATGTATCGATACA
1 ATGTATCGATACA
912788 ATGTATCGATACA
1 ATGTATCGATACA
* *
912801 AAGAAT-G-T---
1 ATGTATCGATACA
912809 -TGTATCGATACA
1 ATGTATCGATACA
912821 ATGTATCGATACA
1 ATGTATCGATACA
* *
912834 AAGAAT-G-T---
1 ATGTATCGATACA
912842 -TGTATCGATACA
1 ATGTATCGATACA
912854 ATGTATCGATACA
1 ATGTATCGATACA
* *
912867 AAGAAT-G-T---
1 ATGTATCGATACA
912875 -TGTATCGATACA
1 ATGTATCGATACA
912887 ATGTATCGATACA
1 ATGTATCGATACA
912900 A
1 A
912901 AGAATGTTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 36
0.63 0.09 0.27
Matches are distributed among these distances:
7 9 0.11
8 3 0.04
9 3 0.04
11 3 0.04
12 3 0.04
13 62 0.75
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912814 original size:20 final size:20
Alignment explanation
Indices: 912789--912917 Score: 111
Period size: 20 Copynumber: 7.5 Consensus size: 20
912779 ATCGATACAA
912789 TGTATCGATACAAAGAATGT
1 TGTATCGATACAAAGAATGT
912809 TGTATCGATAC----AA---
1 TGTATCGATACAAAGAATGT
912822 TGTATCGATACAAAGAATGT
1 TGTATCGATACAAAGAATGT
912842 TGTATCGATAC----AA---
1 TGTATCGATACAAAGAATGT
912855 TGTATCGATACAAAGAATGT
1 TGTATCGATACAAAGAATGT
912875 TGTATCGATAC----AA---
1 TGTATCGATACAAAGAATGT
912888 TGTATCGATACAAAGAATGT
1 TGTATCGATACAAAGAATGT
912908 TGTATCGATA
1 TGTATCGATA
912918 TATCCGGGTT
Statistics
Matches: 88, Mismatches: 0, Indels: 42
0.68 0.00 0.32
Matches are distributed among these distances:
13 33 0.38
16 6 0.07
17 6 0.07
20 43 0.49
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAGAATGT
Found at i:912818 original size:33 final size:33
Alignment explanation
Indices: 912776--912917 Score: 284
Period size: 33 Copynumber: 4.3 Consensus size: 33
912766 TAGTAACCCA
912776 TGTATCGATACAATGTATCGATACAAAGAATGT
1 TGTATCGATACAATGTATCGATACAAAGAATGT
912809 TGTATCGATACAATGTATCGATACAAAGAATGT
1 TGTATCGATACAATGTATCGATACAAAGAATGT
912842 TGTATCGATACAATGTATCGATACAAAGAATGT
1 TGTATCGATACAATGTATCGATACAAAGAATGT
912875 TGTATCGATACAATGTATCGATACAAAGAATGT
1 TGTATCGATACAATGTATCGATACAAAGAATGT
912908 TGTATCGATA
1 TGTATCGATA
912918 TATCCGGGTT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 109 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAAGAATGT
Found at i:916774 original size:21 final size:20
Alignment explanation
Indices: 916736--916778 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
916726 GAATCATGCA
916736 AATTCTTGTTTTTCTTAGCT
1 AATTCTTGTTTTTCTTAGCT
916756 AATTCATT-TTTTTCATTAGCT
1 AATTC-TTGTTTTTC-TTAGCT
916777 AA
1 AA
916779 CTTTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (20 bp):
AATTCTTGTTTTTCTTAGCT
Found at i:919030 original size:33 final size:33
Alignment explanation
Indices: 918991--919058 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
918981 CGTTACAAGT
* *
918991 AATGTATCGATACAAT-TCATCATGTATCGATAC
1 AATGTATCAATACAATGT-ACCATGTATCGATAC
*
919024 AATGTATCAATGCAATGTACCATGTATCGATAC
1 AATGTATCAATACAATGTACCATGTATCGATAC
919057 AA
1 AA
919059 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (33 bp):
AATGTATCAATACAATGTACCATGTATCGATAC
Found at i:919112 original size:20 final size:20
Alignment explanation
Indices: 919087--919141 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
919077 CTGTTAGTTT
**
919087 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
919107 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
919126 CATGTATAGATACAAT
1 CATGTATCGATACAAT
919142 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:924034 original size:19 final size:20
Alignment explanation
Indices: 924010--924064 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
924000 TATCGATATA
924010 ATGTATCGATACAAAACT-T
1 ATGTATCGATACAAAACTGT
**
924029 ATGTATCGATACATTTACTGT
1 ATGTATCGATACA-AAACTGT
*
924050 TTGTATCGATACAAA
1 ATGTATCGATACAAA
924065 CTATAGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAAAACTGT
Found at i:927007 original size:23 final size:23
Alignment explanation
Indices: 926970--927018 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
926960 ATGACTCAAT
*
926970 TTTAAGATAATTTTAATTTTATA
1 TTTAAGATAAATTTAATTTTATA
* *
926993 TTTAAGTTAAATTTAATTTTGTA
1 TTTAAGATAAATTTAATTTTATA
927016 TTT
1 TTT
927019 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTAAGATAAATTTAATTTTATA
Found at i:927185 original size:7 final size:7
Alignment explanation
Indices: 927173--927200 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
927163 GTGCATTGCG
927173 ATTATTA
1 ATTATTA
927180 ATTATTA
1 ATTATTA
927187 ATTATTA
1 ATTATTA
927194 ATTATTA
1 ATTATTA
927201 TTGGCTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATTA
Found at i:927323 original size:9 final size:9
Alignment explanation
Indices: 927311--927343 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
927301 TAGTTTTTAA
927311 TTTTTTTTC
1 TTTTTTTTC
927320 TTTTTTTTC
1 TTTTTTTTC
927329 TTTTTCTTT-
1 TTTTT-TTTC
927338 TTTTTT
1 TTTTTT
927344 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.04
9 19 0.83
10 3 0.13
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:927348 original size:15 final size:14
Alignment explanation
Indices: 927311--927348 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
927301 TAGTTTTTAA
927311 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
927325 TTTCTTTTTCTTTTT
1 TTT-TTTTTCTTTTT
927340 TTTTATTTT
1 TTTT-TTTT
927349 TTTATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:929219 original size:10 final size:10
Alignment explanation
Indices: 929204--929228 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
929194 AATCAAGAAA
929204 TTATTTTTTT
1 TTATTTTTTT
929214 TTATTTTTTT
1 TTATTTTTTT
929224 TTATT
1 TTATT
929229 AACAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:931403 original size:19 final size:19
Alignment explanation
Indices: 931379--931453 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
931369 TGTATCCATA
*
931379 CATTGTATCGGTACATGTT
1 CATTGTATCGATACATGTT
* **
931398 CATTGTATTGATACATACT
1 CATTGTATCGATACATGTT
931417 CAATTGTATCGATACATGTT
1 C-ATTGTATCGATACATGTT
931437 CATTGTATCGATACATG
1 CATTGTATCGATACATG
931454 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:932690 original size:34 final size:35
Alignment explanation
Indices: 932652--932718 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
932642 CCTTACAACA
932652 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
932686 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
932719 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:933432 original size:53 final size:53
Alignment explanation
Indices: 933368--933504 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
933358 CTACTTCTAA
933368 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
933421 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
933474 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
933505 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:933610 original size:21 final size:21
Alignment explanation
Indices: 933584--933624 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
933574 GTCAACCTTG
933584 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
933605 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
933625 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:935453 original size:18 final size:18
Alignment explanation
Indices: 935394--935446 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 18
935384 TTTTATTATC
935394 TAATTATTATGACAATTA
1 TAATTATTATGACAATTA
*
935412 TAACATTATAATGACAATTA
1 T-A-ATTATTATGACAATTA
935432 TAATTATTATGACAA
1 TAATTATTATGACAA
935447 ATTTAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 16 0.52
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (18 bp):
TAATTATTATGACAATTA
Found at i:938953 original size:19 final size:20
Alignment explanation
Indices: 938919--938956 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
938909 AATTGCATAT
938919 AAATTATAATTCTTTTAAAA
1 AAATTATAATTCTTTTAAAA
*
938939 AAATTATCA-TCTTTTAAA
1 AAATTATAATTCTTTTAAA
938957 TTAAGAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATAATTCTTTTAAAA
Found at i:940422 original size:19 final size:20
Alignment explanation
Indices: 940388--940425 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
940378 AATTGCATAT
940388 AAATTATAATTCTTTTAAAA
1 AAATTATAATTCTTTTAAAA
*
940408 AAATTATCA-TCTTTTAAA
1 AAATTATAATTCTTTTAAA
940426 TTAAGAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATAATTCTTTTAAAA
Found at i:945010 original size:19 final size:18
Alignment explanation
Indices: 944986--945028 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
944976 GTAATTAAAA
944986 ATATTATATTATAATTTAT
1 ATATTATATTAT-ATTTAT
*
945005 ATATTATATTATTTTTAT
1 ATATTATATTATATTTAT
945023 AT-TTAT
1 ATATTAT
945029 TAAATGTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTATATTATATTTAT
Found at i:945552 original size:70 final size:70
Alignment explanation
Indices: 945471--945612 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
945461 TAATCATATC
*
945471 TTTCTAATGTTTTAAAAAAAATCATGCCTATAAAAATATTTTACTTTTCCACAGCATGTTTTAAC
1 TTTCTAATGTTTTAAAAAAAATCATGCCTATAAAAATATTTTACTTTCCCACAGCATGTTTTAAC
945536 AAGTA
66 AAGTA
*
945541 TTTCTAATGTTTTAAAAAAAATCATGTCTATAAAAATATTTTACTTTCCCACAGCATGTTTTAAC
1 TTTCTAATGTTTTAAAAAAAATCATGCCTATAAAAATATTTTACTTTCCCACAGCATGTTTTAAC
945606 AAGTA
66 AAGTA
945611 TT
1 TT
945613 CAAGAATATC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (70 bp):
TTTCTAATGTTTTAAAAAAAATCATGCCTATAAAAATATTTTACTTTCCCACAGCATGTTTTAAC
AAGTA
Found at i:945765 original size:12 final size:12
Alignment explanation
Indices: 945741--945778 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
945731 TGTTATTTTA
945741 AAAATACATAAAT
1 AAAATA-ATAAAT
945754 AAATATAA-AAAT
1 AAA-ATAATAAAT
945766 AAAATAATAAAT
1 AAAATAATAAAT
945778 A
1 A
945779 TAAAATGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.17
12 12 0.52
13 4 0.17
14 3 0.13
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:945831 original size:22 final size:20
Alignment explanation
Indices: 945800--945843 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
945790 ATATAAATAT
*
945800 TAATTTATATAAGTATTATTAA
1 TAATTAATATAAGTA--ATTAA
945822 TAATTAATATAAGTAATTAA
1 TAATTAATATAAGTAATTAA
945842 TA
1 TA
945844 CATATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAATTAATATAAGTAATTAA
Found at i:945838 original size:13 final size:13
Alignment explanation
Indices: 945800--945843 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
945790 ATATAAATAT
*
945800 TAATTTATATAAG
1 TAATTAATATAAG
945813 T-ATT-AT-TAA-
1 TAATTAATATAAG
945822 TAATTAATATAAG
1 TAATTAATATAAG
945835 TAATTAATA
1 TAATTAATA
945844 CATATATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.04
10 6 0.22
11 4 0.15
12 6 0.22
13 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TAATTAATATAAG
Found at i:950062 original size:49 final size:49
Alignment explanation
Indices: 950003--950099 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
949993 AAAGGCTAAG
*
950003 TTTTGTGTGTTCAAGCTGATTGGGGATTAGGAAAAGATCACTTGAATTA
1 TTTTCTGTGTTCAAGCTGATTGGGGATTAGGAAAAGATCACTTGAATTA
*
950052 TTTTCTGTGTTTAAGCTGATTGGGGATTAGGAAAAGATCACTTGAATT
1 TTTTCTGTGTTCAAGCTGATTGGGGATTAGGAAAAGATCACTTGAATT
950100 GTTTAGGAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (49 bp):
TTTTCTGTGTTCAAGCTGATTGGGGATTAGGAAAAGATCACTTGAATTA
Found at i:951616 original size:35 final size:35
Alignment explanation
Indices: 951577--951684 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
951567 GTTTAAACTC
951577 ATTCTACTCATAATACTACTAATTATTTTATGAGA
1 ATTCTACTCATAATACTACTAATTATTTTATGAGA
* * * * * * * **
951612 ATTCT-TTCATAGTGTCTAATAATAAGTTTA-AACTC
1 ATTCTACTCATAAT-ACTACTAATTATTTTATGA-GA
951647 ATTCTACTCATAATACTACTAATTATTTTATGAGA
1 ATTCTACTCATAATACTACTAATTATTTTATGAGA
951682 ATT
1 ATT
951685 TTTTGTTACA
Statistics
Matches: 51, Mismatches: 18, Indels: 8
0.66 0.23 0.10
Matches are distributed among these distances:
34 7 0.14
35 37 0.73
36 7 0.14
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (35 bp):
ATTCTACTCATAATACTACTAATTATTTTATGAGA
Found at i:951624 original size:70 final size:70
Alignment explanation
Indices: 951543--951684 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
951533 AATGTTGGGT
951543 TTCTTTCATAGTGTCTAATAATAAGTTTAAACTCATTCTACTCATAATACTACTAATTATTTTAT
1 TTCTTTCATAGTGTCTAATAATAAGTTTAAACTCATTCTACTCATAATACTACTAATTATTTTAT
951608 GAGAA
66 GAGAA
951613 TTCTTTCATAGTGTCTAATAATAAGTTTAAACTCATTCTACTCATAATACTACTAATTATTTTAT
1 TTCTTTCATAGTGTCTAATAATAAGTTTAAACTCATTCTACTCATAATACTACTAATTATTTTAT
951678 GAGAA
66 GAGAA
951683 TT
1 TT
951685 TTTTGTTACA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (70 bp):
TTCTTTCATAGTGTCTAATAATAAGTTTAAACTCATTCTACTCATAATACTACTAATTATTTTAT
GAGAA
Found at i:953302 original size:78 final size:77
Alignment explanation
Indices: 953220--953472 Score: 244
Period size: 78 Copynumber: 3.3 Consensus size: 77
953210 TTATTAGTGT
* * *
953220 CATTTAAGTAATATTACATTAATACTGAGTCTTTAGGTTCATGTGAGAACTTTCATGTTCATGCA
1 CATTTAGGTAATATTACATTAATACTGAGTCTTTAGGCTCATGTGAGAACTTTCATGTTCATACA
* *
953285 TGTCCATTATAAG
66 TGTCTATTA-AGG
* * ** *
953298 CATTTAGGTAATATTATATGAA-ACCAAGTCTTAAGGCT-ATGT-AGGAACTTTCATG-TCAATA
1 CATTTAGGTAATATTACATTAATACTGAGTCTTTAGGCTCATGTGA-GAACTTTCATGTTC-ATA
*
953359 CATATCTATTAAGG
64 CATGTCTATTAAGG
* * * * * * * * *
953373 TTATTTAGGTAATATTGCATTAATAATGAGTCCTTAGGGTCATGTGGGAACTTTTATATTAATAC
1 -CATTTAGGTAATATTACATTAATACTGAGTCTTTAGGCTCATGTGAGAACTTTCATGTTCATAC
953438 ATGTCTATTAAGG
65 ATGTCTATTAAGG
* *
953451 TATTTAGGTGATATTACATTAA
1 CATTTAGGTAATATTACATTAA
953473 AATCGAGTCT
Statistics
Matches: 140, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
75 5 0.04
76 44 0.31
77 42 0.30
78 48 0.34
79 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (77 bp):
CATTTAGGTAATATTACATTAATACTGAGTCTTTAGGCTCATGTGAGAACTTTCATGTTCATACA
TGTCTATTAAGG
Found at i:953517 original size:77 final size:78
Alignment explanation
Indices: 953204--953534 Score: 238
Period size: 78 Copynumber: 4.3 Consensus size: 78
953194 TCATATTGAA
* * * * *
953204 ACATGTTTATT-AGTGTCATTTAAGTAATATTACATTAATACTGAGT-CTTTAGGTTCATGTGAG
1 ACATGTCTATTAAG-GT-ATTTAGGTAATATTACATTAATAATGAGTCCTTAAGG-TCATGTGGG
953267 AAC-TTTCATGTTC-AT
63 AACTTTTCATG-TCAAT
* * * * * * *** *
953282 GCATGTCCATTATAAGCATTTAGGTAATATTATATGAA-ACCAAGT-CTTAAGG-CTATGTAGGA
1 ACATGTCTATTA-AGGTATTTAGGTAATATTACATTAATAATGAGTCCTTAAGGTC-ATGTGGGA
953344 AC-TTTCATGTCAAT
64 ACTTTTCATGTCAAT
* * *
953358 ACATATCTATTAAGGTTATTTAGGTAATATTGCATTAATAATGAGTCCTTAGGGTCATGTGGGAA
1 ACATGTCTATTAAGG-TATTTAGGTAATATTACATTAATAATGAGTCCTTAAGGTCATGTGGGAA
* *
953423 CTTTT-ATATTAAT
65 CTTTTCATGTCAAT
* *
953436 ACATGTCTATTAAGGTATTTAGGTGATATTACATTAA-AATCGAGT-CTATAAGGTCAT-TTGGA
1 ACATGTCTATTAAGGTATTTAGGTAATATTACATTAATAAT-GAGTCCT-TAAGGTCATGTGGGA
* *
953498 TA-TTTTCATGTCGAC
64 -ACTTTTCATGTCAAT
* *
953513 ACATGTCTTTTAGAGTTATTTA
1 ACATGTCTATTA-AGGTATTTA
953535 CATAACATCA
Statistics
Matches: 200, Mismatches: 39, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
75 5 0.03
76 57 0.28
77 63 0.31
78 69 0.34
79 5 0.03
80 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (78 bp):
ACATGTCTATTAAGGTATTTAGGTAATATTACATTAATAATGAGTCCTTAAGGTCATGTGGGAAC
TTTTCATGTCAAT
Found at i:955160 original size:20 final size:20
Alignment explanation
Indices: 955132--955173 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
955122 TGCATTCTGC
*
955132 TAAGGAAATGTATTGATACA
1 TAAGGAAATGTATCGATACA
*
955152 TAAGTAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
955172 TA
1 TA
955174 TGTATCGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (20 bp):
TAAGGAAATGTATCGATACA
Found at i:955178 original size:14 final size:14
Alignment explanation
Indices: 955159--955186 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
955149 ACATAAGTAA
955159 ATGTATCGATACAT
1 ATGTATCGATACAT
955173 ATGTATCGATACAT
1 ATGTATCGATACAT
955187 GCTTACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:956940 original size:13 final size:13
Alignment explanation
Indices: 956919--956956 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
956909 ATATTGCTTG
*
956919 GTATTGATACATT
1 GTATCGATACATT
956932 GTATCGATACATT
1 GTATCGATACATT
956945 GTATCGATACAT
1 GTATCGATACAT
956957 GTTCTTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:957111 original size:20 final size:20
Alignment explanation
Indices: 957086--957123 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
957076 AAATGGTTGT
*
957086 AATTGTATCGATATATTATG
1 AATTGTATCGATACATTATG
957106 AATTGTATCGATACATTA
1 AATTGTATCGATACATTA
957124 AGTCCAACGG
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:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (20 bp):
AATTGTATCGATACATTATG
Found at i:958320 original size:3 final size:3
Alignment explanation
Indices: 958314--958356 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
958304 CAAGTTGTTG
958314 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
958357 TAATTAACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:958767 original size:29 final size:28
Alignment explanation
Indices: 958735--958794 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
958725 GCACTTTAGG
*
958735 TAGAAATTCTTTAGAATAGA-TACTTTTGA
1 TAGAAATTCCTT--AATAGAGTACTTTTGA
*
958764 TAGAGATTCCTTAATAGAGGTACTTTTGA
1 TAGAAATTCCTTAATAGA-GTACTTTTGA
958793 TA
1 TA
958795 AAGGTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
29 21 0.78
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (28 bp):
TAGAAATTCCTTAATAGAGTACTTTTGA
Found at i:958807 original size:14 final size:15
Alignment explanation
Indices: 958781--958810 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
958771 TCCTTAATAG
958781 AGGTACTTTTGATAA
1 AGGTACTTTTGATAA
958796 AGGTAC-TTTGATAA
1 AGGTACTTTTGATAA
958810 A
1 A
958811 AATATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (15 bp):
AGGTACTTTTGATAA
Found at i:960861 original size:20 final size:20
Alignment explanation
Indices: 960838--960912 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
960828 AAATATCGAG
960838 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
960858 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
960878 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
960898 ATGTATCGATACATT
1 ATGTATCGATACATT
960913 CTATCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:962772 original size:10 final size:10
Alignment explanation
Indices: 962757--962790 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
962747 CCACTAGGAA
962757 AAAGATTTTT
1 AAAGATTTTT
962767 AAAGATTTTT
1 AAAGATTTTT
*
962777 GAAATATTTTT
1 -AAAGATTTTT
962788 AAA
1 AAA
962791 ATGATCCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
AAAGATTTTT
Found at i:963325 original size:19 final size:19
Alignment explanation
Indices: 963301--963361 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
963291 TTTTGAATTT
963301 CAAACAATTTGTATCGATA
1 CAAACAATTTGTATCGATA
**
963320 CAAACAGTAAATGTATCGATA
1 CAAACA--ATTTGTATCGATA
* *
963341 CATA-AGTGTTGTATCGATA
1 CAAACAAT-TTGTATCGATA
963360 CA
1 CA
963362 TAAGTTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
CAAACAATTTGTATCGATA
Found at i:963362 original size:19 final size:19
Alignment explanation
Indices: 963331--963378 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
963321 AAACAGTAAA
963331 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
963350 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
963369 TGTATCGATA
1 TGTATCGATA
963379 TAATGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:963431 original size:21 final size:21
Alignment explanation
Indices: 963405--963446 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
963395 AGCTACTGCC
963405 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
963426 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
963447 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:963451 original size:13 final size:13
Alignment explanation
Indices: 963433--963458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
963423 ATTAAGGAAA
963433 TGTATCGATACAT
1 TGTATCGATACAT
963446 TGTATCGATACAT
1 TGTATCGATACAT
963459 CGATCTTTGT
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:966019 original size:103 final size:101
Alignment explanation
Indices: 965797--966026 Score: 284
Period size: 103 Copynumber: 2.2 Consensus size: 101
965787 GTTTCTCAAT
* *** *
965797 TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTTGAAACACCAATTTTTCACAATTGGG
1 TTTTCACAATCGGGGATACTCCAACGCCGATTTTATTTCAAAAACACCAATTTTTCACAATCGGG
*
965862 GATACTCTAACCCCAGTTTTATTTTCAAAACACCAA
66 GATACTCCAACCCCAGTTTTATTTTCAAAACACCAA
* *
965898 TTTTCTATAATCGAGGATACTCCAACGCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCG
1 TTTTC-ACAATCGGGGATACTCCAACGCCGATTTTATTT-CAAAAACACCAATTTTTCACAATCG
* ***
965963 GGGATACTCCAACCCC-GATTTTA-TTTCTAAAATATTGA
64 GGGATACTCCAACCCCAG-TTTTATTTTC-AAAACACCAA
*
966001 TTTCTCACAATTGGGGATACTCCAAC
1 TTT-TCACAATCGGGGATACTCCAAC
966027 CCCGTTATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
101 5 0.05
102 35 0.32
103 67 0.61
104 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (101 bp):
TTTTCACAATCGGGGATACTCCAACGCCGATTTTATTTCAAAAACACCAATTTTTCACAATCGGG
GATACTCCAACCCCAGTTTTATTTTCAAAACACCAA
Found at i:966029 original size:51 final size:51
Alignment explanation
Indices: 965793--966030 Score: 284
Period size: 51 Copynumber: 4.6 Consensus size: 51
965783 TTAAGTTTCT
* * *
965793 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTTGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* *
965844 CAATTTTTCACAATTGGGGATACTCTAACCCC-AGTTTTATTT-TCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGA-TTTTATTTCT-AAAACAC
* * * *
965895 CAA-TTTTCTATAATCGAGGATACTCCAACGCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACAC
* *
965947 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAATAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
** * *
965998 TGATTTCTCACAATTGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
966031 TTATTTCCGA
Statistics
Matches: 160, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
50 7 0.04
51 107 0.67
52 41 0.26
53 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:966097 original size:79 final size:79
Alignment explanation
Indices: 965962--966145 Score: 305
Period size: 79 Copynumber: 2.3 Consensus size: 79
965952 TTTCACAATC
* ** *
965962 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAAA
*
966027 CCCGTTATTTCCGA
66 CCCGTTATTTCCAA
*
966041 GGGGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAAA
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAAA
*
966106 CCTGTTATTTCCAA
66 CCCGTTATTTCCAA
966120 GGGGATACTCCAACCCCGATTTTATT
1 GGGGATACTCCAACCCCGATTTTATT
966146 TCCAGAACAC
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 97 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAAA
CCCGTTATTTCCAA
Found at i:966180 original size:79 final size:79
Alignment explanation
Indices: 965962--966182 Score: 286
Period size: 79 Copynumber: 2.8 Consensus size: 79
965952 TTTCACAATC
* *
965962 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAAT-TGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCTCACAATCAGGGG-TACTCCAA
* *
966026 CCCCGTTATTTCCGA
65 ACCCGTTATTTCCAA
* *
966041 GGGGATACTCCAACCCCGGTTTTA-TTCCTAAAATATTGATTTCTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATATTGATTTCTCACAATCAGGGGTACTCCAA
*
966105 ACCTGTTATTTCCAA
65 ACCCGTTATTTCCAA
* * ** *
966120 GGGGATACTCCAACCCCGATTTTATTTCCAGAACACCGATTT-TCCATAATCAGGGGTACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCT-CACAATCAGGGGTACTCCA
966183 GCCCGGTGTT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.03
79 113 0.91
80 7 0.06
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCTCACAATCAGGGGTACTCCAAA
CCCGTTATTTCCAA
Found at i:968313 original size:22 final size:21
Alignment explanation
Indices: 968283--968327 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
968273 TGGATGAAGA
**
968283 TTTTTGAATTTTTTTAAAATT
1 TTTTTGAATGGTTTTAAAATT
*
968304 TTTTTAGAATGGTTTTAATATT
1 TTTTT-GAATGGTTTTAAAATT
968326 TT
1 TT
968328 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTTTGAATGGTTTTAAAATT
Found at i:968649 original size:25 final size:20
Alignment explanation
Indices: 968598--968644 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
968588 AATTATATGG
968598 TTGTTTTCATATTATTTTTT
1 TTGTTTTCATATTATTTTTT
968618 TTGTTTTCATATTATTTTTT
1 TTGTTTTCATATTATTTTTT
968638 TTGTTTT
1 TTGTTTT
968645 GTTTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (20 bp):
TTGTTTTCATATTATTTTTT
Found at i:969576 original size:10 final size:10
Alignment explanation
Indices: 969561--969620 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
969551 TCATACATAA
969561 AATTTAAAAT
1 AATTTAAAAT
969571 AATTTAAAAT
1 AATTTAAAAT
*
969581 AA-TTATAACT
1 AATTTA-AAAT
* **
969591 CAATATAATTT
1 -AATTTAAAAT
969602 AATTTAAAAT
1 AATTTAAAAT
*
969612 TATTTAAAA
1 AATTTAAAA
969621 GGAAGGTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 3 0.08
10 30 0.77
11 4 0.10
12 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:971998 original size:23 final size:22
Alignment explanation
Indices: 971953--972025 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
971943 AATATACGTG
*
971953 ATTATAT-TATATTTATATATTTA
1 ATTATATATAT-TTTAT-TTTTTA
971976 ATTGATATATATTTTATTTTTTAA
1 ATT-ATATATATTTTATTTTTT-A
* * *
972000 AATATCTATATTTTATTTTATA
1 ATTATATATATTTTATTTTTTA
972022 ATTA
1 ATTA
972026 AACATATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 4 0.10
23 23 0.55
24 12 0.29
25 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTATATATATTTTATTTTTTA
Found at i:977056 original size:20 final size:22
Alignment explanation
Indices: 977027--977068 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
977017 CTACAGCAAT
977027 AATTTATGTAA-AAGA-TAATA
1 AATTTATGTAATAAGAGTAATA
*
977047 AATTTTTGTAATAAGAGTAATA
1 AATTTATGTAATAAGAGTAATA
977069 TAAATTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (22 bp):
AATTTATGTAATAAGAGTAATA
Found at i:978726 original size:17 final size:17
Alignment explanation
Indices: 978700--978734 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
978690 TATTTGGGCC
978700 TCTAAAATATGCCTAAT
1 TCTAAAATATGCCTAAT
* *
978717 TCTAATATATGTCTAAT
1 TCTAAAATATGCCTAAT
978734 T
1 T
978735 GGGTTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (17 bp):
TCTAAAATATGCCTAAT
Found at i:982064 original size:155 final size:155
Alignment explanation
Indices: 981880--982185 Score: 355
Period size: 155 Copynumber: 2.0 Consensus size: 155
981870 TATTTTCATG
* * * ** * *
981880 TCCTTTAGAGTCACCGAGATGCTTTCAAGATGAAGGTAATTTTTAAGGGTATTTTGATAATTTTA
1 TCCTTTAGAGTCACCAAGATACTTTCAAGATGAAAGTAATCCTTAAAGGCATTTTGATAATTTT-
** * * *
981945 CTAT-AATTAAGTCTGATGTAGTCACAAAGAAACTTTTATGCCAAAGATATGCATTTAAGATAGG
65 CTATAAACCAAGTCTAATATAATCACAAAGAAACTTTTATGCCAAAGATATGCATTTAAGATAGG
982009 TTCACACTTTTATTATCATTTTTGAA
130 TTCACACTTTTATTATCATTTTTGAA
*
982035 TCCTTTA-AGGTCACCAAGATACTTTCAAGATGAAAGTAATCCTTAAAGGCATTTTGGTAATTTT
1 TCCTTTAGA-GTCACCAAGATACTTTCAAGATGAAAGTAATCCTTAAAGGCATTTTGATAATTTT
* * * ** * * * * *
982099 TTTTAAACCAAGTCTAATATAATCACCAAGATGCTTTTATGCCGAAGGTGTGCATTTAGGATGGG
65 CTATAAACCAAGTCTAATATAATCACAAAGAAACTTTTATGCCAAAGATATGCATTTAAGATAGG
* *
982164 TTTACCCTTTTATTATCATTTT
130 TTCACACTTTTATTATCATTTT
982186 CGAGTCTTTT
Statistics
Matches: 124, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
154 3 0.02
155 121 0.98
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (155 bp):
TCCTTTAGAGTCACCAAGATACTTTCAAGATGAAAGTAATCCTTAAAGGCATTTTGATAATTTTC
TATAAACCAAGTCTAATATAATCACAAAGAAACTTTTATGCCAAAGATATGCATTTAAGATAGGT
TCACACTTTTATTATCATTTTTGAA
Found at i:983590 original size:154 final size:155
Alignment explanation
Indices: 983298--983628 Score: 398
Period size: 154 Copynumber: 2.1 Consensus size: 155
983288 GTAAAAATGT
* ** * * * *
983298 CATTTT-TTATCATTTTCAAGTCCTTTAGGATCATCGGGATGCTTTCAAAATGAAGGTAATCTTT
1 CATTTTATTATCATTTTCGAGTCCTTTAGGATCATCAAGATGCTTTCAAAACGAAAGCAATCCTT
* * *
983362 AAAGGTATTTTGGTAATTTTACTATAACCAAGTTTGATGTAGTCACAAAGAAGCTTTTATACCAA
66 AAAGGCATTTTGGTAATTTTACTATAACCAAGTCTAATGTAGTCACAAAGAAGCTTTTATACCAA
*
983427 AGATGTGCATTTAGGATAGGTTTAC
131 AGATATGCATTTAGGATAGGTTTAC
* * * *
983452 CATTTTATTATCATTTTCGAGTCCTTTAGGGTCATCAAGATGTTTTCAATACGAAAGCAGTCCTT
1 CATTTTATTATCATTTTCGAGTCCTTTAGGATCATCAAGATGCTTTCAAAACGAAAGCAATCCTT
* * * * ** *
983517 AAGGGCATTTTGGTAAATTTTTC-A-AATCGAGTCTAATGTAGTCACCGAGATGCTTTTATACCA
66 AAAGGCATTTTGGT-AATTTTACTATAACCAAGTCTAATGTAGTCACAAAGAAGCTTTTATACCA
* * *
983580 AAGGTATGCATTTGGGATGGGTTTAC
130 AAGATATGCATTTAGGATAGGTTTAC
*
983606 CCTTTTATTATCATTTTCGAGTC
1 CATTTTATTATCATTTTCGAGTC
983629 TTTTGAGGTT
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
154 82 0.55
155 60 0.40
156 7 0.05
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (155 bp):
CATTTTATTATCATTTTCGAGTCCTTTAGGATCATCAAGATGCTTTCAAAACGAAAGCAATCCTT
AAAGGCATTTTGGTAATTTTACTATAACCAAGTCTAATGTAGTCACAAAGAAGCTTTTATACCAA
AGATATGCATTTAGGATAGGTTTAC
Found at i:983681 original size:154 final size:154
Alignment explanation
Indices: 983366--983844 Score: 445
Period size: 154 Copynumber: 3.1 Consensus size: 154
983356 ATCTTTAAAG
* * ** ** * * *
983366 GTATTTTGGTAATTTTACTATAACCAAGTTTGATGTAGTCACAAAGAAGCTTTTATACCAAAGAT
1 GTATTTTGGTAATTTTTCTAAAACTGAGTTCAATGTAGTCACCAAGATGCTTTTATACCAAAGGT
* * * * **
983431 GTGCATTTAGGATAGGTTTACCATTTTATTATCATTTTCGAGTCCTTTAGGGTCATCAAGATGTT
66 GTGCATTTAGGATAGGTTTACCCTTTTATTATCATTTTCGAGTCTTTTAGGGTTACCAAGATAAT
* * * *
983496 TTCAATACGAA-AGCA-GTCCTTAAGG
131 TTC-ATTCGAAGA-TATATCC-TAAGA
* * *
983521 GCATTTTGGTAAATTTTTC-AAATC-GAG-TCTAATGTAGTCACCGAGATGCTTTTATACCAAAG
1 GTATTTTGGT-AATTTTTCTAAAACTGAGTTC-AATGTAGTCACCAAGATGCTTTTATACCAAAG
* * * *
983583 GTATGCATTTGGGATGGGTTTACCCTTTTATTATCATTTTCGAGTCTTTT-GAGGTTACCGAGAT
64 GTGTGCATTTAGGATAGGTTTACCCTTTTATTATCATTTTCGAGTCTTTTAG-GGTTACCAAGAT
*
983647 AATTTCATGTTGAAGATATATCCTAAGA
128 AATTTCAT-TCGAAGATATATCCTAAGA
* * **
983675 GTATTTTGGTAA-TTTTCTAAAACTGAGTTCGATGTAGTCATCAAGATGCTTTTATGTCAACA-G
1 GTATTTTGGTAATTTTTCTAAAACTGAGTTCAATGTAGTCACCAAGATGCTTTTATACCAA-AGG
* * ** *
983738 TGTGCATTTAGGATAGGTTCA-CCTGTTTATAATTGTTTTCAAGTCTTTTAGGGTTACCAAGATA
65 TGTGCATTTAGGATAGGTTTACCCT-TTTATTATCATTTTCGAGTCTTTTAGGGTTACCAAGATA
* * *
983802 CTTTCTTCTCGAAGGTATATCCTAAGA
129 ATTTCAT-TCGAAGATATATCCTAAGA
*
983829 GTATTTTTGTAATTTT
1 GTATTTTGGTAATTTT
983845 GCACAAGAAT
Statistics
Matches: 263, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
152 5 0.02
153 13 0.05
154 215 0.82
155 23 0.09
156 7 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (154 bp):
GTATTTTGGTAATTTTTCTAAAACTGAGTTCAATGTAGTCACCAAGATGCTTTTATACCAAAGGT
GTGCATTTAGGATAGGTTTACCCTTTTATTATCATTTTCGAGTCTTTTAGGGTTACCAAGATAAT
TTCATTCGAAGATATATCCTAAGA
Found at i:999293 original size:27 final size:27
Alignment explanation
Indices: 999255--999309 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
999245 AAGTATCCTG
999255 TATTCTGCTGCATTTAATATTTAATGC
1 TATTCTGCTGCATTTAATATTTAATGC
999282 TATTCTGCTGCATTTAATATTTAATGC
1 TATTCTGCTGCATTTAATATTTAATGC
999309 T
1 T
999310 CAGTGATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (27 bp):
TATTCTGCTGCATTTAATATTTAATGC
Found at i:999634 original size:33 final size:33
Alignment explanation
Indices: 999597--999713 Score: 147
Period size: 33 Copynumber: 3.7 Consensus size: 33
999587 CCTATACCGA
999597 TTCTGGTCCCTGACTTTACATATTATTGATTTC
1 TTCTGGTCCCTGACTTTACATATTATTGATTTC
* * * *
999630 TTCTGGCCCCTGACTTTGCTTATTATTGATTTT
1 TTCTGGTCCCTGACTTTACATATTATTGATTTC
999663 TTCTGGTCCCTGAC--T---TA-TATTGATTTC
1 TTCTGGTCCCTGACTTTACATATTATTGATTTC
*
999690 TTCTGGTCCTTGACTTTACATATT
1 TTCTGGTCCCTGACTTTACATATT
999714 CTTTTCATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
27 22 0.31
28 2 0.03
29 1 0.01
31 1 0.01
32 2 0.03
33 43 0.61
ACGTcount: A:0.15, C:0.21, G:0.14, T:0.50
Consensus pattern (33 bp):
TTCTGGTCCCTGACTTTACATATTATTGATTTC
Found at i:999687 original size:27 final size:28
Alignment explanation
Indices: 999617--999705 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 28
999607 TGACTTTACA
*
999617 TATTATTGATTTCTTCTGGCCCCTGACTTTGCT
1 TATTATTGATTTCTTCTGGTCCCTGA-----CT
*
999650 TATTATTGATTTTTTCTGGTCCCTGACT
1 TATTATTGATTTCTTCTGGTCCCTGACT
*
999678 TA-TATTGATTTCTTCTGGTCCTTGACT
1 TATTATTGATTTCTTCTGGTCCCTGACT
999705 T
1 T
999706 TACATATTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
27 24 0.46
28 4 0.08
33 24 0.46
ACGTcount: A:0.13, C:0.20, G:0.15, T:0.52
Consensus pattern (28 bp):
TATTATTGATTTCTTCTGGTCCCTGACT
Found at i:1005432 original size:79 final size:78
Alignment explanation
Indices: 1005273--1005660 Score: 327
Period size: 79 Copynumber: 4.9 Consensus size: 78
1005263 TGGAGATGAC
* ** *
1005273 AACGGGGCTGGAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTAT-CCCTGATTATGGAAAATCGAAGTT-TAGAAATAAAATCGAGGTTGGAG
*
1005338 TATCCCTTC-AGAAAT
64 TATCCCCTCGA-AAAT
** * *
1005353 AACAAGGTTGGAGCATCCCTGATTATAGG-AAATCGACGTTTAGAAAATAAAATCGAGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTAT-GGAAAATCGAAGTTTAG-AAATAAAATCGAGGTTGGAG
1005417 TATCCCCTCGAAAAT
64 TATCCCCTCGAAAAT
* * * ** *
1005432 AATGGGGTTGGAGTATCCCCGATTGTGGAAAATCGAAGCTTTAGAAAT-AAGGCCAGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGGAAAATCGAAG-TTTAGAAATAAAATCGA-GGTTGGAG
* *
1005496 TATCCCCGCCAAAAT
64 TATCCCCTCGAAAAT
* * * * * ** *
1005511 AACGGGGTTAGAGTATCCCTAATTGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGGA-AAATCGA-AGTTTAGAAATAAAATCGAGGTTGGAG
*
1005575 TATCCCCTCGGAAAT
64 TATCCCCTCGAAAAT
* * * * * * * * *
1005590 AATGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAA-CTGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCTGATTATGGAAAATCGAAG-TTTAGAAATAAAATC-GAGGTTGGAG
1005654 TATCCCC
64 TATCCCC
1005661 GAGATGAAAA
Statistics
Matches: 250, Mismatches: 46, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
78 12 0.05
79 212 0.85
80 26 0.10
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCTGATTATGGAAAATCGAAGTTTAGAAATAAAATCGAGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:1005649 original size:158 final size:159
Alignment explanation
Indices: 1005281--1005661 Score: 430
Period size: 158 Copynumber: 2.4 Consensus size: 159
1005271 ACAACGGGGC
* *
1005281 TGGAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGAAATAAAA-TCGGGGTTGGAGTAT-CCC
1 TGGAGTATCCCC-GATTATGGAAAATCGATGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCC
** * * * * *
1005344 TTCAGAAATAACAAGGTTGGAGCATCCCTGATTATAGGAAATCGACGTTTAGAAAATAAAATCGA
64 GCCAGAAATAACAAGGTTAGAGCATCCCTAATTATAGGAAATCAAAGTTTAGAAAATAAAACCGA
*
1005409 GGTTGGAGTATCCCCTCGAAAATAATGGGGT
129 GGTTGGAGTATCCCCTCGAAAATAATGGGAT
* * * ** **
1005440 TGGAGTATCCCCGATTGTGGAAAATCGAAGCTTTAGAAATAAGGCCAGGGTTGGAGTATCCCCGC
1 TGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGC
** * * * * *
1005505 CA-AAATAACGGGGTTAGAGTATCCCTAATTGT-GAGAAATCAATATTTTAG-AAATAAAGCCGG
66 CAGAAATAACAAGGTTAGAGCATCCCTAATTATAG-GAAATCAA-AGTTTAGAAAATAAAACCGA
*
1005567 GGTTGGAGTATCCCCTCGGAAATAATGGGAT
129 GGTTGGAGTATCCCCTCGAAAATAATGGGAT
* * * *
1005598 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCG
1 TGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCG
1005662 AGATGAAAAA
Statistics
Matches: 182, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
157 1 0.01
158 159 0.87
159 22 0.12
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (159 bp):
TGGAGTATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGC
CAGAAATAACAAGGTTAGAGCATCCCTAATTATAGGAAATCAAAGTTTAGAAAATAAAACCGAGG
TTGGAGTATCCCCTCGAAAATAATGGGAT
Found at i:1005687 original size:50 final size:50
Alignment explanation
Indices: 1005600--1005723 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
1005590 AATGGGATTG
* ** * * **
1005600 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTGGGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
* *
1005651 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCCAGGGTTG
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
*
1005701 GAGTATCCCTGAGATGAAAAATC
1 GAGTATCCCCGAGATGAAAAATC
1005724 TAGAAATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
Found at i:1008030 original size:13 final size:13
Alignment explanation
Indices: 1008012--1008041 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1008002 AAAATGCTTG
1008012 AATGTATCGATAC
1 AATGTATCGATAC
1008025 AATGTATCGATAC
1 AATGTATCGATAC
1008038 AATG
1 AATG
1008042 AACAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1008056 original size:20 final size:20
Alignment explanation
Indices: 1008023--1008099 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
1008013 ATGTATCGAT
1008023 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* * *
1008043 ACAATTTATTGATACAGTGA
1 ACAATGTATCGATACAATGA
1008063 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
1008083 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
1008100 AATTGTGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1008782 original size:41 final size:41
Alignment explanation
Indices: 1008735--1008824 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
1008725 GGACTAAGGA
1008735 AAAAAGGAAA-TGAAATGCA-TCTTGCCCTT-TGAAGACAAAAG
1 AAAAAGGAAATTG-AATG-AGTCTTG-CCTTCTGAAGACAAAAG
* * *
1008776 AAAAAGGAAATTGAATGAGTCTTGCTTTCTGAGGACAAAGG
1 AAAAAGGAAATTGAATGAGTCTTGCCTTCTGAAGACAAAAG
1008817 AAAAAGGA
1 AAAAAGGA
1008825 GAATAAAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 4 0.09
41 37 0.86
42 2 0.05
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAAGGAAATTGAATGAGTCTTGCCTTCTGAAGACAAAAG
Found at i:1008901 original size:88 final size:85
Alignment explanation
Indices: 1008776--1008991 Score: 229
Period size: 86 Copynumber: 2.5 Consensus size: 85
1008766 AAGACAAAAG
* * * * ** *
1008776 AAAAAGGAAATTGAATGAGTCTTGCT-TTCTGAGGACAAAGGAAAAAGGAGAATAAAGTGCGTCC
1 AAAAAGGAAA-TGAATGTGTCCTGCTCTT-TGAGGACAAAGGAAAAAAGA-AAAAAAAAGCATCC
* * **
1008840 TGCTCTTT-GAGAATTAGAAGGGAA
63 TACTCTTTAAAG-ACCA-AAGGGAA
1008864 AAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAAGCATCCTA
1 AAAAAGGAAATGAA-TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAAGCATCCTA
*
1008929 TTCTTTAAAGACCAAAGGGAA
65 CTCTTTAAAGACCAAAGGGAA
* *
1008950 AAGAAGGAAATGAAATGTGTCCTGCTCTTTAAGGACAAAGGA
1 AAAAAGGAAATG-AATGTGTCCTGCTCTTTGAGGACAAAGGA
1008992 GAGAAGGAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
86 44 0.40
87 24 0.22
88 40 0.36
89 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.21
Consensus pattern (85 bp):
AAAAAGGAAATGAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAAGCATCCTAC
TCTTTAAAGACCAAAGGGAA
Found at i:1009201 original size:61 final size:61
Alignment explanation
Indices: 1008995--1009418 Score: 438
Period size: 61 Copynumber: 7.1 Consensus size: 61
1008985 CAAAGGAGAG
* * *** * *
1008995 AAGGAAAAGGCGTCCTGCTTTTTGAAGACCAAAAAGTGCCACCAACTCGTGTGGGATTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * *
1009057 AA-GAAAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTG-CACCAACTTGTGTGGGCTTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * *
1009117 AA-GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACTAACTTGTGTGGTCTTTAA
1 AAGGA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1009177 AAGGAAAAGGCGTCCTGCTTTTTGAGGACTAGAAAAGTGACACCAAATTTTGTGGGCTTTGA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1009239 AAGGAAAAGACGTCATGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1009300 AAGGAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT--
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * ** * * *
1009358 ---G-AAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCATTAACTGGTGTGAGCTTTGA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
1009415 AAGG
1 AAGG
1009419 CATCCTGCTC
Statistics
Matches: 305, Mismatches: 46, Indels: 24
0.81 0.12 0.06
Matches are distributed among these distances:
54 23 0.08
55 22 0.07
60 86 0.28
61 123 0.40
62 51 0.17
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1009278 original size:123 final size:120
Alignment explanation
Indices: 1008995--1009443 Score: 485
Period size: 123 Copynumber: 3.8 Consensus size: 120
1008985 CAAAGGAGAG
* *** * *
1008995 AAGGAAAAGGCGTCCTGCTTTTTGAAGACCAAAAAGTGCCACCAACTCGTGTGGGATTTGAAAA-
1 AAGGAAAA-GCGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
*
1009059 GAAAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCACCAACTTGTGTGGGCTTTGA
64 GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCACCAACTTGTGTGGGCTTTGA
* * * * * *
1009116 AAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACTAACTTGTGTGGTCTTTAAAAGG
1 AAGGA-AAAGCGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
1009181 AAAAGGCGTCCTGCTTTTTGAGGACTAGAAAAGTGACACCAAATTTTGTGGGCTTTGA
65 AAAAGGCGTCCTGCTCTTTGAGGACTAG-AAGGTG-CACCAACTTGTGTGGGCTTTGA
*
1009239 AAGGAAAAGACGTCATGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAG-CGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
1009304 AAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTGA
65 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTG-CACCAACTTGTGTGGGCTTTGA
* * * ** * *
1009360 AA-G----GCGTCCTGCTCTTTGAGGATTGGAAAATGCCATTAACTGGTGTGAGCTTT-----G-
1 AAGGAAAAGCGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
1009414 AAAGGCATCCTGCTCTTTGAGGACTA-AAGG
66 AAAGGCGTCCTGCTCTTTGAGGACTAGAAGG
1009444 GTGAAAGAAA
Statistics
Matches: 283, Mismatches: 39, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
109 29 0.10
110 1 0.00
115 41 0.14
116 1 0.00
120 5 0.02
121 96 0.34
122 13 0.05
123 97 0.34
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (120 bp):
AAGGAAAAGCGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
AAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCACCAACTTGTGTGGGCTTTGA
Found at i:1009418 original size:55 final size:54
Alignment explanation
Indices: 1009254--1009438 Score: 181
Period size: 55 Copynumber: 3.3 Consensus size: 54
1009244 AAAGACGTCA
* * * *
1009254 TGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTGGTGTGAGCTTT-----G-AAAGGCATCC
** * * * *
1009315 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTGGTGTGAGCTTTGAAAGGCATCC
* **
1009369 TGCTCTTTGAGGATTGGAAAATGCCATTAACTGGTGTGAGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTGGTGTGAGCTTTGAAAGGCATCC
1009424 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
1009439 AAAGGGTGAA
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
54 23 0.21
55 46 0.42
60 26 0.24
61 14 0.13
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (54 bp):
TGCTCTTTGAGGACTGAAAATGCCACCAACTGGTGTGAGCTTTGAAAGGCATCC
Found at i:1011372 original size:24 final size:24
Alignment explanation
Indices: 1011334--1011379 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1011324 TGTATCGATG
*
1011334 CATGAACAGTAATGAATAGTGATA
1 CATGAACAGTAATGAACAGTGATA
* *
1011358 CATGAATAGTGATGAACAGTGA
1 CATGAACAGTAATGAACAGTGA
1011380 AAATGAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
CATGAACAGTAATGAACAGTGATA
Found at i:1012656 original size:13 final size:13
Alignment explanation
Indices: 1012638--1012694 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1012628 TTCAATGATT
1012638 TGTATCGATACAA
1 TGTATCGATACAA
1012651 TGTATCGATACATAA
1 TGTATCGATAC--AA
1012666 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1012683 TGTATCGATACA
1 TGTATCGATACA
1012695 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1012675 original size:19 final size:18
Alignment explanation
Indices: 1012651--1012713 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1012641 ATCGATACAA
1012651 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1012670 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1012683 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1012702 TGTATCGATACA
1 TGTATCGATACA
1012714 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1012678 original size:32 final size:32
Alignment explanation
Indices: 1012637--1012721 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
1012627 TTTCAATGAT
1012637 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1012669 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1012701 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1012722 CTATGAAGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1012784 original size:13 final size:13
Alignment explanation
Indices: 1012766--1012790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1012756 ATTACTCAAA
1012766 TGTATCGATACAT
1 TGTATCGATACAT
1012779 TGTATCGATACA
1 TGTATCGATACA
1012791 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:1015769 original size:25 final size:26
Alignment explanation
Indices: 1015740--1015791 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
1015730 TAATTTTTGG
1015740 TTGAA-AACGGGGTTGGAGTGTCCCC
1 TTGAAGAACGGGGTTGGAGTGTCCCC
*
1015765 TTGAAGGAATGGGGTTGGAGTGTCCCC
1 TTGAA-GAACGGGGTTGGAGTGTCCCC
1015792 GGTGAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.21
27 19 0.79
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.25
Consensus pattern (26 bp):
TTGAAGAACGGGGTTGGAGTGTCCCC
Found at i:1017287 original size:13 final size:13
Alignment explanation
Indices: 1017269--1017293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1017259 CATAAAATAT
1017269 TGTATCGATACAA
1 TGTATCGATACAA
1017282 TGTATCGATACA
1 TGTATCGATACA
1017294 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:1017291 original size:33 final size:33
Alignment explanation
Indices: 1017249--1017318 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1017239 TTCAATGATT
1017249 TGTATCGATACATAAAATATTGTATCGATACAA
1 TGTATCGATACATAAAATATTGTATCGATACAA
*** *
1017282 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATATTGTATCGATACAA
1017315 TGTA
1 TGTA
1017319 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATATTGTATCGATACAA
Found at i:1017375 original size:13 final size:13
Alignment explanation
Indices: 1017357--1017381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1017347 ATTACTCACA
1017357 TGTATCGATACAT
1 TGTATCGATACAT
1017370 TGTATCGATACA
1 TGTATCGATACA
1017382 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:1017518 original size:52 final size:52
Alignment explanation
Indices: 1017390--1017510 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1017380 CACTGATCTT
*
1017390 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1017442 TGTATCGATACATGCAGGCGAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1017494 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1017511 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1021671 original size:52 final size:52
Alignment explanation
Indices: 1021525--1021653 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1021515 CGAAATATGA
*
1021525 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
1021577 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1021629 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1021654 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1021680 original size:13 final size:13
Alignment explanation
Indices: 1021662--1021686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1021652 CAAAGATCAG
1021662 TGTATCGATACAA
1 TGTATCGATACAA
1021675 TGTATCGATACA
1 TGTATCGATACA
1021687 TTTGAGCAAT
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
Done.